+ 15 5.6 0.0 0.0 UnnamedSequence 254 272 (14079) + (TA)n Simple_repeat 1 19 (0) 1
ANNOTATION EVIDENCE:
15 5.56 0.00 0.00 UnnamedSequence 254 272 12583 + (TA)n Simple_repeat 1 19 0
15 5.56 0.00 0.00 UnnamedSequence 254 272 (12583) (TA)n#Simple_repeat 1 19 (0) m_b1s252i0
UnnamedSequen 254 TATATATATATATATGTAT 272
i
(TA)n#Simple_ 1 TATATATATATATATATAT 19
Matrix = Unknown
Transitions / transversions = 1.00 (1/0)
Gap_init rate = 0.00 (0 / 18), avg. gap size = 0.0 (0 / 0)
+ 24 0.0 0.0 0.0 UnnamedSequence 877 902 (13449) + (A)n Simple_repeat 1 26 (0) 2
ANNOTATION EVIDENCE:
24 0.00 0.00 0.00 UnnamedSequence 877 902 11953 + (A)n Simple_repeat 1 26 0
24 0.00 0.00 0.00 UnnamedSequence 877 902 (11953) (A)n#Simple_repeat 1 26 (0) m_b1s252i1
UnnamedSequen 877 AAAAAAAAAAAAAAAAAAAAAAAAAA 902
(A)n#Simple_r 1 AAAAAAAAAAAAAAAAAAAAAAAAAA 26
Matrix = Unknown
Transitions / transversions = 1.00 (0/0)
Gap_init rate = 0.00 (0 / 25), avg. gap size = 0.0 (0 / 0)
+ 370 28.7 0.8 0.0 UnnamedSequence 1669 1795 (12556) + MIRb SINE/MIR 3 136 (132) 3
ANNOTATION EVIDENCE:
366 33.86 0.00 0.00 UnnamedSequence 1669 1795 11060 + MIR SINE/MIR 3 129 133
366 33.86 0.00 0.00 UnnamedSequence 1669 1795 (11060) MIR#SINE/MIR 3 129 (133) m_b1s601i0
UnnamedSequen 1669 AATCTAGCCTAGCAGTTAATAGTATTTACTTTGGATTCCTGCAGATTTTG 1718
i v v ii v i ivvi i vi vvi v vi vv
MIR#SINE/MIR 3 AGTATAGCATAGTGGTTAAGAGCACGGGCTCTGGAGCCAGACTGCCTGGG 52
UnnamedSequen 1719 TTTGAGACTCAGTTTTACCACTTTCTCACTATGTGACCTTGAGCAGTTGA 1768
i iv i i i i i v vi i i iv v
MIR#SINE/MIR 53 TTCGAATCCCGGCTCTGCCACTTACTAGCTGTGTGACCTTGGGCAAGTTA 102
UnnamedSequen 1769 CTTAGCCCCTCTGAACCTTAGTTTCCT 1795
i i vi i
MIR#SINE/MIR 103 CTTAACCTCTCTGTGCCTCAGTTTCCT 129
Matrix = 25p43g.matrix
Kimura (with divCpGMod) = 42.29
Transitions / transversions = 1.39 (25/18)
Gap_init rate = 0.00 (0 / 126), avg. gap size = 0.0 (0 / 0)
370 27.27 1.01 0.00 UnnamedSequence 1697 1795 11060 + MIRb SINE/MIR 37 136 132
370 27.27 1.01 0.00 UnnamedSequence 1697 1795 (11060) MIRb#SINE/MIR 37 136 (132) m_b1s601i1
UnnamedSequen 1697 CTTTGGATTCCTGCAGATTTTG-TTTGAGACTCAGTTTTACCACTTTCTC 1745
v vvi ii v - i iv i i i i i v v
MIRb#SINE/MIR 37 CTTTGGAGTCAGACAGACCTGGGTTCGAATCCCGGCTCTGCCACTTACTA 86
UnnamedSequen 1746 ACTATGTGACCTTGAGCAGTTGACTTAGCCCCTCTGAACCTTAGTTTCCT 1795
i i i iv v i i i i
MIRb#SINE/MIR 87 GCTGTGTGACCTTGGGCAAGTTACTTAACCTCTCTGAGCCTCAGTTTCCT 136
Matrix = 25p43g.matrix
Kimura (with divCpGMod) = 32.10
Transitions / transversions = 2.00 (18/9)
Gap_init rate = 0.01 (1 / 98), avg. gap size = 1.00 (1 / 1)
+ 474 20.9 5.4 0.0 UnnamedSequence 1808 1936 (12415) + MIR SINE/MIR 69 204 (58) 4
ANNOTATION EVIDENCE:
474 20.93 5.43 0.00 UnnamedSequence 1808 1936 10919 + MIR SINE/MIR 69 204 58
474 20.93 5.43 0.00 UnnamedSequence 1808 1936 (10919) MIR#SINE/MIR 69 204 (58) m_b1s601i2
UnnamedSequen 1808 GCCACTTTTCATATTCATGACCTTGGGCAAGTCACTTAAC-TCTTTGTTC 1856
vii vv vii i - i v
MIR#SINE/MIR 69 GCCACTTACTAGCTGTGTGACCTTGGGCAAGTTACTTAACCTCTCTGTGC 118
UnnamedSequen 1857 TTCAGTTTCTAT-TCTGTAAAATAGG----ATAATAGTACCAACTTCATA 1901
i ivi- i ---- v i
MIR#SINE/MIR 119 CTCAGTTTCCTCATCTGTAAAATGGGGATAATAATAGTACCTACCTCATA 168
UnnamedSequen 1902 GTTTTGCAGTAAGGATT-AATATGTTAATTCATATA 1936
vv iv i - iv v i
MIR#SINE/MIR 169 GGGTTGTTGTGAGGATTAAATGAGTTAATACATGTA 204
Matrix = 25p43g.matrix
Kimura (with divCpGMod) = 24.84
Transitions / transversions = 1.25 (15/12)
Gap_init rate = 0.03 (4 / 128), avg. gap size = 1.75 (7 / 4)
+ 330 34.4 6.9 1.3 UnnamedSequence 2943 3160 (11191) + MIRb SINE/MIR 39 268 (0) 5
ANNOTATION EVIDENCE:
330 34.39 6.88 1.30 UnnamedSequence 2943 3160 9695 + MIRb SINE/MIR 39 268 0
330 34.39 6.88 1.30 UnnamedSequence 2943 3160 (9695) MIRb#SINE/MIR 39 268 (0) m_b1s601i3
UnnamedSequen 2943 TTGGAGTCAGATAGACCTTAGTTGAAATTCCAGCTCTTCTTTTTTTTGCA 2992
i vi vi i i v ivi vi --
MIRb#SINE/MIR 39 TTGGAGTCAGACAGACCTGGGTTCGAATCCCGGCTCTGCCACTTACT--A 86
UnnamedSequen 2993 ACTAAATGACCATGCTCAATCTA-TTAACCTTCCTGCTTCTTGAGGCCCT 3041
i ivi v vv vi - ii vvi iiivvi
MIRb#SINE/MIR 87 GCTGTGTGACCTTGGGCAAGTTACTTAACCTCTCTGAGCCTCAGTTTCCT 136
UnnamedSequen 3042 CATCTGAGAGATGGAGTTAAAAGGATTGAA--TACATGG-TATTGTG--- 3085
vi i i v v iv iiv v--ii v - i ---
MIRb#SINE/MIR 137 CATCTGTAAAATGGGGATAATAATACCTACCTCGCAGGGTTGTTGTGAGG 186
UnnamedSequen 3086 ----CCTGAGTTAATAGATGGGGAAAACTTGCCACAGCG---GG-GCATG 3127
----vv v iv vii ivi iv i --- -i i
MIRb#SINE/MIR 187 ATTAAATGAGATAATGCATGTAAAGCGCTTAGCACAGTGCCTGGCACATA 236
UnnamedSequen 3128 GCAGGTGCTTGGTCAATGGTAGCTATTTTTATT 3160
i i i iii v -i v
MIRb#SINE/MIR 237 GTAAGCGCTCAATAAATGGTAGCT-CTATTATT 268
Matrix = 25p43g.matrix
Kimura (with divCpGMod) = 43.45
Transitions / transversions = 1.47 (44/30)
Gap_init rate = 0.05 (10 / 217), avg. gap size = 1.80 (18 / 10)
+ 561 25.9 9.1 0.0 UnnamedSequence 4750 4946 (9405) C L2a LINE/L2 (0) 3426 3212 6
ANNOTATION EVIDENCE:
561 25.89 9.14 0.00 UnnamedSequence 4750 4946 7909 C L2a_3end LINE/L2 303 517 0
561 25.89 9.14 0.00 UnnamedSequence 4750 4946 (7909) C L2a_3end#LINE/L2 (0) 517 303 m_b1s601i4
UnnamedSequen 4750 ATTCATTAATTCAACAAGTGTTAATTGAGCACCTACTATGTGCTGGAAAC 4799
v i i v i ii iv
C L2a_3end#LINE 517 ATTCATTCATTCAACAAATATTTATTGAGCGCCTACTATGTGCCAGGCAC 468
UnnamedSequen 4800 TCTTCCACGTGCTGAGGATATAGTAGTAAAAAAAAC------AAATTTGT 4843
v i v i i i i i v ------ i iiv
C L2a_3end#LINE 467 TGTTCTAGGCGCTGGGGATACAGCAGTGAACAAAACAGACAAAAGTCCCT 418
UnnamedSequen 4844 GCTCTCATGGAA-TTAAATTATACTAT-------CATGCAGTAGATCAAT 4885
i i- v v v iv------- vi i i iv
C L2a_3end#LINE 417 GCCCTCATGGAGCTTACATTCTAGTGGGGGGAGACAGACAATAAACAAAT 368
UnnamedSequen 4886 AGCCCACTATATTGTATAG--TGCCAG-TGA-AATAAGTACTATGAAGAA 4931
iviv v v v i -- i - i-i i i
C L2a_3end#LINE 367 AAATAAGTAAAATATATAGTATGTCAGATGGTGATAAGTGCTATGGAGAA 318
UnnamedSequen 4932 ATATAAAACAGGCTA 4946
v i v
C L2a_3end#LINE 317 AAATAAAGCAGGGTA 303
Matrix = 25p43g.matrix
Kimura (with divCpGMod) = 31.05
Transitions / transversions = 1.55 (31/20)
Gap_init rate = 0.03 (6 / 196), avg. gap size = 3.00 (18 / 6)
+ 2426 17.0 5.9 0.4 UnnamedSequence 5305 5794 (8557) C L1MB1 LINE/L1 (5) 6163 5647 7
ANNOTATION EVIDENCE:
2426 17.01 5.92 0.39 UnnamedSequence 5305 5794 7550 C L1MB1_3end LINE/L1 394 910 5
2426 17.01 5.92 0.39 UnnamedSequence 5305 5794 (7550) C L1MB1_3end#LINE/L1 (5) 910 394 c_b1s451i0
UnnamedSequen 5305 ATTGTGGTTAAAAACACATACCAT-AGATTTACTTACTTAACAG-TTTTT 5352
- i v v - i iiv i-
C L1MB1_3end#LI 910 ATTGTGGT-AAGAACACTTAACATGAGATCTACCCTCTTAACAAATTTTT 862
UnnamedSequen 5353 ATGTGTATATTACGGAATTGTTAAGTATATGCCCATTGTGATACAGCAGA 5402
v i v i v v v v v vi
C L1MB1_3end#LI 861 AAGTGTACAATACAGTATTGTTAACTATAGGCACAATGTTGTACAGCAGA 812
UnnamedSequen 5403 GCTCAAGAACTTTTTCCCCTTGCATGAC-ACAACTCT-TGCCCATTGAAT 5450
v v v vi i -iv i - i i
C L1MB1_3end#LI 811 TCTCTAGAACTTATTCATCTTGCATAACTGAAACTTTATACCCGTTGAAT 762
UnnamedSequen 5451 AACAATTTTCTCTTTTCCCCTACCCCCAGCCCCTGGAAACCACCCATTCT 5500
i i ii iv i v v -
C L1MB1_3end#LI 761 AGCAACTCCCCATTTCCCCCTCCCCCCAGCCCCTGGCAACCACC-ATTCT 713
UnnamedSequen 5501 ACTCACTGTTTGTATGAGTTTGATTACTTTAGCAACCTCATATGAGCGGA 5550
v i v i i vv i i
C L1MB1_3end#LI 712 ACTCTCTGCTTCTATGAGTTTGACTATTTTAGATACCTCATATAAGTGGA 663
UnnamedSequen 5551 ATCAAGCAGTATTTGTCATTTTGTGATTGGCTTA---------GCACAAT 5591
v v i i --------- i
C L1MB1_3end#LI 662 ATCATGCAGTATTTGTCCTTCTGTGACTGGCTTATTTCACTTAGCATAAT 613
UnnamedSequen 5592 GTCGTCAAGGTTCATA-ATGCTGTAGCAAATGACAGGATTTCCTTCTTTC 5640
v v- i v v i i
C L1MB1_3end#LI 612 GTCCTCAAGGTTCATCCATGTTGTCGCATATGGCAGGATTTCCTTCTTTT 563
UnnamedSequen 5641 TTAAAGCTGAATAATGTCCCATTATATGTATATACCATATTTTGTGTACC 5690
i i i i i v v i
C L1MB1_3end#LI 562 TTAAGGCTGAATAATATTCCATTGTATGTATATACCACATTTTCTTTATC 513
UnnamedSequen 5691 CATTTATCTTTGGATGGA---------------TACATTGTGGTTATTGT 5725
i iv v ---------------i iv i
C L1MB1_3end#LI 512 CATTCATCCGTCGATGGACATTTAGGTTGTTTCCACATCTTGGCTATTGT 463
UnnamedSequen 5726 GAACAATGTTGCAATGAACATGGGTGTGCAAGTATCTCTTTGAGATCCTG 5775
i i v i i
C L1MB1_3end#LI 462 GAATAATGCTGCAATGAACATGGGAGTGCAAATATCTCTTCGAGATCCTG 413
UnnamedSequen 5776 TTTTCAAATCTTTTGGATA 5794
v v
C L1MB1_3end#LI 412 ATTTCAATTCTTTTGGATA 394
Matrix = 18p43g.matrix
Kimura (with divCpGMod) = 18.71
Transitions / transversions = 1.24 (46/37)
Gap_init rate = 0.02 (9 / 489), avg. gap size = 3.44 (31 / 9)
+ 209 24.5 0.0 0.0 UnnamedSequence 5960 6012 (8339) C MIR SINE/MIR (0) 262 210 8
ANNOTATION EVIDENCE:
209 24.53 0.00 0.00 UnnamedSequence 5960 6012 7332 C MIR SINE/MIR 210 262 0
209 24.53 0.00 0.00 UnnamedSequence 5960 6012 (7332) C MIR#SINE/MIR (0) 262 210 m_b1s601i5
UnnamedSequen 5960 AATAAAAGCTAACACTTCTATGGTGACTACTATGTGCTGGGCACACTTCT 6009
v i v vvi i vi ii vv
C MIR#SINE/MIR 262 AATAATAGCTAACATTTATTGAGCGCTTACTATGTGCCAGGCACTGTTCT 213
UnnamedSequen 6010 AAG 6012
C MIR#SINE/MIR 212 AAG 210
Matrix = 25p43g.matrix
Kimura (with divCpGMod) = 27.29
Transitions / transversions = 0.86 (6/7)
Gap_init rate = 0.00 (0 / 52), avg. gap size = 0.0 (0 / 0)
+ 212 22.1 5.4 8.3 UnnamedSequence 6072 6145 (8206) C MIR SINE/MIR (175) 87 16 8
ANNOTATION EVIDENCE:
212 22.11 5.41 8.33 UnnamedSequence 6072 6145 7199 C MIR SINE/MIR 16 87 175
212 22.11 5.41 8.33 UnnamedSequence 6072 6145 (7199) C MIR#SINE/MIR (175) 87 16 m_b1s601i6
UnnamedSequen 6072 CACACAGTTA---ACTGGCAAAAGAAGGATGGGATGTGGTCCCAGGCAGT 6118
i --- v i ----- vi vi iv
C MIR#SINE/MIR 87 CACACAGCTAGTAAGTGGCAGA-----GCCGGGATTCGAACCCAGGCAGT 43
UnnamedSequen 6119 CTGGCTTCAGAATTCTGTAC-CTAAACC 6145
i i-i i i - v
C MIR#SINE/MIR 42 CTGGCTCCAGAG-CCCGTGCTCTTAACC 16
Matrix = 25p43g.matrix
Kimura (with divCpGMod) = 20.98
Transitions / transversions = 2.00 (10/5)
Gap_init rate = 0.11 (8 / 73), avg. gap size = 1.25 (10 / 8)
+ 515 28.9 10.4 1.8 UnnamedSequence 6500 6710 (7641) C MIRb SINE/MIR (23) 245 17 9
ANNOTATION EVIDENCE:
515 28.95 10.43 1.75 UnnamedSequence 6500 6710 6634 C MIRb SINE/MIR 17 245 23
515 28.95 10.43 1.75 UnnamedSequence 6500 6710 (6634) C MIRb#SINE/MIR (23) 245 17 m_b1s601i7
UnnamedSequen 6500 AGTGCTTGGTGCATGTTAGACCTTATTGTAAGTGTTTTA--TGTATTCTC 6547
i iv iii ii i vi i vv i i -- i v
C MIRb#SINE/MIR 245 AGCGCTTACTATGTGCCAGGCACTGTGCTAAGCGCTTTACATGCATTATC 196
UnnamedSequen 6548 TTATT-AATCCCTA--ACAAGGCACCAAAGGGCAGATATAACGATCCTCA 6594
i - ii -- -- v iivii i i v iv i
C MIRb#SINE/MIR 195 TCATTTAATCCTCACAACAA--CCCTGCGAGGTAGGTATTATTATCCCCA 148
UnnamedSequen 6595 TTTTACAGATGAGGAAACTGAGGTTCGGAGACGTTAAGCATGTTATCCAA 6644
i i v i vv ii
C MIRb#SINE/MIR 147 TTTTACAGATGAGGAAACTGAGGCTCAGAGAGGTTAAGTAACTTGCCCAA 98
UnnamedSequen 6645 GAATGCACAG-----------------CGGAAGTCCAAGCCTGGTTTGTT 6677
ivii ----------------- i v v v v i i
C MIRb#SINE/MIR 97 GGTCACACAGCTAGTAAGTGGCAGAGCCGGGATTCGAACCCAGGTCTGTC 48
UnnamedSequen 6678 GGTCTCCCAAGGCAGTGCTCCTGACATTCTGCA 6710
v v v v v i vv --
C MIRb#SINE/MIR 47 TGACTCCAAAGCCCGTGCTCTTTCCA--CTGCA 17
Matrix = 25p43g.matrix
Kimura (with divCpGMod) = 35.38
Transitions / transversions = 1.50 (36/24)
Gap_init rate = 0.04 (8 / 210), avg. gap size = 3.25 (26 / 8)
+ 15 5.6 0.0 0.0 UnnamedSequence 9802 9820 (4531) + (T)n Simple_repeat 1 19 (0) 10
ANNOTATION EVIDENCE:
15 5.56 0.00 0.00 UnnamedSequence 9802 9820 3524 + (T)n Simple_repeat 1 19 0
15 5.56 0.00 0.00 UnnamedSequence 9802 9820 (3524) (T)n#Simple_repeat 1 19 (0) m_b1s252i2
UnnamedSequen 9802 TTTTTTTTTTTCTTTTTTT 9820
i
(T)n#Simple_r 1 TTTTTTTTTTTTTTTTTTT 19
Matrix = Unknown
Transitions / transversions = 1.00 (1/0)
Gap_init rate = 0.00 (0 / 18), avg. gap size = 0.0 (0 / 0)
+ 244 36.5 3.1 3.7 UnnamedSequence 9848 10009 (4342) C MamRTE1 LINE/RTE-BovB (1159) 2653 2493 11
ANNOTATION EVIDENCE:
244 36.55 3.09 3.73 UnnamedSequence 9848 10009 3335 C MamRTE1 LINE/RTE-BovB 2493 2653 1159
244 36.55 3.09 3.73 UnnamedSequence 9848 10009 (3335) C MamRTE1#LINE/RTE-BovB (1159) 2653 2493 m_b1s601i8
UnnamedSequen 9848 TTGAA-AAGACCAAATCAATTATGAAGCCTTGGTCTACATTGCTCATTG- 9895
- iii i v i v ii i -- v i --i -
C MamRTE1#LINE/ 2653 TTGAATAAGACTGGACCTATTACGCAATCCTG--CTTCACT--CCATTGG 2608
UnnamedSequen 9896 TAATGCT---TGGGTTGGAAAAGGTGGCTTCAGCTTTAATATGTTGAGAA 9942
i vv--- i v i ii v v i i i iii vivi --
C MamRTE1#LINE/ 2607 TGATGGGGAATGGGTCGGACAGGACGCCGTCAACTCTGACGCGACCGG-- 2560
UnnamedSequen 9943 TTAGAGGAACATAAAGTGGATTCAGAATCCTAGTGGACTTCTCTAGACAG 9992
ii v vv v ii i vi i i i i i vi i
C MamRTE1#LINE/ 2559 CCATACCATCATGGAGTAGCCTTAGGATCTTGGTGAACTTCTCAGGGCAG 2510
UnnamedSequen 9993 CAAAGCATGCTTGGAAG 10009
v i v i v
C MamRTE1#LINE/ 2509 CCAAACTTGCTTAGTAG 2493
Matrix = 25p43g.matrix
Kimura (with divCpGMod) = 45.64
Transitions / transversions = 2.00 (38/19)
Gap_init rate = 0.06 (9 / 161), avg. gap size = 1.22 (11 / 9)
+ 257 29.1 1.3 0.0 UnnamedSequence 10075 10153 (4198) + L2b LINE/L2 3291 3370 (5) 12
ANNOTATION EVIDENCE:
257 29.11 1.27 0.00 UnnamedSequence 10075 10153 3191 + L2b_3end LINE/L2 382 461 5
257 29.11 1.27 0.00 UnnamedSequence 10075 10153 (3191) L2b_3end#LINE/L2 382 461 (5) m_b1s601i9
UnnamedSequen 10075 TCTTGTTCATAGCTCTATCCATGACGATTATCGAAGA-CTTGCTACCCAG 10123
iv v viii vi v iv ?- i vi v
L2b_3end#LINE 382 TCTTGTTCACCGCTGTATCCCCAGCGCCTAGCACAGNGCCTGGCACACAG 431
UnnamedSequen 10124 TGAGGACTCAGTAAATAACTGTTGAATAAA 10153
ii vi vi i
L2b_3end#LINE 432 TAGGCGCTCAGTAAATATTTGTTGAATGAA 461
Matrix = 25p43g.matrix
Kimura (with divCpGMod) = 36.26
Transitions / transversions = 1.30 (13/10)
Gap_init rate = 0.01 (1 / 78), avg. gap size = 1.00 (1 / 1)
+ 493 26.6 1.5 15.0 UnnamedSequence 10290 10621 (3730) + Eutr11 DNA 69 361 (496) 13
ANNOTATION EVIDENCE:
493 26.58 1.51 15.02 UnnamedSequence 10290 10621 2723 + Eutr11 DNA 69 361 496
493 26.58 1.51 15.02 UnnamedSequence 10290 10621 (2723) Eutr11#DNA 69 361 (496) m_b1s502i0
UnnamedSequen 10290 TTTCATCCTAATTATTCCA-CAGCAATGCATTTTTTGCTGAAAAAATATT 10338
v vv v - vii v i- ii i i
Eutr11#DNA 69 TTTAATCAGAATTATACCAACATTGATGAATTTTC-GTCGAGAAAGTATT 117
UnnamedSequen 10339 TTTTTTTCTGGAGTGAATTGCATCAAATCAATTTAATTTCT-GATCACTT 10387
----- i i i v i ii i - v
Eutr11#DNA 118 TT-----CCGGAGCGAACTCCATTAAGCCAATTTAATTCCTTGATCAATT 162
UnnamedSequen 10388 TTCTGCAGAGTACGTTGAAACCACTTCTAATATTTCCATTTTCATTCTTA 10437
ii v ii iv v i i ? v ----- i
Eutr11#DNA 163 TTCTATACAGCGCAGTTAAACCATTTCCANTTTTTCC-----CATTTTTA 207
UnnamedSequen 10438 TTTTCTTACTTTTGTTGAGATCTTTTTTCCTGTGAAAATTTTGTAATGAA 10487
v ---- ii i - v v -------------------
Eutr11#DNA 208 TTTTATT----TTACTGAAAT-TATTTTCAT------------------- 233
UnnamedSequen 10488 AGTTGATTCATCAGTTAGTTCTTTTTTCCACATCTAGTATTGCCAAATAT 10537
-- iii ivvv i v i v i v i i v
Eutr11#DNA 234 --TTGATTCATTGATCTCATTTTTTGTCCATATCAAATTTTACCGATTAT 281
UnnamedSequen 10538 GGCTTCTTTCATTTCTATGTTTTTAACCCCCTTTGGACCCA-TATTTTTA 10586
i vi - v iv ------ i viv - i
Eutr11#DNA 282 AGCTTCTGCCA-TTGTGAGTTTT------CTTTTGTGGCCATTATTTCTA 324
UnnamedSequen 10587 CTAAGTCTAATGCTCACAGGTAAAA--TTGAAGATCT 10621
i i vi v i v -- v
Eutr11#DNA 325 CCAAGTCCAATTTTCCCGGGTCAAATTTTGCAGATCT 361
Matrix = 20p43g.matrix
Kimura (with divCpGMod) = 29.19
Transitions / transversions = 1.42 (44/31)
Gap_init rate = 0.15 (48 / 331), avg. gap size = 1.02 (49 / 48)
+ 363 21.0 8.0 0.0 UnnamedSequence 10627 10726 (3625) + Eutr11 DNA 576 683 (174) 14
ANNOTATION EVIDENCE:
363 21.00 8.00 0.00 UnnamedSequence 10627 10726 2618 + Eutr11 DNA 576 683 174
363 21.00 8.00 0.00 UnnamedSequence 10627 10726 (2618) Eutr11#DNA 576 683 (174) m_b1s502i1
UnnamedSequen 10627 TTTAACTGTTGCCAATTTTATTTTAGGTTGACTGATTCTACC----ATAT 10672
i ii i i iv i iv ----
Eutr11#DNA 576 TTTAGCCATTGTCAGTTTTATTTTGTGTTGATTATTTCTACCAGTAATAT 625
UnnamedSequen 10673 --GTTAT-AAGGGGACAAAGGAC-GGTAGCTTGTATTTATGTCCTAGCTA 10718
--i - vv i i - i i v i
Eutr11#DNA 626 TCATTATGAATTGGATAAAAGACTGATAGTTTGTATTTATTTCTTAGCTA 675
UnnamedSequen 10719 ATTCTTGA 10726
i v
Eutr11#DNA 676 ATCCATGA 683
Matrix = 20p43g.matrix
Kimura (with divCpGMod) = 25.51
Transitions / transversions = 2.50 (15/6)
Gap_init rate = 0.04 (4 / 99), avg. gap size = 2.00 (8 / 4)
+ 150 7.2 1.7 2.2 UnnamedSequence 10925 11145 (3206) + (TCTT)n Simple_repeat 1 220 (0) 15
ANNOTATION EVIDENCE:
150 7.15 1.72 2.16 UnnamedSequence 10925 11145 2511 + (TCTT)n Simple_repeat 1 220 12
150 7.15 1.72 2.16 UnnamedSequence 10925 11145 (2511) (TCTT)n#Simple_repeat 1 220 (12) m_b1s252i3
UnnamedSequen 10925 TCTTTC-TT-TTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTC 10972
- -
(TCTT)n#Simpl 1 TCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTC 50
UnnamedSequen 10973 TTTCTTTCTTTCTTTCTTTCTTTCTTTCTGT-TTACTTCCTTCCTTCCTC 11021
v - v i i --
(TCTT)n#Simpl 51 TTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTT--TC 98
UnnamedSequen 11022 TTTC-TTCTTTCCTTCCTTCCTTTGCTTGCTTTCTTTCTTCCTTTGCTTT 11070
- - i i - v i -
(TCTT)n#Simpl 99 TTTCTTTCTTT-CTTTCTTTCTTT-CTTTCTTTCTTTCTTTCTTT-CTTT 145
UnnamedSequen 11071 CTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCT 11120
(TCTT)n#Simpl 146 CTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCTTTCT 195
UnnamedSequen 11121 CTCTCTCTCTCTTTCTCTCTCTCTC 11145
i i i i i i
(TCTT)n#Simpl 196 TTCTTTCTTTCTTTCTTTCTTTCTT 220
Matrix = Unknown
Transitions / transversions = 3.67 (11/3)
Gap_init rate = 0.04 (9 / 220), avg. gap size = 1.00 (9 / 9)
+ 1856 14.6 1.9 3.6 UnnamedSequence 11146 11458 (2893) C AluSx SINE/Alu (4) 308 1 16
ANNOTATION EVIDENCE:
1856 14.58 1.92 3.57 UnnamedSequence 11146 11458 2797 C AluSx SINE/Alu 1 308 4
1856 14.58 1.92 3.57 UnnamedSequence 11146 11458 (2797) C AluSx#SINE/Alu (4) 308 1 c_b1s352i0
UnnamedSequen 11146 TTCTCTCTCTCTTTTTCTGTTTTTTTGA--TGGAGTCTCACT--GTCACC 11191
i i i i i i v --i i -- i
C AluSx#SINE/Al 308 TTTTTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCC 259
UnnamedSequen 11192 CAGGCTGGAGTGCAGTGGCATGATCTCGGCTCACTGAAGCCTCCATTTCC 11241
ii v i iii
C AluSx#SINE/Al 258 CAGGCTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAACCTCCGCCTCC 209
UnnamedSequen 11242 -AGGTTCAAGCGATTCTCCCGCCTCATCCTTCTAAGTAGCAGGGATCGCA 11290
-i i v i ii v ii
C AluSx#SINE/Al 208 CGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACA 159
UnnamedSequen 11291 GGCACGCGCCACCACGCCTGGCTATTTTTTTTTTTATTTTT-TATTTTTA 11339
i i ----------- -
C AluSx#SINE/Al 158 GGCGCGCGCCACCACGCCCGGCTA-----------ATTTTTGTATTTTTA 120
UnnamedSequen 11340 GTAAAGACAGAGTTTCACCATTTTAGCCAGGCTGGTCTCGAACTCCTGAC 11389
i i i v i
C AluSx#SINE/Al 119 GTAGAGACGGGGTTTCACCATGTTGGCCAGGCTGGTCTCGAACTCCTGAC 70
UnnamedSequen 11390 TTCAGGTTATCCACCTGCCTTGGCCTCCCAAAGTGCTGGGATTGCAGGCA 11439
i v i i i i i
C AluSx#SINE/Al 69 CTCAGGTGATCCGCCCGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCG 20
UnnamedSequen 11440 TGAGACACCACACCCAGCC 11458
v i i i
C AluSx#SINE/Al 19 TGAGCCACCGCGCCCGGCC 1
Matrix = 14p43g.matrix
Kimura (with divCpGMod) = 9.92
Transitions / transversions = 5.29 (37/7)
Gap_init rate = 0.05 (15 / 312), avg. gap size = 1.13 (17 / 15)
+ 150 7.2 1.7 2.2 UnnamedSequence 11459 11469 (2882) + (TCTT)n Simple_repeat 1 11 (0) 17
ANNOTATION EVIDENCE:
150 7.15 1.72 2.16 UnnamedSequence 11459 11469 2187 + (TCTT)n Simple_repeat 221 231 1
150 7.15 1.72 2.16 UnnamedSequence 11459 11469 (2187) (TCTT)n#Simple_repeat 221 231 (1) m_b1s252i3
UnnamedSequen 11459 TTTTCTTTCTT 11469
i
(TCTT)n#Simpl 221 CTTTCTTTCTT 231
Matrix = Unknown
Transitions / transversions = 1.00 (1/0)
Gap_init rate = 0.00 (0 / 10), avg. gap size = 0.0 (0 / 0)
+ 1182 13.5 6.7 0.0 UnnamedSequence 11473 11665 (2686) C AluSx SINE/Alu (8) 304 99 18
ANNOTATION EVIDENCE:
1182 13.47 6.74 0.00 UnnamedSequence 11473 11665 1991 C AluSx SINE/Alu 99 304 8
1182 13.47 6.74 0.00 UnnamedSequence 11473 11665 (1991) C AluSx#SINE/Alu (8) 304 99 m_b1s356i0
UnnamedSequen 11473 TTTTTTTTGTTTGTTTGTTTTTCAGAAGGAGTCTCACT--GTCGCCCAAG 11520
v v v v v i -- i
C AluSx#SINE/Al 304 TTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAGG 255
UnnamedSequen 11521 CTGGAGTGCGGTGGC-----------TCACTGCAACCTCTGCCTCCTTAG 11559
i ----------- i ivi
C AluSx#SINE/Al 254 CTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAACCTCCGCCTCCCGGG 205
UnnamedSequen 11560 TTCAAGCGATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGTACTACAGGTG 11609
i v i i
C AluSx#SINE/Al 204 TTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGGCG 155
UnnamedSequen 11610 TGTGCCACCATATCTGGCTAACTTTTGTATTTTTAGTATAGATGGGGTTT 11659
i i iii i i v i
C AluSx#SINE/Al 154 CGCGCCACCACGCCCGGCTAATTTTTGTATTTTTAGTAGAGACGGGGTTT 105
UnnamedSequen 11660 CACTAT 11665
i
C AluSx#SINE/Al 104 CACCAT 99
Matrix = 14p43g.matrix
Kimura (with divCpGMod) = 9.34
Transitions / transversions = 2.25 (18/8)
Gap_init rate = 0.01 (2 / 192), avg. gap size = 6.50 (13 / 2)
+ 17 9.4 5.7 0.0 UnnamedSequence 11764 11798 (2553) + (ATGTT)n Simple_repeat 1 37 (0) 19
ANNOTATION EVIDENCE:
17 9.40 5.71 0.00 UnnamedSequence 11764 11798 1858 + (ATGTT)n Simple_repeat 1 37 0
17 9.40 5.71 0.00 UnnamedSequence 11764 11798 (1858) (ATGTT)n#Simple_repeat 1 37 (0) m_b1s252i5
UnnamedSequen 11764 ATATTATG-T-TGTTATGCTATGCTATGTTATGTTAT 11798
i - - i i
(ATGTT)n#Simp 1 ATGTTATGTTATGTTATGTTATGTTATGTTATGTTAT 37
Matrix = Unknown
Transitions / transversions = 1.00 (3/0)
Gap_init rate = 0.06 (2 / 34), avg. gap size = 1.00 (2 / 2)
+ 875 21.7 0.0 0.0 UnnamedSequence 11805 11961 (2390) C AluJb SINE/Alu (19) 293 137 20
ANNOTATION EVIDENCE:
875 21.66 0.00 0.00 UnnamedSequence 11805 11961 1695 C AluJb SINE/Alu 137 293 19
875 21.66 0.00 0.00 UnnamedSequence 11805 11961 (1695) C AluJb#SINE/Alu (19) 293 137 m_b1s356i1
UnnamedSequen 11805 TTTATTTATTTGAGACAGGGTCCCACTCTGTCACCCAGGCTGGAGTGCAG 11854
v v i i i
C AluJb#SINE/Al 293 TTTTTTTTTTTGAGACAGGGTCTCGCTCTGTCGCCCAGGCTGGAGTGCAG 244
UnnamedSequen 11855 TGGCACTATTACAGCTCACTGCAGCCTCGACCTCCTGGGCTCGGGTAATA 11904
i v i i i ii ii v
C AluJb#SINE/Al 243 TGGCGCGATCACGGCTCACTGCAGCCTCGACCTCCCGGGCTCAAGCGATC 194
UnnamedSequen 11905 CTGCTGCCTTACCATCCCAAAGTGTTAGGATTACAGGTGTGTACCACCAT 11954
v i i v v i ivv i i i i i ii i
C AluJb#SINE/Al 193 CTCCCGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCGCGCCACCAC 144
UnnamedSequen 11955 GTCTGGC 11961
i i
C AluJb#SINE/Al 143 GCCCGGC 137
Matrix = 14p43g.matrix
Kimura (with divCpGMod) = 15.74
Transitions / transversions = 2.78 (25/9)
Gap_init rate = 0.00 (0 / 156), avg. gap size = 0.0 (0 / 0)
+ 2169 9.8 3.0 0.0 UnnamedSequence 12070 12364 (1987) C AluY SINE/Alu (7) 304 1 21
ANNOTATION EVIDENCE:
2169 9.83 3.05 0.00 UnnamedSequence 12070 12364 1891 C AluY SINE/Alu 1 304 7
2169 9.83 3.05 0.00 UnnamedSequence 12070 12364 (1891) C AluY#SINE/Alu (7) 304 1 c_b1s352i1
UnnamedSequen 12070 TTTTATTATTATTATTATTTTTTGAGATGGAGTCTCGCTCTGTCACCCAG 12119
v v v v v i i
C AluY#SINE/Alu 304 TTTTTTTTTTTTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGCCCAG 255
UnnamedSequen 12120 GCTGGAGTGCAGTGGCACAATCTCGGCTCACTTCAAGCTCTGCCTCCCAG 12169
i i v i i
C AluY#SINE/Alu 254 GCTGGAGTGCAGTGGCGCGATCTCGGCTCACTGCAAGCTCCGCCTCCCGG 205
UnnamedSequen 12170 GTTCACACCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGC 12219
i i
C AluY#SINE/Alu 204 GTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGC 155
UnnamedSequen 12220 ACCTGCCACCATGCCTGGCTAATTTTTTA-GTTTTTAAT--------TTT 12260
i i i i i-i i --------vv
C AluY#SINE/Alu 154 GCCCGCCACCACGCCCGGCTAATTTTTTGTATTTTTAGTAGAGACGGGGT 105
UnnamedSequen 12261 TTCACCATGTTAGCTAGGATGGTCTCAATCTCCTGACCTCGTGATCCTCC 12310
i i i v
C AluY#SINE/Alu 104 TTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTGACCTCGTGATCCGCC 55
UnnamedSequen 12311 CACCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCACGCCC 12360
i i
C AluY#SINE/Alu 54 CGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCC 5
UnnamedSequen 12361 GGCC 12364
C AluY#SINE/Alu 4 GGCC 1
Matrix = 14p43g.matrix
Kimura (with divCpGMod) = 5.12
Transitions / transversions = 2.22 (20/9)
Gap_init rate = 0.01 (2 / 294), avg. gap size = 4.50 (9 / 2)
+ 58 14.5 0.7 5.4 UnnamedSequence 12673 12788 (1563) + (TTCTT)n Simple_repeat 1 109 (0) 22
ANNOTATION EVIDENCE:
58 14.54 0.74 5.38 UnnamedSequence 12673 12788 1563 + (TTCTT)n Simple_repeat 1 109 21
58 14.54 0.74 5.38 UnnamedSequence 12673 12788 (1563) (TTCTT)n#Simple_repeat 1 109 (21) m_b1s252i6
UnnamedSequen 12673 TTCTTTTCTTTTCTTTTCTTTTCTTTTTTCTTTTCTTTTCTCTTCTCTTC 12722
-- - - i
(TTCTT)n#Simp 1 TTCTTTTCTTTTCTTTTCTTTTC--TTTTCTTTTCTTTTCT-TT-TCTTT 46
UnnamedSequen 12723 TCCTTCCTTTTCTTTTCTTTTCCTTTCCTTTCTGTTACTTTCCCTTTTCT 12772
i i i i - v -i
(TTCTT)n#Simp 47 TCTTTTCTTTTCTTTTCTTTTCTTTTCTTTTCT-TTTCTTT-TCTTTTCT 94
UnnamedSequen 12773 TTTTCATCCAATTATC 12788
iiv i vv v -
(TTCTT)n#Simp 95 TTTCTTTTCTTTTCT- 109
Matrix = Unknown
Transitions / transversions = 1.80 (9/5)
Gap_init rate = 0.06 (7 / 115), avg. gap size = 1.00 (7 / 7)
+ 80 4.4 1.0 1.0 UnnamedSequence 12799 12895 (1456) + (CCTT)n Simple_repeat 1 97 (0) 23
ANNOTATION EVIDENCE:
80 4.40 1.03 1.03 UnnamedSequence 12799 12895 1456 + (CCTT)n Simple_repeat 1 97 0
80 4.40 1.03 1.03 UnnamedSequence 12799 12895 (1456) (CCTT)n#Simple_repeat 1 97 (0) c_b1s251i0
UnnamedSequen 12799 CCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCC 12848
(CCTT)n#Simpl 1 CCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCCTTCC 50
UnnamedSequen 12849 TTCCTTCCTTCCTTCCTTTCTTCCCTCCCTCCCTCCCTTCC-TCCTTC 12895
i - i i i -
(CCTT)n#Simpl 51 TTCCTTCCTTCCTTCCTTCCTT-CCTTCCTTCCTTCCTTCCTTCCTTC 97
Matrix = Unknown
Transitions / transversions = 1.00 (4/0)
Gap_init rate = 0.02 (2 / 96), avg. gap size = 1.00 (2 / 2)
+ 1968 17.0 0.3 0.0 UnnamedSequence 12896 13190 (1161) C AluJb SINE/Alu (15) 297 2 24
ANNOTATION EVIDENCE:
1968 16.99 0.33 0.00 UnnamedSequence 12896 13190 1161 C AluJb SINE/Alu 2 297 15
1968 16.99 0.33 0.00 UnnamedSequence 12896 13190 (1161) C AluJb#SINE/Alu (15) 297 2 c_b1s352i2
UnnamedSequen 12896 TTTTTTGTTTTCTTGAGACAGAGTCTTACTCTGTTGCCCAGGCTGGAGTG 12945
v i i ii i
C AluJb#SINE/Al 297 TTTTTTTTTTTTTTGAGACAGGGTCTCGCTCTGTCGCCCAGGCTGGAGTG 248
UnnamedSequen 12946 CAGTGACACAATTATGGCTCACTGCAGCCTTGAATTCCCCAGCTCAAGCA 12995
i i i i i i vi vi i
C AluJb#SINE/Al 247 CAGTGGCGCGATCACGGCTCACTGCAGCCTCGACCTCCCGGGCTCAAGCG 198
UnnamedSequen 12996 ATCTTTGCACCTCAAACTTCCAAGTAGCTGGGA-TACAGGCATGCGCCAC 13044
i iv i iv i i - ii
C AluJb#SINE/Al 197 ATCCTCCCGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGCGCGCGCCAC 148
UnnamedSequen 13045 CACGCCTAGCTAATTTTTGTATTTTTTGTAGAAAGAGGGTTTCTCTATGT 13094
ii i vi v i
C AluJb#SINE/Al 147 CACGCCCGGCTAATTTTTGTATTTTTTGTAGAGACGGGGTTTCGCCATGT 98
UnnamedSequen 13095 TGCCCAGAATGGCCTTGAATTTCTGGGCTCAAGTGATCCACACACCTTGG 13144
iv i i i i i ? v i i
C AluJb#SINE/Al 97 TGCCCAGGCTGGTCTCGAACTCCTGGGCTCAAGCGATCCNCCCGCCTCGG 48
UnnamedSequen 13145 CCTCCCAAAGTGCTGTGATTACAGGTGGGAGCCACTGTGCCTGGCC 13190
v i v i i i
C AluJb#SINE/Al 47 CCTCCCAAAGTGCTGGGATTACAGGCGTGAGCCACCGCGCCCGGCC 2
Matrix = 14p43g.matrix
Kimura (with divCpGMod) = 11.82
Transitions / transversions = 3.55 (39/11)
Gap_init rate = 0.00 (1 / 294), avg. gap size = 1.00 (1 / 1)
+ 58 14.5 0.7 5.4 UnnamedSequence 13191 13209 (1142) + (TTCTT)n Simple_repeat 5 24 (0) 25
ANNOTATION EVIDENCE:
58 14.54 0.74 5.38 UnnamedSequence 13191 13209 1142 + (TTCTT)n Simple_repeat 110 129 1
58 14.54 0.74 5.38 UnnamedSequence 13191 13209 (1142) (TTCTT)n#Simple_repeat 110 129 (1) m_b1s252i6
UnnamedSequen 13191 TACATTT-TTTTCTTTTCTT 13209
v v -
(TTCTT)n#Simp 110 TTCTTTTCTTTTCTTTTCTT 129
Matrix = Unknown
Transitions / transversions = 0.00 (0/2)
Gap_init rate = 0.06 (1 / 18), avg. gap size = 1.00 (1 / 1)
+ 6946 7.4 0.7 0.0 UnnamedSequence 13210 14351 (0) C L1PA7 LINE/L1 (0) 6154 5006 26
ANNOTATION EVIDENCE:
6946 7.45 0.22 0.00 UnnamedSequence 13210 14108 243 C L1PA7_3end LINE/L1 1 901 0
6946 7.45 0.22 0.00 UnnamedSequence 13210 14108 (243) C L1PA7_3end#LINE/L1 (0) 901 1 m_b1s551i0
UnnamedSequen 13210 TTTTTTTTTTTTAATTATACTTTTAGTTCTGGGATACATGTGCAGAACAT 13259
v v v i
C L1PA7_3end#LI 901 TTTTTTTTTTATTATTATACTTTAAGTTCTGGGATACATGTGCAGAACGT 852
UnnamedSequen 13260 GCAGGTTTGTTACACAGGTATACACGTGCCATGGTAGTTTGCTGCACTCA 13309
i i i
C L1PA7_3end#LI 851 GCAGGTTTGTTACATAGGTATACACGTGCCATGGTGGTTTGCTGCACCCA 802
UnnamedSequen 13310 TCAAACTGTCATGTACGTTGGGTATTTCTGCTAATGCTATCCCTCCC-TA 13358
v i v i i v -
C L1PA7_3end#LI 801 TCAACCCGTCATCTACATTAGGTATTTCTCCTAATGCTATCCCTCCCCTA 752
UnnamedSequen 13359 GCCCCCCACACACTGACAAGCCCCAGTGTGTGATGTTCCCCTCCCTGTGT 13408
v v i i i
C L1PA7_3end#LI 751 GCCCCCCACCCCCCGACAGGCCCCGGTGTGTGATGTTCCCCTCCCTGTGT 702
UnnamedSequen 13409 CCATGTGTTCTCATTGTTCAATTCCCACTTATGAGTGAGAACATGCAGTG 13458
i i
C L1PA7_3end#LI 701 CCATGTGTTCTCATTGTTCAACTCCCACTTATGAGTGAGAACATGCGGTG 652
UnnamedSequen 13459 TTTGGTTTTCTGTTCCTTTGTTAGTGTGCTGAGAGTGATGGTTTCCAGCA 13508
v v i v
C L1PA7_3end#LI 651 TTTGGTTTTCTGTTCCTGTGTTAGTTTGCTGAGAATGATGGTTTCCAGCT 602
UnnamedSequen 13509 TCATCCATGTCCCTGCAAAGAATGTGAACTCATCCTTTTTTATGGCTGCA 13558
i ii
C L1PA7_3end#LI 601 TCATCCATGTCCCTGCAAAGGACATGAACTCATCCTTTTTTATGGCTGCA 552
UnnamedSequen 13559 TAGTATTCCATGGTGTATATGTGCCACATTTTCTTTATCCAGTCTCTCAT 13608
v
C L1PA7_3end#LI 551 TAGTATTCCATGGTGTATATGTGCCACATTTTCTTTATCCAGTCTATCAT 502
UnnamedSequen 13609 TGATGGGCATTTGGGTTGGTTCCAAGTCTTTGCTATCATGAACAGTGCCA 13658
ii i
C L1PA7_3end#LI 501 TGATGGGCATTTGGGTTGGTTCCAAGTCTTTGCTATTGTGAACAGTGCCG 452
UnnamedSequen 13659 CAATAAACATATGTGTGCACGTGTCTTTATAGTAGAATAATTTATAATCC 13708
i i i
C L1PA7_3end#LI 451 CAATAAACATACGTGTGCATGTGTCTTTATAGTAGAATGATTTATAATCC 402
UnnamedSequen 13709 TTTGGGTATATACCCAGTAATGGGAATGCTGGGTCAAATGGTATTTCTGG 13758
v
C L1PA7_3end#LI 401 TTTGGGTATATACCCAGTAATGGGATTGCTGGGTCAAATGGTATTTCTGG 352
UnnamedSequen 13759 TTCTAGATCCTTGAGGAATTGCCACACTTTCTTCCACAATGGTTGAACTA 13808
i v
C L1PA7_3end#LI 351 TTCTAGATCCTTGAGGAATCGCCACACTGTCTTCCACAATGGTTGAACTA 302
UnnamedSequen 13809 ATTCACACTCCCACCAACAATGTAAAAGCCTTCCTATTTCACCACATTCT 13858
i i v v i
C L1PA7_3end#LI 301 ATTTACACTCCCACCAACAGTGTAAAAGCGTTCCTATTTCTCCACATCCT 252
UnnamedSequen 13859 CTCCAGCATCTGTTGTTTCCTGACTTTTTAATGATCACCATTCTAACTGC 13908
i v
C L1PA7_3end#LI 251 CTCCAGCATCTGTTGTTTCCTGACTTTTTAATGATCGCCATTCTAACTGG 202
UnnamedSequen 13909 TGTCAGATGTTAGCTCATAGTGGTTTCGATTTGCATTTCTCTAATGACCA 13958
i v v v v i
C L1PA7_3end#LI 201 CGTGAGATGGTATCTCATTGTGGTTTTGATTTGCATTTCTCTAATGACCA 152
UnnamedSequen 13959 ATGATAATGAGATTTTTTTCATATGTTTGTTGACTGCCTCAATGTCTTCT 14008
i i v i i v v
C L1PA7_3end#LI 151 GTGATGATGAGCTTTTTTTCATATGTTTGTTGGCCGCATAAATGTCTTCT 102
UnnamedSequen 14009 TTTGAGAAGGGGCTGTTCATGTCTATTGACCACTTTCTGATGGGGTTGTT 14058
v v i iv i v i
C L1PA7_3end#LI 101 TTTGAGAAGTGTCTGTTCATATCCTTCGCCCACTTTTTGATGGGGTTGTT 52
UnnamedSequen 14059 TGTT-TTTTCTTGTAAATTTGTTTAAGTTCTTTGTAGACTCTGGATATTA 14107
- i i
C L1PA7_3end#LI 51 TGTTTTTTTCTTGTAAATTTGTTTAAGTTCCTTGTAGATTCTGGATATTA 2
UnnamedSequen 14108 G 14108
C L1PA7_3end#LI 1 G 1
Matrix = 20p43g.matrix
Kimura (with divCpGMod) = 6.54
Transitions / transversions = 1.39 (39/28)
Gap_init rate = 0.00 (2 / 898), avg. gap size = 1.00 (2 / 2)
2738 7.40 1.53 0.00 UnnamedSequence 13960 14351 0 C L1P3_orf2 LINE/L1 2897 3294 0
2738 7.40 1.53 0.00 UnnamedSequence 13960 14351 (0) C L1P3_orf2#LINE/L1 (0) 3294 2897 m_b1s551i1
UnnamedSequen 13960 TGATAATGAGATTTTTTTCATATGTTTGTTGACTGCCTCAATGTCTTCTT 14009
i v i i v v
C L1P3_orf2#LIN 3294 TGATGATGAGCTTTTTTTCATATGTTTGTTGGCCGCATAAATGTCTTCTT 3245
UnnamedSequen 14010 TTGAGAAGGGGCTGTTCATGTCTATTGACCACTTTCTGATGGGGTTGTTT 14059
v v i iv i v i
C L1P3_orf2#LIN 3244 TTGAGAAGTGTCTGTTCATATCCTTCGCCCACTTTTTGATGGGGTTGTTT 3195
UnnamedSequen 14060 GTTTTTT-CTTGTAAATTTGTTTAAGTTCTTTGTAGACTCTGGATATTAG 14108
- i i
C L1P3_orf2#LIN 3194 GTTTTTTTCTTGTAAATTTGTTTAAGTTCCTTGTAGATTCTGGATATTAG 3145
UnnamedSequen 14109 ACCTATGTGAGATGGATAGAT-GCAAACATTTTCTCCCATTCTGTAGG-- 14155
v v v - v --
C L1P3_orf2#LIN 3144 CCCTTTGTCAGATGGATAGATTGCAAAAATTTTCTCCCATTCTGTAGGTT 3095
UnnamedSequen 14156 -CCTGTTCACTC-AATGATAGTTTCTTTTGCTGTGCAGAAGCTCTTTAGT 14203
- -i
C L1P3_orf2#LIN 3094 GCCTGTTCACTCTGATGATAGTTTCTTTTGCTGTGCAGAAGCTCTTTAGT 3045
UnnamedSequen 14204 TTAATTAGATCCTATTTGTCAATTTTGGCTTTTGTTGCCATTGCTTTTGG 14253
i
C L1P3_orf2#LIN 3044 TTAATTAGATCCCATTTGTCAATTTTGGCTTTTGTTGCCATTGCTTTTGG 2995
UnnamedSequen 14254 TGTTTTACTTATGAAGTCTTTGCCCATGCCTATGTCCTGAATGATATTGC 14303
v i i
C L1P3_orf2#LIN 2994 TGTTTTAGTCATGAAGTCTTTGCCCATGCCTATGTCCTGAATGGTATTGC 2945
UnnamedSequen 14304 CTATGATTTCTTCTAGGGTATTTATGGTTTTAGGTCTTATGTTTAAGT 14351
v v v i
C L1P3_orf2#LIN 2944 CTAGGTTTTCTTCTAGGGTTTTTATGGTTTTAGGTCTTACGTTTAAGT 2897
Matrix = 20p43g.matrix
Kimura (with divCpGMod) = 7.03
Transitions / transversions = 0.93 (14/15)
Gap_init rate = 0.01 (5 / 391), avg. gap size = 1.20 (6 / 5)