Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 135 of 189
Found at i:39078632 original size:74 final size:73
Alignment explanation
Indices: 39078420--39078625 Score: 265
Period size: 74 Copynumber: 2.8 Consensus size: 73
39078410 GTGCTGAGCT
* * **
39078420 CAAATATTGTTGGTAAATCCAACTAGAGCTGGGCTCACT-ATATATTCTTTAGTTTATCCAGCTA
1 CAAATATCGTTGGTATATCCAACTAGAGCTGGGCTCACTAAT-TATTCTTCGGTTTATCCA-CTA
*
39078484 GCACTGGGCG
64 GCACTCGGCG
*
39078494 CAAATATCGTTGGTATATCCAACTAGAGCTGGGCTCAC-AATTTATTCTTCGGTTTATCAGACTA
1 CAAATATCGTTGGTATATCCAACTAGAGCTGGGCTCACTAA-TTATTCTTCGGTTTATC-CACTA
* *
39078558 GCGCTCGGTG
64 GCACTCGGCG
*
39078568 CAAATATCGTTGGTATATCCAACTAGAG-TGGGGCTCACTAATTATTCGTCGGTTTATC
1 CAAATATCGTTGGTATATCCAACTAGAGCT-GGGCTCACTAATTATTCTTCGGTTTATC
39078626 TTACTAGTGC
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
73 1 0.01
74 113 0.96
75 4 0.03
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (73 bp):
CAAATATCGTTGGTATATCCAACTAGAGCTGGGCTCACTAATTATTCTTCGGTTTATCCACTAGC
ACTCGGCG
Found at i:39078666 original size:74 final size:74
Alignment explanation
Indices: 39078385--39078667 Score: 225
Period size: 74 Copynumber: 3.8 Consensus size: 74
39078375 ATAAATAACT
* * * * * * ** *
39078385 ATTTATTTGCCGGTTTATCCGACTAGTGCT-GAGCTCAAATATTGTTGGTAAATCCAACTAGAGC
1 ATTTATTCGTCGGTTTATCAGACTAGCGCTCG-GCGCAAATATCGTCAGTATATCCAACTAGAGC
*
39078449 TGGGCTCACT
65 TGGGCTCACA
* * ** * * **
39078459 ATATATTCTTTAGTTTATCCAG-CTAGCACTGGGCGCAAATATCGTTGGTATATCCAACTAGAGC
1 ATTTATTCGTCGGTTTAT-CAGACTAGCGCTCGGCGCAAATATCGTCAGTATATCCAACTAGAGC
39078523 TGGGCTCACA
65 TGGGCTCACA
* * **
39078533 ATTTATTCTTCGGTTTATCAGACTAGCGCTCGGTGCAAATATCGTTGGTATATCCAACTAGAG-T
1 ATTTATTCGTCGGTTTATCAGACTAGCGCTCGGCGCAAATATCGTCAGTATATCCAACTAGAGCT
39078597 GGGGCTCACTA
66 -GGGCTCAC-A
** * * * * *
39078608 A-TTATTCGTCGGTTTATCTTACTAGTGCTGGGCGCAACT-TCCGTCAGTTTATCTAACTAG
1 ATTTATTCGTCGGTTTATCAGACTAGCGCTCGGCGCAAATAT-CGTCAGTATATCCAACTAG
39078668 TACTAGGCAC
Statistics
Matches: 173, Mismatches: 30, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
73 5 0.03
74 163 0.94
75 5 0.03
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (74 bp):
ATTTATTCGTCGGTTTATCAGACTAGCGCTCGGCGCAAATATCGTCAGTATATCCAACTAGAGCT
GGGCTCACA
Found at i:39092286 original size:22 final size:22
Alignment explanation
Indices: 39092261--39092304 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
39092251 ACCACAAGTT
39092261 CTTTATTAAAAATGCAAATAAG
1 CTTTATTAAAAATGCAAATAAG
* *
39092283 CTTTATTTAAAATGTAAATAAG
1 CTTTATTAAAAATGCAAATAAG
39092305 AAAGACTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.48, C:0.07, G:0.09, T:0.36
Consensus pattern (22 bp):
CTTTATTAAAAATGCAAATAAG
Found at i:39101123 original size:20 final size:19
Alignment explanation
Indices: 39101090--39101139 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 19
39101080 ATTGTAATTG
*
39101090 AAAAAAAAGGAAATT-ACGA
1 AAAAAAAAGAAAATTGA-GA
39101109 AAAAAAAAGTAAAATTGAGA
1 AAAAAAAAG-AAAATTGAGA
39101129 ATAAAAAAAGA
1 A-AAAAAAAGA
39101140 GTACGAAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 9 0.33
20 9 0.33
21 9 0.33
ACGTcount: A:0.72, C:0.02, G:0.14, T:0.12
Consensus pattern (19 bp):
AAAAAAAAGAAAATTGAGA
Found at i:39103309 original size:19 final size:19
Alignment explanation
Indices: 39103265--39103309 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
39103255 GCGAAAACAC
* *
39103265 AAAAGAAAAGAAAAATGAGA
1 AAAAG-AAAGAAAAATCAAA
*
39103285 AGAAGAAAGAAAAATCAAA
1 AAAAGAAAGAAAAATCAAA
39103304 AAAAGA
1 AAAAGA
39103310 GAGCGAAACA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.76, C:0.02, G:0.18, T:0.04
Consensus pattern (19 bp):
AAAAGAAAGAAAAATCAAA
Found at i:39105234 original size:44 final size:44
Alignment explanation
Indices: 39105186--39105382 Score: 107
Period size: 44 Copynumber: 4.2 Consensus size: 44
39105176 CTAGTAATCC
*
39105186 TATCTCCCTGAGATTACAGTGGAACGGATT-AAAATAAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAACGGATTGAAAACAAA-GATCT
* ** *
39105230 TATCTCTCTGA-AGTTACAGTAGAGTAGATCGCATCAGATTGAAGCCAAAAATCT
1 TATCTCCCTGAGA-TTACAGT-G-G-A-A-CG-----GATTGAAAACAAAGATCT
* * ** * *
39105284 TATCTCCCTGAGATTATAGTGGAGCAAATTG-AAGCTAATA-ATCC
1 TATCTCCCTGAGATTACAGTGGAACGGATTGAAAAC-AA-AGATCT
*
39105328 TATCTCCCTGAGATTACAGTGGAGCGGATT-AAAACAAAGGATCT
1 TATCTCCCTGAGATTACAGTGGAACGGATTGAAAACAAA-GATCT
*
39105372 TATCTCTCTGA
1 TATCTCCCTGA
39105383 AGTTAGAGTA
Statistics
Matches: 116, Mismatches: 19, Indels: 36
0.68 0.11 0.21
Matches are distributed among these distances:
42 1 0.01
43 5 0.04
44 69 0.59
45 2 0.02
46 1 0.01
47 1 0.01
48 1 0.01
49 3 0.03
51 1 0.01
52 1 0.01
53 1 0.01
54 24 0.21
55 6 0.05
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGAGATTACAGTGGAACGGATTGAAAACAAAGATCT
Found at i:39105260 original size:142 final size:142
Alignment explanation
Indices: 39105044--39105416 Score: 620
Period size: 142 Copynumber: 2.6 Consensus size: 142
39105034 TTACAAGTCT
* * * *
39105044 TATCTCCCTGAGATTACAGTGGAGTGAATTAAAATAAAAGATCTTTTCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* * * *
39105109 GAGTAGATCGCATCGGATTGAAGCCAGAAATCTTATCTCCCTTAGATTAAAGCGGAGCAGATTGA
66 GAGTAGATCGCATCAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTAAAGCGGAGCAAATTGA
*
39105174 AGCTAGTAATCC
131 AGCTAATAATCC
*
39105186 TATCTCCCTGAGATTACAGTGGAACGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
* *
39105251 GAGTAGATCGCATCAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTATAGTGGAGCAAATTGA
66 GAGTAGATCGCATCAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTAAAGCGGAGCAAATTGA
39105316 AGCTAATAATCC
131 AGCTAATAATCC
* *
39105328 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAACAAAGGATCTTATCTCTCTGAAGTTAGAGTA
1 TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
39105393 GAGTAGATCGCATCAGATTGAAGC
66 GAGTAGATCGCATCAGATTGAAGC
39105417 TACAACAGCA
Statistics
Matches: 216, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
142 216 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (142 bp):
TATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATCTTATCTCTCTGAAGTTACAGTA
GAGTAGATCGCATCAGATTGAAGCCAAAAATCTTATCTCCCTGAGATTAAAGCGGAGCAAATTGA
AGCTAATAATCC
Found at i:39119430 original size:27 final size:27
Alignment explanation
Indices: 39119391--39119461 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
39119381 CGTTCTGACC
39119391 CACAACTCGTGTGAGCAGGACCATTTT
1 CACAACTCGTGTGAGCAGGACCATTTT
* * *
39119418 CACAACTCATGTGAGTAGGCCCATTTT
1 CACAACTCGTGTGAGCAGGACCATTTT
*
39119445 CGCAACTCGTGTGAGCA
1 CACAACTCGTGTGAGCA
39119462 TTTTGATTCA
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (27 bp):
CACAACTCGTGTGAGCAGGACCATTTT
Found at i:39122478 original size:37 final size:38
Alignment explanation
Indices: 39122432--39122538 Score: 112
Period size: 37 Copynumber: 2.8 Consensus size: 38
39122422 AATACATTTA
*
39122432 CAGTCTGGGCTTAAGCCCAATTTA-A-TAACAGTTCAGTT
1 CAGTCTGGGCTTAAGCCC-A-TTACAGTAACAGTCCAGTT
*
39122470 CAGT-TGGGCTTTAGCCCATTACAGTAACAGTCCAGTT
1 CAGTCTGGGCTTAAGCCCATTACAGTAACAGTCCAGTT
* * * * *
39122507 CAGTGTGGGCCTAAGCCCTTTCCTGTAACAGT
1 CAGTCTGGGCTTAAGCCCATTACAGTAACAGT
39122539 AAATGACTGG
Statistics
Matches: 59, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
35 3 0.05
36 2 0.03
37 28 0.47
38 26 0.44
ACGTcount: A:0.24, C:0.24, G:0.21, T:0.30
Consensus pattern (38 bp):
CAGTCTGGGCTTAAGCCCATTACAGTAACAGTCCAGTT
Found at i:39123372 original size:27 final size:27
Alignment explanation
Indices: 39123109--39123388 Score: 312
Period size: 27 Copynumber: 10.4 Consensus size: 27
39123099 GGGTATAACA
*
39123109 GTCATTTTACCCTATGGTGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* ** *
39123136 GTCATTTTACACTATAAGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
*
39123163 G-CTATTTTACCCTATAGGGGTATTTCG
1 GTC-ATTTTACCCTATGGGGGTATTTCG
** * *
39123190 GTCATTTTACTTTGTGGGGGTATTTCA
1 GTCATTTTACCCTATGGGGGTATTTCG
* **
39123217 GTCATTTTACCCTATGGGGTTATTTTA
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
39123244 ATCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
*
39123271 GTCATTCTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * *
39123298 ATCATTTTAACCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
39123325 GTCATTCTACCCTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
** * *
39123352 GTCATTTTACCCTATAAGGGTGTTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
39123379 G-CATTTTACC
1 GTCATTTTACC
39123389 TATTTTGGGG
Statistics
Matches: 216, Mismatches: 35, Indels: 5
0.84 0.14 0.02
Matches are distributed among these distances:
26 10 0.05
27 205 0.95
28 1 0.00
ACGTcount: A:0.19, C:0.17, G:0.22, T:0.42
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:39124368 original size:14 final size:15
Alignment explanation
Indices: 39124331--39124369 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
39124321 AGTAGATGAG
39124331 AGAAAAGAAGCAACAA
1 AGAAAAG-AGCAACAA
39124347 AGAAAAGAGCAA-AA
1 AGAAAAGAGCAACAA
*
39124361 AGAGAAGAG
1 AGAAAAGAG
39124370 AATTTGGCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
15 5 0.23
16 7 0.32
ACGTcount: A:0.67, C:0.08, G:0.26, T:0.00
Consensus pattern (15 bp):
AGAAAAGAGCAACAA
Found at i:39137404 original size:39 final size:38
Alignment explanation
Indices: 39137360--39137490 Score: 208
Period size: 39 Copynumber: 3.4 Consensus size: 38
39137350 TTTTGAATAT
39137360 TGTGATATATGCTTGAATGTTATGTGATTATATGAGTA
1 TGTGATATATGCTTGAATGTTATGTGATTATATGAGTA
*
39137398 TCGTGATATATGCTTAAATGTTATGTGATTATATGAGTA
1 T-GTGATATATGCTTGAATGTTATGTGATTATATGAGTA
* *
39137437 TTGTGATATATGCTTGAATGTTATATGATTATATGTGTAA
1 -TGTGATATATGCTTGAATGTTATGTGATTATATGAGT-A
39137477 TGTGATATATGCTT
1 TGTGATATATGCTT
39137491 AAAAGTGAAT
Statistics
Matches: 86, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
38 1 0.01
39 83 0.97
40 2 0.02
ACGTcount: A:0.29, C:0.04, G:0.21, T:0.46
Consensus pattern (38 bp):
TGTGATATATGCTTGAATGTTATGTGATTATATGAGTA
Found at i:39137515 original size:39 final size:38
Alignment explanation
Indices: 39137360--39137508 Score: 102
Period size: 39 Copynumber: 3.8 Consensus size: 38
39137350 TTTTGAATAT
* * * * * *
39137360 TGTGATATATGCTTGAATGTTATGTGATTATATGAGT-A
1 TGTGATATATGCTTAAAAGTAATATGATTACA-GTGTAA
* * * * * *
39137398 TCGTGATATATGCTTAAATGTTATGTGATTATATGAGTAT
1 T-GTGATATATGCTTAAAAGTAATATGATTACA-GTGTAA
* * * *
39137438 TGTGATATATGCTTGAATGTTATATGATTATATGTGTAA
1 TGTGATATATGCTTAAAAGTAATATGATTACA-GTGTAA
39137477 TGTGATATATGCTTAAAAGTGAATATGATTAC
1 TGTGATATATGCTTAAAAGT-AATATGATTAC
39137509 CATGTAAATG
Statistics
Matches: 98, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
38 1 0.01
39 87 0.89
40 10 0.10
ACGTcount: A:0.32, C:0.04, G:0.21, T:0.44
Consensus pattern (38 bp):
TGTGATATATGCTTAAAAGTAATATGATTACAGTGTAA
Found at i:39150618 original size:21 final size:22
Alignment explanation
Indices: 39150581--39150623 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 22
39150571 TCATAATTTT
39150581 AAAATTTTTAAAAATAA-AATA
1 AAAATTTTTAAAAATAATAATA
*
39150602 AAAATTTATT-AATATAATAATA
1 AAAATTT-TTAAAAATAATAATA
39150624 TTAGGTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
AAAATTTTTAAAAATAATAATA
Found at i:39150721 original size:21 final size:21
Alignment explanation
Indices: 39150683--39150743 Score: 52
Period size: 21 Copynumber: 2.9 Consensus size: 21
39150673 CTCTTTTTCA
* * *
39150683 AAAAAGAAATTTACTTTTTTTT
1 AAAAATAAA-TTAATTTTTTTG
**
39150705 AAAAATAAATTAATTTTCATG
1 AAAAATAAATTAATTTTTTTG
*
39150726 AAAAAT-AATTTATTTTTT
1 AAAAATAAATTAATTTTTT
39150744 GTTGACAAAC
Statistics
Matches: 31, Mismatches: 8, Indels: 2
0.76 0.20 0.05
Matches are distributed among these distances:
20 9 0.29
21 14 0.45
22 8 0.26
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (21 bp):
AAAAATAAATTAATTTTTTTG
Found at i:39151028 original size:20 final size:20
Alignment explanation
Indices: 39151002--39151054 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
39150992 ATGTGCTAAT
39151002 AATTTTTGGTACTCCCTC-A
1 AATTTTTGGTACTCCCTCTA
* *
39151021 AATATTTTGGTATTCCTTCTA
1 AAT-TTTTGGTACTCCCTCTA
*
39151042 AATTTTTTGTACT
1 AATTTTTGGTACT
39151055 TTTTTATAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 3 0.11
20 21 0.75
21 4 0.14
ACGTcount: A:0.23, C:0.17, G:0.09, T:0.51
Consensus pattern (20 bp):
AATTTTTGGTACTCCCTCTA
Found at i:39151543 original size:78 final size:73
Alignment explanation
Indices: 39151428--39151647 Score: 201
Period size: 78 Copynumber: 2.9 Consensus size: 73
39151418 TCTTTCATAA
* * *
39151428 TTTTTAGTATTTCCTCAAGTCTTATGATATTCTCTCATAATTTTTTATACTTCCTCATATTTTTA
1 TTTTTA-TACTTCCTCAAGTTTTATGGTATTCTCTCATAATTTTTTATACTTCCTCATATTTTTA
39151493 CATCCTCATAT
65 CATCCTC--AT
* * * * * ** *
39151504 TTTTTGGTACTTTCTCATATTTTTTTCGGTATTCCCTCATAA-TTTTGGTACATT-CTTATAAAT
1 TTTTT-ATACTTCCTCA-AGTTTTAT-GGTATTCTCTCATAATTTTTTATAC-TTCCTCAT--AT
39151567 TTTGGTACATCCTCAT
60 TTT--TACATCCTCAT
*
39151583 TTTTTATACTTCCTCAGGTTTTATGGTATTCTCTCATAATTTTTTTATACTTCCTCATATATTTT
1 TTTTTATACTTCCTCAAGTTTTATGGTATTCTCTCATAA-TTTTTTATACTTCCTCATAT-TTTT
39151648 TAGTATTCTC
Statistics
Matches: 112, Mismatches: 20, Indels: 25
0.71 0.13 0.16
Matches are distributed among these distances:
75 1 0.01
76 29 0.26
77 26 0.23
78 35 0.31
79 12 0.11
81 9 0.08
ACGTcount: A:0.21, C:0.18, G:0.07, T:0.54
Consensus pattern (73 bp):
TTTTTATACTTCCTCAAGTTTTATGGTATTCTCTCATAATTTTTTATACTTCCTCATATTTTTAC
ATCCTCAT
Found at i:39151632 original size:41 final size:41
Alignment explanation
Indices: 39151581--39151673 Score: 134
Period size: 41 Copynumber: 2.3 Consensus size: 41
39151571 GTACATCCTC
* *
39151581 ATTTTTTATACTTCCTCAGGT-TTTATGGTATTCTCTCATA
1 ATTTTTTATACTTCCTCAGATATTTATAGTATTCTCTCATA
* *
39151621 ATTTTTTTATACTTCCTCATATATTTTTAGTATTCTCTCATA
1 A-TTTTTTATACTTCCTCAGATATTTATAGTATTCTCTCATA
39151663 ATTTTTTATAC
1 ATTTTTTATAC
39151674 ATCTTCAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
40 1 0.02
41 28 0.60
42 18 0.38
ACGTcount: A:0.23, C:0.16, G:0.05, T:0.56
Consensus pattern (41 bp):
ATTTTTTATACTTCCTCAGATATTTATAGTATTCTCTCATA
Found at i:39151666 original size:98 final size:96
Alignment explanation
Indices: 39151454--39151676 Score: 206
Period size: 98 Copynumber: 2.3 Consensus size: 96
39151444 AAGTCTTATG
* * * *
39151454 ATATTCTCTCATAATTTTTTATACTTCCTCATATTTTTACATCCTCATATTTTTTGGTACTTTCT
1 ATATTCTCTCATAA-TTTTGATACATCCTCATATTTTTACATCCTCAGATTTTATGGTACTTTCT
*
39151519 CATATTTTTTTCGGTATTCCCTCATAATTTTGGT
65 CATATTTTTTTC-ATATTCCCTCATAATTTT-GT
* * * * *
39151553 ACATTCT-T-ATAAATTTTGGTACATCCTCATTTTTTATACTTCCTCAGGTTTTATGGTA-TTCT
1 ATATTCTCTCAT-AATTTTGATACATCCTCATATTTT-TACATCCTCAGATTTTATGGTACTT-T
39151615 CTCATAATTTTTTT-ATACTT-CCTCATATATTTT-T
63 CTCAT-ATTTTTTTCATA-TTCCCTCATA-ATTTTGT
*
39151649 AGTATTCTCTCATAATTTTTTATACATC
1 A-TATTCTCTCATAA-TTTTGATACATC
39151677 TTCAAAATTT
Statistics
Matches: 101, Mismatches: 13, Indels: 20
0.75 0.10 0.15
Matches are distributed among these distances:
96 2 0.02
97 36 0.36
98 37 0.37
99 26 0.26
ACGTcount: A:0.22, C:0.18, G:0.06, T:0.53
Consensus pattern (96 bp):
ATATTCTCTCATAATTTTGATACATCCTCATATTTTTACATCCTCAGATTTTATGGTACTTTCTC
ATATTTTTTTCATATTCCCTCATAATTTTGT
Found at i:39151669 original size:21 final size:21
Alignment explanation
Indices: 39151608--39151670 Score: 78
Period size: 21 Copynumber: 3.0 Consensus size: 21
39151598 AGGTTTTATG
39151608 GTATTCTCTCATAATTTTTTTA
1 GTATTCTCTCATAA-TTTTTTA
39151630 -TACTTC-CTCAT-ATATTTTTA
1 GTA-TTCTCTCATAAT-TTTTTA
39151650 GTATTCTCTCATAATTTTTTA
1 GTATTCTCTCATAATTTTTTA
39151671 TACATCTTCA
Statistics
Matches: 36, Mismatches: 0, Indels: 11
0.77 0.00 0.23
Matches are distributed among these distances:
19 1 0.03
20 10 0.28
21 20 0.56
22 5 0.14
ACGTcount: A:0.24, C:0.16, G:0.03, T:0.57
Consensus pattern (21 bp):
GTATTCTCTCATAATTTTTTA
Found at i:39151809 original size:36 final size:39
Alignment explanation
Indices: 39151769--39151847 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
39151759 TTTGGCATTC
*
39151769 CCTCATAA-TTTTT-TATACATC-TAAGTTTTGATACTT
1 CCTCATAACTTTTTGTATACATCATAAGTTTTGATAATT
* * *
39151805 CCTCATAACTTTTTGTATTCATCATAATTTTTGGTAATT
1 CCTCATAACTTTTTGTATACATCATAAGTTTTGATAATT
39151844 CCTC
1 CCTC
39151848 GTATTTTATG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
36 8 0.22
37 5 0.14
38 7 0.19
39 16 0.44
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.49
Consensus pattern (39 bp):
CCTCATAACTTTTTGTATACATCATAAGTTTTGATAATT
Found at i:39151906 original size:20 final size:20
Alignment explanation
Indices: 39151422--39151906 Score: 181
Period size: 20 Copynumber: 25.1 Consensus size: 20
39151412 TGGTGTTCTT
* *
39151422 TCATAATTTTTAGTATTTCC
1 TCATAATTTTTGGTACTTCC
* * *
39151442 TCA-AGTCTTATGATA-TTCTC
1 TCATAAT-TTTTGGTACTTC-C
**
39151462 TCATAATTTTTTATACTTCC
1 TCATAATTTTTGGTACTTCC
*
39151482 TCAT-A-TTTT--TACATCC
1 TCATAATTTTTGGTACTTCC
* *
39151498 TCATATTTTTTGGTACTTTC
1 TCATAATTTTTGGTACTTCC
*
39151518 TCATATTTTTTTCGGTA-TTCCC
1 TCATA-ATTTTT-GGTACTT-CC
39151540 TCATAA-TTTTGGTACATT-C
1 TCATAATTTTTGGTAC-TTCC
* * *
39151559 TTATAAATTTTGGTACATCC
1 TCATAATTTTTGGTACTTCC
*
39151579 TCAT--TTTTT-ATACTTCC
1 TCATAATTTTTGGTACTTCC
**
39151596 TCA-GGTTTTATGGTA-TTCTC
1 TCATAATTTT-TGGTACTTC-C
**
39151616 TCATAATTTTTTTATACTTCC
1 TCATAA-TTTTTGGTACTTCC
*
39151637 TCATATATTTTTAGTA-TTCTC
1 TCATA-ATTTTTGGTACTTC-C
** * *
39151658 TCATAATTTTTTATACATCT
1 TCATAATTTTTGGTACTTCC
* * *
39151678 TCAAAATTTTTGGTGCATCC
1 TCATAATTTTTGGTACTTCC
* *
39151698 TCATATTTTTTTGGTA-TCCC
1 TCATA-ATTTTTGGTACTTCC
* *
39151718 TCGTAATGTTTTTGTA-TTCGC
1 TCATAAT-TTTTGGTACTTC-C
39151739 TCAT-ATTTTTGGTAC-T--
1 TCATAATTTTTGGTACTTCC
*
39151755 T--T--TTTTTGGCA-TTCCC
1 TCATAATTTTTGGTACTT-CC
* *
39151771 TCATAATTTTT--TA-TACA
1 TCATAATTTTTGGTACTTCC
* *
39151788 TC-TAAGTTTTGATACTTCC
1 TCATAATTTTTGGTACTTCC
*
39151807 TCATAACTTTTT-GTA-TTCA
1 TCATAA-TTTTTGGTACTTCC
*
39151826 TCATAATTTTTGGTAATTCC
1 TCATAATTTTTGGTACTTCC
* *
39151846 TCGT-ATTTTATGGTACTTTC
1 TCATAATTTT-TGGTACTTCC
** * *
39151866 TCATAATTTTTTATGCATCC
1 TCATAATTTTTGGTACTTCC
*
39151886 TCATAAGTTTTGGTACTTCC
1 TCATAATTTTTGGTACTTCC
39151906 T
1 T
39151907 TATACTTCTT
Statistics
Matches: 347, Mismatches: 71, Indels: 94
0.68 0.14 0.18
Matches are distributed among these distances:
13 9 0.03
14 1 0.00
16 19 0.05
17 12 0.03
18 26 0.07
19 51 0.15
20 151 0.44
21 60 0.17
22 18 0.05
ACGTcount: A:0.22, C:0.18, G:0.08, T:0.52
Consensus pattern (20 bp):
TCATAATTTTTGGTACTTCC
Found at i:39151928 original size:31 final size:31
Alignment explanation
Indices: 39151893--39151955 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
39151883 TCCTCATAAG
*
39151893 TTTTGGTACTTCCTTATACTTCTTTG-TATTT
1 TTTTGGTACTTCCTTATAATTC-TTGATATTT
*
39151924 TTTTGGTACTTTCTTATAATTCTTGATATTT
1 TTTTGGTACTTCCTTATAATTCTTGATATTT
39151955 T
1 T
39151956 ATCATATTGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.10
31 26 0.90
ACGTcount: A:0.16, C:0.13, G:0.10, T:0.62
Consensus pattern (31 bp):
TTTTGGTACTTCCTTATAATTCTTGATATTT
Found at i:39152176 original size:16 final size:16
Alignment explanation
Indices: 39152135--39152176 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 16
39152125 GTTATATTTC
39152135 ATGAAAAATTAAAAGA
1 ATGAAAAATTAAAAGA
39152151 ATGCGAAAAATTAAATA-A
1 AT--GAAAAATTAAA-AGA
39152169 ATGAAAAA
1 ATGAAAAA
39152177 AAATTGAGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
16 8 0.35
18 14 0.61
19 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.12, T:0.19
Consensus pattern (16 bp):
ATGAAAAATTAAAAGA
Found at i:39154131 original size:247 final size:245
Alignment explanation
Indices: 39153683--39154415 Score: 1108
Period size: 247 Copynumber: 3.0 Consensus size: 245
39153673 GATGTTTAAT
* * ** * * * *
39153683 ATTGAAGTGATGGATGCATGTTAAAGTGGTATGTGATTGAGTATGTGAAATGCCCTGTTTTGCTA
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATACGGAATGCCCTATTCTGCTT
* * * ** * *
39153748 GAAATTTTCGGAATTATACAGAGGTATTGATAATCGGGGCATATGCATCGATACTTCTGAATTGA
66 GAATTTTTCAGAATTATACAGAGGTATTGATAATCAGGGCATATATATCTATACTTCTGAGTTGA
* * * * * * * * * *
39153813 AACGAATGTGCAAGAAACAATCGATCATTTTGGTATTGATACCAGTTCTCGAGTA-CTGATACTT
131 AACAAATGT-CAGGAAATAGTTGCTAATTTTGGTATCGATACCAGTTCCCGAGTATC-GATACTC
39153877 GGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTACTGGGTTTTG
194 GGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTACTGGGTTTTG
39153929 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATACGGAATGCCCTATTCTGCTT
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATACGGAATGCCCTATTCTGCTT
*
39153994 GAATTTTTGCAGAATTATACAGAGGTATTGATAACCAGGGCATATATATCTATACTTCTGAGTTG
66 GAATTTTT-CAGAATTATACAGAGGTATTGATAATCAGGGCATATATATCTATACTTCTGAGTTG
* *
39154059 AAACAAATGTCTAGGAAATAGTTTCTTATTTTGGTATCGATACCAGTTCCCGAGTATCGATACTC
130 AAACAAATGTC-AGGAAATAGTTGCTAATTTTGGTATCGATACCAGTTCCCGAGTATCGATACTC
*
39154124 AGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTACTGGGTTTTG
194 GGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTACTGGGTTTTG
*
39154176 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTAAGTATACGGAATGCCCTATTCTGCTT
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATACGGAATGCCCTATTCTGCTT
*
39154241 GAATTTTTACAGAATTATACAGAGGTATTGATAATCAGTGCATATATATCTATACTTCTGAGTTG
66 GAATTTTT-CAGAATTATACAGAGGTATTGATAATCAGGGCATATATATCTATACTTCTGAGTTG
*
39154306 AAACAAATGTCCAGGAAATAGTTGCTAATTTTGGTATCGATACCAATTCCCGAGTATCGATACTC
130 AAACAAATGT-CAGGAAATAGTTGCTAATTTTGGTATCGATACCAGTTCCCGAGTATCGATACTC
*
39154371 GGGGTAAAAATATAGATACTTTTGAATTGTATTGATAAATTACTG
194 GGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTACTG
39154416 AATTTTGGAT
Statistics
Matches: 446, Mismatches: 37, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
246 65 0.15
247 379 0.85
248 2 0.00
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.35
Consensus pattern (245 bp):
ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATACGGAATGCCCTATTCTGCTT
GAATTTTTCAGAATTATACAGAGGTATTGATAATCAGGGCATATATATCTATACTTCTGAGTTGA
AACAAATGTCAGGAAATAGTTGCTAATTTTGGTATCGATACCAGTTCCCGAGTATCGATACTCGG
GGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTACTGGGTTTTG
Found at i:39155768 original size:713 final size:710
Alignment explanation
Indices: 39154176--39161511 Score: 7966
Period size: 713 Copynumber: 10.5 Consensus size: 710
39154166 CTGGGTTTTG
* ** * *
39154176 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTAAGTATACGGAATGCCCTATTCTGCTT
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
* * * * *
39154241 GAATTTTTACAGAATTATACAGAGGTATTGATAATCAGTGCATATATATCTATACTTCTGAGTTG
66 GAATTTTTGCAGAATTATACAGAGGTATCGATAATCAGGGCATATGTATCGATACTTCTGAGTTG
* * * * *
39154306 AAACAAATGTCCAGGAAATAGTTGCTAATTTTGGTATCGATACCAATTCCCGAGTATCGATACTC
131 AAAC-AATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATCGATACTC
* **
39154371 GGGGTAAAAATATAGATACTTTTGAATTGTATTGATAAATT-ACTGAATTTTGGATTTTGAAGAA
195 GGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGA-TGGGTTTT-GATTTTGAAGAA
* * * **
39154435 GATCAGAATGTTAAAAAGGTTTCGATTTTCCAAACAGTATCGGTACGTATTTAT-AGAAATATCG
258 AAT-AGAATGTTAAAAAGGTATCGATTTTCCAAACAGTATCGATACCCATTT-TGAGAAATATCG
* * *
39154499 ATTCTCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTGTTGGTAGTTTTCTCCCGATCA
321 ATTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGATCA
* * * *
39154564 TTCCCTAAGTTTGTTTAAGCTCACACACTCTTTTTTTAACCTTTGCAGATAGTTAGTGTTTCCGG
386 TTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCCGG
* *
39154629 TGTGGGCAGTGCGGAATTCTAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATT
451 TGTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATT
*
39154694 ATTGCTATTAGTTTTT-AACTGTGGGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTCTC
516 ATTGCTATTA-TTTTTGAACTGT-GGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATC
* *
39154758 ATGATTTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGCTATTAGTTTA
579 ATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTA
* *
39154823 TTGGCTTT-CTTGGTTGAAATTATTTATATTGCTATAGACTGCAAATATGGACATTTTGATGTTC
644 TTGG-TTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTG
39154887 AAT
708 AAT
* * * * *
39154890 ATTGAAATGATGGATGCATGTTAAAGTGGAATGTGATTGAGTATGTGGAATGCCCTGTTTTGCTA
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
* *
39154955 GAATTTTTGCAGAATTATACAGAGGTATTGATAATC-GAGGCATATGCATCGATACTTCTGAGTT
66 GAATTTTTGCAGAATTATACAGAGGTATCGATAATCAG-GGCATATGTATCGATACTTCTGAGTT
* * *
39155019 GAAACGAATGTGCAGGAAACAATCGCTCATTTTGGTATTGATACCAGTTCTCGAGTATCGATACT
130 GAAAC-AATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATCGATACT
*
39155084 CGAGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTAGATTTTGAAGAA
194 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTT-GATTTTGAAGAA
* * * *
39155149 AACTAGAATGTTAAAAAGGTTTTGGTTTTCCAAATAGTATCGATACCCATTTTGAGAAATATCGA
258 AA-TAGAATGTTAAAAAGGTATCGATTTTCCAAACAGTATCGATACCCATTTTGAGAAATATCGA
* * * * ** *
39155214 TTCCCATTTACATGTTCTTATTTAAAGTATGTTATCATGTTTATCAGTAGTTTTTTTCCGATCAT
322 TTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGATCAT
* * *
39155279 TCACTAAGCTTGTTTAACCTCACACACTCTTTTCTGAACCTTTGCAGATAATTAGTGTTTCCGAT
387 TCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCCGGT
* *** ** * *
39155344 TTGGGAAATGCAAAATTCCAAAGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTATGTGATATTA
452 GTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTA
*
39155409 TT-CTATTATTTTTGAACTGTAGGAATAAAACAATGTGGTAGAATTGTTGGTTGATTATTATCAT
517 TTGCTATTATTTTTGAACTGT-GGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATCAT
* * *
39155473 GATGTTTTAAATGATTATTTTGATTTTAACACTCTTAGGTTCCTGGATGTTGTTATTAGTTTATT
581 GATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTATT
* * *
39155538 GGTTTGCTTGGTTGAAATTATTCATATTGCTATGGATTTCAAATATGGACATTTTGATGTTGAAT
646 GGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTGAAT
39155603 ATTGAAGTTACT-GATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCT
1 ATTGAAGTTA-TGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCT
* * * *
39155667 GGAATTTTTGCAAAATTATACAGAGGTATCGATAATCAGAGCATACGTATCGATACTTCTGAGTT
65 AGAATTTTTGCAGAATTATACAGAGGTATCGATAATCAGGGCATATGTATCGATACTTCTGAGTT
* * * * * *
39155732 GAAACAATTGTGCAAGAAACAGTAGCACTTTTTGGTATCGATACCAATTCTCGAGTATTGATACT
130 GAAACAA-TGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATCGATACT
* * * *
39155797 TGGGGTAAAAATATAGATACTTTTGAATTATATCGATAAATTGGTGGATTTTGGATTTTGAA-AA
194 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTT-GATTTTGAAGAA
* * * * * * *
39155861 AGATCAAAATGTTAAAAAGGTTTCAATTTTCCAAACGGTATTGATACCAATTTAT-AAAAATATC
258 A-AT-AGAATGTTAAAAAGGTATCGATTTTCCAAACAGTATCGATACCCATTT-TGAGAAATATC
* * *
39155925 GATTCCCATTTAGATGTTCTCATTTAATGTATGATATCATATTTGTTGGTAG-TTTTTCCCTATC
320 GATTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGATC
* * * *
39155989 ATCCCCTAAGCTTGTTTAAGCTCACACACTCTTTTATGAACCTTTGTAGATAGTTAGTGTTTCCG
385 ATTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCCG
* *
39156054 GTGTGGGCAGTGCGGAATTCCAACGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATAT
450 GTGTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATAT
* *
39156119 TATTGCTATTAGTTTTT-AACTGTGGGAATAAGAAAATGTGGTAAAATTGTTGGTTGATTATTAT
515 TATTGCTATTA-TTTTTGAACTGT-GGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTAT
* * * *
39156183 CATGATTTTTTAAATGATTATTTTGCTTTTAATACTCTTAGGTTCGTGGACGTTGCT-TTAGTTC
578 CATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTT
* * * * *
39156247 ATTGGCTTGCTTGGTAGAAATTATTTATATTGTTATGGACTGCAAATATGAACA-TTTGATGTTT
643 ATTGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTG
39156311 AAT
708 AAT
* * *
39156314 ATTGAAGTGATGGATGCATGTTAAAGTGGTATGTGATTGAGTATGTGGAATGCTCTATTTTGCTA
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
* * * * *
39156379 GAATTTTTGTAGAATTATATAGAGGTATTGATAATCGGGGGCATATGCATCGATACTTCTGAGTT
66 GAATTTTTGCAGAATTATACAGAGGTATCGATAATC-AGGGCATATGTATCGATACTTCTGAGTT
* *
39156444 GAAACGAATGTGCAGGAAACAATCGCTCATTTTGGTATCGATACCAGTTCTCGAGTATCGATACT
130 GAAAC-AATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATCGATACT
** *
39156509 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATAAGTTTTGAATTTTGTAGAA
194 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTG-ATTTTGAAGAA
* ** *
39156574 AATCAAAATGTTAAAAAGGT-TCCGATTTTCCAAATGGTATCGATACCCATTTTGAGAAATATTG
258 AAT-AGAATGTTAAAAAGGTAT-CGATTTTCCAAACAGTATCGATACCCATTTTGAGAAATATCG
39156638 ATT-CCAGTTTAGATGTTCTCATTTAATGCT-TGATATCATGTTTATTGGTAGTTTTTTCCCGAT
321 ATTCCCA-TTTAGATGTTCTCATTTAATG-TATGATATCATGTTTATTGGTAGTTTTTTCCCGAT
* * * * *
39156701 CATTCACTAAGCTTGTATAAGCTCATACACTCTTTTCTGAACCTTTGCACATAGTTAGTATTTTC
384 CATTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCC
* ** * * *
39156766 GGTGTGGGCGGTACAAAATTCCAAGGAAGTGATCGAAGTTAGGTTTAGTGTTTGAATAGGTGATA
449 GGTGTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATA
* *
39156831 TTATTGCTATTATTTTTGAACTGTAGGAATAAGACAATATGGTTGAATTGTTGGTTGATTATTAT
514 TTATTGCTATTATTTTTGAACTGT-GGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTAT
* *
39156896 CATGATTTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGCTATTAGTTT
578 CATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTT
* * * *
39156961 A-TCGTTTCCTTGGTTGAAATTATTGATATTGCTATGGACTACATAA-ATGGACATTTTGATGTT
643 ATTGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCA-AATATGGACATTTTGATGTT
* *
39157024 TAAG
707 GAAT
* * * * * * *
39157028 ATTGAAGTTATAGATGCATATTGACGTGGTATGTGATTGGGTATATGGAATGCCTTGTTTTGCTA
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
* * * *
39157093 GAATTTTTGTATAATTATACAGAGGTATCGATAATCAGGGCACATGTATCGATACTTCTAAGTTG
66 GAATTTTTGCAGAATTATACAGAGGTATCGATAATCAGGGCATATGTATCGATACTTCTGAGTTG
* * * * * * * *
39157158 GAACAAATGTGTAGGAAATAGCTGCTCATTTTGGTATTGATACTAGTTCTTGAGTATTGATACTC
131 AAAC-AATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATCGATACTC
* * * * * * **
39157223 GGGATAAAAATATAGGTAGTTTTGAATTATATTGATAAATTGCTGAATTTTGGATTTTGAA-AAA
195 GGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTT-GATTTTGAAGAAA
* *
39157287 GATCAGAATGTTAAAAAGGT-TCTGATTTTCCAAACAGTGTCGATACCCATTTAT-AGAAATACC
259 -AT-AGAATGTTAAAAAGGTATC-GATTTTCCAAACAGTATCGATACCCATTT-TGAGAAATATC
* * * *
39157350 GATTCTCATTTAGATGTTCTCATTTAATGTATGATATGATGTTTATTGGTAGTTTTTTCCCAATT
320 GATTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGATC
* *
39157415 ATTCACTAAACTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCA-AGTAGTTAGTGTTTTC
385 ATTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGA-TAGTTAGTGTTTCC
* * *
39157479 GGTGTGGGCAGTGCAGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTAATA
449 GGTGTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATA
*
39157544 TTATTGCTATTATTTTTGAACTGTGGGAATAAGACAATGTTGTAGAATTGTTGGTTGATTATTAT
514 TTATTGCTATTATTTTTGAACTGT-GGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTAT
* * *
39157609 C------------ATGATTATTTTAATTTTAATAATCTTAGGTTTGTGGACGTTGTTATTAGTTT
578 CATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTT
* * * * **
39157662 ATTGGTTTGCTTTGTTGAAATTATTCATATTGCTATAGATTTTAAATATGGACATTTTGATGTTG
643 ATTGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTG
39157727 AAT
708 AAT
* * * *
39157730 ATTGAAGCTACT-GATGCATGTTAAAGTGGTATGTGATTGAGTATGTGGAATGCCTTGTTTTGCT
1 ATTGAAGTTA-TGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCT
* * * *
39157794 GGAATTTTTGCAGAATTATACAGAGGTATCAATAATCAGGGCATACGTATCAATACTTCTGAGTT
65 AGAATTTTTGCAGAATTATACAGAGGTATCGATAATCAGGGCATATGTATCGATACTTCTGAGTT
* * ** * * * * * *
39157859 AAAACAATTGTGCAAGAAGTAGTAGCTCTTTTTGGTATC-AAATCTAATTCTCGAGTATTGATAC
130 GAAACAA-TGTGCAGGAAACAGTTGCTCATTTTGGTATCGATA-CCAGTTCTCGAGTATCGATAC
* * * * * *
39157923 TTGGGGTAAAAATATAGATACTTTTGGATTATATCAATAAATTGTTGGGTTTTGAATTTTGAATA
193 TCGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTG-ATTTTGAAGA
* * * * * *
39157988 AAAGAAAATTTTTAAAAA-GTATCGATTTTCCAAACGGTATCGATACCTATTTTTAGAAATATCG
257 AAATAGAA-TGTTAAAAAGGTATCGATTTTCCAAACAGTATCGATACCCATTTTGAGAAATATCG
* * * * *
39158052 ATACTCATTTAGATATTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTTCTCAATC
321 ATTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAG-TTTTTTCCCGATC
* * * * * * * *
39158117 ATTCACTGAGTTTGTTTAAGCT--CATA-TCTTTTCTAAACCTTTGTAGATTGTTAGTGGTTCTG
385 ATTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCCG
* * ** * **
39158179 ATGTGGGCGATGCGGAATTCTTAGAAAGTGATTGAAGTTAGGCTTAGTGTTTGAGTAGGTGATAT
450 GTGTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATAT
* * * *
39158244 TATTGCTATTATTTTTGAACTGTGAGAATGAGTCAACGTGATAGAATTGTTGGTTGATTATTATC
515 TATTGCTATTATTTTTGAACTGTG-GAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATC
* * * * *
39158309 ATGATGTTTTAAATGATTATTTTGATTTTAAGACTTTTAGGTTCATGGATGGTGTTATTAGTTTA
579 ATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTA
* * *
39158374 TTGGTTTGCTTGGTTGAAATTATTTATACTGCTATGGACCG-AGAATATGGACATTTTGATGTTT
644 TTGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCA-AATATGGACATTTTGATGTTG
39158438 AAT
708 AAT
* *
39158441 GTTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTT
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
* * *
39158506 GAATTTTTGCAGAATTATACAGAGGTATCGATAATCGGGGCATATATATCTATACTTCTGAGTTG
66 GAATTTTTGCAGAATTATACAGAGGTATCGATAATCAGGGCATATGTATCGATACTTCTGAGTTG
* * *
39158571 AAACGAATGCGCAGGAAACAGTTGCTCACTTTT-GTATCAATACCAGTTCTTGAGTATCGATACT
131 AAAC-AATGTGCAGGAAACAGTTGCTCA-TTTTGGTATCGATACCAGTTCTCGAGTATCGATACT
* * * *
39158635 CAGGCTAAAAAGATAGATACTTTTTAATTGTATCGATAAATTGATGGGTTTTGGATTTTGAAGAA
194 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTT-GATTTTGAAG-A
* ** * * * * *
39158700 AAACAGAATGTTAAAAAGGTATTAATTTTTCAAAC-GATATCCATACCCATTTCGAAAAATATCT
257 AAATAGAATGTTAAAAAGGTATCGATTTTCCAAACAG-TATCGATACCCATTTTGAGAAATATCG
* * * *
39158764 ATACCCATTTAGATATTCTAATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGACCA
321 ATTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGATCA
* * *
39158829 TTCACTGAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGTAGATAGTTAGTGTGTT-TG
386 TTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGT-TTCCG
* * * * * *
39158893 GTGTGAGCGGTGCTGAATTTCAAGGAAGCGATCCAAGTTAGGCTTAGTGTTTGAGTCGATGATAT
450 GTGTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATAT
* *
39158958 TATTGCTATTATTTTTGAGCTGTGAAAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATC
515 TATTGCTATTATTTTTGAACTGTG-GAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATC
* * *
39159023 ATAATGTTTGAAATG---A--TT-ATTTTAATACTCTTAGGTTCTTGGACGTTGTTATTAGTTTA
579 ATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTA
* * * * *
39159082 TTGGTTTGGTTGGTTGAAATTATTGATATTGCTATGGATTGCAAATATGAAAATTTTGATGTT-A
644 TTGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTGA
39159146 ATT
709 A-T
* * * * ** *
39159149 ATTAAATTTATGGATGTATGTTGAAGTGGTATATGATTGAGTATGTTCAATGCCCTATTTTCCTA
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
* * * * *
39159214 GAATTTTTGCAGAATTATACAAATGTATCAATAAAC-GAGGCATATGTATCGATACTTTTGAGTT
66 GAATTTTTGCAGAATTATACAGAGGTATCGATAATCAG-GGCATATGTATCGATACTTCTGAGTT
** * * * * * *
39159278 GAAGTGAATGTGCAAGAAATAGTTGCTCACTTTGG--T--A-ACGAG-----GAATATAGATACT
130 GAA-ACAATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATCGATACT
*** *** * * * * *
39159333 -TTTG-AATTTTATTGATA------AA-T-TACTGGGT---TT--TGGATTTTGA---AGAA-AA
194 CGGGGTAAAAATATAGATACTTTTGAATTGTA-TCGATAAATTGATGGGTTTTGATTTTGAAGAA
* * *** * *
39159379 ACT-GAATGTTAAAAATGTATCGATTTTTTTAACGGTATCGATACCCATTTCGAGAAATATCGAT
258 AATAGAATGTTAAAAAGGTATCGATTTTCCAAACAGTATCGATACCCATTTTGAGAAATATCGAT
* * *
39159443 ACACATTTAGATGTTCTCATTTAAT-TCATGATATCATGTTTATTGGTAGTTTTTTTTCCTGATC
323 TCCCATTTAGATGTTCTCATTTAATGT-ATGATATCATGTTTATTGGTAG--TTTTTTCCCGATC
* * * * *
39159507 ATTCACTAAGCTTGTTTAAGCTCAAACACTCTTTTCTAAACCTTTGTAGATAGTTAGTGTTTTCA
385 ATTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCCG
* ** *
39159572 GTGTAGGCGGTGCAAAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAAGTGATAT
450 GTGTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATAT
* * * * ***
39159637 TATTGCTA-T-TGTTTG-A-T-T---ATTA-TC-A--TGAT-G--TT-TTAAATGATTATT-T--
515 TATTGCTATTATTTTTGAACTGTGGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATCA
* * ** * * * *
39159683 TGA--TTTT-AAT-A--CTCTT-AGGTTCATGGAC-ATT--GTTAGT--A-G-T-TTATTGGTTT
580 TGATGTTTTAAATGATTATTTTGATTTTAAT--ACTCTTAGGTTCGTGGACGTTGTTATTAGTTT
* * * * ** * * *
39159733 GCTTGG-TTGAAATT-ATTGATAATTATATGGATTGCAAAT--A-TGGAAAT-T-----T--TAA
643 -ATTGGTTTG--CTTGGTTGA-AATTATTTATATTGC-TATGGACTGCAAATATGGACATTTTGA
* *
39159785 TATTGATT
703 TGTTGAAT
* *
39159793 ATTGAAGTTATGGATGCATGTTGAAGTGGTATATGATTGAGTATGTGGAATGCCCTATTTTGCTT
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
* * * *
39159858 GAATTTTTGTAGAATTATACAGAAGTATCGATAAATGA-GGCATATGTGTCGATACTTCTGAGTT
66 GAATTTTTGCAGAATTATACAGAGGTATCGAT-AATCAGGGCATATGTATCGATACTTCTGAGTT
* * ** *
39159922 GAAACGAATGTGTAGGAAACAATTGCTCATTTTGGTATCGATACCAACTCTTGAGTATCGATACT
130 GAAAC-AATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATCGATACT
* * * * *
39159987 CAGTGTAAAAATTTAGATACTTTTGAATTGTATCGATAAATTGTTGGATTTTAGATTTTGAAGAA
194 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTT-GATTTTGAAG-A
* * ** * *
39160052 AAATTGAATGTTAAAAAGGTATCGAGTTTCCAAATGGTATCAATACCTC-TTTTGAGAAATATTG
257 AAATAGAATGTTAAAAAGGTATCGATTTTCCAAACAGTATCGATACC-CATTTTGAGAAATATCG
* * * ** **
39160116 ATACCCATTTAGTTGTTCTCATATAATGTATGATATTGTGTTTATTTTTTA-TTTTTTCTCTCGA
321 ATTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTA-TTGGTAGTTTTTTC-C-CGA
* * * *
39160180 TCGTTCACTGAGCTTGTTTAAGCTCACACACTCTTTTCTAAACTTTTGCAGATAGTTAGTGTTTC
383 TCATTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTC
* * * * * *
39160245 CGGTATGGGTGGTGTGAAATT-CTAGGAAACTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGA
448 CGGTGTGGGCGGTGCGGAATTCCAAGG-AAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGA
* * *
39160309 TATTATTACTATTATTTTTGAACTGTGGGAATAAGACAA-----T---A----TAGTTGA-AATT
512 TATTATTGCTATTATTTTTGAACTGT-GGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATT
* * * *
39160361 ATCATGATGTTTTAAGTGATTATTTTGATTTCAATGCTCTTAGGTTCGTGGACTTTGTTATTAGT
576 ATCATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGT
* * * * *
39160426 TTATTGGTTTGCTTAGTTGAAATTATTCATAGTGCTATAGACTTCAAATATGGACATTTTGATGT
641 TTATTGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGT
39160491 TGAAT
706 TGAAT
* * ** *
39160496 ATTGAAGTTATGGATGCATGTTGAAGTGGTTTGTGATTTAGTATACGGAATGCCCTGTTTTAG-T
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTT-GCT
* * * * * * * *
39160560 TGAATTTTTGCAGAATTATACTA-A-GAATTCGATAATCGGGGCATATATATCGATATTTTTTAT
65 AGAATTTTTGCAGAATTATAC-AGAGGTA-TCGATAATCAGGGCATATGTATCGATACTTCTGAG
* * * * * *
39160623 TTGAAACAAATGTGCATGAAACAATTCCTCATTTTTGTATCGATACCATTTCTCGAGTATGGATA
128 TTGAAAC-AATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATCGATA
* * *
39160688 CTCGGGGTAAAATTATAGATACTTTTGAATTGTATCGATAAAATGCTGGGTTTTAGATTTTGAAG
192 CTCGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTT-GATTTTGAAG
* * * *
39160753 AAAAACAGAATGTTAAAAATGTACCAATTTTCCAAACAGTATCGATA--C--------------C
256 -AAAATAGAATGTTAAAAAGGTATCGATTTTCCAAACAGTATCGATACCCATTTTGAGAAATATC
*
39160802 ---T---ATTTAGATGTTCTCATTTAATGTATTATATCATGTTTATTGGTAGTTTTTTCCCGATC
320 GATTCCCATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGATC
* * ** * *
39160861 ATTCGCTGAGCTTGTTTAAGCTCACACGTTTTTTTCT-AATCTTTTGCAGATAGTTAGTGTTTCC
385 ATTCACTAAGCTTGTTTAAGCTCACACACTCTTTTCTGAA-CCTTTGCAGATAGTTAGTGTTTCC
* *
39160925 GGTGTGGGCGGTGTGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTAAGTAGGTGATA
449 GGTGTGGGCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATA
* * * * *
39160990 TTATTGCTATTATTTTTGAAGTGTGCGAATAAGATAATGTGATTGAATTGTTGGCTGATTATTAT
514 TTATTGCTATTATTTTTGAACTGTG-GAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTAT
* * * * * * *
39161055 CATGATGGTTGAAATGATTATTTTGTTTTTAATACTCTTTGGTCCATGGGCGTTGTTATTAGTTT
578 CATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTT
* * * * * * * *
39161120 ATTGGTTTGTTTCGTTGAAATTATTTATATCGCTTTAGACTTCAAATATGGATATTTTGATGTCG
643 ATTGGTTTGCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTG
39161185 AAT
708 AAT
* * **
39161188 ATGGAAGTTATGGATTCACATTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
1 ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
* * * * ** * * *
39161253 AAATTTTTACAGAATTTTACAGTGGTATTAATAAT-AGTGGCATACGTATCAATACTTTTGAGTT
66 GAATTTTTGCAGAATTATACAGAGGTATCGATAATCAG-GGCATATGTATCGATACTTCTGAGTT
* * * * * **
39161317 GAAATGAATGTGTAGGAAACAATTGCTCATTTTGGTA-CTATACTAGTTCTCGAGTATTAATACT
130 GAAA-CAATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATCGATACT
* * *
39161381 CGGGGTAAAAATATAGATACTTTTGAATTGTATCAATAAATTGCTGAGTTTTGAATTTTGAAGAA
194 CGGGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTG-ATTTTGAAG-A
* * * * * *
39161446 AAACAAAATGTTAAAAAGGTATCGATTTTTCGAACGGTATCGATACCTATTTTGAGAAATATCGA
257 AAATAGAATGTTAAAAAGGTATCGATTTTCCAAACAGTATCGATACCCATTTTGAGAAATATCGA
39161511 T
322 T
39161512 GCCAGTATGT
Statistics
Matches: 5594, Mismatches: 803, Indels: 454
0.82 0.12 0.07
Matches are distributed among these distances:
644 143 0.03
645 3 0.00
646 2 0.00
648 1 0.00
649 3 0.00
651 1 0.00
652 18 0.00
653 10 0.00
654 25 0.00
655 5 0.00
656 11 0.00
657 7 0.00
658 7 0.00
659 4 0.00
660 2 0.00
661 1 0.00
662 12 0.00
663 6 0.00
664 2 0.00
665 1 0.00
666 5 0.00
668 9 0.00
669 3 0.00
670 3 0.00
672 3 0.00
673 7 0.00
674 10 0.00
675 207 0.04
676 8 0.00
677 105 0.02
678 11 0.00
679 283 0.05
680 19 0.00
681 40 0.01
682 3 0.00
683 3 0.00
684 15 0.00
685 3 0.00
686 4 0.00
687 2 0.00
688 7 0.00
689 8 0.00
690 8 0.00
691 127 0.02
692 249 0.04
693 14 0.00
694 10 0.00
695 17 0.00
696 9 0.00
698 12 0.00
699 141 0.03
700 6 0.00
701 145 0.03
702 309 0.06
703 268 0.05
704 3 0.00
706 1 0.00
707 7 0.00
708 226 0.04
709 3 0.00
710 3 0.00
711 461 0.08
712 536 0.10
713 1286 0.23
714 727 0.13
715 4 0.00
ACGTcount: A:0.29, C:0.11, G:0.20, T:0.40
Consensus pattern (710 bp):
ATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATGCCCTATTTTGCTA
GAATTTTTGCAGAATTATACAGAGGTATCGATAATCAGGGCATATGTATCGATACTTCTGAGTTG
AAACAATGTGCAGGAAACAGTTGCTCATTTTGGTATCGATACCAGTTCTCGAGTATCGATACTCG
GGGTAAAAATATAGATACTTTTGAATTGTATCGATAAATTGATGGGTTTTGATTTTGAAGAAAAT
AGAATGTTAAAAAGGTATCGATTTTCCAAACAGTATCGATACCCATTTTGAGAAATATCGATTCC
CATTTAGATGTTCTCATTTAATGTATGATATCATGTTTATTGGTAGTTTTTTCCCGATCATTCAC
TAAGCTTGTTTAAGCTCACACACTCTTTTCTGAACCTTTGCAGATAGTTAGTGTTTCCGGTGTGG
GCGGTGCGGAATTCCAAGGAAGTGATCCAAGTTAGGCTTAGTGTTTGAGTAGGTGATATTATTGC
TATTATTTTTGAACTGTGGAATAAGACAATGTGGTAGAATTGTTGGTTGATTATTATCATGATGT
TTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCGTGGACGTTGTTATTAGTTTATTGGTTT
GCTTGGTTGAAATTATTTATATTGCTATGGACTGCAAATATGGACATTTTGATGTTGAAT
Found at i:39161338 original size:692 final size:680
Alignment explanation
Indices: 39159649--39161497 Score: 2104
Period size: 703 Copynumber: 2.7 Consensus size: 680
39159639 TTGCTATTGT
39159649 TTGATTATTATCATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCATGGACATT
1 TTGATTATTATCATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCATGGACATT
* * * ** *
39159714 GTTAGTAGTTTATTGGTTTGCTTGGTTGAAATTATTGATAATTATATGGA-TTGCAAATATGGAA
66 GTTATTAGTTTATTGGTTTGCTTAGTTGAAATTATTCAT-ATGCTATAGACTT-CAAATATGGAA
* * * *
39159778 ATTTTAATATTGATTATTGAAGTTATGGATGCATGTTGAAGTGGTATATGATTGAGTATGTGGAA
129 ATTTTGATGTTGAATATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAA
* * * *
39159843 TGCCCTATTTTGCTTGAATTTTTGTAGAATTATACAGAAGTATCGATAA-ATGAGGCATATGTGT
194 TGCCCTATTTTGCTTGAATTTTTGCAGAATTATACAGTAGTATTGATAATA-GAGGCATATGTAT
* *
39159907 CGATACTTCTGAGTTGAAACGAATGTGTAGGAAACAATTGCTCATTTTGGTATCGATACCAACTC
258 CGATACTTTTGAGTTGAAACGAATGTGTAGGAAACAATTGCTCATTTTGGTATCGATACCAATTC
* * * * *
39159972 TTGAGTATCGATACTCAGTGTAAAAATT-TAGATACTTTTGAATTGTATCGATAAATTGTTGGAT
323 TCGAGTATCGATACTCGGGGT-AAAATTATAGATACTTTTGAATTGTATCGATAAATTGCTGGGT
** * *
39160036 TTTAGATTTTGAAGAAAAATTGAATGTTAAAAAGGTATCGAGTTTCCAAATGGTATCAATACCTC
387 TTTAGATTTTGAAGAAAAACAGAATGTT-AAAA---AT---G-TACC-AAT--TTTCAA-A---C
* * * ** **
39160101 TTTTGAGAAATATTGATACCCATTTAGTTGTTCTCATATAATGTATGATATTGTGTTTATTTTTT
437 -----AG---TATCGATACCTATTTAGATGTTCTCATATAATGTATGATATCATGTTTATTTGGT
*
39160166 ATTTTTTCTCTCGATCGTTCACTGAGCTTGTTTAAGCTCACACACTCTTTTCTAAACTTTTGCAG
494 ATTTTTTCTCTCGATCATTCACTGAGCTTGTTTAAGCTCACACACTCTTTTCTAAACTTTTGCAG
* *
39160231 ATAGTTAGTGTTTCCGGTATGGGTGGTGTGAAATTCTAGGAAACTGATCCAAGTTAGGCTTAGTG
559 ATAGTTAGTGTTTCCGGTATGGGCGGTGTGAAATTCAAGGAAACTGATCCAAGTTAGGCTTAGTG
* *
39160296 TTTGAGTAGGTGATATTATTACTATTATTTTTGAACTGTGGGAATAAGACAATATAG
624 TTTAAGTAGGTGATATTATTACTATTATTTTTGAACTGTGCGAATAAGACAATATAG
* * * * * *
39160353 TTGA-AATTATCATGATGTTTTAAGTGATTATTTTGATTTCAATGCTCTTAGGTTCGTGGACTTT
1 TTGATTATTATCATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCATGGACATT
*
39160417 GTTATTAGTTTATTGGTTTGCTTAGTTGAAATTATTCATAGTGCTATAGACTTCAAATATGGACA
66 GTTATTAGTTTATTGGTTTGCTTAGTTGAAATTATTCATA-TGCTATAGACTTCAAATATGGAAA
* * **
39160482 TTTTGATGTTGAATATTGAAGTTATGGATGCATGTTGAAGTGGTTTGTGATTTAGTATACGGAAT
130 TTTTGATGTTGAATATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAAT
* * * * *
39160547 GCCCTGTTTTAG-TTGAATTTTTGCAGAATTATAC--TAAGAATTCGATAATCGGGGCATATATA
195 GCCCTATTTT-GCTTGAATTTTTGCAGAATTATACAGT-AGTATT-GATAATAGAGGCATATGTA
* * * * * * * * *
39160609 TCGATATTTTTTATTTGAAACAAATGTGCATGAAACAATTCCTCATTTTTGTATCGATACCATTT
257 TCGATACTTTTGAGTTGAAACGAATGTGTAGGAAACAATTGCTCATTTTGGTATCGATACCAATT
* *
39160674 CTCGAGTATGGATACTCGGGGTAAAATTATAGATACTTTTGAATTGTATCGATAAAATGCTGGGT
322 CTCGAGTATCGATACTCGGGGTAAAATTATAGATACTTTTGAATTGTATCGATAAATTGCTGGGT
39160739 TTTAGATTTTGAAGAAAAACAGAATGTTAAAAATGTACCAATTTTCCAAACAGTATCGATACCTA
387 TTTAGATTTTGAAGAAAAACAGAATGTTAAAAATGTACCAATTTT-CAAACAGTATCGATACCTA
* * *
39160804 TTTAGATGTTCTCATTTAATGTATTATATCATGTTTA-TTGGTAGTTTTTTC-C-CGATCATTCG
451 TTTAGATGTTCTCATATAATGTATGATATCATGTTTATTTGGTA-TTTTTTCTCTCGATCATTCA
** * * *
39160866 CTGAGCTTGTTTAAGCTCACACGTTTTTTTCTAATCTTTTGCAGATAGTTAGTGTTTCCGGTGTG
515 CTGAGCTTGTTTAAGCTCACACACTCTTTTCTAAACTTTTGCAGATAGTTAGTGTTTCCGGTATG
* *
39160931 GGCGGTGTGGAATTCCAAGG-AAGTGATCCAAGTTAGGCTTAGTGTTTAAGTAGGTGATATTATT
580 GGCGGTGTGAAATT-CAAGGAAACTGATCCAAGTTAGGCTTAGTGTTTAAGTAGGTGATATTATT
* * *
39160995 GCTATTATTTTTGAAGTGTGCGAATAAGATAATGTGATTGAATTG
644 ACTATTATTTTTGAACTGTGCGAATAAGACAA--T-A-T--A--G
* * * * * *
39161040 TTGGCTGATTATTATCATGATGGTTGAAATGATTATTTTGTTTTTAATACTCTTTGGTCCATGGG
1 -T---TGATTATTATCATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCATGGA
* * * * *
39161105 CGTTGTTATTAGTTTATTGGTTTGTTTCGTTGAAATTATTTATATCGCTTTAGACTTCAAATATG
62 CATTGTTATTAGTTTATTGGTTTGCTTAGTTGAAATTATTCATAT-GCTATAGACTTCAAATATG
* * * * **
39161170 GATATTTTGATGTCGAATATGGAAGTTATGGATTCACATTGAAGTGGTATGTGATTGAGTATGTG
126 GAAATTTTGATGTTGAATATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTG
** * * * * * *
39161235 GAATGCCCTATTTTGCTAAAATTTTTACAGAATTTTACAGTGGTATTAATAATAGTGGCATACGT
191 GAATGCCCTATTTTGCTTGAATTTTTGCAGAATTATACAGTAGTATTGATAATAGAGGCATATGT
* * * * *
39161300 ATCAATACTTTTGAGTTGAAATGAATGTGTAGGAAACAATTGCTCATTTTGGTA-CTATACTAGT
256 ATCGATACTTTTGAGTTGAAACGAATGTGTAGGAAACAATTGCTCATTTTGGTATCGATACCAAT
** * * *
39161364 TCTCGAGTATTAATACTCGGGGTAAAAATATAGATACTTTTGAATTGTATCAATAAATTGCTGAG
321 TCTCGAGTATCGATACTCGGGGTAAAATTATAGATACTTTTGAATTGTATCGATAAATTGCTGGG
* * * * * *
39161429 TTTT-GAATTTTGAAGAAAAACAAAATGTTAAAAAGGTATCGATTTTTCGAACGGTATCGATACC
386 TTTTAG-ATTTTGAAGAAAAACAGAATGTTAAAAATGTA-CCAATTTTCAAACAGTATCGATACC
39161493 TATTT
449 TATTT
39161498 TGAGAAATAT
Statistics
Matches: 976, Mismatches: 140, Indels: 71
0.82 0.12 0.06
Matches are distributed among these distances:
679 150 0.15
680 9 0.01
681 50 0.05
682 1 0.00
683 1 0.00
684 2 0.00
685 1 0.00
687 1 0.00
688 1 0.00
689 1 0.00
690 1 0.00
691 125 0.13
692 255 0.26
693 7 0.01
694 4 0.00
695 3 0.00
696 1 0.00
699 2 0.00
702 15 0.02
703 339 0.35
704 7 0.01
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (680 bp):
TTGATTATTATCATGATGTTTTAAATGATTATTTTGATTTTAATACTCTTAGGTTCATGGACATT
GTTATTAGTTTATTGGTTTGCTTAGTTGAAATTATTCATATGCTATAGACTTCAAATATGGAAAT
TTTGATGTTGAATATTGAAGTTATGGATGCATGTTGAAGTGGTATGTGATTGAGTATGTGGAATG
CCCTATTTTGCTTGAATTTTTGCAGAATTATACAGTAGTATTGATAATAGAGGCATATGTATCGA
TACTTTTGAGTTGAAACGAATGTGTAGGAAACAATTGCTCATTTTGGTATCGATACCAATTCTCG
AGTATCGATACTCGGGGTAAAATTATAGATACTTTTGAATTGTATCGATAAATTGCTGGGTTTTA
GATTTTGAAGAAAAACAGAATGTTAAAAATGTACCAATTTTCAAACAGTATCGATACCTATTTAG
ATGTTCTCATATAATGTATGATATCATGTTTATTTGGTATTTTTTCTCTCGATCATTCACTGAGC
TTGTTTAAGCTCACACACTCTTTTCTAAACTTTTGCAGATAGTTAGTGTTTCCGGTATGGGCGGT
GTGAAATTCAAGGAAACTGATCCAAGTTAGGCTTAGTGTTTAAGTAGGTGATATTATTACTATTA
TTTTTGAACTGTGCGAATAAGACAATATAG
Found at i:39161815 original size:20 final size:20
Alignment explanation
Indices: 39161790--39161828 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
39161780 TTACAGATTT
39161790 TTTTTTGGTACTTCCTTATG
1 TTTTTTGGTACTTCCTTATG
* *
39161810 TTTTTTTGTATTTCCTTAT
1 TTTTTTGGTACTTCCTTAT
39161829 AAATTTTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.10, C:0.13, G:0.10, T:0.67
Consensus pattern (20 bp):
TTTTTTGGTACTTCCTTATG
Found at i:39161815 original size:21 final size:20
Alignment explanation
Indices: 39161789--39161903 Score: 67
Period size: 19 Copynumber: 5.8 Consensus size: 20
39161779 GTTACAGATT
39161789 TTTTTTTGGTACTTCCTTATG
1 TTTTTTT-GTACTTCCTTATG
* *
39161810 TTTTTTTGTATTTCCTTATA
1 TTTTTTTGTACTTCCTTATG
** * * *
39161830 AATTTTTATAATTCCTCAT-
1 TTTTTTTGTACTTCCTTATG
*
39161849 ATTTTTTGTACTT-CTTCATG
1 TTTTTTTGTACTTCCTT-ATG
* * *
39161869 -TTTTTAGTACTTTC-TACG
1 TTTTTTTGTACTTCCTTATG
*
39161887 ATTTTTTGTCACTTCCT
1 TTTTTTTGT-ACTTCCT
39161904 CGTAAATTTT
Statistics
Matches: 73, Mismatches: 15, Indels: 12
0.73 0.15 0.12
Matches are distributed among these distances:
18 4 0.05
19 31 0.42
20 31 0.42
21 7 0.10
ACGTcount: A:0.17, C:0.16, G:0.08, T:0.60
Consensus pattern (20 bp):
TTTTTTTGTACTTCCTTATG
Found at i:39161835 original size:20 final size:19
Alignment explanation
Indices: 39161812--39161973 Score: 55
Period size: 20 Copynumber: 8.3 Consensus size: 19
39161802 TCCTTATGTT
* *
39161812 TTTTTGTATTTCCTTATAAA
1 TTTTTGTAATTCCTCAT-AA
* *
39161832 TTTTTATAATTCCTCATAT
1 TTTTTGTAATTCCTCATAA
* * *
39161851 TTTTTGTACTTCTTCAT-G
1 TTTTTGTAATTCCTCATAA
* *
39161869 TTTTTAGTACTTTCTACGAT--
1 TTTTT-GTAATTCCT-C-ATAA
* *
39161889 TTTTTGTCACTTCCTCGTAAA
1 TTTTTGT-AATTCCTCAT-AA
* *
39161910 TTTTTTTATTTCCTCATAA
1 TTTTTGTAATTCCTCATAA
*
39161929 TATTTT-TATATTTCCTCAT-T
1 T-TTTTGTA-A-TTCCTCATAA
* *
39161949 TTTTTGTTATTCCCTCCTAA
1 TTTTTGTAATT-CCTCATAA
39161969 TTTTT
1 TTTTT
39161974 TATTCTTCCT
Statistics
Matches: 109, Mismatches: 20, Indels: 26
0.70 0.13 0.17
Matches are distributed among these distances:
18 8 0.07
19 40 0.37
20 45 0.41
21 16 0.15
ACGTcount: A:0.19, C:0.17, G:0.05, T:0.59
Consensus pattern (19 bp):
TTTTTGTAATTCCTCATAA
Found at i:39161936 original size:19 final size:18
Alignment explanation
Indices: 39161911--39161977 Score: 62
Period size: 19 Copynumber: 3.5 Consensus size: 18
39161901 CCTCGTAAAT
39161911 TTTTTTATTTCCTCATAATA
1 TTTTTTATTTCCTCAT-A-A
**
39161931 TTTTTATATTTCCTCATTT
1 TTTTT-TATTTCCTCATAA
* *
39161950 TTTTGTTATTCCCTCCTAA
1 TTTT-TTATTTCCTCATAA
39161969 TTTTTTATT
1 TTTTTTATT
39161978 CTTCCTCTCT
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
18 5 0.13
19 17 0.44
20 6 0.15
21 11 0.28
ACGTcount: A:0.18, C:0.16, G:0.01, T:0.64
Consensus pattern (18 bp):
TTTTTTATTTCCTCATAA
Found at i:39161958 original size:21 final size:21
Alignment explanation
Indices: 39161899--39161947 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
39161889 TTTTTGTCAC
* *
39161899 TTCCTCGTAA-ATTTTTTTAT
1 TTCCTCATAATATTTTTATAT
39161919 TTCCTCATAATATTTTTATAT
1 TTCCTCATAATATTTTTATAT
39161940 TTCCTCAT
1 TTCCTCAT
39161948 TTTTTTGTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.22, C:0.18, G:0.02, T:0.57
Consensus pattern (21 bp):
TTCCTCATAATATTTTTATAT
Found at i:39161974 original size:39 final size:39
Alignment explanation
Indices: 39161910--39161984 Score: 100
Period size: 39 Copynumber: 1.9 Consensus size: 39
39161900 TCCTCGTAAA
*
39161910 TTTTTTTATTTCCTCATAATATTTTTATAT-TTCCTCATT
1 TTTTTTTATTCCCTCATAATATTTTTAT-TCTTCCTCATT
*
39161949 TTTTTGTTATTCCCTCCTAAT-TTTTTATTCTTCCTC
1 TTTTT-TTATTCCCTCATAATATTTTTATTCTTCCTC
39161985 TCTGTGTTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 1 0.03
39 18 0.56
40 13 0.41
ACGTcount: A:0.16, C:0.20, G:0.01, T:0.63
Consensus pattern (39 bp):
TTTTTTTATTCCCTCATAATATTTTTATTCTTCCTCATT
Found at i:39162647 original size:21 final size:19
Alignment explanation
Indices: 39162623--39162662 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
39162613 AATTTTATTA
*
39162623 ATATGCAAAAATATTTATTTT
1 ATAT-CAAAAA-ATTGATTTT
39162644 ATATCAAAAAATTGATTTT
1 ATATCAAAAAATTGATTTT
39162663 TCTAGTCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 6 0.33
21 4 0.22
ACGTcount: A:0.45, C:0.05, G:0.05, T:0.45
Consensus pattern (19 bp):
ATATCAAAAAATTGATTTT
Found at i:39162683 original size:19 final size:19
Alignment explanation
Indices: 39162628--39162683 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
39162618 TATTAATATG
*
39162628 CAAAAATATTTATTTTATAT
1 CAAAAA-ATTTATTTTCTAT
*
39162648 CAAAAAATTGATTTTTCTAGT
1 CAAAAAATTTA-TTTTCTA-T
39162669 C-AAAAATTTATTTTC
1 CAAAAAATTTATTTTC
39162684 AAATCATATT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 9 0.29
20 20 0.65
21 2 0.06
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (19 bp):
CAAAAAATTTATTTTCTAT
Found at i:39162744 original size:10 final size:10
Alignment explanation
Indices: 39162713--39162761 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
39162703 GATCGCATAA
*
39162713 AAAAATTATG
1 AAAAATTATT
39162723 AGAAAA-TATT
1 A-AAAATTATT
39162733 AAAAATTATT
1 AAAAATTATT
*
39162743 AAAAATTACT
1 AAAAATTATT
*
39162753 AATAATTAT
1 AAAAATTAT
39162762 GGGGATGCAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 4 0.12
10 25 0.76
11 4 0.12
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (10 bp):
AAAAATTATT
Found at i:39169241 original size:24 final size:24
Alignment explanation
Indices: 39169209--39169256 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
39169199 GAAAACATAC
39169209 GGTTATCTAAGATAAATTTTATGG
1 GGTTATCTAAGATAAATTTTATGG
39169233 GGTTATCTAAGATAAATTTTATGG
1 GGTTATCTAAGATAAATTTTATGG
39169257 AAGAAATTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.04, G:0.21, T:0.42
Consensus pattern (24 bp):
GGTTATCTAAGATAAATTTTATGG
Found at i:39169607 original size:23 final size:21
Alignment explanation
Indices: 39169570--39169611 Score: 66
Period size: 23 Copynumber: 1.9 Consensus size: 21
39169560 AATAAATACC
39169570 AAAAATTTATTTTAAAAATTA
1 AAAAATTTATTTTAAAAATTA
39169591 AAAAATATATATTTTAAAAAT
1 AAAAAT-T-TATTTTAAAAAT
39169612 ATTTTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 6 0.32
22 1 0.05
23 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAAATTTATTTTAAAAATTA
Found at i:39169667 original size:9 final size:8
Alignment explanation
Indices: 39169654--39169678 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
39169644 TTTTAAAATT
39169654 TAAAAAAA
1 TAAAAAAA
39169662 TAAAAAAA
1 TAAAAAAA
39169670 TAAAAAAA
1 TAAAAAAA
39169678 T
1 T
39169679 TTATTATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (8 bp):
TAAAAAAA
Found at i:39169669 original size:31 final size:30
Alignment explanation
Indices: 39169606--39169669 Score: 85
Period size: 31 Copynumber: 2.1 Consensus size: 30
39169596 TATATATTTT
*
39169606 AAAAATATTTTAAAATTAAAAAAATTTTAAA
1 AAAAATATTTTAAAATTAAAAAAA-TTAAAA
*
39169637 AAAAGTATTTTAAAATTTAAAAAAA-TAAAA
1 AAAAATATTTTAAAA-TTAAAAAAATTAAAA
39169667 AAA
1 AAA
39169670 TAAAAAAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 7 0.23
31 14 0.47
32 9 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (30 bp):
AAAAATATTTTAAAATTAAAAAAATTAAAA
Found at i:39172139 original size:21 final size:21
Alignment explanation
Indices: 39172113--39172262 Score: 86
Period size: 21 Copynumber: 7.1 Consensus size: 21
39172103 CCGAAGGCTG
*
39172113 AACAGAAGCTCATGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
* * * * * *
39172134 AACAGAAACCCGTAAGGGTTG
1 AACAGAAGCTCATAAGAGCTA
* * *
39172155 AATAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCATAAGAGCTA
* * * * *
39172176 AACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCATAAGAGCTA
*
39172197 AACAGAAGCTCA-ATAGAGCTG
1 AACAGAAGCTCATA-AGAGCTA
* * * *
39172218 AACGGAAACTCATATGAGTTA
1 AACAGAAGCTCATAAGAGCTA
* *
39172239 AACAGAAGCTCGTGAGAGCTA
1 AACAGAAGCTCATAAGAGCTA
39172260 AAC
1 AAC
39172263 GGAAAGTAAA
Statistics
Matches: 90, Mismatches: 37, Indels: 4
0.69 0.28 0.03
Matches are distributed among these distances:
20 1 0.01
21 88 0.98
22 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.25, T:0.16
Consensus pattern (21 bp):
AACAGAAGCTCATAAGAGCTA
Found at i:39172184 original size:42 final size:42
Alignment explanation
Indices: 39172113--39172267 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 42
39172103 CCGAAGGCTG
* * * * *
39172113 AACAGAAGCTCATGAGAGCTAAACAGAAACCCGTAAGGGTTG
1 AACAGAAGCTCGTAAGAGCTAAACGGAAACCCATAAGGGTTA
* *
39172155 AATAGAAGCTCGTAAGAGCTGAACGGAAACCCATAAGGGTTA
1 AACAGAAGCTCGTAAGAGCTAAACGGAAACCCATAAGGGTTA
* * * * *
39172197 AACAGAAGCTC-AATAGAGCTGAACGGAAACTCATATGAGTTA
1 AACAGAAGCTCGTA-AGAGCTAAACGGAAACCCATAAGGGTTA
*
39172239 AACAGAAGCTCGTGAGAGCTAAACGGAAA
1 AACAGAAGCTCGTAAGAGCTAAACGGAAA
39172268 GTAAACATGA
Statistics
Matches: 96, Mismatches: 15, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 95 0.99
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.15
Consensus pattern (42 bp):
AACAGAAGCTCGTAAGAGCTAAACGGAAACCCATAAGGGTTA
Found at i:39172257 original size:84 final size:84
Alignment explanation
Indices: 39172113--39172267 Score: 204
Period size: 84 Copynumber: 1.8 Consensus size: 84
39172103 CCGAAGGCTG
* * * * *
39172113 AACAGAAGCTCATGAGAGCTAAACAGAAACCCGTAAGGGTTGAATAGAAGCTCGTAAGAGCTGAA
1 AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGTAAGAGCTAAA
39172178 CGGAAACCCATAAGGGTTA
66 CGGAAACCCATAAGGGTTA
* * * * *
39172197 AACAGAAGCTCAAT-AGAGCTGAACGGAAACTCATATGAGTTAAACAGAAGCTCGTGAGAGCTAA
1 AACAGAAGCTC-ATGAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGTAAGAGCTAA
39172261 ACGGAAA
65 ACGGAAA
39172268 GTAAACATGA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
84 58 0.97
85 2 0.03
ACGTcount: A:0.42, C:0.17, G:0.25, T:0.15
Consensus pattern (84 bp):
AACAGAAGCTCATGAGAGCTAAACAGAAACCCATAAGAGTTAAACAGAAGCTCGTAAGAGCTAAA
CGGAAACCCATAAGGGTTA
Found at i:39174265 original size:15 final size:15
Alignment explanation
Indices: 39174245--39174274 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
39174235 TATTTAGAAA
39174245 AACATAGCAAAATAT
1 AACATAGCAAAATAT
39174260 AACATAGCAAAATAT
1 AACATAGCAAAATAT
39174275 CTTGTGTAGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (15 bp):
AACATAGCAAAATAT
Found at i:39176032 original size:20 final size:20
Alignment explanation
Indices: 39176007--39176046 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
39175997 CGTAAAATGA
*
39176007 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
39176027 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
39176047 GAAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:39176036 original size:34 final size:35
Alignment explanation
Indices: 39175992--39176058 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
39175982 GAGTAAAATA
* *
39175992 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
*
39176026 TTTTCTGTAAAATGATTTACTGAAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
39176059 CTGGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.33, C:0.09, G:0.12, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:39178509 original size:25 final size:24
Alignment explanation
Indices: 39178458--39178511 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 24
39178448 GTCATTAGGG
* * * *
39178458 TTACCGATTCCAGCTCTTATGAGC
1 TTACCGATACCAACTCGTATGAAC
39178482 TTACCGATACTCAACTCGTATGAAC
1 TTACCGATAC-CAACTCGTATGAAC
39178507 TTACC
1 TTACC
39178512 ATTATTCAGC
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 9 0.36
25 16 0.64
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (24 bp):
TTACCGATACCAACTCGTATGAAC
Found at i:39178534 original size:25 final size:26
Alignment explanation
Indices: 39178506--39178561 Score: 73
Period size: 25 Copynumber: 2.2 Consensus size: 26
39178496 CTCGTATGAA
39178506 CTTACCA-TTATTCAGCTT-GAAGGAG
1 CTTACCAGTTATTCAGCTTAGAA-GAG
*
39178531 CTTA-TAGTTATTCAGCTTAGAAGAG
1 CTTACCAGTTATTCAGCTTAGAAGAG
39178556 CTTACC
1 CTTACC
39178562 GTTTATAGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 1 0.04
25 22 0.85
26 3 0.12
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (26 bp):
CTTACCAGTTATTCAGCTTAGAAGAG
Found at i:39183867 original size:17 final size:18
Alignment explanation
Indices: 39183841--39183878 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
39183831 TAGTTATGCT
*
39183841 AAAATGTTTTG-AGTAGA
1 AAAATGTTTTGTAGCAGA
*
39183858 AAAATTTTTTGTAGCAGA
1 AAAATGTTTTGTAGCAGA
39183876 AAA
1 AAA
39183879 TTTATTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.34
Consensus pattern (18 bp):
AAAATGTTTTGTAGCAGA
Found at i:39189601 original size:40 final size:39
Alignment explanation
Indices: 39189530--39189607 Score: 106
Period size: 40 Copynumber: 2.0 Consensus size: 39
39189520 TATTTTAGTT
39189530 TGTGTCTTTAATTATGTCTTAGTTTGAACATCATTAATA
1 TGTGTCTTTAATTATGTCTTAGTTTGAACATCATTAATA
*
39189569 TGTGT-TTTAATTACGTGTCTTAATTTTG-ACATCATTAAT
1 TGTGTCTTTAATTA--TGTCTT-AGTTTGAACATCATTAAT
39189608 GTTTGTCTAA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
38 8 0.23
39 5 0.14
40 17 0.49
41 5 0.14
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (39 bp):
TGTGTCTTTAATTATGTCTTAGTTTGAACATCATTAATA
Found at i:39192171 original size:18 final size:17
Alignment explanation
Indices: 39192145--39192183 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
39192135 ATTTTCCTTC
39192145 CACATTC-AATATTAATT
1 CACATTCAAATA-TAATT
39192162 CACATATCAAATATAATT
1 CACAT-TCAAATATAATT
39192180 CACA
1 CACA
39192184 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 5 0.25
18 11 0.55
19 4 0.20
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
CACATTCAAATATAATT
Found at i:39193951 original size:31 final size:31
Alignment explanation
Indices: 39193913--39193972 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
39193903 GGGATGCTCG
39193913 TAAACTATCCTTTGCTGGAATACTAACTTCT
1 TAAACTATCCTTTGCTGGAATACTAACTTCT
*
39193944 TAAACTATCCTTTGCTGGAATGCTAACTT
1 TAAACTATCCTTTGCTGGAATACTAACTT
39193973 TAGTGAAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.28, C:0.22, G:0.12, T:0.38
Consensus pattern (31 bp):
TAAACTATCCTTTGCTGGAATACTAACTTCT
Found at i:39196512 original size:14 final size:15
Alignment explanation
Indices: 39196492--39196526 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
39196482 TAGATGTGAT
*
39196492 TTTTTTAAATAATTA
1 TTTTTAAAATAATTA
39196507 TTTTTAAAAATAATTA
1 TTTTT-AAAATAATTA
39196523 TTTT
1 TTTT
39196527 AAGGATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TTTTTAAAATAATTA
Found at i:39198922 original size:19 final size:18
Alignment explanation
Indices: 39198886--39198921 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
39198876 TTCAATTTTT
39198886 TAAAAAATAAAAGTAAAA
1 TAAAAAATAAAAGTAAAA
39198904 TAAATAAATAAAA-TAAAA
1 TAAA-AAATAAAAGTAAAA
39198922 AACACTCAGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (18 bp):
TAAAAAATAAAAGTAAAA
Found at i:39200080 original size:21 final size:21
Alignment explanation
Indices: 39200054--39200097 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
39200044 ATTAGAATGT
* *
39200054 AAAAATTAAATTAAAAACAAA
1 AAAAATAAAAATAAAAACAAA
*
39200075 AAAAATAAAAATAAAAATAAA
1 AAAAATAAAAATAAAAACAAA
39200096 AA
1 AA
39200098 GGCTAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.82, C:0.02, G:0.00, T:0.16
Consensus pattern (21 bp):
AAAAATAAAAATAAAAACAAA
Found at i:39206430 original size:76 final size:77
Alignment explanation
Indices: 39206291--39206442 Score: 234
Period size: 76 Copynumber: 2.0 Consensus size: 77
39206281 CATTTTGGTA
* *
39206291 TTTAATAATATTTTTTTGGATTATTGTGGTAAAAGAACTACATTTTACAAATGTTAAATATATGT
1 TTTAATAATATTTTCTTGGATTATTGTGGTAAAAGAACTACATTTTACAAATGTTAAAGATATGT
39206356 TACGTAATAAAT
66 TACGTAATAAAT
* * * *
39206368 TTTAATTA-ATTTTCTTGGATTATTGTGGTAAAAGAATTACTTTTTACAAATGTTTAAGATATGT
1 TTTAATAATATTTTCTTGGATTATTGTGGTAAAAGAACTACATTTTACAAATGTTAAAGATATGT
*
39206432 TATGTAATAAA
66 TACGTAATAAA
39206443 AAACTTATTA
Statistics
Matches: 68, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
76 61 0.90
77 7 0.10
ACGTcount: A:0.38, C:0.05, G:0.12, T:0.45
Consensus pattern (77 bp):
TTTAATAATATTTTCTTGGATTATTGTGGTAAAAGAACTACATTTTACAAATGTTAAAGATATGT
TACGTAATAAAT
Found at i:39209184 original size:28 final size:30
Alignment explanation
Indices: 39209150--39209208 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
39209140 TTTAAAGCAC
* *
39209150 AAAAGTAT-ATATACAT-AAATAATTAAAA
1 AAAAGTATCATAAAAATAAAATAATTAAAA
*
39209178 AAAAGTATCATAAAAATAAAATTATTAAAA
1 AAAAGTATCATAAAAATAAAATAATTAAAA
39209208 A
1 A
39209209 TATATAGATA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 8 0.31
29 6 0.23
30 12 0.46
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.27
Consensus pattern (30 bp):
AAAAGTATCATAAAAATAAAATAATTAAAA
Found at i:39210030 original size:24 final size:25
Alignment explanation
Indices: 39209994--39210041 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
39209984 CTTTCGAGTT
*
39209994 TTTTCTTTTAATTTTCTCTTCAATG
1 TTTTCTTTTAATTTTCTATTCAATG
*
39210019 TTTT-TTTTAATTTTTTATTCAAT
1 TTTTCTTTTAATTTTCTATTCAAT
39210042 CTGTAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.19, C:0.10, G:0.02, T:0.69
Consensus pattern (25 bp):
TTTTCTTTTAATTTTCTATTCAATG
Found at i:39211056 original size:44 final size:44
Alignment explanation
Indices: 39210918--39211056 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 44
39210908 CGAGGCAAGA
* *
39210918 AGGCAAGACCTGCTATATTCAACCTGCTCCACTACAACCGAGGG
1 AGGCAAGACCTGCTATCTTCAACTTGCTCCACTACAACCGAGGG
* * * * * * * * * *
39210962 AGACAAGGCTTG-TGTCTTCGA-TCTGCTTCACTGTCGA-TGCAGGA
1 AGGCAAGACCTGCTATCTTCAACT-TGCTCCACT-ACAACCG-AGGG
*
39211006 AGGCAAGATCTGCTATCTTCAACTTGCTCCACTACAACCGAGGG
1 AGGCAAGACCTGCTATCTTCAACTTGCTCCACTACAACCGAGGG
39211050 AGGCAAG
1 AGGCAAG
39211057 GCTTGTGTCT
Statistics
Matches: 66, Mismatches: 23, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
43 15 0.23
44 34 0.52
45 16 0.24
46 1 0.02
ACGTcount: A:0.27, C:0.27, G:0.24, T:0.22
Consensus pattern (44 bp):
AGGCAAGACCTGCTATCTTCAACTTGCTCCACTACAACCGAGGG
Found at i:39211098 original size:44 final size:44
Alignment explanation
Indices: 39211050--39211188 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 44
39211040 CAACCGAGGG
39211050 AGGCAAGGCTTGTGTCTTTGATCTGCTTCGCTGTCGATGTAGGA
1 AGGCAAGGCTTGTGTCTTTGATCTGCTTCGCTGTCGATGTAGGA
** * ** * * * * * * *
39211094 AGGCAAGATTTGTTATCTTCAACCTGCTCCACT-ACAACCG-AGGG
1 AGGCAAGGCTTG-TGTCTTTGATCTGCTTCGCTGTCGA-TGTAGGA
**
39211138 AGATAAGGCTTGTGTCTTTGATCTGCTTCGCTGTCGATGTAGGA
1 AGGCAAGGCTTGTGTCTTTGATCTGCTTCGCTGTCGATGTAGGA
39211182 AGGCAAG
1 AGGCAAG
39211189 ATCTGCTATC
Statistics
Matches: 63, Mismatches: 28, Indels: 8
0.64 0.28 0.08
Matches are distributed among these distances:
43 15 0.24
44 33 0.52
45 15 0.24
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (44 bp):
AGGCAAGGCTTGTGTCTTTGATCTGCTTCGCTGTCGATGTAGGA
Found at i:39211232 original size:88 final size:88
Alignment explanation
Indices: 39210916--39211228 Score: 527
Period size: 88 Copynumber: 3.6 Consensus size: 88
39210906 ATCGAGGCAA
* * *
39210916 GAAGGCAAGACCTGCTATATTCAACCTGCTCCACTACAACCGAGGGAGACAAGGCTTGTGTCTTC
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGACAAGGCTTGTGTCTTT
* *
39210981 GATCTGCTTCACTGTCGATGCAG
66 GATCTGCTTCGCTGTCGATGTAG
* *
39211004 GAAGGCAAGATCTGCTATCTTCAACTTGCTCCACTACAACCGAGGGAGGCAAGGCTTGTGTCTTT
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGACAAGGCTTGTGTCTTT
39211069 GATCTGCTTCGCTGTCGATGTAG
66 GATCTGCTTCGCTGTCGATGTAG
* * *
39211092 GAAGGCAAGATTTGTTATCTTCAACCTGCTCCACTACAACCGAGGGAGATAAGGCTTGTGTCTTT
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGACAAGGCTTGTGTCTTT
39211157 GATCTGCTTCGCTGTCGATGTAG
66 GATCTGCTTCGCTGTCGATGTAG
*
39211180 GAAGGCAAGATCTGCTATCTTCAACCTACTCCACTACAACCGAGGGAGA
1 GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGA
39211229 TAAGATCTGT
Statistics
Matches: 210, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 210 1.00
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (88 bp):
GAAGGCAAGATCTGCTATCTTCAACCTGCTCCACTACAACCGAGGGAGACAAGGCTTGTGTCTTT
GATCTGCTTCGCTGTCGATGTAG
Found at i:39211673 original size:44 final size:44
Alignment explanation
Indices: 39211247--39211672 Score: 503
Period size: 44 Copynumber: 9.7 Consensus size: 44
39211237 GTAATTTTCA
* * * * * *
39211247 ACCTACTCCACAGCTGCTCAGGGAGCTAGGACCTACAATTTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* * * * *
39211291 AACTATTCCATTGCTGGTCAAGGAGCTAGGATTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* *
39211335 ACCTATTCCACTGCTGGTCAAGGG-GATAGGATTTACAATCTTCC
1 ACCTATTCCACTGCTGGTC-AGGGAGCTAGGACTTACAATCTTCC
* * * * *
39211379 GCCTATTCCAATGCTGTTCAGGGAGCTAGGACTTTCAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* * *
39211423 ACCTATTCCAATGCTGGTCAGGGAGCTAGGATTTATAATCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* * * * *
39211467 GCCTATTCCACTACTGTTCAGGGAGCTAGGGCTTACAATCTTCT
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
*
39211511 ACCTATTCCACTGCTGGTCAGGGAGCTAGGATTTACAATCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* * * * *
39211555 ACATATTCCACAGCTGGTCAGGGAACTAGGGCTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
* * * *
39211599 ACCTATTCCACTACTGGTCAGGGAACTAGGGCTTACAGTCTTCC
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
*
39211643 ACCTATTCCACTGCTGGTCAGGGAACTAGG
1 ACCTATTCCACTGCTGGTCAGGGAGCTAGG
39211673 GTTACAGTTG
Statistics
Matches: 327, Mismatches: 53, Indels: 4
0.85 0.14 0.01
Matches are distributed among these distances:
43 4 0.01
44 320 0.98
45 3 0.01
ACGTcount: A:0.23, C:0.27, G:0.21, T:0.29
Consensus pattern (44 bp):
ACCTATTCCACTGCTGGTCAGGGAGCTAGGACTTACAATCTTCC
Found at i:39213670 original size:96 final size:96
Alignment explanation
Indices: 39213504--39213730 Score: 370
Period size: 96 Copynumber: 2.4 Consensus size: 96
39213494 CCCTTCGGGA
* *
39213504 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGCCTTATCACACATACAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
* *
39213567 ATGTTCACATTCATCACATTGGCCATTCGGC
66 ATGTTCACATTCATCACATCGGCCATTAGGC
* *
39213598 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
39213663 ACT-TTCACATTCATCACATCGGCCATTAGGC
66 A-TGTTCACATTCATCACATCGGCCATTAGGC
39213694 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATATACACTTTCACATTCATCACAT
39213731 CATGTACAGA
Statistics
Matches: 124, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
94 10 0.08
95 1 0.01
96 112 0.90
97 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACAC
ATGTTCACATTCATCACATCGGCCATTAGGC
Found at i:39213731 original size:49 final size:49
Alignment explanation
Indices: 39213504--39213730 Score: 342
Period size: 47 Copynumber: 4.8 Consensus size: 49
39213494 CCCTTCGGGA
* *
39213504 CTTATCACAT-T-TATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
39213551 CTTATCAC--ACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
39213598 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
39213647 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
39213694 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATATACACTTTCACATTCATCACAT
39213731 CATGTACAGA
Statistics
Matches: 164, Mismatches: 8, Indels: 14
0.88 0.04 0.08
Matches are distributed among these distances:
46 1 0.01
47 92 0.56
49 70 0.43
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.07, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:39217566 original size:20 final size:21
Alignment explanation
Indices: 39217543--39217592 Score: 77
Period size: 20 Copynumber: 2.4 Consensus size: 21
39217533 CCTTAGTCTC
39217543 TCCATTTTT-ACTTTTCA-TTT
1 TCCATTTTTCA-TTTTCATTTT
39217563 TCCATTTTTCATTTTCATTTT
1 TCCATTTTTCATTTTCATTTT
39217584 TCCATTTTT
1 TCCATTTTT
39217593 TTACTCAAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.54
21 13 0.46
ACGTcount: A:0.14, C:0.20, G:0.00, T:0.66
Consensus pattern (21 bp):
TCCATTTTTCATTTTCATTTT
Found at i:39217589 original size:8 final size:7
Alignment explanation
Indices: 39217545--39217592 Score: 55
Period size: 7 Copynumber: 7.0 Consensus size: 7
39217535 TTAGTCTCTC
39217545 CATTTTT
1 CATTTTT
*
39217552 -ACTTTT
1 CATTTTT
*
39217558 CATTTTC
1 CATTTTT
39217565 CATTTTT
1 CATTTTT
39217572 CA-TTTT
1 CATTTTT
39217578 CATTTTT
1 CATTTTT
39217585 CCATTTTT
1 -CATTTTT
39217593 TTACTCAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
6 11 0.32
7 16 0.47
8 7 0.21
ACGTcount: A:0.15, C:0.19, G:0.00, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:39218475 original size:20 final size:20
Alignment explanation
Indices: 39218436--39218475 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
39218426 CCTTGGCCTC
* *
39218436 TCCTTTTCTTTTTCCTTTTT
1 TCCTTATCTTTTTCCATTTT
*
39218456 TCCTTATCTTTTTTCATTTT
1 TCCTTATCTTTTTCCATTTT
39218476 CATTTTCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.05, C:0.23, G:0.00, T:0.72
Consensus pattern (20 bp):
TCCTTATCTTTTTCCATTTT
Found at i:39218502 original size:6 final size:6
Alignment explanation
Indices: 39218466--39218539 Score: 53
Period size: 6 Copynumber: 12.7 Consensus size: 6
39218456 TCCTTATCTT
* * * * **
39218466 TTTTCA TTTTCA TTTTCA TTTTGA CTTTGA TTTTGA TTTTTC TTTT--
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
* **
39218512 TCTTCT TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
39218540 TTTTGAATTG
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
4 3 0.05
6 54 0.95
ACGTcount: A:0.12, C:0.09, G:0.08, T:0.70
Consensus pattern (6 bp):
TTTTGA
Found at i:39223918 original size:24 final size:26
Alignment explanation
Indices: 39223880--39223928 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
39223870 CTTTCGAGTT
*
39223880 TTTTTCTTTTAATTTTCTCTTCAATG
1 TTTTTCTTTTAATTTTCTATTCAATG
*
39223906 TTTTT-TTTT-ATTTTTTATTCAAT
1 TTTTTCTTTTAATTTTCTATTCAAT
39223929 CTGTAAAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 12 0.57
25 4 0.19
26 5 0.24
ACGTcount: A:0.16, C:0.10, G:0.02, T:0.71
Consensus pattern (26 bp):
TTTTTCTTTTAATTTTCTATTCAATG
Found at i:39225231 original size:46 final size:46
Alignment explanation
Indices: 39225181--39225279 Score: 162
Period size: 46 Copynumber: 2.2 Consensus size: 46
39225171 CAAGATTGTG
*
39225181 TTAATTTTGTTTGAATTAATTTATTAAACTATAACAAATGCTTGAC
1 TTAATTTTGTTTGAATTAATTTATTAAACTATAACAAAGGCTTGAC
** *
39225227 TTAATTTTGTTTTTATTAATTTATTAAACTATCACAAAGGCTTGAC
1 TTAATTTTGTTTGAATTAATTTATTAAACTATAACAAAGGCTTGAC
39225273 TTAATTT
1 TTAATTT
39225280 AAAATTTTGA
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.34, C:0.09, G:0.08, T:0.48
Consensus pattern (46 bp):
TTAATTTTGTTTGAATTAATTTATTAAACTATAACAAAGGCTTGAC
Found at i:39227279 original size:45 final size:45
Alignment explanation
Indices: 39227227--39227353 Score: 200
Period size: 45 Copynumber: 2.8 Consensus size: 45
39227217 GTGCATTCAG
39227227 CACATAGCAACCACCTTATTAATCAATGATGTCCGGTGGAATCAA
1 CACATAGCAACCACCTTATTAATCAATGATGTCCGGTGGAATCAA
* *
39227272 CACATAGCAACCACCTTATTAATCAATGATGTCTGGTGGAATCAG
1 CACATAGCAACCACCTTATTAATCAATGATGTCCGGTGGAATCAA
* * * *
39227317 CACATAGCAAACACCATACTAATCAATGATGTTCGGT
1 CACATAGCAACCACCTTATTAATCAATGATGTCCGGT
39227354 TCACATAGTA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (45 bp):
CACATAGCAACCACCTTATTAATCAATGATGTCCGGTGGAATCAA
Found at i:39227435 original size:51 final size:51
Alignment explanation
Indices: 39227350--39227545 Score: 225
Period size: 51 Copynumber: 3.9 Consensus size: 51
39227340 CAATGATGTT
* * * *
39227350 CGGTTCACATAGTAGCCTGCATATAGTACTACACATGTGACCATTACCATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATC
* * ** *
39227401 CGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCAAAACTATC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATC
* * * * * *
39227452 CGGTACGCATAGTAGCATGCACATAGTACTACACATGCGACC--TATCATTC
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCA-TC
*
39227502 CGGTACACGTAGTAGTCTGCACATAGTACTACACACGTGACCAT
1 CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
39227546 CACTTTCACT
Statistics
Matches: 117, Mismatches: 25, Indels: 5
0.80 0.17 0.03
Matches are distributed among these distances:
49 2 0.02
50 38 0.32
51 77 0.66
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.24
Consensus pattern (51 bp):
CGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTACCATC
Found at i:39227534 original size:101 final size:101
Alignment explanation
Indices: 39227357--39227541 Score: 291
Period size: 101 Copynumber: 1.8 Consensus size: 101
39227347 GTTCGGTTCA
* * *
39227357 CATAGTAGCCTGCATATAGTACTACACATGTGACCATTACCATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCATGCACATAGTACTACACATGCGACCA-TACCATCCGATACACGTAGTAGCCTGCA
39227422 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
65 CATAGTACTACACACGTGATCAAAACTATCCGGTACG
* * *
39227459 CATAGTAGCATGCACATAGTACTACACATGCGACC-TATCATTCCGGTACACGTAGTAGTCTGCA
1 CATAGTAGCATGCACATAGTACTACACATGCGACCATACCA-TCCGATACACGTAGTAGCCTGCA
39227523 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
39227542 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
100 4 0.05
101 40 0.53
102 32 0.42
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.24
Consensus pattern (101 bp):
CATAGTAGCATGCACATAGTACTACACATGCGACCATACCATCCGATACACGTAGTAGCCTGCAC
ATAGTACTACACACGTGATCAAAACTATCCGGTACG
Found at i:39233029 original size:31 final size:30
Alignment explanation
Indices: 39232994--39233053 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
39232984 GGAAGTGGGA
*
39232994 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
* * *
39233025 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
39233054 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:39233363 original size:9 final size:9
Alignment explanation
Indices: 39233346--39233376 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
39233336 TCGAGTTGAT
39233346 TCGAATAAC
1 TCGAATAAC
*
39233355 TCGATTAAC
1 TCGAATAAC
39233364 TCGAATAAC
1 TCGAATAAC
39233373 TCGA
1 TCGA
39233377 TTCATTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:39260155 original size:3 final size:3
Alignment explanation
Indices: 39260147--39260189 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
39260137 TCATGATTCT
* * *
39260147 TTG TTG TTG TTG TTG TTT TTG TTG TTG TTG TTA TAG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
39260190 GTAGCTTATG
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.05, C:0.00, G:0.28, T:0.67
Consensus pattern (3 bp):
TTG
Found at i:39260448 original size:45 final size:44
Alignment explanation
Indices: 39260383--39260467 Score: 116
Period size: 45 Copynumber: 1.9 Consensus size: 44
39260373 TTTATAATAA
* * * *
39260383 ATTAAATAGTATTTATAATAAATTATTTATATTTAATTTTACTTG
1 ATTAAATAATATTTACAATAAAATATTTATACTT-ATTTTACTTG
*
39260428 ATTATATAATATTTACAATAAAATATTTATACTTATTTTA
1 ATTAAATAATATTTACAATAAAATATTTATACTTATTTTA
39260468 ACTAAATAAC
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
44 6 0.17
45 29 0.83
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (44 bp):
ATTAAATAATATTTACAATAAAATATTTATACTTATTTTACTTG
Found at i:39260485 original size:45 final size:45
Alignment explanation
Indices: 39260392--39260506 Score: 124
Period size: 45 Copynumber: 2.6 Consensus size: 45
39260382 AATTAAATAG
* ** * *
39260392 TATTTATAATAAATTATTTATATTTAATTTTACTTGATTATATAA
1 TATTTATAATAAATTATTTATACTTAATTTTACTAAATAACATAA
* * *
39260437 TATTTACAATAAAATATTTATACTT-ATTTTAACTAAATAACATGA
1 TATTTATAATAAATTATTTATACTTAATTTT-ACTAAATAACATAA
* *
39260482 TATTTATTATCAATTATTTATACTT
1 TATTTATAATAAATTATTTATACTT
39260507 GGCCAATGAC
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
44 5 0.09
45 52 0.91
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.51
Consensus pattern (45 bp):
TATTTATAATAAATTATTTATACTTAATTTTACTAAATAACATAA
Found at i:39268679 original size:15 final size:17
Alignment explanation
Indices: 39268649--39268686 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
39268639 AAAAAGAACA
39268649 TTTTTTGGTCATATTAC
1 TTTTTTGGTCATATTAC
*
39268666 TTTTTTGG-CA-ATTAG
1 TTTTTTGGTCATATTAC
39268681 TTTTTT
1 TTTTTT
39268687 AGGTGCCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 10 0.50
16 2 0.10
17 8 0.40
ACGTcount: A:0.16, C:0.08, G:0.13, T:0.63
Consensus pattern (17 bp):
TTTTTTGGTCATATTAC
Found at i:39271623 original size:39 final size:40
Alignment explanation
Indices: 39271565--39271788 Score: 245
Period size: 39 Copynumber: 5.8 Consensus size: 40
39271555 ATAACCACAA
39271565 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
39271605 GCACAAATGCCTTC-GGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
39271644 GCACAATTGCCTTCGGGTCTTAACCCGGATA-A--AA-TC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * *
39271680 AGCACAATTGCC-TC-GGTCTTAACCCGG-TATAGCAACTC
1 -GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
39271718 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
39271758 GCACAATTGCCTTC-GGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
39271789 CATTCAAATG
Statistics
Matches: 159, Mismatches: 13, Indels: 26
0.80 0.07 0.13
Matches are distributed among these distances:
34 2 0.01
35 14 0.09
36 3 0.02
37 24 0.15
38 6 0.04
39 58 0.36
40 49 0.31
41 3 0.02
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:39279682 original size:40 final size:40
Alignment explanation
Indices: 39279618--39279867 Score: 310
Period size: 40 Copynumber: 6.3 Consensus size: 40
39279608 TCTTCGGAAT
* * *
39279618 TTAG-CCGGATATAACCACAAGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
39279657 TTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTC-GGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
*
39279696 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* *
39279736 TTAACCCGGATAAAATCACTAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
* * * * *
39279776 TTAACCCGGGT-ATAGCAACTCGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTC
* *
39279816 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGAC
1 TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
*
39279856 TTAGCCTGGATA
1 TTAGCCCGGATA
39279868 TCATTCAAAT
Statistics
Matches: 183, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
39 40 0.22
40 140 0.77
41 3 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
TTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTC
Found at i:39283234 original size:55 final size:55
Alignment explanation
Indices: 39283168--39283273 Score: 185
Period size: 55 Copynumber: 1.9 Consensus size: 55
39283158 GTCCCAGCTC
* *
39283168 GTGTCCTCACCCGTTTAACTCTCTGAGTAGGGTCACACAGCCATGTCACACACTT
1 GTGTCCTCACCCGTGTAACTCTCTAAGTAGGGTCACACAGCCATGTCACACACTT
*
39283223 GTGTCCTCACCCGTGTAACTCTCTAAGTAGGGTCACACAGCCGTGTCACAC
1 GTGTCCTCACCCGTGTAACTCTCTAAGTAGGGTCACACAGCCATGTCACAC
39283274 GCCCGTCTGT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.22, C:0.33, G:0.20, T:0.25
Consensus pattern (55 bp):
GTGTCCTCACCCGTGTAACTCTCTAAGTAGGGTCACACAGCCATGTCACACACTT
Found at i:39283295 original size:55 final size:55
Alignment explanation
Indices: 39283171--39283300 Score: 145
Period size: 55 Copynumber: 2.4 Consensus size: 55
39283161 CCAGCTCGTG
* * * ** *
39283171 TCCTCACCCGTTTAACTCTCTGAGTAGGGTCACACAGCCATGTCACACACTTGTG
1 TCCTCACCCATGTAACTCTCTAAGTAGGGTCACACAGCCATGTCACACACCCGTC
* * *
39283226 TCCTCACCCGTGTAACTCTCTAAGTAGGGTCACACAGCCGTGTCACACGCCCGTC
1 TCCTCACCCATGTAACTCTCTAAGTAGGGTCACACAGCCATGTCACACACCCGTC
* *
39283281 T-GTCAGGCCATGTAACTCTC
1 TCCTCA-CCCATGTAACTCTC
39283301 AAAATTGCCC
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
54 3 0.05
55 61 0.95
ACGTcount: A:0.21, C:0.35, G:0.19, T:0.25
Consensus pattern (55 bp):
TCCTCACCCATGTAACTCTCTAAGTAGGGTCACACAGCCATGTCACACACCCGTC
Found at i:39291363 original size:20 final size:21
Alignment explanation
Indices: 39291335--39291377 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
39291325 TTAGTTTATT
*
39291335 CTAGCAATAAAGTA-AATGAG
1 CTAGAAATAAAGTAGAATGAG
*
39291355 CTAGAAATAAATTAGAATGAG
1 CTAGAAATAAAGTAGAATGAG
39291376 CT
1 CT
39291378 CAAACGAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.49, C:0.09, G:0.19, T:0.23
Consensus pattern (21 bp):
CTAGAAATAAAGTAGAATGAG
Found at i:39312890 original size:20 final size:20
Alignment explanation
Indices: 39312823--39312891 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
39312813 ACTCTACTTC
* *
39312823 AAGCTCACTCAGCTCAACTT
1 AAGCTCATTCAGCTCATCTT
* *
39312843 TAGCTCA-ACGAGCTCATTCTT
1 AAGCTCATTC-AGCTCA-TCTT
39312864 -AGCTCATTCAGCTCATCTT
1 AAGCTCATTCAGCTCATCTT
39312883 AAGCTCATT
1 AAGCTCATT
39312892 TTAGTTTGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 5 0.12
20 32 0.78
21 4 0.10
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (20 bp):
AAGCTCATTCAGCTCATCTT
Found at i:39328230 original size:20 final size:20
Alignment explanation
Indices: 39328163--39328231 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 20
39328153 ACTCTACTTC
* *
39328163 AAGCTCACTCAGCTCAACTT
1 AAGCTCATTCAGCTCATCTT
* *
39328183 TAGCTCA-ACGAGCTCATTCTT
1 AAGCTCATTC-AGCTCA-TCTT
39328204 -AGCTCATTCAGCTCATCTT
1 AAGCTCATTCAGCTCATCTT
39328223 AAGCTCATT
1 AAGCTCATT
39328232 TTAGTTTGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
19 5 0.12
20 32 0.78
21 4 0.10
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (20 bp):
AAGCTCATTCAGCTCATCTT
Found at i:39344523 original size:40 final size:40
Alignment explanation
Indices: 39344479--39344556 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
39344469 TAAATAAAAG
*
39344479 AAAGTCCAATAACTCAATTACTAACTAAGATAAGTTTAAT
1 AAAGTCCAACAACTCAATTACTAACTAAGATAAGTTTAAT
* * * *
39344519 AAAGTCCAGCAACTCATTTATTAACTAAGATGAGTTTA
1 AAAGTCCAACAACTCAATTACTAACTAAGATAAGTTTA
39344557 TTTAAATTAA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (40 bp):
AAAGTCCAACAACTCAATTACTAACTAAGATAAGTTTAAT
Found at i:39354424 original size:11 final size:11
Alignment explanation
Indices: 39354406--39354438 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
39354396 AAACTTCTAT
39354406 GAAGTTTCCTA
1 GAAGTTTCCTA
39354417 GCAA-TTTCCTA
1 G-AAGTTTCCTA
39354428 GAAGTTTCCTA
1 GAAGTTTCCTA
39354439 ACAAGCTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 2 0.10
11 16 0.80
12 2 0.10
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.36
Consensus pattern (11 bp):
GAAGTTTCCTA
Found at i:39355726 original size:20 final size:20
Alignment explanation
Indices: 39355701--39355739 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
39355691 TCCATGCGAT
*
39355701 TCAGCTCACTCGAGCTCAAG
1 TCAGCTCACACGAGCTCAAG
*
39355721 TCAGCTCGCACGAGCTCAA
1 TCAGCTCACACGAGCTCAA
39355740 TTTAGCTCAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.36, G:0.21, T:0.18
Consensus pattern (20 bp):
TCAGCTCACACGAGCTCAAG
Found at i:39357661 original size:15 final size:16
Alignment explanation
Indices: 39357638--39357667 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
39357628 TAGGTTCGTG
39357638 AATTGAAAAAAATTGA
1 AATTGAAAAAAATTGA
39357654 AATT-AAAAAAATTG
1 AATTGAAAAAAATTG
39357668 TATTTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.63, C:0.00, G:0.10, T:0.27
Consensus pattern (16 bp):
AATTGAAAAAAATTGA
Found at i:39360640 original size:16 final size:16
Alignment explanation
Indices: 39360616--39360646 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39360606 TAGGTTCGTG
*
39360616 AATTGAAAAAAATTGA
1 AATTAAAAAAAATTGA
39360632 AATTAAAAAAAATTG
1 AATTAAAAAAAATTG
39360647 TATTTATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.10, T:0.26
Consensus pattern (16 bp):
AATTAAAAAAAATTGA
Found at i:39379161 original size:40 final size:39
Alignment explanation
Indices: 39379109--39379238 Score: 145
Period size: 40 Copynumber: 3.3 Consensus size: 39
39379099 TAACTCATTC
*
39379109 AATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-TTTAAAACTCGCACA
*** *
39379149 AATGCCTTCGGGACTTAACCCGGAATTGGTATCTC-CACA
1 AATGCCTTCGGGACTTAACCCGG-ATTTAAAACTCGCACA
* * *
39379188 AAGGCCTTCGGGACTTAACCCAGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAA-AACTCGCACA
*
39379228 AATACCTTCGG
1 AATGCCTTCGG
39379239 ATCTTTAGTC
Statistics
Matches: 73, Mismatches: 14, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
38 2 0.03
39 28 0.38
40 42 0.58
41 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAAAACTCGCACA
Found at i:39382938 original size:39 final size:39
Alignment explanation
Indices: 39382893--39383022 Score: 156
Period size: 39 Copynumber: 3.3 Consensus size: 39
39382883 GCTCCTCGTT
* *
39382893 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATA-CCCGGATTTAGTAACTCGCA
**
39382933 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACAT-ACCCGGATTTAGTAACTCGCA
* * *
39382972 CGAATGCCTTCGGGACTTAACCGGATTTAGT-ACTCGCA
1 CAAATGCCTTCGGGACATACCCGGATTTAGTAACTCGCA
*
39383010 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
39383023 ACTTAATCGG
Statistics
Matches: 78, Mismatches: 10, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
38 18 0.23
39 43 0.55
40 17 0.22
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (39 bp):
CAAATGCCTTCGGGACATACCCGGATTTAGTAACTCGCA
Found at i:39390781 original size:39 final size:40
Alignment explanation
Indices: 39390736--39390920 Score: 169
Period size: 40 Copynumber: 4.7 Consensus size: 40
39390726 GCTCCTCGTT
* * *
39390736 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
39390776 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
39390815 CGACTGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
39390855 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
39390896 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
39390921 CAGCATTCAA
Statistics
Matches: 120, Mismatches: 21, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 37 0.31
40 72 0.60
41 11 0.09
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:39390836 original size:40 final size:39
Alignment explanation
Indices: 39390738--39390844 Score: 142
Period size: 39 Copynumber: 2.7 Consensus size: 39
39390728 TCCTCGTTCA
* * **
39390738 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACAC
*
39390777 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCACAC
* *
39390816 GACTGCCTTCGGGACTTAACCCGGATTTA
1 -AATGCCTTCGGGACATAACCCGGATTTA
39390845 GTATCTCGCA
Statistics
Matches: 60, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
39 34 0.57
40 26 0.43
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCACAC
Found at i:39392474 original size:40 final size:40
Alignment explanation
Indices: 39392419--39392547 Score: 170
Period size: 40 Copynumber: 3.2 Consensus size: 40
39392409 GGCTGTCACA
*
39392419 GAAGGTATTTGTGCGAGTTATTAATTCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCCC
* * **
39392459 GAAGGCCTTTGTGCGAGATACCAATTCCGGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCCC
* * *
39392499 GAAGGCATTCGTGCGAGTT-TTAAAATCCAGGTTAAGTCCC
1 GAAGGCATTTGTGCGAGTTATT-AATTCCGGGTTAAGTCCC
39392539 GAAGGCATT
1 GAAGGCATT
39392548 GAATGAGTTA
Statistics
Matches: 76, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (40 bp):
GAAGGCATTTGTGCGAGTTATTAATTCCGGGTTAAGTCCC
Found at i:39402775 original size:20 final size:20
Alignment explanation
Indices: 39402750--39402796 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
39402740 AAGCTGACTT
*
39402750 TAGCTCAATTTCAACTCCCA
1 TAGCTCAATTTCAACTCCAA
*
39402770 TAGCTC-ATTTCAGCTCCAA
1 TAGCTCAATTTCAACTCCAA
39402789 TCAGCTCA
1 T-AGCTCA
39402797 CTTGAGCACA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.28, C:0.34, G:0.09, T:0.30
Consensus pattern (20 bp):
TAGCTCAATTTCAACTCCAA
Found at i:39417663 original size:84 final size:84
Alignment explanation
Indices: 39417522--39417693 Score: 335
Period size: 84 Copynumber: 2.0 Consensus size: 84
39417512 AAGATACGAC
39417522 ACTTAGTTGAAAATCAGGCCAAATTGTCAAAGTGGCCCAATTTGTAAAATTTTAATTCTTTAAAT
1 ACTTAGTTGAAAATCAGGCCAAATTGTCAAAGTGGCCCAATTTGTAAAATTTTAATTCTTTAAAT
39417587 ACTTAGTTTTAATTTTTAG
66 ACTTAGTTTTAATTTTTAG
*
39417606 ACTTAGTTGAAAATCAGGCCAAATTGTCAAAGTGGTCCAATTTGTAAAATTTTAATTCTTTAAAT
1 ACTTAGTTGAAAATCAGGCCAAATTGTCAAAGTGGCCCAATTTGTAAAATTTTAATTCTTTAAAT
39417671 ACTTAGTTTTAATTTTTAG
66 ACTTAGTTTTAATTTTTAG
39417690 ACTT
1 ACTT
39417694 TATGATTAAA
Statistics
Matches: 87, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 87 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.41
Consensus pattern (84 bp):
ACTTAGTTGAAAATCAGGCCAAATTGTCAAAGTGGCCCAATTTGTAAAATTTTAATTCTTTAAAT
ACTTAGTTTTAATTTTTAG
Found at i:39437638 original size:12 final size:11
Alignment explanation
Indices: 39437617--39437663 Score: 67
Period size: 11 Copynumber: 4.0 Consensus size: 11
39437607 TAGTAGTTTC
39437617 TTCAAAAAAAA
1 TTCAAAAAAAA
39437628 TTCAGAAAAAAAA
1 TTC--AAAAAAAA
39437641 TTCAAAAAAAAA
1 TTC-AAAAAAAA
39437653 TTCAAAAAAAA
1 TTCAAAAAAAA
39437664 AATGGTTTCC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
11 11 0.33
12 11 0.33
13 11 0.33
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.17
Consensus pattern (11 bp):
TTCAAAAAAAA
Found at i:39437664 original size:12 final size:12
Alignment explanation
Indices: 39437620--39437664 Score: 81
Period size: 12 Copynumber: 3.7 Consensus size: 12
39437610 TAGTTTCTTC
39437620 AAAAAAAATTCA
1 AAAAAAAATTCA
39437632 GAAAAAAAATTCA
1 -AAAAAAAATTCA
39437645 AAAAAAAATTCA
1 AAAAAAAATTCA
39437657 AAAAAAAA
1 AAAAAAAA
39437665 ATGGTTTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 20 0.62
13 12 0.38
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.13
Consensus pattern (12 bp):
AAAAAAAATTCA
Found at i:39437665 original size:13 final size:13
Alignment explanation
Indices: 39437620--39437666 Score: 78
Period size: 13 Copynumber: 3.7 Consensus size: 13
39437610 TAGTTTCTTC
*
39437620 AAAAAAAATTCAG
1 AAAAAAAATTCAA
39437633 AAAAAAAATTC-A
1 AAAAAAAATTCAA
39437645 AAAAAAAATTCAA
1 AAAAAAAATTCAA
39437658 AAAAAAAAT
1 AAAAAAAAT
39437667 GGTTTCCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
12 11 0.34
13 21 0.66
ACGTcount: A:0.77, C:0.06, G:0.02, T:0.15
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:39437725 original size:14 final size:14
Alignment explanation
Indices: 39437706--39437758 Score: 70
Period size: 14 Copynumber: 3.6 Consensus size: 14
39437696 ATCAAGTTGA
*
39437706 AAAAAAAATTCTTG
1 AAAAAAAATTCGTG
39437720 AAAAAAAATTCGTG
1 AAAAAAAATTCGTG
39437734 AAAAAAAAAATTTCGTG
1 --AAAAAAAA-TTCGTG
39437751 AAAAAAAA
1 AAAAAAAA
39437759 GAAGAAGCTA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
14 13 0.37
15 8 0.23
16 8 0.23
17 6 0.17
ACGTcount: A:0.64, C:0.06, G:0.09, T:0.21
Consensus pattern (14 bp):
AAAAAAAATTCGTG
Found at i:39437727 original size:17 final size:17
Alignment explanation
Indices: 39437720--39437758 Score: 69
Period size: 17 Copynumber: 2.3 Consensus size: 17
39437710 AAAATTCTTG
39437720 AAAAAAAATTCGTGAAA
1 AAAAAAAATTCGTGAAA
*
39437737 AAAAAAATTTCGTGAAA
1 AAAAAAAATTCGTGAAA
39437754 AAAAA
1 AAAAA
39437759 GAAGAAGCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.67, C:0.05, G:0.10, T:0.18
Consensus pattern (17 bp):
AAAAAAAATTCGTGAAA
Found at i:39477431 original size:56 final size:56
Alignment explanation
Indices: 39477345--39477520 Score: 343
Period size: 56 Copynumber: 3.1 Consensus size: 56
39477335 ACAAGGGATG
*
39477345 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
39477401 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
39477457 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
39477513 ATGGGCAA
1 ATGGGCAA
39477521 TAAACTAATA
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
56 119 1.00
ACGTcount: A:0.45, C:0.09, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:39478847 original size:40 final size:39
Alignment explanation
Indices: 39478657--39478840 Score: 203
Period size: 40 Copynumber: 4.6 Consensus size: 39
39478647 CGAATGATGT
* * * *
39478657 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* *
39478697 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
39478737 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
39478775 TCCAGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
39478816 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
39478841 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.27
40 80 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:39478862 original size:79 final size:79
Alignment explanation
Indices: 39478709--39478873 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
39478699 GGACTAAGAT
* **
39478709 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
39478774 ATCCAGGTTAAGTC
66 ATCCAGGTTAAATC
* *
39478788 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
39478851 TATATCC-GGTTAAATT
63 TAAATCCAGGTTAAATC
39478867 CCGAAGG
1 CCGAAGG
39478874 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCAGGTTAAATC
Found at i:39490611 original size:25 final size:25
Alignment explanation
Indices: 39490582--39490648 Score: 116
Period size: 25 Copynumber: 2.6 Consensus size: 25
39490572 CTACTTCAAA
39490582 AGAAAACTCAAGAGAAAATTCTCGG
1 AGAAAACTCAAGAGAAAATTCTCGG
*
39490607 AGAAAACTCAAGAGAAAATTCTTGG
1 AGAAAACTCAAGAGAAAATTCTCGG
39490632 AGAAAACTCAAAGAGAA
1 AGAAAACTC-AAGAGAA
39490649 TTTTCACTCA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
25 33 0.82
26 7 0.17
ACGTcount: A:0.52, C:0.13, G:0.19, T:0.15
Consensus pattern (25 bp):
AGAAAACTCAAGAGAAAATTCTCGG
Found at i:39490647 original size:13 final size:12
Alignment explanation
Indices: 39490577--39490648 Score: 56
Period size: 13 Copynumber: 5.8 Consensus size: 12
39490567 GAAAACTACT
*
39490577 TCAAAAGAAAAC
1 TCAAGAGAAAAC
39490589 TCAAGAGAAAATTC
1 TCAAGAGAAAA--C
*
39490603 TC-GGAGAAAAC
1 TCAAGAGAAAAC
*
39490614 TCAAGAGAAAAT
1 TCAAGAGAAAAC
**
39490626 TCTTGGAGAAAAC
1 TC-AAGAGAAAAC
39490639 TCAAAGAGAA
1 TC-AAGAGAA
39490649 TTTTCACTCA
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
11 3 0.07
12 19 0.41
13 21 0.46
14 3 0.07
ACGTcount: A:0.53, C:0.14, G:0.18, T:0.15
Consensus pattern (12 bp):
TCAAGAGAAAAC
Found at i:39492832 original size:21 final size:23
Alignment explanation
Indices: 39492787--39492833 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
39492777 TCACCTGCAA
* *
39492787 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
39492810 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
39492831 TAA
1 TAA
39492834 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:39496854 original size:12 final size:13
Alignment explanation
Indices: 39496836--39496870 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
39496826 ACTAGCTCTC
*
39496836 TTTTTTTTCACAAT
1 TTTTTTTTCA-AAA
39496850 TTTTTTTTCAAAA
1 TTTTTTTTCAAAA
39496863 TTTTTTTT
1 TTTTTTTT
39496871 TCACAACTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTTTTTCAAAA
Found at i:39496855 original size:14 final size:14
Alignment explanation
Indices: 39496836--39496876 Score: 73
Period size: 14 Copynumber: 2.9 Consensus size: 14
39496826 ACTAGCTCTC
39496836 TTTTTTTTCACAAT
1 TTTTTTTTCACAAT
*
39496850 TTTTTTTTCAAAAT
1 TTTTTTTTCACAAT
39496864 TTTTTTTTCACAA
1 TTTTTTTTCACAA
39496877 CTTGATATCC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.63
Consensus pattern (14 bp):
TTTTTTTTCACAAT
Found at i:39496932 original size:11 final size:11
Alignment explanation
Indices: 39496916--39496956 Score: 73
Period size: 11 Copynumber: 3.7 Consensus size: 11
39496906 GAAACCAAAT
39496916 TTTTTTTTGAA
1 TTTTTTTTGAA
39496927 TTTTTTTTGAA
1 TTTTTTTTGAA
*
39496938 TTTTTTTTGAG
1 TTTTTTTTGAA
39496949 TTTTTTTT
1 TTTTTTTT
39496957 CGAGAAACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.12, C:0.00, G:0.10, T:0.78
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:39497991 original size:21 final size:23
Alignment explanation
Indices: 39497946--39497992 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
39497936 TCACCTGCAA
* *
39497946 TAAACACATTAAAATGAGTTTAT
1 TAAACACATTAAAATCAGCTTAT
39497969 TAAACACATTAAAA-CA-CTTAT
1 TAAACACATTAAAATCAGCTTAT
39497990 TAA
1 TAA
39497993 TCATAACACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 7 0.32
22 1 0.05
23 14 0.64
ACGTcount: A:0.51, C:0.13, G:0.04, T:0.32
Consensus pattern (23 bp):
TAAACACATTAAAATCAGCTTAT
Found at i:39508985 original size:18 final size:19
Alignment explanation
Indices: 39508957--39508992 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
39508947 CGAATCTATC
39508957 AATTGAACACGAAACAGAA
1 AATTGAACACGAAACAGAA
*
39508976 AATT-AACACGCAACAGA
1 AATTGAACACGAAACAGA
39508993 TCACAACAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.56, C:0.19, G:0.14, T:0.11
Consensus pattern (19 bp):
AATTGAACACGAAACAGAA
Found at i:39523098 original size:11 final size:11
Alignment explanation
Indices: 39523082--39523111 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
39523072 TCTTTTTCAA
39523082 TTTTCTTTTCG
1 TTTTCTTTTCG
*
39523093 TTTTCTTTTTG
1 TTTTCTTTTCG
39523104 TTTTCTTT
1 TTTTCTTT
39523112 CAATTTCTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (11 bp):
TTTTCTTTTCG
Found at i:39534581 original size:52 final size:52
Alignment explanation
Indices: 39534498--39534598 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
39534488 TAAGGCAACG
* *
39534498 TAATGGACAGCAGCTTAAGATCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
39534550 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
39534599 TATGTGCATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (52 bp):
TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
Found at i:39540928 original size:52 final size:52
Alignment explanation
Indices: 39540845--39540945 Score: 184
Period size: 52 Copynumber: 1.9 Consensus size: 52
39540835 TAAGGCAACG
* *
39540845 TAATGGACAGCAGCTTAAGATCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
39540897 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
1 TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAA
39540946 TATGTGCATG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.33, C:0.22, G:0.19, T:0.27
Consensus pattern (52 bp):
TAATAGACAGCAGCTTAAGACCTCATTTCTAGCTCGGTTGAAGCTCAAACAA
Found at i:39543401 original size:13 final size:13
Alignment explanation
Indices: 39543383--39543411 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
39543373 GCTGTTTCGA
39543383 TTTCTTTATTTAT
1 TTTCTTTATTTAT
39543396 TTTCTTTATTTAT
1 TTTCTTTATTTAT
39543409 TTT
1 TTT
39543412 TGTGCCGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTCTTTATTTAT
Found at i:39546052 original size:20 final size:20
Alignment explanation
Indices: 39546004--39546054 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
39545994 TTCCATGCGG
*
39546004 TTCAGCTCACTCGAGCTCAA
1 TTCAGCTCATTCGAGCTCAA
*
39546024 GTCAGCTCATTCGAGCTCAA
1 TTCAGCTCATTCGAGCTCAA
*
39546044 TTCAACTCATT
1 TTCAGCTCATT
39546055 GTGCTCGTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.25, C:0.31, G:0.14, T:0.29
Consensus pattern (20 bp):
TTCAGCTCATTCGAGCTCAA
Found at i:39554040 original size:22 final size:22
Alignment explanation
Indices: 39554012--39554063 Score: 95
Period size: 22 Copynumber: 2.4 Consensus size: 22
39554002 TTGTTCTTCA
39554012 TTGGAGGGGAGATTAGAGCTGT
1 TTGGAGGGGAGATTAGAGCTGT
39554034 TTGGAGGGGAGATTAGAGCTGT
1 TTGGAGGGGAGATTAGAGCTGT
*
39554056 TTGAAGGG
1 TTGGAGGG
39554064 AGTTGTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.23, C:0.04, G:0.46, T:0.27
Consensus pattern (22 bp):
TTGGAGGGGAGATTAGAGCTGT
Done.