Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr12
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: 39383930
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.32
Warning! 780790 characters in sequence are not A, C, G, or T
File 78 of 126
Found at i:23505928 original size:20 final size:20
Alignment explanation
Indices: 23505905--23505958 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
23505895 AGTTTTTCCC
*
23505905 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
23505925 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
23505945 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
23505959 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:23505940 original size:30 final size:30
Alignment explanation
Indices: 23505905--23505978 Score: 98
Period size: 30 Copynumber: 2.5 Consensus size: 30
23505895 AGTTTTTCCC
23505905 AGCTCGATTT-AGCTCACA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* *
23505935 AGCTCGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
23505965 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
23505979 TGGCTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
29 4 0.10
30 36 0.90
ACGTcount: A:0.22, C:0.20, G:0.19, T:0.39
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:23505968 original size:20 final size:20
Alignment explanation
Indices: 23505905--23505969 Score: 53
Period size: 20 Copynumber: 3.2 Consensus size: 20
23505895 AGTTTTTCCC
* * * *
23505905 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTTACTTT
*
23505925 AGCTTAATTTAGC-T-CGTTT
1 AGCTCAATTTAGCTTAC-TTT
23505944 GAGCTCAATTTAGCTTACTTT
1 -AGCTCAATTTAGCTTACTTT
23505965 AGCTC
1 AGCTC
23505970 GTTTGAGCTT
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
18 1 0.03
19 1 0.03
20 28 0.80
21 4 0.11
22 1 0.03
ACGTcount: A:0.23, C:0.22, G:0.17, T:0.38
Consensus pattern (20 bp):
AGCTCAATTTAGCTTACTTT
Found at i:23508553 original size:20 final size:21
Alignment explanation
Indices: 23508530--23508583 Score: 60
Period size: 20 Copynumber: 2.7 Consensus size: 21
23508520 AGCTCGTTTC
* *
23508530 AGCTCCAA-TCAGCTTATTTG
1 AGCTCCAATTCAGCTCATTCG
23508550 AGCT-CAATTCAGCTCATTCG
1 AGCTCCAATTCAGCTCATTCG
*
23508570 AGCT-CAATTTAGCT
1 AGCTCCAATTCAGCT
23508584 TTCTATCAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 3 0.10
20 27 0.90
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (21 bp):
AGCTCCAATTCAGCTCATTCG
Found at i:23510510 original size:20 final size:21
Alignment explanation
Indices: 23510477--23510535 Score: 70
Period size: 20 Copynumber: 3.0 Consensus size: 21
23510467 CAGCTCCTTT
* *
23510477 AGCTCGTTTCAGCTCCAA-TC
1 AGCTCATTTGAGCTCCAATTC
23510497 AGCTCATTTGAGCT-CAATTC
1 AGCTCATTTGAGCTCCAATTC
*
23510517 AGCTCATTCGAGCT-CAATT
1 AGCTCATTTGAGCTCCAATT
23510536 TAACTTTTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
19 3 0.09
20 32 0.91
ACGTcount: A:0.24, C:0.29, G:0.15, T:0.32
Consensus pattern (21 bp):
AGCTCATTTGAGCTCCAATTC
Found at i:23511835 original size:18 final size:19
Alignment explanation
Indices: 23511812--23511847 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23511802 ATACATTCAA
23511812 TTTTTCA-CTTGCTTTTTC
1 TTTTTCATCTTGCTTTTTC
*
23511830 TTTTTCATCTTTCTTTTT
1 TTTTTCATCTTGCTTTTT
23511848 TCTCGCTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTTCATCTTGCTTTTTC
Found at i:23516662 original size:20 final size:21
Alignment explanation
Indices: 23516637--23516675 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
23516627 TTATTAATAA
*
23516637 TGTAATTAAAAAAA-TAAAAT
1 TGTAATAAAAAAAACTAAAAT
23516657 TGTAATAAAAAAAACTAAA
1 TGTAATAAAAAAAACTAAA
23516676 TAATAGTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (21 bp):
TGTAATAAAAAAAACTAAAAT
Found at i:23519279 original size:100 final size:100
Alignment explanation
Indices: 23519101--23519300 Score: 310
Period size: 100 Copynumber: 2.0 Consensus size: 100
23519091 TTTGATCAAA
* * *
23519101 GTAGCTTTGTTTCCACACACAAACAGTTCATTTCTTAGATTGTCTTGAATCCCTTCAAAGCAAAA
1 GTAGCTTTGTTTCCACACACAAACAATTCATTTCTCAGATTATCTTGAATCCCTTCAAAGCAAAA
23519166 CATTTTCTCAAACATAATCAATAAAATTGAAAATG
66 CATTTTCTCAAACATAATCAATAAAATTGAAAATG
** * *
23519201 GTAGCTTTGTTTCCACACACAAACAATTCATTTCTCCTATTATCTTGGATCCCTTCAAAGGAAAA
1 GTAGCTTTGTTTCCACACACAAACAATTCATTTCTCAGATTATCTTGAATCCCTTCAAAGCAAAA
* **
23519266 CATTTTCTGAAACATAATTGATAAAATTGAAAATG
66 CATTTTCTCAAACATAATCAATAAAATTGAAAATG
23519301 ATCAAAACAA
Statistics
Matches: 90, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
100 90 1.00
ACGTcount: A:0.36, C:0.20, G:0.10, T:0.34
Consensus pattern (100 bp):
GTAGCTTTGTTTCCACACACAAACAATTCATTTCTCAGATTATCTTGAATCCCTTCAAAGCAAAA
CATTTTCTCAAACATAATCAATAAAATTGAAAATG
Found at i:23529648 original size:47 final size:47
Alignment explanation
Indices: 23529589--23529682 Score: 170
Period size: 47 Copynumber: 2.0 Consensus size: 47
23529579 GCGATTCATT
* *
23529589 CCTGCTTACTATCACCGGGAGTTGTATCAAAAGCTCCAAAGCTTAAC
1 CCTGCTTACTATCACCAGGAGTTATATCAAAAGCTCCAAAGCTTAAC
23529636 CCTGCTTACTATCACCAGGAGTTATATCAAAAGCTCCAAAGCTTAAC
1 CCTGCTTACTATCACCAGGAGTTATATCAAAAGCTCCAAAGCTTAAC
23529683 TCAAGGCCAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.26
Consensus pattern (47 bp):
CCTGCTTACTATCACCAGGAGTTATATCAAAAGCTCCAAAGCTTAAC
Found at i:23529971 original size:44 final size:44
Alignment explanation
Indices: 23529908--23529995 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
23529898 CGTTCCGTTC
23529908 TTTCCATAATACTTCTTCTACGACTAAGTGGGGGCAAGGGTCCA
1 TTTCCATAATACTTCTTCTACGACTAAGTGGGGGCAAGGGTCCA
*
23529952 TTTCCCTAATACTTCTTCTACGACTAAGTGGGGGCAAGGGTCCA
1 TTTCCATAATACTTCTTCTACGACTAAGTGGGGGCAAGGGTCCA
23529996 ACAAACGAGA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (44 bp):
TTTCCATAATACTTCTTCTACGACTAAGTGGGGGCAAGGGTCCA
Found at i:23540974 original size:34 final size:34
Alignment explanation
Indices: 23540936--23541004 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
23540926 GCACAAGTTT
23540936 GTCAAATTCAACAACCAAGGGGTCTTTGTTAATA
1 GTCAAATTCAACAACCAAGGGGTCTTTGTTAATA
23540970 GTCAAATTCAACAACCAAGGGGTCTTTGTTAATA
1 GTCAAATTCAACAACCAAGGGGTCTTTGTTAATA
23541004 G
1 G
23541005 AAGTTTCTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.29
Consensus pattern (34 bp):
GTCAAATTCAACAACCAAGGGGTCTTTGTTAATA
Found at i:23542375 original size:10 final size:10
Alignment explanation
Indices: 23542360--23542421 Score: 52
Period size: 10 Copynumber: 5.9 Consensus size: 10
23542350 TTTGAACCAT
*
23542360 TACCAATTCG
1 TACCAATTCA
*
23542370 TACCAAATACCA
1 TACC-AAT-TCA
*
23542382 TACCATTTCA
1 TACCAATTCA
23542392 TACCAATTCCA
1 TACCAATT-CA
* *
23542403 TACCATTTCG
1 TACCAATTCA
23542413 TACCAATTC
1 TACCAATTC
23542422 CCAAATACCA
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
10 22 0.54
11 14 0.34
12 5 0.12
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.31
Consensus pattern (10 bp):
TACCAATTCA
Found at i:23542405 original size:21 final size:21
Alignment explanation
Indices: 23542360--23542422 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
23542350 TTTGAACCAT
* *
23542360 TACCAATTCGTACCAAATACCA
1 TACCATTTCGTACC-AATTCCA
*
23542382 TACCATTTCATACCAATTCCA
1 TACCATTTCGTACCAATTCCA
23542403 TACCATTTCGTACCAATTCC
1 TACCATTTCGTACCAATTCC
23542423 CAAATACCAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 25 0.68
22 12 0.32
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.30
Consensus pattern (21 bp):
TACCATTTCGTACCAATTCCA
Found at i:23560085 original size:40 final size:40
Alignment explanation
Indices: 23560041--23560226 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
23560031 AGCTACTCGT
* *
23560041 CAAATGCCTTCGGGACATAGCCCGG-TTATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
23560081 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
23560121 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGTA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * *
23560161 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACCTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AACTCGCA
23560202 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
23560227 CATCATTCAA
Statistics
Matches: 130, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.02
40 113 0.87
41 14 0.11
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:23564495 original size:17 final size:17
Alignment explanation
Indices: 23564473--23564508 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
23564463 AAATCCCAGA
23564473 TTCTGATACCCATATCT
1 TTCTGATACCCATATCT
23564490 TTCTGATACCCATATCT
1 TTCTGATACCCATATCT
23564507 TT
1 TT
23564509 GACTTTCTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.22, C:0.28, G:0.06, T:0.44
Consensus pattern (17 bp):
TTCTGATACCCATATCT
Found at i:23569646 original size:47 final size:47
Alignment explanation
Indices: 23569267--23570387 Score: 1842
Period size: 47 Copynumber: 24.0 Consensus size: 47
23569257 CTCGGCCCTG
* * * *
23569267 TCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
* * * *
23569313 TCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
* * * *
23569359 TCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
* * * *
23569405 TCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
* * * *
23569451 TCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
* * * *
23569497 TCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
* * * *
23569543 TCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
* *
23569589 TCACATATATACACTTTCACATTCACCACACCGACCATTTGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
23569636 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
23569683 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
23569730 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
23569777 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
23569824 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
23569871 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
23569918 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
23569965 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
23570012 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
23570059 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
23570106 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
23570153 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
23570200 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
23570247 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
** * * *
23570294 TCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
* * * *
23570341 TCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
23570388 GTATCATTTC
Statistics
Matches: 1061, Mismatches: 13, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
46 301 0.28
47 760 0.72
ACGTcount: A:0.30, C:0.33, G:0.07, T:0.30
Consensus pattern (47 bp):
TCACACATATACACTTTCACATTCATCACACCGACCATTTGGCCTTA
Found at i:23576804 original size:14 final size:14
Alignment explanation
Indices: 23576778--23576811 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
23576768 ATATTTATGG
23576778 TTTTTTTCTTTCTT
1 TTTTTTTCTTTCTT
23576792 TTATTTTTC-TTCTT
1 TT-TTTTTCTTTCTT
23576806 TTTTTT
1 TTTTTT
23576812 GAATGGTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.21
14 9 0.47
15 6 0.32
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (14 bp):
TTTTTTTCTTTCTT
Found at i:23576811 original size:18 final size:17
Alignment explanation
Indices: 23576778--23576810 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23576768 ATATTTATGG
23576778 TTTTTTTCTTTCTTTTA
1 TTTTTTTCTTTCTTTTA
23576795 TTTTTCTTCTTT-TTTT
1 TTTTT-TTCTTTCTTTT
23576811 TGAATGGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.03, C:0.12, G:0.00, T:0.85
Consensus pattern (17 bp):
TTTTTTTCTTTCTTTTA
Found at i:23594520 original size:22 final size:22
Alignment explanation
Indices: 23594494--23594538 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
23594484 ATTATATGTA
23594494 TTAATTCATAATATAA-TTAATT
1 TTAATTCAT-ATATAATTTAATT
* *
23594516 TTAATTTATATCTAATTTAATT
1 TTAATTCATATATAATTTAATT
23594538 T
1 T
23594539 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTCATATATAATTTAATT
Found at i:23595176 original size:21 final size:21
Alignment explanation
Indices: 23595146--23595189 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
23595136 ATTTAATCAA
*
23595146 TTTAGCTTGAATTTAA-TTCGT
1 TTTAGCTTG-ATTGAATTTCGT
*
23595167 TTTAGGTTGATTGAATTTCGT
1 TTTAGCTTGATTGAATTTCGT
23595188 TT
1 TT
23595190 GTTAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.20, C:0.07, G:0.18, T:0.55
Consensus pattern (21 bp):
TTTAGCTTGATTGAATTTCGT
Found at i:23601875 original size:16 final size:16
Alignment explanation
Indices: 23601854--23601884 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
23601844 ATTATAGGAG
23601854 ATACTTTTAATTTTTC
1 ATACTTTTAATTTTTC
23601870 ATACTTTTAATTTTT
1 ATACTTTTAATTTTT
23601885 ATTGTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.65
Consensus pattern (16 bp):
ATACTTTTAATTTTTC
Found at i:23603893 original size:36 final size:36
Alignment explanation
Indices: 23603853--23603922 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
23603843 AGTCGATGTA
*
23603853 CTCTTATAAGCATTTGGTGCGTTTCGGATGGATTAG
1 CTCTTATAAGCATCTGGTGCGTTTCGGATGGATTAG
* * * *
23603889 CTCTTATGAGCATCTGGTGTGTTTTGGTTGGATT
1 CTCTTATAAGCATCTGGTGCGTTTCGGATGGATT
23603923 GTCGATGTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
36 29 1.00
ACGTcount: A:0.16, C:0.13, G:0.29, T:0.43
Consensus pattern (36 bp):
CTCTTATAAGCATCTGGTGCGTTTCGGATGGATTAG
Found at i:23604850 original size:12 final size:12
Alignment explanation
Indices: 23604833--23604858 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
23604823 TATGTTTATG
23604833 ATATTGAATAAA
1 ATATTGAATAAA
23604845 ATATTGAATAAA
1 ATATTGAATAAA
23604857 AT
1 AT
23604859 TAAGTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
ATATTGAATAAA
Found at i:23612669 original size:36 final size:36
Alignment explanation
Indices: 23612622--23612704 Score: 114
Period size: 36 Copynumber: 2.3 Consensus size: 36
23612612 TCTCTGTTTC
*
23612622 GGTGTGTTTCGATTAGACTAGCTCTT-CGAAGCCATT
1 GGTGTGTTTCGAATAGACTAGCTCTTACG-AGCCATT
* * *
23612658 GGTGTGTTTCGAATAGATTAGCTCTTATGAGCCTTT
1 GGTGTGTTTCGAATAGACTAGCTCTTACGAGCCATT
23612694 GGTGTGTTTCG
1 GGTGTGTTTCG
23612705 GATGGATAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
36 41 0.98
37 1 0.02
ACGTcount: A:0.17, C:0.16, G:0.28, T:0.40
Consensus pattern (36 bp):
GGTGTGTTTCGAATAGACTAGCTCTTACGAGCCATT
Found at i:23612719 original size:36 final size:36
Alignment explanation
Indices: 23612651--23612738 Score: 106
Period size: 36 Copynumber: 2.4 Consensus size: 36
23612641 AGCTCTTCGA
* *
23612651 AGCCATTGGTGTGTTTCGAATAGATTAGCTCTTATG
1 AGCCATTGGTGTGTTTCGAATAGATAAACTCTTATG
* * *
23612687 AGCCTTTGGTGTGTTTCGGATGGATAAACTCTTATG
1 AGCCATTGGTGTGTTTCGAATAGATAAACTCTTATG
*
23612723 AG-CATCTAGTGTGTTT
1 AGCCAT-TGGTGTGTTT
23612739 TGGTTGGATT
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 2 0.05
36 42 0.95
ACGTcount: A:0.20, C:0.14, G:0.26, T:0.40
Consensus pattern (36 bp):
AGCCATTGGTGTGTTTCGAATAGATAAACTCTTATG
Found at i:23612747 original size:36 final size:36
Alignment explanation
Indices: 23612659--23612747 Score: 97
Period size: 36 Copynumber: 2.5 Consensus size: 36
23612649 GAAGCCATTG
* * * * * * *
23612659 GTGTGTTTCGAATAGATTAGCTCTTATGAGCCTTTG
1 GTGTGTTTCGGATGGATAAACTCTTATGAGCATCTA
23612695 GTGTGTTTCGGATGGATAAACTCTTATGAGCATCTA
1 GTGTGTTTCGGATGGATAAACTCTTATGAGCATCTA
* *
23612731 GTGTGTTTTGGTTGGAT
1 GTGTGTTTCGGATGGAT
23612748 TGTCGATGTA
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 44 1.00
ACGTcount: A:0.19, C:0.11, G:0.28, T:0.42
Consensus pattern (36 bp):
GTGTGTTTCGGATGGATAAACTCTTATGAGCATCTA
Found at i:23616128 original size:55 final size:56
Alignment explanation
Indices: 23616065--23616172 Score: 182
Period size: 55 Copynumber: 1.9 Consensus size: 56
23616055 TTTTACAAAA
*
23616065 AATGAGATATTATAGGATATTATTATG-GATATTATCTCTTAGCAATTTGATTCAT
1 AATGAGATATTATAGGATATTATTATGAGATATTACCTCTTAGCAATTTGATTCAT
* *
23616120 AATGAGATATTATATGATATTATTATGAGATATTACCTTTTAGCAATTTGATT
1 AATGAGATATTATAGGATATTATTATGAGATATTACCTCTTAGCAATTTGATT
23616173 TCTAAGTAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
55 26 0.53
56 23 0.47
ACGTcount: A:0.35, C:0.06, G:0.14, T:0.44
Consensus pattern (56 bp):
AATGAGATATTATAGGATATTATTATGAGATATTACCTCTTAGCAATTTGATTCAT
Found at i:23616893 original size:20 final size:19
Alignment explanation
Indices: 23616856--23616906 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
23616846 TCTATAACCG
23616856 AATAATGTT-TATTAAAAAAT
1 AATAAT-TTATATT-AAAAAT
*
23616876 AA-AATTGTATATTTAAAAT
1 AATAATT-TATATTAAAAAT
23616895 AATAATTTATAT
1 AATAATTTATAT
23616907 AATATGTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 1 0.04
19 16 0.59
20 10 0.37
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
AATAATTTATATTAAAAAT
Found at i:23617425 original size:39 final size:39
Alignment explanation
Indices: 23617351--23617436 Score: 93
Period size: 39 Copynumber: 2.2 Consensus size: 39
23617341 AAGTATTTAG
** *
23617351 TTACAAAGTTAGGTTTCCAATAAAAAATTTGATATTTGA
1 TTACAAAAATAGGTTTCCAATAAAAAATTTAATATTTGA
* * * *
23617390 TTATAAAAATAGGTTTCCAA-AAGTAATTTTAATATTTGG
1 TTACAAAAATAGGTTTCCAATAA-AAAATTTAATATTTGA
23617429 TTACAAAA
1 TTACAAAA
23617437 GGTTTTCAAT
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
38 2 0.05
39 36 0.95
ACGTcount: A:0.43, C:0.07, G:0.12, T:0.38
Consensus pattern (39 bp):
TTACAAAAATAGGTTTCCAATAAAAAATTTAATATTTGA
Found at i:23618122 original size:21 final size:22
Alignment explanation
Indices: 23618093--23618167 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 22
23618083 ACTAATAATT
23618093 AAAAT-TAAATTTTAAAATTT-
1 AAAATATAAATTTTAAAATTTA
* *
23618113 GAAATATAAAAATTTAAAATTTA
1 AAAATAT-AAATTTTAAAATTTA
* * *
23618136 AAAATAAAAATTTAAAAAAATTTC
1 AAAATATAAATTT--TAAAATTTA
23618160 AAAATATA
1 AAAATATA
23618168 CGGGCTTAGG
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
20 4 0.10
21 1 0.02
22 18 0.43
23 5 0.12
24 14 0.33
ACGTcount: A:0.63, C:0.01, G:0.01, T:0.35
Consensus pattern (22 bp):
AAAATATAAATTTTAAAATTTA
Found at i:23618124 original size:15 final size:15
Alignment explanation
Indices: 23618106--23618167 Score: 54
Period size: 15 Copynumber: 4.0 Consensus size: 15
23618096 ATTAAATTTT
*
23618106 AAAATTTGAAATATA
1 AAAATTTAAAATATA
*
23618121 AAAATTTAAAATTTA
1 AAAATTTAAAATATA
* *
23618136 AAAA-TAAAAATTTAAA
1 AAAATTTAAAA--TATA
23618152 AAAATTTCAAAATATA
1 AAAATTT-AAAATATA
23618168 CGGGCTTAGG
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
14 5 0.14
15 17 0.47
16 9 0.25
17 1 0.03
18 4 0.11
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (15 bp):
AAAATTTAAAATATA
Found at i:23618131 original size:7 final size:7
Alignment explanation
Indices: 23618091--23618152 Score: 63
Period size: 7 Copynumber: 8.9 Consensus size: 7
23618081 ATACTAATAA
23618091 TTAAAA-
1 TTAAAAT
*
23618097 TTAAATT
1 TTAAAAT
23618104 TTAAAAT
1 TTAAAAT
*
23618111 TTGAAAT
1 TTAAAAT
*
23618118 ATAAAAAT
1 -TTAAAAT
23618126 TTAAAAT
1 TTAAAAT
*
23618133 TTAAAAA
1 TTAAAAT
*
23618140 TAAAAAT
1 TTAAAAT
23618147 TTAAAA
1 TTAAAA
23618153 AAATTTCAAA
Statistics
Matches: 44, Mismatches: 10, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
6 5 0.11
7 34 0.77
8 5 0.11
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (7 bp):
TTAAAAT
Found at i:23618151 original size:8 final size:8
Alignment explanation
Indices: 23618099--23618153 Score: 55
Period size: 8 Copynumber: 7.4 Consensus size: 8
23618089 AATTAAAATT
*
23618099 AAATTTTA
1 AAATTTAA
*
23618107 AAATTT-G
1 AAATTTAA
*
23618114 AAATATAA
1 AAATTTAA
23618122 AAATTT-A
1 AAATTTAA
23618129 AAATTTAA
1 AAATTTAA
23618137 AAA--TAA
1 AAATTTAA
23618143 AAATTTAA
1 AAATTTAA
23618151 AAA
1 AAA
23618154 AATTTCAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
6 6 0.15
7 12 0.31
8 21 0.54
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (8 bp):
AAATTTAA
Found at i:23618153 original size:14 final size:15
Alignment explanation
Indices: 23618099--23618153 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 15
23618089 AATTAAAATT
* **
23618099 AAATTTTAAAATTTG
1 AAATTTAAAAATTAA
* *
23618114 AAATATAAAAATTTA
1 AAATTTAAAAATTAA
23618129 AAATTTAAAAA-TAA
1 AAATTTAAAAATTAA
23618143 AAATTTAAAAA
1 AAATTTAAAAA
23618154 AATTTCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
14 13 0.37
15 22 0.63
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (15 bp):
AAATTTAAAAATTAA
Found at i:23618984 original size:27 final size:28
Alignment explanation
Indices: 23618937--23618992 Score: 80
Period size: 27 Copynumber: 2.0 Consensus size: 28
23618927 TAAATTCAAG
23618937 ATATTTATAAAAATTCCAAAA-ATTATAT
1 ATATTTATAAAAATTCCAAAAGA-TATAT
*
23618965 ATATTT-TAAAAATTCTAAAAGATATAT
1 ATATTTATAAAAATTCCAAAAGATATAT
23618992 A
1 A
23618993 AAAAAGTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 19 0.73
28 7 0.27
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.39
Consensus pattern (28 bp):
ATATTTATAAAAATTCCAAAAGATATAT
Found at i:23625026 original size:128 final size:128
Alignment explanation
Indices: 23624798--23625309 Score: 1006
Period size: 128 Copynumber: 4.0 Consensus size: 128
23624788 TTAATTTTAA
* *
23624798 AAGGAATATACCAAAAACTTTCATGCCAAGAGTTTGAATAAACTAAGTAAAATTTCTTTAAAAAG
1 AAGGAATATACTAAAAACTTTCATGCCAAGAGTTTGAATAAACCAAGTAAAATTTCTTTAAAAAG
23624863 GGTGATTTGTTTACGGTAACGAGGCTAAATTTGGCAGTGAAGAAAGGTGTTAGGACCTACTAC
66 GGTGATTTGTTTACGGTAACGAGGCTAAATTTGGCAGTGAAGAAAGGTGTTAGGACCTACTAC
23624926 AAGGAATATACTAAAAACTTTCATGCCAAGAGTTTGAATAAACCAAGTAAAATTTCTTTAAAAAG
1 AAGGAATATACTAAAAACTTTCATGCCAAGAGTTTGAATAAACCAAGTAAAATTTCTTTAAAAAG
23624991 GGTGATTTGTTTACGGTAACGAGGCTAAATTTGGCAGTGAAGAAAGGTGTTAGGACCTACTAC
66 GGTGATTTGTTTACGGTAACGAGGCTAAATTTGGCAGTGAAGAAAGGTGTTAGGACCTACTAC
23625054 AAGGAATATACTAAAAACTTTCATGCCAAGAGTTTGAATAAACCAAGTAAAATTTCTTTAAAAAG
1 AAGGAATATACTAAAAACTTTCATGCCAAGAGTTTGAATAAACCAAGTAAAATTTCTTTAAAAAG
23625119 GGTGATTTGTTTACGGTAACGAGGCTAAATTTGGCAGTGAAGAAAGGTGTTAGGACCTACTAC
66 GGTGATTTGTTTACGGTAACGAGGCTAAATTTGGCAGTGAAGAAAGGTGTTAGGACCTACTAC
23625182 AAGGAATATACTAAAAACTTTCATGCCAAGAGTTTGAATAAACCAAGTAAAATTTCTTTAAAAAG
1 AAGGAATATACTAAAAACTTTCATGCCAAGAGTTTGAATAAACCAAGTAAAATTTCTTTAAAAAG
23625247 GGTGATTTGTTTACGGTAACGAGGCTAAATTTGGCAGTGAAGAAAGGTGTTAGGACCTACTAC
66 GGTGATTTGTTTACGGTAACGAGGCTAAATTTGGCAGTGAAGAAAGGTGTTAGGACCTACTAC
23625310 GTCCTTTTTT
Statistics
Matches: 382, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
128 382 1.00
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.28
Consensus pattern (128 bp):
AAGGAATATACTAAAAACTTTCATGCCAAGAGTTTGAATAAACCAAGTAAAATTTCTTTAAAAAG
GGTGATTTGTTTACGGTAACGAGGCTAAATTTGGCAGTGAAGAAAGGTGTTAGGACCTACTAC
Found at i:23626180 original size:18 final size:18
Alignment explanation
Indices: 23626141--23626182 Score: 59
Period size: 17 Copynumber: 2.3 Consensus size: 18
23626131 TGTAATAATT
*
23626141 TTATATATTTTTTATTTA
1 TTATATATTTTTTATATA
23626159 TTATA-ATTTTTTATATA
1 TTATATATTTTTTATATA
23626176 GTTATAT
1 -TTATAT
23626183 TAACATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (18 bp):
TTATATATTTTTTATATA
Found at i:23630250 original size:16 final size:16
Alignment explanation
Indices: 23630227--23630282 Score: 76
Period size: 16 Copynumber: 3.5 Consensus size: 16
23630217 CGTTTGGTTC
23630227 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
* **
23630243 GTTGTAATTAAATAGA
1 GCTGTAATGGAATAGA
*
23630259 ACTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
23630275 GCTGTAAT
1 GCTGTAAT
23630283 AAGTAATTCA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.30
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:23630469 original size:133 final size:134
Alignment explanation
Indices: 23630229--23630501 Score: 404
Period size: 133 Copynumber: 2.0 Consensus size: 134
23630219 TTTGGTTCGC
* * *
23630229 TGTAATGGAATAGAGTTGTAATTAAATAGAACTGTAATGGAATAGAGCTGTAATAAGTAATTCAA
1 TGTAATGGAATAGAGCTCTAATTAAATAGAACTGTAATGGAATAGAGCTATAATAAGTAATTCAA
* * *
23630294 TTATTTGGTTGAATAGAATGGAATAGAACTGTAATAGTATTCTTGTGTTTGGTTGAATGGAAT-G
66 TTATTTGGTTGAATAGAATGAAATAGAACTGTAATAGAATTCTTGTGTTTGGTTGAACGGAATAG
23630358 ATGT
131 ATGT
* * * * *
23630362 TGTAATGGAATAGGGCTCTAATTGAATAGAATTGTAATGGGATAGAGCTATAATCAGTAATTCAA
1 TGTAATGGAATAGAGCTCTAATTAAATAGAACTGTAATGGAATAGAGCTATAATAAGTAATTCAA
* **
23630427 TTATTTGGTTGAATGGAATGAAATAGAGTTGTAATAGAATTCTTGTGTTTGGTTGAACGGAATAG
66 TTATTTGGTTGAATAGAATGAAATAGAACTGTAATAGAATTCTTGTGTTTGGTTGAACGGAATAG
23630492 ATGT
131 ATGT
*
23630496 CGTAAT
1 TGTAAT
23630502 AGTATAAGAA
Statistics
Matches: 124, Mismatches: 15, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
133 114 0.92
134 10 0.08
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.36
Consensus pattern (134 bp):
TGTAATGGAATAGAGCTCTAATTAAATAGAACTGTAATGGAATAGAGCTATAATAAGTAATTCAA
TTATTTGGTTGAATAGAATGAAATAGAACTGTAATAGAATTCTTGTGTTTGGTTGAACGGAATAG
ATGT
Found at i:23630596 original size:25 final size:26
Alignment explanation
Indices: 23630562--23630613 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
23630552 TAGGTAGATG
*
23630562 ATTATTGTT-ATTAAATTTTAATAAA
1 ATTATTGTTAAATAAATTTTAATAAA
*
23630587 ATTATTGTTAAATATATTTTAATAAA
1 ATTATTGTTAAATAAATTTTAATAAA
23630613 A
1 A
23630614 ATAAATAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 9 0.38
26 15 0.62
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (26 bp):
ATTATTGTTAAATAAATTTTAATAAA
Found at i:23630637 original size:55 final size:57
Alignment explanation
Indices: 23630571--23630684 Score: 151
Period size: 55 Copynumber: 2.0 Consensus size: 57
23630561 GATTATTGTT
* * * *
23630571 ATTAAATTTTAATAAAATTATTGTTAAATATATTTTAAT-AAA-AATAAATAATTTA
1 ATTAAATTTTAACAAAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTA
* * *
23630626 ATTATATTTTAACATAATTATTATTAAATACAATTTAATAAAATAATATATAATTTA
1 ATTAAATTTTAACAAAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTA
23630683 AT
1 AT
23630685 AGCATTCCTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
55 33 0.66
56 3 0.06
57 14 0.28
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.46
Consensus pattern (57 bp):
ATTAAATTTTAACAAAATTATTATTAAATACAATTTAATAAAATAATAAATAATTTA
Found at i:23630723 original size:13 final size:13
Alignment explanation
Indices: 23630705--23630738 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
23630695 ATATAATTAT
23630705 TAATAATATTTAA
1 TAATAATATTTAA
23630718 TAATAAT-TTTAA
1 TAATAATATTTAA
23630730 T-ATAATATT
1 TAATAATATT
23630739 ATTATTAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 5 0.25
12 8 0.40
13 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TAATAATATTTAA
Found at i:23630910 original size:75 final size:75
Alignment explanation
Indices: 23630787--23630926 Score: 253
Period size: 75 Copynumber: 1.9 Consensus size: 75
23630777 AATCTAGCAT
*
23630787 CTCACATGTTCTTTTAGGTCACAATAGCCAATATAAAAATGAGTTTAACATACGGTATGATAATC
1 CTCACATGTTCTCTTAGGTCACAATAGCCAATATAAAAATGAGTTTAACATACGGTATGATAATC
23630852 CTTTAATAAC
66 CTTTAATAAC
* *
23630862 CTCACCTGTTCTCTTAGGTCACAATAGTCAATATAAAAATGAGTTTAACATACGGTATGATAATC
1 CTCACATGTTCTCTTAGGTCACAATAGCCAATATAAAAATGAGTTTAACATACGGTATGATAATC
23630927 ACTACAGTAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 62 1.00
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (75 bp):
CTCACATGTTCTCTTAGGTCACAATAGCCAATATAAAAATGAGTTTAACATACGGTATGATAATC
CTTTAATAAC
Found at i:23631432 original size:144 final size:144
Alignment explanation
Indices: 23631234--23631493 Score: 348
Period size: 144 Copynumber: 1.8 Consensus size: 144
23631224 CAAGAATTAG
* *
23631234 CGGCGATTCTTATAAAACGCCGCAAAAAATTGTGCAAAACAACTCCGTTTTTTTTTC-TTTTATT
1 CGGCGATTCTTATAAAACGCCGCAAAAAATTGTGCAAAACAACTCCG-TTTTTTTTCACTATATT
* *
23631298 GGTTTAGTGGCGCTTTTTAAAAAATGCCACAATATATTGGG-CTTTAGCGGCCCTAAGGTGAAAA
65 GCTTTAGTGGCGCTTTTTAAAAAATGCCACAATAGATTGGGACTTTAGCGGCCCTAAGGTGAAAA
23631362 CACCGCTATAGATTC
130 CACCGCTATAGATTC
* * * *
23631377 CGGCGTTTCTTGTAAAAACGCCGCAAAAAATT-TAAGCAAAACGACTTCG-TTTTTTTCACTATA
1 CGGCGATTCTTAT-AAAACGCCGCAAAAAATTGT--GCAAAACAACTCCGTTTTTTTTCACTATA
* ** *
23631440 TTTCTTTAGTGGCGCTTTTTACTAAATGCCGCAATAGATTGGGACTTTAGCGGC
63 TTGCTTTAGTGGCGCTTTTTAAAAAATGCCACAATAGATTGGGACTTTAGCGGC
23631494 GCGTTTTACT
Statistics
Matches: 100, Mismatches: 12, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
143 20 0.20
144 58 0.58
145 22 0.22
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.33
Consensus pattern (144 bp):
CGGCGATTCTTATAAAACGCCGCAAAAAATTGTGCAAAACAACTCCGTTTTTTTTCACTATATTG
CTTTAGTGGCGCTTTTTAAAAAATGCCACAATAGATTGGGACTTTAGCGGCCCTAAGGTGAAAAC
ACCGCTATAGATTC
Found at i:23631808 original size:20 final size:20
Alignment explanation
Indices: 23631733--23631808 Score: 73
Period size: 20 Copynumber: 3.8 Consensus size: 20
23631723 TATTTTAGGA
* *
23631733 TTAGGGTTTTGAGTTTAGGGT
1 TTAGGGTTTAG-GTTTAAGGT
* * *
23631754 TTATGGTGTAGGTTTAAGGC
1 TTAGGGTTTAGGTTTAAGGT
23631774 TT-GGGTTTGAGGTTTAAGGT
1 TTAGGGTTT-AGGTTTAAGGT
*
23631794 TTAGGGTTTATGTTT
1 TTAGGGTTTAGGTTT
23631809 TAGTGTTAAG
Statistics
Matches: 44, Mismatches: 9, Indels: 5
0.76 0.16 0.09
Matches are distributed among these distances:
19 4 0.09
20 26 0.59
21 14 0.32
ACGTcount: A:0.16, C:0.01, G:0.36, T:0.47
Consensus pattern (20 bp):
TTAGGGTTTAGGTTTAAGGT
Found at i:23633561 original size:31 final size:31
Alignment explanation
Indices: 23633523--23633602 Score: 126
Period size: 31 Copynumber: 2.6 Consensus size: 31
23633513 TTGGATTTTA
23633523 ATTGGTTTTTG-TAGCTAAGATGGTACCTTCT
1 ATTGGTTTTTGCT-GCTAAGATGGTACCTTCT
*
23633554 ATTGGTTTTTGCTGCTAAGATGGTACCTTTT
1 ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
*
23633585 ATTGATTTTTGCTGCTAA
1 ATTGGTTTTTGCTGCTAA
23633603 ATCAACCATG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
31 45 0.98
32 1 0.02
ACGTcount: A:0.19, C:0.12, G:0.21, T:0.47
Consensus pattern (31 bp):
ATTGGTTTTTGCTGCTAAGATGGTACCTTCT
Found at i:23634478 original size:13 final size:13
Alignment explanation
Indices: 23634446--23634479 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
23634436 TCTTAATAAT
23634446 AATATTA-TATTA
1 AATATTATTATTA
23634458 AA-ATTATTATTA
1 AATATTATTATTA
23634470 AATATTATTA
1 AATATTATTA
23634480 ATAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 9 0.45
13 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTATTATTA
Found at i:23634578 original size:55 final size:57
Alignment explanation
Indices: 23634500--23634608 Score: 150
Period size: 55 Copynumber: 1.9 Consensus size: 57
23634490 TAGGAATGCT
* * * *
23634500 ATTAAATTATATATTATTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATA
1 ATTAAATTATATATTATTTTATTAAAATATATTTAACAATAATTATATTAAAATATA
* *
23634557 ATTAAATTATTTA-T-TTTTATTAAAATATATTTAACAATAATTTTATTAAAAT
1 ATTAAATTATATATTATTTTATTAAAATATATTTAACAATAATTATATTAAAAT
23634609 TTAACCATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
55 33 0.72
56 1 0.02
57 12 0.26
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (57 bp):
ATTAAATTATATATTATTTTATTAAAATATATTTAACAATAATTATATTAAAATATA
Found at i:23634607 original size:26 final size:25
Alignment explanation
Indices: 23634515--23634608 Score: 80
Period size: 26 Copynumber: 3.5 Consensus size: 25
23634505 ATTATATATT
* *
23634515 ATTTTATTAAATTGTATTTAATAATA
1 ATTTTATTAAAATATATTTAA-AATA
* * *
23634541 ATTATGTTAAAATATAATTAAATTATTTA
1 ATTTTATTAAAATATATTTAAA--A--TA
*
23634570 TTTTTATTAAAATATATTTAACAATA
1 ATTTTATTAAAATATATTTAA-AATA
23634596 ATTTTATTAAAAT
1 ATTTTATTAAAAT
23634609 TTAACCATTT
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
25 1 0.02
26 30 0.57
27 1 0.02
28 1 0.02
29 19 0.36
30 1 0.02
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (25 bp):
ATTTTATTAAAATATATTTAAAATA
Found at i:23635844 original size:3 final size:3
Alignment explanation
Indices: 23635836--23636649 Score: 1628
Period size: 3 Copynumber: 271.3 Consensus size: 3
23635826 AGTACCTGGC
23635836 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23635884 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23635932 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23635980 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23636028 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23636076 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23636124 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23636172 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23636220 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23636268 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23636316 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23636364 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23636412 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23636460 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23636508 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23636556 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
23636604 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
23636650 GTGATGTTAT
Statistics
Matches: 811, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 811 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:23639761 original size:14 final size:14
Alignment explanation
Indices: 23639742--23639776 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
23639732 TGCATATTCA
*
23639742 GATATGGGTATGTG
1 GATATGAGTATGTG
*
23639756 GATATGATTATGTG
1 GATATGAGTATGTG
23639770 GATATGA
1 GATATGA
23639777 TTTGGATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.34, T:0.37
Consensus pattern (14 bp):
GATATGAGTATGTG
Found at i:23639777 original size:14 final size:14
Alignment explanation
Indices: 23639750--23639778 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
23639740 CAGATATGGG
23639750 TATGTGGATATGAT
1 TATGTGGATATGAT
23639764 TATGTGGATATGAT
1 TATGTGGATATGAT
23639778 T
1 T
23639779 TGGATTCATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.28, T:0.45
Consensus pattern (14 bp):
TATGTGGATATGAT
Found at i:23644416 original size:5 final size:5
Alignment explanation
Indices: 23644410--23644579 Score: 322
Period size: 5 Copynumber: 33.8 Consensus size: 5
23644400 ATATAATCTT
*
23644410 AAATT AAATAA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
1 AAATA AAAT-A AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
23644461 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
23644511 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA AAATA
23644561 AAATA AAATA AAATA AAAT
1 AAATA AAATA AAATA AAAT
23644580 TATTCTCTTT
Statistics
Matches: 163, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
5 159 0.98
6 4 0.02
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAATA
Found at i:23644778 original size:15 final size:15
Alignment explanation
Indices: 23644755--23644798 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
23644745 CAAACAAGAC
*
23644755 CTTAGTTTTTCAATA
1 CTTAATTTTTCAATA
* *
23644770 CTTAATTTTTTAGTA
1 CTTAATTTTTCAATA
23644785 CTTAATTTTTCAAT
1 CTTAATTTTTCAAT
23644799 TTATCAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.57
Consensus pattern (15 bp):
CTTAATTTTTCAATA
Found at i:23644844 original size:20 final size:20
Alignment explanation
Indices: 23644822--23644858 Score: 67
Period size: 19 Copynumber: 1.9 Consensus size: 20
23644812 CTTAAGTCTA
23644822 AAAAAAACCA-CCACTTACT
1 AAAAAAACCACCCACTTACT
23644841 AAAAAAACCACCCACTTA
1 AAAAAAACCACCCACTTA
23644859 GAAACTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.54, C:0.32, G:0.00, T:0.14
Consensus pattern (20 bp):
AAAAAAACCACCCACTTACT
Found at i:23650345 original size:15 final size:16
Alignment explanation
Indices: 23650307--23650346 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
23650297 GACTTATGTG
23650307 ATATATGTGATGATTT
1 ATATATGTGATGATTT
* *
23650323 AAACATGTGA-GATTT
1 ATATATGTGATGATTT
23650338 ATATATGTG
1 ATATATGTG
23650347 TAAGCTAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (16 bp):
ATATATGTGATGATTT
Found at i:23650592 original size:49 final size:51
Alignment explanation
Indices: 23650534--23650683 Score: 187
Period size: 49 Copynumber: 3.0 Consensus size: 51
23650524 AAGGTGGAAG
23650534 CAGTGGTAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAA-T-TTAT
1 CAGTGGTAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
* * * * *
23650583 TAGTTGTAGTATATTTGCATATCAGTGGTAGCTTGTCCACAAAAGTGTTAT
1 CAGTGGTAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
* * * * *
23650634 CAGTGGCAGTTTATCTACAATTCAGTGGTGGCTTATCCACAAAAGGTGTT
1 CAGTGGTAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAA-GTGTT
23650684 TCGAATGTAC
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
49 39 0.47
50 1 0.01
51 38 0.46
52 5 0.06
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.35
Consensus pattern (51 bp):
CAGTGGTAGTATATCTGCAAATCAGTGGTGGCTTGTCCACAAAAGTGTTAT
Found at i:23651033 original size:29 final size:29
Alignment explanation
Indices: 23651000--23651061 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 29
23650990 GTTTTCTTGA
23651000 TTATGGAC-TT-TCATTTTATTTTGGGACTT
1 TTATGGACTTTATCATTTTA-TTTGGG-CTT
*
23651029 TTATGGACTTTATGATTTTATTTGGGCTT
1 TTATGGACTTTATCATTTTATTTGGGCTT
23651058 TTAT
1 TTAT
23651062 TTTTGTGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 15 0.50
30 8 0.27
31 7 0.23
ACGTcount: A:0.18, C:0.08, G:0.18, T:0.56
Consensus pattern (29 bp):
TTATGGACTTTATCATTTTATTTGGGCTT
Found at i:23653020 original size:16 final size:17
Alignment explanation
Indices: 23652989--23653021 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
23652979 TACCATTTCG
*
23652989 TAACTAAACAACATTTT
1 TAACCAAACAACATTTT
23653006 TAACCAAAC-ACATTTT
1 TAACCAAACAACATTTT
23653022 ACTTGCTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.33
Consensus pattern (17 bp):
TAACCAAACAACATTTT
Found at i:23654047 original size:32 final size:32
Alignment explanation
Indices: 23653992--23654406 Score: 408
Period size: 32 Copynumber: 13.0 Consensus size: 32
23653982 AATCAAATCA
* *
23653992 GCAATAT-A-TATACAAATAAAATTCAATTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
* *
23654022 ACAATATAAGTATACATATATAATTCAATT--
1 GCAATATAAGTATACATATACAATTCAATTCG
* * * *
23654052 -CAATAATAGGTGCATACCTATACAATTCATTTTG
1 GCAAT-ATAAGT--ATACATATACAATTCAATTCG
* *
23654086 GCAATATAAGTATATATATACATTTCAATTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
*** *
23654118 GCAATAGGTGTATACCTATACAATTCAATTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
* *
23654150 GCAATATAAGTATATATATACATTTCAATTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
*** * *
23654182 GCAATAGGTGTATACCTATACAATTCATTTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
* * *
23654214 GCAATATAAGTATATATATACATTTAAATTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
*** *
23654246 GCAATAGGTGTATACCTATACAATTCAATTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
* *
23654278 GCAATATAAGTATATATATACATTTCAATTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
*** *
23654310 GCAATAGGTGTATACCTATACAATTCAATTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
* *
23654342 GCAATATAAGTATATATATACATTTCAATTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
*** *
23654374 GCAATAGGTGTATACCTATACAATTCAATTCG
1 GCAATATAAGTATACATATACAATTCAATTCG
23654406 G
1 G
23654407 TGATGTATAT
Statistics
Matches: 306, Mismatches: 71, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
29 4 0.01
30 11 0.04
31 1 0.00
32 281 0.92
34 5 0.02
35 4 0.01
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.34
Consensus pattern (32 bp):
GCAATATAAGTATACATATACAATTCAATTCG
Found at i:23654091 original size:64 final size:64
Alignment explanation
Indices: 23654011--23654406 Score: 684
Period size: 64 Copynumber: 6.2 Consensus size: 64
23654001 ATACAAATAA
* * * * *** *
23654011 AATTCAATTCGACAATATAAGTATACATATATAATTCAATTCAATAATAGGTGCATACCTATAC
1 AATTCAATTCGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
* *
23654075 AATTCATTTTGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
1 AATTCAATTCGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
23654139 AATTCAATTCGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
1 AATTCAATTCGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
* *
23654203 AATTCATTTCGGCAATATAAGTATATATATACATTTAAATTCGGCAATAGGTGTATACCTATAC
1 AATTCAATTCGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
23654267 AATTCAATTCGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
1 AATTCAATTCGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
23654331 AATTCAATTCGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
1 AATTCAATTCGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
23654395 AATTCAATTCGG
1 AATTCAATTCGG
23654407 TGATGTATAT
Statistics
Matches: 316, Mismatches: 16, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 316 1.00
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (64 bp):
AATTCAATTCGGCAATATAAGTATATATATACATTTCAATTCGGCAATAGGTGTATACCTATAC
Found at i:23662696 original size:35 final size:35
Alignment explanation
Indices: 23662657--23662726 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
23662647 CCTTTCAGTG
23662657 CTCTTTCCCTTGTAATCTCGACTTCTCAGTATCAC
1 CTCTTTCCCTTGTAATCTCGACTTCTCAGTATCAC
23662692 CTCTTTCCCTTGTAATCTCGACTTCTCAGTATCAC
1 CTCTTTCCCTTGTAATCTCGACTTCTCAGTATCAC
23662727 TTGGCAGGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.17, C:0.34, G:0.09, T:0.40
Consensus pattern (35 bp):
CTCTTTCCCTTGTAATCTCGACTTCTCAGTATCAC
Found at i:23668517 original size:19 final size:18
Alignment explanation
Indices: 23668474--23668519 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
23668464 AGATTGTATC
23668474 CATGTATCTGTGACGTTA
1 CATGTATCTGTGACGTTA
* *
23668492 GATTGTATCTGTGACGTTTT
1 CA-TGTATCTGTGACG-TTA
23668512 CATGTATC
1 CATGTATC
23668520 CATTTTAAGG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
18 1 0.04
19 19 0.83
20 3 0.13
ACGTcount: A:0.20, C:0.15, G:0.22, T:0.43
Consensus pattern (18 bp):
CATGTATCTGTGACGTTA
Found at i:23674026 original size:22 final size:22
Alignment explanation
Indices: 23674001--23674055 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
23673991 AGAACTCTAA
*
23674001 TTAACCTAAACAAGAAGTAGTT
1 TTAAACTAAACAAGAAGTAGTT
23674023 TTAAACTAAACAAGAAGTAGTT
1 TTAAACTAAACAAGAAGTAGTT
23674045 TTAAACTAAAC
1 TTAAACTAAAC
23674056 TTTCTTGTTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.49, C:0.13, G:0.11, T:0.27
Consensus pattern (22 bp):
TTAAACTAAACAAGAAGTAGTT
Found at i:23679199 original size:73 final size:73
Alignment explanation
Indices: 23679112--23679412 Score: 577
Period size: 73 Copynumber: 4.1 Consensus size: 73
23679102 GAATGAATCC
*
23679112 CAAACCATCCATTCCCTCT-AACCCTTCTCCCTTGAATCAAGCATGAATCAAGCTAATATCCTTC
1 CAAACCATCTATTCCCT-TGAACCCTTCTCCCTTGAATCAAGCATGAATCAAGCTAATATCCTTC
23679176 CCAAAATAG
65 CCAAAATAG
23679185 CAAACCATCTATTCCCTTGAACCCTTCTCCCTTGAATCAAGCATGAATCAAGCTAATATCCTTCC
1 CAAACCATCTATTCCCTTGAACCCTTCTCCCTTGAATCAAGCATGAATCAAGCTAATATCCTTCC
23679250 CAAAATAG
66 CAAAATAG
23679258 CAAACCATCTATTCCCTTGAACCCTTCTCCCTTGAATCAAGCATGAATCAAGCTAATATCCTTCC
1 CAAACCATCTATTCCCTTGAACCCTTCTCCCTTGAATCAAGCATGAATCAAGCTAATATCCTTCC
23679323 CAAAATAG
66 CAAAATAG
23679331 CAAACCATCTATTCCCTTGAACCCTTCTCCCTTGAATCAAGCATGAATCAAGCTAATATCCTTCC
1 CAAACCATCTATTCCCTTGAACCCTTCTCCCTTGAATCAAGCATGAATCAAGCTAATATCCTTCC
23679396 CAAAATAG
66 CAAAATAG
23679404 CAAACCATC
1 CAAACCATC
23679413 CACCCACCTT
Statistics
Matches: 226, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
72 1 0.00
73 225 1.00
ACGTcount: A:0.33, C:0.33, G:0.08, T:0.27
Consensus pattern (73 bp):
CAAACCATCTATTCCCTTGAACCCTTCTCCCTTGAATCAAGCATGAATCAAGCTAATATCCTTCC
CAAAATAG
Found at i:23681482 original size:18 final size:18
Alignment explanation
Indices: 23681459--23681495 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
23681449 TGCGGCTTGG
23681459 TTCGACTGTAGATCAGAC
1 TTCGACTGTAGATCAGAC
23681477 TTCGACTGTAGATCAGAC
1 TTCGACTGTAGATCAGAC
23681495 T
1 T
23681496 ACACGTTGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.30
Consensus pattern (18 bp):
TTCGACTGTAGATCAGAC
Found at i:23688626 original size:17 final size:19
Alignment explanation
Indices: 23688604--23688642 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 19
23688594 GGTAAGATTA
23688604 TGATTTGT-TCCATGA-AT
1 TGATTTGTGTCCATGATAT
*
23688621 TGATTTGTGTTCATGATAT
1 TGATTTGTGTCCATGATAT
23688640 TGA
1 TGA
23688643 ATATCGAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 6 0.32
19 5 0.26
ACGTcount: A:0.23, C:0.08, G:0.21, T:0.49
Consensus pattern (19 bp):
TGATTTGTGTCCATGATAT
Found at i:23689994 original size:19 final size:19
Alignment explanation
Indices: 23689970--23690014 Score: 90
Period size: 19 Copynumber: 2.4 Consensus size: 19
23689960 GATAAAACCA
23689970 TATCATTTTCCTTTTTACT
1 TATCATTTTCCTTTTTACT
23689989 TATCATTTTCCTTTTTACT
1 TATCATTTTCCTTTTTACT
23690008 TATCATT
1 TATCATT
23690015 CAACATTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.18, C:0.20, G:0.00, T:0.62
Consensus pattern (19 bp):
TATCATTTTCCTTTTTACT
Found at i:23696015 original size:51 final size:51
Alignment explanation
Indices: 23695890--23696025 Score: 186
Period size: 50 Copynumber: 2.7 Consensus size: 51
23695880 AGTGAAAATG
* *
23695890 ATGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACTAGAATGAT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTAGAATGAT
* * * *
23695941 A-GGTCGCATGTGTAGTACTATGTGCAGGCTACTACGTGTA-TCGGATGGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTAGAATGAT
*
23695990 AATGGTCACATGTGTAGTACAATGTGCAGGCTACTA
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
23696026 TGTGAACCGA
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
49 6 0.08
50 37 0.49
51 32 0.43
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACTAGAATGAT
Found at i:23696089 original size:45 final size:45
Alignment explanation
Indices: 23696038--23696124 Score: 147
Period size: 45 Copynumber: 1.9 Consensus size: 45
23696028 TGAACCGAAC
* *
23696038 ATCATTGATTAGTAAGGTGGTTGCTATATGCTGATTCCACCGGAT
1 ATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCCACCGGAT
*
23696083 ATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCG
1 ATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCCACCG
23696125 AGTATCTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (45 bp):
ATCATTGATTAATAAGGTGGTTGCTATATGCTGAATCCACCGGAT
Found at i:23699006 original size:4 final size:4
Alignment explanation
Indices: 23698997--23699060 Score: 119
Period size: 4 Copynumber: 15.8 Consensus size: 4
23698987 CATCAATTTG
23698997 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
23699045 ATGT ATGT ATGAT ATG
1 ATGT ATGT ATG-T ATG
23699061 AAATAGGTAA
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
4 55 0.93
5 4 0.07
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:23701287 original size:18 final size:18
Alignment explanation
Indices: 23701264--23701321 Score: 68
Period size: 17 Copynumber: 3.3 Consensus size: 18
23701254 TATTGAGGTT
23701264 AAATACAACTCAAATATA
1 AAATACAACTCAAATATA
*
23701282 AAATAC-TCATCAAA-ATA
1 AAATACAAC-TCAAATATA
*
23701299 AAAT-TAACTCAAATATA
1 AAATACAACTCAAATATA
23701316 AAATAC
1 AAATAC
23701322 TCATCAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 5 0.16
17 16 0.50
18 11 0.34
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (18 bp):
AAATACAACTCAAATATA
Found at i:23701308 original size:19 final size:17
Alignment explanation
Indices: 23701273--23701336 Score: 78
Period size: 17 Copynumber: 3.7 Consensus size: 17
23701263 TAAATACAAC
23701273 TCAAATATAAAATACTCA
1 TCAAA-ATAAAATACTCA
23701291 TCAAAATAAAATTAACTCA
1 TCAAAATAAAA-T-ACTCA
*
23701310 --AATATAAAATACTCA
1 TCAAAATAAAATACTCA
23701325 TCAAAATAAAAT
1 TCAAAATAAAAT
23701337 TTTGGTTGAA
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
15 5 0.12
16 1 0.03
17 23 0.57
18 6 0.15
19 5 0.12
ACGTcount: A:0.59, C:0.14, G:0.00, T:0.27
Consensus pattern (17 bp):
TCAAAATAAAATACTCA
Found at i:23701311 original size:34 final size:34
Alignment explanation
Indices: 23701270--23701337 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
23701260 GGTTAAATAC
23701270 AACTCAAATATAAAATACTCATCAAAATAAAATT
1 AACTCAAATATAAAATACTCATCAAAATAAAATT
23701304 AACTCAAATATAAAATACTCATCAAAATAAAATT
1 AACTCAAATATAAAATACTCATCAAAATAAAATT
23701338 TTGGTTGAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.59, C:0.15, G:0.00, T:0.26
Consensus pattern (34 bp):
AACTCAAATATAAAATACTCATCAAAATAAAATT
Found at i:23711848 original size:17 final size:17
Alignment explanation
Indices: 23711822--23711857 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
23711812 TCCCCAAGTG
23711822 TTAAACCTCCATACATC
1 TTAAACCTCCATACATC
*
23711839 TTAAATCTCCATACATC
1 TTAAACCTCCATACATC
23711856 TT
1 TT
23711858 TAAGAATAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAACCTCCATACATC
Found at i:23721597 original size:42 final size:42
Alignment explanation
Indices: 23721546--23721649 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
23721536 ACCCTAATAG
* * *
23721546 GTTTATGTTCAGCTCTTTTGAAC-TTCTTTTTAACCCTTATGA
1 GTTTCTGTTCAGCTCTTATGAACTTTC-GTTTAACCCTTATGA
* *
23721588 GTTTCTGTTCAGCTCTTATGAGCTTTCGTTTAACCCTTATGG
1 GTTTCTGTTCAGCTCTTATGAACTTTCGTTTAACCCTTATGA
* * *
23721630 GTTTCTATTTAGCACTTATG
1 GTTTCTGTTCAGCTCTTATG
23721650 TGCTTCTGTT
Statistics
Matches: 53, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
42 50 0.94
43 3 0.06
ACGTcount: A:0.17, C:0.19, G:0.15, T:0.48
Consensus pattern (42 bp):
GTTTCTGTTCAGCTCTTATGAACTTTCGTTTAACCCTTATGA
Found at i:23721605 original size:21 final size:21
Alignment explanation
Indices: 23721581--23721663 Score: 69
Period size: 21 Copynumber: 4.0 Consensus size: 21
23721571 CTTTTTAACC
*
23721581 CTTATGAGTTTCTGTTCAGCT
1 CTTATGAGTTTCTGTTCAGCA
* * *
23721602 CTTATGAGCTTTC-GTTTAACC
1 CTTATGAG-TTTCTGTTCAGCA
* * *
23721623 CTTATGGGTTTCTATTTAGCA
1 CTTATGAGTTTCTGTTCAGCA
* *
23721644 CTTATGTGCTTCTGTTCAGC
1 CTTATGAGTTTCTGTTCAGC
23721664 CTTCGGGATT
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
20 4 0.08
21 41 0.84
22 4 0.08
ACGTcount: A:0.16, C:0.20, G:0.18, T:0.46
Consensus pattern (21 bp):
CTTATGAGTTTCTGTTCAGCA
Found at i:23724427 original size:28 final size:29
Alignment explanation
Indices: 23724363--23724431 Score: 79
Period size: 28 Copynumber: 2.4 Consensus size: 29
23724353 TTGACAGAGA
*
23724363 TCACCACAAAGGTGTGTTCTTTCAAAGAT
1 TCACCACAAAGGTGTGTCCTTTCAAAGAT
** *
23724392 TTGCCACAAAGGT-TGTCCTTT-AATAGGT
1 TCACCACAAAGGTGTGTCCTTTCAA-AGAT
23724420 TCACCACAAAGG
1 TCACCACAAAGG
23724432 CTTACCTTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 2 0.06
28 20 0.61
29 11 0.33
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (29 bp):
TCACCACAAAGGTGTGTCCTTTCAAAGAT
Found at i:23724456 original size:57 final size:57
Alignment explanation
Indices: 23724312--23724586 Score: 238
Period size: 57 Copynumber: 4.8 Consensus size: 57
23724302 GAGATTGCCT
* * * * *
23724312 CAAAGGCTTTCCTATCTAGAG-TTTTCCACAGAGGCTT-TCCTTTGACAGAGATCACCA
1 CAAAGGCTTACCTTTCTAGAGTTTTTCCACAAAGG-TTGTCCTTTAACAG-GTTCACCA
** * * * *
23724369 CAAAGG-TGTGTTCTTTC-AAAGATTTGCCACAAAGGTTGTCCTTTAATAGGTTCACCA
1 CAAAGGCT-T-ACCTTTCTAGAGTTTTTCCACAAAGGTTGTCCTTTAACAGGTTCACCA
* **
23724426 CAAAGGCTTACCTTTCTAGAGTTTTTCCACAAATGCTT-TCCTTTAACAGGTT-TGCA
1 CAAAGGCTTACCTTTCTAGAGTTTTTCCACAAA-GGTTGTCCTTTAACAGGTTCACCA
* * * * * *
23724482 AAAAGGCTTACTTTTCTAGAGTTTTTCCATAAAGGATGTCCTTTAACAAGTTCGCCA
1 CAAAGGCTTACCTTTCTAGAGTTTTTCCACAAAGGTTGTCCTTTAACAGGTTCACCA
* * * **
23724539 CAAATGCTTACCTTTCCAGAGTTTTGCCACAAAGAATGTCCTTTAACA
1 CAAAGGCTTACCTTTCTAGAGTTTTTCCACAAAGGTTGTCCTTTAACA
23724587 AAGATTGCCA
Statistics
Matches: 177, Mismatches: 32, Indels: 18
0.78 0.14 0.08
Matches are distributed among these distances:
55 2 0.01
56 51 0.29
57 95 0.54
58 29 0.16
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (57 bp):
CAAAGGCTTACCTTTCTAGAGTTTTTCCACAAAGGTTGTCCTTTAACAGGTTCACCA
Found at i:23724463 original size:29 final size:29
Alignment explanation
Indices: 23724423--23724572 Score: 96
Period size: 29 Copynumber: 5.3 Consensus size: 29
23724413 AATAGGTTCA
23724423 CCACAAAGGCTTACCTTTCTAGAGTTTTT
1 CCACAAAGGCTTACCTTTCTAGAGTTTTT
* * * * *
23724452 CCACAAATGCTTTCCTTT-AACAG-GTTT
1 CCACAAAGGCTTACCTTTCTAGAGTTTTT
* * *
23724479 GCAAAAAGGCTTACTTTTCTAGAGTTTTT
1 CCACAAAGGCTTACCTTTCTAGAGTTTTT
* * **
23724508 CCATAAAGGATGT-CCTTTAAC-A-AG-TTCG
1 CCACAAAGGCT-TACCTTT--CTAGAGTTTTT
* * *
23724536 CCACAAATGCTTACCTTTCCAGAGTTTTG
1 CCACAAAGGCTTACCTTTCTAGAGTTTTT
23724565 CCACAAAG
1 CCACAAAG
23724573 AATGTCCTTT
Statistics
Matches: 88, Mismatches: 24, Indels: 18
0.68 0.18 0.14
Matches are distributed among these distances:
26 1 0.01
27 18 0.20
28 23 0.26
29 43 0.49
30 2 0.02
31 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.34
Consensus pattern (29 bp):
CCACAAAGGCTTACCTTTCTAGAGTTTTT
Found at i:23724810 original size:53 final size:52
Alignment explanation
Indices: 23724723--23724881 Score: 194
Period size: 53 Copynumber: 3.0 Consensus size: 52
23724713 TTAATTTTTC
23724723 CTATATGATGCCATAACCCACCAATTACAATCTTACACGATATGGTCTTCTTT
1 CTATATGATGCCATAACCCACC-ATTACAATCTTACACGATATGGTCTTCTTT
* * ** * *
23724776 CTATATCATGCCATAACCCACTAGTTACGGTCTTACA-TAGTATGGTATTCTTT
1 CTATATGATGCCATAACCCACCA-TTACAATCTTACACGA-TATGGTCTTCTTT
* * * *
23724829 CCATATGATGACATAACCCACCATTACAATCTTTCACGATACGGTCTTCTTT
1 CTATATGATGCCATAACCCACCATTACAATCTTACACGATATGGTCTTCTTT
23724881 C
1 C
23724882 CTATTTATAA
Statistics
Matches: 87, Mismatches: 16, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
52 24 0.28
53 63 0.72
ACGTcount: A:0.28, C:0.26, G:0.11, T:0.35
Consensus pattern (52 bp):
CTATATGATGCCATAACCCACCATTACAATCTTACACGATATGGTCTTCTTT
Found at i:23732399 original size:17 final size:17
Alignment explanation
Indices: 23732377--23732409 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23732367 TAGAATTAGG
23732377 TTGAGAAGATT-ATTTAA
1 TTGAGAA-ATTAATTTAA
23732394 TTGAGAAATTAATTTA
1 TTGAGAAATTAATTTA
23732410 TTAACTTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.42
Consensus pattern (17 bp):
TTGAGAAATTAATTTAA
Found at i:23734648 original size:45 final size:45
Alignment explanation
Indices: 23734592--23734679 Score: 113
Period size: 45 Copynumber: 2.0 Consensus size: 45
23734582 TAATTTGGAC
** *
23734592 AAAAAAATTTAAATTTAAATATAAAAATAATTATCAAGTTTAAAT
1 AAAAAAATTTAAACCTAAATATAAAAATAATTATCAAATTTAAAT
* * * *
23734637 AAAAAGATTTAAACCTAAATTTAAACATAATTATTAAATTTAA
1 AAAAAAATTTAAACCTAAATATAAAAATAATTATCAAATTTAA
23734680 GAAGTAATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.58, C:0.05, G:0.02, T:0.35
Consensus pattern (45 bp):
AAAAAAATTTAAACCTAAATATAAAAATAATTATCAAATTTAAAT
Found at i:23735296 original size:16 final size:18
Alignment explanation
Indices: 23735275--23735310 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
23735265 TTTTATGTAT
23735275 TATAAAT-T-ATATAATA
1 TATAAATATAATATAATA
23735291 TATAAATATAATATAATA
1 TATAAATATAATATAATA
23735309 TA
1 TA
23735311 AAACATCACT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 1 0.06
18 10 0.56
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TATAAATATAATATAATA
Found at i:23741235 original size:33 final size:33
Alignment explanation
Indices: 23741213--23741284 Score: 90
Period size: 33 Copynumber: 2.2 Consensus size: 33
23741203 GAAACCTTGG
* * *
23741213 GTGAAGAAACTCCATCTGTTCCTCCAATATTCA
1 GTGAAGAAACTCCAGCTGTTCCTCAAACATTCA
***
23741246 GTGAAGAAACTCCAGCTGTTCCTCCGTCATTCA
1 GTGAAGAAACTCCAGCTGTTCCTCAAACATTCA
23741279 GTGAAG
1 GTGAAG
23741285 GAACCACTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (33 bp):
GTGAAGAAACTCCAGCTGTTCCTCAAACATTCA
Found at i:23741300 original size:30 final size:32
Alignment explanation
Indices: 23741213--23741318 Score: 83
Period size: 33 Copynumber: 3.3 Consensus size: 32
23741203 GAAACCTTGG
* * *
23741213 GTGAAGAAACTCCATCTGTTCCTCCAAT-ATTCA
1 GTGAAGAAAC-CCAGCTATTCCTCC-GTCATTCA
*
23741246 GTGAAGAAACTCCAGCTGTTCCTCCGTCATTCA
1 GTGAAGAAAC-CCAGCTATTCCTCCGTCATTCA
* * *
23741279 GTGAAGGAA-CCA-CTATTCCTCCTTCCTTCA
1 GTGAAGAAACCCAGCTATTCCTCCGTCATTCA
* *
23741309 ATGAGGAAAC
1 GTGAAGAAAC
23741319 TCCTACTGTT
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
30 21 0.34
31 3 0.05
32 1 0.02
33 37 0.60
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.27
Consensus pattern (32 bp):
GTGAAGAAACCCAGCTATTCCTCCGTCATTCA
Found at i:23755753 original size:12 final size:12
Alignment explanation
Indices: 23755732--23755792 Score: 53
Period size: 12 Copynumber: 5.4 Consensus size: 12
23755722 TAATAATAAT
23755732 ATTA-TATTAAA
1 ATTATTATTAAA
23755743 ATTATTATT-AA
1 ATTATTATTAAA
23755754 A-TATTATTAATA
1 ATTATTATTAA-A
23755766 ATTA-TATTAAGA
1 ATTATTATTAA-A
*
23755778 A-TGTTATT-AA
1 ATTATTATTAAA
23755788 ATTAT
1 ATTAT
23755793 ATATATTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
10 9 0.22
11 12 0.29
12 18 0.44
13 2 0.05
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.49
Consensus pattern (12 bp):
ATTATTATTAAA
Found at i:23755761 original size:13 final size:13
Alignment explanation
Indices: 23755729--23755762 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
23755719 TCTTAATAAT
23755729 AATATTA-TATTA
1 AATATTATTATTA
23755741 AA-ATTATTATTA
1 AATATTATTATTA
23755753 AATATTATTA
1 AATATTATTA
23755763 ATAATTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 4 0.20
12 9 0.45
13 7 0.35
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATATTATTATTA
Found at i:23756048 original size:44 final size:46
Alignment explanation
Indices: 23755988--23756080 Score: 111
Period size: 44 Copynumber: 2.1 Consensus size: 46
23755978 TACAACATCT
* *
23755988 ATTCTATTTAACCAAACACA-AGAATT-CT-ATTACAGCTCTATTCC
1 ATTCAATTCAACCAAACA-ATAGAATTACTGATTACAGCTCTATTCC
* * *
23756032 ATTCAATTCAACCAAACAATTGAATTACTGGTTACAGCTCTATTTC
1 ATTCAATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCC
23756078 ATT
1 ATT
23756081 ACAACTTTAT
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.51
45 2 0.05
46 17 0.41
ACGTcount: A:0.35, C:0.23, G:0.06, T:0.35
Consensus pattern (46 bp):
ATTCAATTCAACCAAACAATAGAATTACTGATTACAGCTCTATTCC
Found at i:23756091 original size:16 final size:16
Alignment explanation
Indices: 23756078--23756131 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
23756068 GCTCTATTTC
*
23756078 ATTACAACTTTATTCT
1 ATTACAACTTTATTCA
*
23756094 ATTACAACTCTATTCA
1 ATTACAACTTTATTCA
*
23756110 ATTACAACTTTATTCT
1 ATTACAACTTTATTCA
23756126 ATTACA
1 ATTACA
23756132 GTGAATCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.20, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTACAACTTTATTCA
Found at i:23756105 original size:32 final size:32
Alignment explanation
Indices: 23756063--23756131 Score: 113
Period size: 32 Copynumber: 2.2 Consensus size: 32
23756053 GAATTACTGG
*
23756063 TTACAGCTCTATTTC-ATTACAACTTTATTCTA
1 TTACAACTCTA-TTCAATTACAACTTTATTCTA
23756095 TTACAACTCTATTCAATTACAACTTTATTCTA
1 TTACAACTCTATTCAATTACAACTTTATTCTA
23756127 TTACA
1 TTACA
23756132 GTGAATCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
31 3 0.09
32 32 0.91
ACGTcount: A:0.32, C:0.22, G:0.01, T:0.45
Consensus pattern (32 bp):
TTACAACTCTATTCAATTACAACTTTATTCTA
Found at i:23757350 original size:22 final size:22
Alignment explanation
Indices: 23757325--23757372 Score: 55
Period size: 20 Copynumber: 2.2 Consensus size: 22
23757315 TAAGTTCATT
*
23757325 TTTTTTAATTTGTTTT-TGTTTA
1 TTTTTT-ATTAGTTTTATGTTTA
23757347 -TTTTTATTAGTTTTCATGTTTA
1 TTTTTTATTAGTTTT-ATGTTTA
23757369 TTTT
1 TTTT
23757373 GATTTCATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 5
0.79 0.04 0.18
Matches are distributed among these distances:
20 8 0.36
21 5 0.23
22 6 0.27
23 3 0.14
ACGTcount: A:0.15, C:0.02, G:0.08, T:0.75
Consensus pattern (22 bp):
TTTTTTATTAGTTTTATGTTTA
Found at i:23757445 original size:25 final size:25
Alignment explanation
Indices: 23757412--23757491 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
23757402 TTTAGATTTT
23757412 TTTTA-TATTATTTCA-TGTAAACAA
1 TTTTATTATTATTT-ATTGTAAACAA
* * *
23757436 TTTTATTATTATTTATTTTAAAGAT
1 TTTTATTATTATTTATTGTAAACAA
*
23757461 TTTTATGTATTATTTATAT-TAAACAG
1 TTTTAT-TATTATTTAT-TGTAAACAA
23757487 TTTTA
1 TTTTA
23757492 GTTTATATAT
Statistics
Matches: 47, Mismatches: 5, Indels: 6
0.81 0.09 0.10
Matches are distributed among these distances:
24 6 0.13
25 20 0.43
26 20 0.43
27 1 0.02
ACGTcount: A:0.34, C:0.04, G:0.05, T:0.57
Consensus pattern (25 bp):
TTTTATTATTATTTATTGTAAACAA
Found at i:23757482 original size:26 final size:26
Alignment explanation
Indices: 23757429--23757505 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 26
23757419 TTATTTCATG
* *
23757429 TAAACAATTTTAT-TATTATTTATTT
1 TAAACAGTTTTATGTATTATTTATAT
* *
23757454 TAAAGATTTTTATGTATTATTTATAT
1 TAAACAGTTTTATGTATTATTTATAT
*
23757480 TAAACAGTTTTA-GT-TTATATATAT
1 TAAACAGTTTTATGTATTATTTATAT
23757504 TA
1 TA
23757506 CTCTAAGTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
24 11 0.24
25 13 0.29
26 21 0.47
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (26 bp):
TAAACAGTTTTATGTATTATTTATAT
Found at i:23758037 original size:12 final size:11
Alignment explanation
Indices: 23758020--23758054 Score: 54
Period size: 10 Copynumber: 3.2 Consensus size: 11
23758010 AACAAATCCT
23758020 CTCTCATATTTC
1 CTCTCA-ATTTC
23758032 CTCTCAA-TTC
1 CTCTCAATTTC
23758042 CTCTCAATTTC
1 CTCTCAATTTC
23758053 CT
1 CT
23758055 TCCAAAATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.45
11 6 0.27
12 6 0.27
ACGTcount: A:0.17, C:0.37, G:0.00, T:0.46
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:23758102 original size:51 final size:51
Alignment explanation
Indices: 23758035--23758157 Score: 194
Period size: 51 Copynumber: 2.4 Consensus size: 51
23758025 ATATTTCCTC
* * *
23758035 TCAA-TTCCTCTCAATTTCCTTCCAAAATTCTCTCAAATCTATATTTAATT
1 TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATATAATT
*
23758085 TCAATTTCCTCTTAATTTCCTTCAAAAATTCTCTCAAATCCATATATAATT
1 TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATATAATT
*
23758136 TCAATTTCTTCTCAATTTCCTT
1 TCAATTTCCTCTCAATTTCCTT
23758158 TTTTTAAAAT
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
50 4 0.06
51 62 0.94
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.46
Consensus pattern (51 bp):
TCAATTTCCTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATATAATT
Found at i:23760478 original size:44 final size:45
Alignment explanation
Indices: 23760426--23760512 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 45
23760416 ATATTTTGAA
*
23760426 TATTTTGATATTATTTTATGTAAAAAAATAGAAATTT-TTTGAGT
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
* *
23760470 TATTTTGATATTATTTGATGTAATAAAATAGAAGTTTATTTGA
1 TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGA
23760513 TGTAATAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 34 0.87
45 5 0.13
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (45 bp):
TATTTTGATATTATTTGATGTAAAAAAATAGAAATTTATTTGAGT
Found at i:23760556 original size:28 final size:28
Alignment explanation
Indices: 23760525--23761669 Score: 1013
Period size: 28 Copynumber: 45.0 Consensus size: 28
23760515 TAATAAAAAC
*
23760525 CCTAGCCTAATTTAATTAAAAA--C---
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23760548 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
23760576 CCTAACCTAATTTAATTAAAAA--C---
1 CCTAACCTAATTTAATTAAAAACCCTAA
23760599 CCTAACCTAATTTAATTAAAAACCCT-A
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23760626 ---AACC---CTTAACTTAAAAACCCTA-
1 CCTAACCTAATTTAA-TTAAAAACCCTAA
* *
23760648 ----ACCTAATTTGATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
23760672 CCTAACCTAATTTAATTAAAAA--C---
1 CCTAACCTAATTTAATTAAAAACCCTAA
23760695 CCTAACCTAATTTAATTAAAAAACCCT-A
1 CCTAACCTAATTTAATT-AAAAACCCTAA
*
23760723 ---AACC---CTTAACTTAAAAACCCTA-
1 CCTAACCTAATTTAA-TTAAAAACCCTAA
*
23760745 ----ACCTAATTTGATTAAAAA-CC---
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23760765 C-TAGCCTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
23760792 --T---CTAATTTAATTAAAAA-CC---
1 CCTAACCTAATTTAATTAAAAACCCTAA
23760811 -CTAACCTAATTTAATTAAAAACCCT-A
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23760837 ---AACC---CTTAACTTAAAAACCCTA-
1 CCTAACCTAATTTAA-TTAAAAACCCTAA
*
23760859 ----ACCTAATTCAATTAAAAACCCT--
1 CCTAACCTAATTTAATTAAAAACCCTAA
23760881 ---AACCTAATTTAATTAAAAACCCTAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
** * *
23760906 CCTAATTTAATTAAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23760934 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23760962 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23760990 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23761018 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23761046 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23761074 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23761102 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23761130 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23761158 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23761186 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23761214 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23761242 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23761270 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23761298 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23761326 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
23761354 CCTAACCTAATTTAATTAAAAA--C---
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23761377 CCTAACCTAATTTAATTAAAAACCCTAG
1 CCTAACCTAATTTAATTAAAAACCCTAA
23761405 CCTAACCTAATTTAATTAAAAA--C---
1 CCTAACCTAATTTAATTAAAAACCCTAA
23761428 CCTAACCTAATTTAATTAAAAACCCT-A
1 CCTAACCTAATTTAATTAAAAACCCTAA
* *
23761455 ---AACC---CTTAATTAAAAATCCTAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23761477 CCCTAACCTAATTTAATTAAAAACTCT-A
1 -CCTAACCTAATTTAATTAAAAACCCTAA
* *
23761505 ---AACC---CTTAACTTAAAAATCCTAA
1 CCTAACCTAATTTAA-TTAAAAACCCTAA
* *
23761528 CT-----TAATTCAATTAAAAACCCT--
1 CCTAACCTAATTTAATTAAAAACCCTAA
23761549 ---AACCTAATTTAATTAAAAA-CC---
1 CCTAACCTAATTTAATTAAAAACCCTAA
23761570 C-TAACCTAATTTAATTAAAAA-CC--A
1 CCTAACCTAATTTAATTAAAAACCCTAA
23761594 --TAACCTAATTTAATTAAAAACCCT-A
1 CCTAACCTAATTTAATTAAAAACCCTAA
* *
23761619 ---AACC---CTTAATTAAAAACCATAA
1 CCTAACCTAATTTAATTAAAAACCCTAA
*
23761641 CCCTAACCTAATTCAATTAAAAACCCTAA
1 -CCTAACCTAATTTAATTAAAAACCCTAA
23761670 ACCCTTAACT
Statistics
Matches: 989, Mismatches: 38, Indels: 184
0.82 0.03 0.15
Matches are distributed among these distances:
20 1 0.00
21 49 0.05
22 52 0.05
23 271 0.27
24 43 0.04
25 9 0.01
26 14 0.01
28 522 0.53
29 28 0.03
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.29
Consensus pattern (28 bp):
CCTAACCTAATTTAATTAAAAACCCTAA
Found at i:23761455 original size:18 final size:20
Alignment explanation
Indices: 23761358--23761451 Score: 62
Period size: 23 Copynumber: 4.0 Consensus size: 20
23761348 CCCTAGCCTA
23761358 ACCTAATTTAATTAAAAACCC
1 ACCTAATTTAATTAAAAA-CC
23761379 TAACCTAATTTAATTAAAAACCCTAGCC
1 --ACCTAATTTAATT-AAAA----A-CC
23761407 TAACCTAATTTAATTAAAAACCC
1 --ACCTAATTTAATTAAAAA-CC
23761430 TAACCTAATTTAATTAAAAACC
1 --ACCTAATTTAATTAAAAACC
23761452 CTAAACCCTT
Statistics
Matches: 64, Mismatches: 2, Indels: 11
0.83 0.03 0.14
Matches are distributed among these distances:
22 2 0.03
23 36 0.56
24 4 0.06
27 4 0.06
28 18 0.28
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.30
Consensus pattern (20 bp):
ACCTAATTTAATTAAAAACC
Found at i:23761465 original size:21 final size:20
Alignment explanation
Indices: 23761416--23761644 Score: 107
Period size: 23 Copynumber: 10.1 Consensus size: 20
23761406 CTAACCTAAT
*
23761416 TTAATTAAAAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACC---C
23761439 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCT-AACCC
*
23761460 TTAATTAAAAATCCTAACCCTAACCTAAT
1 TTAATT--AAA----AACCCTAACC---C
*
23761489 TTAATTAAAAACTCTAAACCC
1 TTAATTAAAAACCCT-AACCC
* **
23761510 TTAACTTAAAAATCCTAACTTAA
1 TTAA-TTAAAAACCCTAAC--CC
*
23761533 TTCAATTAAAAACCCTAACCTAAT
1 TT-AATTAAAAACCCTAACC---C
*
23761557 TTAATTAAAAACCCTAACCTAAT
1 TTAATTAAAAACCCTAACC---C
* *
23761580 TTAATTAAAAACCATAACCTAAT
1 TTAATTAAAAACCCTAACC---C
23761603 TTAATTAAAAACCCTAAACCC
1 TTAATTAAAAACCCT-AACCC
*
23761624 TTAATTAAAAACCATAACCC
1 TTAATTAAAAACCCTAACCC
23761644 T
1 T
23761645 AACCTAATTC
Statistics
Matches: 172, Mismatches: 15, Indels: 41
0.75 0.07 0.18
Matches are distributed among these distances:
20 6 0.03
21 27 0.16
22 9 0.05
23 95 0.55
24 16 0.09
26 4 0.02
27 9 0.05
29 6 0.03
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (20 bp):
TTAATTAAAAACCCTAACCC
Found at i:23761842 original size:116 final size:116
Alignment explanation
Indices: 23761700--23761917 Score: 382
Period size: 116 Copynumber: 1.9 Consensus size: 116
23761690 AACTTTAATG
*
23761700 TAATGTTAGATTTGGAAAATTGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAATTGTTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
*
23761765 ATTTTACTAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATTTTACTAACCATTAATACAATTTTTTAACTTAATAATTTTACATTCACA
* ** *
23761816 TAATGTTAGATTTGGAAAATTTTTTTGACTGGTACTAACATTTAATAATTGTATATAATTTGATA
1 TAATGTTAGATTTGGAAAATTGTTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
23761881 ATTTTACTAACCATTAATACAATTTTTTAACTTAATA
66 ATTTTACTAACCATTAATACAATTTTTTAACTTAATA
23761918 CAATTTATCA
Statistics
Matches: 96, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 96 1.00
ACGTcount: A:0.38, C:0.09, G:0.09, T:0.44
Consensus pattern (116 bp):
TAATGTTAGATTTGGAAAATTGTTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
ATTTTACTAACCATTAATACAATTTTTTAACTTAATAATTTTACATTCACA
Found at i:23761934 original size:17 final size:17
Alignment explanation
Indices: 23761893--23761934 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 17
23761883 TTTACTAACC
* *
23761893 ATTAATACAATTTTTTA
1 ATTAATACAATTTATCA
23761910 ACTTAATACAATTTATCA
1 A-TTAATACAATTTATCA
23761928 ATTAATA
1 ATTAATA
23761935 ATTTCACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 7 0.32
18 15 0.68
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (17 bp):
ATTAATACAATTTATCA
Found at i:23765243 original size:126 final size:125
Alignment explanation
Indices: 23764947--23765298 Score: 528
Period size: 126 Copynumber: 2.8 Consensus size: 125
23764937 CCCAAACATG
* * * *
23764947 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAAGTTCTTCTCAAATAGCATCTTGG
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
23765012 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTC-AAAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
* * * *
23765071 CTACTGTAGCAAAAGCGC-ACTGACGAGGCCGCAATTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * * *
23765135 CTAGAACCGATTTTATACTATTTGCTCAGAAACGTCAAAAAAATAATTATTTCTTCCGTGAC
65 CTAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAA-AATTATTTCTTACATGAC
* *
23765197 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATACCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
**
23765262 TAGAAGCGATTTTATATTATTTTATCAGAAACGTCAA
66 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAA
23765299 CTCGAAATTA
Statistics
Matches: 202, Mismatches: 22, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
123 1 0.00
124 88 0.44
125 6 0.03
126 106 0.52
127 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAAAATTATTTCTTACATGAC
Found at i:23767445 original size:24 final size:24
Alignment explanation
Indices: 23767395--23767445 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
23767385 AGTTTTGACC
* *
23767395 TTTGACTATTGGGTAAATTTTAAA
1 TTTGAATATTGGGTAAATTATAAA
*
23767419 TTTGAATATT-GGTATAATTATATA
1 TTTGAATATTGGGTA-AATTATAAA
23767443 TTT
1 TTT
23767446 ATTTTAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (24 bp):
TTTGAATATTGGGTAAATTATAAA
Found at i:23777378 original size:29 final size:29
Alignment explanation
Indices: 23777284--23777371 Score: 88
Period size: 29 Copynumber: 3.0 Consensus size: 29
23777274 TGTTAAGTAT
23777284 TGTTTTGAAAGAAATAAATTTGAC-AAGATG
1 TGTTTTGAAA-AAATAAATTTGACGAA-ATG
* * * **
23777314 GGATATGAAAAAATAAATTTGACGTGATG
1 TGTTTTGAAAAAATAAATTTGACGAAATG
* *
23777343 TGTTTTGAAAAAATTATTTTGACGAAATG
1 TGTTTTGAAAAAATAAATTTGACGAAATG
23777372 GATTTTGTTT
Statistics
Matches: 45, Mismatches: 12, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
29 38 0.84
30 7 0.16
ACGTcount: A:0.42, C:0.03, G:0.20, T:0.34
Consensus pattern (29 bp):
TGTTTTGAAAAAATAAATTTGACGAAATG
Found at i:23782732 original size:40 final size:40
Alignment explanation
Indices: 23782587--23782719 Score: 187
Period size: 40 Copynumber: 3.3 Consensus size: 40
23782577 GCTCCTCGTT
* * * *
23782587 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
*
23782627 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
23782667 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
23782707 CAAATGCCTTCGG
1 CAAATGCCTTCGG
23782720 ATCTTAGTCC
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 79 0.95
41 4 0.05
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:23788783 original size:58 final size:60
Alignment explanation
Indices: 23788721--23788835 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 60
23788711 TCACTTTAAT
* * *
23788721 ATTAAATTAATATAATACTTA-T-CAAGATTAATACTAGATTAAATTTAATATTAATTCC
1 ATTAAATTAATAGAATACTTACTACAAGATAAATACTAAATTAAATTTAATATTAATTCC
* *
23788779 ATTAAATTAATAGAATACTTATCTACAAGATAAATATTAAATTGAATTTAATATTAA
1 ATTAAATTAATAGAATACTTA-CTACAAGATAAATACTAAATTAAATTTAATATTAA
23788836 GGTAATCACT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
58 20 0.41
60 1 0.02
61 28 0.57
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (60 bp):
ATTAAATTAATAGAATACTTACTACAAGATAAATACTAAATTAAATTTAATATTAATTCC
Found at i:23792149 original size:43 final size:43
Alignment explanation
Indices: 23792089--23792179 Score: 130
Period size: 43 Copynumber: 2.1 Consensus size: 43
23792079 CTTTGAGTTC
* * * *
23792089 ATTA-CAAGATTTCCTTGATTAAGTAAATGTATTATATCTTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
*
23792131 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATATTTT
1 ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
23792174 ATTACC
1 ATTACC
23792180 TTGCATATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 4 0.09
43 39 0.91
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.44
Consensus pattern (43 bp):
ATTACCAAGATTTACTTGATTAAGAAAATGCATTATATATTTT
Found at i:23792558 original size:43 final size:43
Alignment explanation
Indices: 23792453--23792809 Score: 468
Period size: 43 Copynumber: 8.3 Consensus size: 43
23792443 AAGATATATT
*
23792453 TTTAGCGGCGTTTGTGTGAAAAGCGCCGCTAAAGGTCTAT--TC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTC-ATGGTC
* *
23792495 TATAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
23792538 TTTAGCGACGTTTGTGGGAAAAACGCCACTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
23792581 TTTAGCGGCGTTTATAGGAAAAGCGCTGCTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* * * * * *
23792624 TTTAGCGGCGTTTTTTTGTAAAAGTGTCGCTAAAAGTCATGGTC
1 TTTAGCGGCG-TTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
*
23792668 TTTTAGCGGCGTTTGTGGG-AAAGCGCTGCTAAAGGTCATGGTC
1 -TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
23792711 TTTAGCGGCGTTTGTAGGAAAAGCGCCGCTAAAGGTTATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
23792754 TTTAGCGGCGTTTGTTGGAAAAGCGCTGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
23792797 TTTAGCGGCGTTT
1 TTTAGCGGCGTTT
23792810 ATTTATAAAA
Statistics
Matches: 275, Mismatches: 35, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
41 1 0.00
42 52 0.19
43 182 0.66
44 30 0.11
45 10 0.04
ACGTcount: A:0.22, C:0.17, G:0.31, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:23792787 original size:173 final size:174
Alignment explanation
Indices: 23792497--23792819 Score: 524
Period size: 173 Copynumber: 1.9 Consensus size: 174
23792487 GTCTATTCTA
* *
23792497 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCCTGGTCTTTAGCGACGTTTGTGGGAAAAAC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGACGTTTGTAGGAAAAAC
*
23792562 GCCACTAAAGGTCTTGGTCTTTAGCGGCGTTTATAGGAAAAGCGCTGCTAAAGGTCTTGGTCTTT
66 GCCACTAAAGGTCTTGGTCTTTAGCGGCGTTTATAGGAAAAGCGCTGCTAAAGGTCATGGTCTTT
* *
23792627 AGCGGCGTTTTTTTGTAAAAGTGTCGCTAAAAGTCATGGTCTTT
131 AGCGGCGTTTATTTATAAAAGTGTCGCTAAAAGTCATGGTCTTT
* * *
23792671 TAGCGGCGTTTGTGGG-AAAGCGCTGCTAAAGGTCATGGTCTTTAGCGGCGTTTGTAGGAAAAGC
1 TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGACGTTTGTAGGAAAAAC
* * *
23792735 GCCGCTAAAGGT-TATGGTCTTTAGCGGCGTTTGTTGGAAAAGCGCTGCTAAAGGTCATGGTCTT
66 GCCACTAAAGGTCT-TGGTCTTTAGCGGCGTTTATAGGAAAAGCGCTGCTAAAGGTCATGGTCTT
23792799 TAGCGGCGTTTATTTATAAAA
130 TAGCGGCGTTTATTTATAAAA
23792820 ACGCCGCTAA
Statistics
Matches: 137, Mismatches: 11, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
172 1 0.01
173 120 0.88
174 16 0.12
ACGTcount: A:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (174 bp):
TAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGACGTTTGTAGGAAAAAC
GCCACTAAAGGTCTTGGTCTTTAGCGGCGTTTATAGGAAAAGCGCTGCTAAAGGTCATGGTCTTT
AGCGGCGTTTATTTATAAAAGTGTCGCTAAAAGTCATGGTCTTT
Found at i:23792934 original size:22 final size:21
Alignment explanation
Indices: 23792901--23792945 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
23792891 TTTAGCGGCG
*
23792901 CTAAAAAACGCCGCTAAAGGC
1 CTAAAAAACGCCGCTAAAAGC
23792922 CTAAAAAAGCGCCGCTAAAAGC
1 CTAAAAAA-CGCCGCTAAAAGC
23792944 CT
1 CT
23792946 TTTTTGGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 8 0.36
22 14 0.64
ACGTcount: A:0.42, C:0.29, G:0.18, T:0.11
Consensus pattern (21 bp):
CTAAAAAACGCCGCTAAAAGC
Found at i:23796621 original size:11 final size:10
Alignment explanation
Indices: 23796583--23796623 Score: 55
Period size: 10 Copynumber: 4.0 Consensus size: 10
23796573 AACTATCATA
*
23796583 AAATGTGACT
1 AAATGTGATT
*
23796593 GAATGTGATT
1 AAATGTGATT
23796603 AAATGTGATT
1 AAATGTGATT
23796613 AATATGTGATT
1 AA-ATGTGATT
23796624 GGATATATGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
10 19 0.70
11 8 0.30
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.39
Consensus pattern (10 bp):
AAATGTGATT
Found at i:23806467 original size:5 final size:5
Alignment explanation
Indices: 23806457--23806487 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
23806447 ACTTTTATAT
23806457 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA T
23806488 CTGATATTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:23810433 original size:33 final size:33
Alignment explanation
Indices: 23810391--23810456 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
23810381 CAGACAAAAA
23810391 ATTTTGATATTAATGATCTAGCAGAAGATCAAG
1 ATTTTGATATTAATGATCTAGCAGAAGATCAAG
23810424 ATTTTGATATTAATGATCTAGCAGAAGATCAAG
1 ATTTTGATATTAATGATCTAGCAGAAGATCAAG
23810457 CAATAATTTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.33
Consensus pattern (33 bp):
ATTTTGATATTAATGATCTAGCAGAAGATCAAG
Found at i:23812756 original size:20 final size:21
Alignment explanation
Indices: 23812728--23812768 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
23812718 CAAGAAATCA
23812728 GCAAATATTAG-TAATAAATT
1 GCAAATATTAGCTAATAAATT
* *
23812748 GCAAGTATTAGCTAATTAATT
1 GCAAATATTAGCTAATAAATT
23812769 TTAACTGGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.44, C:0.07, G:0.12, T:0.37
Consensus pattern (21 bp):
GCAAATATTAGCTAATAAATT
Found at i:23817712 original size:35 final size:36
Alignment explanation
Indices: 23817645--23817721 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 36
23817635 CGTGAAAGAG
* * *
23817645 AATATATGGGTATGTTATTCATGCCATGTGACAGTA
1 AATATATGAGTATGTTATTCATACCATATGACAGTA
*
23817681 AATATGTGAGTATGTT-TTCATACCATATGACAGTA
1 AATATATGAGTATGTTATTCATACCATATGACAGTA
*
23817716 ACTATA
1 AATATA
23817722 ATGTGCTGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
35 21 0.60
36 14 0.40
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (36 bp):
AATATATGAGTATGTTATTCATACCATATGACAGTA
Found at i:23820743 original size:5 final size:5
Alignment explanation
Indices: 23820733--23820761 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
23820723 CGCCTTATAG
23820733 TGTGA TGTGA TGTGA TGTGA TGTGA TGTG
1 TGTGA TGTGA TGTGA TGTGA TGTGA TGTG
23820762 TTGAGGTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.17, C:0.00, G:0.41, T:0.41
Consensus pattern (5 bp):
TGTGA
Found at i:23821895 original size:24 final size:24
Alignment explanation
Indices: 23821863--23821911 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
23821853 GTAAAATTCA
*
23821863 TGATAAAATCTCATTATTCTTACC
1 TGATAAAATCTCAATATTCTTACC
23821887 TGATAAAATCTCAATATTCTTACC
1 TGATAAAATCTCAATATTCTTACC
23821911 T
1 T
23821912 TACTTTCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (24 bp):
TGATAAAATCTCAATATTCTTACC
Found at i:23825611 original size:18 final size:19
Alignment explanation
Indices: 23825581--23825617 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
23825571 CGGTCTGAGG
23825581 ATGAAATGCAGTA-CTAAA
1 ATGAAATGCAGTACCTAAA
23825599 ATGAAAT-CGAGTACCTAAA
1 ATGAAATGC-AGTACCTAAA
23825618 GTTTCGTGTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 1 0.06
18 11 0.65
19 5 0.29
ACGTcount: A:0.49, C:0.14, G:0.16, T:0.22
Consensus pattern (19 bp):
ATGAAATGCAGTACCTAAA
Found at i:23834481 original size:121 final size:121
Alignment explanation
Indices: 23834303--23834552 Score: 482
Period size: 121 Copynumber: 2.1 Consensus size: 121
23834293 TTAAGCTCGT
23834303 ATTTCATCCGTATTTCATGCTAGCCAAATTCACTAGGGACCTACACTAACCCATACAAATCAGCA
1 ATTTCATCCGTATTTCATGCTAGCCAAATTCACTAGGGACCTACACTAACCCATACAAATCAGCA
23834368 TTTCACAATTTTACCATGGAATTTTACTACTTTTATAAATAAGTCCCTAAATGAAA
66 TTTCACAATTTTACCATGGAATTTTACTACTTTTATAAATAAGTCCCTAAATGAAA
*
23834424 ATTTCATCTGTATTTCATGCTAGCCAAATTCACTAGGGACCTACACTAACCCATACAAATCAGCA
1 ATTTCATCCGTATTTCATGCTAGCCAAATTCACTAGGGACCTACACTAACCCATACAAATCAGCA
*
23834489 TTTCACAATTTTACCATGGAATTTTACTACTTTTATAAATAAGTCCCTAAATGACA
66 TTTCACAATTTTACCATGGAATTTTACTACTTTTATAAATAAGTCCCTAAATGAAA
23834545 ATTTCATC
1 ATTTCATC
23834553 AAAAAATTCC
Statistics
Matches: 127, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 127 1.00
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.33
Consensus pattern (121 bp):
ATTTCATCCGTATTTCATGCTAGCCAAATTCACTAGGGACCTACACTAACCCATACAAATCAGCA
TTTCACAATTTTACCATGGAATTTTACTACTTTTATAAATAAGTCCCTAAATGAAA
Done.