+ 2056 12.5 3.5 0.0 UnnamedSequence 73 360 (21610) + AluSx SINE/Alu 1 298 (14) 1
ANNOTATION EVIDENCE:
2056 12.50 3.47 0.00 UnnamedSequence 73 360 21542 + AluSx SINE/Alu 1 298 14
2056 12.50 3.47 0.00 UnnamedSequence 73 360 (21542) AluSx#SINE/Alu 1 298 (14) c_b1s352i0
UnnamedSequen 73 GGCTGGGCGTGGTGGCTCACACCTGTAATTCCAGCACTTTGGGAGGGTAA 122
i i i i vii
AluSx#SINE/Al 1 GGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGA 50
UnnamedSequen 123 GGTAGACAGATCACTTGAG--------TTCAAGACCAACCTGGCCAACAT 164
ii i i i -------- i i
AluSx#SINE/Al 51 GGCGGGCGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACAT 100
UnnamedSequen 165 GATGAAACC--GTCTCTACTAAGGATACAAAAATTAGCCAGGCATGGTGG 212
i -- ii i i
AluSx#SINE/Al 101 GGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGG 150
UnnamedSequen 213 TGCGCACCTGTAGTCCCAGCTACTTGGGAGGCTGATGTGGGAGAATCACT 262
i i i i v ii i
AluSx#SINE/Al 151 CGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCT 200
UnnamedSequen 263 TGAACCCGGGAGGCAGAGGTTGCAGTGAGCCAAGATCACACCACTGCACT 312
i i i i
AluSx#SINE/Al 201 TGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACT 250
UnnamedSequen 313 ACAGCCTGGTCGACAGAGGGAGACTCTGTCTCAAAAAAAAAAAAGAAA 360
v v v i i
AluSx#SINE/Al 251 CCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAA 298
Matrix = 14p47g.matrix
Kimura (with divCpGMod) = 7.20
Transitions / transversions = 6.20 (31/5)
Gap_init rate = 0.01 (2 / 287), avg. gap size = 5.00 (10 / 2)
+ 18 18.8 1.9 3.9 UnnamedSequence 841 893 (21077) + (TTCTCC)n Simple_repeat 1 52 (0) 2
ANNOTATION EVIDENCE:
18 18.81 1.89 3.85 UnnamedSequence 841 893 17472 + (TTCTCC)n Simple_repeat 1 52 0
18 18.81 1.89 3.85 UnnamedSequence 841 893 (17472) (TTCTCC)n#Simple_repeat 1 52 (0) m_b1s252i0
UnnamedSequen 841 TTCCCCTTCTCCTCCTTCTCCTCCTCACACCTTCCCCTTTCTCTTTCT-C 889
i i i i -v v i - i -
(TTCTCC)n#Sim 1 TTCTCCTTCTCCTTCTCCTTCTCCT-TCTCCTTCTCC-TTCTCCTTCTCC 48
UnnamedSequen 890 TTCT 893
(TTCTCC)n#Sim 49 TTCT 52
Matrix = Unknown
Transitions / transversions = 3.00 (6/2)
Gap_init rate = 0.06 (3 / 52), avg. gap size = 1.00 (3 / 3)
+ 399 29.9 3.4 11.7 UnnamedSequence 1029 1297 (20673) C MIRb SINE/MIR (7) 261 13 3
ANNOTATION EVIDENCE:
399 29.87 3.35 11.65 UnnamedSequence 1029 1297 17068 C MIRb SINE/MIR 13 261 7
399 29.87 3.35 11.65 UnnamedSequence 1029 1297 (17068) C MIRb#SINE/MIR (7) 261 13 m_b1s601i0
UnnamedSequen 1029 GAGCCAGCATTTCTGAAGC-CCCACTCTGTGCCAGGCACTATGCTGGGCG 1077
i v v vi - ii v i ii
C MIRb#SINE/MIR 261 GAGCTACCATTTATTGAGCGCTTACTATGTGCCAGGCACTGTGCTAAGCG 212
UnnamedSequen 1078 CGTCGC-TGCTCTATATTATGGATTACGATGATAGATTACAGGTGCAATT 1126
v ii - vi v i --- ----- vv- i ---------
C MIRb#SINE/MIR 211 CTTTACATGCATTATCTCAT---TTA-----ATCC-TCACA--------- 180
UnnamedSequen 1127 GATACAATATTCCAAGGTGGCCTTCATT-TGCTCCTCTTGCCCATGAGGA 1175
--- ivi v i i viv i - v i v i i vv
C MIRb#SINE/MIR 179 ---ACAACCCTGCGAGGTAGGTATTATTATCCCCATTTTACAGATGAGGA 133
UnnamedSequen 1176 ACACTGAG-CTCTGAGAGGTGGAGTGACTTTCCCAAGGTCAGGTGGCTAG 1224
- - v vi i v viii
C MIRb#SINE/MIR 132 A-ACTGAGGCTCAGAGAGGTTAAGTAACTTGCCCAAGGTCACACAGCTAG 84
UnnamedSequen 1225 GAAAAAAGGAGAAAACCCCATTGC---TCCACCTCTGCCAAACTGCCCAA 1271
v--- iv iv i i vviv v ---i vv i vi --
C MIRb#SINE/MIR 83 T---AAGTGGCAGAGCCGGGATTCGAACCCAGGTCTGTCTGACT--CCAA 39
UnnamedSequen 1272 A--CCATGCTGAGCTCCCTCTACACCAC 1297
-- i --vi i v i
C MIRb#SINE/MIR 38 AGCCCGTGCT--CTTTCCACTGCACCAC 13
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 36.96
Transitions / transversions = 1.15 (38/33)
Gap_init rate = 0.13 (35 / 268), avg. gap size = 1.09 (38 / 35)
+ 422 30.3 12.4 4.0 UnnamedSequence 1579 1901 (20069) C L2a LINE/L2 (2) 3424 3076 4
ANNOTATION EVIDENCE:
422 30.32 12.38 4.01 UnnamedSequence 1579 1901 16464 C L2a_3end LINE/L2 167 515 2
422 30.32 12.38 4.01 UnnamedSequence 1579 1901 (16464) C L2a_3end#LINE/L2 (2) 515 167 m_b1s601i1
UnnamedSequen 1579 TCATGCATTCAACAGGTTCTTTTTTTTTTATTGAG----TATAATGTGCC 1624
v ii v-------- ---- iv
C L2a_3end#LINE 515 TCATTCATTCAACAAATA--------TTTATTGAGCGCCTACTATGTGCC 474
UnnamedSequen 1625 AGGTACTATTCTAGGTGGTAGACATATA--AG-GAACGAA------CAAA 1665
i i i v i iv i -- - i ------v
C L2a_3end#LINE 473 AGGCACTGTTCTAGGCGCTGGGGATACAGCAGTGAACAAAACAGACAAAA 424
UnnamedSequen 1666 TTTTCTGCCCCCATGGTGCTTACAATCTAGC---------------ATAG 1700
v ii i v v i--------------- i
C L2a_3end#LINE 423 GTCCCTGCCCTCATGGAGCTTACATTCTAGTGGGGGGAGACAGACAATAA 374
UnnamedSequen 1701 GCAAGTGAAAAGGGGATATACATAA-AT-TCAGA-GGTGCATGGAATAAT 1747
i i i v i vi v i i- - - - -i i iv
C L2a_3end#LINE 373 ACAAATAAATAAGTAAAATATATAGTATGTCAGATGGTG-AT-AAGTGCT 326
UnnamedSequen 1748 -TTCAG-ATAATGGAGCATGCTGTAGTGCCAAGATAGTGACAAAGAGGGG 1795
- vv - v ii v -- iv --ii v vvi?vi
C L2a_3end#LINE 325 ATGGAGAAAAATAAAGCAGG--GTAAGG--GGGATAGGGAGTGNTGGGGG 280
UnnamedSequen 1796 AAAG-----ACTCCTTCAGCTACAGCAATCAGAGAA-GTCACTTTGAGGA 1839
?i -----i ?vi i iv vi iii i - i v ?i i
C L2a_3end#LINE 279 NGAGGGTGTGCNATTTTAAATAGGGTGGTCAGGGAAGGCCTCNCTGAGAA 230
UnnamedSequen 1840 GGTGAAA-CTGAGACAAGACCTGACTGAAGAAAAAGGGAGCGTCACCCAA 1888
v -i vv vv i vi ii i v v i iv ii
C L2a_3end#LINE 229 GGTGACATTTGAGCAAAGACCTGAAGGAGGTGAGGGAGCGAGCCATGCGG 180
UnnamedSequen 1889 AGGTCTGAGGAAA 1901
vi i i
C L2a_3end#LINE 179 ATATCTGGGGGAA 167
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 40.06
Transitions / transversions = 1.61 (58/36)
Gap_init rate = 0.08 (27 / 322), avg. gap size = 2.00 (54 / 27)
+ 700 13.7 27.9 1.1 UnnamedSequence 1904 2041 (19929) + AluJb SINE/Alu 111 285 (27) 5
ANNOTATION EVIDENCE:
700 13.73 27.86 1.13 UnnamedSequence 1904 2041 16418 + AluJb SINE/Alu 111 285 27
700 13.73 27.86 1.13 UnnamedSequence 1904 2041 (16418) AluJb#SINE/Alu 111 285 (27) m_b1s357i0
UnnamedSequen 1904 CATTTCCACAAAAA-TATCAAAGTATTAGTTGGGTGTGGTGGCGTCCACC 1952
i i i - iv -- ii i iv i
AluJb#SINE/Al 111 CGTCTCTACAAAAAATACAAAA--ATTAGCCGGGCGTGGTGGCGCGCGCC 158
UnnamedSequen 1953 TGTAGTCCCAGCTACTCAGGAGG--------------------------- 1975
i ---------------------------
AluJb#SINE/Al 159 TGTAGTCCCAGCTACTCGGGAGGCTGAGGCGGGAGGATCGCTTGAGCCCG 208
UnnamedSequen 1976 -----------CTGCAGTGAGCTATGATCGCACCACTGTACTCCAGCCTG 2014
----------- ii i i
AluJb#SINE/Al 209 GGAGGTCGAGGCTGCAGTGAGCCGTGATCGCGCCACTGCACTCCAGCCTG 258
UnnamedSequen 2015 GGCAACAGAGTGAGACCCTATCTCAAA 2041
i i i
AluJb#SINE/Al 259 GGCGACAGAGCGAGACCCTGTCTCAAA 285
Matrix = 18p47g.matrix
Kimura (with divCpGMod) = 7.70
Transitions / transversions = 8.50 (17/2)
Gap_init rate = 0.04 (5 / 137), avg. gap size = 8.20 (41 / 5)
+ 546 7.8 0.0 5.6 UnnamedSequence 2042 2136 (19834) + L1PA6 LINE/L1 6065 6154 (0) 6
ANNOTATION EVIDENCE:
546 7.80 0.00 5.56 UnnamedSequence 2042 2136 16323 + L1PA6_3end LINE/L1 812 901 0
546 7.80 0.00 5.56 UnnamedSequence 2042 2136 (16323) L1PA6_3end#LINE/L1 812 901 (0) c_b1s451i0
UnnamedSequen 2042 AAACCAAAACACATGTATACATGCATACATATGTAAGAAACCTGCACGTT 2091
---- -ii i v v
L1PA6_3end#LI 812 AAACCAA----CATG-GCACATGTATACCTATGTAACAAACCTGCACGTT 856
UnnamedSequen 2092 GTGCACATGTACCCTAGAACTTAAAGTATAATTAAAAAAAAAAGA 2136
v i
L1PA6_3end#LI 857 GTGCACATGTACCCTAGAACTTAAAGTATAATAAAAAAAAAAAAA 901
Matrix = 18p47g.matrix
Kimura (with divCpGMod) = 8.24
Transitions / transversions = 1.33 (4/3)
Gap_init rate = 0.05 (5 / 94), avg. gap size = 1.00 (5 / 5)
+ 185 34.8 11.4 0.5 UnnamedSequence 2221 2396 (19574) C L2a LINE/L2 (808) 2611 2417 4
ANNOTATION EVIDENCE:
185 34.84 11.36 0.51 UnnamedSequence 2221 2396 16063 C L2 LINE/L2 2417 2611 471
185 34.84 11.36 0.51 UnnamedSequence 2221 2396 (16063) C L2#LINE/L2 (471) 2611 2417 m_b1s601i2
UnnamedSequen 2221 CTTATAGGATGGCTGTGGCAAATG---GAGAGGAAAAAGTCAAAGATGAC 2267
v i iv v vivi --- i ii ii i
C L2#LINE/L2 2611 CTGATGGATTGGATGTGGGGTGTGAGAGAAAGAGAGGAGTCAAGGATGAC 2562
UnnamedSequen 2268 ---AGTATTTTCAAATTTGAGTGACTGGAAGAA--GAAT-ACTAA-AATT 2310
--- ivi iii-ii ii i -- i -i i v-? i
C L2#LINE/L2 2561 TCCAAGGTTTTTGG-CCTGAGCAACTGGAAGGATGGAGTTGCCATTNACT 2513
UnnamedSequen 2311 AACATAAGTAAG-----GTAAGGATATTGTTTCAGGAGGA---T--GGAG 2350
i v ii v ----- vi vvvv v i --- --
C L2#LINE/L2 2512 GAGATGGGGAAGACTGCGGGAGGAGCAGGTTTGAGGGGGAAGATCAGGAG 2463
UnnamedSequen 2351 TGTGGCTTTAGACATGTTTGGTTTTAATTATGTATCAAGCAATCAA 2396
vi i i vi v iv iiv i ii vi
C L2#LINE/L2 2462 TTCGGTTTTGGACATGTTAAGTTTGAGATGCCTATTAGACATCCAA 2417
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 49.12
Transitions / transversions = 1.90 (40/21)
Gap_init rate = 0.05 (9 / 175), avg. gap size = 2.33 (21 / 9)
+ 324 33.8 9.5 4.2 UnnamedSequence 2843 3179 (18791) C L2 LINE/L2 (500) 2919 2566 7
ANNOTATION EVIDENCE:
324 33.77 9.50 4.24 UnnamedSequence 2843 3179 15280 C L2 LINE/L2 2566 2919 163
324 33.77 9.50 4.24 UnnamedSequence 2843 3179 (15280) C L2#LINE/L2 (163) 2919 2566 m_b1s601i3
UnnamedSequen 2843 GGTCATG-AAGACCTTGTATACCAACCCAAGGAACTTGAACTTTAACCCT 2891
i - i i vi vivi - vii v i
C L2#LINE/L2 2919 GATCATGTAGGGCCTTGTAGGCCATTGTAAGGA-CTTTGGCTTTTACTCT 2871
UnnamedSequen 2892 A--TAAGATAAGAAAAGCTATTGGGCCTAGGAT-----GCAAGGCAGAAA 2934
i-- i ii -- i ---- i ----- ii v vi
C L2#LINE/L2 2870 GAGTGAGATGGGAA--GCCATTGG----AGGGTTTTGAGCAGAGGAGTGA 2827
UnnamedSequen 2935 CAAGAT--------------AGAAAGCTCACTCTGAGGGAGGAGGTG-GA 2969
v -------------- i i v ivv vv v v -
C L2#LINE/L2 2826 CATGATCTGACTTACGTTTTAAAAGGATCACTCTGGCTGCTGTGTTGAGA 2777
UnnamedSequen 2970 GT----TGCAAGGAC-CAAGGTTAGAGACACGAACACTC-TTAGGAAGCC 3013
i ---- ? i iv- v i ii v i v iv- i i
C L2#LINE/L2 2776 ATAGACTGNAGGGGGGCAAGGGTGGAAGCAGGGAGACCAGTTAGGAGGCT 2727
UnnamedSequen 3014 ATTGCAATCGTCCTTGGGGAAGAGGTGATGAGGACTTGATTTAAAGCAGC 3063
i vi --i vi i iv i ivii ii ii i
C L2#LINE/L2 2726 ATTGCAGTAATCC--AGGCGAGAGATGATGGTGGCTTGGACCAGGGTGGT 2679
UnnamedSequen 3064 TGCATGTGGA--TAGAAAGGAG-GGAGAGTTTCTAGAGATATAAAGAAAG 3110
v - -- i vi i - vvi v i v vvv i
C L2#LINE/L2 2678 GGCA-GTGGAGGTGGTGAGAAGTGGTCGGATTCTGGATATATTTTGAAGG 2630
UnnamedSequen 3111 TAAAAGAGGTAAGACTTAATGGCCCATGGTAAGTGGGGTGAGCGACGTGG 3160
i ivv ii i i iv iivv v v v v v ----
C L2#LINE/L2 2629 TAGAGCCGACAGGATTTGCTGATGGATTGGATGTGGGGTGTGAGA----G 2584
UnnamedSequen 3161 AAGGAGAGAGATACCAGGA 3179
i iii - v
C L2#LINE/L2 2583 AAAGAGAGGAGT-CAAGGA 2566
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 45.85
Transitions / transversions = 1.48 (65/44)
Gap_init rate = 0.07 (25 / 336), avg. gap size = 1.88 (47 / 25)
+ 4555 14.8 2.6 1.4 UnnamedSequence 3647 4436 (17534) + L1PB4 LINE/L1 4520 5318 (825) 8
ANNOTATION EVIDENCE:
4555 14.80 2.64 1.36 UnnamedSequence 3647 4436 14317 + L1M2_orf2 LINE/L1 2411 3209 82
4555 14.80 2.64 1.36 UnnamedSequence 3647 4436 (14317) L1M2_orf2#LINE/L1 2411 3209 (82) m_b1s551i0
UnnamedSequen 3647 CATGGACTGGAAGAATTAATATCATTAAAACGACCATACTTCCCAAAGCA 3696
i ii i ? v i
L1M2_orf2#LIN 2411 CATGGATTGGAAGAATTAATATTGTTAAAATGNCCATACTACCCAAAGCG 2460
UnnamedSequen 3697 ATCTACAGATTCAATGCAATCCCTATCAAAATACCAACATCATTTTCCAG 3746
iiv i i v
L1M2_orf2#LIN 2461 ATCTACAGATTCAATGCAATCCCTATCAAAATACCAATGACATTCTTCAC 2510
UnnamedSequen 3747 AGAATTAGAAAAAA-AATCCTAAAATTTATATGAAACTAAAAAAGGGCCC 3795
v - ii i i v iv
L1M2_orf2#LIN 2511 AGAAATAGAAAAAANAATCCTAAAATTCGTATGGAACCACAAAAGACCCC 2560
UnnamedSequen 3796 AAATAGCCAAAGCAATCCTAAGCAAAAAGAACAAAGCCAGAGGCATCACA 3845
i i ii
L1M2_orf2#LIN 2561 GAATAGCCAAAGCAATCCTGAGCAAAAAGAACAAAGCTGGAGGCATCACA 2610
UnnamedSequen 3846 TTATCTGATTTCAAATTATATTACAAGGCTATAGTAGCCGAAACAACATG 3895
i i i v i i i i i
L1M2_orf2#LIN 2611 CTACCTGACTTCAAAATATACTACAAAGCTATAGTAACCAAAACAGCATG 2660
UnnamedSequen 3896 GTACTGGTATAAAAAACAGACTCACAGATCAGTGGAACAGGGTGGAGAAC 3945
i - v i i i ii i
L1M2_orf2#LIN 2661 GTACTGGCATAAAAA-CAGACACATAGACCAATGGAACAGAATAGAGAAC 2709
UnnamedSequen 3946 TCAGAAATAAGGCCACATATTTACAGCCAACCGATTTTTGACAAAACTGA 3995
i iv ii i i ivi v
L1M2_orf2#LIN 2710 CCAGAAATAAATCCACGCATTTACAGCCAACTGATTTTCGACAAAGGCGC 2759
UnnamedSequen 3996 CAAGAACATACGTTGGGGAAAAGACGCTTTTTTCAACAAATGGTGCTGGG 4045
i? i iv i i i
L1M2_orf2#LIN 2760 CAAGAACATACANTGGGGAAAGGACAGTCTCTTCAATAAATGGTGCTGGG 2809
UnnamedSequen 4046 AAAACT---TCTGCCATGTGCAGAAGAATGAAAC--GACCCCTGTCTCTC 4090
--- v - i -- i
L1M2_orf2#LIN 2810 AAAACTGGATAT-CCATATGCAGAAGAATGAAACTAGACCCCTATCTCTC 2858
UnnamedSequen 4091 ATCATATACAAAAATCAATTCAAGATGGATTAAAGACTTAAATGTAAGAC 4140
i i i
L1M2_orf2#LIN 2859 ACCATATACAAAAATCAACTCAAAATGGATTAAAGACTTAAATGTAAGAC 2908
UnnamedSequen 4141 TCACAACTATAAAAATACTAGAAGGAAACCTAGAGAAAACTCTCCTGAAC 4190
i iv v i v i i v i v i
L1M2_orf2#LIN 2909 CCGAAACTATAAAACTACTAGAAGAAAACATAGGGGAAACGCTTCAGGAC 2958
UnnamedSequen 4191 ATTAGTCTAGGTAAATAATTTATGACTAAGACCTCAAAAACACAGGCAAC 4240
i i i v v v i? i
L1M2_orf2#LIN 2959 ATTGGTCTGGGCAAAGATTTTTTGGNTAAGACCTCAAAAGCACAGGCAAC 3008
UnnamedSequen 4241 AAAATGAAAAATAGACAAATGGGAC----TTAAACTAAAAAGATCCTGCA 4286
vv i---- i v i
L1M2_orf2#LIN 3009 AAAAGCAAAAATAGACAAATGGGATTACATCAAACTAAAAAGCTTCTGCA 3058
UnnamedSequen 4287 CGGGAAAAGAAATAATCAAACAGAAT----AAACAACTTGTAGAATGGGA 4332
i v i i - i ---- i i ii
L1M2_orf2#LIN 3059 CAGCAAAGGAAACAATC-AACAGAGTGAAGAGACAACCTACAGAATGGGA 3107
UnnamedSequen 4333 GAAAATATTTGCAAACTATTCATTCAACAGGGGACTCATATGTAGCATAT 4382
? iii i i v vi v
L1M2_orf2#LIN 3108 GAAAATATTTGCAAACTATNCATCTGACAAGGGATTAATATCCAGAATAT 3157
UnnamedSequen 4383 ACAAAGAACTCAAACAACTCAACGACAG------AAACAATCCCATTAAA 4426
i i ii i------ i v ?
L1M2_orf2#LIN 3158 ATAAGGAACTCAAACAACTCAACAGCAAAAAAACAAATAATCCGATTNAA 3207
UnnamedSequen 4427 AAGTGGGCAA 4436
--------
L1M2_orf2#LIN 3208 AA-------- 3209
Matrix = 20p47g.matrix
Kimura (with divCpGMod) = 16.02
Transitions / transversions = 3.00 (87/29)
Gap_init rate = 0.02 (17 / 789), avg. gap size = 1.82 (31 / 17)
+ 1962 16.9 0.3 0.0 UnnamedSequence 4437 4731 (17239) + AluJb SINE/Alu 2 297 (15) 9
ANNOTATION EVIDENCE:
1962 16.95 0.34 0.00 UnnamedSequence 4437 4731 17171 + AluJb SINE/Alu 2 297 15
1962 16.95 0.34 0.00 UnnamedSequence 4437 4731 (17171) AluJb#SINE/Alu 2 297 (15) c_b1s352i1
UnnamedSequen 4437 GCCAGGCATGGTGGCTCATGCCTAAAATCCCAGCACTTTGAGAGGTCAAG 4486
i ii i iv i i i
AluJb#SINE/Al 2 GCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAG 51
UnnamedSequen 4487 GCAGGAGGATTGCTTAAGTTCCAGGGTTCGAGACCAACCTGGGCAAAAGA 4536
i ? i i ii vi i i v vi
AluJb#SINE/Al 52 GCGGGNGGATCGCTTGAGCCCAGGAGTTCGAGACCAGCCTGGGCAACATG 101
UnnamedSequen 4537 GTGAAACCTTGTCTCTATAAAAAA-ACAAAAATTAGCCAGGTGTGGTGGC 4585
i ii i - i i
AluJb#SINE/Al 102 GCGAAACCCCGTCTCTACAAAAAATACAAAAATTAGCCGGGCGTGGTGGC 151
UnnamedSequen 4586 ATATGCCTGTAGTCTCAGCTACTCAGGAGGCTGAGGTGGGAGAATTGCTT 4635
iiii i i i i i
AluJb#SINE/Al 152 GCGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCGGGAGGATCGCTT 201
UnnamedSequen 4636 GAGCCCAGGAGGTCAAGGCTACCATGAGCCATGATCAAACCACTGCACTC 4685
i i i vi i ivi
AluJb#SINE/Al 202 GAGCCCGGGAGGTCGAGGCTGCAGTGAGCCGTGATCGCGCCACTGCACTC 251
UnnamedSequen 4686 CAGCGTGGGCAACAAAGCAAGACCCTTTCTCAAAAAAAAAAAAAAA 4731
v i i i v
AluJb#SINE/Al 252 CAGCCTGGGCGACAGAGCGAGACCCTGTCTCAAAAAAAAAAAAAAA 297
Matrix = 14p47g.matrix
Kimura (with divCpGMod) = 10.43
Transitions / transversions = 5.25 (42/8)
Gap_init rate = 0.00 (1 / 294), avg. gap size = 1.00 (1 / 1)
+ 4555 15.9 2.5 2.9 UnnamedSequence 4732 5374 (16596) + L1PB4 LINE/L1 5319 5974 (182) 8
ANNOTATION EVIDENCE:
4389 16.05 2.43 3.11 UnnamedSequence 4732 5374 13659 + L1PB4_3end LINE/L1 77 721 182
4389 16.05 2.43 3.11 UnnamedSequence 4732 5374 (13659) L1PB4_3end#LINE/L1 77 721 (182) m_b1s551i1
UnnamedSequen 4732 GTGGGCAAAGGACATAAATAGTCATTTTT--AAAGAAGATATATAAATGG 4779
-------- i i v -- i i ii
L1PB4_3end#LI 77 --------AGGACATGAACAGACATTTTTCAAAAGAAGACATACAAGCGG 118
UnnamedSequen 4780 TCAACAGTTACATGAAAAA-TGTTCAACATCACTGATTAT-AGAGAAATG 4827
i ivi i - i i i -
L1PB4_3end#LI 119 CCAACAAACATATGAAAAAATGCTCAACATCACTAATCATCAGAGAAATG 168
UnnamedSequen 4828 CAAATTTAAACCACAATGAAATATCATCTCACCCCAATCAGAATATCTGT 4877
v i i i v i iv i
L1PB4_3end#LI 169 CAAATTAAAACCACAATGAGATACCATCTTACACCAGTCAGAATGGCTAT 218
UnnamedSequen 4878 TATTAAAAAGGCAATAAACAACAAATGTTGGTGATGATGCAGAAAAAAGG 4927
v v i i v i i
L1PB4_3end#LI 219 TATTAAAAAGTCAAAAAACAACAGATGTTGGCGAGGATGCGGAGAAAAGG 268
UnnamedSequen 4928 GAACTCTTATACACTGTTAGTGGGAGTGTAAATTAACATA---TCTGTGG 4974
v i i ii i --- i
L1PB4_3end#LI 269 GAACGCTTATACACTGTTGGTGGGAATGTAAATTAGTACAACCTCTATGG 318
UnnamedSequen 4975 AAAATAGTATGGCGATTTATCAAAGAAACTAAAAGTAGAACTACCATTCA 5024
i v v - i i
L1PB4_3end#LI 319 AAAACAGTATGGAGATTTCTCAAAGAA-CTAAAAATAGAACTACCATTCG 367
UnnamedSequen 5025 ATTTAGCAATCCTTCTACTGGGTATCTACCCAGAGGAAAAGAAACCATTA 5074
ii iv i i
L1PB4_3end#LI 368 ATCCAGCAATCCCACTACTGGGTATCTACCCAAAGGAAAAGAAATCATTA 417
UnnamedSequen 5075 TGTCAAAAAGACACCTGCATTC--ATGTTTATCAAAGCACTATTCACAAT 5122
i i i -- iv
L1PB4_3end#LI 418 TATCAAAAAGATACCTGCACTCGTATGTTTATCGCAGCACTATTCACAAT 467
UnnamedSequen 5123 AGCAAAGATATGGAACCAACCTAAGTGT-----AATGGATGAATGGAAAA 5167
i ----- i v v
L1PB4_3end#LI 468 AGCAAAGATATGGAATCAACCTAAGTGTCCATCAACGGATGACTGGATAA 517
UnnamedSequen 5168 AGAGAATTTGATGTATATACACAATGGCATACTATTCAGCCCTAAAAAAA 5217
i v i i v v i v -
L1PB4_3end#LI 518 AGAAAATGTGGTATATATACACCATGGAATACTACTCAGCCATAAAAAA- 566
UnnamedSequen 5218 GAATGAAATCATGTCTTTTGCAGCAACATGGTTGGAATTGGAGGTCATTA 5267
v i i
L1PB4_3end#LI 567 GAATGAAATCATGTCTTTTGCAGCAACATGGATGGAACTGGAGGCCATTA 616
UnnamedSequen 5268 TCTTAAGTCAAAAATGCCAGGGACAGAAAGTCAAATGTCACATGTTCTCA 5317
i v v vvi ii ii i
L1PB4_3end#LI 617 TCCTAAGTGAAATAACTCAGAAACAGAAAGTCAAATACCGCATGTTCTCA 666
UnnamedSequen 5318 CTCCTAAGTGGGTGTGAAAAAATGTGTACACATGGACATAAAGATTGGAA 5367
iv v iv v ? i v
L1PB4_3end#LI 667 CTTATAAGTGGGAGCTAAACAATGNGTACACATGGACATAGAGAGTGGAA 716
UnnamedSequen 5368 TAATAGG 5374
--
L1PB4_3end#LI 717 TAATA-- 721
Matrix = 20p47g.matrix
Kimura (with divCpGMod) = 17.12
Transitions / transversions = 2.03 (59/29)
Gap_init rate = 0.03 (18 / 642), avg. gap size = 1.44 (26 / 18)
4555 14.80 2.64 1.36 UnnamedSequence 4732 4810 13943 + L1M2_orf2 LINE/L1 3210 3291 0
4555 14.80 2.64 1.36 UnnamedSequence 4732 4810 (13943) L1M2_orf2#LINE/L1 3210 3291 (0) m_b1s551i0
UnnamedSequen 4732 GTGGGCAAAGGACATAAATAGTCATTTTT--AAAGAAGATATATAAATGG 4779
i v i v i -- i i
L1M2_orf2#LIN 3210 ATGGGCAAAGGACCTGAATAGACATTTCTCAAAAGAAGACATACAAATGG 3259
UnnamedSequen 4780 TCAACAGTTACATG-AAAAATGTTCAACATCA 4810
i v i - i
L1M2_orf2#LIN 3260 CCAACAGGTATATGAAAAAATGCTCAACATCA 3291
Matrix = 20p47g.matrix
Kimura (with divCpGMod) = 16.02
Transitions / transversions = 2.67 (8/3)
Gap_init rate = 0.03 (2 / 78), avg. gap size = 1.50 (3 / 2)
+ 1967 13.9 3.6 0.0 UnnamedSequence 5375 5655 (16315) + AluSx SINE/Alu 1 291 (21) 10
ANNOTATION EVIDENCE:
1967 13.88 3.56 0.00 UnnamedSequence 5375 5655 16247 + AluSx SINE/Alu 1 291 21
1967 13.88 3.56 0.00 UnnamedSequence 5375 5655 (16247) AluSx#SINE/Alu 1 291 (21) c_b1s352i2
UnnamedSequen 5375 GGCCGGGCACAGTAGCTCATGCCTGTAATCTCAGCACTTTGGGAGGCCAA 5424
i i i i i i
AluSx#SINE/Al 1 GGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGA 50
UnnamedSequen 5425 GGTGGGCAAATTACACAAGGTCAGGAGTTCAAGACCCGCCTGGTCAACAT 5474
i ii i vii i v i
AluSx#SINE/Al 51 GGCGGGCGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACAT 100
UnnamedSequen 5475 GGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCCAGGTGCGGTGG 5524
i i i i
AluSx#SINE/Al 101 GGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGG 150
UnnamedSequen 5525 TGGGCACCTA----------TACTCAGGAAGCTGAGGCACGAGAATCTCT 5564
i v i i---------- i i v v
AluSx#SINE/Al 151 CGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCT 200
UnnamedSequen 5565 TGAGCCTCGGAGGCAGAGGTTGCAGTGAGCTGAAATCGCACCACTGCACT 5614
i iv i i i i
AluSx#SINE/Al 201 TGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACT 250
UnnamedSequen 5615 CCAGCTTGGGTGACAGAGTGAGACTCCATCTCAAAAAAAAA 5655
i i i i
AluSx#SINE/Al 251 CCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAA 291
Matrix = 14p47g.matrix
Kimura (with divCpGMod) = 7.95
Transitions / transversions = 5.50 (33/6)
Gap_init rate = 0.00 (1 / 280), avg. gap size = 10.00 (10 / 1)
+ 4389 16.1 2.4 3.1 UnnamedSequence 5656 5847 (16123) + L1PB4 LINE/L1 5975 6154 (2) 8
ANNOTATION EVIDENCE:
4389 16.05 2.43 3.11 UnnamedSequence 5656 5847 13186 + L1PB4_3end LINE/L1 722 901 2
4389 16.05 2.43 3.11 UnnamedSequence 5656 5847 (13186) L1PB4_3end#LINE/L1 722 901 (2) m_b1s551i1
UnnamedSequen 5656 GGACTGGAATAATAGACAATGGAGATTCAGAACAATGC-AGGGTATGAGG 5704
-------------- v i v vii v- iv
L1PB4_3end#LI 722 --------------GACACTGGAGACTCCGAAAGGTGGGAGGGTGGGAGG 757
UnnamedSequen 5705 GGGGTGGACAATGAAAAATTACTTAATGGGGACAGTGTACATTACTCAGA 5754
iivi i i ? v i i i i i
L1PB4_3end#LI 758 GGGGTGAGGGATGAGAAATTACCTANTGGGTACAATGTACACTATTCGGG 807
UnnamedSequen 5755 TGAGGGATACTTTAAAAGCCCTGTCTTGACCACTATACAATCTATATGTG 5804
v ? vi v v v ii v vii
L1PB4_3end#LI 808 TGATGGNTACACTAAAAGCCCAGACTTCACCACTACGCAATATATCCATG 857
UnnamedSequen 5805 TAACAGAATCACACAGGTACCCCATTAGT-TGTACAAATAAAAA 5847
i iii vv v v i - i v
L1PB4_3end#LI 858 TAACAAAACTGCACTTGTACCCCCTAAATCTATAAAAATAAAAA 901
Matrix = 20p47g.matrix
Kimura (with divCpGMod) = 17.12
Transitions / transversions = 1.32 (25/19)
Gap_init rate = 0.08 (16 / 191), avg. gap size = 1.00 (16 / 16)
+ 319 28.4 2.1 6.6 UnnamedSequence 5988 6130 (15840) + MIRb SINE/MIR 93 229 (39) 11
ANNOTATION EVIDENCE:
319 28.44 2.10 6.57 UnnamedSequence 5988 6130 12903 + MIRb SINE/MIR 93 229 39
319 28.44 2.10 6.57 UnnamedSequence 5988 6130 (12903) MIRb#SINE/MIR 93 229 (39) m_b1s601i4
UnnamedSequen 5988 TGAGCTGGGTGCAAATT---TATCTCATCTGAGCCTCTGTTTCCCCTTGT 6034
v v - i --- v iiv v -- ii
MIRb#SINE/MIR 93 TGACCTTGG-GCAAGTTACTTAACCTCTCTGAGCCTCAGTTTCC--TCAT 139
UnnamedSequen 6035 CTGTGGAATGGTGGTCATAATGGTAGCTGCATCATAGCTATTGTTCTAGG 6084
ii - -- ii v i v ii v-i v ii
MIRb#SINE/MIR 140 CTGTAAAATGG-GG--ATAATAATACCTACCTCGCAGG-GTTGTTGTGAG 185
UnnamedSequen 6085 GTCTAGATTAGATAATGCATGGCACATGGTAGGCACACCGTGTTTG 6130
vi i v vv vii v vi -- ii
MIRb#SINE/MIR 186 GATTAAATGAGATAATGCATGTAAAGCGCTTAGCACA--GTGCCTG 229
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 34.14
Transitions / transversions = 1.38 (22/16)
Gap_init rate = 0.07 (10 / 142), avg. gap size = 1.20 (12 / 10)
+ 847 14.8 4.4 9.8 UnnamedSequence 7016 7218 (14752) C MER53 DNA/hAT-Blackjack (0) 193 1 12
ANNOTATION EVIDENCE:
847 14.75 4.43 9.84 UnnamedSequence 7016 7218 13226 C MER53 DNA/hAT-Blackjack 1 193 0
847 14.75 4.43 9.84 UnnamedSequence 7016 7218 (13226) C MER53#DNA/hAT-Blackjack (0) 193 1 c_b1s401i0
UnnamedSequen 7016 TAGGGTTGCCAGGTAAAACATAGGACACCCAGTTAAGTTTAAATTTTAGA 7065
i i i i i i i
C MER53#DNA/hAT 193 TAGGGTTGCCAGATAAAATACAGGACGCCCAGTTAAATTTGAATTTCAGA 144
UnnamedSequen 7066 TAAACGTCAAATAG--TTTTAATATAAATATGTTCCTATGCAATATTTTG 7113
iv i i-- i i - i v
C MER53#DNA/hAT 143 TAAACAACGAATAATTTTTTAGTATAAGTATG-TCCCATGCAATATTTGG 95
UnnamedSequen 7114 GACATGCTT-------AAAATTATCTGTTGTATATCCAAAGTTCAAATTA 7156
i ------- ii v ii i v
C MER53#DNA/hAT 94 GACATACTTATACTAAAAAATTATTCGTTGTTTATCTGAAATTCAAATTT 45
UnnamedSequen 7157 AACTGGGGCATCCTGTTTTTGTTGTTTCTTATGTATTTGTTTTGTTAAAT 7206
- i v -------- --------- i
C MER53#DNA/hAT 44 AACT-GGGCGTCCTGTATTT--------TTA---------TTTGCTAAAT 13
UnnamedSequen 7207 CTGGCCACCCTA 7218
v
C MER53#DNA/hAT 12 CTGGCAACCCTA 1
Matrix = 18p47g.matrix
Kimura (with divCpGMod) = 14.22
Transitions / transversions = 3.50 (21/6)
Gap_init rate = 0.10 (21 / 202), avg. gap size = 1.33 (28 / 21)
+ 24 12.0 0.0 0.0 UnnamedSequence 7917 7943 (14027) + (GT)n Simple_repeat 1 52 (0) 13
ANNOTATION EVIDENCE:
24 12.03 0.00 0.00 UnnamedSequence 7917 7952 11283 + (GT)n Simple_repeat 1 36 0
24 12.03 0.00 0.00 UnnamedSequence 7917 7952 (11283) (GT)n#Simple_repeat 1 36 (0) m_b1s252i1
UnnamedSequen 7917 GTGTGTGTGTGTGTGTGTGAGTGTGTATCTGTCTGT 7952
v i v v
(GT)n#Simple_ 1 GTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGTGT 36
Matrix = Unknown
Transitions / transversions = 0.33 (1/3)
Gap_init rate = 0.00 (0 / 35), avg. gap size = 0.0 (0 / 0)
17 27.16 0.00 0.00 UnnamedSequence 7918 7966 11269 + (TGTC)n Simple_repeat 1 49 0
17 27.16 0.00 0.00 UnnamedSequence 7918 7966 (11269) (TGTC)n#Simple_repeat 1 49 (0) m_b1s252i2
UnnamedSequen 7918 TGTGTGTGTGTGTGTGTGAGTGTGTATCTGTCTGTCTCTCTCTCTCTCT 7966
v v v v vv v i v v v
(TGTC)n#Simpl 1 TGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCTGTCT 49
Matrix = Unknown
Transitions / transversions = 0.10 (1/10)
Gap_init rate = 0.00 (0 / 48), avg. gap size = 0.0 (0 / 0)
12 24.53 4.00 0.00 UnnamedSequence 7922 7968 11298 + (TGTCTC)n Simple_repeat 1 49 3
12 24.53 4.00 0.00 UnnamedSequence 7922 7968 (11298) (TGTCTC)n#Simple_repeat 1 49 (3) m_b1s252i3
UnnamedSequen 7922 TGTGTGTGTGTGTGAGTGTGTATCTG--TCTGTCTCTCTCTCTCTCTCT 7968
v v v v vv v v -- v v
(TGTCTC)n#Sim 1 TGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCTGTCTCT 49
Matrix = Unknown
Transitions / transversions = 0.00 (0/10)
Gap_init rate = 0.02 (1 / 46), avg. gap size = 2.00 (2 / 1)
+ 16 7.9 0.0 0.0 UnnamedSequence 7944 7968 (14002) + (TCTC)n Simple_repeat 1 25 (0) 14
ANNOTATION EVIDENCE:
16 7.86 0.00 0.00 UnnamedSequence 7944 7968 11298 + (TCTC)n Simple_repeat 1 25 3
16 7.86 0.00 0.00 UnnamedSequence 7944 7968 (11298) (TCTC)n#Simple_repeat 1 25 (3) m_b1s252i4
UnnamedSequen 7944 TCTGTCTGTCTCTCTCTCTCTCTCT 7968
v v
(TCTC)n#Simpl 1 TCTCTCTCTCTCTCTCTCTCTCTCT 25
Matrix = Unknown
Transitions / transversions = 0.00 (0/2)
Gap_init rate = 0.00 (0 / 24), avg. gap size = 0.0 (0 / 0)
+ 37 0.0 0.0 0.0 UnnamedSequence 7969 8000 (13970) + (AC)n Simple_repeat 1 32 (0) 15
ANNOTATION EVIDENCE:
37 0.00 0.00 0.00 UnnamedSequence 7969 8000 13970 + (AC)n Simple_repeat 1 32 0
37 0.00 0.00 0.00 UnnamedSequence 7969 8000 (13970) (AC)n#Simple_repeat 1 32 (0) c_b1s251i0
UnnamedSequen 7969 ACACACACACACACACACACACACACACACAC 8000
(AC)n#Simple_ 1 ACACACACACACACACACACACACACACACAC 32
Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.00 (0 / 31), avg. gap size = 0.0 (0 / 0)
+ 370 37.0 2.4 1.8 UnnamedSequence 8583 8750 (13220) C MIRc SINE/MIR (94) 174 6 16
ANNOTATION EVIDENCE:
370 36.97 2.38 1.78 UnnamedSequence 8583 8750 10516 C MIRc SINE/MIR 6 174 94
370 36.97 2.38 1.78 UnnamedSequence 8583 8750 (10516) C MIRc#SINE/MIR (94) 174 6 m_b1s601i5
UnnamedSequen 8583 AGGTGATTGGGGCAGGTGCCCTCCCACCTGCTTTGCAAACCAATCAATCG 8632
iivii iiiv iviv iii i i iv ivv ii
C MIRc#SINE/MIR 174 AGGTAGGCAGGGCAGGTATTATTATCCCCATTTTACAGATGAGGAAACTG 125
UnnamedSequen 8633 AGGCTTAGAGGTGCACAGCGACTCACCCAGGGTCCCATCCAGCTACCAAA 8682
i iv ivv i ii i v -- vi i
C MIRc#SINE/MIR 124 AGGCTCAGAGAGGTTAAGTGACTTGCCCAAGGTCACA--CAGCTAGTAAG 77
UnnamedSequen 8683 TAGCATGGGTTGGGGCT-GGCCTCAGG-CCTCTTGACTTTTAGCCCAGCA 8730
i - i ii i - iv i - i i iiv i ii
C MIRc#SINE/MIR 76 TGGCA-GAGCCGGGACTCGAACCCAGGTCTTCCTGACTCCAAGTCCAGTG 28
UnnamedSequen 8731 GTCTTCCCATT--ATCTCATTG 8750
v i i -- i v i
C MIRc#SINE/MIR 27 CTCTTTCCACTGCACCACACTG 6
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 55.31
Transitions / transversions = 2.81 (45/16)
Gap_init rate = 0.04 (6 / 167), avg. gap size = 1.17 (7 / 6)
+ 273 22.6 11.9 0.0 UnnamedSequence 8707 8790 (13180) + L2a LINE/L2 3329 3422 (4) 17 *
ANNOTATION EVIDENCE:
273 22.62 11.90 0.00 UnnamedSequence 8707 8790 10476 + L2a_3end LINE/L2 420 513 4
273 22.62 11.90 0.00 UnnamedSequence 8707 8790 (10476) L2a_3end#LINE/L2 420 513 (4) m_b1s601i6
UnnamedSequen 8707 GGCCTCTTGACT-TTTAGCCCA--GCAGTCTTCCCATTATCT----CATT 8749
v i v - v ii -- v v i viii ---- v
L2a_3end#LINE 420 GGACTTTTGTCTGTTTTGTTCACTGCTGTATCCCCAGCGCCTAGAACAGT 469
UnnamedSequen 8750 GTTCAGCACATAGTAGG-GCCCAATAAAT--TTGTTGAATGAAT 8790
iiii - i --
L2a_3end#LINE 470 GCCTGGCACATAGTAGGCGCTCAATAAATATTTGTTGAATGAAT 513
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 25.73
Transitions / transversions = 1.71 (12/7)
Gap_init rate = 0.06 (5 / 83), avg. gap size = 2.00 (10 / 5)
+ 2377 9.6 0.0 0.3 UnnamedSequence 8807 9108 (12862) C AluSx SINE/Alu (11) 301 1 18
ANNOTATION EVIDENCE:
2377 9.63 0.00 0.33 UnnamedSequence 8807 9108 12825 C AluSx SINE/Alu 1 301 11
2377 9.63 0.00 0.33 UnnamedSequence 8807 9108 (12825) C AluSx#SINE/Alu (11) 301 1 c_b1s352i3
UnnamedSequen 8807 TTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCACTCTGTTGCCCAGGCTG 8856
i i
C AluSx#SINE/Al 301 TTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCTG 252
UnnamedSequen 8857 CAGTGTAGTGGCGTGATCTCAGCTCACTGCAACCTCTGCCTCCCGGGTTC 8906
v i i i i
C AluSx#SINE/Al 251 GAGTGCAGTGGCGCGATCTCGGCTCACTGCAACCTCCGCCTCCCGGGTTC 202
UnnamedSequen 8907 AAGCAATTCTCCTGTCTCAGCCTCCCAAGCAGCTGGGATTATAGGTAGCT 8956
i i i i i iivvi
C AluSx#SINE/Al 201 AAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGGCGCGC 152
UnnamedSequen 8957 GCCACCATGCCCAGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCGC 9006
i i i
C AluSx#SINE/Al 151 GCCACCACGCCCGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCAC 102
UnnamedSequen 9007 CATATTGGCCTGGCTGGTCTCGAACTCCTGACCTCAGAGTGATCCACCTG 9056
i v - i i
C AluSx#SINE/Al 101 CATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAG-GTGATCCGCCCG 53
UnnamedSequen 9057 CCTTGGCCTCCCAAAGTGCTGGGATTACAGGCCTGAGCCACTGCACCCAG 9106
i v i i i
C AluSx#SINE/Al 52 CCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGG 3
UnnamedSequen 9107 CC 9108
C AluSx#SINE/Al 2 CC 1
Matrix = 14p47g.matrix
Kimura (with divCpGMod) = 4.68
Transitions / transversions = 4.80 (24/5)
Gap_init rate = 0.00 (1 / 301), avg. gap size = 1.00 (1 / 1)
+ 17 14.4 0.0 0.0 UnnamedSequence 9525 9556 (12414) + (GAGG)n Simple_repeat 1 32 (0) 19
ANNOTATION EVIDENCE:
17 14.38 0.00 0.00 UnnamedSequence 9525 9556 10011 + (GAGG)n Simple_repeat 1 32 0
17 14.38 0.00 0.00 UnnamedSequence 9525 9556 (10011) (GAGG)n#Simple_repeat 1 32 (0) m_b1s252i5
UnnamedSequen 9525 GAAGGAGAGAGGGAGGGAAAGAGGGAGGGAGG 9556
i i ii
(GAGG)n#Simpl 1 GAGGGAGGGAGGGAGGGAGGGAGGGAGGGAGG 32
Matrix = Unknown
Transitions / transversions = 1.00 (4/0)
Gap_init rate = 0.00 (0 / 31), avg. gap size = 0.0 (0 / 0)
+ 13 19.2 2.8 0.0 UnnamedSequence 9908 9943 (12027) + G-rich Low_complexity 1 37 (0) 20
ANNOTATION EVIDENCE:
13 19.22 2.78 0.00 UnnamedSequence 9908 9943 9624 + (GGGAGAG)n Simple_repeat 1 37 0
13 19.22 2.78 0.00 UnnamedSequence 9908 9943 (9624) (GGGAGAG)n#Simple_repeat 1 37 (0) m_b1s252i6
UnnamedSequen 9908 GGGAAAGGGGAGAGGAGAGAAGGG-GTGGGCAGAAGG 9943
i i i - v v i
(GGGAGAG)n#Si 1 GGGAGAGGGGAGAGGGGAGAGGGGAGAGGGGAGAGGG 37
Matrix = Unknown
Transitions / transversions = 2.00 (4/2)
Gap_init rate = 0.03 (1 / 35), avg. gap size = 1.00 (1 / 1)
+ 268 28.0 11.2 5.0 UnnamedSequence 10277 10464 (11506) + L2c LINE/L2 439 637 (2782) 21
ANNOTATION EVIDENCE:
268 28.01 11.17 5.03 UnnamedSequence 10277 10464 9103 + L2 LINE/L2 439 637 2445
268 28.01 11.17 5.03 UnnamedSequence 10277 10464 (9103) L2#LINE/L2 439 637 (2445) m_b1s601i7
UnnamedSequen 10277 CCCTCCATCTCCAGATCTTAACTGAAACAAGG-TCTCCCCC-AGAACACT 10324
i i i vviiii i vv - i- i
L2#LINE/L2 439 CCCTTCACCTTCTTGCTCTAACCGAAACCTGGCTCTCCCCTGAGGACACT 488
UnnamedSequen 10325 GCT-CCCCTATAGCCCGCTCAAGGGGAAGCTGCTCTTTCT-CCACA---- 10368
- ii v v vi i i i - ----
L2#LINE/L2 489 GCTTCCCCTGCAGCCCTCTCAAGTGGTGGCTGTTTTCTCTCCCACANCCC 538
UnnamedSequen 10369 ------CACAAGACCCCAAGATGTCCCGAG--AGTCTCCTCC--AC-CCC 10407
------ vi i ivi i ---- i --i v --i - i
L2#LINE/L2 539 TCGTACCACTGGGCCTGGAGGTG----GGGTAGGTGTCCTCCTTGCTCCT 584
UnnamedSequen 10408 CACCACCACTTCTAAACCATAACCTGCAAAAAGCCCTTCTCCCTGGA--A 10455
iii i i i --i v ----vv i ii --
L2#LINE/L2 585 CATTGCCGCTTCCAGACCAT--TCTCC----CTCCCTCCTCCCTAAAACA 628
UnnamedSequen 10456 GCCCAGCCT 10464
v i
L2#LINE/L2 629 CCCCAGCTT 637
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 35.36
Transitions / transversions = 2.57 (36/14)
Gap_init rate = 0.11 (20 / 187), avg. gap size = 1.55 (31 / 20)
+ 537 29.4 10.7 0.8 UnnamedSequence 10859 11074 (10896) + MIR SINE/MIR 3 239 (23) 22
ANNOTATION EVIDENCE:
537 29.42 10.65 0.84 UnnamedSequence 10859 11074 8493 + MIR SINE/MIR 3 239 23
537 29.42 10.65 0.84 UnnamedSequence 10859 11074 (8493) MIR#SINE/MIR 3 239 (23) m_b1s601i8
UnnamedSequen 10859 AGGATGACAAAGTGGTTGAGGTCATGG--TTTGCAGCAAG---GTTCGGG 10903
v ii v i iv i -- i v v --- iii
MIR#SINE/MIR 3 AGTATAGCATAGTGGTTAAGAGCACGGGCTCTGGAGCCAGACTGCCTGGG 52
UnnamedSequen 10904 TTGGAAGCCCCCCTCTGCTCCTTGCTCCATCTCTGACTTTGGGC------ 10947
v v vv iv i vvv v v i ------
MIR#SINE/MIR 53 TTCGAATCCCGGCTCTGCCACTTACTAGCTGTGTGACCTTGGGCAAGTTA 102
UnnamedSequen 10948 -----CCTCCCTGAGGCTT-GTTTCTTCCTCTATAAAATGAGGACGTGAG 10991
----- i v v i- i v i i iivv i
MIR#SINE/MIR 103 CTTAACCTCTCTGTGCCTCAGTTTCCTCATCTGTAAAATGGGGATAATAA 152
UnnamedSequen 10992 TAACACCTGCCTCATATGATTGTTG-GAAGAATAAATGAGAAAAGGCGTG 11040
ii i v i - i v vv vi i
MIR#SINE/MIR 153 TAGTACCTACCTCATAGGGTTGTTGTGAGGATTAAATGAGTTAATACATG 202
UnnamedSequen 11041 ---GGCAC--AGCGTAGCTCTTGGCACTAAAAATAAGTG 11074
---i i -- vii iv i -- v i i
MIR#SINE/MIR 203 TAAAGCGCTTAGAACAGTGCCTGGCAC--ATAGTAAGCG 239
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 35.93
Transitions / transversions = 1.25 (35/28)
Gap_init rate = 0.05 (10 / 215), avg. gap size = 2.50 (25 / 10)
+ 249 35.2 3.8 2.3 UnnamedSequence 11726 11937 (10033) + L2c LINE/L2 2050 2264 (1155) 21
ANNOTATION EVIDENCE:
249 35.25 3.77 2.33 UnnamedSequence 11726 11937 7630 + L2 LINE/L2 2050 2264 818
249 35.25 3.77 2.33 UnnamedSequence 11726 11937 (7630) L2#LINE/L2 2050 2264 (818) m_b1s601i9
UnnamedSequen 11726 TCTCATGGGAGCTCTCAGCTGTACTC-ATGCCGTCCGCCACCCGCTG--- 11771
i ivv v ? v i i i- ii v ivii i v v---
L2#LINE/L2 2050 TCTTACTTGACCTNTCAGCAGCATTTGACACAGTTGATCACTCCCTCCTT 2099
UnnamedSequen 11772 -TTGAAAGGCTTGCCTCTCCTGGTTTCCACGATGCTCCCTTCTCCCAGGT 11820
- vi v i v i i iv ii iv vi ii v
L2#LINE/L2 2100 CTTGAAACACTTTCTTCACTTGGCTTCCGGGACACCACACTCTCCTGGTT 2149
UnnamedSequen 11821 TTCCTCCTCCCTCTCTGGCTGACTCTCCTCCTTATCCTCCGTGGAATTCA 11870
v v i vii i vv v ii iv iv i v
L2#LINE/L2 2150 TTCCTCCTACCTCACTGGCCGCTCCTTCTCAGTCTCCTTTGCTGGTTCCT 2199
UnnamedSequen 11871 CT---TCTGCCCAGGCCATAAACGCTGATATGCTTTCTAAGGCCTTCCTG 11917
i--- v iiv iv ? i ivi --i i i -- vvv
L2#LINE/L2 2200 CCTCATCTCCCCGACCTCTNAACGTTGGAGTGC--CCCAGGGC--TCAGT 2245
UnnamedSequen 11918 CCTTGAGCCCTCTTCTCTTC 11937
- v
L2#LINE/L2 2246 CCTTG-GACCTCTTCTCTTC 2264
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 47.08
Transitions / transversions = 1.28 (41/32)
Gap_init rate = 0.04 (9 / 211), avg. gap size = 1.44 (13 / 9)
+ 319 33.7 5.2 7.0 UnnamedSequence 12041 12273 (9697) + L2c LINE/L2 2406 2634 (785) 21
ANNOTATION EVIDENCE:
319 33.68 5.15 6.99 UnnamedSequence 12041 12273 7294 + L2 LINE/L2 2406 2634 448
319 33.68 5.15 6.99 UnnamedSequence 12041 12273 (7294) L2#LINE/L2 2406 2634 (448) m_b1s601i10
UnnamedSequen 12041 GACACTTCCACTTGAATGCCCTGCAGGCACCTCAAACCCAGCACATCT-A 12089
ii i i ivii i ii i ii i-
L2#LINE/L2 2406 GACATCTCCACTTGGATGTCTAATAGGCATCTCAAACTTAACATGTCCAA 2455
UnnamedSequen 12090 AACAGAACCACTG----TTTCCATCAATGCCTTCTTCTGCCTTGTGACTT 12135
v iv ---- ii v -i v i -- ii iiiii
L2#LINE/L2 2456 AACCGAACTCCTGATCTTCCCCCTCAA-ACCTGCTCCT--CCCGCAGTCT 2502
UnnamedSequen 12136 TCCTTATGTGCTTTAA----AACATGATGGGCCACACATTTACCCAAACT 12181
ii v vvv ? ---- viv --- viv v i i ii i
L2#LINE/L2 2503 TCCCCATCTCAGTNAATGGCAACTCCAT---CCTTCCAGTTGCTCAGGCC 2549
UnnamedSequen 12182 GGAAATATGAATGTCATTCTTCACTCCTTCCCCATGACATCTTTCA---C 12228
ii iv viiv i v ii ii------ i ---
L2#LINE/L2 2550 AAAAACCTTGGAGTCATCCTTGACTCCTCTCTT------TCTCTCACACC 2593
UnnamedSequen 12229 CCAGTTCCAACCAATCAGTCCCAATGTCCTGTGGATTCCACCTTC 12273
vv i v --- -i v ii i
L2#LINE/L2 2594 CCACATCCAATCCATCAG---CAA-ATCCTGTCGGCTCTACCTTC 2634
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 47.40
Transitions / transversions = 2.32 (51/22)
Gap_init rate = 0.09 (20 / 232), avg. gap size = 1.40 (28 / 20)
+ 206 33.3 2.0 3.0 UnnamedSequence 12565 12666 (9304) + L2c LINE/L2 3060 3160 (227) 21
ANNOTATION EVIDENCE:
206 33.34 1.96 2.97 UnnamedSequence 12565 12666 6901 + L2c_3end LINE/L2 151 251 227
206 33.34 1.96 2.97 UnnamedSequence 12565 12666 (6901) L2c_3end#LINE/L2 151 251 (227) m_b1s601i11
UnnamedSequen 12565 CTCTCTAGAACATTCACCCTCTCCTTTCCTCTACATGGTTAACTCTGACT 12614
vi i iii vi i i -- i i i v i iv
L2c_3end#LINE 151 CTGCCTGGAATGCTCTTCCCCCC--TCCTTCCACCTGGCTAACTCCTACT 198
UnnamedSequen 12615 CATACTTGAAGGGTCTTATCAGAGGTGTGTTCCCCAGTGAGAGTCT--CC 12662
v v ?v vvv v vvvi i v v - i --
L2c_3end#LINE 199 CATCCTTCAAGNCTCAGCTCAGATGTCACCTCCTCCGGGA-AGCCTTCCC 247
UnnamedSequen 12663 TGGC 12666
i
L2c_3end#LINE 248 TGAC 251
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 45.57
Transitions / transversions = 1.06 (17/16)
Gap_init rate = 0.04 (4 / 101), avg. gap size = 1.25 (5 / 4)
+ 224 31.7 0.9 11.0 UnnamedSequence 12732 12841 (9129) + L2c LINE/L2 3262 3361 (26) 21
ANNOTATION EVIDENCE:
224 31.66 0.91 11.00 UnnamedSequence 12732 12841 6726 + L2c_3end LINE/L2 353 452 26
224 31.66 0.91 11.00 UnnamedSequence 12732 12841 (6726) L2c_3end#LINE/L2 353 452 (26) m_b1s601i12
UnnamedSequen 12732 TAGATGTCAGTCTTTCCCACCACAGAGTTAACTTCTGAAGAACGGCGGCT 12781
v? v iii i v vv v i i vi ii i v i i
L2c_3end#LINE 353 TACNTGTCTGTCTCCTCCACTAGACTGTGAGCTCCTTGAGGGCAGGGACC 402
UnnamedSequen 12782 G-GTCTTATTTATCTGCATGTCTTATTTATCTGCAGAGTTGCTGGCATGG 12830
- i ------- i-- iv v i-- iiv
L2c_3end#LINE 403 GTGTCTTATTCATCT-------TTG--TATCCCCAGCGC--CTGGCACAT 441
UnnamedSequen 12831 AGTAGCTGCTC 12841
vi
L2c_3end#LINE 442 AGTAGGCGCTC 452
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 39.09
Transitions / transversions = 1.58 (19/12)
Gap_init rate = 0.11 (12 / 109), avg. gap size = 1.00 (12 / 12)
+ 318 26.9 3.8 0.9 UnnamedSequence 12971 13075 (8895) C MIRb SINE/MIR (34) 234 127 23
ANNOTATION EVIDENCE:
318 26.92 3.81 0.93 UnnamedSequence 12971 13075 6492 C MIRb SINE/MIR 127 234 34
318 26.92 3.81 0.93 UnnamedSequence 12971 13075 (6492) C MIRb#SINE/MIR (34) 234 127 m_b1s601i13
UnnamedSequen 12971 TGTGCCAGGC-CTTT-CCCAGAGCTTTTCCAACTTAATCTCATCCAATCC 13018
- v - iv v v vvi v v ii
C MIRb#SINE/MIR 234 TGTGCCAGGCACTGTGCTAAGCGCTTTACATGCATTATCTCATTTAATCC 185
UnnamedSequen 13019 TCTCAGCAAT--TGAAAGGTGTGGGGTTAATATCCCTAAGTTGTAGAGGA 13066
v i i-- vi i- vi v i vv ii v
C MIRb#SINE/MIR 184 TCACAACAACCCTGCGAGGTA-GGTATTATTATCCCCATTTTACAGATGA 136
UnnamedSequen 13067 GGAAACTAA 13075
i
C MIRb#SINE/MIR 135 GGAAACTGA 127
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 32.16
Transitions / transversions = 0.87 (13/15)
Gap_init rate = 0.04 (4 / 104), avg. gap size = 1.25 (5 / 4)
+ 21 7.6 0.0 0.0 UnnamedSequence 13098 13125 (8845) + (T)n Simple_repeat 1 28 (0) 24
ANNOTATION EVIDENCE:
21 7.56 0.00 0.00 UnnamedSequence 13098 13125 6442 + (T)n Simple_repeat 1 28 0
21 7.56 0.00 0.00 UnnamedSequence 13098 13125 (6442) (T)n#Simple_repeat 1 28 (0) m_b1s252i7
UnnamedSequen 13098 TTTTTGATTTTTTTTTTTTTTTTTTTTT 13125
vv
(T)n#Simple_r 1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT 28
Matrix = Unknown
Transitions / transversions = 0.00 (0/2)
Gap_init rate = 0.00 (0 / 27), avg. gap size = 0.0 (0 / 0)
+ 22 0.0 3.7 0.0 UnnamedSequence 13184 13210 (8760) + (TC)n Simple_repeat 1 28 (0) 25
ANNOTATION EVIDENCE:
22 0.00 3.70 0.00 UnnamedSequence 13184 13210 6357 + (TC)n Simple_repeat 1 28 0
22 0.00 3.70 0.00 UnnamedSequence 13184 13210 (6357) (TC)n#Simple_repeat 1 28 (0) m_b1s252i8
UnnamedSequen 13184 TCTCTCTCTCTCTCTCTCTC-CTCTCTC 13210
-
(TC)n#Simple_ 1 TCTCTCTCTCTCTCTCTCTCTCTCTCTC 28
Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.04 (1 / 26), avg. gap size = 1.00 (1 / 1)
+ 19 4.3 0.0 0.0 UnnamedSequence 13652 13675 (8295) + (CA)n Simple_repeat 1 24 (0) 26
ANNOTATION EVIDENCE:
19 4.35 0.00 0.00 UnnamedSequence 13652 13675 5892 + (CA)n Simple_repeat 1 24 0
19 4.35 0.00 0.00 UnnamedSequence 13652 13675 (5892) (CA)n#Simple_repeat 1 24 (0) m_b1s252i9
UnnamedSequen 13652 CACACACACACACACATACACACA 13675
i
(CA)n#Simple_ 1 CACACACACACACACACACACACA 24
Matrix = Unknown
Transitions / transversions = 1.00 (1/0)
Gap_init rate = 0.00 (0 / 23), avg. gap size = 0.0 (0 / 0)
+ 39 0.0 0.0 2.7 UnnamedSequence 13688 13725 (8245) + (CA)n Simple_repeat 1 37 (0) 26
ANNOTATION EVIDENCE:
39 0.00 0.00 2.70 UnnamedSequence 13688 13725 8245 + (CA)n Simple_repeat 1 37 0
39 0.00 0.00 2.70 UnnamedSequence 13688 13725 (8245) (CA)n#Simple_repeat 1 37 (0) c_b1s251i1
UnnamedSequen 13688 CACACACACACACACACACACACACACACACACTACAC 13725
-
(CA)n#Simple_ 1 CACACACACACACACACACACACACACACACAC-ACAC 37
Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.03 (1 / 37), avg. gap size = 1.00 (1 / 1)
+ 12 23.6 7.6 1.4 UnnamedSequence 14410 14475 (7495) + (GTGTGCA)n Simple_repeat 1 70 (0) 27
ANNOTATION EVIDENCE:
12 23.62 7.58 1.43 UnnamedSequence 14410 14475 5129 + (GTGTGCA)n Simple_repeat 1 70 0
12 23.62 7.58 1.43 UnnamedSequence 14410 14475 (5129) (GTGTGCA)n#Simple_repeat 1 70 (0) m_b1s252i10
UnnamedSequen 14410 GTGCGCAGAG-GCAGAGGTG-AGTGTGTAGGATG--GTGGTCAGTGTGCA 14455
i v - -v - i vi -- vv
(GTGTGCA)n#Si 1 GTGTGCAGTGTGCAG-TGTGCAGTGTGCAGTGTGCAGTGTGCAGTGTGCA 49
UnnamedSequen 14456 G-GTACGGTGGTAAGTGTGCA 14475
- i i vvv
(GTGTGCA)n#Si 50 GTGTGCAGTGTGCAGTGTGCA 70
Matrix = Unknown
Transitions / transversions = 0.62 (5/8)
Gap_init rate = 0.08 (5 / 65), avg. gap size = 1.20 (6 / 5)
+ 228 31.3 5.0 1.0 UnnamedSequence 14591 14690 (7280) C L3 LINE/CR1 (141) 3958 3855 28
ANNOTATION EVIDENCE:
228 31.30 5.00 0.96 UnnamedSequence 14591 14690 4914 C L3 LINE/CR1 3855 3958 141
228 31.30 5.00 0.96 UnnamedSequence 14591 14690 (4914) C L3#LINE/CR1 (141) 3958 3855 m_b1s601i14
UnnamedSequen 14591 GCCCTCTGCTTTTCCAGGCTGCCCATCTCACCATGAAGCTCCTTTGAGTG 14640
i v i i i? v v ii iiv viii vv i v
C L3#LINE/CR1 3958 GCTCACTACCTCNCGAGGCAGCCCATTCCATTTTTGGACAGCTCTGATTG 3909
UnnamedSequen 14641 CCAGAAAGTTCTTCCTTAATGCTGAGCCACAAGCCA-CTCCCT----TCT 14685
ii - ii iv v ii- ----ii
C L3#LINE/CR1 3908 TTAGAAAGTTCTTCCTT-ATATTGAGCCGAAATCTGCCTCCCTGTAACTT 3860
UnnamedSequen 14686 CCACC 14690
C L3#LINE/CR1 3859 CCACC 3855
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 41.60
Transitions / transversions = 2.10 (21/10)
Gap_init rate = 0.03 (3 / 99), avg. gap size = 2.00 (6 / 3)
+ 476 30.0 14.0 0.4 UnnamedSequence 14827 15040 (6930) + MIRb SINE/MIR 16 258 (10) 29
ANNOTATION EVIDENCE:
476 30.03 14.02 0.41 UnnamedSequence 14827 15040 4564 + MIRb SINE/MIR 16 258 10
476 30.03 14.02 0.41 UnnamedSequence 14827 15040 (4564) MIRb#SINE/MIR 16 258 (10) m_b1s601i15
UnnamedSequen 14827 GCACAGCAGCTAGAGCATAGGCTTTGGGGTCAGGCTGACCAGGGCT-GAA 14875
ii ii vv ii i i v v i -
MIRb#SINE/MIR 16 GTGCAGTGGAAAGAGCACGGGCTTTGGAGTCAGACAGACCTGGGTTCGAA 65
UnnamedSequen 14876 CACAGGCGCTAGTGACTT-CCAGGTGGATGACCTAGAGAAA------CAG 14918
iv v v - iv - i v vi v i v ------i i
MIRb#SINE/MIR 66 TCCCGGCTCT-GCCACTTACTAGCTGTGTGACCTTGGGCAAGTTACTTAA 114
UnnamedSequen 14919 CCTCACT----TTCTGATTCCTTGATTCTCAAGCGGGGATGACAACACCA 14964
v ----i v v iivi v v ii i i i v
MIRb#SINE/MIR 115 CCTCTCTGAGCCTCAGTTTCCTCATCTGTAAAATGGGGATAATAATACCT 164
UnnamedSequen 14965 ACCTCACAGGG-TACTAGGAAGGCTCAATGAAACA--GCA-ACAAAGTGC 15010
i - ii iv i ii v i i -- -ii i
MIRb#SINE/MIR 165 ACCTCGCAGGGTTGTTGTGAGGATTAAATGAGATAATGCATGTAAAGCGC 214
UnnamedSequen 15011 TTAGTAC----CCCAG----------GTGCTCAATAAATAATAG 15040
i ---- ii ---------- i ii
MIRb#SINE/MIR 215 TTAGCACAGTGCCTGGCACATAGTAAGCGCTCAATAAATGGTAG 258
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 37.01
Transitions / transversions = 2.05 (43/21)
Gap_init rate = 0.05 (10 / 213), avg. gap size = 3.10 (31 / 10)
+ 255 18.5 7.0 8.6 UnnamedSequence 15104 15174 (6796) + MER5B DNA/hAT-Charlie 61 130 (48) 30
ANNOTATION EVIDENCE:
255 18.48 7.04 8.57 UnnamedSequence 15104 15174 4430 + MER5B DNA/hAT-Charlie 61 130 48
255 18.48 7.04 8.57 UnnamedSequence 15104 15174 (4430) MER5B#DNA/hAT-Charlie 61 130 (48) m_b1s601i16
UnnamedSequen 15104 TGTCTGGGCCCCACCCCAGGACAACCAAGTTAAAAT---TGAGGGATGG- 15149
i ii ? iv ii i i i --- - i -
MER5B#DNA/hAT 61 TGCCCAGGCCNCACCCCAGACCAATTAAATCAGAATCTCTG-GGGGTGGG 109
UnnamedSequen 15150 -CCCAGCATCAGCACCAGTATTTTTT 15174
- ----- i
MER5B#DNA/hAT 110 ACCCAG-----GCATCAGTATTTTTT 130
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 23.06
Transitions / transversions = 11.00 (11/1)
Gap_init rate = 0.13 (9 / 70), avg. gap size = 1.22 (11 / 9)
+ 701 16.3 0.7 0.7 UnnamedSequence 15184 15319 (6651) C L1MB1 LINE/L1 (0) 6168 6033 31
ANNOTATION EVIDENCE:
701 16.30 0.74 0.74 UnnamedSequence 15184 15319 4285 C L1MB1_3end LINE/L1 780 915 0
701 16.30 0.74 0.74 UnnamedSequence 15184 15319 (4285) C L1MB1_3end#LINE/L1 (0) 915 780 m_b1s551i2
UnnamedSequen 15184 TTTTTATTGAGGTAAGAACACTTAGTAGGAGATCTACCCTCTTAACATAT 15233
v ii v v
C L1MB1_3end#LI 915 TTTTTATTGTGGTAAGAACACTTAACATGAGATCTACCCTCTTAACAAAT 866
UnnamedSequen 15234 ATTTAA-TATGCAATCCATTATTGTTGACTGTAGAGGACACTGCTGTACA 15282
v - i i v v i i - v v i
C L1MB1_3end#LI 865 TTTTAAGTGTACAATACAGTATTGTTAACTATAG-GCACAATGTTGTACA 817
UnnamedSequen 15283 GCAGCTCTCTTGAGCTCATTCATCTTGCCTGACTGGA 15319
v v i i v i i
C L1MB1_3end#LI 816 GCAGATCTCTAGAACTTATTCATCTTGCATAACTGAA 780
Matrix = 20p47g.matrix
Kimura (with divCpGMod) = 18.46
Transitions / transversions = 1.00 (11/11)
Gap_init rate = 0.01 (2 / 135), avg. gap size = 1.00 (2 / 2)
+ 15 14.4 0.0 0.0 UnnamedSequence 15320 15343 (6627) + (T)n Simple_repeat 1 24 (0) 32
ANNOTATION EVIDENCE:
15 14.38 0.00 0.00 UnnamedSequence 15320 15343 4261 + (T)n Simple_repeat 1 24 0
15 14.38 0.00 0.00 UnnamedSequence 15320 15343 (4261) (T)n#Simple_repeat 1 24 (0) m_b1s252i11
UnnamedSequen 15320 TTTCTTTTTTTTTCTTTTTTTCTT 15343
i i i
(T)n#Simple_r 1 TTTTTTTTTTTTTTTTTTTTTTTT 24
Matrix = Unknown
Transitions / transversions = 1.00 (3/0)
Gap_init rate = 0.00 (0 / 23), avg. gap size = 0.0 (0 / 0)
+ 2408 10.9 0.0 0.0 UnnamedSequence 15351 15662 (6308) C AluSx SINE/Alu (0) 312 1 33
ANNOTATION EVIDENCE:
2408 10.90 0.00 0.00 UnnamedSequence 15351 15662 6308 C AluSx SINE/Alu 1 312 0
2408 10.90 0.00 0.00 UnnamedSequence 15351 15662 (6308) C AluSx#SINE/Alu (0) 312 1 c_b1s352i4
UnnamedSequen 15351 TTTTTTTTTGTTTTTTGTTTTTTGTTTTTTGAGATGGAGTTTCACTCTTT 15400
v v v i i i v
C AluSx#SINE/Al 312 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGT 263
UnnamedSequen 15401 TGCCAGGGCTAGAGTGAAGTGGCATGATCTCGGCTCACTACAACCTCTGC 15450
i vi i v ii i i
C AluSx#SINE/Al 262 CGCCCAGGCTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAACCTCCGC 213
UnnamedSequen 15451 CCCCTGCGTTCAAGCTATTCTCCTGCCTCAGCCTCCCAAGTAGCTGGGAT 15500
i i v v i
C AluSx#SINE/Al 212 CTCCCGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGAT 163
UnnamedSequen 15501 TACAGGCATGCACCACCACGCCTGGCTAATCTTTGTATTTTTAGTAGAGA 15550
ii i i i
C AluSx#SINE/Al 162 TACAGGCGCGCGCCACCACGCCCGGCTAATTTTTGTATTTTTAGTAGAGA 113
UnnamedSequen 15551 CAGGGTTTCACCATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGT 15600
i
C AluSx#SINE/Al 112 CGGGGTTTCACCATGTTGGCCAGGCTGGTCTCGAACTCCTGACCTCAGGT 63
UnnamedSequen 15601 GATCCACCTGCCTTGGCCTCCCAAAGTGCTGGGGTTACAGGCGTGAGCCA 15650
i i i i
C AluSx#SINE/Al 62 GATCCGCCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCA 13
UnnamedSequen 15651 CCACACCCAGCC 15662
i i i
C AluSx#SINE/Al 12 CCGCGCCCGGCC 1
Matrix = 14p47g.matrix
Kimura (with divCpGMod) = 5.63
Transitions / transversions = 3.25 (26/8)
Gap_init rate = 0.00 (0 / 311), avg. gap size = 0.0 (0 / 0)
+ 1677 17.5 3.4 1.7 UnnamedSequence 15663 15945 (6025) C L1MB1 LINE/L1 (124) 6044 5758 31
ANNOTATION EVIDENCE:
1677 17.52 3.39 1.67 UnnamedSequence 15663 15945 4775 C L1MB1_3end LINE/L1 505 791 124
1677 17.52 3.39 1.67 UnnamedSequence 15663 15945 (4775) C L1MB1_3end#LINE/L1 (124) 791 505 m_b1s551i3
UnnamedSequen 15663 ACCTGACTGGATCTTTATGCTCATTGATTAGTAACTCCCTGTTTTCTCCT 15712
i v i i v i i i v i ii i i
C L1MB1_3end#LI 791 GCATAACTGAAACTTTATACCCGTTGAATAGCAACTCCCCATTTCCCCCT 742
UnnamedSequen 15713 CCTGCCAGCCCCTGGTGACCACCATTCCTCTCTTTGATTCCATGAATTTG 15762
iv ii iv i v i i
C L1MB1_3end#LI 741 CCCCCCAGCCCCTGGCAACCACCATTCTACTCTCTGCTTCTATGAGTTTG 692
UnnamedSequen 15763 ACTATTCTAGGTACCTGATAAAAGTAGAAT-------TATTTCCTTTTCT 15805
i i v v i ------- viii
C L1MB1_3end#LI 691 ACTATTTTAGATACCTCATATAAGTGGAATCATGCAGTATTTGTCCTTCT 642
UnnamedSequen 15806 GTAACTGGCATATTTCACTTTGCATATTGTCCTTAAATCTCATCCATATT 15855
i v v v i ivi i
C L1MB1_3end#LI 641 GTGACTGGCTTATTTCACTTAGCATAATGTCCTCAAGGTTCATCCATGTT 592
UnnamedSequen 15856 GTTGCATATGTCAGAAATTTCTTCTTTTTTAAGCCTGAATAGTATTCCAC 15905
i v i v i v i i
C L1MB1_3end#LI 591 GTCGCATATGGCAGGATTTCCTTCTTTTTTAAGGCTGAATAATATTCCAT 542
UnnamedSequen 15906 TTTGTGTGTATACCACATTTTCTTTATCCATTCATCTGTG 15945
v i i i---
C L1MB1_3end#LI 541 TGTATGTATATACCACATTTTCTTTATCCATTCATCC--- 505
Matrix = 20p47g.matrix
Kimura (with divCpGMod) = 19.40
Transitions / transversions = 2.18 (37/17)
Gap_init rate = 0.01 (4 / 282), avg. gap size = 2.50 (10 / 4)
+ 2770 14.9 0.7 0.2 UnnamedSequence 15946 16369 (5601) C MSTB LTR/ERVL-MaLR (0) 426 1 34
ANNOTATION EVIDENCE:
2770 14.89 0.71 0.23 UnnamedSequence 15946 16369 4755 C MSTB LTR/ERVL-MaLR 1 426 0
2770 14.89 0.71 0.23 UnnamedSequence 15946 16369 (4755) C MSTB#LTR/ERVL-MaLR (0) 426 1 c_b1s401i1
UnnamedSequen 15946 TGTGTTAGCTCATT-TTGCATTGCCATAAAGGAACATCTGAGGCTGGGGA 15994
ii i - i i i i v
C MSTB#LTR/ERVL 426 TGTGTTAGTCCGTTCTTGCGTTGCTATAAAGGAATACCTGAGGCTGGGTA 377
UnnamedSequen 15995 ACTTAATAAAGAAAAGAAGTTTATTTGGCTCACAGTTCTGTAGGCTGTAC 16044
i - i ? i i
C MSTB#LTR/ERVL 376 ATTTA-TAAAGAAAAGAGGTTTANTTGGCTCACGGTTCTGCAGGCTGTAC 328
UnnamedSequen 16045 AGGAAATATGGTGCCAGCATCTGCTGGGCTTCTG-CGAGGCCTCAAGAAG 16093
ii i i v -i i
C MSTB#LTR/ERVL 327 AGGAAGCATGGCGCCGGCATCTGCTCGGCTTCTGGTGAGGCCTCAGGAAG 278
UnnamedSequen 16094 GTTTTACTCATGGTGGAAGGTGAAGGGGGAGCAAGCATGTCACATGGCAG 16143
v ?i v i i i ii ii
C MSTB#LTR/ERVL 277 CTTNCAATCATGGCGGAAGGCGAAGGGGGAGCAGGCGCGTCACATGGCGA 228
UnnamedSequen 16144 GAGAGGGAGCAAGAGAGAT-GGAAGGAGATGCCAGGTTCTTTTAAACAAC 16192
v v- ii i ?ii
C MSTB#LTR/ERVL 227 GAGCGGGAGCAAGAGAGAGAGGGGGGAGGTGCCANACTCTTTTAAACAAC 178
UnnamedSequen 16193 CAGCTCTTGCATGAACTAATAGGATGAGAGCTCACTCATTGCCACAAGGC 16242
v i i i iii i ii ?ii v
C MSTB#LTR/ERVL 177 CAGATCTCGCGTGAACTAACAGAGCGAGAACTCACTCATCACCANGGGGA 128
UnnamedSequen 16243 CAGCACAAAGCCATTTATGAGGGATCCACCACCATGACCCAAACACCTCC 16292
i i v i i v
C MSTB#LTR/ERVL 127 CGGCGCCAAGCCATTCATGAGGGATCCGCCCCCATGACCCAAACACCTCC 78
UnnamedSequen 16293 CAATAGGACCCACCTCCAACACTGGAGATCACATTTCAACATGAGATTTG 16342
vi v i
C MSTB#LTR/ERVL 77 CACCAGGCCCCACCTCCAACACTGGGGATCACATTTCAACATGAGATTTG 28
UnnamedSequen 16343 GAGGAGACACATGTCCAAACCATATCA 16369
i v ii
C MSTB#LTR/ERVL 27 GAGGGGACAAACATCCAAACCATATCA 1
Matrix = 18p47g.matrix
Kimura (with divCpGMod) = 12.82
Transitions / transversions = 3.85 (50/13)
Gap_init rate = 0.01 (4 / 423), avg. gap size = 1.00 (4 / 4)
+ 1677 17.5 3.4 1.7 UnnamedSequence 16370 16429 (5541) C L1MB1 LINE/L1 (411) 5757 5695 31
ANNOTATION EVIDENCE:
1677 17.52 3.39 1.67 UnnamedSequence 16370 16429 4291 C L1MB1_3end LINE/L1 442 504 411
1677 17.52 3.39 1.67 UnnamedSequence 16370 16429 (4291) C L1MB1_3end#LINE/L1 (411) 504 442 m_b1s551i3
UnnamedSequen 16370 CAGTGGATGGACA--CA---TGTTTCCACCTCTTGGCTTTTGTGAACAAT 16414
-- v --i --- v v i
C L1MB1_3end#LI 504 --GTCGATGGACATTTAGGTTGTTTCCACATCTTGGCTATTGTGAATAAT 457
UnnamedSequen 16415 GCTGCAATGAACATG 16429
C L1MB1_3end#LI 456 GCTGCAATGAACATG 442
Matrix = 20p47g.matrix
Kimura (with divCpGMod) = 19.40
Transitions / transversions = 0.67 (2/3)
Gap_init rate = 0.07 (4 / 59), avg. gap size = 1.75 (7 / 4)
+ 2155 10.3 6.0 6.6 UnnamedSequence 16430 16812 (5158) + THE1D LTR/ERVL-MaLR 1 381 (0) 35
ANNOTATION EVIDENCE:
2155 10.34 6.01 6.56 UnnamedSequence 16430 16812 4312 + THE1D LTR/ERVL-MaLR 1 381 0
2155 10.34 6.01 6.56 UnnamedSequence 16430 16812 (4312) THE1D#LTR/ERVL-MaLR 1 381 (0) c_b1s401i2
UnnamedSequen 16430 TGATATTGTTTGGCTCTGTGTCCCCACCCAAA-TCTCAACTTGAATTGCA 16478
v -- - v i i
THE1D#LTR/ERV 1 TGATATGGTTTGGCT--GTGTCCCCACCCAAANTCTCATCTCGAATTGTA 48
UnnamedSequen 16479 ATCCCCATGTGTCAAAGGAGGAAGTTTTAATTCCCACGTGTCAAGGGAGG 16528
-------------------- i i
THE1D#LTR/ERV 49 ATCCCCAT--------------------AATCCCCACGTGTCGAGGGAGG 78
UnnamedSequen 16529 GA---------GGGGATTGGACCATGGGAG-GGTTTCCCCCATGCTGGTT 16568
--------- v i i - v i
THE1D#LTR/ERV 79 GACCTGGTGGAGGTGATTGGATCATGGGGGCGGTTTCCCCCATGCTGTTC 128
UnnamedSequen 16569 TCATGATAGTGAGTGAGTTCTCATGAGATCTAATGGTTTTCTAAGCATCT 16618
i i i v ii
THE1D#LTR/ERV 129 TCGTGATAGTGAGTGAGTTCTCACGAGATCTGATGGTTTTATAAGTGTCT 178
UnnamedSequen 16619 GACA--TTTCTAC--CGCTTGCACTTCTCTCATTTGCCACCTTGTAAA-- 16662
i -- iv -- ? i ? vii i ? i --
THE1D#LTR/ERV 179 GGCAGNTTTCCCCTGCNCTCGCNCTTCTCTCTCCTGCCGCCNTGTGAAGA 228
UnnamedSequen 16663 ACGTGCCTGCTTCCCCTTCA------GCCATGATTGTAAGTTTCCTGAGC 16706
v i i------ -
THE1D#LTR/ERV 229 AGGTGCTTGCTTCCCCTTCGCCTTCCGCCATGATTGTAAGTTTCCTGAG- 277
UnnamedSequen 16707 CACCTCCACCAGCCATGTGGAACTGTGAGTTAATTAAATCTCTTTCCTTT 16756
-i - i i i
THE1D#LTR/ERV 278 -GCCTCC-CCAGCCATGCGGAACTGTGAGTCAATTAAACCTCTTTCCTTT 325
UnnamedSequen 16757 ATAAATTACCCAGTTTTGGGTATTTCTTTATAGCAGTGTGAAAATGGACT 16806
i i v i
THE1D#LTR/ERV 326 ATAAATTACCCAGTCTCGGGTAGTTCTTTATAGCAGTGTGAAAACGGACT 375
UnnamedSequen 16807 AATACA 16812
THE1D#LTR/ERV 376 AATACA 381
Matrix = 18p47g.matrix
Kimura (with divCpGMod) = 8.40
Transitions / transversions = 3.11 (28/9)
Gap_init rate = 0.08 (32 / 382), avg. gap size = 1.50 (48 / 32)
+ 9808 10.8 1.5 0.3 UnnamedSequence 16815 18232 (3738) + THE1D-int LTR/ERVL-MaLR 3 1436 (195) 36
ANNOTATION EVIDENCE:
9808 10.83 1.48 0.35 UnnamedSequence 16815 18232 2488 + THE1D-int LTR/ERVL-MaLR 3 1436 195
9808 10.83 1.48 0.35 UnnamedSequence 16815 18232 (2488) THE1D-int#LTR/ERVL-MaLR 3 1436 (195) m_b1s502i0
UnnamedSequen 16815 AAATTGGTACCAATGTAGTGGGGCACTGCTATAAAGATAACTTGAAAATG 16864
iiviv - i
THE1D-int#LTR 3 AAATTGGTACCGGGAGAGTGGGGCACTGCTATAAAGATA-CCTGAAAATG 51
UnnamedSequen 16865 TGAAAGCAATTTTGGAACTGAGTAACAGGCAGAGGTTGGAACAGGTTGGA 16914
i i i i i v
THE1D-int#LTR 52 TGGAAGCGACTTTGGAACTGGGTAACGGGCAGAGGTTGGAACAGTTTGGA 101
UnnamedSequen 16915 GGGCTCAGAAGAAGACAGGAAGATGTGGGAAAGTTTGGAACTTCCTAAAG 16964
i
THE1D-int#LTR 102 GGGCTCAGAAGAAGACAGGAAGATGTGGGAAAGTTTGGAACTTCCTAGAG 151
UnnamedSequen 16965 ATTTGTTGAATGGTTTTGGCCAAAATGCTGATAGTGATATGGACAATGAA 17014
i i
THE1D-int#LTR 152 ACTTGTTGAATGGTTTTGACCAAAATGCTGATAGTGATATGGACAATGAA 201
UnnamedSequen 17015 GCCCAGGCTCAGGCGGTCACAGATAGAGATGAGGAGCTTATTGGGAACTG 17064
i v i v i i
THE1D-int#LTR 202 GTCCAGGCTGAGGTGGTCTCAGATGGAGATGAGGAACTTATTGGGAACTG 251
UnnamedSequen 17065 GAGCAAAGGTCACTATTGCTATGCTTTAGCAAAGAGACTGGTGCCATTTT 17114
i v i v
THE1D-int#LTR 252 GAGTAAAGGTCACTCTTGCTATGCTTTAGCAAAGAGACTGGCGGCATTTT 301
UnnamedSequen 17115 GACCATGCCCTGGAGATCTGTGGAACTTTGAACTTGAGAGAGATGATTTA 17164
v v i
THE1D-int#LTR 302 GCCCCTGCCCTAGAGATCTGTGGAACTTTGAACTTGAGAGAGATGATTTA 351
UnnamedSequen 17165 GGGTATCTGGCAGAAGAAAATTTCTAAGCAGCAAAGCATTCAAGAAGTGA 17214
i - v
THE1D-int#LTR 352 GGGTATCTGGCGGAAGAAA-TTTCTAAGCAGCAAAGCATTCAAGATGTGA 400
UnnamedSequen 17215 CCTGGGTGCTCTCAAAAGCATTTAGTTATACGCATTCACAAAGACATGGT 17264
v iii i vii i i i v
THE1D-int#LTR 401 CCTGGCTGCTTCTAAAAGCGTACGGTCATATGCGTTCACAAAGAGATGGT 450
UnnamedSequen 17265 TTGGAATTTTAACTTATGTTTAAAAGGGAAGCAGAGCATAAAGGTTTGGA 17314
i i vv i
THE1D-int#LTR 451 CTGAAATTGGAACTTATGTTTAAAAGGGAAGCAGAGCATAAAAGTTTGGA 500
UnnamedSequen 17315 AAATTTGCAGCCTGACCACGTGGTAGAAAAGAAAAACCCAGTTTCTGAGG 17364
i i v i
THE1D-int#LTR 501 AAATTTGCAGCCTGACCATGCGGTAGAAAAGAAAAACCCATTTTCTGGGG 550
UnnamedSequen 17365 AAGAATTCAAATGAGCTGCAGAAATTTGCATAAGTAACCAGGAACCAAAT 17414
ii iivi v i i
THE1D-int#LTR 551 AGAAATTCAAGCCGGCTGCAGAAATTTGCATAAGTAACGAGGAGCCGAAT 600
UnnamedSequen 17415 GTTAGTAGCCAAGACAATGGGAAAAATGTCTCCAAGGCATGTTAGAGATC 17464
i i i ? i i
THE1D-int#LTR 601 GTTAATAGCCAAGACAATGGGGAAAATGTCTCCAGGGCATNTCAGAGACC 650
UnnamedSequen 17465 TTCAAGCCAGCTCCTCTCATCATAGGCCTGGAGTCCTAGGAGGAAAAAAT 17514
iv v i i i i v i
THE1D-int#LTR 651 TTCGCGGCAGCCCCTCCCATCACAGGCCCGGAGGCCTAGGAGGGAAAAAT 700
UnnamedSequen 17515 AATTTTATGGGCAAGGCCCAGCACCCTGCTGCTTTGTGCAGCCTTGGCAC 17564
ii ii vi vi i i i v
THE1D-int#LTR 701 GGTTTCGTGGGCCGGGCCCAGGGCCCCGCTGCTCTGTGCAGCCTCGGGAC 750
UnnamedSequen 17565 TTGGTGCCCTGCATCCCAGCCACTCCAGCTCCAGCCAGAGCTAAAAGGGG 17614
v i i i ivi
THE1D-int#LTR 751 ATGGCGCCCTGCGTCCCAGCCGCTCCAGCTCCAGCCGTGGCTAAAAGGGG 800
UnnamedSequen 17615 CCA-----------------TGGCTTCAGAGGGTACAAACTCCAAGCCTT 17647
----------------- v i i i
THE1D-int#LTR 801 CCAAGGTACAGCTCGGGCCGTTGCTTCAGAGGGTGCAAGCCCCAAGCCTT 850
UnnamedSequen 17648 GGTGGCTTCCACGTGGTGTTGGGCCTGCAGGTGCACAGAAGTCAAGAATT 17697
i i i ? i
THE1D-int#LTR 851 GGCGGCTTCCACGTGGTGTTGGGCCTGCGGGTGCGCAGAAGNCAAGAGTT 900
UnnamedSequen 17698 GAGGTTTGGAAACCTCCAC-TACATTTCAGAGGATGTATGAAAACACCTG 17746
i i - v i i
THE1D-int#LTR 901 GAGGTTTGGGAACCTCCGCCTAGATTTCAGAGGATGTATGGAAACGCCTG 950
UnnamedSequen 17747 GATGTGCAGGCAGAAACCTGCTGCAGGGGTGGAGCCCTCATGGAGAACCT 17796
v ii i
THE1D-int#LTR 951 GATGTCCAGGCAGAAGTCTGCTGCAGGGGCGGAGCCCTCATGGAGAACCT 1000
UnnamedSequen 17797 CTGCTAGGGCAGTGTGGAAGGGAAATGTGGGGTTAGAGCCCCCACACAGA 17846
i i i
THE1D-int#LTR 1001 CTGCTAGGGCAGTGCGGAGGGGAAATGTGGGGTTGGAGCCCCCACACAGA 1050
UnnamedSequen 17847 GTCCCCACTGGGGCACTGCCTAGTGGAGCTATGAGAAGAGGGTCACTGTT 17896
i i i i
THE1D-int#LTR 1051 GTCCCCACTGGGGCACTGCCTAGTGGAGCTGTGAGAAGAGGGCCACCGTC 1100
UnnamedSequen 17897 CTCCAGACCCCAGAATGGTAGATCCACTGAAAGCTTGCACTGTGCAACTA 17946
i v i iv i
THE1D-int#LTR 1101 CTCCAGACCCCAGAATGGTAGATCCACCGACAGCTTGCACCGTGCGCCTG 1150
UnnamedSequen 17947 GAAAAGCCACAGACACTCAATGCCAGCTGGTGAAAGCAGCCGAGAGGGAG 17996
i i i iv ---v i
THE1D-int#LTR 1151 GAAAAGCCGCAGGCACTCAACGCCAGCCCGTGAAAGCAGCCG---CGGGG 1197
UnnamedSequen 17997 GCTCCACCCTGCAAAACCACAGGGGCAGAGCTGCCCAAGACCATGGGAAC 18046
vi i i i i ? i
THE1D-int#LTR 1198 GCTGTACCCTGCAGAGCCACAGGGGCGGAGCTGCCCAAGGCCNTGGGAGC 1247
UnnamedSequen 18047 CCACCTCTTGCATCAGCATGACCTTGATGTGACACATAAAGTCAAAGGAG 18096
i i ? v v ii
THE1D-int#LTR 1248 CCACCCCTTGCATCAGCGTGNCCTGGATGTGAGACATGGAGTCAAAGGAG 1297
UnnamedSequen 18097 ---ATTTTGGAGCTTTGAGATTTAATGACTGACCAGCTGGGTTTTGGACT 18143
--- i v v i
THE1D-int#LTR 1298 ATTATTTTGGAGCTTTAAGATTTAATGACTGCCCTGCTGGGTTTCGGACT 1347
UnnamedSequen 18144 TGCATAGGGCCTGTAGCCCATGTGTTTTGGCCAATTTCTCCCATTTGGAA 18193
i v v
THE1D-int#LTR 1348 TGCATGGGGCCTGTAGCCCCTTTGTTTTGGCCAATTTCTCCCATTTGGAA 1397
UnnamedSequen 18194 TGGAAACATTTACCCAATGCCTGTACCCCCATTGTATTT 18232
i i i
THE1D-int#LTR 1398 TGGGAGCATTTACCCAATGCCTGTACCCCCATTGTATCT 1436
Matrix = 20p47g.matrix
Kimura (with divCpGMod) = 9.07
Transitions / transversions = 2.83 (113/40)
Gap_init rate = 0.01 (8 / 1417), avg. gap size = 3.25 (26 / 8)
+ 1965 12.5 4.4 11.0 UnnamedSequence 18235 18462 (3508) C THE1D LTR/ERVL-MaLR (0) 381 157 37
ANNOTATION EVIDENCE:
1965 12.49 4.44 11.02 UnnamedSequence 18235 18462 2943 C THE1D LTR/ERVL-MaLR 157 381 0
1965 12.49 4.44 11.02 UnnamedSequence 18235 18462 (2943) C THE1D#LTR/ERVL-MaLR (0) 381 157 c_b1s401i3
UnnamedSequen 18235 TGTTTTAGCCCATTTTCACACTGCTATAAAGAAATACCTGAGACTGGGTA 18284
v i i v i
C THE1D#LTR/ERV 381 TGTATTAGTCCGTTTTCACACTGCTATAAAGAACTACCCGAGACTGGGTA 332
UnnamedSequen 18285 ATTTATAAAAGAACAAGGTTTAATTGACTCACAGTTCCGCATGGCTGGGG 18334
i vi
C THE1D#LTR/ERV 331 ATTTATAAAGGAAAGAGGTTTAATTGACTCACAGTTCCGCATGGCTGGGG 282
UnnamedSequen 18335 AGGCCTCAGGAAACTTGCCACCATGGTGAAACGGGAAGTAG--GCAA--A 18380
i v i i i v v vi -- --
C THE1D#LTR/ERV 281 AGGCCTCAGGAAACTTACAATCATGGCGGAAGGCGAAGGGGAAGCAAGCA 232
UnnamedSequen 18381 TCTT----ATATGGTGGCAGGCAAGAGAAGTGCAA--GCAGGGGAAA--T 18422
i ---- i ? i vi ? i -- --
C THE1D#LTR/ERV 231 CCTTCTTCACANGGCGGCAGGAGAGAGAAGNGCGAGNGCAGGGGAAANCT 182
UnnamedSequen 18423 GCCAGATGCTTAGAAAACCGTTAGATCTCATGAGAACTCT 18462
ii v i i ---------------
C THE1D#LTR/ERV 181 GCCAGACACTTATAAAACCATCAGA--------------- 157
Matrix = 18p47g.matrix
Kimura (with divCpGMod) = 11.04
Transitions / transversions = 2.11 (19/9)
Gap_init rate = 0.09 (20 / 227), avg. gap size = 1.35 (27 / 20)
+ 1866 13.8 5.7 0.0 UnnamedSequence 18463 18744 (3226) + AluSx SINE/Alu 1 298 (14) 38
ANNOTATION EVIDENCE:
1866 13.83 5.67 0.00 UnnamedSequence 18463 18744 3226 + AluSx SINE/Alu 1 298 14
1866 13.83 5.67 0.00 UnnamedSequence 18463 18744 (3226) AluSx#SINE/Alu 1 298 (14) c_b1s352i5
UnnamedSequen 18463 GACTGGGCACAGTGGCTCATGCTTGTAATCCCAGCACTTTGGGAGGCCAA 18512
i i i i i i i
AluSx#SINE/Al 1 GGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGA 50
UnnamedSequen 18513 GGCAGGTGGATTGCTTGAGACCAGGAGTTTGAGACCAGCCTGGCCAACAT 18562
i i ii i ii i
AluSx#SINE/Al 51 GGCGGGCGGATCACCTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACAT 100
UnnamedSequen 18563 GGCAAAACCCCATCTCTACTAAAAATACAAAAA-AAATTAGGTGTGGTGG 18611
ii i -v iiii i
AluSx#SINE/Al 101 GGTGAAACCCCGTCTCTACTAAAAATACAAAAATTAGCCGGGCGTGGTGG 150
UnnamedSequen 18612 CATGCACCTCTAATCCCAGCTACTCAGTAGGCTGAGGCAGGAGAATCGCT 18661
ii i v i v
AluSx#SINE/Al 151 CGCGCGCCTGTAATCCCAGCTACTCGGGAGGCTGAGGCAGGAGAATCGCT 200
UnnamedSequen 18662 GGAA-CCGGGAGGCAGAGGTTACAGAGAGCTGAGATCATGCCACTGCACT 18710
v - i i v i ii
AluSx#SINE/Al 201 TGAACCCGGGAGGCGGAGGTTGCAGTGAGCCGAGATCGCGCCACTGCACT 250
UnnamedSequen 18711 CCAGCCT--------------GACTCAGTCTCAAAAAAAAAAGAAAAA 18744
-------------- v i
AluSx#SINE/Al 251 CCAGCCTGGGCGACAGAGCGAGACTCCGTCTCAAAAAAAAAAAAAAAA 298
Matrix = 14p47g.matrix
Kimura (with divCpGMod) = 8.24
Transitions / transversions = 5.50 (33/6)
Gap_init rate = 0.01 (3 / 281), avg. gap size = 5.33 (16 / 3)
+ 1965 12.5 4.4 11.0 UnnamedSequence 18745 18920 (3050) C THE1D LTR/ERVL-MaLR (225) 156 1 37
ANNOTATION EVIDENCE:
1965 12.49 4.44 11.02 UnnamedSequence 18745 18920 2485 C THE1D LTR/ERVL-MaLR 1 156 225
1965 12.49 4.44 11.02 UnnamedSequence 18745 18920 (2485) C THE1D#LTR/ERVL-MaLR (225) 156 1 c_b1s401i3
UnnamedSequen 18745 TCTCATGAGAACTCACTCACTATCAAGAGAACAGCCTGGGGGAAACTGCC 18794
i v v i -
C THE1D#LTR/ERV 156 TCTCGTGAGAACTCACTCACTATCACGAGAACAGCATGGGGGAAACCGC- 108
UnnamedSequen 18795 CCACCCCATGATCCAATCACTTCCC-----TCCCTACTTCAACACATGGG 18839
--- i v----- v i i i
C THE1D#LTR/ERV 107 ---CCCCATGATCCAATCACCTCCACCAGGTCCCTCCCTCGACACGTGGG 61
UnnamedSequen 18840 GATTACAGGTCCCTCCCTCAACACGTAGGGATTAAAATTCTAGATCAGA- 18888
-------------------- i v v v -
C THE1D#LTR/ERV 60 GATTA--------------------TGGGGATTACAATTCGAGATGAGAN 31
UnnamedSequen 18889 TTTGAGTGGGGACACAGAGTTAAACCATATCA 18920
i -- ii
C THE1D#LTR/ERV 30 TTTGGGTGGGGACAC--AGCCAAACCATATCA 1
Matrix = 18p47g.matrix
Kimura (with divCpGMod) = 11.04
Transitions / transversions = 1.43 (10/7)
Gap_init rate = 0.16 (28 / 175), avg. gap size = 1.14 (32 / 28)
+ 1927 13.9 2.2 4.7 UnnamedSequence 18921 19036 (2934) C L1MB1 LINE/L1 (470) 5698 5581 31
ANNOTATION EVIDENCE:
1927 13.89 2.16 4.71 UnnamedSequence 18921 19036 2658 C L1MB1_3end LINE/L1 328 445 470
1927 13.89 2.16 4.71 UnnamedSequence 18921 19036 (2658) C L1MB1_3end#LINE/L1 (470) 445 328 m_b1s551i4
UnnamedSequen 18921 ACATGGGAGTGCCAATATCTCTTGGAGATCATGATTCCAATTATTTTGGA 18970
v v v i v
C L1MB1_3end#LI 445 ACATGGGAGTGCAAATATCTCTTCGAGATCCTGATTTCAATTCTTTTGGA 396
UnnamedSequen 18971 TAAATACCAAAAAACAGGATTGCCG-ATCGTATGGTA------TTTTTAA 19013
v i iii i - i ------
C L1MB1_3end#LI 395 TAAATACCCAGAAGTGGGATTGCTGGATCATATGGTAGTTCTATTTTTAA 346
UnnamedSequen 19014 TTTTTTGAGGAATCTCCACACTA 19036
i -----
C L1MB1_3end#LI 345 TTTTTTGAGGAACCTCCA----- 328
Matrix = 20p47g.matrix
Kimura (with divCpGMod) = 14.93
Transitions / transversions = 1.60 (8/5)
Gap_init rate = 0.06 (7 / 115), avg. gap size = 1.71 (12 / 7)
+ 2006 14.5 1.0 0.0 UnnamedSequence 19037 19326 (2644) C AluSx SINE/Alu (17) 295 3 39
ANNOTATION EVIDENCE:
2006 14.48 1.03 0.00 UnnamedSequence 19037 19326 2644 C AluSx SINE/Alu 3 295 17
2006 14.48 1.03 0.00 UnnamedSequence 19037 19326 (2644) C AluSx#SINE/Alu (17) 295 3 c_b1s352i6
UnnamedSequen 19037 TTTTTGTTTTTTTGAGATGGAGTCTTACTCTGTTGCCCAGGCTGGTGTGC 19086
v i ii i v
C AluSx#SINE/Al 295 TTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGGCTGGAGTGC 246
UnnamedSequen 19087 AGTGGTACGATCTTGGCTCACTGCAACCTCCATCTCCTGCATTCAAGCAA 19136
ii i ii i vi i
C AluSx#SINE/Al 245 AGTGGCGCGATCTCGGCTCACTGCAACCTCCGCCTCCCGGGTTCAAGCGA 196
UnnamedSequen 19137 TTCTC-TGCCTTAGCCTCCTGAGTAGCTGGGATTACAGACACCTACCACC 19185
- i i i i vii
C AluSx#SINE/Al 195 TTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGGCGCGCGCCACC 146
UnnamedSequen 19186 AAGCCCAGATAATTTTTGTGTTTTTAGCAGGGACAGGGTTTCACCATCTT 19235
v i v i i i i v
C AluSx#SINE/Al 145 ACGCCCGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTTCACCATGTT 96
UnnamedSequen 19236 GGCCAAGCTGGTCTTGAACTCCTGACCTT--GTGACCCACCCGCCTCAGG 19283
i i i-- i i i v
C AluSx#SINE/Al 95 GGCCAGGCTGGTCTCGAACTCCTGACCTCAGGTGATCCGCCCGCCTCGGC 46
UnnamedSequen 19284 CTCCCAAAGTGCTAGGATTACAGGTGTGAGCCACCATGCCCAG 19326
i i ii i
C AluSx#SINE/Al 45 CTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGG 3
Matrix = 14p47g.matrix
Kimura (with divCpGMod) = 8.72
Transitions / transversions = 4.25 (34/8)
Gap_init rate = 0.01 (2 / 289), avg. gap size = 1.50 (3 / 2)
+ 1927 13.9 2.2 4.7 UnnamedSequence 19327 19579 (2391) C L1MB1 LINE/L1 (588) 5580 5338 31
ANNOTATION EVIDENCE:
1927 13.89 2.16 4.71 UnnamedSequence 19327 19579 2115 C L1MB1_3end LINE/L1 85 327 588
1927 13.89 2.16 4.71 UnnamedSequence 19327 19579 (2115) C L1MB1_3end#LINE/L1 (588) 327 85 m_b1s551i4
UnnamedSequen 19327 GCTCCATACTGTTTTTCATAACAGCAGCACCATTTTCTGTTCACACCCAT 19376
------ i i i v vii v v i
C L1MB1_3end#LI 327 ------TACTGTTTTCCATAGCGGCTGCACCATTTTACATTCCCACCAAC 284
UnnamedSequen 19377 AGTGCATAAGGGTTCCAATTCTTTCACACCCTCACCACCAGCACTTGTCT 19426
i i ii i i i ---i --
C L1MB1_3end#LI 283 AGTGTACAAGGGTTCCAATTTCTCCACATCCTCGCCA---ACACTTGT-- 239
UnnamedSequen 19427 TAGTTTTT-TTTTTTAAATAATAGCCATCCTGACAGGTATGAGGTGATAT 19475
v - vi i i
C L1MB1_3end#LI 238 TATTTTTTGTTTTTTTGATAATAGCCATCCTAACAGGTGTGAGGTGATAT 189
UnnamedSequen 19476 TTCATTGTGGTTTAGTTTTGCATTTCCCTGGTGATTAGCTATGCTGAGCA 19525
i v v i iv i
C L1MB1_3end#LI 188 CTCATTGTGGTTTTGATTTGCATTTCCCTGATGATTAGTGATGTTGAGCA 139
UnnamedSequen 19526 TTTTTTCAAACACCAGTTGGCCATTTGTATGTCTTCTTTGAAGAAATGTC 19575
i v i v i
C L1MB1_3end#LI 138 TCTTTTCATATACCTGTTGGCCATTTGTATGTCTTCTTTGGAGAAATGTC 89
UnnamedSequen 19576 TGTT 19579
i
C L1MB1_3end#LI 88 TATT 85
Matrix = 20p47g.matrix
Kimura (with divCpGMod) = 14.93
Transitions / transversions = 2.27 (25/11)
Gap_init rate = 0.05 (12 / 252), avg. gap size = 1.00 (12 / 12)
+ 267 16.7 0.0 2.1 UnnamedSequence 19580 19628 (2342) + MER5B DNA/hAT-Charlie 115 162 (16) 40
ANNOTATION EVIDENCE:
267 16.68 0.00 2.08 UnnamedSequence 19580 19628 2066 + MER5B DNA/hAT-Charlie 115 162 16
267 16.68 0.00 2.08 UnnamedSequence 19580 19628 (2066) MER5B#DNA/hAT-Charlie 115 162 (16) m_b1s502i1
UnnamedSequen 19580 GGCATCAATATGTCTTTAAAGCTTCCCAGATGACTCCCACATGCAGCCA 19628
i - i i i i v ii
MER5B#DNA/hAT 115 GGCATCAGTAT-TTTTTAAAGCTCCCCAGGTGATTCCAATGTGCAGCCA 162
Matrix = 20p47g.matrix
Kimura (with divCpGMod) = 19.80
Transitions / transversions = 7.00 (7/1)
Gap_init rate = 0.02 (1 / 48), avg. gap size = 1.00 (1 / 1)
+ 302 24.4 16.8 0.0 UnnamedSequence 19657 19787 (2183) + MIRc SINE/MIR 20 172 (96) 41 *
ANNOTATION EVIDENCE:
302 24.43 16.79 0.00 UnnamedSequence 19657 19787 1907 + MIRc SINE/MIR 20 172 96
302 24.43 16.79 0.00 UnnamedSequence 19657 19787 (1907) MIRc#SINE/MIR 20 172 (96) m_b1s601i17
UnnamedSequen 19657 GGGAAGAGCTTTGTACTTG-AGTTAGAAATCCC--AGTTCAATTTCTTGC 19703
i vi v - i i vv --i i v i iv
MIRc#SINE/MIR 20 GGAAAGAGCACTGGACTTGGAGTCAGGAAGACCTGGGTTCGAGTCCCGGC 69
UnnamedSequen 19704 TCTGCC-CCAACTGGCTAACTAGCCTT-GGCAAG----TTAGCCTC---- 19743
- iv i ivv ii - ---- i ----
MIRc#SINE/MIR 70 TCTGCCACTTACTAGCTGTGTGACCTTGGGCAAGTCACTTAACCTCTCTG 119
UnnamedSequen 19744 -----CACTT--CTCATCATTGAAATGGAG-TCATTAC-CCTGCCCTGCC 19784
----- v -- vv i i - v v i-
MIRc#SINE/MIR 120 AGCCTCAGTTTCCTCATCTGTAAAATGGGGATAATAATACCTGCCCTGCC 169
UnnamedSequen 19785 CAC 19787
i
MIRc#SINE/MIR 170 TAC 172
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 27.87
Transitions / transversions = 1.29 (18/14)
Gap_init rate = 0.08 (10 / 130), avg. gap size = 2.20 (22 / 10)
+ 433 30.8 3.7 0.0 UnnamedSequence 19773 19916 (2054) + MIR SINE/MIR 71 213 (49) 42
ANNOTATION EVIDENCE:
248 30.48 4.76 0.00 UnnamedSequence 19773 19877 1817 + MIR1_Amn SINE/MIR 71 180 50
248 30.48 4.76 0.00 UnnamedSequence 19773 19877 (1817) MIR1_Amn#SINE/MIR 71 180 (50) m_b1s601i18
UnnamedSequen 19773 CCCTGCC-CT-GCCCACTG--TAACCTTGAGCACTGTACTTCATCTCCCC 19818
i - - ?i -- i i vvvi ? i i i
MIR1_Amn#SINE 71 CTCTGCCACTNGCCNGCTGNGTGACCTTGGGCAAGTCACTTNACCTCTCT 120
UnnamedSequen 19819 AAACCACGTTTTCCTTCCCTATAAAATGGAAATAATAACCAT-CCCTCCC 19867
i?i v iv ivi i ii i ivv -v i
MIR1_Amn#SINE 121 GNGCCTCAGTTTCCTCATCTGTAAAATGGGGATAATGATACTGACCTCCT 170
UnnamedSequen 19868 TCTTAGGGTG 19877
iv ii
MIR1_Amn#SINE 171 TTGTAAAGTG 180
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 43.14
Transitions / transversions = 2.20 (22/10)
Gap_init rate = 0.04 (4 / 104), avg. gap size = 1.25 (5 / 4)
433 31.78 0.78 0.00 UnnamedSequence 19788 19916 1778 + MIR SINE/MIR 84 213 49
433 31.78 0.78 0.00 UnnamedSequence 19788 19916 (1778) MIR#SINE/MIR 84 213 (49) m_b1s601i19
UnnamedSequen 19788 TGTAACCTTGAGCACTGTACTTCATCTCCCCAAACCACGTTTTCCTTCCC 19837
i i vvv v i i iivi v iv ivi
MIR#SINE/MIR 84 TGTGACCTTGGGCAAGTTACTTAACCTCTCTGTGCCTCAGTTTCCTCATC 133
UnnamedSequen 19838 TATAAAATGGAAATAATAACCATCCCTCCCTCTTAGGGTGGTGGTGAATC 19887
i ii ivi v v v v v ivv
MIR#SINE/MIR 134 TGTAAAATGGGGATAATAATAGTACCTACCTCATAGGGTTGTTGTGAGGA 183
UnnamedSequen 19888 TCAAGTGTCTCAATGCATG-AAGATGCTTA 19916
i i vv i i - iii
MIR#SINE/MIR 184 TTAAATGAGTTAATACATGTAAAGCGCTTA 213
Matrix = 25p47g.matrix
Kimura (with divCpGMod) = 41.09
Transitions / transversions = 1.28 (23/18)
Gap_init rate = 0.01 (1 / 128), avg. gap size = 1.00 (1 / 1)
+ 18 28.3 2.9 0.0 UnnamedSequence 20022 20089 (1881) + (TATTT)n Simple_repeat 1 70 (0) 43
ANNOTATION EVIDENCE:
18 28.30 2.94 0.00 UnnamedSequence 20022 20089 1605 + (TATTT)n Simple_repeat 1 70 0
18 28.30 2.94 0.00 UnnamedSequence 20022 20089 (1605) (TATTT)n#Simple_repeat 1 70 (0) m_b1s252i12
UnnamedSequen 20022 TATTTTA-TTGCTTCT-TTTTATTGAGTAATCTTTCAGCTTATTTTATTT 20069
- vv i - vvi vv v i vi
(TATTT)n#Simp 1 TATTTTATTTTATTTTATTTTATTTTATTTTATTTTATTTTATTTTATTT 50
UnnamedSequen 20070 TATTGTATGTTTTGTTATTT 20089
v v v v
(TATTT)n#Simp 51 TATTTTATTTTATTTTATTT 70
Matrix = Unknown
Transitions / transversions = 0.33 (4/12)
Gap_init rate = 0.03 (2 / 67), avg. gap size = 1.00 (2 / 2)
+ 561 22.8 0.8 0.8 UnnamedSequence 20347 20474 (1496) + MER5B DNA/hAT-Charlie 50 177 (1) 44
ANNOTATION EVIDENCE:
561 22.84 0.78 0.78 UnnamedSequence 20347 20474 1220 + MER5B DNA/hAT-Charlie 50 177 1
561 22.84 0.78 0.78 UnnamedSequence 20347 20474 (1220) MER5B#DNA/hAT-Charlie 50 177 (1) m_b1s502i2
UnnamedSequen 20347 AAAACTACTGACTCCTGGGTCCCATCCCAGGCCATTTACACCAAAATCTC 20396
v v i iv ii i ? i i v v i i
MER5B#DNA/hAT 50 AAAAATCCCGATGCCCAGGCCNCACCCCAGACCAATTAAATCAGAATCTC 99
UnnamedSequen 20397 TGGGGGTAGAACTCAGGCATCAGTACGTTTGTAATG-TTCCCAAGTGATT 20445
i i i i- v v - i i
MER5B#DNA/hAT 100 TGGGGGTGGGACCCAGGCATCAGTAT-TTTTTAAAGCTCCCCAGGTGATT 148
UnnamedSequen 20446 CCAAAGCTCAGCCAGGGCTAAGAGCCACT 20474
v iv i i i i
MER5B#DNA/hAT 149 CCAATGTGCAGCCAAGGTTGAGAACCACT 177
Matrix = 20p47g.matrix
Kimura (with divCpGMod) = 27.32
Transitions / transversions = 2.22 (20/9)
Gap_init rate = 0.02 (2 / 127), avg. gap size = 1.00 (2 / 2)
+ 1979 14.5 4.3 2.9 UnnamedSequence 21249 21689 (281) + MLT2B4 LTR/ERVL 1 459 (61) 45
ANNOTATION EVIDENCE:
1441 19.53 9.07 4.79 UnnamedSequence 21249 21689 5 + MLT2B1 LTR/ERVL 1 459 61
1441 19.53 9.07 4.79 UnnamedSequence 21249 21689 (5) MLT2B1#LTR/ERVL 1 459 (61) m_b1s502i4
UnnamedSequen 21249 TGTGATGGTTAATTTTATGTGTCCACTTGACTGGGTCACAG--------G 21290
v i ?i --------
MLT2B1#LTR/ER 1 TGTGATGGTTAATTTTATGTGTCAACTTGACTGGGCCANGGGATGCCCAG 50
UnnamedSequen 21291 ATATTTGGTCAAACATT-TTACTGGGTGTTTCTATTCTGGGTGCTT-TGG 21338
vi ? - v v i vv- i -i
MLT2B1#LTR/ER 51 ATAGCTGGTNAAACATTATTTCTGGGTGTGTCTGTGA-GGGTGTTTCCGG 99
UnnamedSequen 21339 ATGAGATTAACATTTTAATTGGTAGATTGAG-AAAGCGGATTGCCCTCCC 21387
v i v i i - ?i i
MLT2B1#LTR/ER 100 AAGAGATTAGCATTTGAATCGGTAGACTGAGTAAAGNAGATCGCCCTCCC 149
UnnamedSequen 21388 TAATGTGGGTGGGCCACATCCAATCTGTTTGAAGTCCTGAATAGAA-GAA 21436
i vv i - i v -i
MLT2B1#LTR/ER 150 CAATGTGGGTGGGCATCATCCAATCCG-TTGAGGGCCTGAATAGAACAAA 198
UnnamedSequen 21437 AAGGCTCACTTTTCCCAAGTTAAGAGAGAATTCCTCCTGCCTGCCTG--- 21483
---------- vi -v i ? vii vi i ---
MLT2B1#LTR/ER 199 AAGG----------CGGAG-GAAGGGNGAATTCGCTCTCTCTGCTTGAGC 237
UnnamedSequen 21484 -------CCTGCCT--TCCAA--CTAAGACATCACCGTT--TGTTTCCT- 21519
-------i i i -- vi-- vi iv i -- v ii-
MLT2B1#LTR/ER 238 TGGGACATCCGTCTTCTCCTGCCCTCGGACATCGGCGCTCCTGGTTCTCG 287
UnnamedSequen 21520 -GCCTTCAGTCTCAAACTGGAACAT------TTGGCTCTTCCTGGGTTTT 21562
- i v ii i v ------ i -i v i i
MLT2B1#LTR/ER 288 GGCCTTCGGACTCGGACTGGGACTTACACCATCGGCTC-CCCTGGTTCTC 336
UnnamedSequen 21563 GAGCCTGTCGGCCTTCAGACTGGAACTACAACATCAGCTCTCCTGGGTCT 21612
ii - v - i v i i i
MLT2B1#LTR/ER 337 AGGCCT-TCGGAC-TCGGACTGGAACTACACCACCGGCTTTCCTGGGTCT 384
UnnamedSequen 21613 CCAGTTTGCCCTCTCACTCTGCAGATCTTGGGATTT----GCCTCCATAA 21658
i ------ vv v v i ----
MLT2B1#LTR/ER 385 CCAGCTTG------CAGACGGCAGATCGTGGGACTTCTCAGCCTCCATAA 428
UnnamedSequen 21659 TTGCATAAGCTAATTCTTTATAACAAATTTC 21689
i i i i i i i i
MLT2B1#LTR/ER 429 TCGCGTGAGCCAATTCCTCATAATAAATCTC 459
Matrix = 20p47g.matrix
Kimura (with divCpGMod) = 18.86
Transitions / transversions = 1.93 (54/28)
Gap_init rate = 0.08 (35 / 440), avg. gap size = 1.77 (62 / 35)
1979 13.48 3.29 2.45 UnnamedSequence 21249 21613 81 + MLT2B4 LTR/ERVL 1 368 188
1979 13.48 3.29 2.45 UnnamedSequence 21249 21613 (81) MLT2B4#LTR/ERVL 1 368 (188) m_b1s502i3
UnnamedSequen 21249 TGTGATGGTTAATTTTATGTGTCCACTTGACTGGGTCACAGG-------- 21290
v i i --------
MLT2B4#LTR/ER 1 TGTGATGGTTAATTTTATGTGTCAACTTGACTGGGCCACGGGGTGCCCAG 50
UnnamedSequen 21291 ATATTTGGTCAAACATTTTACTGGGTGTTTCTATTCTGGGTGCTTT--GG 21338
v v v i vv- i i-- ?
MLT2B4#LTR/ER 51 ATATTTGGTCAAACATTATTCTGGGTGTGTCTGTGA-GGGTGTTTCTGGN 99
UnnamedSequen 21339 ATGAGATTAACATTTTAATTGGTAGATTGAG-AAAGCGGATTGCCCTCCC 21387
v i i - i
MLT2B4#LTR/ER 100 ATGAGATTAACATTTGAATCGGTAGACTGAGTAAAGCAGATTGCCCTCCC 149
UnnamedSequen 21388 TAATGTGGGTGGGCCACATCCAATCTGTTTGAAGTCCTGAATAGAA-GAA 21436
v v - v -i
MLT2B4#LTR/ER 150 TAATGTGGGTGGGCCTCATCCAATCAG-TTGAAGGCCTGAATAGAACAAA 198
UnnamedSequen 21437 AAGGCTCACTTTTCCCAAGTTAAGAGAGAATTCCTCCTGCCTGCCTGCCT 21486
v ii i viiv i ---- v
MLT2B4#LTR/ER 199 AAGGCTGACCCTCCCCCGAGTAAGAGGGAATTCCT----CCTGCCTGACT 244
UnnamedSequen 21487 GCCTTCCAACTAAGACATCACCGTTTGTTTCCTGCCTTCAGTCTCAAACT 21536
v i ii i-- i v i v i
MLT2B4#LTR/ER 245 GCCTTCGAGCTGGGACATCG--GTCTTTTTCCTGCCTTCGGACTCGAACT 292
UnnamedSequen 21537 GGAACATTTGGCTCTTCCTGGGTTTTGAGCCTGTCGGCCTTCAGACTGGA 21586
i - i i i i i
MLT2B4#LTR/ER 293 GAAACA-TCGGCTCTTCCTGGGTCTCGAGCCTGCCGGCCTTCGGACTGGA 341
UnnamedSequen 21587 ACTACAACATCAGCTCTCCTGGGTCTC 21613
v i v
MLT2B4#LTR/ER 342 ACTACACCATCGGCTCTCCTGGTTCTC 368
Matrix = 20p47g.matrix
Kimura (with divCpGMod) = 11.92
Transitions / transversions = 1.53 (29/19)
Gap_init rate = 0.04 (13 / 364), avg. gap size = 1.62 (21 / 13)
+ 1552 17.8 1.1 2.6 UnnamedSequence 21694 21970 (0) + AluJb SINE/Alu 1 273 (39) 46
ANNOTATION EVIDENCE:
1552 17.79 1.08 2.56 UnnamedSequence 21694 21970 0 + AluJb SINE/Alu 1 273 39
1552 17.79 1.08 2.56 UnnamedSequence 21694 21970 (0) AluJb#SINE/Alu 1 273 (39) c_b1s352i7
UnnamedSequen 21694 GGCCAGGTGCTGTGGCTCCCACCTGTAATCCCAGCACCTTGAGAGGCCAA 21743
i i v v i i i i
AluJb#SINE/Al 1 GGCCGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGA 50
UnnamedSequen 21744 AGCAGGAGAATTGCTTGAGGCTAGGAGTTTGAGACCAGCCTGGGCAACAA 21793
i i ? i i v i i v
AluJb#SINE/Al 51 GGCGGGNGGATCGCTTGAGCCCAGGAGTTCGAGACCAGCCTGGGCAACAT 100
UnnamedSequen 21794 AGCAAGATCCCCATCTCTACAAAAATGAAAAATA-AAAAATTAGCTGGGC 21842
i i i - i ------ - i
AluJb#SINE/Al 101 GGCGAAA-CCCCGTCTCTACA------AAAAATACAAAAATTAGCCGGGC 143
UnnamedSequen 21843 ACAGTGGCATGTG-CTGTAGTCCCCGCTTCTCAGGAGGCTGAAGCAGGAG 21891
iii ii i - v v i i i
AluJb#SINE/Al 144 GTGGTGGCGCGCGCCTGTAGTCCCAGCTACTCGGGAGGCTGAGGCGGGAG 193
UnnamedSequen 21892 GATC-CTTGGGCCTAGGAGTTCAAGGCTGTAGTGAGCTATGATGGTGCCA 21940
- i ii v i i ii v i
AluJb#SINE/Al 194 GATCGCTTGAGCCCGGGAGGTCGAGGCTGCAGTGAGCCGTGATCGCGCCA 243
UnnamedSequen 21941 CTGCACTCCAACCTGCATGACAAAGCAAGA 21970
i vii i i
AluJb#SINE/Al 244 CTGCACTCCAGCCTGGGCGACAGAGCGAGA 273
Matrix = 14p47g.matrix
Kimura (with divCpGMod) = 11.33
Transitions / transversions = 4.33 (39/9)
Gap_init rate = 0.04 (10 / 276), avg. gap size = 1.00 (10 / 10)