Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 187 of 425
Found at i:56715194 original size:11 final size:11
Alignment explanation
Indices: 56715158--56715212 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
56715148 TATGGTATGT
56715158 ATGATATGCAC
1 ATGATATGCAC
* *
56715169 ATGAAATG--T
1 ATGATATGCAC
56715178 ATGATATGCAC
1 ATGATATGCAC
*
56715189 ATGATATG--T
1 ATGATATGCAC
56715198 ATGATATGCAC
1 ATGATATGCAC
56715209 ATGA
1 ATGA
56715213 GGTAATCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:56715290 original size:24 final size:24
Alignment explanation
Indices: 56715263--56715452 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
56715253 GTGGAAGTGA
56715263 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
56715287 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
56715311 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
56715335 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
*
56715358 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
56715382 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
56715406 GAAAGGGCTTTTG-CCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
56715429 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
56715453 ATGATAAAGC
Statistics
Matches: 157, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
23 39 0.25
24 110 0.70
25 8 0.05
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:56715449 original size:95 final size:95
Alignment explanation
Indices: 56715263--56715453 Score: 278
Period size: 95 Copynumber: 2.0 Consensus size: 95
56715253 GTGGAAGTGA
56715263 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
*
56715328 AGTTATCAAAAGGGCTTATGCCCCAGTTAT
66 AGTTATCAAAAGGGCTTAGGCCCCAGTTAT
** * ** *
56715358 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTGAAAGGGCTTTTG-CCC
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
*
56715422 AGTTATTAAAAGAGGC-TAGGCCTCCAGTTAT
66 AGTTATCAAAAG-GGCTTAGGCC-CCAGTTAT
56715453 A
1 A
56715454 TGATAAAGCA
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
94 19 0.22
95 67 0.78
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (95 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCC
AGTTATCAAAAGGGCTTAGGCCCCAGTTAT
Found at i:56715679 original size:31 final size:31
Alignment explanation
Indices: 56715644--56715707 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
56715634 CGTTTACAGT
56715644 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
56715675 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
56715706 AA
1 AA
56715708 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:56723165 original size:40 final size:39
Alignment explanation
Indices: 56723100--56723303 Score: 230
Period size: 40 Copynumber: 5.1 Consensus size: 39
56723090 CGGAATACAA
* *
56723100 CCGGATATAACCAC-ACGCACGAATGCCCTCGGGTCTTAGC
1 CCGGATATAA-CACTA-GCACAAATGCCTTCGGGTCTTAGC
* *
56723140 CCGGATATAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* *
56723180 CCGGATATAACAACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
56723220 CCGGATATAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATA-ACACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
56723260 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAGC
56723300 CCGG
1 CCGG
56723304 GTATCATTCA
Statistics
Matches: 143, Mismatches: 17, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
CCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:56723458 original size:64 final size:64
Alignment explanation
Indices: 56723390--56723578 Score: 142
Period size: 64 Copynumber: 3.0 Consensus size: 64
56723380 GAACACAAAC
56723390 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
* * * * *** * *** * ** * *
56723454 ATATCAATA--ATCATTACACATCCATATTTCATTTTC-GTTA-C--T--AAGGCTCAAACACAA
1 ATATCACTAGCATAATTGC-CTTCGGGACTT-A-GCCCGGGTACCATTCAAATACTCATACACAC
*
56723511 AC
63 AT
56723513 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
1 ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
56723577 AT
1 AT
56723579 GTCAATAATC
Statistics
Matches: 80, Mismatches: 34, Indels: 22
0.59 0.25 0.16
Matches are distributed among these distances:
58 1 0.01
59 24 0.30
60 7 0.09
61 7 0.09
62 7 0.09
63 7 0.09
64 26 0.32
65 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.11, T:0.29
Consensus pattern (64 bp):
ATATCACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT
Found at i:56723491 original size:123 final size:123
Alignment explanation
Indices: 56723272--56723610 Score: 590
Period size: 123 Copynumber: 2.8 Consensus size: 123
56723262 GGATATAATT
* * * * * *
56723272 ACTAGCATAAATGTCTTCGGGACTTAGCCCGGGTATCATTCAATTGCTCATGCACACATGA-ATC
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACAT-ATATC
*
56723336 AATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCGAACACAAACATATC
65 AATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
56723395 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
56723460 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
66 ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
*
56723518 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATGTCA
1 ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
56723583 ATAATCATTACACATCCATATTTCATTT
66 ATAATCATTACACATCCATATTTCATTT
56723611 CACATAATTC
Statistics
Matches: 207, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
122 1 0.00
123 206 1.00
ACGTcount: A:0.33, C:0.25, G:0.11, T:0.30
Consensus pattern (123 bp):
ACTAGCATAATTGCCTTCGGGACTTAGCCCGGGTACCATTCAAATACTCATACACACATATATCA
ATAATCATTACACATCCATATTTCATTTTCGTTACTAAGGCTCAAACACAAACATATC
Found at i:56726570 original size:20 final size:20
Alignment explanation
Indices: 56726545--56726601 Score: 105
Period size: 20 Copynumber: 2.9 Consensus size: 20
56726535 TAAATATGGT
56726545 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
*
56726565 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAA
56726585 ATGTATGATATGCACAT
1 ATGTATGATATGCACAT
56726602 AGGTAATCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:56726585 original size:11 final size:11
Alignment explanation
Indices: 56726549--56726601 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
56726539 TATGGTATGT
56726549 ATGATATGCAC
1 ATGATATGCAC
* *
56726560 ATGAAATG--T
1 ATGATATGCAC
56726569 ATGATATGCAC
1 ATGATATGCAC
*
56726580 ATGATATG--T
1 ATGATATGCAC
56726589 ATGATATGCAC
1 ATGATATGCAC
56726600 AT
1 AT
56726602 AGGTAATCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
9 15 0.47
11 17 0.53
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:56726680 original size:24 final size:24
Alignment explanation
Indices: 56726653--56726794 Score: 191
Period size: 24 Copynumber: 6.0 Consensus size: 24
56726643 GAGGAAGTGA
56726653 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
56726677 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
56726701 AAAAGGGCTTATGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
56726724 TAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
* * *
56726747 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
56726771 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
56726795 ATGATAAAGC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
22 12 0.11
23 18 0.17
24 68 0.62
25 11 0.10
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:56726755 original size:46 final size:47
Alignment explanation
Indices: 56726653--56726773 Score: 190
Period size: 46 Copynumber: 2.6 Consensus size: 47
56726643 GAGGAAGTGA
*
56726653 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTATC
*
56726701 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
* *
56726747 GAAAGGGCTTTTGCCCCAGTTATTAAA
1 AAAAGGGCTTATGCCCCAGTTATTAAA
56726774 AGAGGCTAGG
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
46 37 0.54
47 9 0.13
48 23 0.33
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.28
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATC
Found at i:56726768 original size:70 final size:72
Alignment explanation
Indices: 56726654--56726794 Score: 207
Period size: 70 Copynumber: 2.0 Consensus size: 72
56726644 AGGAAGTGAA
*
56726654 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAG-GGCTTATGCC-C
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGC-TAGGCCTC
56726717 CAGTTATT
65 CAGTTATT
** * *
56726725 AAAGGGCTT-TGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATTAAAAGAGGCTAGGCCTCC
1 AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTCC
56726789 AGTTAT
66 AGTTAT
56726795 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
70 43 0.68
71 20 0.32
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (72 bp):
AAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATCAAAAGAGGCTAGGCCTCC
AGTTATT
Found at i:56727021 original size:31 final size:31
Alignment explanation
Indices: 56726986--56727049 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
56726976 CGTTTACAGT
56726986 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
56727017 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
56727048 AA
1 AA
56727050 TATGAAAAGG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:56735831 original size:25 final size:25
Alignment explanation
Indices: 56735791--56735853 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 25
56735781 GCTCTTATAG
* * *
56735791 GCTTACCGATACTCAACTC-GTATGA
1 GCTTACCGTTATTCAACTCAG-AGGA
*
56735816 GCTTACTGTTATTCAACTCAGAGGA
1 GCTTACCGTTATTCAACTCAGAGGA
56735841 GCTTACCGTTATT
1 GCTTACCGTTATT
56735854 TAGATTAGAG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (25 bp):
GCTTACCGTTATTCAACTCAGAGGA
Found at i:56738886 original size:626 final size:626
Alignment explanation
Indices: 56737695--56738948 Score: 2134
Period size: 626 Copynumber: 2.0 Consensus size: 626
56737685 TACTTACACA
*
56737695 AATCAAAACAATTTATTTAACTATTCATAATAAAACTATCCATCTGCATAACAGTCACTAAATTA
1 AATCAAAACAATTTATTTAACTATTCATAATAAAACTATCCATCTGCATAACAGTCACAAAATTA
* *
56737760 ATTATAACTCGACTTATAAAACTCAAAATTTAAATCCATAATTTTTCCTGAAACTAGACTCACAT
66 ATTATAACTCAACTTACAAAACTCAAAATTTAAATCCATAATTTTTCCTGAAACTAGACTCACAT
*
56737825 ATCTTCTTACCATAAATTTTCCAAAATTTTTGGTTTGGCCAATTAGTACAGTTTATTCGTTAAAT
131 ATCTTCTTACCATAAATTTTCCAAAATTTTTGGTTTGGCCAATTAGTACAGTTTATTCATTAAAT
* * *
56737890 GTTCCCCTTTTTTGCAATTTAGTGGACCTGATTTCTCTTCACTAAAAATTTATTATCTCATTATA
196 GTTCCCCTATTTTGCAATTTAGTGGACCTGATCTCTCTTCACTAAAAATTGATTATCTCATTATA
* * *
56737955 CAGAAATCGAATAATGTTTATGTTTTTTTCTAATGAAAATAGACTCGCCAAGGAATCTAGATATA
261 CAGAAATCGAATAATGTTTATGTTTATTTCTAATGAAAATAGACTCACCAAGGAATCTAGACATA
* ** *
56738020 TAAACTTTGACTTATAATTATTTTTTTTTAAATTTCTAGTGATTTTACAAAGTTGGAATAGGGGA
326 TAAACCTTGACTTATAATTATTTTTTTAAAAAGTTCTAGTGATTTTACAAAGTTGGAATAGGGGA
* * *
56738085 TCACGAAGTCACTCTAAATTAGTCTTACAGAAATTTAAATATGTCATAATATAGACTTTTTTTGC
391 TCACAAAGTCACTCTAAATTAGTCTTACAGAAATTTAAATATCTCATAATATAGACTTCTTTTGC
*
56738150 TTGCTCTGTTTCTTTTCTATAAAAATAGACTCAATAAGATTTAATTCTATATCTCATTAACCATT
456 TTGATCTGTTTCTTTTCTATAAAAATAGACTCAATAAGATTTAATTCTATATCTCATTAACCATT
*
56738215 TAATTCCATTTCTACAATTTTTAAAGATTTTTCAAAACCACGTCACTGCAGCTGTTTCCTAACTG
521 TAATTCCATTTCTAAAATTTTTAAAGATTTTTCAAAACCACGTCACTGCAGCTGTTTCCTAACTG
*
56738280 TTCCATGGCCAAATCTTACTCTTTCATAGTTTCTTTGCATC
586 TTCCATGGCCAAATCTTACCCTTTCATAGTTTCTTTGCATC
* *
56738321 AATCAAAACAATTTATTTAACTATTCATAATAAAACTGTCCATCTGCATAACATTCACAAAATTA
1 AATCAAAACAATTTATTTAACTATTCATAATAAAACTATCCATCTGCATAACAGTCACAAAATTA
* *
56738386 ATTATAACTCAACTTACAAAACTCAAAATTTAAATTCATAATTTTTTCCTGAAACTAGACTCATA
66 ATTATAACTCAACTTACAAAACTCAAAATTTAAATCCATAA-TTTTTCCTGAAACTAGACTCACA
*
56738451 TATCTTCTTACCATAAATTTTCCAGAATTTTTGGTTTGGCCAATTAGTACAGTTTATTCATTAAA
130 TATCTTCTTACCATAAATTTTCCAAAATTTTTGGTTTGGCCAATTAGTACAGTTTATTCATTAAA
* *
56738516 TGTTCCCCTATTTTGCAGTTTAGTGGACCTGATCTCTCTTTACTAAAAATTGATTATCTCATTAT
195 TGTTCCCCTATTTTGCAATTTAGTGGACCTGATCTCTCTTCACTAAAAATTGATTATCTCATTAT
* *
56738581 ACAGAAATCGAATAATGTTTCTGTTTATTTCTAATGAAAATAGACTCACCAAGGAATCTATACAT
260 ACAGAAATCGAATAATGTTTATGTTTATTTCTAATGAAAATAGACTCACCAAGGAATCTAGACAT
56738646 ATAAACCTTGACTTATAATTA-TTTTTTAAAAAGTTCTAGTGATTTTACAAAGTTGGAATAGGGG
325 ATAAACCTTGACTTATAATTATTTTTTTAAAAAGTTCTAGTGATTTTACAAAGTTGGAATAGGGG
56738710 ATCACAAAGTCACTCTAAATTAGTCTTACAGAAATTTAAATATCTCATAATATAGACTTCTTTTG
390 ATCACAAAGTCACTCTAAATTAGTCTTACAGAAATTTAAATATCTCATAATATAGACTTCTTTTG
* * *
56738775 CTTGATCTGTTTCTTTTTTATAAAAATAGACTCAATAATATTTAAGTT-TATATCTCATTAATCA
455 CTTGATCTGTTTCTTTTCTATAAAAATAGACTCAATAAGATTTAA-TTCTATATCTCATTAACCA
* ** * *
56738839 TTTAATTCCTTTTCTAAAATTTTTAGTGATTTTTCAAAACCACGTCACTGCTGTTGTTTCCTAAC
519 TTTAATTCCATTTCTAAAATTTTTAAAGATTTTTCAAAACCACGTCACTGCAGCTGTTTCCTAAC
*
56738904 TGTTCCATGGCCAACTCTTACCCTTTCATAGTTTCTTTGCATC
584 TGTTCCATGGCCAAATCTTACCCTTTCATAGTTTCTTTGCATC
56738947 AA
1 AA
56738949 ACCTAATTTA
Statistics
Matches: 588, Mismatches: 38, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
626 361 0.61
627 227 0.39
ACGTcount: A:0.34, C:0.17, G:0.09, T:0.40
Consensus pattern (626 bp):
AATCAAAACAATTTATTTAACTATTCATAATAAAACTATCCATCTGCATAACAGTCACAAAATTA
ATTATAACTCAACTTACAAAACTCAAAATTTAAATCCATAATTTTTCCTGAAACTAGACTCACAT
ATCTTCTTACCATAAATTTTCCAAAATTTTTGGTTTGGCCAATTAGTACAGTTTATTCATTAAAT
GTTCCCCTATTTTGCAATTTAGTGGACCTGATCTCTCTTCACTAAAAATTGATTATCTCATTATA
CAGAAATCGAATAATGTTTATGTTTATTTCTAATGAAAATAGACTCACCAAGGAATCTAGACATA
TAAACCTTGACTTATAATTATTTTTTTAAAAAGTTCTAGTGATTTTACAAAGTTGGAATAGGGGA
TCACAAAGTCACTCTAAATTAGTCTTACAGAAATTTAAATATCTCATAATATAGACTTCTTTTGC
TTGATCTGTTTCTTTTCTATAAAAATAGACTCAATAAGATTTAATTCTATATCTCATTAACCATT
TAATTCCATTTCTAAAATTTTTAAAGATTTTTCAAAACCACGTCACTGCAGCTGTTTCCTAACTG
TTCCATGGCCAAATCTTACCCTTTCATAGTTTCTTTGCATC
Found at i:56739533 original size:55 final size:54
Alignment explanation
Indices: 56739394--56739600 Score: 245
Period size: 53 Copynumber: 3.8 Consensus size: 54
56739384 TTTCCTTTTT
* * *
56739394 AACTTACCATTGCCATGTCTTGACATGGTCTTACGTGGTATCCTTGCCTTAT-G
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* * * * *
56739447 AACTCACCATTGCCATGCCTTGGCATGGTCTTACATGGGATCTTTGCCTTATAG
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
** * * * * *
56739501 TAGTTTATCAATGCCATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAG
1 -AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
* *
56739556 AACTTACCAATGCCATGCCTTGGCATGGTCTTACTTGGTATCCTT
1 AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTT
56739601 AAACCCTAAT
Statistics
Matches: 126, Mismatches: 26, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
53 46 0.37
54 38 0.30
55 42 0.33
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (54 bp):
AACTTACCAATGCCATGCCTTGACATGGTCTTACATGGTATCCTTGCCTTATAG
Found at i:56742097 original size:46 final size:45
Alignment explanation
Indices: 56742030--56742196 Score: 186
Period size: 46 Copynumber: 3.8 Consensus size: 45
56742020 TGTAACTCGC
* *
56742030 CCATAAATGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCG-AT
*
56742076 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GG-ATAC-AT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGAT
* * *
56742118 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCG-AT
* *
56742161 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
56742197 ATGCCCAAAT
Statistics
Matches: 103, Mismatches: 9, Indels: 18
0.79 0.07 0.14
Matches are distributed among these distances:
39 25 0.24
40 1 0.01
41 3 0.03
42 5 0.05
43 5 0.05
44 2 0.02
45 2 0.02
46 60 0.58
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGAT
Found at i:56742112 original size:20 final size:20
Alignment explanation
Indices: 56742087--56742152 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
56742077 CATAAGTGAA
56742087 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
* * *
56742107 CTCGGA-TACATCTC-TCGAA
1 CTCGGACT-CAACTCAACGAG
56742126 CTCGGACTCAACTCAACGAG
1 CTCGGACTCAACTCAACGAG
*
56742146 TTCGGAC
1 CTCGGAC
56742153 ATTCGCATCC
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
19 15 0.42
20 21 0.58
ACGTcount: A:0.27, C:0.33, G:0.20, T:0.20
Consensus pattern (20 bp):
CTCGGACTCAACTCAACGAG
Found at i:56742181 original size:85 final size:85
Alignment explanation
Indices: 56742038--56742198 Score: 268
Period size: 85 Copynumber: 1.9 Consensus size: 85
56742028 GCCCATAAAT
* * * *
56742038 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
56742103 CGAGCTCGGATACATCTCTC
66 CGAGCTCGGATACATCTCTC
*
56742123 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
*
56742188 CGAGTTCGGAT
66 CGAGCTCGGAT
56742199 GCCCAAATAT
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
85 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (85 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCAA
CGAGCTCGGATACATCTCTC
Found at i:56744585 original size:30 final size:30
Alignment explanation
Indices: 56744541--56744629 Score: 94
Period size: 30 Copynumber: 3.0 Consensus size: 30
56744531 CAAAGATAAC
56744541 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
56744570 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * *
56744600 AAGAGATCCA-AGATAAAGAAACCCAAGATA
1 AAGAAAACCAGA-ATAAAGAAATCCAAGATA
56744630 CGATACTATG
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 10 0.20
30 38 0.76
31 2 0.04
ACGTcount: A:0.58, C:0.16, G:0.16, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:56744589 original size:15 final size:15
Alignment explanation
Indices: 56744541--56744620 Score: 85
Period size: 15 Copynumber: 5.4 Consensus size: 15
56744531 CAAAGATAAC
*
56744541 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
56744555 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
56744570 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
56744585 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
*
56744600 AAGAGATCCA-AGATA
1 AAGAAATCCAGA-ATA
56744615 AAGAAA
1 AAGAAA
56744621 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
14 10 0.18
15 44 0.80
16 1 0.02
ACGTcount: A:0.60, C:0.14, G:0.16, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:56744625 original size:15 final size:15
Alignment explanation
Indices: 56744552--56744629 Score: 88
Period size: 15 Copynumber: 5.2 Consensus size: 15
56744542 AGAAAACCGA
56744552 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
56744567 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
56744581 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
*
56744596 AATAAAGAGATCCAAG
1 -ATAAAGAAATCCAAG
*
56744612 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
56744627 ATA
1 ATA
56744630 CGATACTATG
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
14 4 0.07
15 46 0.85
16 4 0.07
ACGTcount: A:0.58, C:0.15, G:0.15, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:56744823 original size:39 final size:36
Alignment explanation
Indices: 56744775--56744859 Score: 100
Period size: 35 Copynumber: 2.3 Consensus size: 36
56744765 TCTTCACATA
*
56744775 CATATATATCAGATGAAGCATCAAGTAAAAGAAACAGAAT
1 CATA-ATATCA-AT-AAG-ATCAAGTAAAAGAAACAAAAT
* *
56744815 CATAATATC-ATATGATCAAGTAGAAGAAACAAAAT
1 CATAATATCAATAAGATCAAGTAAAAGAAACAAAAT
56744850 CATAATATCA
1 CATAATATCA
56744860 TATGTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
35 28 0.68
36 2 0.05
37 2 0.05
39 5 0.12
40 4 0.10
ACGTcount: A:0.53, C:0.13, G:0.12, T:0.22
Consensus pattern (36 bp):
CATAATATCAATAAGATCAAGTAAAAGAAACAAAAT
Found at i:56744834 original size:35 final size:35
Alignment explanation
Indices: 56744794--56744863 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
56744784 CAGATGAAGC
*
56744794 ATCAAGTAAAAGAAACAGAATCATAATATCATATG
1 ATCAAGTAAAAGAAACAAAATCATAATATCATATG
*
56744829 ATCAAGTAGAAGAAACAAAATCATAATATCATATG
1 ATCAAGTAAAAGAAACAAAATCATAATATCATATG
56744864 TATTTTCTCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.54, C:0.11, G:0.11, T:0.23
Consensus pattern (35 bp):
ATCAAGTAAAAGAAACAAAATCATAATATCATATG
Found at i:56752269 original size:24 final size:23
Alignment explanation
Indices: 56752237--56752343 Score: 119
Period size: 24 Copynumber: 4.6 Consensus size: 23
56752227 ACCAAACGTT
* **
56752237 GCACACATAGTGCTTATTATGTTC
1 GCACACATAGTGCTTAGTA-AATC
*
56752261 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTG-CTTAGTAAATC
56752285 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCT-TAGTAAATC
*
56752309 GCACACATAGTGCCATAGTAAAT-
1 GCACACATAGTG-CTTAGTAAATC
56752332 -CACACATAGTGC
1 GCACACATAGTGC
56752344 ATTTGAGATT
Statistics
Matches: 74, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
21 1 0.01
22 11 0.15
23 1 0.01
24 55 0.74
25 6 0.08
ACGTcount: A:0.35, C:0.23, G:0.17, T:0.25
Consensus pattern (23 bp):
GCACACATAGTGCTTAGTAAATC
Found at i:56752311 original size:48 final size:47
Alignment explanation
Indices: 56752236--56752343 Score: 157
Period size: 48 Copynumber: 2.3 Consensus size: 47
56752226 AACCAAACGT
* **
56752236 TGCACACATAGTGCTTATTATGTTCGCACACATAGTGCCATAGTAAA
1 TGCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAA
56752283 TCGCACACATAGTGCTATAGTA-AATCGCACACATAGTGCCATAGTAAA
1 T-GCACACATAGTGCT-TAGTATAATCGCACACATAGTGCCATAGTAAA
56752331 T-CACACATAGTGC
1 TGCACACATAGTGC
56752344 ATTTGAGATT
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
46 12 0.21
47 1 0.02
48 39 0.70
49 4 0.07
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (47 bp):
TGCACACATAGTGCTTAGTATAATCGCACACATAGTGCCATAGTAAA
Found at i:56752338 original size:22 final size:23
Alignment explanation
Indices: 56752262--56752343 Score: 130
Period size: 24 Copynumber: 3.5 Consensus size: 23
56752252 ATTATGTTCG
56752262 CACACATAGTGCCATAGTAAATC
1 CACACATAGTGCCATAGTAAATC
*
56752285 GCACACATAGTGCTATAGTAAATC
1 -CACACATAGTGCCATAGTAAATC
56752309 GCACACATAGTGCCATAGTAAAT-
1 -CACACATAGTGCCATAGTAAATC
56752332 CACACATAGTGC
1 CACACATAGTGC
56752344 ATTTGAGATT
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
22 12 0.21
24 44 0.79
ACGTcount: A:0.38, C:0.24, G:0.16, T:0.22
Consensus pattern (23 bp):
CACACATAGTGCCATAGTAAATC
Found at i:56775524 original size:28 final size:28
Alignment explanation
Indices: 56775492--56775623 Score: 106
Period size: 28 Copynumber: 4.7 Consensus size: 28
56775482 TCTCAAAGTT
* *
56775492 TCGCACACTCAGTGCCTTCATGGATGTA
1 TCGCACACTAAGTGCCATCATGGATGTA
* *
56775520 TCGCACACTAAGTGCCATCCTGGATGTC
1 TCGCACACTAAGTGCCATCATGGATGTA
* * * * *
56775548 TTGCACACTAAGTTCCATCCTCGAT-AA
1 TCGCACACTAAGTGCCATCATGGATGTA
* * * *
56775575 TTCGCTCACTAAGAGCCATTTC-TGGATTTT
1 -TCGCACACTAAGTGCCA--TCATGGATGTA
56775605 TCGCACACTAAGTGCCATC
1 TCGCACACTAAGTGCCATC
56775624 CTAGTAACTC
Statistics
Matches: 82, Mismatches: 18, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
27 2 0.02
28 59 0.72
29 19 0.23
30 2 0.02
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (28 bp):
TCGCACACTAAGTGCCATCATGGATGTA
Found at i:56775593 original size:56 final size:56
Alignment explanation
Indices: 56775520--56775643 Score: 153
Period size: 56 Copynumber: 2.2 Consensus size: 56
56775510 CATGGATGTA
* * * *
56775520 TCGCACACTAAGTGCCA-TCCTGGATGTCTT-GCACACTAAGTTCCATCCTCGATAAT
1 TCGCACACTAAGAGCCATTCCTGGAT-TCTTCGCACACTAAGTGCCATCCTAG-TAAC
* * *
56775576 TCGCTCACTAAGAGCCATTTCTGGATTTTTCGCACACTAAGTGCCATCCTAGTAAC
1 TCGCACACTAAGAGCCATTCCTGGATTCTTCGCACACTAAGTGCCATCCTAGTAAC
56775632 TCGCACACTAAG
1 TCGCACACTAAG
56775644 TGCTATTTTT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
56 32 0.55
57 26 0.45
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (56 bp):
TCGCACACTAAGAGCCATTCCTGGATTCTTCGCACACTAAGTGCCATCCTAGTAAC
Found at i:56779110 original size:27 final size:27
Alignment explanation
Indices: 56779077--56779517 Score: 508
Period size: 27 Copynumber: 16.6 Consensus size: 27
56779067 AAAGTACTCC
*
56779077 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
56779104 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
56779131 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
***
56779158 C-AGTTTACAGAATTATTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
56779185 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
56779212 TGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
56779239 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
56779266 CGATTTACA-AATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
56779292 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
56779319 CGATTTATAGAATTACCATTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
56779345 CTAATTTACATAATTACCATTTTACCC-
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
56779372 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
56779399 CGATTTACAGAATTA---TTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
56779423 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
56779450 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
56779477 TGA-TT-CAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
56779502 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
56779518 TAAAATACCC
Statistics
Matches: 366, Mismatches: 34, Indels: 28
0.86 0.08 0.07
Matches are distributed among these distances:
24 24 0.07
25 22 0.06
26 53 0.14
27 264 0.72
28 3 0.01
ACGTcount: A:0.29, C:0.22, G:0.08, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:56779544 original size:79 final size:78
Alignment explanation
Indices: 56779125--56779528 Score: 293
Period size: 80 Copynumber: 5.1 Consensus size: 78
56779115 ATTACTATTT
* ** *
56779125 TACCCTCGATTTACAGAATTACCATTTTACCCTC-AGTTTACAGAATTATTATTTTACCCTTGAT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGA-TTTACAG-A--ATTATTTTACCCTCGAT
* *****
56779189 TTACAGAATTACTGTTT
62 TTACAAAATTACCAAAA
* * ** *
56779206 TACCCTTGATTTATAGAATTACCGTTTTACCCTCGATTTGTAAAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTA---TTTTACCCTCGATT
****
56779271 TAC-AAATTACCGTTT
63 TACAAAATTACCAAAA
* * * *
56779286 TACCCTC-AGTTTACAGAATTACTATTTTACCCTCGATTTATAGAATTACCATTTTACCC-CTAA
1 TACCCTCGA-TTTATAGAATTACTGTTTTACCCTCGATTTACAGAATT---ATTTTACCCTC-GA
* ***
56779349 TTTACATAATTACCATTT
61 TTTACAAAATTACCAAAA
* *
56779367 TACCC-CGATTTACATAATTA-TCGTTTTACCCTCGATTTACAGAATTATTTTACCCTCGATTTA
1 TACCCTCGATTTATAGAATTACT-GTTTTACCCTCGATTTACAGAATTATTTTACCCTCGATTTA
* ***
56779430 CAGAATTACCATTT
65 CAAAATTACCAAAA
*
56779444 TACCCTCGATTTATAGAATTACTGTTTTACCCTTGA-TT-CAGAATTACTGTTTTACCCTCGATT
1 TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTA---TTTTACCCTCGATT
*
56779507 TACAAAATTACTAAAA
63 TACAAAATTACCAAAA
56779523 TACCCT
1 TACCCT
56779529 TGGTTTGTGA
Statistics
Matches: 274, Mismatches: 31, Indels: 38
0.80 0.09 0.11
Matches are distributed among these distances:
76 8 0.03
77 34 0.12
78 30 0.11
79 35 0.13
80 98 0.36
81 67 0.24
82 1 0.00
83 1 0.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.41
Consensus pattern (78 bp):
TACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTATTTTACCCTCGATTTAC
AAAATTACCAAAA
Found at i:56780863 original size:20 final size:20
Alignment explanation
Indices: 56780838--56780880 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
56780828 ATTTTGATAA
56780838 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
56780858 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
56780878 ACA
1 ACA
56780881 CGAGATGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:56780888 original size:20 final size:20
Alignment explanation
Indices: 56780845--56780888 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
56780835 TAAACATGAT
* *
56780845 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACACGAG
56780865 ATGTATGATATGCACACGAG
1 ATGTATGATATGCACACGAG
56780885 ATGT
1 ATGT
56780889 TCATAAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACACGAG
Found at i:56780963 original size:24 final size:24
Alignment explanation
Indices: 56780936--56781126 Score: 287
Period size: 24 Copynumber: 8.0 Consensus size: 24
56780926 GGAGGAAGTG
*
56780936 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
56780960 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
56780984 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
56781008 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
56781032 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
56781055 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
56781079 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
56781103 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
56781127 ATGATAAAGC
Statistics
Matches: 155, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
23 21 0.14
24 123 0.79
25 11 0.07
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:56781353 original size:30 final size:31
Alignment explanation
Indices: 56781319--56781381 Score: 101
Period size: 30 Copynumber: 2.1 Consensus size: 31
56781309 CGTTTACAGT
56781319 AAAGGCTTCGGCCCAGTAATATGAAAT-TGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
**
56781349 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
56781380 AA
1 AA
56781382 TATGAAAAGG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 25 0.83
31 5 0.17
ACGTcount: A:0.37, C:0.16, G:0.24, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:56784232 original size:27 final size:27
Alignment explanation
Indices: 56784199--56784642 Score: 562
Period size: 27 Copynumber: 16.6 Consensus size: 27
56784189 AAAGTACTCC
56784199 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
56784226 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
56784253 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
***
56784280 C-AGTTTACAGAATTATTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
56784307 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
56784334 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
56784361 CGATTTGTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
56784388 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
56784415 C-AGTTTACA-AATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
56784441 CGATTTATAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
56784467 CTAATTTACA-TATTACCATTTTACCC-
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
56784493 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
56784520 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
56784547 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
56784574 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
56784601 TGA-TTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
56784627 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
56784643 TAAAATACCC
Statistics
Matches: 363, Mismatches: 43, Indels: 22
0.85 0.10 0.05
Matches are distributed among these distances:
25 7 0.02
26 77 0.21
27 277 0.76
28 2 0.01
ACGTcount: A:0.28, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:56785976 original size:9 final size:9
Alignment explanation
Indices: 56785964--56786020 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
56785954 TTTGATAAAC
56785964 ATGATATGT
1 ATGATATGT
*
56785973 ATGATATGCAC
1 ATGATATG--T
*
56785984 ATGACATGT
1 ATGATATGT
*
56785993 ATGATATGCAC
1 ATGATATG--T
56786004 ATGATATGT
1 ATGATATGT
56786013 ATGATATG
1 ATGATATG
56786021 CACACGAGAT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (9 bp):
ATGATATGT
Found at i:56785987 original size:20 final size:20
Alignment explanation
Indices: 56785962--56786024 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
56785952 ATTTTGATAA
56785962 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
56785982 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
56786002 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
56786022 ACA
1 ACA
56786025 CGAGATGTTC
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:56786108 original size:24 final size:24
Alignment explanation
Indices: 56786081--56786271 Score: 269
Period size: 24 Copynumber: 8.0 Consensus size: 24
56786071 GAGGAAGTGA
*
56786081 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
56786105 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
56786129 AAAAGGGCTTATGCCCCAATTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
56786153 AAAAGGGCTTATGCCCTAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATC
*
56786177 AAAAGGGCTTACGCCCCAGTTAT-
1 AAAAGGGCTTATGCCCCAGTTATC
* *
56786200 TAAAGGGCTTATGCCCCAGTTATA
1 AAAAGGGCTTATGCCCCAGTTATC
* *
56786224 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATC
*
56786248 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
56786272 ATGATAAAGC
Statistics
Matches: 151, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
23 21 0.14
24 119 0.79
25 11 0.07
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATC
Found at i:56793512 original size:40 final size:40
Alignment explanation
Indices: 56793464--56793649 Score: 209
Period size: 40 Copynumber: 4.7 Consensus size: 40
56793454 GCTACTCATT
*
56793464 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
** *
56793504 CAGTTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
56793544 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
56793584 CGAATGCCTTC-GGATCTTAGTCCGAATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
56793625 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56793650 CATCATTCGA
Statistics
Matches: 126, Mismatches: 16, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
39 3 0.02
40 111 0.88
41 12 0.10
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:56801262 original size:40 final size:39
Alignment explanation
Indices: 56801097--56801280 Score: 138
Period size: 40 Copynumber: 4.6 Consensus size: 39
56801087 AAATTGAATG
* * *
56801097 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
56801137 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
56801177 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
56801217 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
56801256 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
56801281 CTTGGTGCGG
Statistics
Matches: 113, Mismatches: 26, Indels: 10
0.76 0.17 0.07
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 3 0.03
40 104 0.92
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:56801305 original size:80 final size:81
Alignment explanation
Indices: 56801137--56801325 Score: 186
Period size: 80 Copynumber: 2.4 Consensus size: 81
56801127 GCTGGAAATT
* * * *
56801137 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCTACATCCGGGCTAAGACCCGAAGGCA
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
*
56801202 TTCGTGCGAGTCATTC
66 TTCGTGCGAGTCATCC
* * * * * *
56801218 -TATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-TGATATCCGGGTTAAGTCCCGTAGGC
1 ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCT-ACATCCGGGCTAAGACCCGAAGGC
* * * *
56801281 CTTGGTGCGGGTTA-CC
65 ATTCGTGCGAGTCATCC
* * *
56801297 ATAACCGGGCTATGTCCCGAAGGCGATTG
1 ATAACCGGGCTAAGACCCGAAGGCAATTG
56801326 ATCGAGTAGC
Statistics
Matches: 86, Mismatches: 20, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
79 2 0.02
80 84 0.98
ACGTcount: A:0.23, C:0.24, G:0.30, T:0.23
Consensus pattern (81 bp):
ATAACCGGGCTAAGACCCGAAGGCAATTGTGCAAATCGCTACATCCGGGCTAAGACCCGAAGGCA
TTCGTGCGAGTCATCC
Found at i:56809381 original size:40 final size:39
Alignment explanation
Indices: 56809217--56809399 Score: 129
Period size: 40 Copynumber: 4.6 Consensus size: 39
56809207 AAATTGAATG
* * *
56809217 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAAT--T
1 ATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATCGT
* * * * * *
56809257 ATAACCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG-T
* * * * *
56809297 ACATCCGGGCTAAGACCCGAA-GCATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATC-GT
*
56809336 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
* * *
56809375 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
56809400 CTTGGTGCGG
Statistics
Matches: 111, Mismatches: 26, Indels: 12
0.74 0.17 0.08
Matches are distributed among these distances:
37 4 0.04
38 2 0.02
39 34 0.31
40 71 0.64
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
Found at i:56810268 original size:40 final size:41
Alignment explanation
Indices: 56810211--56810378 Score: 177
Period size: 40 Copynumber: 4.2 Consensus size: 41
56810201 GGTTCGGGAC
*
56810211 AGCCCGGTTATAGTAACTCGCACAGATGCCTTCGGGA-CTT
1 AGCCCGGATATAGTAACTCGCACAGATGCCTTCGGGATCTT
* * *
56810251 AACCCGGATATAATAACTCGCACAAATGCCTTC-GGATCTT
1 AGCCCGGATATAGTAACTCGCACAGATGCCTTCGGGATCTT
* * *
56810291 AGTCCGGATTTAGTAACTCGCAC-GAATGCCTT-TGGATCTT
1 AGCCCGGATATAGTAACTCGCACAG-ATGCCTTCGGGATCTT
* * * *
56810331 AGTCCGGATATAGTCACTTAGCACA-AAGCCTTCGGGA-CTT
1 AGCCCGGATATAGTAAC-TCGCACAGATGCCTTCGGGATCTT
56810371 AGCCCGGA
1 AGCCCGGA
56810379 CATCATTCGA
Statistics
Matches: 107, Mismatches: 15, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
39 3 0.03
40 96 0.90
41 8 0.07
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (41 bp):
AGCCCGGATATAGTAACTCGCACAGATGCCTTCGGGATCTT
Found at i:56810362 original size:80 final size:80
Alignment explanation
Indices: 56810203--56810378 Score: 195
Period size: 80 Copynumber: 2.2 Consensus size: 80
56810193 GACTAGTTGG
56810203 TTCGGGAC--AGCCCGG-TTATAGTAACTCGCACAGATGCCTTCGGGACTTAACCCGGATATAAT
1 TTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAGATGCCTTCGGGACTTAACCCGGATATAAT
*
56810265 AACTCGCACAAATGCC
65 AACTAGCACAAATGCC
* * **
56810281 TTC-GGATCTTAGTCCGGATTTAGTAACTCGCAC-GAATGCCTT-TGGATCTTAGTCCGGATATA
1 TTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACAG-ATGCCTTCGGGA-CTTAACCCGGATATA
* *
56810343 GTCACTTAGCACAAA-GCC
63 ATAAC-TAGCACAAATGCC
56810361 TTCGGGACTTAGCCCGGA
1 TTCGGGACTTAGCCCGGA
56810379 CATCATTCGA
Statistics
Matches: 82, Mismatches: 8, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
77 3 0.04
78 4 0.05
79 4 0.05
80 58 0.71
81 13 0.16
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.26
Consensus pattern (80 bp):
TTCGGGACTTAGCCCGGATTTAGTAACTCGCACAGATGCCTTCGGGACTTAACCCGGATATAATA
ACTAGCACAAATGCC
Found at i:56818655 original size:17 final size:19
Alignment explanation
Indices: 56818628--56818663 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
56818618 ATTCTCCCTC
56818628 TTCTATTTTGG-GTTTTTG
1 TTCTATTTTGGTGTTTTTG
56818646 TTCT-TTTTGGTGTTTTTG
1 TTCTATTTTGGTGTTTTTG
56818664 GTATCTTTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.03, C:0.06, G:0.22, T:0.69
Consensus pattern (19 bp):
TTCTATTTTGGTGTTTTTG
Found at i:56820449 original size:58 final size:57
Alignment explanation
Indices: 56820333--56820462 Score: 224
Period size: 58 Copynumber: 2.3 Consensus size: 57
56820323 ACTGTGATAT
* *
56820333 TGGTTTGTTGGTTGGGTGGGTCGATTTAATCCCACATGGTGTGTTGGTTGGTATGGG
1 TGGTGTGTTGGTTGGGTGGGTCGATTTAATCCCACATGGTGTGTTGGTTGGTACGGG
56820390 TGGTGTGTTGGTTGGGTGGGTCGATTTAATCCCCACATGGTGTGTTGGTTGGTACGGG
1 TGGTGTGTTGGTTGGGTGGGTCGATTTAAT-CCCACATGGTGTGTTGGTTGGTACGGG
*
56820448 TGGTGTGCTGGTTGG
1 TGGTGTGTTGGTTGG
56820463 ATTGGGTTGG
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
57 29 0.42
58 40 0.58
ACGTcount: A:0.09, C:0.10, G:0.42, T:0.38
Consensus pattern (57 bp):
TGGTGTGTTGGTTGGGTGGGTCGATTTAATCCCACATGGTGTGTTGGTTGGTACGGG
Found at i:56830383 original size:39 final size:39
Alignment explanation
Indices: 56830300--56830472 Score: 265
Period size: 39 Copynumber: 4.4 Consensus size: 39
56830290 TATGGTAACC
* * *
56830300 CGCACAAATGCCTTCGGGACTTAACCCGAATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* * *
56830340 CGCACAATTGCCTTCGGCCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
56830379 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
56830418 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
56830457 CGCACAATTGCCTTCG
1 CGCACAATTGCCTTCG
56830473 CATCTTTGTT
Statistics
Matches: 123, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 107 0.87
40 16 0.13
ACGTcount: A:0.24, C:0.32, G:0.19, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:56834205 original size:28 final size:28
Alignment explanation
Indices: 56834136--56834236 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56834126 GACAAGATTG
* * * *
56834136 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
56834166 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
56834194 GCACTAAGTGTGCGAG-TTGAGTACATATA
1 GCACTAAGTGTGCGAGTTTGA-T-TATATA
56834223 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56834237 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 19 0.30
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:56834231 original size:29 final size:28
Alignment explanation
Indices: 56834165--56834236 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
56834155 AAAATTGTAC
*
56834165 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
56834193 AGCACTAAGTGTGCGAG-TTGAGTACATAT
1 AGCACTAAGTGTGCGAGTTTGA-T-CATAT
56834222 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56834237 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 4 0.10
28 18 0.44
29 19 0.46
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:56838808 original size:20 final size:20
Alignment explanation
Indices: 56838767--56838808 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
56838757 ACCTTTTACA
*
56838767 AGCTCATTTAGCTCGTTCCT
1 AGCTCATTTAGCTCATTCCT
*
56838787 AGCTC-TTTGAGCTCATTTCT
1 AGCTCATTT-AGCTCATTCCT
56838807 AG
1 AG
56838809 TCGTTTAACT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.16
20 16 0.84
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (20 bp):
AGCTCATTTAGCTCATTCCT
Found at i:56841055 original size:12 final size:12
Alignment explanation
Indices: 56841038--56841070 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
56841028 CTGAGACAAA
56841038 TGCCCGTGTCTT
1 TGCCCGTGTCTT
56841050 TGCCCGTGTCTT
1 TGCCCGTGTCTT
56841062 TGCCCGTGT
1 TGCCCGTGT
56841071 GCTTGATACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.00, C:0.33, G:0.27, T:0.39
Consensus pattern (12 bp):
TGCCCGTGTCTT
Found at i:56842142 original size:42 final size:41
Alignment explanation
Indices: 56842023--56842142 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 41
56842013 CCATACCAAT
* * * *
56842023 GCCATATCCTAGATATGGTCTTACATGGGATCTCATATTGAT
1 GCCATATCCCAGATATGGTCTTACA-CGAATCTCATATTGAC
* *** *
56842065 GCCAATAGCCCCTCTATGGTCTTTCACGAAGTCTCATATTGAC
1 GCC-ATATCCCAGATATGGTCTTACACGAA-TCTCATATTGAC
56842108 GCCATATCCCAGATATGGTCTTACACGTAATCTCA
1 GCCATATCCCAGATATGGTCTTACACG-AATCTCA
56842143 AATAACACTA
Statistics
Matches: 61, Mismatches: 14, Indels: 6
0.75 0.17 0.07
Matches are distributed among these distances:
42 29 0.48
43 32 0.52
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (41 bp):
GCCATATCCCAGATATGGTCTTACACGAATCTCATATTGAC
Found at i:56843618 original size:23 final size:23
Alignment explanation
Indices: 56843592--56843663 Score: 69
Period size: 23 Copynumber: 3.1 Consensus size: 23
56843582 TCAAGCTTGC
56843592 TAAAGAGAAATGGATGCTTAACT
1 TAAAGAGAAATGGATGCTTAACT
* * *
56843615 TAAAGAGTTAGATGAAT--TTCAC-
1 TAAAGAG--AAATGGATGCTTAACT
56843637 TAAAGAGAAATGGATGCTTCAACT
1 TAAAGAGAAATGGATGCTT-AACT
56843661 TAA
1 TAA
56843664 TGAGTTAGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 11
0.69 0.11 0.20
Matches are distributed among these distances:
20 6 0.16
22 9 0.24
23 13 0.35
24 3 0.08
25 6 0.16
ACGTcount: A:0.43, C:0.10, G:0.19, T:0.28
Consensus pattern (23 bp):
TAAAGAGAAATGGATGCTTAACT
Found at i:56843641 original size:45 final size:46
Alignment explanation
Indices: 56843591--56843681 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
56843581 CTCAAGCTTG
56843591 CTAAAGAGAAATGGATGCTT-AACTTAAAGAGTTAGATGAATTTCA
1 CTAAAGAGAAATGGATGCTTCAACTTAAAGAGTTAGATGAATTTCA
*
56843636 CTAAAGAGAAATGGATGCTTCAACTTAATGAGTTAGATGAATTTCA
1 CTAAAGAGAAATGGATGCTTCAACTTAAAGAGTTAGATGAATTTCA
56843682 AACATTCGCA
Statistics
Matches: 44, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 20 0.45
46 24 0.55
ACGTcount: A:0.41, C:0.10, G:0.20, T:0.30
Consensus pattern (46 bp):
CTAAAGAGAAATGGATGCTTCAACTTAAAGAGTTAGATGAATTTCA
Found at i:56843657 original size:22 final size:22
Alignment explanation
Indices: 56843591--56843657 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
56843581 CTCAAGCTTG
*
56843591 CTAAAGAGAAATGGATGCTTAA
1 CTAAAGAGAAATGGATGCTTCA
* *
56843613 CTTAAAGAGTTAGATGAAT--TTCA
1 C-TAAAGAG--AAATGGATGCTTCA
56843636 CTAAAGAGAAATGGATGCTTCA
1 CTAAAGAGAAATGGATGCTTCA
56843658 ACTTAATGAG
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
20 6 0.17
22 12 0.34
23 11 0.31
25 6 0.17
ACGTcount: A:0.42, C:0.10, G:0.21, T:0.27
Consensus pattern (22 bp):
CTAAAGAGAAATGGATGCTTCA
Found at i:56843681 original size:24 final size:24
Alignment explanation
Indices: 56843611--56843682 Score: 71
Period size: 24 Copynumber: 3.1 Consensus size: 24
56843601 ATGGATGCTT
56843611 AACTTAAAGAGTTAGATGAATTTC
1 AACTTAAAGAGTTAGATGAATTTC
* *
56843635 -AC-TAAAGAG--AAATGGATGCTTC
1 AACTTAAAGAGTTAGATGAAT--TTC
*
56843657 AACTTAATGAGTTAGATGAATTTC
1 AACTTAAAGAGTTAGATGAATTTC
56843681 AA
1 AA
56843683 ACATTCGCAT
Statistics
Matches: 37, Mismatches: 5, Indels: 12
0.69 0.09 0.22
Matches are distributed among these distances:
20 6 0.16
22 10 0.27
23 4 0.11
24 11 0.30
26 6 0.16
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.31
Consensus pattern (24 bp):
AACTTAAAGAGTTAGATGAATTTC
Found at i:56844314 original size:28 final size:29
Alignment explanation
Indices: 56844268--56844324 Score: 80
Period size: 28 Copynumber: 2.0 Consensus size: 29
56844258 GAATTATTTG
* *
56844268 CAAAATTCAGTTATGTTTTTTTTAAATAT
1 CAAAATTCAGTTATCTTTTTTGTAAATAT
*
56844297 CAAAATT-AGTTGTCTTTTTTGTAAATAT
1 CAAAATTCAGTTATCTTTTTTGTAAATAT
56844325 TTTAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
28 18 0.72
29 7 0.28
ACGTcount: A:0.33, C:0.07, G:0.09, T:0.51
Consensus pattern (29 bp):
CAAAATTCAGTTATCTTTTTTGTAAATAT
Found at i:56844409 original size:22 final size:19
Alignment explanation
Indices: 56844384--56844425 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
56844374 TGATAATAAC
56844384 TAATATATAATTATATTTATTA
1 TAATATAT-ATTA-A-TTATTA
56844406 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
56844425 T
1 T
56844426 CAGGTTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.35
20 1 0.05
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:56844416 original size:16 final size:15
Alignment explanation
Indices: 56844384--56844422 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
56844374 TGATAATAAC
56844384 TAATATATAATTATAT
1 TAAT-TATAATTATAT
*
56844400 TTATTATAATATATAT
1 TAATTATAAT-TATAT
56844416 TAATTAT
1 TAATTAT
56844423 TATCAGGTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
TAATTATAATTATAT
Found at i:56847124 original size:40 final size:39
Alignment explanation
Indices: 56847079--56847286 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 39
56847069 CGGAATACAA
*
56847079 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56847119 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
56847159 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** *
56847199 CCGGATGTAGTCACTAGCAC-AATGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAAT-GCCTTCGGGTCTTAGC
** * * *
56847239 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
56847279 CCGGATAT
1 CCGGATAT
56847287 CATTCAGTTG
Statistics
Matches: 143, Mismatches: 22, Indels: 6
0.84 0.13 0.04
Matches are distributed among these distances:
39 4 0.03
40 136 0.95
41 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:56847219 original size:80 final size:81
Alignment explanation
Indices: 56847079--56847284 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 81
56847069 CGGAATACAA
* * *
56847079 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCAC-AAT
*
56847143 -GCCTTCGGGTATTAGC
65 GGCCTTCGGGTATTAAC
* *
56847159 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAT
*
56847222 GGCCTTCGGGTCTTAAC
65 GGCCTTCGGGTATTAAC
** * ** * *
56847239 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
56847285 ATCATTCAGT
Statistics
Matches: 108, Mismatches: 15, Indels: 6
0.84 0.12 0.05
Matches are distributed among these distances:
79 3 0.03
80 101 0.94
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.25
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAATG
GCCTTCGGGTATTAAC
Found at i:56849758 original size:40 final size:40
Alignment explanation
Indices: 56849703--56849910 Score: 258
Period size: 40 Copynumber: 5.2 Consensus size: 40
56849693 TGAATGATAC
* *
56849703 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
56849743 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
56849783 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
56849823 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * *
56849863 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
56849903 CC-GGCTAA
1 CCGGGCTAA
56849911 ATTCCAAAGA
Statistics
Matches: 146, Mismatches: 20, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 6 0.04
40 138 0.95
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:56860137 original size:30 final size:30
Alignment explanation
Indices: 56860103--56860163 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56860093 TCCTTAACTC
56860103 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
56860133 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
56860163 A
1 A
56860164 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:56865704 original size:28 final size:28
Alignment explanation
Indices: 56865635--56865735 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56865625 GACAAGATTG
* * * *
56865635 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
56865665 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
56865693 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
56865722 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56865736 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:56867321 original size:18 final size:19
Alignment explanation
Indices: 56867298--56867333 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56867288 AACTTGGCAC
*
56867298 CATAA-TCATTTAATTTAA
1 CATAATTCAATTAATTTAA
56867316 CATAATTCAATTAATTTA
1 CATAATTCAATTAATTTA
56867334 CTAAATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (19 bp):
CATAATTCAATTAATTTAA
Found at i:56872030 original size:29 final size:28
Alignment explanation
Indices: 56871978--56872092 Score: 140
Period size: 29 Copynumber: 4.0 Consensus size: 28
56871968 GTGAGCATGA
* *
56871978 ATATGAATGTGACTGGGCCTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
56872006 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
* *
56872035 ATATACAGGTGATTTGGGCCTAATGGGCC
1 ATATAAATGTGA-TTGGGCCTAATGGGCC
** * *
56872064 ATATGGATATGATTGGGCTTAATGGGCC
1 ATATAAATGTGATTGGGCCTAATGGGCC
56872092 A
1 A
56872093 GATACAGGTA
Statistics
Matches: 77, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
28 27 0.35
29 50 0.65
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.29
Consensus pattern (28 bp):
ATATAAATGTGATTGGGCCTAATGGGCC
Found at i:56878402 original size:46 final size:46
Alignment explanation
Indices: 56878315--56878404 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
56878305 ATTATAACCT
*
56878315 TAGTATCATAACTTGCACAATCATAACCTTACCAAATGATTCATTA
1 TAGTATCATAACTTGCACAATCATAACCTTACCAAAGGATTCATTA
* * *
56878361 TAGTATCATAACTTGTACAATCATAACCTTACCGAGGGATTCAT
1 TAGTATCATAACTTGCACAATCATAACCTTACCAAAGGATTCAT
56878405 CACATATCGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (46 bp):
TAGTATCATAACTTGCACAATCATAACCTTACCAAAGGATTCATTA
Found at i:56878677 original size:41 final size:42
Alignment explanation
Indices: 56878567--56878679 Score: 138
Period size: 41 Copynumber: 2.7 Consensus size: 42
56878557 TACTATACCA
* * *
56878567 ATGCCATATCCCAGGTATGGTCTTACATGGGATCCCATATCG
1 ATGCCATATCCCAGATATGGTCTTACACGAGATCCCATATCG
* * * *
56878609 ATGCCAGTAGCCTAGCTATGGTCTTACACGAG-TCTCATATCG
1 ATGCCA-TATCCCAGATATGGTCTTACACGAGATCCCATATCG
*
56878651 ATGTCATATCCCAGATATGGTCTTACACG
1 ATGCCATATCCCAGATATGGTCTTACACG
56878680 TAATCTCAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
41 20 0.33
42 20 0.33
43 20 0.33
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (42 bp):
ATGCCATATCCCAGATATGGTCTTACACGAGATCCCATATCG
Found at i:56878687 original size:42 final size:41
Alignment explanation
Indices: 56878567--56878687 Score: 134
Period size: 42 Copynumber: 2.9 Consensus size: 41
56878557 TACTATACCA
* * * *
56878567 ATGCCATATCCCAGGTATGGTCTTACATGGGATCCCATATCG
1 ATGCCATATCCCAGATATGGTCTTACA-CGAATCTCATATCG
* * * *
56878609 ATGCCAGTAGCCTAGCTATGGTCTTACACGAGTCTCATATCG
1 ATGCCA-TATCCCAGATATGGTCTTACACGAATCTCATATCG
*
56878651 ATGTCATATCCCAGATATGGTCTTACACGTAATCTCA
1 ATGCCATATCCCAGATATGGTCTTACACG-AATCTCA
56878688 AATAACCCTA
Statistics
Matches: 65, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
41 20 0.31
42 27 0.42
43 18 0.28
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.30
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGGTCTTACACGAATCTCATATCG
Found at i:56881623 original size:77 final size:77
Alignment explanation
Indices: 56881498--56881645 Score: 242
Period size: 77 Copynumber: 1.9 Consensus size: 77
56881488 ACTAGAAGCC
* * * *
56881498 CCCACAGTTTTTCTATATGATTATGGCCTTAATCTTATGTGCGGTATATATAGGGCATTGTTTGC
1 CCCAAAGTTTTTCCATATGATTATGGACTTAATCTTATGTGCGGTATATATAGGGCATTGCTTGC
*
56881563 GGGTATGAAGTT
66 AGGTATGAAGTT
*
56881575 CCCAAAGTTTTTCCATATGATTATGGACTTAATCTTATGTGTGGTATATATAGGGCATTGCTTGC
1 CCCAAAGTTTTTCCATATGATTATGGACTTAATCTTATGTGCGGTATATATAGGGCATTGCTTGC
56881640 AGGTAT
66 AGGTAT
56881646 CCAAAAAGCT
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
77 65 1.00
ACGTcount: A:0.24, C:0.14, G:0.22, T:0.40
Consensus pattern (77 bp):
CCCAAAGTTTTTCCATATGATTATGGACTTAATCTTATGTGCGGTATATATAGGGCATTGCTTGC
AGGTATGAAGTT
Found at i:56882005 original size:23 final size:22
Alignment explanation
Indices: 56881960--56882008 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
56881950 CCCTAAACTT
* * *
56881960 TAACCTTAAAAAATCATAACCC
1 TAACCCTAAAAAATAAAAACCC
56881982 TAACCCTAAAAAATAAAAAGCCC
1 TAACCCTAAAAAATAAAAA-CCC
56882005 TAAC
1 TAAC
56882009 TCTAGAGAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.53, C:0.27, G:0.02, T:0.18
Consensus pattern (22 bp):
TAACCCTAAAAAATAAAAACCC
Found at i:56889688 original size:28 final size:28
Alignment explanation
Indices: 56889619--56889719 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56889609 GATAAGATTG
* * * *
56889619 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
56889649 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
56889677 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
56889706 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56889720 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:56889713 original size:29 final size:28
Alignment explanation
Indices: 56889648--56889719 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
56889638 AAAATTGTAC
*
56889648 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
56889676 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
56889705 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56889720 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:56897532 original size:28 final size:28
Alignment explanation
Indices: 56897463--56897563 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
56897453 GACAAGATTG
* * * *
56897463 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
56897493 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
56897521 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
56897550 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
56897564 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:56897557 original size:29 final size:28
Alignment explanation
Indices: 56897492--56897563 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
56897482 AAAATTGTAC
*
56897492 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
56897520 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
56897549 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56897564 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:56906881 original size:47 final size:45
Alignment explanation
Indices: 56906793--56907008 Score: 129
Period size: 47 Copynumber: 4.6 Consensus size: 45
56906783 GGTAAGGTAC
* * * * *
56906793 CGATGGCATGTCCCATACACGGTCTTATATTGGCTCA-CATCTCAAG
1 CGAT-GCATGTCCCAAACATGGTCTTACACTGACT-ATCATCTCAAG
**
56906839 CAGATGCCATGTCCCAAACATGGTCTTACACTGACTATCATCTTGTAG
1 C-GATG-CATGTCCCAAACATGGTCTTACACTGACTATCATC-TCAAG
* * * * * *
56906887 CCGATGCATGTCCTAGACAT-GTCTTACACTGGCTTAT-GTTTCGAGG
1 -CGATGCATGTCCCAAACATGGTCTTACACTGAC-TATCATCTC-AAG
*
56906933 TCGATGCATGTCCCAAACAT-GTCTTACACT-AGC-ACTCGTCTCAATG
1 -CGATGCATGTCCCAAACATGGTCTTACACTGA-CTA-TCATCTCAA-G
*
56906979 CTGATGCCATGTCCCAGACATGGTCTTACA
1 C-GATG-CATGTCCCAAACATGGTCTTACA
56907009 TTGGCCCACA
Statistics
Matches: 134, Mismatches: 22, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
44 1 0.01
45 4 0.03
46 54 0.40
47 59 0.44
48 15 0.11
49 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (45 bp):
CGATGCATGTCCCAAACATGGTCTTACACTGACTATCATCTCAAG
Found at i:56907329 original size:17 final size:17
Alignment explanation
Indices: 56907307--56907341 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
56907297 AATGCACTCA
*
56907307 TTTAATCACTAAAAAAT
1 TTTAATCAATAAAAAAT
*
56907324 TTTAATCAATTAAAAAT
1 TTTAATCAATAAAAAAT
56907341 T
1 T
56907342 CACATCTTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (17 bp):
TTTAATCAATAAAAAAT
Found at i:56917022 original size:47 final size:47
Alignment explanation
Indices: 56916932--56917023 Score: 132
Period size: 47 Copynumber: 2.0 Consensus size: 47
56916922 TGTGTAAGGT
*
56916932 GTCGATGCCATGTCCCAGACACGGTCTTACACTGGCTCACATCTCAA
1 GTCGATGCCATGTCCCAGACACGGTCTTACACTGACTCACATCTCAA
* * *
56916979 GTCGATGCCATGTTCTAGACATGGTCTTACACTGACT-ATCATCTC
1 GTCGATGCCATGTCCCAGACACGGTCTTACACTGACTCA-CATCTC
56917024 GTAGCCAATG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 1 0.03
47 39 0.98
ACGTcount: A:0.23, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
GTCGATGCCATGTCCCAGACACGGTCTTACACTGACTCACATCTCAA
Found at i:56917038 original size:47 final size:47
Alignment explanation
Indices: 56916936--56917055 Score: 129
Period size: 47 Copynumber: 2.6 Consensus size: 47
56916926 TAAGGTGTCG
* * * *
56916936 ATGCCATGTCCCAGACACGGTCTTACACTGGCTCACATCTCAAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCACATCTCAAGCCA
* * *
56916983 ATGCCATGTTCTAGACATGGTCTTACACTGACT-ATCATCTCGTAGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACTCA-CATCTC-AAGCCA
*
56917031 ATG-CATGTCCCAGGCAT-GTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
56917056 ATGGCTTATG
Statistics
Matches: 61, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
46 9 0.15
47 46 0.75
48 6 0.10
ACGTcount: A:0.24, C:0.30, G:0.18, T:0.28
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACTCACATCTCAAGCCA
Found at i:56925013 original size:31 final size:31
Alignment explanation
Indices: 56924978--56925067 Score: 76
Period size: 30 Copynumber: 2.9 Consensus size: 31
56924968 TTAACTCTTC
*
56924978 AATATTTATATATTTTATTATTTTATTCCTA
1 AATATTTATATATTTTATTATTTTATTCATA
* ** * * * *
56925009 AATA-TAATATATTCAATAAATTTAGTCATC
1 AATATTTATATATTTTATTATTTTATTCATA
*
56925039 AATATTTATAAATTTT-TTATATTTATTCA
1 AATATTTATATATTTTATTAT-TTTATTCA
56925068 AATTTAAAAA
Statistics
Matches: 42, Mismatches: 15, Indels: 4
0.69 0.25 0.07
Matches are distributed among these distances:
30 24 0.57
31 18 0.43
ACGTcount: A:0.39, C:0.07, G:0.01, T:0.53
Consensus pattern (31 bp):
AATATTTATATATTTTATTATTTTATTCATA
Found at i:56925155 original size:15 final size:16
Alignment explanation
Indices: 56925137--56925167 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
56925127 TTTAATTTTA
56925137 AAAAATTTAAA-AAAT
1 AAAAATTTAAAGAAAT
56925152 AAAAATTTAAAGAAAT
1 AAAAATTTAAAGAAAT
56925168 CATTTTTATC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (16 bp):
AAAAATTTAAAGAAAT
Found at i:56931168 original size:24 final size:24
Alignment explanation
Indices: 56931118--56931174 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
56931108 GGAAAAGTGC
*
56931118 AAGAAAAAAAGATTGAAAAAGAAA
1 AAGAAAAAAAGATGGAAAAAGAAA
56931142 AAGACAAAAAA-ATGGAAAAA-AAGA
1 AAGA-AAAAAAGATGGAAAAAGAA-A
*
56931166 AAGGAAAAA
1 AAGAAAAAA
56931175 GTGTGAGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
23 7 0.24
24 16 0.55
25 6 0.21
ACGTcount: A:0.75, C:0.02, G:0.18, T:0.05
Consensus pattern (24 bp):
AAGAAAAAAAGATGGAAAAAGAAA
Found at i:56935968 original size:32 final size:33
Alignment explanation
Indices: 56935908--56935972 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
56935898 AGTAATTAAG
56935908 GTTAAAGTAAATAAAACTAAAAAAATTTCTTCA
1 GTTAAAGTAAATAAAACTAAAAAAATTTCTTCA
56935941 GTTAAAGTAAATAAAACT-AAAAAATTTCTTCA
1 GTTAAAGTAAATAAAACTAAAAAAATTTCTTCA
56935973 TCTTCTTCCA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 14 0.44
33 18 0.56
ACGTcount: A:0.54, C:0.09, G:0.06, T:0.31
Consensus pattern (33 bp):
GTTAAAGTAAATAAAACTAAAAAAATTTCTTCA
Found at i:56938974 original size:27 final size:28
Alignment explanation
Indices: 56938917--56938986 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
56938907 AAATTTGTAC
**
56938917 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
56938945 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
56938972 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56938987 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:56938995 original size:27 final size:27
Alignment explanation
Indices: 56938917--56938998 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
56938907 AAATTTGTAC
* *
56938917 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
56938945 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
56938972 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
56938999 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:56946892 original size:27 final size:28
Alignment explanation
Indices: 56946835--56946904 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
56946825 AAATTTGTAC
**
56946835 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
*
56946863 AGCACTATGTGTGCG-AGCTGATTATAT
1 AGCACTAAGTGTGCGAAGCTGATTATAT
56946890 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
56946905 GACTTATTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 24 0.63
28 14 0.37
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAAGCTGATTATAT
Found at i:56946913 original size:27 final size:27
Alignment explanation
Indices: 56946835--56946916 Score: 103
Period size: 27 Copynumber: 3.0 Consensus size: 27
56946825 AAATTTGTAC
* *
56946835 AGCACTAAGTGTGCGAATTTGATTATAT
1 AGCACTAAGTGTGCGGACTT-ATTATAT
* *
56946863 AGCACTATGTGTGC-GAGCTGATTATAT
1 AGCACTAAGTGTGCGGA-CTTATTATAT
56946890 AGCACTAAGTGTGCGGACTTATTATAT
1 AGCACTAAGTGTGCGGACTTATTATAT
56946917 GCTTTTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 30 0.65
28 16 0.35
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGGACTTATTATAT
Found at i:56949806 original size:20 final size:20
Alignment explanation
Indices: 56949762--56949806 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
56949752 AAAATTACAA
56949762 AAAAAATTCAAAATAATTTT
1 AAAAAATTCAAAATAATTTT
*
56949782 CAAAAATTCAAAAT-ATTTAT
1 AAAAAATTCAAAATAATTT-T
56949802 AAAAA
1 AAAAA
56949807 TCCCAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (20 bp):
AAAAAATTCAAAATAATTTT
Found at i:56952002 original size:30 final size:30
Alignment explanation
Indices: 56951962--56952023 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
56951952 GGGAAGAGAT
* *
56951962 AACACTAAAATTATCTAAAGAACACCATTG
1 AACACAAAAATTATCGAAAGAACACCATTG
56951992 AACACAAAAATTATCGAAAGAACACCATTG
1 AACACAAAAATTATCGAAAGAACACCATTG
56952022 AA
1 AA
56952024 ATCGATTTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.53, C:0.19, G:0.08, T:0.19
Consensus pattern (30 bp):
AACACAAAAATTATCGAAAGAACACCATTG
Found at i:56960629 original size:19 final size:20
Alignment explanation
Indices: 56960605--56960642 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56960595 GGTACCACCA
56960605 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
56960624 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
56960643 ACCACGTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:56960930 original size:46 final size:46
Alignment explanation
Indices: 56960863--56961035 Score: 181
Period size: 46 Copynumber: 3.7 Consensus size: 46
56960853 TGTAACCCAC
*
56960863 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCATTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGTAT
* *
56960909 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGTA--T
* * ** * * * * *
56960955 ACATTTCA-CAAACTCGGACTCAACTCAACCAGTTTGGACATTTGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGTAT
56961002 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC
56961036 TGATGCTCAA
Statistics
Matches: 100, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
44 5 0.05
45 4 0.04
46 59 0.59
47 26 0.26
48 3 0.03
49 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGGCATTCGTAT
Found at i:56960979 original size:93 final size:93
Alignment explanation
Indices: 56960872--56961041 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 93
56960862 CCCATAAGTG
* * *
56960872 AACTCGGACTCAACTCAACGAGCTCGGGCATTCGTATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACCAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
56960937 GAGTTCGGATGCCTAGTTACATTTCACA
66 GAGTTCGGATGCCTAGTTACATTTCACA
* * *
56960965 AACTCGGACTCAACTCAACCAGTTTGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACCAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
*
56961030 GAGTTCTGATGC
66 GAGTTCGGATGC
56961042 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACCAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATTTCACA
Found at i:56966555 original size:40 final size:40
Alignment explanation
Indices: 56966510--56966695 Score: 182
Period size: 40 Copynumber: 4.7 Consensus size: 40
56966500 GCTACTCATT
*
56966510 CAAACGCCTTCGGGACATAGCCCGG-TTATAGCAACTCGCA
1 CAAACGCCTTCGGGACTTAGCCCGGATT-TAGCAACTCGCA
* * *
56966550 TAAACGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAGCCCGGATTTAGCAACTCGCA
* * * * *
56966590 TAAATGCCTTAGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAACGCCTTCGGGACTTAGCCCGGATTTAGCAACTCGCA
* * * * *
56966630 CAAATGCCTTC-GGATCCTAGTCCGGATATAGTC-ACTTAGCA
1 CAAACGCCTTCGGGA-CTTAGCCCGGATTTAG-CAAC-TCGCA
56966671 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAACGCCTTCGGGACTTAGCCCGGA
56966696 CTTCATTTGA
Statistics
Matches: 125, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
39 3 0.02
40 109 0.87
41 13 0.10
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CAAACGCCTTCGGGACTTAGCCCGGATTTAGCAACTCGCA
Found at i:56973463 original size:19 final size:20
Alignment explanation
Indices: 56973439--56973476 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56973429 GGTACCACCA
56973439 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
56973458 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
56973477 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:56973761 original size:46 final size:46
Alignment explanation
Indices: 56973694--56973868 Score: 210
Period size: 46 Copynumber: 3.8 Consensus size: 46
56973684 TAACCCACCC
* * *
56973694 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCA
* * *
56973740 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-TTAGCATCCA
* * ** *
56973786 TTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCA
56973833 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG
56973869 CTCAACCATC
Statistics
Matches: 106, Mismatches: 18, Indels: 10
0.79 0.13 0.07
Matches are distributed among these distances:
45 2 0.02
46 68 0.64
47 34 0.32
48 2 0.02
ACGTcount: A:0.29, C:0.26, G:0.22, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTAGCATCCA
Found at i:56973858 original size:93 final size:93
Alignment explanation
Indices: 56973699--56973869 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
56973689 CACCCTAAGT
***
56973699 GAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56973764 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
56973792 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
56973857 CGAGTTCGGATGC
66 CGAGTTCGGATGC
56973870 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:56976728 original size:21 final size:21
Alignment explanation
Indices: 56976690--56976733 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
56976680 ATGGCCAAAT
*
56976690 ATGTGTTTGTGTATTAAATTGA
1 ATGTGTTGGTGTATTAAA-TGA
56976712 ATGTGTTGGTG-ATTAAATGA
1 ATGTGTTGGTGTATTAAATGA
56976732 AT
1 AT
56976734 TAATTTTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 5 0.24
21 6 0.29
22 10 0.48
ACGTcount: A:0.30, C:0.00, G:0.25, T:0.45
Consensus pattern (21 bp):
ATGTGTTGGTGTATTAAATGA
Found at i:56977085 original size:45 final size:41
Alignment explanation
Indices: 56976952--56977088 Score: 129
Period size: 40 Copynumber: 3.3 Consensus size: 41
56976942 ACTATGTTCA
* * *
56976952 GCACTAAGTGTGCG-GTTCGAAATAGCTTCAGCTA-CAAATG
1 GCACTAAGTGTGCGAGTTCG-AATAGATTCGGCTATAAAATG
* **
56976992 GCACTAAGTGTGCGAGTTGGAATAGATTCGGCTATATGA-G
1 GCACTAAGTGTGCGAGTTCGAATAGATTCGGCTATAAAATG
*
56977032 GCACTAAGTGTGCGA-TATCGAGATAGATTCGGTTCATTTAAAATG
1 GCACTAAGTGTGCGAGT-TCGA-ATAGATTCGG--C-TATAAAATG
56977077 GCACTAAGTGTG
1 GCACTAAGTGTG
56977089 TGAGATTGTT
Statistics
Matches: 79, Mismatches: 10, Indels: 11
0.79 0.10 0.11
Matches are distributed among these distances:
39 1 0.01
40 45 0.57
41 15 0.19
43 1 0.01
44 4 0.05
45 13 0.16
ACGTcount: A:0.29, C:0.15, G:0.28, T:0.28
Consensus pattern (41 bp):
GCACTAAGTGTGCGAGTTCGAATAGATTCGGCTATAAAATG
Found at i:56986483 original size:22 final size:22
Alignment explanation
Indices: 56986458--56986501 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
56986448 ACCAAGAGAG
56986458 TTGGACCATTAGCCTACTGATT
1 TTGGACCATTAGCCTACTGATT
56986480 TTGGACCATTAGCCTACTGATT
1 TTGGACCATTAGCCTACTGATT
56986502 AGCCTTACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (22 bp):
TTGGACCATTAGCCTACTGATT
Found at i:56988839 original size:40 final size:40
Alignment explanation
Indices: 56988756--56988941 Score: 297
Period size: 40 Copynumber: 4.7 Consensus size: 40
56988746 ATAACCACAA
*
56988756 GCACAATTGCCTTCGGGTCTTAACCCGG-TATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
56988795 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
56988835 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
56988875 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* *
56988915 GCATAAATGCCTTCGGG-CTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
56988942 GTATCATTCA
Statistics
Matches: 140, Mismatches: 5, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
39 36 0.26
40 102 0.73
41 2 0.01
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:57000088 original size:40 final size:40
Alignment explanation
Indices: 57000044--57000230 Score: 270
Period size: 40 Copynumber: 4.7 Consensus size: 40
57000034 ATAACCACAA
* *
57000044 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
57000084 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
57000124 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* * *
57000164 GCACAAATGCCTTCGGGTCTTAACTCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* *
57000204 GCATAAATGCCTTCGGG-CTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
57000231 GTATCATTCA
Statistics
Matches: 134, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 8 0.06
40 124 0.93
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:57000128 original size:80 final size:79
Alignment explanation
Indices: 57000024--57000234 Score: 309
Period size: 80 Copynumber: 2.7 Consensus size: 79
57000014 TCTTCGAAAT
* *
57000024 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
57000088 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* *
57000103 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
57000168 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * * *
57000183 TTAACTCGGATATAATCACTAGCATAAATGCCTTCGGG-CTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
57000235 CATTCAATTG
Statistics
Matches: 119, Mismatches: 10, Indels: 6
0.88 0.07 0.04
Matches are distributed among these distances:
79 17 0.14
80 101 0.85
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:57009814 original size:40 final size:40
Alignment explanation
Indices: 57009749--57009841 Score: 107
Period size: 40 Copynumber: 2.3 Consensus size: 40
57009739 GACTACGTTC
* *
57009749 GGCACTAAGTGTACAGTTCGAAATAGCTTCAGCTAAAAAT
1 GGCACTAAGTGTGCAGTTCGAAATAGCTTCAGCTAAAAAG
* * * **
57009789 GGCACTAAGTGTGCGAGTT-GGAATAGCTTCGGCTATATGG
1 GGCACTAAGTGTGC-AGTTCGAAATAGCTTCAGCTAAAAAG
57009829 GGCACTAAGTGTG
1 GGCACTAAGTGTG
57009842 TGATACCGAG
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
40 41 0.91
41 4 0.09
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.26
Consensus pattern (40 bp):
GGCACTAAGTGTGCAGTTCGAAATAGCTTCAGCTAAAAAG
Found at i:57011003 original size:17 final size:17
Alignment explanation
Indices: 57010981--57011014 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
57010971 GCGTGTGACC
*
57010981 TGTATAACTTTGAAAAA
1 TGTATAACTTTCAAAAA
*
57010998 TGTATAAGTTTCAAAAA
1 TGTATAACTTTCAAAAA
57011015 GTTTTGTATG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.06, G:0.12, T:0.35
Consensus pattern (17 bp):
TGTATAACTTTCAAAAA
Found at i:57015700 original size:28 final size:28
Alignment explanation
Indices: 57015635--57015735 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
57015625 ATAGTGAATC
*
57015635 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
57015664 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
57015692 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
57015722 CGCACACTTAGTGC
1 CGCACACTTAGTGC
57015736 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:57027956 original size:39 final size:39
Alignment explanation
Indices: 57027902--57028078 Score: 267
Period size: 39 Copynumber: 4.7 Consensus size: 39
57027892 GAATGTTCGA
57027902 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
57027941 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGC--A--
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
* *
57027976 -TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
57028013 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
*
57028052 GTGATATCCGGGTTAAGTCCCGAAGGC
1 GTGATATCCGGGCTAAG-CCCGAAGGC
57028079 CTTTGTGCGG
Statistics
Matches: 126, Mismatches: 5, Indels: 13
0.88 0.03 0.09
Matches are distributed among these distances:
33 2 0.02
34 30 0.24
37 1 0.01
38 30 0.24
39 54 0.43
40 9 0.07
ACGTcount: A:0.27, C:0.21, G:0.30, T:0.22
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATT
Found at i:57028043 original size:72 final size:73
Alignment explanation
Indices: 57027903--57028047 Score: 256
Period size: 72 Copynumber: 2.0 Consensus size: 73
57027893 AATGTTCGAG
*
57027903 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTGTGATATCCGGGCTAAGCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGCCCGAAGGCA
57027968 ATTGTGCA
66 ATTGTGCA
* *
57027976 TGATATCCGGGCTAAGCCCGAAGGCAATTG-GCGAGTTATGATATCCGGGCTAAGCCCGAAGGCA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGCCCGAAGGCA
57028040 ATTGTGCA
66 ATTGTGCA
57028048 AATTGTGATA
Statistics
Matches: 69, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
72 39 0.57
73 30 0.43
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (73 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTATGATATCCGGGCTAAGCCCGAAGGCA
ATTGTGCA
Found at i:57029718 original size:29 final size:29
Alignment explanation
Indices: 57029686--57029788 Score: 179
Period size: 29 Copynumber: 3.6 Consensus size: 29
57029676 GCTTGGAAGG
57029686 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
57029715 TATGGCACTAAGTGTGCGAACTTAAATTA
1 TATGGCACTAAGTGTGCGAACTTAAATTA
* *
57029744 TATGGCACTAAGTGTGCGAGCTTAAATTG
1 TATGGCACTAAGTGTGCGAACTTAAATTA
*
57029773 CATGGCACTAAGTGTG
1 TATGGCACTAAGTGTG
57029789 TGAGATCGTT
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 71 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (29 bp):
TATGGCACTAAGTGTGCGAACTTAAATTA
Found at i:57031486 original size:68 final size:69
Alignment explanation
Indices: 57031414--57031561 Score: 162
Period size: 67 Copynumber: 2.2 Consensus size: 69
57031404 CATCATGTGT
* * * *
57031414 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTACAAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
57031476 ATGTAG
64 ATGTAG
* ** * *
57031482 ACAAGAGAGCT--ATGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCAT
1 ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCAT
57031545 GTAG
66 GTAG
57031549 ACAAGAGAGCTAC
1 ACAAGAGAGCTAC
57031562 GAGATAAACT
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
64 20 0.30
65 7 0.11
66 5 0.08
67 23 0.35
68 11 0.17
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.22
Consensus pattern (69 bp):
ACAAGAGAGCTACAAGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCAT
GTAG
Found at i:57034839 original size:37 final size:38
Alignment explanation
Indices: 57034757--57034925 Score: 207
Period size: 37 Copynumber: 4.7 Consensus size: 38
57034747 CCGCACAAAG
*
57034757 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCACAA-TTGCACAATT
* * *
57034797 GCCTTCGGGCTTAGCCCGGATATCATAACT-CGCAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTGCACAATT
57034834 GCCTTCGGGCTTAGCCCGGATAT--C-A-TGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTGCACAATT
57034868 GCC-TC-GGCTTAGCCC--AT-T-ACAATTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTGCACAATT
57034900 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
57034926 TCGAACATTC
Statistics
Matches: 113, Mismatches: 6, Indels: 22
0.80 0.04 0.16
Matches are distributed among these distances:
29 1 0.01
30 3 0.03
31 1 0.01
32 22 0.19
33 5 0.04
34 20 0.18
36 2 0.02
37 30 0.27
38 3 0.03
39 17 0.15
40 9 0.08
ACGTcount: A:0.22, C:0.30, G:0.21, T:0.27
Consensus pattern (38 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTGCACAATT
Found at i:57042806 original size:39 final size:39
Alignment explanation
Indices: 57042771--57042913 Score: 241
Period size: 39 Copynumber: 3.7 Consensus size: 39
57042761 CCGCACAAAG
* *
57042771 GCCTTCGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
* * *
57042810 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
57042849 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
57042888 GCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCAC
57042914 TCGAACATTC
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 96 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCACAATTTGCACAATT
Found at i:57042867 original size:78 final size:78
Alignment explanation
Indices: 57042731--57042912 Score: 274
Period size: 78 Copynumber: 2.3 Consensus size: 78
57042721 TCGTTCAAAC
* * **
57042731 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAGGCCTTCGGACTTAACCCGGATATCA
1 GCCTTCGGG-CTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGACTTAACCCGGATATCA
57042796 CAATTTGCACAATT
65 CAATTTGCACAATT
* ** * *
57042810 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
1 GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGACTTAACCCGGATATCAC
57042875 AATTTGCACAATT
66 AATTTGCACAATT
57042888 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
57042913 CTCGAACATT
Statistics
Matches: 94, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
78 85 0.90
79 9 0.10
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (78 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACCCGCACAAAGGCCTTCGGACTTAACCCGGATATCAC
AATTTGCACAATT
Found at i:57046200 original size:52 final size:51
Alignment explanation
Indices: 57046085--57046262 Score: 218
Period size: 52 Copynumber: 3.5 Consensus size: 51
57046075 ACAAGTGATT
* * **
57046085 CAAGTGTGGTACAATGTGAAGGCCACTTTGAGAAG-AGAT-GGGTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGATTTGGTCA
57046134 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGATTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAG-AAGATAGATTTGGTCA
* * * * *
57046186 CAAGTGTGGTACTATGTGAAGGCCATTTTGTGAAGAAGGTAGCTTT-GACTG
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGATTTGGTC-A
* *
57046237 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
57046263 CGGGTATCCG
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
49 33 0.29
50 2 0.02
51 36 0.32
52 42 0.37
ACGTcount: A:0.28, C:0.13, G:0.32, T:0.27
Consensus pattern (51 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAGATAGATTTGGTCA
Found at i:57047887 original size:6 final size:6
Alignment explanation
Indices: 57047876--57047920 Score: 81
Period size: 6 Copynumber: 7.5 Consensus size: 6
57047866 TGTGTACCGC
*
57047876 TACTGT TACTGT TACTGT TACTGT TACTGT TACAGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TACTGT TAC
57047921 GGTGTATTCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.20, C:0.18, G:0.16, T:0.47
Consensus pattern (6 bp):
TACTGT
Found at i:57048078 original size:18 final size:18
Alignment explanation
Indices: 57048033--57048093 Score: 50
Period size: 18 Copynumber: 3.4 Consensus size: 18
57048023 AAAGGTACCG
* * *
57048033 AATAACTGACTATTACTG
1 AATAATTGACTACTACTA
* * *
57048051 GATAACTGACTGCTACTA
1 AATAATTGACTACTACTA
* *
57048069 ACTAATTGACTATTACTA
1 AATAATTGACTACTACTA
57048087 AATAATT
1 AATAATT
57048094 TATCGTTACT
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.39, C:0.16, G:0.10, T:0.34
Consensus pattern (18 bp):
AATAATTGACTACTACTA
Found at i:57048146 original size:18 final size:18
Alignment explanation
Indices: 57048125--57048181 Score: 71
Period size: 18 Copynumber: 3.2 Consensus size: 18
57048115 TGTTAAAGAT
*
57048125 TGACTGAATATTATTGAA
1 TGACTGAATGTTATTGAA
57048143 TGACT-AATTGTTATTGAA
1 TGACTGAA-TGTTATTGAA
* *
57048161 TGATTGAATGTTACTGAA
1 TGACTGAATGTTATTGAA
57048179 TGA
1 TGA
57048182 AACTGATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
17 2 0.06
18 30 0.88
19 2 0.06
ACGTcount: A:0.35, C:0.05, G:0.19, T:0.40
Consensus pattern (18 bp):
TGACTGAATGTTATTGAA
Found at i:57059786 original size:42 final size:44
Alignment explanation
Indices: 57059740--57059834 Score: 142
Period size: 44 Copynumber: 2.2 Consensus size: 44
57059730 CCTAGATAGG
57059740 GTCTTACACG-AAATCA-AA-TACGATGCCAACGTCCCAGACGTA
1 GTCTTACACGTAAATCATAAGT-CGATGCCAACGTCCCAGACGTA
* *
57059782 GTCTTACACGTAAATCATAAGTCGATGCCAACGTCCCTGACGTG
1 GTCTTACACGTAAATCATAAGTCGATGCCAACGTCCCAGACGTA
57059826 GTCTTACAC
1 GTCTTACAC
57059835 AATAACACAT
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
42 10 0.21
43 6 0.12
44 31 0.65
45 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (44 bp):
GTCTTACACGTAAATCATAAGTCGATGCCAACGTCCCAGACGTA
Found at i:57060329 original size:21 final size:21
Alignment explanation
Indices: 57060305--57060349 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
57060295 CCGAATTCTC
57060305 ATAGTGTTCATACAAGTCCAT
1 ATAGTGTTCATACAAGTCCAT
57060326 ATAGTGTTCATACAAGTCCAT
1 ATAGTGTTCATACAAGTCCAT
57060347 ATA
1 ATA
57060350 TTTCATTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (21 bp):
ATAGTGTTCATACAAGTCCAT
Found at i:57064108 original size:42 final size:43
Alignment explanation
Indices: 57064003--57064164 Score: 127
Period size: 43 Copynumber: 3.8 Consensus size: 43
57063993 CATATACAAT
* ** * * *
57064003 CCAACGTCCCAAACGCAGTCTTACATGTAATCA-AACATCGATG
1 CCAACGTCCCAAATGTGGTCTTACACGAAATCAGAAGA-CGATG
*
57064046 CC-ACTGTCCCAGACA-G-GGTCTTACACGAAATCA-AATACGATG
1 CCAAC-GTCCCA-A-ATGTGGTCTTACACGAAATCAGAAGACGATG
* * * * *
57064088 TCGATGTCCCATATGTGGTCTTACACGTAAAACAGAAGACGATG
1 CCAACGTCCCAAATGTGGTCTTACACG-AAATCAGAAGACGATG
*
57064132 CCAACGTCCCAAATGTGGTCTTACATGAAATCA
1 CCAACGTCCCAAATGTGGTCTTACACGAAATCA
57064165 CATAATAAAA
Statistics
Matches: 96, Mismatches: 15, Indels: 16
0.76 0.12 0.13
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 25 0.26
43 36 0.38
44 32 0.33
45 1 0.01
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (43 bp):
CCAACGTCCCAAATGTGGTCTTACACGAAATCAGAAGACGATG
Done.