Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 179 of 228
Found at i:53538758 original size:18 final size:18
Alignment explanation
Indices: 53538731--53538768 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
53538721 CAGGTGCGTT
*
53538731 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
53538749 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
53538767 TC
1 TC
53538769 ATTTTCTGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.29, G:0.08, T:0.39
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:53539839 original size:123 final size:123
Alignment explanation
Indices: 53539545--53539920 Score: 547
Period size: 123 Copynumber: 3.0 Consensus size: 123
53539535 CCCAAACATG
* * * * * *
53539545 CTACTGTAGCAAAAGCGCATCCAC-GAGGTCACAATTTTCAGAAATTCTTCTCAAATTGCATCCT
1 CTACTGTAGCAAAAGCGCGTCCACAAAGG-CGCGA-TTTCACAAATTCTTCTCAAATAGCATCCT
*
53539609 GCTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATTTATTTCTTCCATGAC
64 GCTAGAAGCGATTTTATACTATTTGCTCAGAAAAGTCAAAAAAA-TTATTTCTTCCATGAC
** * * *
53539670 GGACTGTAGCAAAAGCGCGTCCACAAGGGCGCGATTTTACAAATTCTTCTCAAATAGCATCCTAC
1 CTACTGTAGCAAAAGCGCGTCCACAAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
53539735 TAGAAGCGATTTTATACTATTTGCTTAGAAAAGTCAAAAAAATTATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAAAGTCAAAAAAATTATTTCTTCCATGAC
53539793 CTACTGTAGCAAAAGCGCGTCCACAAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACAAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
* * * *
53539858 TAGAAGCGATTTTATACTATTTGATCAGAAATGTCAACTCAAAATTATTTCTTCCAAGAC
66 TAGAAGCGATTTTATACTATTTGCTCAGAAAAGTCAA--AAAAATTATTTCTTCCATGAC
53539918 CTA
1 CTA
53539921 AAAATCCTAT
Statistics
Matches: 225, Mismatches: 23, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
123 110 0.49
124 67 0.30
125 46 0.20
126 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.30
Consensus pattern (123 bp):
CTACTGTAGCAAAAGCGCGTCCACAAAGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGCTCAGAAAAGTCAAAAAAATTATTTCTTCCATGAC
Found at i:53540547 original size:21 final size:21
Alignment explanation
Indices: 53540522--53540561 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
53540512 TATTTTTTAC
*
53540522 TTAAAAATATATTTATTAAAT
1 TTAAAAATAAATTTATTAAAT
**
53540543 TTAAATTTAAATTTATTAA
1 TTAAAAATAAATTTATTAA
53540562 TAAATGTTAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAAAATAAATTTATTAAAT
Found at i:53543099 original size:71 final size:72
Alignment explanation
Indices: 53542925--53543128 Score: 320
Period size: 72 Copynumber: 2.8 Consensus size: 72
53542915 TCCTTTCAAA
* ** * *
53542925 CTCAAGTTTTAAATGATCTCGGGAATTAAGAGGAGATCGTGTCCTAACTTACTGGGCATGATCCT
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCAT
53542990 TTTTGTT
66 TTTTGTT
* * * *
53542997 CTCAAGTTTTAAACGGTCTCGGGAATTAAGAAAATATTGTGTCATAACTTACTGGGCATTATCAT
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCAT
53543062 TTTT-TT
66 TTTTGTT
53543068 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGA
1 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGA
53543129 CCCCCTCTTT
Statistics
Matches: 119, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
71 59 0.50
72 60 0.50
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (72 bp):
CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCAT
TTTTGTT
Found at i:53550474 original size:27 final size:27
Alignment explanation
Indices: 53550436--53550517 Score: 155
Period size: 27 Copynumber: 3.0 Consensus size: 27
53550426 ACTCCGAAGG
53550436 ATGAGACCTGACGTCTTGTTCCTAAGA
1 ATGAGACCTGACGTCTTGTTCCTAAGA
*
53550463 ATGAGACCTGACGTCTTGTTCCTAAGG
1 ATGAGACCTGACGTCTTGTTCCTAAGA
53550490 ATGAGACCTGACGTCTTGTTCCTAAGA
1 ATGAGACCTGACGTCTTGTTCCTAAGA
53550517 A
1 A
53550518 GCAGTTTGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (27 bp):
ATGAGACCTGACGTCTTGTTCCTAAGA
Found at i:53554531 original size:44 final size:44
Alignment explanation
Indices: 53554467--53554663 Score: 129
Period size: 44 Copynumber: 4.5 Consensus size: 44
53554457 CATCCAGTCT
* *
53554467 TATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
1 TATCTCACTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
* * *
53554511 TATCTCACTGAAGTTACAGTGGAGCA-A-ATTAA-AAACACAGATCT
1 TATCTCACTGAAGTTGCAGTGGAGCAGACA-GAAGAAAC-CA-ATCC
* * * **
53554555 TATCTCTCTGAAGTTGCAGT--AG-AG-CAGATCGCAACCAATAT
1 TATCTCACTGAAGTTGCAGTGGAGCAGACAGA-AGAAACCAATCC
* * * ** ** **
53554596 TATCTCATTGAAGTTACAGCGGAGCAGATTGAAGCTATTAATCC
1 TATCTCACTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
*
53554640 TATCTCCCTGAAGTTGCAGTGGAG
1 TATCTCACTGAAGTTGCAGTGGAG
53554664 TAGATTAAAA
Statistics
Matches: 115, Mismatches: 27, Indels: 22
0.70 0.16 0.13
Matches are distributed among these distances:
41 21 0.18
42 10 0.09
43 10 0.09
44 72 0.63
45 2 0.02
ACGTcount: A:0.34, C:0.21, G:0.20, T:0.25
Consensus pattern (44 bp):
TATCTCACTGAAGTTGCAGTGGAGCAGACAGAAGAAACCAATCC
Found at i:53554620 original size:129 final size:129
Alignment explanation
Indices: 53554377--53554673 Score: 378
Period size: 129 Copynumber: 2.3 Consensus size: 129
53554367 TGAAACTATA
* * * *
53554377 AATCTTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAAACATAGATCTCATCTCTCTGAAATTG
1 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAACACAGATCTCATCTCTCTGAAATTG
* * * * * *
53554442 CAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACAGAAGAAACC
66 CAGTAGAGCAGATCGCAACCAATATTATCTCACTAAAGTTACAGCGGAGCAGACAGAAGAAACC
* * * *
53554506 AATCCTATCTCACTGAAGTTACAGTGGAGCAAATTAAAAACACAGATCTTATCTCTCTGAAGTTG
1 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAACACAGATCTCATCTCTCTGAAATTG
* * ** ** **
53554571 CAGTAGAGCAGATCGCAACCAATATTATCTCATTGAAGTTACAGCGGAGCAGATTGAAGCTATT
66 CAGTAGAGCAGATCGCAACCAATATTATCTCACTAAAGTTACAGCGGAGCAGACAGAAGAAACC
* *
53554635 AATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAA
1 AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAA
53554674 CGATGAATCC
Statistics
Matches: 142, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
129 142 1.00
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (129 bp):
AATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAACACAGATCTCATCTCTCTGAAATTG
CAGTAGAGCAGATCGCAACCAATATTATCTCACTAAAGTTACAGCGGAGCAGACAGAAGAAACC
Found at i:53554698 original size:129 final size:129
Alignment explanation
Indices: 53554367--53554705 Score: 355
Period size: 129 Copynumber: 2.6 Consensus size: 129
53554357 AATAGATCAG
* * * *
53554367 TGAAACTATAAATCTTATCTCCCTGAAGTTACAGTGAAGCGGATTAAAAACATAGAT-CTCATCT
1 TGAAGCTATAAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAACATAGATCCT-ATCT
* * * * * *
53554431 CTCTGAAA-TTGCAGTAGAGCAGATCGCATCCAGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGA
65 CTCT-AAAGTTGCAGTAGAGCAGATCGCAACCAATATTATCTCACTAAAGTTACAGCGGAGCAGA
53554495 C
129 C
* ** ** * * * *
53554496 AGAAGAAACCAATCCTATCTCACTGAAGTTACAGTGGAGCAAATTAAAAACACAGATCTTATCTC
1 TGAAGCTATAAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAACATAGATCCTATCTC
* * * *
53554561 TCTGAAGTTGCAGTAGAGCAGATCGCAACCAATATTATCTCATTGAAGTTACAGCGGAGCAGAT
66 TCTAAAGTTGCAGTAGAGCAGATCGCAACCAATATTATCTCACTAAAGTTACAGCGGAGCAGAC
* * *
53554625 TGAAGCTATTAATCCTATCTCCCTGAAGTTGCAGTGGAGTAGATT-AAAACGAT-GAATCCTATA
1 TGAAGCTATAAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAAC-ATAG-ATCCTAT-
*
53554688 C-CTCTAAAGTTACAGTAG
63 CTCTCTAAAGTTGCAGTAG
53554706 GTCGGATTAA
Statistics
Matches: 169, Mismatches: 36, Indels: 10
0.79 0.17 0.05
Matches are distributed among these distances:
128 8 0.05
129 159 0.94
130 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.19, T:0.27
Consensus pattern (129 bp):
TGAAGCTATAAATCCTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAAACATAGATCCTATCTC
TCTAAAGTTGCAGTAGAGCAGATCGCAACCAATATTATCTCACTAAAGTTACAGCGGAGCAGAC
Found at i:53557263 original size:71 final size:70
Alignment explanation
Indices: 53557141--53557274 Score: 214
Period size: 71 Copynumber: 1.9 Consensus size: 70
53557131 TCCTTTCAAA
* ** *
53557141 CTCAAGTTTTAAATGATCTGGGAATTAAGAGGAGATCGTGTCTTAACTTACTGGGCATGATCCTT
1 CTCAAGTTTTAAACGATCTGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCTT
53557206 TTTTT
66 TTTTT
*
53557211 CTCAAGTTTTAAACGATCTCGGGAATTAAGAAAAGATTGTGTCCTAACTTACTGGGCATGATCC
1 CTCAAGTTTTAAACGATCT-GGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCC
53557275 CCTCTTTTAA
Statistics
Matches: 58, Mismatches: 5, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
70 18 0.31
71 40 0.69
ACGTcount: A:0.28, C:0.16, G:0.21, T:0.34
Consensus pattern (70 bp):
CTCAAGTTTTAAACGATCTGGGAATTAAGAAAAGATCGTGTCCTAACTTACTGGGCATGATCCTT
TTTTT
Found at i:53559054 original size:19 final size:19
Alignment explanation
Indices: 53559024--53559080 Score: 55
Period size: 18 Copynumber: 3.0 Consensus size: 19
53559014 CATCACCAAT
*
53559024 TATTTAAAAATTTTAAAAAG
1 TATTT-AAAATTTAAAAAAG
*
53559044 TATTTAAAA-TTAAATAAAT
1 TATTTAAAATTTAAA-AAAG
*
53559063 TA-TTAAAATTTCAAAAAG
1 TATTTAAAATTTAAAAAAG
53559081 AATACATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
18 13 0.42
19 13 0.42
20 5 0.16
ACGTcount: A:0.56, C:0.02, G:0.04, T:0.39
Consensus pattern (19 bp):
TATTTAAAATTTAAAAAAG
Found at i:53567547 original size:21 final size:22
Alignment explanation
Indices: 53567500--53567547 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
53567490 AAAAAAAAAC
* * *
53567500 ATAAAATCAGTCTAAAGTTTTA
1 ATAAAATCAGTCCAAAATTTCA
53567522 ATAAAATC-GTCCAAAATTTCA
1 ATAAAATCAGTCCAAAATTTCA
53567543 ATAAA
1 ATAAA
53567548 CAATAACTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 15 0.65
22 8 0.35
ACGTcount: A:0.50, C:0.12, G:0.06, T:0.31
Consensus pattern (22 bp):
ATAAAATCAGTCCAAAATTTCA
Found at i:53568662 original size:16 final size:14
Alignment explanation
Indices: 53568637--53568674 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 14
53568627 TTATAAAACC
53568637 TTAT-TTATAAATGT
1 TTATATTATAAAT-T
53568651 TATATATTATAAATT
1 T-TATATTATAAATT
53568666 TTATATTAT
1 TTATATTAT
53568675 TTTTTACTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 9 0.41
15 5 0.23
16 8 0.36
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (14 bp):
TTATATTATAAATT
Found at i:53571588 original size:43 final size:43
Alignment explanation
Indices: 53571312--53571777 Score: 311
Period size: 43 Copynumber: 10.8 Consensus size: 43
53571302 TCTTTTGCCG
* *
53571312 CGCCACTATAGAT-GTGGCTCTTTAGCGGCGCTTACATAC-A-AAA
1 CGCCACTATAGATAG-GGTTCTTTTGCGGCGCTT--ATACAAGAAA
* ** * * * *
53571355 CGCCACTATAGATCGGCCTCTCTAGCGACGCTTATCCGAA-AAA
1 CGCCACTATAGATAGGGTTCTTTTGCGGCGCTTATAC-AAGAAA
* ** * * * * * *
53571398 TGCCACTATAGAGGGTGGGTCTATTCCGACGATTATACTCA-AAA
1 CGCCACTATAGATAG-GGTTCTTTTGCGGCGCTTATAC-AAGAAA
* * * * *
53571442 CGCCACTATAGAT-GTGATCTATAGCGGCGCTTATACAAAAAAA
1 CGCCACTATAGATAGGGTTCTTTTGCGGCGCTTATAC-AAGAAA
* * * * * *
53571485 CGCCACTATAGCTTGGGTTCTATAGCGGCGCTTGTACAACAAA
1 CGCCACTATAGATAGGGTTCTTTTGCGGCGCTTATACAAGAAA
* * *
53571528 CGCCACTAGAGAGAGGGTTCTTTTCCGGCGCTTATACAAGAAA
1 CGCCACTATAGATAGGGTTCTTTTGCGGCGCTTATACAAGAAA
*** * * * *
53571571 CGCCACTATAGATAGGGTTCTTCCCCGGCTCTTCTATAGGAAA
1 CGCCACTATAGATAGGGTTCTTTTGCGGCGCTTATACAAGAAA
* * *
53571614 CGCCACGATAGAT-GAGGTTCTTTTCCGGCGCTTATGCAAGAAA
1 CGCCACTATAGATAG-GGTTCTTTTGCGGCGCTTATACAAGAAA
* *
53571657 CGCCACGATAGATAGGGTTCTTTTGCAGCGCTTATACAAGAAA
1 CGCCACTATAGATAGGGTTCTTTTGCGGCGCTTATACAAGAAA
* *
53571700 CGCCACGATAGATAGGGTTCTTTTGCGGCTCTTAGT-CTAA-AAA
1 CGCCACTATAGATAGGGTTCTTTTGCGGCGCTTA-TAC-AAGAAA
* * ** * *
53571743 CGCCACGACAGACGGGGATCTTTCGCGGCGCTTAT
1 CGCCACTATAGATAGGGTTCTTTTGCGGCGCTTAT
53571778 GTAAAAAAAC
Statistics
Matches: 346, Mismatches: 67, Indels: 21
0.80 0.15 0.05
Matches are distributed among these distances:
41 3 0.01
42 19 0.05
43 269 0.78
44 55 0.16
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (43 bp):
CGCCACTATAGATAGGGTTCTTTTGCGGCGCTTATACAAGAAA
Found at i:53571817 original size:129 final size:129
Alignment explanation
Indices: 53571525--53571832 Score: 318
Period size: 129 Copynumber: 2.4 Consensus size: 129
53571515 CTTGTACAAC
* * * ** *
53571525 AAACGCCACTAGAGAGAGGGTTCTTTTCCGGCGCTTATACAAGAAACGCCACTATAGATAGGGTT
1 AAACGCCACAATAGATAGGGTTCTTTAGCGGCGCTTATACAAGAAACGCCACGATAGATAGGGTT
* * * * * *
53571590 CTTCCCCGGCTCTTCTATAGGAAACGCCACGATAGATGAGGTTCTTTTCCGGCGCTTATGCAAG
66 CTTCCCCGGCTCTTCTATAGAAAACGCCACGACAGACGAGGATCTTTTCCGGCGCTTATGAAAA
* * *
53571654 AAACGCCACGATAGATAGGGTTCTTTTGCAGCGCTTATACAAGAAACGCCACGATAGATAGGGTT
1 AAACGCCACAATAGATAGGGTTCTTTAGCGGCGCTTATACAAGAAACGCCACGATAGATAGGGTT
*** * * *
53571719 CTTTTGCGGCTCTTAGTCTA-AAAACGCCACGACAGACGGGGATC-TTTCGCGGCGCTTATGTAA
66 CTTCCCCGGCTCTT-CTATAGAAAACGCCACGACAGACGAGGATCTTTTC-CGGCGCTTATG-AA
53571782 AA
128 AA
* * * * *
53571784 AAACGCCACAATAGGCT-GTGTT-TTTAGTGGCGCTTATCCAGGAAACGCC
1 AAACGCCACAATA-GATAGGGTTCTTTAGCGGCGCTTATACAAGAAACGCC
53571833 GCTAATGTTG
Statistics
Matches: 149, Mismatches: 26, Indels: 8
0.81 0.14 0.04
Matches are distributed among these distances:
128 4 0.03
129 122 0.82
130 21 0.14
131 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.25
Consensus pattern (129 bp):
AAACGCCACAATAGATAGGGTTCTTTAGCGGCGCTTATACAAGAAACGCCACGATAGATAGGGTT
CTTCCCCGGCTCTTCTATAGAAAACGCCACGACAGACGAGGATCTTTTCCGGCGCTTATGAAAA
Found at i:53572167 original size:21 final size:21
Alignment explanation
Indices: 53572143--53572182 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
53572133 CTCTAATTCC
*
53572143 CTCGCTGCAGCCTCTGCTTCT
1 CTCGCTGCAGCATCTGCTTCT
* *
53572164 CTCGTTGCTGCATCTGCTT
1 CTCGCTGCAGCATCTGCTT
53572183 TAAGCTGCTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.05, C:0.38, G:0.20, T:0.38
Consensus pattern (21 bp):
CTCGCTGCAGCATCTGCTTCT
Found at i:53572235 original size:87 final size:87
Alignment explanation
Indices: 53572143--53572320 Score: 288
Period size: 87 Copynumber: 2.0 Consensus size: 87
53572133 CTCTAATTCC
*
53572143 CTCGCTGCAGCCTCTGCTTCTCTCGTTGCTGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCAT
1 CTCGCTGCAGCCTCTGCTTCTCTCGTTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCAT
53572207 A-CTTTCGTTGAACCTCAGCTTCT
65 ATCTTT-GTTGAACCTCAGCTTCT
* *
53572230 CTCGCTGCTGCCTCTGCTTCTCTCGTTGCCGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATA
1 CTCGCTGCAGCCTCTGCTTCTCTCGTTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATA
*
53572295 TCTTTTTTGAACCTCAGCTTCT
66 TCTTTGTTGAACCTCAGCTTCT
53572317 CTCG
1 CTCG
53572321 ATGTTGCCTC
Statistics
Matches: 85, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
86 1 0.01
87 80 0.94
88 4 0.05
ACGTcount: A:0.11, C:0.30, G:0.19, T:0.39
Consensus pattern (87 bp):
CTCGCTGCAGCCTCTGCTTCTCTCGTTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATA
TCTTTGTTGAACCTCAGCTTCT
Found at i:53572266 original size:21 final size:21
Alignment explanation
Indices: 53572224--53572269 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
53572214 TTGAACCTCA
* *
53572224 GCTTCTCTCGCTGCTGCCTCT
1 GCTTCTCTCGCTGCCGCATCT
*
53572245 GCTTCTCTCGTTGCCGCATCT
1 GCTTCTCTCGCTGCCGCATCT
53572266 GCTT
1 GCTT
53572270 TAAGTTGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.02, C:0.39, G:0.20, T:0.39
Consensus pattern (21 bp):
GCTTCTCTCGCTGCCGCATCT
Found at i:53574858 original size:62 final size:62
Alignment explanation
Indices: 53574792--53575025 Score: 268
Period size: 62 Copynumber: 3.8 Consensus size: 62
53574782 ATGTAAGTCA
* *
53574792 TGTATTAAGTAAGCTATGTAAGTTATCATAAATATGTATGTTATGTAAGTTGTAAGTTATTG
1 TGTATTATGTAAGCTATGTAAGTTATCATAATTATGTATGTTATGTAAGTTGTAAGTTATTG
53574854 TGTATTATGTAA-CTTATGTAAGTTATCA-AATTAATGTATGTTATGTAAGTTGTAAGTTATTG
1 TGTATTATGTAAGC-TATGTAAGTTATCATAATT-ATGTATGTTATGTAAGTTGTAAGTTATTG
* * *
53574916 TGTATTATGTAAGTTATGTAAGTTAT-GT-ATTATGTAGGTTATGTAAGTTATGTAAGTTA-TG
1 TGTATTATGTAAGCTATGTAAGTTATCATAATTATGTATGTTATGTAAG-T-TGTAAGTTATTG
* * * * * *
53574977 TG--TTATGTAGGTTATGTAAGTTGT-GTAATATATTTAAGTTATGTAAGTT
1 TGTATTATGTAAGCTATGTAAGTTATCATAAT-TATGTATGTTATGTAAGTT
53575026 TTGTTTATAT
Statistics
Matches: 155, Mismatches: 9, Indels: 19
0.85 0.05 0.10
Matches are distributed among these distances:
59 23 0.15
60 18 0.12
61 27 0.17
62 87 0.56
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.47
Consensus pattern (62 bp):
TGTATTATGTAAGCTATGTAAGTTATCATAATTATGTATGTTATGTAAGTTGTAAGTTATTG
Found at i:53574934 original size:9 final size:9
Alignment explanation
Indices: 53574776--53575025 Score: 188
Period size: 9 Copynumber: 28.7 Consensus size: 9
53574766 GTCGACTAAA
53574776 TAAGTTATG
1 TAAGTTATG
*
53574785 TAAGTCATG
1 TAAGTTATG
*
53574794 T-A-TTAAG
1 TAAGTTATG
*
53574801 TAAGCTATG
1 TAAGTTATG
*
53574810 TAAGTTATCA
1 TAAGTTAT-G
*
53574820 TAA-ATATG
1 TAAGTTATG
*
53574828 TATGTTATG
1 TAAGTTATG
53574837 TAAG-T-TG
1 TAAGTTATG
53574844 TAAGTTATTG
1 TAAGTTA-TG
*
53574854 TGTA-TTATG
1 T-AAGTTATG
*
53574863 TAACTTATG
1 TAAGTTATG
53574872 TAAGTTAT-
1 TAAGTTATG
* *
53574880 CAAATTAATG
1 TAAGTT-ATG
*
53574890 TATGTTATG
1 TAAGTTATG
53574899 TAAG-T-TG
1 TAAGTTATG
53574906 TAAGTTATTG
1 TAAGTTA-TG
*
53574916 TGTA-TTATG
1 T-AAGTTATG
53574925 TAAGTTATG
1 TAAGTTATG
53574934 TAAGTTATG
1 TAAGTTATG
53574943 T-A-TTATG
1 TAAGTTATG
*
53574950 TAGGTTATG
1 TAAGTTATG
53574959 TAAGTTATG
1 TAAGTTATG
53574968 TAAGTTATG
1 TAAGTTATG
53574977 T--GTTATG
1 TAAGTTATG
*
53574984 TAGGTTATG
1 TAAGTTATG
*
53574993 TAAGTTGTG
1 TAAGTTATG
*
53575002 TAA-TATATT
1 TAAGT-TATG
53575011 TAAGTTATG
1 TAAGTTATG
53575020 TAAGTT
1 TAAGTT
53575026 TTGTTTATAT
Statistics
Matches: 189, Mismatches: 30, Indels: 44
0.72 0.11 0.17
Matches are distributed among these distances:
7 29 0.15
8 16 0.08
9 123 0.65
10 19 0.10
11 2 0.01
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:53574950 original size:25 final size:26
Alignment explanation
Indices: 53574778--53575025 Score: 137
Period size: 25 Copynumber: 9.5 Consensus size: 26
53574768 CGACTAAATA
* *
53574778 AGTTATGTAAGTCATGTA--TTAAGT
1 AGTTATGTAAGTTATGTAAGTTATGT
* * *
53574802 AAGCTATGTAAGTTATCATAA-ATATGT
1 -AGTTATGTAAGTTAT-GTAAGTTATGT
53574829 ATGTTATGTAAG-T-TGTAAGTTATTGT
1 A-GTTATGTAAGTTATGTAAGTTA-TGT
* **
53574855 -GTATTATGTAACTTATGTAAGTTATCA
1 AG--TTATGTAAGTTATGTAAGTTATGT
* *
53574882 AATTAATGTATGTTATGTAAG-T-TGT
1 AGTT-ATGTAAGTTATGTAAGTTATGT
*
53574907 AAGTTATTGTGTA-TTATGTAAGTTATGT
1 -AGTTA-TGT-AAGTTATGTAAGTTATGT
*
53574935 AAGTTATGT-A-TTATGTAGGTTATGT
1 -AGTTATGTAAGTTATGTAAGTTATGT
53574960 AAGTTATGTAAGTTATGT--GTTATGT
1 -AGTTATGTAAGTTATGTAAGTTATGT
* *
53574985 AGGTTATGTAAGTTGTGTAA-TATATTT
1 A-GTTATGTAAGTTATGTAAGT-TATGT
53575012 AAGTTATGTAAGTT
1 -AGTTATGTAAGTT
53575026 TTGTTTATAT
Statistics
Matches: 178, Mismatches: 22, Indels: 44
0.73 0.09 0.18
Matches are distributed among these distances:
24 5 0.03
25 64 0.36
26 35 0.20
27 55 0.31
28 19 0.11
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (26 bp):
AGTTATGTAAGTTATGTAAGTTATGT
Found at i:53574963 original size:34 final size:34
Alignment explanation
Indices: 53574920--53575004 Score: 152
Period size: 34 Copynumber: 2.5 Consensus size: 34
53574910 TTATTGTGTA
53574920 TTATGTAAGTTATGTAAGTTATGTATTATGTAGG
1 TTATGTAAGTTATGTAAGTTATGTATTATGTAGG
*
53574954 TTATGTAAGTTATGTAAGTTATGTGTTATGTAGG
1 TTATGTAAGTTATGTAAGTTATGTATTATGTAGG
*
53574988 TTATGTAAGTTGTGTAA
1 TTATGTAAGTTATGTAA
53575005 TATATTTAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.25, T:0.47
Consensus pattern (34 bp):
TTATGTAAGTTATGTAAGTTATGTATTATGTAGG
Found at i:53575136 original size:13 final size:15
Alignment explanation
Indices: 53575117--53575157 Score: 59
Period size: 13 Copynumber: 2.8 Consensus size: 15
53575107 CATATAAGTT
53575117 TATGTAAGTTATG-A
1 TATGTAAGTTATGTA
53575131 -ATGTAAGTTATGTA
1 TATGTAAGTTATGTA
53575145 TTATGTAAGTTAT
1 -TATGTAAGTTAT
53575158 TTAAATTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.50
14 1 0.04
16 11 0.46
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (15 bp):
TATGTAAGTTATGTA
Found at i:53575152 original size:16 final size:16
Alignment explanation
Indices: 53575116--53575194 Score: 74
Period size: 16 Copynumber: 5.0 Consensus size: 16
53575106 ACATATAAGT
53575116 TTATGTAAGTTATG-A
1 TTATGTAAGTTATGTA
53575131 --ATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
*
53575145 TTATGTAAGTTATTTAAA
1 TTATGTAAGTTATGT--A
* *
53575163 TTATTTAAGTTGTGTA
1 TTATGTAAGTTATGTA
* *
53575179 TTAAGTAAGTCATGTA
1 TTATGTAAGTTATGTA
53575195 GGCTATGTGT
Statistics
Matches: 51, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
13 12 0.24
14 1 0.02
16 25 0.49
18 13 0.25
ACGTcount: A:0.34, C:0.01, G:0.18, T:0.47
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:53575269 original size:21 final size:22
Alignment explanation
Indices: 53575245--53575295 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
53575235 ATTTTTCAAG
*
53575245 TATATATATAATTTTA-ATAAA
1 TATATATATAACTTTATATAAA
*
53575266 TATAT-TAAAACTTTATATAAA
1 TATATATATAACTTTATATAAA
53575287 TATATATAT
1 TATATATAT
53575296 CAAAGATGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
20 8 0.32
21 15 0.60
22 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (22 bp):
TATATATATAACTTTATATAAA
Found at i:53577050 original size:11 final size:11
Alignment explanation
Indices: 53577034--53577060 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
53577024 TTACTCAACC
53577034 AGTAATATGAA
1 AGTAATATGAA
53577045 AGTAATATGAA
1 AGTAATATGAA
53577056 AGTAA
1 AGTAA
53577061 ATTAAACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.19, T:0.26
Consensus pattern (11 bp):
AGTAATATGAA
Found at i:53577987 original size:27 final size:27
Alignment explanation
Indices: 53577939--53577990 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
53577929 TCTTACATTT
* *
53577939 AAATAATTAATTACCAATTTATTTAAC
1 AAATAAATAATTACCAACTTATTTAAC
**
53577966 AAATAAATAATTACTTACTTATTTA
1 AAATAAATAATTACCAACTTATTTA
53577991 TTTGTTTATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.48, C:0.10, G:0.00, T:0.42
Consensus pattern (27 bp):
AAATAAATAATTACCAACTTATTTAAC
Found at i:53579399 original size:15 final size:14
Alignment explanation
Indices: 53579376--53579442 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
53579366 ATGACCGTTG
53579376 AAACCCTAAATCTC
1 AAACCCTAAATCTC
*
53579390 AAATCCCTAAACCTC
1 AAA-CCCTAAATCTC
*
53579405 TAACCCTAAAT-T-
1 AAACCCTAAATCTC
* *
53579417 -AACCTTAAATCTT
1 AAACCCTAAATCTC
*
53579430 AAACCTTAAATCT
1 AAACCCTAAATCT
53579443 ATACCCCGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
11 9 0.20
12 1 0.02
13 1 0.02
14 22 0.49
15 12 0.27
ACGTcount: A:0.42, C:0.30, G:0.00, T:0.28
Consensus pattern (14 bp):
AAACCCTAAATCTC
Found at i:53580027 original size:41 final size:41
Alignment explanation
Indices: 53579935--53580255 Score: 224
Period size: 41 Copynumber: 7.8 Consensus size: 41
53579925 AAGGTAATAA
* * * *
53579935 ATTAGCGGTGCTTAGATAAAAACGCCGCTAAA-AGTCGGAGG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGA-TCCGAGC
* *
53579976 ATTA-CTGGCGCTCAGATAAAAACGTCACTAAAGATCCGAGC
1 ATTAGC-GGCGCTCAGATAAAAACGCCGCTAAAGATCCGAGC
* * * * **
53580017 ATTAGCGGCGCTTATACAAAATCGCCGCTAAATGCA-AAGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAA-G-ATCCGAGC
* * * *
53580059 ATTAGTGGCGCTCAGA-ATAAAACGCCACTAAAGATGCAAGC
1 ATTAGCGGCGCTCAGATA-AAAACGCCGCTAAAGATCCGAGC
* * * *
53580100 ATTAGCGGTGCTGAAATAAAATCGCCGCTAAAGA-CCAGAG-
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCC-GAGC
* * * * * * *
53580140 ATATTGCGGCGTTCATATAAAAACGCCCCTAAAGATCGGGGA
1 AT-TAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCCGAGC
** *
53580182 ATTAGCGGCGCTCAGATAAAAACGCTACTATAA-ATGCGAGC
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTA-AAGATCCGAGC
* * *
53580223 ATTAGTGGCGCACAAATAAAAACGCCGCTAAAG
1 ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAG
53580256 GTTTAAAAAT
Statistics
Matches: 213, Mismatches: 53, Indels: 28
0.72 0.18 0.10
Matches are distributed among these distances:
40 7 0.03
41 167 0.78
42 38 0.18
43 1 0.00
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (41 bp):
ATTAGCGGCGCTCAGATAAAAACGCCGCTAAAGATCCGAGC
Found at i:53580089 original size:83 final size:83
Alignment explanation
Indices: 53579976--53580131 Score: 224
Period size: 83 Copynumber: 1.9 Consensus size: 83
53579966 AAGTCGGAGG
* * * *
53579976 ATTACTGGCGCTCAGATAAAAACGTCACTAAAGATCCGAGCATTAGCGGCGCTTATACAAAATCG
1 ATTACTGGCGCTCAGATAAAAACGCCACTAAAGATCCAAGCATTAGCGGCGCTGAAACAAAATCG
53580041 CCGCTAAATGCAAAGAGC
66 CCGCTAAATGCAAAGAGC
* * * *
53580059 ATTAGTGGCGCTCAGA-ATAAAACGCCACTAAAGATGCAAGCATTAGCGGTGCTGAAATAAAATC
1 ATTACTGGCGCTCAGATA-AAAACGCCACTAAAGATCCAAGCATTAGCGGCGCTGAAACAAAATC
53580123 GCCGCTAAA
65 GCCGCTAAA
53580132 GACCAGAGAT
Statistics
Matches: 64, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
82 1 0.02
83 63 0.98
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19
Consensus pattern (83 bp):
ATTACTGGCGCTCAGATAAAAACGCCACTAAAGATCCAAGCATTAGCGGCGCTGAAACAAAATCG
CCGCTAAATGCAAAGAGC
Found at i:53583549 original size:14 final size:14
Alignment explanation
Indices: 53583532--53583578 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
53583522 TTTGAAAAAT
53583532 AAATTTTTTTGTTG-
1 AAATTTTTTT-TTGA
53583546 AAATATTTTTTTTGTA
1 AAAT-TTTTTTTTG-A
*
53583562 AAATTTTTTTTCGA
1 AAATTTTTTTTTGA
53583576 AAA
1 AAA
53583579 ATTATTCCAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
14 11 0.38
15 14 0.48
16 4 0.14
ACGTcount: A:0.32, C:0.02, G:0.09, T:0.57
Consensus pattern (14 bp):
AAATTTTTTTTTGA
Found at i:53583579 original size:15 final size:14
Alignment explanation
Indices: 53583536--53583581 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
53583526 AAAAATAAAT
*
53583536 TTTTTTGTTGAAATA
1 TTTTTT-TTGAAAAA
*
53583551 TTTTTTTTGTAAAA
1 TTTTTTTTGAAAAA
53583565 TTTTTTTTCGAAAAA
1 TTTTTTTT-GAAAAA
53583580 TT
1 TT
53583582 ATTCCAATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.61
Consensus pattern (14 bp):
TTTTTTTTGAAAAA
Found at i:53588477 original size:44 final size:45
Alignment explanation
Indices: 53588300--53588858 Score: 516
Period size: 44 Copynumber: 12.7 Consensus size: 45
53588290 TCCGCCATCG
* * * * * * *
53588300 TCGATCTGCTTCGCTGCCAAATATAGGAAGGCGAGATCTGCAATCC
1 TCGATCTACTTCACTACC-AATATAGGAAGACAAGATCTGCTATCT
* * * *
53588346 TCAATCTA-TTCCACTGCCAAATACAGG--GACAAGATCTGCTTTCT
1 TCGATCTACTT-CACTACC-AATATAGGAAGACAAGATCTGCTATCT
* * *
53588390 TCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTG-TATCT
1 TCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCT
* * * * * *
53588434 TGGATCCACTTC-CTATCAATATAGGAAGATAGGACCTGCTATCT
1 TCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCT
* * * *
53588478 TCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCT
1 TCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCT
* * * *
53588522 GCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCT
1 TCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCT
* * * *
53588566 TTGATCTACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCT
1 TCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCT
* * * *
53588610 TCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCT
1 TCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCT
* * * *
53588654 GCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCT
1 TCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCT
* * * *
53588698 TCGATCCACTTC-CTACCAATATAGGAAGATAGGATCTGCTACCT
1 TCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCT
* * * *
53588742 TCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTTTCT
1 TCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCT
* * *
53588786 TCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGC-ATCT
1 TCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCT
* *
53588830 TTGATCCACTTC-CTACCAATATAGGAAGA
1 TCGATCTACTTCACTACCAATATAGGAAGA
53588859 TAGGACCTAT
Statistics
Matches: 411, Mismatches: 89, Indels: 29
0.78 0.17 0.05
Matches are distributed among these distances:
43 85 0.21
44 225 0.55
45 81 0.20
46 20 0.05
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (45 bp):
TCGATCTACTTCACTACCAATATAGGAAGACAAGATCTGCTATCT
Found at i:53588556 original size:132 final size:132
Alignment explanation
Indices: 53588373--53588866 Score: 880
Period size: 132 Copynumber: 3.7 Consensus size: 132
53588363 CAAATACAGG
* * * * *
53588373 GACAAGATCTGCTTTCTTCGATCTACTTCACCACCAGTATGGGAAGACAAGATCTGTATCTTGGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGA
* *
53588438 TCCACTTCCTATCAATATAGGAAGATAGGACCTGCTATCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
53588503 AA
131 AA
53588505 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGA
* *
53588570 TCTACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
53588635 AA
131 AA
*
53588637 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTCGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGA
*
53588702 TCCACTTCCTACCAATATAGGAAGATAGGATCTGCTACCTTCGATCTACTTCACGCCAATACATG
66 TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
53588767 AA
131 AA
*
53588769 GACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGA
1 GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGA
53588834 TCCACTTCCTACCAATATAGGAAGATAGGACCT
66 TCCACTTCCTACCAATATAGGAAGATAGGACCT
53588867 ATTTACGCCT
Statistics
Matches: 348, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 348 1.00
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (132 bp):
GACAAGATCTGCTTTCTGCGATCTACTTCGCCACCAATATGGGAAGACAAGATCTGCATCTTTGA
TCCACTTCCTACCAATATAGGAAGATAGGACCTGCTACCTTCGATCTACTTCACGCCAATACATG
AA
Found at i:53609923 original size:8 final size:8
Alignment explanation
Indices: 53609912--53609940 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
53609902 TTATATATGC
53609912 ATATAAAT
1 ATATAAAT
53609920 ATATAAAT
1 ATATAAAT
53609928 ATATAAAT
1 ATATAAAT
53609936 ATATA
1 ATATA
53609941 TATGAATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:53609949 original size:16 final size:17
Alignment explanation
Indices: 53609903--53609951 Score: 66
Period size: 16 Copynumber: 2.9 Consensus size: 17
53609893 AAATATGTTT
53609903 TATATATGCATATAAATA
1 TATATATG-ATATAAATA
*
53609921 TATAAAT-ATATAAATA
1 TATATATGATATAAATA
53609937 TATATATGA-ATAAAT
1 TATATATGATATAAAT
53609952 GTATGTTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
16 21 0.75
17 1 0.04
18 6 0.21
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (17 bp):
TATATATGATATAAATA
Found at i:53611731 original size:31 final size:29
Alignment explanation
Indices: 53611693--53611757 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 29
53611683 GTCAGTGATT
** *
53611693 TATAAAAATTGAATTAAATCAGAATTTTATG
1 TATAAAAA-TGAACAAAATCA-AAATTTATG
*
53611724 TATAAAAATGCACAAAATCAAAATTTATG
1 TATAAAAATGAACAAAATCAAAATTTATG
53611753 TATAA
1 TATAA
53611758 CATTGCATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
29 13 0.43
30 9 0.30
31 8 0.27
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (29 bp):
TATAAAAATGAACAAAATCAAAATTTATG
Found at i:53613120 original size:3 final size:3
Alignment explanation
Indices: 53613112--53613150 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
53613102 TTTCTTAGTT
53613112 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
53613151 ATTTAATGAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:53631491 original size:11 final size:11
Alignment explanation
Indices: 53631475--53631499 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
53631465 GAAGGAAGGA
53631475 AAAGAAAGAAG
1 AAAGAAAGAAG
53631486 AAAGAAAGAAG
1 AAAGAAAGAAG
53631497 AAA
1 AAA
53631500 AAAAAGGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (11 bp):
AAAGAAAGAAG
Found at i:53634708 original size:41 final size:41
Alignment explanation
Indices: 53634651--53634732 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
53634641 AAAGTCAGGG
53634651 AGTGACCACTTTCAGTTCACTAACCCAATTTCTTCTAATCC
1 AGTGACCACTTTCAGTTCACTAACCCAATTTCTTCTAATCC
53634692 AGTGACCACTTTCAGTTCACTAACCCAATTTCTTCTAATCC
1 AGTGACCACTTTCAGTTCACTAACCCAATTTCTTCTAATCC
53634733 GATTTTTGGA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.27, C:0.32, G:0.07, T:0.34
Consensus pattern (41 bp):
AGTGACCACTTTCAGTTCACTAACCCAATTTCTTCTAATCC
Found at i:53641711 original size:24 final size:23
Alignment explanation
Indices: 53641662--53641711 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
53641652 TGATTTAAAC
* * *
53641662 AAATATTTATATTTATATTATTA
1 AAATATTCATATTTATACTATAA
53641685 AAATATTCATATTTTATACTATAA
1 AAATATTCATA-TTTATACTATAA
53641709 AAA
1 AAA
53641712 ATTATAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 10 0.43
24 13 0.57
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (23 bp):
AAATATTCATATTTATACTATAA
Found at i:53651687 original size:16 final size:16
Alignment explanation
Indices: 53651668--53651702 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
53651658 CTCAACAAGC
*
53651668 AAAAGTTGTATGCTCT
1 AAAACTTGTATGCTCT
53651684 AAAACTTGTATGCTCT
1 AAAACTTGTATGCTCT
53651700 AAA
1 AAA
53651703 GGCTCAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.34
Consensus pattern (16 bp):
AAAACTTGTATGCTCT
Found at i:53658591 original size:35 final size:35
Alignment explanation
Indices: 53658545--53658613 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
53658535 ATCTGGAATA
*
53658545 AAAACATCTCAAAGTTCGGATAACAACAAGATATG
1 AAAACATCTCAAAGTTCGAATAACAACAAGATATG
53658580 AAAACATCTCAAAGTTCGAATAACAACAAGATAT
1 AAAACATCTCAAAGTTCGAATAACAACAAGATAT
53658614 AAAGAAACTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.51, C:0.17, G:0.12, T:0.20
Consensus pattern (35 bp):
AAAACATCTCAAAGTTCGAATAACAACAAGATATG
Found at i:53661607 original size:41 final size:41
Alignment explanation
Indices: 53661549--53661692 Score: 225
Period size: 41 Copynumber: 3.5 Consensus size: 41
53661539 TGATTCGATA
* * * *
53661549 CACCGGCATTAACCCTGCTAGATGTAAGGTTTGAAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
53661590 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
* *
53661631 CACTGGCATTAAGCCTGCTAGACGGAAAGTCTGAAATATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
*
53661672 CACAGGCATTAAGCCTGCTAG
1 CACCGGCATTAAGCCTGCTAG
53661693 GCACAAAGCC
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 96 1.00
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.27
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
Found at i:53661953 original size:62 final size:67
Alignment explanation
Indices: 53661830--53662004 Score: 182
Period size: 64 Copynumber: 2.7 Consensus size: 67
53661820 ACATTCGAAC
* * * * * * *
53661830 ATATATGTATAATTCAAAACTTTAACTTCAGCTCAAGGAATTTGTAACTAATATTTGAA-C-CAC
1 ATATATATAAAATTCATAACATTAAATTCAGCTCAAGGAACTTGTAACTAATATTCGAACCACAC
53661893 AT
66 AT
*
53661895 ATGTATATAAAATTCAT-ACATTAAATTCAGCTCAA-GAACTTG-AA-TATATATTCGAACCACA
1 ATATATATAAAATTCATAACATTAAATTCAGCTCAAGGAACTTGTAACTA-ATATTCGAACCACA
53661956 CAT
65 CAT
* * * **
53661959 ATATATATGAAATTCATAATATTAAGTTCAGCTCAATAAACTTGTA
1 ATATATATAAAATTCATAACATTAAATTCAGCTCAAGGAACTTGTA
53662005 TCATACATTC
Statistics
Matches: 91, Mismatches: 13, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
61 2 0.02
62 10 0.11
63 7 0.08
64 36 0.40
65 29 0.32
66 6 0.07
67 1 0.01
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (67 bp):
ATATATATAAAATTCATAACATTAAATTCAGCTCAAGGAACTTGTAACTAATATTCGAACCACAC
AT
Found at i:53663444 original size:46 final size:47
Alignment explanation
Indices: 53663376--53663475 Score: 166
Period size: 46 Copynumber: 2.1 Consensus size: 47
53663366 AAACAAGATT
*
53663376 ATATGTGTTATGAAAGGCTAAGTGTGTGATGTGATTATATATG-TGG
1 ATATGTGTTATGAAAGGCTAAGTGTGTGATGTGATTATATATGTTGA
* *
53663422 ATATGTGTTGTGAAAGGTTAAGTGTGTGATGTGATTATATATGTTGA
1 ATATGTGTTATGAAAGGCTAAGTGTGTGATGTGATTATATATGTTGA
53663469 ATATGTG
1 ATATGTG
53663476 ACTAAATATA
Statistics
Matches: 50, Mismatches: 3, Indels: 1
0.93 0.06 0.02
Matches are distributed among these distances:
46 41 0.82
47 9 0.18
ACGTcount: A:0.28, C:0.01, G:0.30, T:0.41
Consensus pattern (47 bp):
ATATGTGTTATGAAAGGCTAAGTGTGTGATGTGATTATATATGTTGA
Found at i:53666490 original size:23 final size:23
Alignment explanation
Indices: 53666450--53666495 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
53666440 AAAAACCCTA
* *
53666450 ACTCTAGTCGCCGTTGCTCCTCT
1 ACTCTAGCCGCCGCTGCTCCTCT
*
53666473 ACTCTAGCCGTCGCTGCTCCTCT
1 ACTCTAGCCGCCGCTGCTCCTCT
53666496 GCTTCACCAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.09, C:0.41, G:0.17, T:0.33
Consensus pattern (23 bp):
ACTCTAGCCGCCGCTGCTCCTCT
Found at i:53668950 original size:18 final size:19
Alignment explanation
Indices: 53668927--53668962 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
53668917 AATTTAATTT
*
53668927 AAAAAT-AATCTTTTTATA
1 AAAAATCAAACTTTTTATA
53668945 AAAAATCAAACTTTTTAT
1 AAAAATCAAACTTTTTAT
53668963 TAAATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 6 0.38
19 10 0.62
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (19 bp):
AAAAATCAAACTTTTTATA
Found at i:53671144 original size:39 final size:39
Alignment explanation
Indices: 53671087--53671166 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
53671077 GTCCGTATCG
*
53671087 GTTTGTGGGTTAACCAGTCTGATGCCTTTCTTCAAATCA
1 GTTTGTGGGTTAACCAGTCTGATGCCTCTCTTCAAATCA
*
53671126 GTTTGTGGGTTAATCAGTCTGATGCCTCTCTTCAAATCA
1 GTTTGTGGGTTAACCAGTCTGATGCCTCTCTTCAAATCA
53671165 GT
1 GT
53671167 ACCCTAGCCA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (39 bp):
GTTTGTGGGTTAACCAGTCTGATGCCTCTCTTCAAATCA
Found at i:53674843 original size:21 final size:22
Alignment explanation
Indices: 53674800--53674844 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
53674790 CTGTCTTATT
*
53674800 TTTTATTTTGCCATTTAGTTCTA
1 TTTTATTTT-CCATTTAGGTCTA
*
53674823 TTTTATTTT-CATTTTGGTCTA
1 TTTTATTTTCCATTTAGGTCTA
53674844 T
1 T
53674845 GGGCCATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 11 0.55
23 9 0.45
ACGTcount: A:0.16, C:0.11, G:0.09, T:0.64
Consensus pattern (22 bp):
TTTTATTTTCCATTTAGGTCTA
Found at i:53676506 original size:41 final size:41
Alignment explanation
Indices: 53676437--53676554 Score: 164
Period size: 41 Copynumber: 2.9 Consensus size: 41
53676427 TTTCTTACCT
* * * **
53676437 TTCGGGGCCTTAGTGGCGATTTCAAAAAAGCGCCGCTAATG
1 TTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATG
53676478 TTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATG
1 TTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATG
* * *
53676519 CTGGGGGCTTTAGCGGCGTTTTTGGAAAAGCGCCGC
1 TTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
53676555 AAAAAATATT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 69 1.00
ACGTcount: A:0.19, C:0.21, G:0.33, T:0.26
Consensus pattern (41 bp):
TTCGGGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATG
Found at i:53677219 original size:15 final size:15
Alignment explanation
Indices: 53677199--53677229 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53677189 CATATTTTAA
53677199 GGTTTAGGGAGTATG
1 GGTTTAGGGAGTATG
*
53677214 GGTTTAGGGATTATG
1 GGTTTAGGGAGTATG
53677229 G
1 G
53677230 ATTAGGGATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.45, T:0.35
Consensus pattern (15 bp):
GGTTTAGGGAGTATG
Found at i:53677236 original size:14 final size:15
Alignment explanation
Indices: 53677202--53677239 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
53677192 ATTTTAAGGT
* *
53677202 TTAGGGAGTATGGGT
1 TTAGGGATTATGGGA
53677217 TTAGGGATTAT-GGA
1 TTAGGGATTATGGGA
53677231 TTAGGGATT
1 TTAGGGATT
53677240 TTCGTTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.24, C:0.00, G:0.39, T:0.37
Consensus pattern (15 bp):
TTAGGGATTATGGGA
Found at i:53677284 original size:15 final size:15
Alignment explanation
Indices: 53677243--53677299 Score: 71
Period size: 15 Copynumber: 3.9 Consensus size: 15
53677233 AGGGATTTTC
53677243 GTTTAAGGGTT-GGG
1 GTTTAAGGGTTAGGG
* *
53677257 ATTTAAGGTTTAGGG
1 GTTTAAGGGTTAGGG
*
53677272 GTTAAAGGGTTAGGG
1 GTTTAAGGGTTAGGG
*
53677287 GTTTAGGGGTTAG
1 GTTTAAGGGTTAG
53677300 ACGCGTTAGG
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
14 9 0.26
15 26 0.74
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.35
Consensus pattern (15 bp):
GTTTAAGGGTTAGGG
Found at i:53677436 original size:299 final size:296
Alignment explanation
Indices: 53676832--53677713 Score: 1143
Period size: 299 Copynumber: 3.0 Consensus size: 296
53676822 TATCACTATA
*
53676832 GTTTAGGGTTTTTGGTTTAGGGTA-ATGATTTATTTAAGATTTAAGGCCAGTTTAGGAGTT-ACT
1 GTTTAGGGTTTTTGGTTTAGGGTATATGATTTATTTAAGATTTAAGGCCGGTTTAGGAGTTCA-T
* * * * * *
53676895 ATTTTAAGGTTTAAGGAGTATGGGTTTAGAGATTATGGTTTA-AG-TGTTGAGATTTAAGGTTTA
65 ATTTTAAGGTTTAGGGAGTATGGGTTTAGGGATTATGGATTAGGGAT-TTTAG-TTTAAGGGTT-
* * * * ** *
53676958 AGGG--TTAGAGGGTTAGGAGTTCAGGGGTTAGATGTTATAGGTTA-AGAGTTAGGGATTTAGGG
127 -GGGATTTA-AGGTTTAGGGGTTAAAGGGTTAGGGGTT-TAGGTTAGAG-GTTAGGGATTTAAGG
* * * *
53677020 TTTAGGGATTCAGGGATTGAGTTAGGATTTTGGGAGTTTAGATT-A--ATTTTTTTAATTTATAT
188 TTTAGGGATTCAGGGGTCGGGTTAGGGTTTT-GG-GTTTAGATTAATTATTTTTTTAATTTATAT
* *
53677082 TTTAAATATGTTCGTATATAATTGTAAAAGAGATAATAATAATTTT
251 TTTAAATATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
*
53677128 GTTTAGGGTTTTTGGTTTAGGGTATATGATTTATTTAAGATTTAAGGTCGGTTTAGGAGTTCATA
1 GTTTAGGGTTTTTGGTTTAGGGTATATGATTTATTTAAGATTTAAGGCCGGTTTAGGAGTTCATA
*
53677193 TTTTAAGGTTTAGGGAGTATGGGTTTAGGGATTATGGATTAGGGATTTTCGTTTAAGGGTTGGGA
66 TTTTAAGGTTTAGGGAGTATGGGTTTAGGGATTATGGATTAGGGATTTTAGTTTAAGGGTTGGGA
* * *
53677258 TTTAAGGTTTAGGGGTTAAAGGGTTAGGGGTTTAGGGGTTAGACGCGTTAGGGGTTAAAAG-TTA
131 TTTAAGGTTTAGGGGTTAAAGGGTTAGGGGTTTA--GGTTAGA-G-GTTAGGGATTTAAGGTTTA
* *
53677322 AGGATTTAGGGGTCGGGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTTAATTTATATTTTAAA
192 GGGATTCAGGGGTCGGGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTTAATTTATATTTTAAA
*
53677387 TATGTTCTTATATAATTATAAAAGAGATAATAATAAATTT
257 TATGTTCTTATATAATTGTAAAAGAGATAATAATAAATTT
* * *
53677427 GTTTAGGGTTTTTAGTTTAGGGTATATGATTAATTTAAGATTTAAGGCCGGTTTAGGAGATCATA
1 GTTTAGGGTTTTTGGTTTAGGGTATATGATTTATTTAAGATTTAAGGCCGGTTTAGGAGTTCATA
* * *
53677492 TTTTAAGGTTTAGGGAGTATGGATTTAGGGATTATGGATTAGGGATTATGGTTTAAGGGTTGGGA
66 TTTTAAGGTTTAGGGAGTATGGGTTTAGGGATTATGGATTAGGGATTTTAGTTTAAGGGTTGGGA
* *
53677557 TTTAAGGTTTAAGGGTTAAA-CGTTA-GGGTTTA----AGA-GTTAGGGATTTAAGGTTTAGGGA
131 TTTAAGGTTTAGGGGTTAAAGGGTTAGGGGTTTAGGTTAGAGGTTAGGGATTTAAGGTTTAGGGA
** * * *
53677615 TTCAGGGGTCGGGTTAAAGTTTTGAGTTTAGATTAATTATTATTTTGATTTATATTTTAAATATG
196 TTCAGGGGTCGGGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTTAATTTATATTTTAAATATG
53677680 TTCTTATATAATTGTAAAAGAGATAATAATAAAT
261 TTCTTATATAATTGTAAAAGAGATAATAATAAAT
53677714 CAAATATATT
Statistics
Matches: 523, Mismatches: 49, Indels: 35
0.86 0.08 0.06
Matches are distributed among these distances:
288 12 0.02
289 98 0.19
291 3 0.01
295 5 0.01
296 55 0.11
297 101 0.19
298 34 0.07
299 215 0.41
ACGTcount: A:0.28, C:0.02, G:0.28, T:0.42
Consensus pattern (296 bp):
GTTTAGGGTTTTTGGTTTAGGGTATATGATTTATTTAAGATTTAAGGCCGGTTTAGGAGTTCATA
TTTTAAGGTTTAGGGAGTATGGGTTTAGGGATTATGGATTAGGGATTTTAGTTTAAGGGTTGGGA
TTTAAGGTTTAGGGGTTAAAGGGTTAGGGGTTTAGGTTAGAGGTTAGGGATTTAAGGTTTAGGGA
TTCAGGGGTCGGGTTAGGGTTTTGGGTTTAGATTAATTATTTTTTTAATTTATATTTTAAATATG
TTCTTATATAATTGTAAAAGAGATAATAATAAATTT
Found at i:53677535 original size:14 final size:15
Alignment explanation
Indices: 53677500--53677546 Score: 71
Period size: 14 Copynumber: 3.3 Consensus size: 15
53677490 TATTTTAAGG
*
53677500 TTTAGGGAGTATGGA
1 TTTAGGGATTATGGA
53677515 TTTAGGGATTATGGA
1 TTTAGGGATTATGGA
53677530 -TTAGGGATTATGG-
1 TTTAGGGATTATGGA
53677543 TTTA
1 TTTA
53677547 AGGGTTGGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
14 16 0.53
15 14 0.47
ACGTcount: A:0.26, C:0.00, G:0.34, T:0.40
Consensus pattern (15 bp):
TTTAGGGATTATGGA
Found at i:53677567 original size:21 final size:21
Alignment explanation
Indices: 53677493--53677610 Score: 71
Period size: 21 Copynumber: 5.5 Consensus size: 21
53677483 GAGATCATAT
*
53677493 TTTAAGGTTTAGGGAGTAT-GGA
1 TTTAAGGTTTAAGG-GT-TGGGA
* * * *
53677515 TTTAGGGATTATGGATTAGGGA
1 TTTAAGGTTTAAGGGTT-GGGA
*
53677537 -TTATGGTTTAAGGGTTGGGA
1 TTTAAGGTTTAAGGGTTGGGA
**
53677557 TTTAAGGTTTAAGGGTT-AAA
1 TTTAAGGTTTAAGGGTTGGGA
* * *
53677577 CGTTAGGGTTTAAGAGTTAGGGA
1 -TTTAAGGTTTAAGGGTT-GGGA
53677600 TTTAAGGTTTA
1 TTTAAGGTTTA
53677611 GGGATTCAGG
Statistics
Matches: 72, Mismatches: 18, Indels: 12
0.71 0.18 0.12
Matches are distributed among these distances:
20 6 0.08
21 42 0.58
22 23 0.32
23 1 0.01
ACGTcount: A:0.27, C:0.01, G:0.34, T:0.38
Consensus pattern (21 bp):
TTTAAGGTTTAAGGGTTGGGA
Found at i:53677605 original size:15 final size:14
Alignment explanation
Indices: 53677543--53677616 Score: 64
Period size: 15 Copynumber: 5.1 Consensus size: 14
53677533 GGGATTATGG
53677543 TTTAAGGGTT-GGGA
1 TTTAA-GGTTAGGGA
53677557 TTTAAGGTTTAAGGG-
1 TTTAAGG-TT-AGGGA
* *
53677572 TTAAACGTTAGGG-
1 TTTAAGGTTAGGGA
53677585 TTTAAGAGTTAGGGA
1 TTTAAG-GTTAGGGA
53677600 TTTAAGGTTTAGGGA
1 TTTAAGG-TTAGGGA
53677615 TT
1 TT
53677617 CAGGGGTCGG
Statistics
Matches: 50, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
13 10 0.20
14 17 0.34
15 20 0.40
16 3 0.06
ACGTcount: A:0.27, C:0.01, G:0.34, T:0.38
Consensus pattern (14 bp):
TTTAAGGTTAGGGA
Found at i:53686902 original size:3 final size:3
Alignment explanation
Indices: 53686894--53686921 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
53686884 TACTGATATC
53686894 AGT AGT AGT AGT AGT AGT AGT AGT AGT A
1 AGT AGT AGT AGT AGT AGT AGT AGT AGT A
53686922 TATTCATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (3 bp):
AGT
Found at i:53687746 original size:42 final size:43
Alignment explanation
Indices: 53687699--53688035 Score: 353
Period size: 43 Copynumber: 7.9 Consensus size: 43
53687689 GATATGTTTT
* * * * *
53687699 TAGCGGCGTTTGTGTGAAAAGCGCAGCTAAAGGT-TTGTTCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * *
53687741 TAGCGGCGTTTGTAAGAAAAAGAGTCGCT-AAAGATC-TGTTCTA
1 TAGCGGCGTTTGTGAG-AAAAGCGCCGCTAAAAG-TCATGATCTA
* *
53687784 TAGCGGCATTTGTGAGAAAAGCGCCGCTAAAAGTGATGATCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTA
* *
53687827 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAAGTCATGACCTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * *
53687870 TAGTGGCGTTTATG-GGAAAGCGCCGCTAAAAGTCATGATTTA
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * *
53687912 TAGCGACGTTTGTG-GATAAGCGCCACTAAAAGTCATGATCTT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTA
* * *
53687954 TAGCGGCGATTGTGAGAAAAGCGCCGCTAAAAGTCATGACCTT
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTA
* * * *
53687997 TAGCTGTGTTTGTG-GAAAAATCGCCGCTAAAGGTCATGA
1 TAGCGGCGTTTGTGAG-AAAAGCGCCGCTAAAAGTCATGA
53688036 CTTTTAGCGG
Statistics
Matches: 249, Mismatches: 39, Indels: 13
0.83 0.13 0.04
Matches are distributed among these distances:
42 100 0.40
43 149 0.60
ACGTcount: A:0.29, C:0.17, G:0.28, T:0.26
Consensus pattern (43 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTA
Found at i:53687847 original size:85 final size:86
Alignment explanation
Indices: 53687699--53688050 Score: 358
Period size: 85 Copynumber: 4.1 Consensus size: 86
53687689 GATATGTTTT
* * * * * * *
53687699 TAGCGGCGTTTGTGTGAAAAGCGCAGCTAAAGGT-TTGTTCTATAGCGGCGTTTGTAAGAAAAAG
1 TAGCGGCATTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGT-GGAAAAAG
* * *
53687763 AGTCGCT-AAAGATC-TGTTCTA
65 CGCCGCTAAAAG-TCATGATCTA
* *
53687784 TAGCGGCATTTGTGAGAAAAGCGCCGCTAAAAGTGATGATCTATAGCGGCGTTTGTGGGAAAAGC
1 TAGCGGCATTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGAAAAAGC
*
53687849 GCCGCTAAAAGTCATGACCTA
66 GCCGCTAAAAGTCATGATCTA
* * * * * * *
53687870 TAGTGGCGTTTATG-GGAAAGCGCCGCTAAAAGTCATGATTTATAGCGACGTTTGTGG-ATAAGC
1 TAGCGGCATTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGAAAAAGC
* *
53687933 GCCACTAAAAGTCATGATCTT
66 GCCGCTAAAAGTCATGATCTA
* * * * *
53687954 TAGCGGCGA-TTGTGAGAAAAGCGCCGCTAAAAGTCATGACCTTTAGCTGTGTTTGTGGAAAAAT
1 TAGCGGC-ATTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGAAAAAG
* *
53688018 CGCCGCTAAAGGTCATGA-CTTT
65 CGCCGCTAAAAGTCATGATC-TA
53688040 TAGCGGCATTT
1 TAGCGGCATTT
53688051 ATTTCTAAAA
Statistics
Matches: 222, Mismatches: 37, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
84 33 0.15
85 120 0.54
86 69 0.31
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (86 bp):
TAGCGGCATTTGTGAGAAAAGCGCCGCTAAAAGTCATGATCTATAGCGGCGTTTGTGGAAAAAGC
GCCGCTAAAAGTCATGATCTA
Found at i:53699542 original size:45 final size:44
Alignment explanation
Indices: 53699448--53699631 Score: 228
Period size: 45 Copynumber: 4.1 Consensus size: 44
53699438 AGCTACAACA
* * *
53699448 ACAAATCTTATTTCCTTAAAGTTGCAGTGGAGT-AGATTAAAGCT
1 ACAAAT-TTATCTCCCTAAAGTTGCAGTGGAGTAAGATTGAAGCT
*
53699492 ACAAATTTGATCTCCCTGAAGTTGCAGTGGAGTAAGATTGAAGCT
1 ACAAATTT-ATCTCCCTAAAGTTGCAGTGGAGTAAGATTGAAGCT
* *
53699537 ACAAATCTTATCTCCTTAAAGTTGCAGTGGAGCAAGATTGAAGCT
1 ACAAAT-TTATCTCCCTAAAGTTGCAGTGGAGTAAGATTGAAGCT
* * * *
53699582 GCAAATATAATCTCCCTAAAGTTGTAGTGGAG-CAGATTGAAGCT
1 ACAAAT-TTATCTCCCTAAAGTTGCAGTGGAGTAAGATTGAAGCT
53699626 ACAAAT
1 ACAAAT
53699632 CCTATACCTC
Statistics
Matches: 123, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
43 2 0.02
44 43 0.35
45 76 0.62
46 2 0.02
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.29
Consensus pattern (44 bp):
ACAAATTTATCTCCCTAAAGTTGCAGTGGAGTAAGATTGAAGCT
Found at i:53699560 original size:89 final size:90
Alignment explanation
Indices: 53699448--53699844 Score: 317
Period size: 89 Copynumber: 4.3 Consensus size: 90
53699438 AGCTACAACA
*
53699448 ACAAATCTTATTTCCTTAAAGTTGCAGTGGAG-TAGATTAAAGCTACAAAT-TTGATCTCCCTGA
1 ACAAATCTTATCTCCTTAAAGTTGCAGTGGAGCTAGATTAAAGCTACAAATCTT-ATCTCCCTGA
*
53699511 AGTTGCAGTGGAGTAAGATTGAAGCT
65 AGTTGCAGTGGAGTAAGATTGAAACT
* * * * * *
53699537 ACAAATCTTATCTCCTTAAAGTTGCAGTGGAGCAAGATTGAAGCTGCAAATATAATCTCCCTAAA
1 ACAAATCTTATCTCCTTAAAGTTGCAGTGGAGCTAGATTAAAGCTACAAATCTTATCTCCCTGAA
* * *
53699602 GTTGTAGTGGAG-CAGATTGAAGCT
66 GTTGCAGTGGAGTAAGATTGAAACT
* * * * * * *
53699626 ACAAATCCTAT-ACCTCTAAAGTTGCATTGG-GTTGGATTAAATCTACCATAGTGAGTCTTATTT
1 ACAAATCTTATCTCCT-TAAAGTTGCAGTGGAGCTAGATTAAAGCTA-CA-A---A-TCTTATCT
*
53699689 CCCTGAAGTTGCAGTGGAACAGATTAA-AGTTACAAACT
59 CCCTGAAGTTGCAGTGG---AG--TAAGA-TT-GAAACT
* * ** **
53699727 ACAAATCTTATCTCCTTGAAGTTGCAGTGGAGC-AGATTGAAGCTATGAATCTTATCTTTCTGAA
1 ACAAATCTTATCTCCTTAAAGTTGCAGTGGAGCTAGATTAAAGCTACAAATCTTATCTCCCTGAA
**
53699791 GTTGCAGCAGAGT-AGATTGAAACT
66 GTTGCAGTGGAGTAAGATTGAAACT
* * *
53699815 ACAATTCCTATACACC-TAAAGTTGCAGTGG
1 ACAAATCTTAT-CTCCTTAAAGTTGCAGTGG
53699845 GTTAGAATAA
Statistics
Matches: 242, Mismatches: 45, Indels: 43
0.73 0.14 0.13
Matches are distributed among these distances:
88 39 0.16
89 73 0.30
90 39 0.16
91 1 0.00
92 2 0.01
93 1 0.00
94 20 0.08
95 20 0.08
96 1 0.00
97 2 0.01
99 2 0.01
100 3 0.01
101 35 0.14
102 4 0.02
ACGTcount: A:0.32, C:0.17, G:0.20, T:0.30
Consensus pattern (90 bp):
ACAAATCTTATCTCCTTAAAGTTGCAGTGGAGCTAGATTAAAGCTACAAATCTTATCTCCCTGAA
GTTGCAGTGGAGTAAGATTGAAACT
Found at i:53699645 original size:44 final size:44
Alignment explanation
Indices: 53699464--53699651 Score: 204
Period size: 45 Copynumber: 4.2 Consensus size: 44
53699454 CTTATTTCCT
* *
53699464 TAAAGTTGCAGTGGAGTAGATTAAAGCTACAAATTTGAT-CTCCC
1 TAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATTT-ATACTCCC
* * *
53699508 TGAAGTTGCAGTGGAGTAAGATTGAAGCTACAAATCTTAT-CTCCT
1 TAAAGTTGCAGTGGAG-CAGATTGAAGCTACAAAT-TTATACTCCC
* *
53699553 TAAAGTTGCAGTGGAGCAAGATTGAAGCTGCAAATATA-ATCTCCC
1 TAAAGTTGCAGTGGAGC-AGATTGAAGCTACAAATTTATA-CTCCC
* * *
53699598 TAAAGTTGTAGTGGAGCAGATTGAAGCTACAAATCCTATAC-CTC
1 TAAAGTTGCAGTGGAGCAGATTGAAGCTACAAAT-TTATACTCCC
53699642 TAAAGTTGCA
1 TAAAGTTGCA
53699652 TTGGGTTGGA
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
44 44 0.36
45 76 0.62
46 3 0.02
ACGTcount: A:0.34, C:0.16, G:0.21, T:0.28
Consensus pattern (44 bp):
TAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATTTATACTCCC
Found at i:53713474 original size:24 final size:24
Alignment explanation
Indices: 53713435--53713490 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
53713425 TTTATGTCCT
* *
53713435 AAAATTTCAGTGGATTGAACCTTG
1 AAAATTACAGTGGATTAAACCTTG
* *
53713459 AAGATTACAGTGGATTAAACTTTG
1 AAAATTACAGTGGATTAAACCTTG
53713483 AAAATTAC
1 AAAATTAC
53713491 GGCCGGGGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (24 bp):
AAAATTACAGTGGATTAAACCTTG
Found at i:53713908 original size:88 final size:88
Alignment explanation
Indices: 53713800--53714083 Score: 451
Period size: 88 Copynumber: 3.2 Consensus size: 88
53713790 ATGGATTGAA
*
53713800 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATTGAAAACACCAGCCTTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTC
*
53713865 CCTGAGCAGCAGTGGAGTAGGTT
66 CTTGAGCAGCAGTGGAGTAGGTT
* * * *
53713888 GAAAATTGTAGATCTTGTCTTCTTGTACTGGCAATGAAGCAGATCGAAAACACCAGCTTTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTC
* * *
53713953 CTTAAGCAGCAGTAGAGTCGGTT
66 CTTGAGCAGCAGTGGAGTAGGTT
*
53713976 GAAGATTGTAAATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTC
1 GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTC
*
53714041 CTTGAGCAGTAGTGGAGTAGGTT
66 CTTGAGCAGCAGTGGAGTAGGTT
* *
53714064 GAAGATTGCAGATCCTGTCT
1 GAAGATTGTAGATCTTGTCT
53714084 CCCTAAGTAG
Statistics
Matches: 175, Mismatches: 21, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
88 175 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (88 bp):
GAAGATTGTAGATCTTGTCTTCCTGTACTGGCAGTGAAGCAGATCGAAAACACCAGCCTTATCTC
CTTGAGCAGCAGTGGAGTAGGTT
Found at i:53714191 original size:132 final size:132
Alignment explanation
Indices: 53714026--53714526 Score: 729
Period size: 132 Copynumber: 3.8 Consensus size: 132
53714016 AGATCGAAAA
* * *
53714026 CACCAG-CCTTATCTCCTTGAGCAGTAGTGGAGTAGGTTGAAGATTGCAGATCCTGTCTCCCTAA
1 CACCAGTCC-TATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCATGTCTCCCTAA
* *
53714090 GTAGTAGTGGAGCAGATCAAATACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
65 GCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTA
53714155 AGC
130 AGC
* *
53714158 CACCAGTCCTATCTCCCTGAACAGCAGTAGAGTAGGTTGAAGATTGCAGATCATGTCTCCCTAAG
1 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCATGTCTCCCTAAG
* * *
53714223 CAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTTCTAAGATAGTAGGGAAGCAGATTTAA
66 CAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
*
53714288 GT
131 GC
* **
53714290 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGTAGATCATGTCTCAATAAG
1 CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCATGTCTCCCTAAG
* * *
53714355 CAGTAGTGGAGTAGATCAAAGACGGTGAATCTTATCTTCCCAATGTAGTAGGGAAGTAGATTTAA
66 CAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
53714420 GC
131 GC
* ** * * *
53714422 CACCAGTCCTATTTCTTTGAGCTA-CAGTGGAGTAAGTTGAAGATTGTAGATCCTGTCTCCCTAA
1 CACCAGTCCTATCTCCCTGAGC-AGCAGTGGAGTAGGTTGAAGATTGCAGATCATGTCTCCCTAA
* * *
53714486 GTAGTAGTGGAGCAGATCAAAGACAGCGAATCTTAT-TTCCC
65 GCAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCC
53714527 TAGCTTTGCA
Statistics
Matches: 333, Mismatches: 34, Indels: 5
0.90 0.09 0.01
Matches are distributed among these distances:
131 5 0.02
132 325 0.98
133 3 0.01
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (132 bp):
CACCAGTCCTATCTCCCTGAGCAGCAGTGGAGTAGGTTGAAGATTGCAGATCATGTCTCCCTAAG
CAGTAGTGGAGCAGATCAAAGACGGTGAATCTTATCTTCCCAAGGTAGTAGGGAAGCAGATTTAA
GC
Found at i:53714950 original size:88 final size:88
Alignment explanation
Indices: 53714803--53714963 Score: 207
Period size: 88 Copynumber: 1.8 Consensus size: 88
53714793 AAAGGCTACA
*
53714803 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCACAAACCTTATATTCCTGAAGTTA
1 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCACAAACCTTATATCCCTGAAGTTA
53714868 CAGTGGAGCAGGTTGAAGATGCC
66 CAGTGGAGCAGGTTGAAGATGCC
* * * * * * * * *
53714891 AATCTTATCTTCTTGAAGTTGTAGTGGAGCAGATTCAAGCTATTAATCC-TATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCA-CAAACCTTATATCCCTGAAGTT
*
53714955 GCAGTGGAG
65 ACAGTGGAG
53714964 TGGATTAAAA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
88 57 0.93
89 4 0.07
ACGTcount: A:0.29, C:0.19, G:0.22, T:0.30
Consensus pattern (88 bp):
AATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTAAAGCCACAAACCTTATATCCCTGAAGTTA
CAGTGGAGCAGGTTGAAGATGCC
Found at i:53718601 original size:22 final size:22
Alignment explanation
Indices: 53718559--53718602 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
53718549 GATATAATAT
* * *
53718559 GATATGTTATGATACGTTATGA
1 GATATGATATGATAAGATATGA
53718581 GATATGATATGATAAGATATGA
1 GATATGATATGATAAGATATGA
53718603 AAATGTGATA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.39, C:0.02, G:0.23, T:0.36
Consensus pattern (22 bp):
GATATGATATGATAAGATATGA
Found at i:53719221 original size:30 final size:30
Alignment explanation
Indices: 53719185--53719241 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
53719175 TGGTCAAAGT
* *
53719185 TTGGGTTTGGTTTTCGGCCCATTAATTAAA
1 TTGGGTTTGGTTTCCGGCCCATGAATTAAA
*
53719215 TTGGGTTTTGTTTCCGGCCCATGAATT
1 TTGGGTTTGGTTTCCGGCCCATGAATT
53719242 CAGTTCAGTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.16, C:0.16, G:0.25, T:0.44
Consensus pattern (30 bp):
TTGGGTTTGGTTTCCGGCCCATGAATTAAA
Found at i:53722305 original size:21 final size:21
Alignment explanation
Indices: 53722281--53722322 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
53722271 GATGGCTTGA
* * *
53722281 AAATCAAATAATATTTTAACC
1 AAATAAAATAAAATTTAAACC
53722302 AAATAAAATAAAATTTAAACC
1 AAATAAAATAAAATTTAAACC
53722323 CCTGAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.29
Consensus pattern (21 bp):
AAATAAAATAAAATTTAAACC
Found at i:53722367 original size:21 final size:19
Alignment explanation
Indices: 53722327--53722371 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
53722317 TAAACCCCTG
*
53722327 AATTTTAATTAAACCTTAA
1 AATTTTAATTAAACCATAA
*
53722346 AATTTTAACTTTAAATCATAA
1 AATTTTAA--TTAAACCATAA
53722367 AATTT
1 AATTT
53722372 AAATCTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 8 0.36
21 14 0.64
ACGTcount: A:0.47, C:0.09, G:0.00, T:0.44
Consensus pattern (19 bp):
AATTTTAATTAAACCATAA
Found at i:53727940 original size:94 final size:94
Alignment explanation
Indices: 53727775--53727968 Score: 381
Period size: 94 Copynumber: 2.1 Consensus size: 94
53727765 GACCAATTCA
53727775 TACC-AATATATATAACATATATGAACACATTAATTACATGATCTAAATTCAACCATTCAAGTCA
1 TACCAAATATATATAACATATATGAACACATTAATTACATGATCTAAATTCAACCATTCAAGTCA
53727839 CAAGGATCAAGTTTATGCACTAATCTATT
66 CAAGGATCAAGTTTATGCACTAATCTATT
53727868 TACCAAATATATATAACATATATGAACACATTAATTACATGATCTAAATTCAACCATTCAAGTCA
1 TACCAAATATATATAACATATATGAACACATTAATTACATGATCTAAATTCAACCATTCAAGTCA
53727933 CAAGGATCAAGTTTATGCACTAATCTATT
66 CAAGGATCAAGTTTATGCACTAATCTATT
53727962 TACCAAA
1 TACCAAA
53727969 CTGTATACAC
Statistics
Matches: 100, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
93 4 0.04
94 96 0.96
ACGTcount: A:0.43, C:0.19, G:0.07, T:0.31
Consensus pattern (94 bp):
TACCAAATATATATAACATATATGAACACATTAATTACATGATCTAAATTCAACCATTCAAGTCA
CAAGGATCAAGTTTATGCACTAATCTATT
Found at i:53729751 original size:16 final size:16
Alignment explanation
Indices: 53729730--53729776 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
53729720 CAAAATCGGG
*
53729730 TTAAAAAATTATTTAA
1 TTAAAAAATTAATTAA
53729746 TTAAAAAATTAATTAA
1 TTAAAAAATTAATTAA
53729762 TT--AAAATTAATTAA
1 TTAAAAAATTAATTAA
53729776 T
1 T
53729777 AATATTTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
14 13 0.43
16 17 0.57
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TTAAAAAATTAATTAA
Found at i:53732980 original size:41 final size:41
Alignment explanation
Indices: 53732945--53733145 Score: 235
Period size: 41 Copynumber: 4.9 Consensus size: 41
53732935 GTGAAATTGT
*
53732945 TCAGACTATACGTCTAGCAGGCTAAGTGCCGGTGAATTGAA
1 TCAGACTATACGTCCAGCAGGCTAAGTGCCGGTGAATTGAA
* *
53732986 TCGGACTATACGTCCAGCAAGCTAAGTGCCGGTGAATTGAA
1 TCAGACTATACGTCCAGCAGGCTAAGTGCCGGTGAATTGAA
* * *
53733027 TCAGATTATATGTCCAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGACTATACGTCCAGCAGGCTAAGTGCCGGTGAATTGAA
* * **
53733068 TCAGGCTATA-GGCCTAGCAGGCTAAGTGCCGGTGAACGGAA
1 TCAGACTATACGTCC-AGCAGGCTAAGTGCCGGTGAATTGAA
* * * * *
53733109 TTAGACTATAAGTCTATCAGG-TGAAGTGCCAGTGAAT
1 TCAGACTATACGTCCAGCAGGCT-AAGTGCCGGTGAAT
53733146 CTGTTTAAAT
Statistics
Matches: 138, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
40 4 0.03
41 132 0.96
42 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (41 bp):
TCAGACTATACGTCCAGCAGGCTAAGTGCCGGTGAATTGAA
Found at i:53733381 original size:37 final size:35
Alignment explanation
Indices: 53733332--53733420 Score: 128
Period size: 37 Copynumber: 2.5 Consensus size: 35
53733322 TTTAAATGTG
53733332 TATATGTATGCATTCGGCATAGGTGGATATAAGTGTA
1 TATATGT-TGCATTCGGCATAGGTGGATATAAGTG-A
*
53733369 TATATGTCTGCATTCGGCATAGGTGGGTATAAGTGA
1 TATATGT-TGCATTCGGCATAGGTGGATATAAGTGA
53733405 -ATATG-TGCATTCGGCA
1 TATATGTTGCATTCGGCA
53733421 CTTATAGTTG
Statistics
Matches: 50, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
33 11 0.22
35 5 0.10
36 1 0.02
37 33 0.66
ACGTcount: A:0.27, C:0.11, G:0.28, T:0.34
Consensus pattern (35 bp):
TATATGTTGCATTCGGCATAGGTGGATATAAGTGA
Found at i:53740326 original size:41 final size:41
Alignment explanation
Indices: 53740291--53740449 Score: 221
Period size: 41 Copynumber: 3.9 Consensus size: 41
53740281 GTGAAATTGT
**
53740291 TCAGACTATACGTCTTGCAGGCTAAGTGCCGGTGAATTGAA
1 TCAGACTATACGTCCAGCAGGCTAAGTGCCGGTGAATTGAA
* *
53740332 TCGGACTATACGTCCAGCAAGCTAAGTGCCGGTGAATTGAA
1 TCAGACTATACGTCCAGCAGGCTAAGTGCCGGTGAATTGAA
* * *
53740373 TCAGATTATATGTCCAGCAGGCTAAGTGCCGGTGAACTGAA
1 TCAGACTATACGTCCAGCAGGCTAAGTGCCGGTGAATTGAA
* *
53740414 TCAGGCTATA-GGCCTAGCAGGCTAAGTGCCGGTGAA
1 TCAGACTATACGTCC-AGCAGGCTAAGTGCCGGTGAA
53740450 CGAAATTAGA
Statistics
Matches: 105, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 3 0.03
41 102 0.97
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (41 bp):
TCAGACTATACGTCCAGCAGGCTAAGTGCCGGTGAATTGAA
Found at i:53740464 original size:41 final size:41
Alignment explanation
Indices: 53740291--53740492 Score: 180
Period size: 41 Copynumber: 4.9 Consensus size: 41
53740281 GTGAAATTGT
* * * *
53740291 TCAGACTATACGTCTTGCAGGCTAAGTGCCGGTGAATTGAA
1 TCAGACTATAGGCCTAGCAGGCTAAGTGCCGGTGAATCGAA
* * * *
53740332 TCGGACTATACGTCC-AGCAAGCTAAGTGCCGGTGAATTGAA
1 TCAGACTATA-GGCCTAGCAGGCTAAGTGCCGGTGAATCGAA
* *
53740373 TCAGATTATATGTCC-AGCAGGCTAAGTGCCGGTGAA-CTGAA
1 TCAGACTATA-GGCCTAGCAGGCTAAGTGCCGGTGAATC-GAA
*
53740414 TCAGGCTATAGGCCTAGCAGGCTAAGTGCCGGTGAA-CGAAA
1 TCAGACTATAGGCCTAGCAGGCTAAGTGCCGGTGAATCG-AA
* * * * *
53740455 TTAGACTATAAGTCTATCAGG-TGAAGTGCCAGTGAATC
1 TCAGACTATAGGCCTAGCAGGCT-AAGTGCCGGTGAATC
53740493 TGTTTAAATT
Statistics
Matches: 135, Mismatches: 20, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
40 5 0.04
41 128 0.95
42 2 0.01
ACGTcount: A:0.29, C:0.20, G:0.27, T:0.24
Consensus pattern (41 bp):
TCAGACTATAGGCCTAGCAGGCTAAGTGCCGGTGAATCGAA
Found at i:53740482 original size:82 final size:82
Alignment explanation
Indices: 53740291--53740490 Score: 221
Period size: 82 Copynumber: 2.4 Consensus size: 82
53740281 GTGAAATTGT
* * *
53740291 TCAGACTATACGTCT-TGCAGGCTAAGTGCCGGTGAATTGAATCGGACTATACGTCCAGCAAGCT
1 TCAGACTATAAGTCTAT-CAGGCTAAGTGCCGGTGAACTGAATCGGACTATACGGCCAGCAAGCT
*
53740355 AAGTGCCGGTGAATTGAA
65 AAGTGCCGGTGAATCGAA
* * * * *
53740373 TCAGATTATATGTCCAGCAGGCTAAGTGCCGGTGAACTGAATCAGG-CTATA-GGCCTAGCAGGC
1 TCAGACTATAAGTCTATCAGGCTAAGTGCCGGTGAACTGAATC-GGACTATACGGCC-AGCAAGC
53740436 TAAGTGCCGGTGAA-CGAAA
64 TAAGTGCCGGTGAATCG-AA
* *
53740455 TTAGACTATAAGTCTATCAGG-TGAAGTGCCAGTGAA
1 TCAGACTATAAGTCTATCAGGCT-AAGTGCCGGTGAA
53740491 TCTGTTTAAA
Statistics
Matches: 99, Mismatches: 14, Indels: 10
0.80 0.11 0.08
Matches are distributed among these distances:
81 5 0.05
82 92 0.93
83 2 0.02
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (82 bp):
TCAGACTATAAGTCTATCAGGCTAAGTGCCGGTGAACTGAATCGGACTATACGGCCAGCAAGCTA
AGTGCCGGTGAATCGAA
Found at i:53740724 original size:37 final size:37
Alignment explanation
Indices: 53740680--53740756 Score: 127
Period size: 37 Copynumber: 2.1 Consensus size: 37
53740670 TTTAAATGTG
* *
53740680 TATATGTATGTATTCGGCATAGGTGGATATAAGTGTA
1 TATATGTATGCATTCGGCATAGGTGGATATAAGTGAA
*
53740717 TATATGTATGCATTCGGCATAGGTGGGTATAAGTGAA
1 TATATGTATGCATTCGGCATAGGTGGATATAAGTGAA
53740754 TAT
1 TAT
53740757 GTGCATTCGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.36
Consensus pattern (37 bp):
TATATGTATGCATTCGGCATAGGTGGATATAAGTGAA
Found at i:53742866 original size:6 final size:6
Alignment explanation
Indices: 53742855--53742888 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
53742845 TGCAGTAATC
*
53742855 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTT ATTT
1 ATTTTA ATTTTA ATTTTA ATTTTA ATTTTA ATTT
53742889 AATGAAGTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (6 bp):
ATTTTA
Found at i:53743595 original size:20 final size:20
Alignment explanation
Indices: 53743570--53743609 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
53743560 TGTTGCACTG
53743570 CTTTACTATTATGCACAGGT
1 CTTTACTATTATGCACAGGT
53743590 CTTTACTATTATGCACAGGT
1 CTTTACTATTATGCACAGGT
53743610 TCTTCTGTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.40
Consensus pattern (20 bp):
CTTTACTATTATGCACAGGT
Found at i:53754844 original size:21 final size:20
Alignment explanation
Indices: 53754820--53754862 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
53754810 TAACTAGTTT
53754820 AATTGAAAAGAT-TATTAAAAA
1 AATTGAAAA-ATATA-TAAAAA
*
53754841 AATTTAAAAATATATAAAAA
1 AATTGAAAAATATATAAAAA
53754861 AA
1 AA
53754863 CAGAAAAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (20 bp):
AATTGAAAAATATATAAAAA
Found at i:53764215 original size:19 final size:19
Alignment explanation
Indices: 53764193--53764243 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
53764183 GGGTCTTTTT
*
53764193 ATGAAATTTAATGCATATG-
1 ATGAAATGTAATGC-TATGA
53764212 ATGAAATGTAATGCTATGA
1 ATGAAATGTAATGCTATGA
53764231 ATGAAATG-AATGC
1 ATGAAATGTAATGC
53764244 AAAAAGGAGT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 9 0.30
19 21 0.70
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (19 bp):
ATGAAATGTAATGCTATGA
Found at i:53766055 original size:9 final size:8
Alignment explanation
Indices: 53766020--53766066 Score: 51
Period size: 9 Copynumber: 5.8 Consensus size: 8
53766010 TAAAATGATA
53766020 AATAATA-
1 AATAATAT
*
53766027 AATAATAG
1 AATAATAT
*
53766035 AATACTAT
1 AATAATAT
53766043 AATAATGAT
1 AATAAT-AT
53766052 AATAATATT
1 AATAATA-T
53766061 AATAAT
1 AATAAT
53766067 GTAAAATAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
7 7 0.21
8 12 0.35
9 15 0.44
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (8 bp):
AATAATAT
Found at i:53777406 original size:3 final size:3
Alignment explanation
Indices: 53777400--53777452 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
53777390 TGACGACGAC
53777400 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
53777448 GAT GA
1 GAT GA
53777453 ATGACTGATT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:53786981 original size:2 final size:2
Alignment explanation
Indices: 53786974--53787017 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
53786964 GTACATGTTA
* * * *
53786974 AG AG AG AG AG AG AG AG GG AG GG AG GG AG GG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
53787016 AG
1 AG
53787018 CAAATTTTCT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.59, T:0.00
Consensus pattern (2 bp):
AG
Found at i:53791234 original size:112 final size:112
Alignment explanation
Indices: 53791037--53791266 Score: 451
Period size: 112 Copynumber: 2.1 Consensus size: 112
53791027 TATCAACAGC
53791037 AAGAACTTGAATCTAGCCCAGTACAAAGGTTTGCAGCCATTATTAAGGGGAAAAAAGATAAAAGG
1 AAGAACTTGAATCTAGCCCAGTACAAAGGTTTGCAGCCATTATTAAGGGGAAAAAAGATAAAAGG
53791102 GGAAAAGACTTAAATGCAAGATGTAGTTTCCACAGTTTTCAGTATGA
66 GGAAAAGACTTAAATGCAAGATGTAGTTTCCACAGTTTTCAGTATGA
53791149 AAGAACTTGAATCTAGCCCAGTACAAAGGTTTGCAGCCATTATTAAGGGGAAAAAAGATAAAAGG
1 AAGAACTTGAATCTAGCCCAGTACAAAGGTTTGCAGCCATTATTAAGGGGAAAAAAGATAAAAGG
53791214 GGAAAAGACTTAAATGCAAGATGTAGTTTCCACAGTTTTCAGTATGA
66 GGAAAAGACTTAAATGCAAGATGTAGTTTCCACAGTTTTCAGTATGA
*
53791261 AGGAAC
1 AAGAAC
53791267 AACTAACTAG
Statistics
Matches: 117, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
112 117 1.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.23
Consensus pattern (112 bp):
AAGAACTTGAATCTAGCCCAGTACAAAGGTTTGCAGCCATTATTAAGGGGAAAAAAGATAAAAGG
GGAAAAGACTTAAATGCAAGATGTAGTTTCCACAGTTTTCAGTATGA
Found at i:53794452 original size:4 final size:4
Alignment explanation
Indices: 53794443--53794469 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
53794433 CTTGGGGTTG
53794443 AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAA
53794470 ATATTTAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (4 bp):
AAAT
Found at i:53798041 original size:152 final size:153
Alignment explanation
Indices: 53797761--53798069 Score: 584
Period size: 152 Copynumber: 2.0 Consensus size: 153
53797751 CAAGTCCGGG
53797761 TAACGAAGTTCATCATTACCAACCAATTCTCGCTATCAAGTTAAATACTTGAGGTTTAAGGTTTA
1 TAACGAAGTTCATCATT---AACCAATTCTCGCTATCAAGTTAAATACTTGAGGTTTAAGGTTTA
53797826 AAGAAATGGTAGAATTTCATGAAAACTGATAAATGCCAGGGAGATAACTGAGAATCTGTGAGTTT
63 AAGAAATGGTAGAATTTCATGAAAACTGATAAATGCCAGGGAGATAACTGAGAATCTGTGAGTTT
53797891 TAATAACTAGTGACTAGAATGTTGTT
128 TAATAACTAGTGACTAGAATGTTGTT
53797917 TAACGAAGTTCATCATT-ACCAATTCTCGCTATCAAGTTAAATACTTGAGGTTTAAGGTTTAAAG
1 TAACGAAGTTCATCATTAACCAATTCTCGCTATCAAGTTAAATACTTGAGGTTTAAGGTTTAAAG
53797981 AAATGGTAGAATTTCATGAAAACTGATAAATGCCAGGGAGATAACTGAGAATCTGTGAGTTTTAA
66 AAATGGTAGAATTTCATGAAAACTGATAAATGCCAGGGAGATAACTGAGAATCTGTGAGTTTTAA
53798046 TAACTAGTGACTAGAATGTTGTT
131 TAACTAGTGACTAGAATGTTGTT
53798069 T
1 T
53798070 TGCAGGTTAC
Statistics
Matches: 153, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
152 136 0.89
156 17 0.11
ACGTcount: A:0.36, C:0.12, G:0.19, T:0.32
Consensus pattern (153 bp):
TAACGAAGTTCATCATTAACCAATTCTCGCTATCAAGTTAAATACTTGAGGTTTAAGGTTTAAAG
AAATGGTAGAATTTCATGAAAACTGATAAATGCCAGGGAGATAACTGAGAATCTGTGAGTTTTAA
TAACTAGTGACTAGAATGTTGTT
Found at i:53798310 original size:26 final size:26
Alignment explanation
Indices: 53798264--53798314 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
53798254 TAGAAGTACA
*
53798264 TAATTTTAGTTGCTTATTCTACAAGT
1 TAATTTTAGTTGCTTAGTCTACAAGT
*
53798290 TAATTTTAGCTT-TTTAGTCTACAAG
1 TAATTTTAG-TTGCTTAGTCTACAAG
53798315 AATAAAGCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 20 0.91
27 2 0.09
ACGTcount: A:0.27, C:0.12, G:0.12, T:0.49
Consensus pattern (26 bp):
TAATTTTAGTTGCTTAGTCTACAAGT
Found at i:53803528 original size:102 final size:102
Alignment explanation
Indices: 53803352--53803541 Score: 254
Period size: 102 Copynumber: 1.9 Consensus size: 102
53803342 CTGGTTTCAC
* * * * * * * *
53803352 TATCATCTAATTTCTTTAAATTATTAAACTAGAATTCTTTTCATTTTCAAAGAGATACAGAAGCA
1 TATCATCTAATTCCTTAAAATCATTAAACTAAAAATCTTTCCATTGTCAAAGAGATAAAGAAGCA
*
53803417 TAAATACGGCTAAATGGCAAGAACACGACCGCTAGTT
66 TAAATACGGCTAAATGACAAGAACACGACCGCTAGTT
* * * **
53803454 TATCATCTAATTCCTTAAAATCATTAAGCTAAAAATCTTTCCATTGTCAATGAGATAAAGATGTT
1 TATCATCTAATTCCTTAAAATCATTAAACTAAAAATCTTTCCATTGTCAAAGAGATAAAGAAGCA
53803519 TAAATACGGCTAAATGACAAGAA
66 TAAATACGGCTAAATGACAAGAA
53803542 TGTTCATGTA
Statistics
Matches: 74, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
102 74 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (102 bp):
TATCATCTAATTCCTTAAAATCATTAAACTAAAAATCTTTCCATTGTCAAAGAGATAAAGAAGCA
TAAATACGGCTAAATGACAAGAACACGACCGCTAGTT
Found at i:53810101 original size:16 final size:16
Alignment explanation
Indices: 53810080--53810117 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
53810070 TTTGGTTCGC
53810080 TGTAATGGAATAGAA-G
1 TGTAATGGAATA-AAGG
53810096 TGTAATGGAATAAAGG
1 TGTAATGGAATAAAGG
53810112 TGTAAT
1 TGTAAT
53810118 AGGTAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.42, C:0.00, G:0.29, T:0.29
Consensus pattern (16 bp):
TGTAATGGAATAAAGG
Found at i:53810181 original size:44 final size:46
Alignment explanation
Indices: 53810099--53810191 Score: 145
Period size: 44 Copynumber: 2.1 Consensus size: 46
53810089 ATAGAAGTGT
*
53810099 AATGGAATAAAGGTGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
1 AATGGAATAAAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
* *
53810145 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGGTTGAATGG
1 AATGGAATAAAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
53810189 AAT
1 AAT
53810192 AGAGGTGTAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
44 24 0.55
45 3 0.07
46 17 0.39
ACGTcount: A:0.29, C:0.04, G:0.30, T:0.37
Consensus pattern (46 bp):
AATGGAATAAAGGCGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
Found at i:53810187 original size:39 final size:44
Alignment explanation
Indices: 53810099--53810204 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 44
53810089 ATAGAAGTGT
*
53810099 AATGGAATAAAGGTGTAATAGGTAATTCTTCTGTTTGGTTGAATGG
1 AATGGAATAGAGGTGTAATAGGTAATTCTTCTGTTTGGTT--ATGG
* *
53810145 AATGGAATAGAGGCGTAAT-GGT-ATTCTTGTGTTTGG-T-T-G
1 AATGGAATAGAGGTGTAATAGGTAATTCTTCTGTTTGGTTATGG
53810184 AATGGAATAGAGGTGTAATAG
1 AATGGAATAGAGGTGTAATAG
53810205 CATAAGAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
39 19 0.35
40 2 0.04
43 1 0.02
44 13 0.24
45 3 0.05
46 17 0.31
ACGTcount: A:0.30, C:0.04, G:0.31, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAGGTGTAATAGGTAATTCTTCTGTTTGGTTATGG
Found at i:53810363 original size:18 final size:17
Alignment explanation
Indices: 53810340--53810376 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
53810330 AATTATTATT
53810340 AAATATAT-A-TTAATTA
1 AAATATATAATTTAA-TA
53810356 AAATATATAATTTAATA
1 AAATATATAATTTAATA
53810373 AAAT
1 AAAT
53810377 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 7 0.37
18 4 0.21
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAATATATAATTTAATA
Found at i:53810370 original size:14 final size:15
Alignment explanation
Indices: 53810333--53810372 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
53810323 TTAACATAAT
53810333 TATT-ATTAAATATA
1 TATTAATTAAATATA
53810347 TATTAATTAAA-ATA
1 TATTAATTAAATATA
*
53810361 TA-TAATTTAATA
1 TATTAATTAAATA
53810373 AAATTCTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 7 0.30
14 10 0.43
15 6 0.26
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TATTAATTAAATATA
Found at i:53810388 original size:15 final size:17
Alignment explanation
Indices: 53810368--53810402 Score: 56
Period size: 15 Copynumber: 2.2 Consensus size: 17
53810358 ATATATAATT
53810368 TAATAAA-ATTCTTA-A
1 TAATAAATATTCTTATA
53810383 TAATAAATATTCTTATA
1 TAATAAATATTCTTATA
53810400 TAA
1 TAA
53810403 ATTTACTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 7 0.39
17 4 0.22
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
TAATAAATATTCTTATA
Found at i:53810422 original size:61 final size:61
Alignment explanation
Indices: 53810357--53810664 Score: 260
Period size: 61 Copynumber: 5.1 Consensus size: 61
53810347 TATTAATTAA
*
53810357 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATAAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATAAATTTATTAAAATCAT
** * * * * * * * *
53810418 AATATATGGTACT-ATAAAA-T-ATAAT-TTGAAATAATTATTAT-TAAATATATTTTAAGT-AA
1 AATATATAAT-TTAATAAAATTCTTAATAAT-AAAT-ATTCTTATATAAATTTA-TTAAAATCAT
*
53810477 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTATTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATAAATTTATTAAAATCAT
* * * * * * ** * *
53810538 AATATATGATACT-ATAAAA-T-ATAAT-TTGAAATAATTATTAT-TAAATATATTTTAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAAT-AAAT-ATTCTTATATAAATTTATTAAAATCAT
* *
53810597 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATAAATTTATTAAAATCAT
53810658 AATATAT
1 AATATAT
53810665 GATACTATAA
Statistics
Matches: 184, Mismatches: 45, Indels: 36
0.69 0.17 0.14
Matches are distributed among these distances:
58 4 0.02
59 65 0.35
60 41 0.22
61 70 0.38
62 4 0.02
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATAAATATTCTTATATAAATTTATTAAAATCAT
Found at i:53810466 original size:120 final size:120
Alignment explanation
Indices: 53810328--53810679 Score: 659
Period size: 120 Copynumber: 2.9 Consensus size: 120
53810318 ATATTTTAAC
*
53810328 ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
* *
53810393 TCTTATATAAATTTACTAAAATCATAATATATGGTACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
*
53810448 ATAATTATTATTAAATATATTTTAAGTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
*
53810513 TCTTATATGAATTTATTAAAATCATAATATATGATACTATAAAATATAATTTGAA
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
53810568 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
53810633 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATAT
66 TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATAT
53810680 TTTTAATTAA
Statistics
Matches: 225, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 225 1.00
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.43
Consensus pattern (120 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATAAATAT
TCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATATAATTTGAA
Found at i:53810489 original size:18 final size:17
Alignment explanation
Indices: 53810462--53810496 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
53810452 TTATTATTAA
*
53810462 ATATATTTTAAGTAAAAT
1 ATATAATTTAA-TAAAAT
53810480 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
53810497 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:53810508 original size:15 final size:16
Alignment explanation
Indices: 53810488--53810517 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
53810478 ATATATAATT
53810488 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
53810503 TAATAAATATTCTTA
1 TAATAAATATTCTTA
53810518 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:53810603 original size:18 final size:17
Alignment explanation
Indices: 53810582--53810616 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
53810572 TTATTATTAA
*
53810582 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
53810600 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
53810617 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:53810614 original size:59 final size:59
Alignment explanation
Indices: 53810328--53810616 Score: 225
Period size: 59 Copynumber: 4.8 Consensus size: 59
53810318 ATATTTTAAC
* * *
53810328 ATAATTATTATTAAATATATATTAATTAAAATATATAATTTAATAAAAT-T--CTTAATA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATATAATTTGA-A
* * * * * *
53810385 ATAAATATTCTTATATA-AATTT-ACTAAAATCATAATATATGGTACTATAAAATATAATTTGAA
1 ATAATTATTATTAAATATATTTTAATTAAAAT-AT-ATA-AT-TTA--ATAAAATATAATTTGAA
* * *
53810448 ATAATTATTATTAAATATATTTTAAGTAAAATATATAATTTAATAAAATTCTTAATAAT-AA
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAA-T-ATAAT-TTGAA
* * * ** * * * *
53810509 AT-ATTCTTATATGAATTTATTAAAATCATAATATATGATACT-ATAAAATATAATTTGAA
1 ATAATTATTAT-TAAATATATTTTAATTAAAATATATAAT-TTAATAAAATATAATTTGAA
53810568 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAAT
1 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAAT
53810617 TCTTAATAAT
Statistics
Matches: 175, Mismatches: 38, Indels: 36
0.70 0.15 0.14
Matches are distributed among these distances:
55 7 0.04
56 5 0.03
57 17 0.10
58 4 0.02
59 44 0.25
60 16 0.09
61 43 0.25
62 5 0.03
63 18 0.10
64 9 0.05
65 7 0.04
ACGTcount: A:0.51, C:0.03, G:0.02, T:0.44
Consensus pattern (59 bp):
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATATAATTTGAA
Found at i:53810628 original size:15 final size:16
Alignment explanation
Indices: 53810608--53810637 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
53810598 ATATATAATT
53810608 TAATAAA-ATTCTTAA
1 TAATAAATATTCTTAA
53810623 TAATAAATATTCTTA
1 TAATAAATATTCTTA
53810638 TATGAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (16 bp):
TAATAAATATTCTTAA
Found at i:53811688 original size:13 final size:13
Alignment explanation
Indices: 53811670--53811694 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
53811660 GCTGTCTCAG
53811670 TTTTTGTGCCCAC
1 TTTTTGTGCCCAC
53811683 TTTTTGTGCCCA
1 TTTTTGTGCCCA
53811695 ACCTAGCATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.28, G:0.16, T:0.48
Consensus pattern (13 bp):
TTTTTGTGCCCAC
Found at i:53814987 original size:16 final size:16
Alignment explanation
Indices: 53814963--53815016 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
53814953 TGGTTCGCTA
*
53814963 TAATGGAATAGAGGCG
1 TAATAGAATAGAGGCG
*
53814979 TAATAGAATAGAGGCT
1 TAATAGAATAGAGGCG
* *
53814995 TAATGGAATAGAGACG
1 TAATAGAATAGAGGCG
53815011 TAATAG
1 TAATAG
53815017 CAATTCAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.43, C:0.06, G:0.30, T:0.22
Consensus pattern (16 bp):
TAATAGAATAGAGGCG
Found at i:53815058 original size:45 final size:44
Alignment explanation
Indices: 53814995--53815082 Score: 106
Period size: 45 Copynumber: 2.0 Consensus size: 44
53814985 AATAGAGGCT
*
53814995 TAATGGAATAGAGACGTAATAGCAATTCAAT-TGTTTGGTTGAATG
1 TAATAGAATAGAGACGTAATAG-AATTC-ATGTGTTTGGTTGAATG
* * * *
53815040 TAATAGAATAGGGGCGTAATAGTATTCTTGTGTTTGGTTGAAT
1 TAATAGAATAGAGACGTAATAGAATTCATGTGTTTGGTTGAAT
53815083 TGAATGGAGG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
43 1 0.03
44 17 0.46
45 19 0.51
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (44 bp):
TAATAGAATAGAGACGTAATAGAATTCATGTGTTTGGTTGAATG
Found at i:53815239 original size:35 final size:35
Alignment explanation
Indices: 53815174--53815262 Score: 92
Period size: 35 Copynumber: 2.5 Consensus size: 35
53815164 ATTGTTTTGT
53815174 TATAAA-ATTTTAATAAGATTATTAAAATAATATAA
1 TATAAATATTTTAATAAGATTATTAAAATAAT-TAA
* * * *
53815209 TATAAATATTTTAATCATATT-TTAACATAATTAT
1 TATAAATATTTTAATAAGATTATTAAAATAATTAA
53815243 TATTAAATATAATTTAATAA
1 TA-TAAATAT--TTTAATAA
53815263 AAAATATATA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
34 4 0.09
35 22 0.49
36 12 0.27
37 7 0.16
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (35 bp):
TATAAATATTTTAATAAGATTATTAAAATAATTAA
Found at i:53819031 original size:14 final size:14
Alignment explanation
Indices: 53819012--53819038 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
53819002 AGCAGAAATC
53819012 TGGAGAAAAGAAAA
1 TGGAGAAAAGAAAA
53819026 TGGAGAAAAGAAA
1 TGGAGAAAAGAAA
53819039 GAAATGTGAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.00, G:0.30, T:0.07
Consensus pattern (14 bp):
TGGAGAAAAGAAAA
Found at i:53824060 original size:15 final size:15
Alignment explanation
Indices: 53824040--53824075 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
53824030 TAACCGAATT
53824040 GGTGACCTGATTAAG
1 GGTGACCTGATTAAG
53824055 GGTGACCTGATTAAG
1 GGTGACCTGATTAAG
53824070 GGTGAC
1 GGTGAC
53824076 ACCAACTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.25, C:0.14, G:0.36, T:0.25
Consensus pattern (15 bp):
GGTGACCTGATTAAG
Found at i:53827211 original size:67 final size:67
Alignment explanation
Indices: 53827100--53827226 Score: 227
Period size: 67 Copynumber: 1.9 Consensus size: 67
53827090 AGGAACATCC
* *
53827100 AAATACATACCTAGATCCCTTACCTTTGTAAATCTAAGATTGTTACATAAATTAGTTGATAACAC
1 AAATACATACCTAGATCCCTTACCTTTGTAAATCCAAGACTGTTACATAAATTAGTTGATAACAC
53827165 CT
66 CT
*
53827167 AAATACATACCTAGATCCCTTGCCTTTGTAAATCCAAGACTGTTACATAAATTAGTTGAT
1 AAATACATACCTAGATCCCTTACCTTTGTAAATCCAAGACTGTTACATAAATTAGTTGAT
53827227 TCTTCCTATG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 57 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (67 bp):
AAATACATACCTAGATCCCTTACCTTTGTAAATCCAAGACTGTTACATAAATTAGTTGATAACAC
CT
Found at i:53827919 original size:14 final size:15
Alignment explanation
Indices: 53827893--53827922 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
53827883 AAACACGGTC
53827893 CATAAAAACCCATAT
1 CATAAAAACCCATAT
53827908 CATAAAAA-CCATAT
1 CATAAAAACCCATAT
53827922 C
1 C
53827923 CAAAAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.53, C:0.27, G:0.00, T:0.20
Consensus pattern (15 bp):
CATAAAAACCCATAT
Found at i:53827928 original size:14 final size:16
Alignment explanation
Indices: 53827891--53827928 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
53827881 TGAAACACGG
53827891 TCCATAAAAACCCATA
1 TCCATAAAAACCCATA
53827907 T-CATAAAAA-CCATA
1 TCCATAAAAACCCATA
53827921 TCCA-AAAA
1 TCCATAAAA
53827929 CAAAGAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 10 0.48
15 10 0.48
16 1 0.05
ACGTcount: A:0.55, C:0.26, G:0.00, T:0.18
Consensus pattern (16 bp):
TCCATAAAAACCCATA
Found at i:53831034 original size:22 final size:22
Alignment explanation
Indices: 53830975--53831031 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 22
53830965 ATCTTCAAGT
53830975 ATATGCAATCTT---AGATATG
1 ATATGCAATCTTAGAAGATATG
53830994 ATATGCAATCTTAGAAGATATG
1 ATATGCAATCTTAGAAGATATG
* *
53831016 ATTTTGTAATCTTAGA
1 A-TATGCAATCTTAGA
53831032 GATTTAAGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
19 12 0.38
22 8 0.25
23 12 0.38
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (22 bp):
ATATGCAATCTTAGAAGATATG
Found at i:53846994 original size:4 final size:4
Alignment explanation
Indices: 53846980--53847010 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
53846970 ATCTTTTCAT
*
53846980 GTTA ATTA GTTA GTTA GTTA GTTA GTTA GTT
1 GTTA GTTA GTTA GTTA GTTA GTTA GTTA GTT
53847011 GATAAGTTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
GTTA
Found at i:53849061 original size:13 final size:13
Alignment explanation
Indices: 53849040--53849079 Score: 71
Period size: 13 Copynumber: 3.1 Consensus size: 13
53849030 AGTTCTTCTT
53849040 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
53849053 TGCTGTTGAAAAG
1 TGCTTTTGAAAAG
53849066 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
53849079 T
1 T
53849080 TTGGTTTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:53852021 original size:23 final size:23
Alignment explanation
Indices: 53851991--53852039 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
53851981 TTTAAAATTT
53851991 AAAAAATTAAAAAAATATTTTTA
1 AAAAAATTAAAAAAATATTTTTA
53852014 AAAAAATTAAAAAAATATTTTTA
1 AAAAAATTAAAAAAATATTTTTA
53852037 AAA
1 AAA
53852040 GTATAAAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (23 bp):
AAAAAATTAAAAAAATATTTTTA
Found at i:53852048 original size:23 final size:23
Alignment explanation
Indices: 53851991--53852048 Score: 80
Period size: 23 Copynumber: 2.5 Consensus size: 23
53851981 TTTAAAATTT
*
53851991 AAAAAATTAAAAAAATATTTTTA
1 AAAAAATAAAAAAAATATTTTTA
*
53852014 AAAAAATTAAAAAAATATTTTTA
1 AAAAAATAAAAAAAATATTTTTA
**
53852037 AAAGTATAAAAA
1 AAAAAATAAAAA
53852049 TTAGTTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (23 bp):
AAAAAATAAAAAAAATATTTTTA
Found at i:53857101 original size:60 final size:60
Alignment explanation
Indices: 53856980--53857102 Score: 151
Period size: 60 Copynumber: 2.1 Consensus size: 60
53856970 GCTTGAGTTC
* * * *
53856980 TTTTTATCCAAGTTAAGTCTTAAACTTGGCAATTGTTCCCACATTGAGATCTAAAACTTT
1 TTTTTATCCAAGTTAAGTCTGAAACTTGACAAATGTTCCCACATTGAGACCTAAAACTTT
** **
53857040 TTTTTATCCAAGTTAAGTCCTGAAA-TTGACAAATGTTCCCATGTTGAG-CCTTCAACTTT
1 TTTTTATCCAAGTTAAGT-CTGAAACTTGACAAATGTTCCCACATTGAGACCTAAAACTTT
53857099 TTTT
1 TTTT
53857103 ATTATTATCT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
59 12 0.22
60 37 0.69
61 5 0.09
ACGTcount: A:0.28, C:0.19, G:0.12, T:0.41
Consensus pattern (60 bp):
TTTTTATCCAAGTTAAGTCTGAAACTTGACAAATGTTCCCACATTGAGACCTAAAACTTT
Found at i:53858832 original size:4 final size:4
Alignment explanation
Indices: 53858823--53858849 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
53858813 TAACCTTTTG
53858823 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
53858850 TAAATTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Done.