Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 116 of 141
Found at i:34021305 original size:33 final size:34
Alignment explanation
Indices: 34021268--34021332 Score: 96
Period size: 33 Copynumber: 1.9 Consensus size: 34
34021258 TTCTTTTAAT
*
34021268 TTTTTTGATTTTGATTTTGA-TTGATTTTTTTCA
1 TTTTTTGACTTTGATTTTGATTTGATTTTTTTCA
*
34021301 TTTTTTTACTTTGATTTTGATTTTGATTTTTT
1 TTTTTTGACTTTGATTTTGA-TTTGATTTTTT
34021333 CTTTTTCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 18 0.64
35 10 0.36
ACGTcount: A:0.14, C:0.03, G:0.11, T:0.72
Consensus pattern (34 bp):
TTTTTTGACTTTGATTTTGATTTGATTTTTTTCA
Found at i:34034734 original size:18 final size:17
Alignment explanation
Indices: 34034713--34034764 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
34034703 TTTATACATA
34034713 TATTTTAAAT-TTAATATG
1 TATTTTAAATATT--TATG
*
34034731 TATTTAAAATATTTATG
1 TATTTTAAATATTTATG
*
34034748 TATTTTTATATATTTAT
1 TA-TTTTAAATATTTAT
34034765 TTTAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
17 6 0.21
18 21 0.72
19 2 0.07
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
TATTTTAAATATTTATG
Found at i:34042731 original size:5 final size:5
Alignment explanation
Indices: 34042721--34042758 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
34042711 ATTCCATTAT
34042721 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTT
34042759 CTACATGTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:34046977 original size:35 final size:35
Alignment explanation
Indices: 34046938--34047123 Score: 210
Period size: 35 Copynumber: 5.3 Consensus size: 35
34046928 AATCTAACAG
34046938 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCA
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCA
* * *
34046973 AAACATGCCAATGCTCACAAGGGCTAGTCCAACCA
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCA
* * *
34047008 AAACCCGTCAATGCTCATAAGAGCTAGTCCAACCG
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCA
* * * * **
34047043 AAACACACCAATGCTCATAAGAGGTAGTCTATCTG
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCA
* * * **
34047078 AAACCCGCCAATGCTCATAAGAGTTAATCCAATTA
1 AAACACGCCAATGCTCATAAGAGCTAGTCCAACCA
*
34047113 AAACAAGCCAA
1 AAACACGCCAA
34047124 ACAAAGAGTA
Statistics
Matches: 125, Mismatches: 26, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 125 1.00
ACGTcount: A:0.39, C:0.28, G:0.15, T:0.17
Consensus pattern (35 bp):
AAACACGCCAATGCTCATAAGAGCTAGTCCAACCA
Found at i:34051480 original size:37 final size:37
Alignment explanation
Indices: 34051434--34051507 Score: 121
Period size: 37 Copynumber: 2.0 Consensus size: 37
34051424 CTCAAAATGG
*
34051434 AAATAGAAATGAAAATGAGAAATGATTCATTTGCAAA
1 AAATAGAAATGAAAATGAGAAATGATACATTTGCAAA
* *
34051471 AAATGGAAATGGAAATGAGAAATGATACATTTGCAAA
1 AAATAGAAATGAAAATGAGAAATGATACATTTGCAAA
34051508 TGTACATGGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.53, C:0.05, G:0.19, T:0.23
Consensus pattern (37 bp):
AAATAGAAATGAAAATGAGAAATGATACATTTGCAAA
Found at i:34060331 original size:44 final size:44
Alignment explanation
Indices: 34060283--34060390 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
34060273 TTAATCTGCT
*
34060283 CCACTGCAACCTCAGGGAGATAAGATTTGTTTTCTTAGTCTACC
1 CCACTGCAACCTCAGGGAGATAAGACTTGTTTTCTTAGTCTACC
** * * * * *
34060327 CCACTGTGACTTCAGGGGGATAAGACTTGTTTTCTTGGTCTGCT
1 CCACTGCAACCTCAGGGAGATAAGACTTGTTTTCTTAGTCTACC
34060371 CCACTGCGAA-CTCAGGGAGA
1 CCACTGC-AACCTCAGGGAGA
34060391 AAGGACTCGT
Statistics
Matches: 51, Mismatches: 12, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
44 50 0.98
45 1 0.02
ACGTcount: A:0.22, C:0.24, G:0.24, T:0.30
Consensus pattern (44 bp):
CCACTGCAACCTCAGGGAGATAAGACTTGTTTTCTTAGTCTACC
Found at i:34060490 original size:129 final size:129
Alignment explanation
Indices: 34060335--34060583 Score: 392
Period size: 129 Copynumber: 1.9 Consensus size: 129
34060325 CCCCACTGTG
* * * *
34060335 ACTTCAGGGGGATAAGACTTGTTTTCTTGGTCTGCTCCACTGCGAA-CTCAGGGAGAAAGGACTC
1 ACTTCAGGGGGATAAGACCTGCTTTCTTAGTCTGCTCAACTG-GAACCTCAGGGAGAAAGGACTC
*
34060399 GTGGCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGTTCCACTGCA
65 GTGGCTTAAACCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGTTCCACTGCA
* * *
34060464 ACTTGAGGGGGATAAGACCTGCTTTCTTAGTCTGCTCAACTGTAACCTCAGGGAGAAAGGACTTG
1 ACTTCAGGGGGATAAGACCTGCTTTCTTAGTCTGCTCAACTGGAACCTCAGGGAGAAAGGACTCG
**
34060529 TGGCTTAAACCTGCTTCCTTACACTTGAAGATAAGATTCGTCGTCTTCGATCTGT
66 TGGCTTAAACCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGT
34060584 CCTACTACTG
Statistics
Matches: 109, Mismatches: 10, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
128 2 0.02
129 107 0.98
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.31
Consensus pattern (129 bp):
ACTTCAGGGGGATAAGACCTGCTTTCTTAGTCTGCTCAACTGGAACCTCAGGGAGAAAGGACTCG
TGGCTTAAACCTGCTTCCTTACACTTGAAGATAAGATTCACCGTCTTCGATCTGTTCCACTGCA
Found at i:34060936 original size:87 final size:87
Alignment explanation
Indices: 34060736--34061233 Score: 829
Period size: 87 Copynumber: 5.7 Consensus size: 87
34060726 CGCAGGAGGG
* * * * * * *
34060736 CAAGATCTGT-TATCTTTAACTAGCTCCACTACAACCGATGAAGGCAAGGCTTTGTTTTCAATTT
1 CAAGATCT-TCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGTAAGGTTTTGTTTTCGATCT
* ** * *
34060800 GCTTCACT-GCAATGCAGGAAGG
65 GCTTCGCTATTAATGTAGGAAGA
*
34060822 CAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGTAAGGTTTTGTTTTCGATCTG
1 CAAGATCTTCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGTAAGGTTTTGTTTTCGATCTG
34060887 CTTCGCTATTAATGTAGGAAGA
66 CTTCGCTATTAATGTAGGAAGA
34060909 CAAGATCTTCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGTAAGGTTTTGTTTTCGATCTG
1 CAAGATCTTCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGTAAGGTTTTGTTTTCGATCTG
34060974 CTTCGCTATTAATGTAGGAAGA
66 CTTCGCTATTAATGTAGGAAGA
34060996 CAAGATCTTCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGTAAGGTTTTGTTTTCGATCTG
1 CAAGATCTTCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGTAAGGTTTTGTTTTCGATCTG
34061061 CTTCGCTATTAATGTAGGAAGA
66 CTTCGCTATTAATGTAGGAAGA
34061083 CAAGATCTTCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGTAAGGTTTTGTTTTCGATCTG
1 CAAGATCTTCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGTAAGGTTTTGTTTTCGATCTG
34061148 CTTCGCTATTAATGTAGGAAGA
66 CTTCGCTATTAATGTAGGAAGA
* * *
34061170 CAAGATCTTCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGCAAGGCTTTATTTTCGATCT
1 CAAGATCTTCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGTAAGGTTTTGTTTTCGATCT
34061234 TCACTGATCT
Statistics
Matches: 393, Mismatches: 17, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
86 62 0.16
87 331 0.84
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (87 bp):
CAAGATCTTCTATCTTTAACCAGCTCCACTGCAACCGATGGAGGTAAGGTTTTGTTTTCGATCTG
CTTCGCTATTAATGTAGGAAGA
Found at i:34063323 original size:15 final size:13
Alignment explanation
Indices: 34063289--34063327 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 13
34063279 TTGACCTTTC
34063289 CTTTT-CTTTTTT
1 CTTTTCCTTTTTT
34063301 CTTTTCCTTTTTT
1 CTTTTCCTTTTTT
34063314 CTTCTCTCCTTTTT
1 CTT-T-TCCTTTTT
34063328 CATTTTCATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.21
13 10 0.42
14 1 0.04
15 8 0.33
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (13 bp):
CTTTTCCTTTTTT
Found at i:34069119 original size:8 final size:7
Alignment explanation
Indices: 34069085--34069117 Score: 57
Period size: 7 Copynumber: 4.6 Consensus size: 7
34069075 TTTATAGCCG
34069085 AAAATGAA
1 AAAAT-AA
34069093 AAAATAA
1 AAAATAA
34069100 AAAATAA
1 AAAATAA
34069107 AAAATAA
1 AAAATAA
34069114 AAAA
1 AAAA
34069118 ATCTACATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 20 0.80
8 5 0.20
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:34071060 original size:25 final size:25
Alignment explanation
Indices: 34071032--34071084 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
34071022 ATCTTGAATT
*
34071032 ATTTGATTCTAATCAATTTGATTAA
1 ATTTGATTCTAATCAAATTGATTAA
*
34071057 ATTTGATTTTAATCAAATTGATTAA
1 ATTTGATTCTAATCAAATTGATTAA
34071082 ATT
1 ATT
34071085 GCCCCTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.49
Consensus pattern (25 bp):
ATTTGATTCTAATCAAATTGATTAA
Found at i:34071856 original size:89 final size:89
Alignment explanation
Indices: 34071754--34072172 Score: 440
Period size: 89 Copynumber: 4.7 Consensus size: 89
34071744 ATTTTTTTCC
* *
34071754 AAATTAAAAGTAAATAAAATCTGTTTCGGGATTTATTCCCGCCGATT-AACGGATTTTATTCCAT
1 AAATTAAAGGTAAATAAAATCTATTTCGGGATTTATTCCCGCCG-TTCAACGGATTTTATTCCAT
*
34071818 TATTTTGATTTTATTTCCAAACGAG
65 TATTTTAATTTTATTTCCAAACGAG
* * *
34071843 AAATTAAAGGTAAATAAAATCTGTTTCGGGATTTATTCTCGCCGTTCAATGGATTTTATTCCATT
1 AAATTAAAGGTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCATT
*
34071908 ATTTTAATTTTATTTCCAAACGGG
66 ATTTTAATTTTATTTCCAAACGAG
* * * * ** *
34071932 AAATTAATGGGAAATAAAATCCATTTCGCGATTTATTCCCGCCCATCAACGGATTTAATTCCATT
1 AAATTAAAGGTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCATT
* * *
34071997 ATTTTGATTTTATTACCAAA-TAGG
66 ATTTTAATTTTATTTCCAAACGA-G
* * *
34072021 AAATTAAAGGTAAATAAAAT-TCATTTGGGGATTGATTCCCGCTGTTCAAC-GATTTTATT-C-T
1 AAATTAAAGGTAAATAAAATCT-ATTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCAT
* *
34072082 AATTTTAATTTTATTTTCAAAACTGAG
65 TATTTTAATTTTA-TTTCCAAAC-GAG
* * ** * * * ** *
34072109 -TATGAAAACTAACTAAAAATCTATTTCGGGATGTATTCCAGTTGTTCAACGGA-TTTATTACAT
1 AAATTAAAGGTAAAT-AAAATCTATTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCAT
34072172 T
65 T
34072173 TTGATTTTGT
Statistics
Matches: 274, Mismatches: 45, Indels: 21
0.81 0.13 0.06
Matches are distributed among these distances:
86 12 0.04
87 16 0.06
88 45 0.16
89 200 0.73
90 1 0.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (89 bp):
AAATTAAAGGTAAATAAAATCTATTTCGGGATTTATTCCCGCCGTTCAACGGATTTTATTCCATT
ATTTTAATTTTATTTCCAAACGAG
Found at i:34104197 original size:32 final size:32
Alignment explanation
Indices: 34104156--34104220 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
34104146 TGAGGGGGAG
*
34104156 TGTTGGAATCCTTATAATTAAGGATAGAAATC
1 TGTTGGAATCCCTATAATTAAGGATAGAAATC
34104188 TGTTGGAATCCCTATAATTAAGGATAGAAATC
1 TGTTGGAATCCCTATAATTAAGGATAGAAATC
34104220 T
1 T
34104221 TACCTTATTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.37, C:0.11, G:0.18, T:0.34
Consensus pattern (32 bp):
TGTTGGAATCCCTATAATTAAGGATAGAAATC
Found at i:34106095 original size:39 final size:40
Alignment explanation
Indices: 34106050--34106234 Score: 178
Period size: 40 Copynumber: 4.7 Consensus size: 40
34106040 GCTCCTCGTT
* * *
34106050 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
**
34106090 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
34106129 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * * * * *
34106169 CAAAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CATAACCCGGATTTAGTAAC-TCGCA
* *
34106210 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACATAACCCGGA
34106235 CAGCATTCAC
Statistics
Matches: 122, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
39 37 0.30
40 74 0.61
41 11 0.09
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:34106150 original size:40 final size:39
Alignment explanation
Indices: 34106017--34106234 Score: 165
Period size: 40 Copynumber: 5.5 Consensus size: 39
34106007 AAATCACGTA
* * **
34106017 CCTTCGGGATTTAA-CCGGATATAGCTCCTCGTTCA-AATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCG--CACAATG
* * * * *
34106056 CCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
* *
34106095 CCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * *
34106135 CCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGG
1 CCTTCGGGACTTAACCCGGATTTAGCAACTCGCAC-AATG
* * * * *
34106175 CCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCACAAAG
1 CCTTCGGGA-CTTAACCCGGATTTA-GCAAC-TCGCACAATG
*
34106215 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAACCCGGA
34106235 CAGCATTCAC
Statistics
Matches: 143, Mismatches: 29, Indels: 13
0.77 0.16 0.07
Matches are distributed among these distances:
38 2 0.01
39 48 0.34
40 85 0.59
41 8 0.06
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
CCTTCGGGACTTAACCCGGATTTAGCAACTCGCACAATG
Found at i:34111274 original size:17 final size:17
Alignment explanation
Indices: 34111242--34111275 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
34111232 TTAAAATTAG
34111242 ATTGAGAAATTTATTTA
1 ATTGAGAAATTTATTTA
34111259 ATTGA-AAATTTAATTTA
1 ATTGAGAAATTT-ATTTA
34111276 GTTAATTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (17 bp):
ATTGAGAAATTTATTTA
Found at i:34111848 original size:74 final size:74
Alignment explanation
Indices: 34111701--34111849 Score: 235
Period size: 74 Copynumber: 2.0 Consensus size: 74
34111691 GCCTAAACGA
* *
34111701 AATGTTCGAAGTATAAATTGTGCTTCACGCATCATTAGTATAACTGAGGTAAAGTGTGCTCCACA
1 AATGTCCGAAGTATAAATTGCGCTTCACGCATCATTAGTATAACTGAGGTAAAGTGTGCTCCACA
* *
34111766 CTTTATCAG
66 CCTCATCAG
** *
34111775 AATGTCCGAAGTATAAATTGCGCTTCGTGCATCATTAGTATAACTGAGGTAAAGTGTGCTCCGCA
1 AATGTCCGAAGTATAAATTGCGCTTCACGCATCATTAGTATAACTGAGGTAAAGTGTGCTCCACA
34111840 CCTCATCAG
66 CCTCATCAG
34111849 A
1 A
34111850 CTTCCAAAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.30
Consensus pattern (74 bp):
AATGTCCGAAGTATAAATTGCGCTTCACGCATCATTAGTATAACTGAGGTAAAGTGTGCTCCACA
CCTCATCAG
Found at i:34117162 original size:17 final size:18
Alignment explanation
Indices: 34117142--34117180 Score: 71
Period size: 17 Copynumber: 2.2 Consensus size: 18
34117132 TGACTGATTT
34117142 GGGCGTGTGGG-CCACAC
1 GGGCGTGTGGGCCCACAC
34117159 GGGCGTGTGGGCCCACAC
1 GGGCGTGTGGGCCCACAC
34117177 GGGC
1 GGGC
34117181 ATGCCACACG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.10, C:0.31, G:0.49, T:0.10
Consensus pattern (18 bp):
GGGCGTGTGGGCCCACAC
Found at i:34117687 original size:24 final size:23
Alignment explanation
Indices: 34117642--34117687 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
34117632 ATACCACACG
* **
34117642 TGGTGTGTTGGGATGGTTGAAGT
1 TGGTGTGTAGGGATGGGGGAAGT
34117665 TGGTGTGTAGAGGATGGGGGAAG
1 TGGTGTGTAG-GGATGGGGGAAG
34117688 GACTATGCAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 9 0.47
24 10 0.53
ACGTcount: A:0.17, C:0.00, G:0.52, T:0.30
Consensus pattern (23 bp):
TGGTGTGTAGGGATGGGGGAAGT
Found at i:34124029 original size:23 final size:23
Alignment explanation
Indices: 34123999--34124046 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
34123989 TTCACCAAGT
*
34123999 ATAAAATTTTTAACCCTATTAAC
1 ATAAAATTTTAAACCCTATTAAC
34124022 ATAAAATTTTAAACCCTATTAAC
1 ATAAAATTTTAAACCCTATTAAC
34124045 AT
1 AT
34124047 GACTCAAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.46, C:0.17, G:0.00, T:0.38
Consensus pattern (23 bp):
ATAAAATTTTAAACCCTATTAAC
Found at i:34124192 original size:19 final size:19
Alignment explanation
Indices: 34124157--34124193 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34124147 AAATGCATAC
*
34124157 TGGCACACAAGGCGCATCT
1 TGGCACACAAAGCGCATCT
*
34124176 TGGCACACAAAGTGCATC
1 TGGCACACAAAGCGCATC
34124194 CTAGTGCATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.30, C:0.30, G:0.24, T:0.16
Consensus pattern (19 bp):
TGGCACACAAAGCGCATCT
Found at i:34126885 original size:30 final size:30
Alignment explanation
Indices: 34126851--34126912 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
34126841 TGATCTACCA
34126851 TAATTTGATATGAAAAATTAAGTTCTTTTT
1 TAATTTGATATGAAAAATTAAGTTCTTTTT
34126881 TAATTTGATATGAAAAATTAAGTTCTTTTT
1 TAATTTGATATGAAAAATTAAGTTCTTTTT
34126911 TA
1 TA
34126913 CACTTAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.37, C:0.03, G:0.10, T:0.50
Consensus pattern (30 bp):
TAATTTGATATGAAAAATTAAGTTCTTTTT
Found at i:34128827 original size:33 final size:34
Alignment explanation
Indices: 34128789--34128861 Score: 87
Period size: 32 Copynumber: 2.2 Consensus size: 34
34128779 TTTTTTCTTG
** **
34128789 CTATTTTTGTTGTTGTTTTGCTGCTAT-TTGCTA
1 CTATTTTTGTTGTCATTTTGCCACTATATTGCTA
*
34128822 CTA-TTTTGTTGTCATTTTGCCATTATATTGCTA
1 CTATTTTTGTTGTCATTTTGCCACTATATTGCTA
34128855 CTATTTT
1 CTATTTT
34128862 AGAGACTTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
32 18 0.55
33 12 0.36
34 3 0.09
ACGTcount: A:0.14, C:0.14, G:0.14, T:0.59
Consensus pattern (34 bp):
CTATTTTTGTTGTCATTTTGCCACTATATTGCTA
Found at i:34146911 original size:6 final size:6
Alignment explanation
Indices: 34146900--34146947 Score: 55
Period size: 6 Copynumber: 8.3 Consensus size: 6
34146890 AATTTAGCCA
* * *
34146900 TTTATT TTTA-T TATA-T TTTATT TTTATT TTTAGT TTAATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
34146946 TT
1 TT
34146948 CTAATTTTTC
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
5 8 0.23
6 27 0.77
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:34151965 original size:13 final size:13
Alignment explanation
Indices: 34151947--34151974 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
34151937 GACTTGAATA
34151947 ATGTTTTGATGAT
1 ATGTTTTGATGAT
34151960 ATGTTTTGATGAT
1 ATGTTTTGATGAT
34151973 AT
1 AT
34151975 AAATGTGGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.25, C:0.00, G:0.21, T:0.54
Consensus pattern (13 bp):
ATGTTTTGATGAT
Found at i:34156820 original size:19 final size:20
Alignment explanation
Indices: 34156796--34156844 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
34156786 TTGTTAGTAA
34156796 TTTTTGTGATTAGGTTAAT-
1 TTTTTGTGATTAGGTTAATG
*
34156815 TTTTTGT--TTAGTTTAATG
1 TTTTTGTGATTAGGTTAATG
34156833 TTTATTGTGATT
1 TTT-TTGTGATT
34156845 TGGTAGGTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 9 0.36
18 3 0.12
19 11 0.44
21 2 0.08
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.63
Consensus pattern (20 bp):
TTTTTGTGATTAGGTTAATG
Found at i:34156825 original size:17 final size:18
Alignment explanation
Indices: 34156793--34156831 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
34156783 ATTTTGTTAG
34156793 TAATTTTTGTGATTAGGT
1 TAATTTTTGTGATTAGGT
* *
34156811 TAATTTTT-TGTTTAGTT
1 TAATTTTTGTGATTAGGT
34156828 TAAT
1 TAAT
34156832 GTTTATTGTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.23, C:0.00, G:0.15, T:0.62
Consensus pattern (18 bp):
TAATTTTTGTGATTAGGT
Found at i:34165316 original size:39 final size:38
Alignment explanation
Indices: 34165267--34165366 Score: 123
Period size: 39 Copynumber: 2.6 Consensus size: 38
34165257 CGAATATAAT
*
34165267 AATTATAATTACCATAATTATAATAATATTTGA-CCAAAA
1 AATTATAATTACCATAATTATAATAATATTCGATCC--AA
* *
34165306 AATTACAATTA-CAGTAATTATAATAATATTCGATCCTA
1 AATTATAATTACCA-TAATTATAATAATATTCGATCCAA
*
34165344 AATTATAATTACAATAATTATAA
1 AATTATAATTACCATAATTATAA
34165367 CAAGGATTTC
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
38 22 0.42
39 29 0.55
40 2 0.04
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (38 bp):
AATTATAATTACCATAATTATAATAATATTCGATCCAA
Found at i:34168624 original size:41 final size:42
Alignment explanation
Indices: 34168535--34168639 Score: 115
Period size: 41 Copynumber: 2.5 Consensus size: 42
34168525 TACATGTTTA
* * * * * *
34168535 TACTTCAGTTTATCCAATGATGCACTTTTGTGCCATTATATT
1 TACTTCGGTTTATCCGATGATGCACTTATGTGCAAGTATATC
*
34168577 TGCTTCGGTTTATCCGATGATGCAC-TATGTGCAAGTATGA-C
1 TACTTCGGTTTATCCGATGATGCACTTATGTGCAAGTAT-ATC
*
34168618 TACTTCGGTTTATTCGATGATG
1 TACTTCGGTTTATCCGATGATG
34168640 AATTGCAACG
Statistics
Matches: 53, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
41 30 0.57
42 23 0.43
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.41
Consensus pattern (42 bp):
TACTTCGGTTTATCCGATGATGCACTTATGTGCAAGTATATC
Found at i:34170176 original size:48 final size:48
Alignment explanation
Indices: 34170122--34170217 Score: 156
Period size: 48 Copynumber: 2.0 Consensus size: 48
34170112 ATTGTTTATT
* * * *
34170122 TAAATTAATTCCCATCTTTTCTAGGTTTTTTTTTCTTCTTTATTTTTA
1 TAAATTAATTCCCATCTTCTCTAGGTTTTTTTCTCTTCTATATGTTTA
34170170 TAAATTAATTCCCATCTTCTCTAGGTTTTTTTCTCTTCTATATGTTTA
1 TAAATTAATTCCCATCTTCTCTAGGTTTTTTTCTCTTCTATATGTTTA
34170218 AAAGCTTTTC
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.20, C:0.17, G:0.05, T:0.58
Consensus pattern (48 bp):
TAAATTAATTCCCATCTTCTCTAGGTTTTTTTCTCTTCTATATGTTTA
Found at i:34171953 original size:40 final size:40
Alignment explanation
Indices: 34171898--34172046 Score: 183
Period size: 40 Copynumber: 3.7 Consensus size: 40
34171888 TATGTCATGA
*
34171898 GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCCAGTGT
1 GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCTAGTGT
* * * * *
34171938 GATTATCAGGCTTAGTGCATAACAGGCTTTGTGTTGGTGT
1 GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCTAGTGT
* *
34171978 GATTATTAGGCTTAGTGCCTAGAAGGCTTTATGCTAGTGT
1 GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCTAGTGT
* * *
34172018 -AGTTATTAGACTTAGTGCCTCGTAGGCTT
1 GA-TTATTAGGCTTAGTGCCTAGCAGGCTT
34172047 CGTGTGGATG
Statistics
Matches: 92, Mismatches: 16, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
39 1 0.01
40 91 0.99
ACGTcount: A:0.20, C:0.15, G:0.28, T:0.37
Consensus pattern (40 bp):
GATTATTAGGCTTAGTGCCTAGCAGGCTTTGTGCTAGTGT
Found at i:34172340 original size:21 final size:21
Alignment explanation
Indices: 34172314--34172357 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
34172304 TATTGGTATA
34172314 CTTCAGTGGTATAACGAAATC
1 CTTCAGTGGTATAACGAAATC
*
34172335 CTTCAGTGGTATAATGAAATC
1 CTTCAGTGGTATAACGAAATC
34172356 CT
1 CT
34172358 ACTTGGCTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (21 bp):
CTTCAGTGGTATAACGAAATC
Found at i:34172653 original size:10 final size:10
Alignment explanation
Indices: 34172625--34172654 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
34172615 TAGTTTTAGG
34172625 TTTAGTTTTC
1 TTTAGTTTTC
34172635 TTTAGGTTTTC
1 TTTA-GTTTTC
34172646 TTTAGTTTT
1 TTTAGTTTT
34172655 TCTCTGCATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.10, C:0.07, G:0.13, T:0.70
Consensus pattern (10 bp):
TTTAGTTTTC
Found at i:34178529 original size:55 final size:54
Alignment explanation
Indices: 34178427--34178534 Score: 130
Period size: 54 Copynumber: 2.0 Consensus size: 54
34178417 ACCTTCGAAC
*
34178427 TAGGGACACACGGCCATGTCCTAGCCCATGTCCTCACCCATGTAACTCTCTAAG
1 TAGGGACACACGGCCATGTCCTAGCCCATGTCCTCACCCATGTAACTCACTAAG
* * * *
34178481 TAGGGTCACACGGGCATGTCAC-ACGCCCATGT-CTCAGGCTATGTAACTCACTAA
1 TAGGGACACACGGCCATGTC-CTA-GCCCATGTCCTCA-CCCATGTAACTCACTAA
34178535 CTTGCACCCT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
54 23 0.50
55 23 0.50
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.22
Consensus pattern (54 bp):
TAGGGACACACGGCCATGTCCTAGCCCATGTCCTCACCCATGTAACTCACTAAG
Found at i:34181639 original size:50 final size:50
Alignment explanation
Indices: 34181544--34181644 Score: 132
Period size: 50 Copynumber: 2.0 Consensus size: 50
34181534 TGTGTCAAAT
* * *
34181544 ATCACGTCTGGCTTGCAAAGAAAGGTATAGTTTTCACTATAGTTTGTCTG
1 ATCACATCTGGCTTGCAAAGAAAGGTATAATTTACACTATAGTTTGTCTG
* * *
34181594 ATCACATCTGGCTTGCAACGAAAGGTATAATTCTAC-CTTTTGTTTGTCTG
1 ATCACATCTGGCTTGCAAAGAAAGGTATAATT-TACACTATAGTTTGTCTG
34181644 A
1 A
34181645 AGTTAATTTA
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
50 42 0.95
51 2 0.05
ACGTcount: A:0.26, C:0.18, G:0.20, T:0.37
Consensus pattern (50 bp):
ATCACATCTGGCTTGCAAAGAAAGGTATAATTTACACTATAGTTTGTCTG
Found at i:34184380 original size:55 final size:54
Alignment explanation
Indices: 34184293--34184400 Score: 153
Period size: 55 Copynumber: 2.0 Consensus size: 54
34184283 CACATTGGTT
** * * **
34184293 CAAACTCCATGATAGTGGATTCGCTCTTAAAAGGTTTACCACCCAAGGTCTTTTA
1 CAAACTCCATGATAGCAGATCCACTCACAAAAGGTTTACCACCCAAGGT-TTTTA
34184348 CAAACTCCATGATAGCAGATCCACTCACAAAAGGTTTACCACCCAAGGTTTTT
1 CAAACTCCATGATAGCAGATCCACTCACAAAAGGTTTACCACCCAAGGTTTTT
34184401 CATGAGCACA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
54 4 0.09
55 43 0.91
ACGTcount: A:0.31, C:0.26, G:0.15, T:0.28
Consensus pattern (54 bp):
CAAACTCCATGATAGCAGATCCACTCACAAAAGGTTTACCACCCAAGGTTTTTA
Found at i:34186726 original size:20 final size:20
Alignment explanation
Indices: 34186702--34186750 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
34186692 TGCTACTAAC
* *
34186702 GATTTAAATCTGCTTCAATCT
1 GATTTAAATCCGCTGCAAT-T
34186723 -ATTTAAATCCGCTGCAATT
1 GATTTAAATCCGCTGCAATT
34186742 GATTTAAAT
1 GATTTAAAT
34186751 ATGTTTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.41
Consensus pattern (20 bp):
GATTTAAATCCGCTGCAATT
Found at i:34190610 original size:3 final size:3
Alignment explanation
Indices: 34190604--34190751 Score: 60
Period size: 3 Copynumber: 47.3 Consensus size: 3
34190594 AGTCCTTTTT
* *
34190604 TTA TTA TTC TTG TTA TGTTA TTGA TTA TTA TTA TTA TTA TTA TTA -TA
1 TTA TTA TTA TTA TTA T-T-A TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * *
34190651 GGTA TTA TTA TT- GTA TTA GT- TTA TATA TCTA TTTA CCTT- TTA TATA
1 -TTA TTA TTA TTA TTA TTA TTA TTA T-TA T-TA -TTA --TTA TTA T-TA
*
34190697 TTA TT- TTA TT- TTA TTA TGTA TTA TTA TT- TTAA TTCA TT- TTA TCA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TT-A TT-A TTA TTA TTA
34190741 TGTA TTA TTA T
1 T-TA TTA TTA T
34190752 CTAATTACAT
Statistics
Matches: 113, Mismatches: 14, Indels: 36
0.69 0.09 0.22
Matches are distributed among these distances:
2 14 0.12
3 67 0.59
4 27 0.24
5 5 0.04
ACGTcount: A:0.28, C:0.04, G:0.06, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:34190708 original size:17 final size:18
Alignment explanation
Indices: 34190670--34190738 Score: 60
Period size: 19 Copynumber: 4.0 Consensus size: 18
34190660 ATTGTATTAG
34190670 TTTATATATCTA-TTTACCT
1 TTTATATATCTATTTTA--T
34190689 TTTATATAT-TATTTTAT
1 TTTATATATCTATTTTAT
*
34190706 TTTAT-TATGTATTATTAT
1 TTTATATATCTATT-TTAT
34190724 TTTA-AT-TC-ATTTTAT
1 TTTATATATCTATTTTAT
34190739 CATGTATTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
15 4 0.09
16 6 0.13
17 11 0.24
18 11 0.24
19 13 0.29
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.65
Consensus pattern (18 bp):
TTTATATATCTATTTTAT
Found at i:34198127 original size:22 final size:22
Alignment explanation
Indices: 34198108--34198151 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
34198098 CATAAATATT
* *
34198108 TTCAAATATATATAATAATAAA
1 TTCAAAAATATATAAAAATAAA
34198130 TTCAAAAATATATAAAAATAAA
1 TTCAAAAATATATAAAAATAAA
34198152 ATAATATTGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (22 bp):
TTCAAAAATATATAAAAATAAA
Found at i:34198958 original size:49 final size:51
Alignment explanation
Indices: 34198905--34199001 Score: 121
Period size: 49 Copynumber: 1.9 Consensus size: 51
34198895 ATTTAAATTT
* *
34198905 AAATTTATTATTATGT-TTTTT--AAATAATTTTTGT-TTTTATATATTTCTC
1 AAATTCATTATTATGTCTTTTTGAAAAT-ATTTATGTATTTT-TATATTTCTC
*
34198954 AAATTCATTATTATTTCTTTTTGAAAATATTTATGTATTTTTATATTT
1 AAATTCATTATTATGTCTTTTTGAAAATATTTATGTATTTTTATATTT
34199002 TTTTAGAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
49 14 0.34
50 5 0.12
51 14 0.34
52 8 0.20
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.62
Consensus pattern (51 bp):
AAATTCATTATTATGTCTTTTTGAAAATATTTATGTATTTTTATATTTCTC
Found at i:34200995 original size:16 final size:17
Alignment explanation
Indices: 34200974--34201019 Score: 58
Period size: 16 Copynumber: 2.6 Consensus size: 17
34200964 TCGGGTTGAG
34200974 AAAATTATTTAATTAA-
1 AAAATTATTTAATTAAT
*
34200990 AAAATTAATTAATTAATT
1 AAAATTATTTAATTAA-T
34201008 AAAATTAATTTA
1 AAAATT-ATTTA
34201020 TTATGTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 15 0.60
18 6 0.24
19 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAAATTATTTAATTAAT
Found at i:34222390 original size:45 final size:45
Alignment explanation
Indices: 34222326--34222471 Score: 195
Period size: 45 Copynumber: 3.2 Consensus size: 45
34222316 GTAACGATAG
* * *
34222326 CAGTAACAGTAACAATATTCAACACACAAAGTGCTGAATCTGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCAGTAA
* * *
34222371 CAGTAACGGTAACAGTATTCGACACACAAAGTG-TCAAATCGGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCT-GAATCAGTAA
* *
34222416 CAGTAATAGTAACAGTATTCGACACACAAAGTGCCGAATCAGTAA
1 CAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCAGTAA
*
34222461 TAGTAACAGTA
1 CAGTAACAGTA
34222472 GTCGGCACAT
Statistics
Matches: 87, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
44 1 0.01
45 86 0.99
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.21
Consensus pattern (45 bp):
CAGTAACAGTAACAGTATTCGACACACAAAGTGCTGAATCAGTAA
Found at i:34225221 original size:159 final size:159
Alignment explanation
Indices: 34224932--34225248 Score: 625
Period size: 159 Copynumber: 2.0 Consensus size: 159
34224922 ACTAAACACA
34224932 TAGATCCAAACATTTATAAGCTCATCGAATACATATAAATAAGTATTCATATATTTATTCATTAT
1 TAGATCCAAACATTTATAAGCTCATCGAATACATATAAATAAGTATTCATATATTTATTCATTAT
34224997 ATATATAACCCAAAATCATTTATATATATATATCACATGCATATAATCACTTAATTTAACATATT
66 ATATATAACCCAAAATCATTTATATATATATATCACATGCATATAATCACTTAATTTAACATATT
34225062 CACCGGCACTTAGCCTGCTAGGCTTATAG
131 CACCGGCACTTAGCCTGCTAGGCTTATAG
34225091 TAGATCCAAACATTTATAAGCTCATCGAATACATATAAATAAGTATTCATATATTTATTCATTAT
1 TAGATCCAAACATTTATAAGCTCATCGAATACATATAAATAAGTATTCATATATTTATTCATTAT
34225156 ATATATAACCCAAAATCATTTATATATATATATCACATGCATATAATCACTTAATTTAACATATT
66 ATATATAACCCAAAATCATTTATATATATATATCACATGCATATAATCACTTAATTTAACATATT
*
34225221 CACCGGCACTTAGCCTGCTAGGTTTATA
131 CACCGGCACTTAGCCTGCTAGGCTTATA
34225249 ACCTGATTCA
Statistics
Matches: 157, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
159 157 1.00
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.36
Consensus pattern (159 bp):
TAGATCCAAACATTTATAAGCTCATCGAATACATATAAATAAGTATTCATATATTTATTCATTAT
ATATATAACCCAAAATCATTTATATATATATATCACATGCATATAATCACTTAATTTAACATATT
CACCGGCACTTAGCCTGCTAGGCTTATAG
Found at i:34227900 original size:27 final size:28
Alignment explanation
Indices: 34227763--34227913 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
34227753 GAGATTGGCG
* * * *
34227763 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
* *
34227792 CTAAGTGTGCGAGTTTGACTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
34227820 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34227848 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34227876 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
34227903 CTGAGTGTGCG
1 CTAAGTGTGCG
34227914 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.21
28 74 0.65
29 15 0.13
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:34240796 original size:28 final size:28
Alignment explanation
Indices: 34240743--34240797 Score: 67
Period size: 30 Copynumber: 1.9 Consensus size: 28
34240733 AGAAAATTAC
*
34240743 AAAAAATATATATTATGTATATAAATTCT
1 AAAAAATATATATTA-GTATACAAATTCT
*
34240772 AAAAATATATATATTA-TCTACAAATT
1 AAAAA-ATATATATTAGTATACAAATT
34240798 TACTTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 8 0.35
29 5 0.22
30 10 0.43
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (28 bp):
AAAAAATATATATTAGTATACAAATTCT
Found at i:34241213 original size:2 final size:2
Alignment explanation
Indices: 34241208--34241248 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
34241198 ATATATATGT
34241208 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
34241249 TTCTATACAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:34242466 original size:20 final size:20
Alignment explanation
Indices: 34242433--34242472 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
34242423 TGGAAATATA
** *
34242433 TATAAAAATTGAAAAGAGTT
1 TATAAAAAAGGAAAAAAGTT
34242453 TATAAAAAAGGAAAAAAGTT
1 TATAAAAAAGGAAAAAAGTT
34242473 AAATATTTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.60, C:0.00, G:0.15, T:0.25
Consensus pattern (20 bp):
TATAAAAAAGGAAAAAAGTT
Found at i:34253641 original size:49 final size:49
Alignment explanation
Indices: 34253584--34253899 Score: 509
Period size: 49 Copynumber: 6.6 Consensus size: 49
34253574 TTAAACCCAT
34253584 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
34253633 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
34253682 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
34253731 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
*
34253780 ATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGA
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
* * ** * * *
34253827 ATGTGAAAGTG--TATATATGTGACAGGGCCGAGTGGCCAATGTGATGG
1 ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
*
34253874 ATGTGAAAGTGCATA-A-ATGTGATAAG
1 ATGTGAAAGTGTATATATATGTGATAAG
34253900 TCCCGAAGGG
Statistics
Matches: 256, Mismatches: 9, Indels: 6
0.94 0.03 0.02
Matches are distributed among these distances:
47 95 0.37
48 1 0.00
49 160 0.62
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.31
Consensus pattern (49 bp):
ATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGA
Found at i:34263775 original size:29 final size:29
Alignment explanation
Indices: 34263728--34263836 Score: 96
Period size: 29 Copynumber: 3.7 Consensus size: 29
34263718 TTTGATCAAA
**
34263728 AGATAGCCACGAAATCATCCACTTAAC-TT
1 AGATAGCCACGAAGGCATCCAC-TAACATT
* *
34263757 AGATAGCCACGAAGGCATCCACGCAACTTT
1 AGATAGCCACGAAGGCATCCAC-TAACATT
* * * *
34263787 TGGTAGCCACAAAGGCA-CCTACTCACATT
1 AGATAGCCACGAAGGCATCC-ACTAACATT
*
34263816 AGATAGCCACCAAGGCATCCA
1 AGATAGCCACGAAGGCATCCA
34263837 AACACGTACA
Statistics
Matches: 64, Mismatches: 13, Indels: 6
0.77 0.16 0.07
Matches are distributed among these distances:
29 44 0.69
30 20 0.31
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.18
Consensus pattern (29 bp):
AGATAGCCACGAAGGCATCCACTAACATT
Found at i:34267221 original size:5 final size:5
Alignment explanation
Indices: 34267211--34267281 Score: 62
Period size: 5 Copynumber: 14.6 Consensus size: 5
34267201 AAAAAAATAT
* *
34267211 TATTA TATTA TAGTAA TGATTA TGTT- T-TTA TATTA TATTA TTATTA
1 TATTA TATTA TA-TTA T-ATTA TATTA TATTA TATTA TATTA -TATTA
34267257 -A-TA TATTA TATTA TATTA TA-TA TAT
1 TATTA TATTA TATTA TATTA TATTA TAT
34267282 ACATAAAACA
Statistics
Matches: 55, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
3 4 0.07
4 8 0.15
5 31 0.56
6 11 0.20
7 1 0.02
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (5 bp):
TATTA
Found at i:34267263 original size:19 final size:19
Alignment explanation
Indices: 34267239--34267281 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
34267229 ATTATGTTTT
34267239 TATATTATATTATTATTA-A
1 TATATTATATTA-TATTATA
34267258 TATATTATATTATATTATA
1 TATATTATATTATATTATA
34267277 TATAT
1 TATAT
34267282 ACATAAAACA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 5 0.22
19 18 0.78
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATTATATTATATTATA
Found at i:34267328 original size:15 final size:15
Alignment explanation
Indices: 34267291--34267321 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
34267281 TACATAAAAC
*
34267291 AAAAGAAAGAATAGA
1 AAAAGAAAGAAAAGA
34267306 AAAAGAAAGAAAAGA
1 AAAAGAAAGAAAAGA
34267321 A
1 A
34267322 GCAGAAAAGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.03
Consensus pattern (15 bp):
AAAAGAAAGAAAAGA
Found at i:34267992 original size:41 final size:39
Alignment explanation
Indices: 34267944--34268055 Score: 111
Period size: 37 Copynumber: 2.9 Consensus size: 39
34267934 TCGACCTTGA
34267944 GTCGATGAGACACTGGGTGTCATACTATTACTTCGGATAG
1 GTCGATGAGACACTGGGTGTCA-ACTATTACTTCGGATAG
* ** ** * *
34267984 ATTCGATGAGGTACTGGGTACCAAC--TTACTTCGGCTTG
1 -GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
* *
34268022 GCCGATGAGACACTGGGTGTCAACTATTGCTTCG
1 GTCGATGAGACACTGGGTGTCAACTATTACTTCG
34268056 AACTATCCGA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
37 18 0.33
38 11 0.20
39 7 0.13
40 2 0.04
41 17 0.31
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (39 bp):
GTCGATGAGACACTGGGTGTCAACTATTACTTCGGATAG
Found at i:34268785 original size:17 final size:17
Alignment explanation
Indices: 34268736--34268786 Score: 84
Period size: 17 Copynumber: 3.0 Consensus size: 17
34268726 ATGTGGCATG
*
34268736 TACCTAAGTAATGTACA
1 TACCTAAGTAATGTATA
34268753 TACCTAAGTAATGTATA
1 TACCTAAGTAATGTATA
*
34268770 TACCTAAGTGATGTATA
1 TACCTAAGTAATGTATA
34268787 GGGATTTAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (17 bp):
TACCTAAGTAATGTATA
Found at i:34273430 original size:10 final size:9
Alignment explanation
Indices: 34273411--34273479 Score: 79
Period size: 9 Copynumber: 7.4 Consensus size: 9
34273401 CAATAATTAT
34273411 TAATTTTTA
1 TAATTTTTA
34273420 TAATTTATTA
1 TAATTT-TTA
34273430 TAATTTTTAA
1 TAATTTTT-A
34273440 TAA-TTTTA
1 TAATTTTTA
34273448 TAATTTTTA
1 TAATTTTTA
*
34273457 CT-ATTCTTAA
1 -TAATT-TTTA
34273467 TAATTTTTA
1 TAATTTTTA
34273476 TAAT
1 TAAT
34273480 ATTATGTCCA
Statistics
Matches: 52, Mismatches: 2, Indels: 12
0.79 0.03 0.18
Matches are distributed among these distances:
8 4 0.08
9 28 0.54
10 20 0.38
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (9 bp):
TAATTTTTA
Found at i:34273437 original size:20 final size:18
Alignment explanation
Indices: 34273395--34273484 Score: 80
Period size: 18 Copynumber: 4.9 Consensus size: 18
34273385 TTTGTATGTT
*
34273395 ATTTTTCAATAATTAT-TA
1 ATTTTT-AATAATTTTATA
34273413 ATTTTT-ATAATTTATTATA
1 ATTTTTAATAA-TT-TTATA
34273432 ATTTTTAATAATTTTATA
1 ATTTTTAATAATTTTATA
*
34273450 ATTTTTACT-ATTCTTAATA
1 ATTTTTAATAATT-TT-ATA
*
34273469 ATTTTT-ATAATATTAT
1 ATTTTTAATAATTTTAT
34273485 GTCCATGATG
Statistics
Matches: 61, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
16 4 0.07
17 7 0.11
18 25 0.41
19 21 0.34
20 4 0.07
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (18 bp):
ATTTTTAATAATTTTATA
Found at i:34273664 original size:19 final size:21
Alignment explanation
Indices: 34273640--34273682 Score: 63
Period size: 19 Copynumber: 2.1 Consensus size: 21
34273630 TCATGTATAA
*
34273640 TTTTTAC-CATTTTAA-ATTT
1 TTTTTACAAATTTTAATATTT
34273659 TTTTTACAAATTTTAATATTT
1 TTTTTACAAATTTTAATATTT
34273680 TTT
1 TTT
34273683 ACAATATTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 7 0.33
20 7 0.33
21 7 0.33
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTACAAATTTTAATATTT
Found at i:34273683 original size:19 final size:20
Alignment explanation
Indices: 34273648--34273686 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
34273638 AATTTTTACC
*
34273648 ATTTTAAATTTTTTTTACAA
1 ATTTTAAATATTTTTTACAA
34273668 ATTTT-AATATTTTTTACAA
1 ATTTTAAATATTTTTTACAA
34273687 TATTCTAAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTTAAATATTTTTTACAA
Found at i:34275622 original size:18 final size:16
Alignment explanation
Indices: 34275584--34275622 Score: 51
Period size: 18 Copynumber: 2.3 Consensus size: 16
34275574 CTGAAAAGTA
34275584 ATTTTTAGAAAATAAT
1 ATTTTTAGAAAATAAT
*
34275600 TTTTTTAGATAATATAAT
1 ATTTTTAGA-AA-ATAAT
34275618 ATTTT
1 ATTTT
34275623 CTAATGTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 9 0.47
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (16 bp):
ATTTTTAGAAAATAAT
Found at i:34276058 original size:22 final size:22
Alignment explanation
Indices: 34276024--34276078 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
34276014 AAGCTAAACA
* *
34276024 TTATTTAAATAAATACTCATAT
1 TTATATAATTAAATACTCATAT
*
34276046 TTATATAATTAAAATATTCATAT
1 TTATATAATT-AAATACTCATAT
*
34276069 TTTTA-AATTA
1 TTATATAATTA
34276079 GGTTAAAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.04
22 12 0.43
23 15 0.54
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.49
Consensus pattern (22 bp):
TTATATAATTAAATACTCATAT
Found at i:34276066 original size:23 final size:22
Alignment explanation
Indices: 34276034--34276078 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
34276024 TTATTTAAAT
34276034 AAATACTCATATTTATATAATTA
1 AAATACTCATATTTATA-AATTA
* *
34276057 AAATATTCATATTTTTAAATTA
1 AAATACTCATATTTATAAATTA
34276079 GGTTAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (22 bp):
AAATACTCATATTTATAAATTA
Found at i:34277805 original size:16 final size:16
Alignment explanation
Indices: 34277786--34277845 Score: 54
Period size: 16 Copynumber: 3.8 Consensus size: 16
34277776 TGAAATATTA
34277786 AATAATTTATTAAAAT
1 AATAATTTATTAAAAT
*
34277802 AATAATTTA-T--ATT
1 AATAATTTATTAAAAT
* *
34277815 AGTAATTTGTTAAAAT
1 AATAATTTATTAAAAT
34277831 AATAAATTATATTAA
1 AAT-AATT-TATTAA
34277846 TAATTTGTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
13 9 0.27
14 1 0.03
15 1 0.03
16 13 0.39
17 4 0.12
18 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (16 bp):
AATAATTTATTAAAAT
Found at i:34277830 original size:29 final size:29
Alignment explanation
Indices: 34277780--34277855 Score: 116
Period size: 29 Copynumber: 2.6 Consensus size: 29
34277770 ATAAATTGAA
* *
34277780 ATATTAAATAATTTATTAAAATAATAATTT
1 ATATT-AATAATTTGTTAAAATAATAAATT
*
34277810 ATATTAGTAATTTGTTAAAATAATAAATT
1 ATATTAATAATTTGTTAAAATAATAAATT
34277839 ATATTAATAATTTGTTA
1 ATATTAATAATTTGTTA
34277856 TATGGTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 37 0.88
30 5 0.12
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (29 bp):
ATATTAATAATTTGTTAAAATAATAAATT
Found at i:34283080 original size:12 final size:13
Alignment explanation
Indices: 34283049--34283079 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
34283039 GTATTTCGAA
34283049 TTTTTTT-GATTT
1 TTTTTTTCGATTT
34283061 TTTTTTTCGATTT
1 TTTTTTTCGATTT
34283074 TTTTTT
1 TTTTTT
34283080 CAATTACAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 7 0.39
13 11 0.61
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.84
Consensus pattern (13 bp):
TTTTTTTCGATTT
Found at i:34284585 original size:20 final size:19
Alignment explanation
Indices: 34284533--34284608 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 19
34284523 AGCTAATAAC
* *
34284533 GAGCTCAATGAGATGAATT
1 GAGCTCAATGAGCTGACTT
*
34284552 AAGCTCGAATGAGCTGACTT
1 GAGCTC-AATGAGCTGACTT
34284572 GAGCTCGAATGAGCTGACTT
1 GAGCTC-AATGAGCTGACTT
34284592 GAGCTCAAGTGAGCTGA
1 GAGCTCAA-TGAGCTGA
34284609 ACCACATGAA
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
19 7 0.14
20 44 0.86
ACGTcount: A:0.30, C:0.17, G:0.29, T:0.24
Consensus pattern (19 bp):
GAGCTCAATGAGCTGACTT
Found at i:34289957 original size:18 final size:17
Alignment explanation
Indices: 34289936--34289983 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 17
34289926 AAAATAAAAA
*
34289936 AATGTTTTGAAATTGATT
1 AATGTTTTGAAA-TGAAT
*
34289954 AATGATTTGTAAATGAAT
1 AATGTTTTG-AAATGAAT
*
34289972 AATATTTTGAAA
1 AATGTTTTGAAA
34289984 ACGAACGACA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
17 3 0.12
18 19 0.76
19 3 0.12
ACGTcount: A:0.42, C:0.00, G:0.15, T:0.44
Consensus pattern (17 bp):
AATGTTTTGAAATGAAT
Found at i:34291560 original size:51 final size:50
Alignment explanation
Indices: 34291483--34291677 Score: 196
Period size: 51 Copynumber: 3.9 Consensus size: 50
34291473 CTATAAACAA
*
34291483 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATA-GATAATGGTCAC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGA-AGGAT-ATGGTCAC
* * * * *
34291534 ATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGAAGGCTTTGGTCAC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATC-GAAGGATATGGTCAC
* * * * ** * *
34291585 GTGTGTAGTACAATGTACAGGCTACTACGTGGA-CCAAAAAGTTTGATCAC
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAGGA-TATGGTCAC
* *
34291635 GTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGAATGATA
1 GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAGGATA
34291678 ATAATTACAT
Statistics
Matches: 116, Mismatches: 24, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 2 0.02
50 39 0.34
51 71 0.61
52 4 0.03
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (50 bp):
GTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGAAGGATATGGTCAC
Found at i:34293260 original size:19 final size:19
Alignment explanation
Indices: 34293236--34293275 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
34293226 ATTAATTTTG
34293236 ATCAAGTAAAATT-AAATTA
1 ATCAAGT-AAATTAAAATTA
*
34293255 ATCAAGTTAATTAAAATTA
1 ATCAAGTAAATTAAAATTA
34293274 AT
1 AT
34293276 ATGGTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.55, C:0.05, G:0.05, T:0.35
Consensus pattern (19 bp):
ATCAAGTAAATTAAAATTA
Found at i:34293750 original size:36 final size:35
Alignment explanation
Indices: 34293688--34293756 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
34293678 ATTCCAAAAA
*
34293688 TAATATTATTTTAATAGTTTAATATTAAATTAAATT
1 TAATATTATCTTAATAGTTT-ATATTAAATTAAATT
*
34293724 TAATAATTATCTTAATAGTATT-TATTAATTTAA
1 TAAT-ATTATCTTAATAGT-TTATATTAAATTAA
34293757 TATTAAAGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 14 0.48
37 13 0.45
38 2 0.07
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.52
Consensus pattern (35 bp):
TAATATTATCTTAATAGTTTATATTAAATTAAATT
Found at i:34296527 original size:42 final size:42
Alignment explanation
Indices: 34296480--34296573 Score: 134
Period size: 42 Copynumber: 2.2 Consensus size: 42
34296470 TACGAATGGA
* *
34296480 ACTAAGTGTATGAAACTAAAATGACGACATTGAATAACGGGC
1 ACTAAGTGTATGAAACAAAAATGACGACATCGAATAACGGGC
* * **
34296522 ACTAAGTGTGTGAAACAAAAATGGCGATGTCGAATAACGGGC
1 ACTAAGTGTATGAAACAAAAATGACGACATCGAATAACGGGC
34296564 ACTAAGTGTA
1 ACTAAGTGTA
34296574 CAATACCAAG
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.21
Consensus pattern (42 bp):
ACTAAGTGTATGAAACAAAAATGACGACATCGAATAACGGGC
Found at i:34297018 original size:50 final size:48
Alignment explanation
Indices: 34296964--34297197 Score: 235
Period size: 50 Copynumber: 4.8 Consensus size: 48
34296954 GGCAGTGAGT
34296964 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATCGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GAT-GAGGA
* *
34297014 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCACGGGTAGAGGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-GAT-GAGGA
* * * * *
34297064 GAG-TCAGTGTAAGACCATGTCTGGGACATGGCATTGACTCGA-GATGA
1 GTGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATGAGGA
* *
34297111 GTGTTAGTGTAAGACCATGTCTGGGACATTGCATCGGCACCGAT-ATGTGA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-CGATGA-G-GA
* * * * *
34297161 -TCCCA-TGTAAGACCATATCTGGGATATGGCATTGGCA
1 GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
34297198 TCCTATCATG
Statistics
Matches: 154, Mismatches: 24, Indels: 14
0.80 0.12 0.07
Matches are distributed among these distances:
47 36 0.23
48 33 0.21
49 4 0.03
50 81 0.53
ACGTcount: A:0.26, C:0.19, G:0.32, T:0.24
Consensus pattern (48 bp):
GTGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCACGATGAGGA
Found at i:34297145 original size:97 final size:99
Alignment explanation
Indices: 34296969--34297150 Score: 278
Period size: 97 Copynumber: 1.8 Consensus size: 99
34296959 TGAGTGTGCT
*
34296969 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACAGATCGAGGAGTGCTAGTGTAAGACCATGT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACACAGA-CGAGGAGTGCTAGTGTAAGACCATGT
34297034 CTGGGACATGGCATCAGCACGGGTAGAGGAGAGTC
65 CTGGGACATGGCATCAGCACGGGTAGAGGAGAGTC
* * * *
34297069 AGTGTAAGACCATGTCTGGGACATGGCATTGACTC-GA-GATGAGTGTTAGTGTAAGACCATGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATCGACACAGACGAGGAGTGCTAGTGTAAGACCATGTC
* *
34297132 TGGGACATTGCATCGGCAC
66 TGGGACATGGCATCAGCAC
34297151 CGATATGTGA
Statistics
Matches: 75, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
97 41 0.55
99 2 0.03
100 32 0.43
ACGTcount: A:0.26, C:0.19, G:0.33, T:0.22
Consensus pattern (99 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGACACAGACGAGGAGTGCTAGTGTAAGACCATGTC
TGGGACATGGCATCAGCACGGGTAGAGGAGAGTC
Found at i:34304356 original size:14 final size:14
Alignment explanation
Indices: 34304337--34304372 Score: 72
Period size: 14 Copynumber: 2.6 Consensus size: 14
34304327 GGTGGCCGGC
34304337 GGTGGTTGGTCTTT
1 GGTGGTTGGTCTTT
34304351 GGTGGTTGGTCTTT
1 GGTGGTTGGTCTTT
34304365 GGTGGTTG
1 GGTGGTTG
34304373 AGTAGTGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.00, C:0.06, G:0.47, T:0.47
Consensus pattern (14 bp):
GGTGGTTGGTCTTT
Found at i:34304494 original size:37 final size:39
Alignment explanation
Indices: 34304447--34304553 Score: 104
Period size: 37 Copynumber: 2.9 Consensus size: 39
34304437 TAAAAATAAT
* *
34304447 ATTATTTTAATAGTTTAATATTAAATTTAAT-TT-A-TT
1 ATTATCTTAATAGTTTAATATTAAATTTAATATTAAGTG
*
34304483 ACTTATCTTAATAGTATT-GTATT-AATTTAATATTAAAGTG
1 A-TTATCTTAATAGT-TTAATATTAAATTTAATATT-AAGTG
34304523 ATTATCTTAATA--TTAA-ATTAAATTTAATATT
1 ATTATCTTAATAGTTTAATATTAAATTTAATATT
34304554 TATTTTGTAG
Statistics
Matches: 59, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
36 14 0.24
37 29 0.49
38 2 0.03
39 12 0.20
40 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (39 bp):
ATTATCTTAATAGTTTAATATTAAATTTAATATTAAGTG
Found at i:34304643 original size:59 final size:56
Alignment explanation
Indices: 34304535--34304645 Score: 150
Period size: 59 Copynumber: 1.9 Consensus size: 56
34304525 TATCTTAATA
** * *
34304535 TTAAATTAAATTTAATATTTATTTTGTAGATAAATATTCTATTATTTTAATAAGAT
1 TTAAATTAAATTTAATATTTATTTTCAAGATAAATATTATATTAATTTAATAAGAT
*
34304591 TTAATATTAAATTTAATCTATTATTTATCAAGATAAATATTATATTAATTTAATA
1 TTAA-ATTAAATTTAATAT-TTATTT-TCAAGATAAATATTATATTAATTTAATA
34304646 TTAAAGTGAT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
56 4 0.09
57 13 0.28
58 6 0.13
59 24 0.51
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (56 bp):
TTAAATTAAATTTAATATTTATTTTCAAGATAAATATTATATTAATTTAATAAGAT
Found at i:34304782 original size:26 final size:22
Alignment explanation
Indices: 34304753--34304800 Score: 60
Period size: 26 Copynumber: 2.0 Consensus size: 22
34304743 AGTTGTAGAG
34304753 AGAAAATTCTCTGAAGAGATTATTTT
1 AGAAAATT-TCT--AGAGA-TATTTT
34304779 AGAAAATTTCTAGAGATATTTT
1 AGAAAATTTCTAGAGATATTTT
34304801 TCTAATTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 6 0.27
23 5 0.23
25 3 0.14
26 8 0.36
ACGTcount: A:0.40, C:0.06, G:0.15, T:0.40
Consensus pattern (22 bp):
AGAAAATTTCTAGAGATATTTT
Found at i:34307181 original size:13 final size:13
Alignment explanation
Indices: 34307163--34307188 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34307153 AACCGAACGG
34307163 AATTAAATTATCA
1 AATTAAATTATCA
34307176 AATTAAATTATCA
1 AATTAAATTATCA
34307189 TGATTCGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.00, T:0.38
Consensus pattern (13 bp):
AATTAAATTATCA
Found at i:34309893 original size:19 final size:20
Alignment explanation
Indices: 34309842--34309894 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
34309832 ATAAAATAAA
*
34309842 ATAAAAAATAA-ATATTCTC
1 ATAAAAAATAATTTATTCTC
* *
34309861 ATAATAATATAATTTATT-TT
1 ATAA-AAAATAATTTATTCTC
34309881 ATAAAAAATAATTT
1 ATAAAAAATAATTT
34309895 TTAATCGCTG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 13 0.46
20 11 0.39
21 4 0.14
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.42
Consensus pattern (20 bp):
ATAAAAAATAATTTATTCTC
Found at i:34320201 original size:24 final size:24
Alignment explanation
Indices: 34320180--34320226 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
34320170 TTTGTTTATT
34320180 TATTTTCTCG-CTTTGATATTTAA
1 TATTTTCTCGCCTTTGATATTTAA
* *
34320203 TATTTTTTGGCCTTTGATATTTAA
1 TATTTTCTCGCCTTTGATATTTAA
34320227 AGTATATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 8 0.38
24 13 0.62
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.57
Consensus pattern (24 bp):
TATTTTCTCGCCTTTGATATTTAA
Found at i:34321267 original size:28 final size:27
Alignment explanation
Indices: 34321236--34321307 Score: 81
Period size: 28 Copynumber: 2.6 Consensus size: 27
34321226 ATTTTTCATC
34321236 ATTTTATATTTTTTAATAATTTTCACAA
1 ATTTTA-ATTTTTTAATAATTTTCACAA
* * *
34321264 ATTTTAATCTTTTAAATATTTTTTACAA
1 ATTTTAAT-TTTTTAATAATTTTCACAA
*
34321292 ATTTTAAAATTTTTAA
1 ATTTT-AATTTTTTAA
34321308 AATATTTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 2 0.05
28 33 0.89
29 2 0.05
ACGTcount: A:0.38, C:0.06, G:0.00, T:0.57
Consensus pattern (27 bp):
ATTTTAATTTTTTAATAATTTTCACAA
Found at i:34321306 original size:29 final size:28
Alignment explanation
Indices: 34321236--34321373 Score: 120
Period size: 30 Copynumber: 4.8 Consensus size: 28
34321226 ATTTTTCATC
* * * *
34321236 ATTTTATATTTTTTAATAATTTTCACAA
1 ATTTTAAATTTTTAAATATTTTTTACAA
34321264 ATTTT-AATCTTTTAAATATTTTTTACAA
1 ATTTTAAAT-TTTTAAATATTTTTTACAA
*
34321292 ATTTTAAAATTTTTAAAATATTTTTTATAA
1 ATTTT-AAATTTTT-AAATATTTTTTACAA
*
34321322 CA-TTTAAATATTTTAAATATTTTTTTATAA
1 -ATTTTAAAT-TTTTAAATA-TTTTTTACAA
* *
34321352 TTTTTAATAATTTTAAA-ATTTT
1 ATTTTAA-ATTTTTAAATATTTT
34321374 AAACAACTTT
Statistics
Matches: 94, Mismatches: 7, Indels: 18
0.79 0.06 0.15
Matches are distributed among these distances:
27 2 0.02
28 30 0.32
29 14 0.15
30 46 0.49
31 2 0.02
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (28 bp):
ATTTTAAATTTTTAAATATTTTTTACAA
Found at i:34321317 original size:21 final size:20
Alignment explanation
Indices: 34321293--34321335 Score: 50
Period size: 21 Copynumber: 2.1 Consensus size: 20
34321283 TTTTTACAAA
**
34321293 TTTTAAAATTTTTAAAATATT
1 TTTTAAAACATTT-AAATATT
*
34321314 TTTTATAACATTTAAATATT
1 TTTTAAAACATTTAAATATT
34321334 TT
1 TT
34321336 AAATATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TTTTAAAACATTTAAATATT
Found at i:34324178 original size:20 final size:20
Alignment explanation
Indices: 34324153--34324200 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
34324143 CTTATATTGT
34324153 TTGCACATCAATGCCCTTGC
1 TTGCACATCAATGCCCTTGC
* * *
34324173 TTGCACTTCAATTCCCTTGT
1 TTGCACATCAATGCCCTTGC
34324193 TTGCACAT
1 TTGCACAT
34324201 TGGTGCCCGT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.38
Consensus pattern (20 bp):
TTGCACATCAATGCCCTTGC
Found at i:34325873 original size:56 final size:52
Alignment explanation
Indices: 34325806--34326048 Score: 205
Period size: 50 Copynumber: 4.7 Consensus size: 52
34325796 GGGAATGAGA
**
34325806 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGATTAAGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-TACCGAGA-T--GAGAGG
* *
34325862 TCCCATGTAAGACCATGTCTGGGACATGACGTTGGC--ACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATACCGAGATGAGAGG
** * * **
34325912 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCAT--CGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATACCGAGATGAGAGG
* * ** * **
34325962 TCCCATGTAAGACCATATCTGGGATATGAAATTGGCAGTA-C-AG--GAAACA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-TACCGAGATGAGAGG
* * *
34326011 TCGCATGTAAGACCATGTTTGGGACATGGCTTTGGCAT
1 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
34326049 GTTATTATGA
Statistics
Matches: 153, Mismatches: 30, Indels: 16
0.77 0.15 0.08
Matches are distributed among these distances:
48 1 0.01
49 33 0.22
50 76 0.50
51 2 0.01
52 2 0.01
53 5 0.03
56 34 0.22
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (52 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATACCGAGATGAGAGG
Found at i:34325914 original size:50 final size:50
Alignment explanation
Indices: 34325806--34325998 Score: 206
Period size: 50 Copynumber: 3.7 Consensus size: 50
34325796 GGGAATGAGA
* *
34325806 TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGATTAAGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGC---ATCGAGA-T--GAGAGG
* *
34325862 TCCCATGTAAGACCATGTCTGGGACATGACGTTGGCACCGAGATGAGAGG
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCGAGATGAGAGG
** * * * **
34325912 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCATCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCGAGATGAGAGG
* * *
34325962 TCCCATGTAAGACCATATCTGGGATATGAAATTGGCA
1 TCCCATGTAAGACCATGTCTGGGACATGACATTGGCA
34325999 GTACAGGAAA
Statistics
Matches: 117, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
50 77 0.66
52 1 0.01
53 5 0.04
56 34 0.29
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGGACATGACATTGGCATCGAGATGAGAGG
Found at i:34325997 original size:100 final size:104
Alignment explanation
Indices: 34325812--34325998 Score: 247
Period size: 100 Copynumber: 1.8 Consensus size: 104
34325802 GAGATCCCAT
* **
34325812 GTAAGACCATGTCTGGGACATGGCATTGGCATTATTGAGATTAAGAGAGGTCCCATGTAAGACCA
1 GTAAGACCATGTCTGGGACATGGCATGGGC--TATTGAGATTAAGAGAACTCCCATGTAAGACCA
* **
34325877 TGTCTGGGACATGACGTTGGCACCGAGATGAGAGGTCCCCC
64 TATCTGGGACATGAAATTGGCACCGAGATGAGAGGTCCCCC
* *
34325918 GTAAGACCATGTCTGGGACATGGCATGGGC-A-T-CGA-TATGAGAACTCCCATGTAAGACCATA
1 GTAAGACCATGTCTGGGACATGGCATGGGCTATTGAGATTAAGAGAACTCCCATGTAAGACCATA
*
34325979 TCTGGGATATGAAATTGGCA
66 TCTGGGACATGAAATTGGCA
34325999 GTACAGGAAA
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
100 39 0.54
101 2 0.03
102 1 0.01
103 1 0.01
106 29 0.40
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (104 bp):
GTAAGACCATGTCTGGGACATGGCATGGGCTATTGAGATTAAGAGAACTCCCATGTAAGACCATA
TCTGGGACATGAAATTGGCACCGAGATGAGAGGTCCCCC
Found at i:34329290 original size:188 final size:189
Alignment explanation
Indices: 34328965--34329336 Score: 656
Period size: 188 Copynumber: 2.0 Consensus size: 189
34328955 TTTGTTTACC
* ** * * *
34328965 TTTATTCTTCCTTTACGTTATCTAACACCTTCTTGTTTCTTGTGTTAGTAGGATTTAAACGTGTG
1 TTTATTCTCCCTTTACAATATCTAACACCTTATTGTTTATTGTGTTAGTAGGATTTAAACATGTG
* * *
34329030 CACAACTTCTTCCTCGGTGCAACACGAATCAATTGGTGTCTCGTCAGTTTTTGGCATCCTAGTGC
66 CACAACTCCTTCCCCGGTGCAACACGAATCAATTGGTGTCTCGTCAGTCTTTGGCATCCTAGTGC
34329095 AAATTAGGATTCTTTGGTAGTTTGGTTCACACTCTCTAATTGGTTGATATAAACCGCTT
131 AAATTAGGATTCTTTGGTAGTTTGGTTCACACTCTCTAATTGGTTGATATAAACCGCTT
34329154 TTTATTCTCCCTTTACAATATCTAACACCTTATTGTTTATTGTGTTAGTAGGATTTAAACATGTG
1 TTTATTCTCCCTTTACAATATCTAACACCTTATTGTTTATTGTGTTAGTAGGATTTAAACATGTG
34329219 CACAA-TCCTTCCCCGGTGCAACACGAATCAATTGGTGTCTCGTCAGTCTTTGGCATCCTAGTGC
66 CACAACTCCTTCCCCGGTGCAACACGAATCAATTGGTGTCTCGTCAGTCTTTGGCATCCTAGTGC
34329283 AAATTAGGATTCTTTGGTAGTTTGGTTCACACTCTCTAATTGGTTGATATAAAC
131 AAATTAGGATTCTTTGGTAGTTTGGTTCACACTCTCTAATTGGTTGATATAAAC
34329337 TCTGATAAAG
Statistics
Matches: 174, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
188 110 0.63
189 64 0.37
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (189 bp):
TTTATTCTCCCTTTACAATATCTAACACCTTATTGTTTATTGTGTTAGTAGGATTTAAACATGTG
CACAACTCCTTCCCCGGTGCAACACGAATCAATTGGTGTCTCGTCAGTCTTTGGCATCCTAGTGC
AAATTAGGATTCTTTGGTAGTTTGGTTCACACTCTCTAATTGGTTGATATAAACCGCTT
Found at i:34351440 original size:10 final size:10
Alignment explanation
Indices: 34351422--34351451 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
34351412 TGATTGTGGG
*
34351422 AGCCATCTTC
1 AGCCTTCTTC
34351432 AGCCTTCTTC
1 AGCCTTCTTC
34351442 AGCCTTCTTC
1 AGCCTTCTTC
34351452 TTGCCATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.13, C:0.40, G:0.10, T:0.37
Consensus pattern (10 bp):
AGCCTTCTTC
Found at i:34356706 original size:14 final size:15
Alignment explanation
Indices: 34356689--34356721 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
34356679 GAAAGTTGTA
*
34356689 AAGAAAAT-TTTCTG
1 AAGAAAATATTTCAG
34356703 AAGAAAATATTTCAG
1 AAGAAAATATTTCAG
34356718 AAGA
1 AAGA
34356722 TTTCTAAAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.52, C:0.06, G:0.15, T:0.27
Consensus pattern (15 bp):
AAGAAAATATTTCAG
Found at i:34357930 original size:49 final size:49
Alignment explanation
Indices: 34357873--34358211 Score: 386
Period size: 49 Copynumber: 7.0 Consensus size: 49
34357863 TAAAGCATAC
* * * *
34357873 TTGCATTCATAAATAAAGTTTTTTTATTTATGATTTATTGATTGTTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTA
* *
34357922 TTGCATTCATAAATAAAGTTGCTTTATTTATGCTTCATTGATTGTTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTA
* * * *
34357971 CTACATTCATAAATAAAATTG---CA---ATGCTTCATTGATTGTTTTA
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTA
* * * *
34358014 TTGCATTCATAAATAGAGTTGTTTTATTTATGCTTCATTCATTGTTCTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTA
*
34358063 TTGCATTCATAAATAAAGTGGTGTTTTAATTATGCTTCATTGATTGTTTTA
1 TTGCATTCATAAATAAAGT--TGTTTTATTTATGCTTCATTGATTGTTTTA
* * * * *
34358114 TTGCATTCATAAATAGAGTTGCTTCATTTATGCTTCATTGATTCTTCTA
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTA
* *
34358163 TTGCATTCAAAAATAAAGTGGTGTTTTAATTATGCTTCATT-ATTTGTTT
1 TTGCATTCATAAATAAAGT--TGTTTTATTTATGCTTCATTGA-TTGTTT
34358212 GTTTTTTGTT
Statistics
Matches: 244, Mismatches: 35, Indels: 20
0.82 0.12 0.07
Matches are distributed among these distances:
43 36 0.15
46 2 0.01
49 140 0.57
50 1 0.00
51 65 0.27
ACGTcount: A:0.27, C:0.10, G:0.13, T:0.50
Consensus pattern (49 bp):
TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTA
Found at i:34358018 original size:92 final size:95
Alignment explanation
Indices: 34357909--34358179 Score: 341
Period size: 100 Copynumber: 2.8 Consensus size: 95
34357899 TTTATGATTT
* * *
34357909 ATTGATTGTTTTGTTGCATTCATAAATAAAGTTGCTTTATTTATGCTTCATTGATTGTTTTGCTA
1 ATTGATTGTTTTATTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTGATTGTTCTGCTA
*
34357974 CATTCATAAATAAAAT-TG-CA-ATGCTTC
66 CATTCATAAATAAAATGTGTAATATGCTTC
* * * *
34358001 ATTGATTGTTTTATTGCATTCATAAATAGAGTTGTTTTATTTATGCTTCATTCATTGTTCTGTTG
1 ATTGATTGTTTTATTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTGATTGTTCTGCTA
*
34358066 CATTCATAAATAAAGTGGTGTTTTAATTATGCTTC
66 CATTCATAAATAAAAT-GTG---TAA-TATGCTTC
* * ** *
34358101 ATTGATTGTTTTATTGCATTCATAAATAGAGTTGCTTCATTTATGCTTCATTGATTCTTCTATTG
1 ATTGATTGTTTTATTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTGATTGTTCTGCTA
*
34358166 CATTCAAAAATAAA
66 CATTCATAAATAAA
34358180 GTGGTGTTTT
Statistics
Matches: 156, Mismatches: 15, Indels: 8
0.87 0.08 0.04
Matches are distributed among these distances:
92 73 0.47
94 2 0.01
98 1 0.01
100 80 0.51
ACGTcount: A:0.28, C:0.11, G:0.13, T:0.48
Consensus pattern (95 bp):
ATTGATTGTTTTATTGCATTCATAAATAGAGTTGCTTTATTTATGCTTCATTGATTGTTCTGCTA
CATTCATAAATAAAATGTGTAATATGCTTC
Found at i:34358105 original size:100 final size:100
Alignment explanation
Indices: 34357994--34358211 Score: 366
Period size: 100 Copynumber: 2.2 Consensus size: 100
34357984 TAAAATTGCA
* * *
34357994 ATGCTTCATTGATTGTTTTATTGCATTCATAAATAGAGTTGTTTTATTTATGCTTCATTCATTGT
1 ATGCTTCATTGATTGTTTTATTGCATTCATAAATAGAGTTGCTTCATTTATGCTTCATTCATTCT
* *
34358059 TCTGTTGCATTCATAAATAAAGTGGTGTTTTAATT
66 TCTATTGCATTCAAAAATAAAGTGGTGTTTTAATT
*
34358094 ATGCTTCATTGATTGTTTTATTGCATTCATAAATAGAGTTGCTTCATTTATGCTTCATTGATTCT
1 ATGCTTCATTGATTGTTTTATTGCATTCATAAATAGAGTTGCTTCATTTATGCTTCATTCATTCT
34358159 TCTATTGCATTCAAAAATAAAGTGGTGTTTTAATT
66 TCTATTGCATTCAAAAATAAAGTGGTGTTTTAATT
34358194 ATGCTTCATT-ATTTGTTT
1 ATGCTTCATTGA-TTGTTT
34358212 GTTTTTTGTT
Statistics
Matches: 111, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
99 1 0.01
100 110 0.99
ACGTcount: A:0.25, C:0.11, G:0.14, T:0.50
Consensus pattern (100 bp):
ATGCTTCATTGATTGTTTTATTGCATTCATAAATAGAGTTGCTTCATTTATGCTTCATTCATTCT
TCTATTGCATTCAAAAATAAAGTGGTGTTTTAATT
Found at i:34359904 original size:15 final size:16
Alignment explanation
Indices: 34359884--34359918 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
34359874 CTCGTATAGA
34359884 GGAAAGGACTC-AAAG
1 GGAAAGGACTCGAAAG
*
34359899 GGAAAGGCCTCGAAAG
1 GGAAAGGACTCGAAAG
34359915 GGAA
1 GGAA
34359919 GATCACCAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.43, C:0.14, G:0.37, T:0.06
Consensus pattern (16 bp):
GGAAAGGACTCGAAAG
Found at i:34379267 original size:28 final size:28
Alignment explanation
Indices: 34379204--34379354 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
34379194 GAGATTGGCG
* * * *
34379204 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
* *
34379233 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
34379261 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34379289 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
34379317 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
34379344 CTGAGTGTGCG
1 CTAAGTGTGCG
34379355 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.21
28 75 0.66
29 14 0.12
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:34382268 original size:21 final size:21
Alignment explanation
Indices: 34382242--34382293 Score: 104
Period size: 21 Copynumber: 2.5 Consensus size: 21
34382232 AAAAAAAAGA
34382242 AAAAGAAAAAGAGCATGAGGG
1 AAAAGAAAAAGAGCATGAGGG
34382263 AAAAGAAAAAGAGCATGAGGG
1 AAAAGAAAAAGAGCATGAGGG
34382284 AAAAGAAAAA
1 AAAAGAAAAA
34382294 AAAATAAAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.63, C:0.04, G:0.29, T:0.04
Consensus pattern (21 bp):
AAAAGAAAAAGAGCATGAGGG
Found at i:34385240 original size:28 final size:28
Alignment explanation
Indices: 34385209--34385292 Score: 81
Period size: 28 Copynumber: 3.2 Consensus size: 28
34385199 CATACTTGCA
34385209 TTCATAAATAAAGTTGTTTTATTTATAC
1 TTCATAAATAAAGTTGTTTTATTTATAC
* *
34385237 TTCAT---T-GA-TTGTTTT-TTTTTAC
1 TTCATAAATAAAGTTGTTTTATTTATAC
* *
34385259 GTTCATAAATAAAGTTGCTTTATTTATGC
1 -TTCATAAATAAAGTTGTTTTATTTATAC
34385288 TTCAT
1 TTCAT
34385293 TGATTGTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 14
0.68 0.10 0.22
Matches are distributed among these distances:
22 6 0.14
23 12 0.28
24 1 0.02
25 1 0.02
26 1 0.02
27 1 0.02
28 16 0.37
29 5 0.12
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.54
Consensus pattern (28 bp):
TTCATAAATAAAGTTGTTTTATTTATAC
Found at i:34385332 original size:49 final size:49
Alignment explanation
Indices: 34385204--34385450 Score: 368
Period size: 49 Copynumber: 5.0 Consensus size: 49
34385194 TAAAGCATAC
* *
34385204 TTGCATTCATAAATAAAGTTGTTTTATTTATACTTCATTGATTGTTTTTTT
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTG--TTTTG
* * *
34385255 TTACGTTCATAAATAAAGTTGCTTTATTTATGCTTCATTGATTGTTTTG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
* * *
34385304 TTGCATTCATAAATAGAGTTGTTTTATTTATGCTTCATTTATTGTTATG
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
*
34385353 TTGCATTCATAAATAAAGTGGTGTTTTAATTATGCTTCATTGATTGTTTTG
1 TTGCATTCATAAATAAAGT--TGTTTTATTTATGCTTCATTGATTGTTTTG
*
34385404 TTGCATTCATAAATAAAGTTGTTTGATTTATGCTTCATTGATTGTTT
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTT
34385451 GTTTTTTGTT
Statistics
Matches: 177, Mismatches: 17, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
49 91 0.51
51 86 0.49
ACGTcount: A:0.25, C:0.09, G:0.14, T:0.52
Consensus pattern (49 bp):
TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTTG
Found at i:34385386 original size:100 final size:97
Alignment explanation
Indices: 34385204--34385453 Score: 365
Period size: 100 Copynumber: 2.5 Consensus size: 97
34385194 TAAAGCATAC
* * *
34385204 TTGCATTCATAAATAAAGTTGTTTTATTTATACTTCATTGATTGTTTTTTTTTACGTTCATAAAT
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTG---TTTGTTACATTCATAAAT
*
34385269 AAAGTTGCTTTATTTATGCTTCATTGATTGTTTTG
63 AAAGTTGCTTTAATTATGCTTCATTGATTGTTTTG
* * *
34385304 TTGCATTCATAAATAGAGTTGTTTTATTTATGCTTCATTTATTGTTATGTTGCATTCATAAATAA
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTT-TGTTACATTCATAAATAA
*
34385369 AGTGGTGTTTTAATTATGCTTCATTGATTGTTTTG
65 AGT--TGCTTTAATTATGCTTCATTGATTGTTTTG
*
34385404 TTGCATTCATAAATAAAGTTGTTTGATTTATGCTTCATTGATTGTTTGTT
1 TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTGTT
34385454 TTTTGTTGCA
Statistics
Matches: 136, Mismatches: 11, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
97 2 0.01
98 18 0.13
99 4 0.03
100 112 0.82
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.52
Consensus pattern (97 bp):
TTGCATTCATAAATAAAGTTGTTTTATTTATGCTTCATTGATTGTTTGTTACATTCATAAATAAA
GTTGCTTTAATTATGCTTCATTGATTGTTTTG
Found at i:34388738 original size:47 final size:47
Alignment explanation
Indices: 34388687--34388780 Score: 143
Period size: 47 Copynumber: 2.0 Consensus size: 47
34388677 GTTGAGATTC
* * * *
34388687 AAAAAATGGATTGACTGGTCAAACAACATCTGCATCTGATTCTCTTT
1 AAAAAAGGGATTGACAGGCCAAACAACATATGCATCTGATTCTCTTT
*
34388734 AAAAAAGGGATTGACAGGCCAAACAACATATGCATCTGGTTCTCTTT
1 AAAAAAGGGATTGACAGGCCAAACAACATATGCATCTGATTCTCTTT
34388781 TATATTTTTT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (47 bp):
AAAAAAGGGATTGACAGGCCAAACAACATATGCATCTGATTCTCTTT
Found at i:34395411 original size:21 final size:21
Alignment explanation
Indices: 34395374--34395420 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 21
34395364 AAACAAATAA
34395374 AAATAAATAAATAACTAAGAT-
1 AAATAAATAAATAACTAA-ATC
*
34395395 AAATAAATGGAAT-ACTAAATC
1 AAATAAAT-AAATAACTAAATC
34395416 AAATA
1 AAATA
34395421 TTTGAACAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 2 0.09
21 18 0.78
22 3 0.13
ACGTcount: A:0.64, C:0.06, G:0.06, T:0.23
Consensus pattern (21 bp):
AAATAAATAAATAACTAAATC
Found at i:34407539 original size:15 final size:16
Alignment explanation
Indices: 34407508--34407542 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
34407498 CACACTTATT
34407508 TTCTCAATTTCTTTTC
1 TTCTCAATTTCTTTTC
*
34407524 TTCTCCATTT-TTTTC
1 TTCTCAATTTCTTTTC
34407539 TTCT
1 TTCT
34407543 TTTGTTTCCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.09, C:0.26, G:0.00, T:0.66
Consensus pattern (16 bp):
TTCTCAATTTCTTTTC
Found at i:34422793 original size:16 final size:16
Alignment explanation
Indices: 34422768--34422798 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34422758 TGCTATTAAT
34422768 TTATTAAAATAAAAAC
1 TTATTAAAATAAAAAC
*
34422784 TTATTTAAATAAAAA
1 TTATTAAAATAAAAA
34422799 TATGATCAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (16 bp):
TTATTAAAATAAAAAC
Found at i:34437298 original size:21 final size:20
Alignment explanation
Indices: 34437260--34437298 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
34437250 TCTATTAACA
* *
34437260 CACCAATATTGTGGACAACC
1 CACCAATAATGTAGACAACC
34437280 CACCAGATAATGTAGACAA
1 CACCA-ATAATGTAGACAA
34437299 GCTACCAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.18
Consensus pattern (20 bp):
CACCAATAATGTAGACAACC
Found at i:34439060 original size:19 final size:19
Alignment explanation
Indices: 34439020--34439061 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
34439010 TCATCCATCA
*
34439020 TCTCATCCTCCCTCCCATC
1 TCTCATCCTCCCTCCCAAC
* *
34439039 TCTCATCCTCTCTCTCAAC
1 TCTCATCCTCCCTCCCAAC
34439058 TCTC
1 TCTC
34439062 TTAGCTCTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.52, G:0.00, T:0.36
Consensus pattern (19 bp):
TCTCATCCTCCCTCCCAAC
Found at i:34440572 original size:16 final size:16
Alignment explanation
Indices: 34440551--34440583 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
34440541 GGAAAAATGG
34440551 GTTATAACGTAATATA
1 GTTATAACGTAATATA
34440567 GTTATAACGTAATATA
1 GTTATAACGTAATATA
34440583 G
1 G
34440584 GTTCGCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.42, C:0.06, G:0.15, T:0.36
Consensus pattern (16 bp):
GTTATAACGTAATATA
Found at i:34443941 original size:50 final size:49
Alignment explanation
Indices: 34443874--34444064 Score: 213
Period size: 50 Copynumber: 3.8 Consensus size: 49
34443864 AAAGTGAAAG
**
34443874 TGATGGTCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
1 TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
* * * *
34443923 TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC-GGA
1 TGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
* * * *
34443972 TAGCTTCGATCACATGTGTAGTACAATGTGCAGAGGCTACTACGTGTATCAGATA
1 T-G-AT-GGTCACATGTGTAGTACTATGTGC--AGGCTACTACGTGTACCAGA-A
34444027 GTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 -TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
34444065 TGTGAACCGG
Statistics
Matches: 116, Mismatches: 18, Indels: 14
0.78 0.12 0.09
Matches are distributed among these distances:
49 7 0.06
50 37 0.32
51 31 0.27
53 36 0.31
54 2 0.02
55 2 0.02
56 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (49 bp):
TGATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAA
Found at i:34444038 original size:53 final size:52
Alignment explanation
Indices: 34443872--34444064 Score: 227
Period size: 53 Copynumber: 3.8 Consensus size: 52
34443862 TGAAAGTGAA
**
34443872 AGTGAT-GGTCATGTGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGA-
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT
* * * *
34443922 A-TGATAGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGAT
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT
* * * *
34443973 AGCT--TCGATCACATGTGTAGTACAATGTGCAGAGGCTACTACGTGTATCAGAT
1 AG-TGATAGGTCACATGTGTAGTACTATGTGC--AGGCTACTACGTGTACCAGAT
34444026 AGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTA
1 AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTA
34444065 TGTGAACCGG
Statistics
Matches: 119, Mismatches: 16, Indels: 15
0.79 0.11 0.10
Matches are distributed among these distances:
49 4 0.03
50 39 0.33
51 32 0.27
52 1 0.01
53 42 0.35
54 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (52 bp):
AGTGATAGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAT
Found at i:34444074 original size:104 final size:101
Alignment explanation
Indices: 34443885--34444074 Score: 292
Period size: 104 Copynumber: 1.9 Consensus size: 101
34443875 GATGGTCATG
* *
34443885 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTACTATGT
1 TGTGTAGTACAATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTATGT
*
34443950 GCAGGCTACTATGCGTACCGGATAGCTTCGATCACA
66 GCAGGCTACTATGCGAACCGGATAGCTTCGATCACA
*
34443986 TGTGTAGTACAATGTGCAGAGGCTACTACGTGTATCAGATAGTGAT-GGTCACATGTGTAGTACT
1 TGTGTAGTACAATGTGC--AGGCTACTACGTGTACCAGA-A-TGATAGGTCACATGTGTAGTACT
*
34444050 ATGTGCAGGCTACTATGTGAACCGG
62 ATGTGCAGGCTACTATGCGAACCGG
34444075 TATCATTAAT
Statistics
Matches: 80, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
101 16 0.20
103 19 0.24
104 41 0.51
105 4 0.05
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (101 bp):
TGTGTAGTACAATGTGCAGGCTACTACGTGTACCAGAATGATAGGTCACATGTGTAGTACTATGT
GCAGGCTACTATGCGAACCGGATAGCTTCGATCACA
Found at i:34444161 original size:46 final size:43
Alignment explanation
Indices: 34444070--34444168 Score: 110
Period size: 46 Copynumber: 2.2 Consensus size: 43
34444060 TACTATGTGA
* *
34444070 ACCGGTATCATTAATTATAAGGTGGTTGCTATGTGTTGATCCC
1 ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
* *
34444113 ACCGGATATCATTGATTACAAAGGGTGGTTGCTGTGTGCTGAAT-CC
1 ACCGG-TATCATTAATTA-AAA-GGTGGTTGCTATGTGCTG-ATCCC
34444159 ACCGTGTATC
1 ACCG-GTATC
34444169 TGTTATTATT
Statistics
Matches: 47, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.11
44 11 0.23
45 2 0.04
46 26 0.55
47 3 0.06
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (43 bp):
ACCGGTATCATTAATTAAAAGGTGGTTGCTATGTGCTGATCCC
Found at i:34446340 original size:18 final size:19
Alignment explanation
Indices: 34446308--34446345 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
34446298 CTATATGATC
34446308 CCCTATTTTGAAAAT-TTT
1 CCCTATTTTGAAAATGTTT
34446326 CCCTACTTTTG-AAATGTTT
1 CCCTA-TTTTGAAAATGTTT
34446345 C
1 C
34446346 TAATATGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.24, C:0.21, G:0.08, T:0.47
Consensus pattern (19 bp):
CCCTATTTTGAAAATGTTT
Found at i:34455643 original size:31 final size:27
Alignment explanation
Indices: 34455581--34455637 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
34455571 GACTAGTTTA
34455581 TTTGCTATATATATCCAATTCATTTTC
1 TTTGCTATATATATCCAATTCATTTTC
34455608 TTTGCTATATATATCCAATTCATTTTC
1 TTTGCTATATATATCCAATTCATTTTC
34455635 TTT
1 TTT
34455638 CTTTGCATTC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.04, T:0.54
Consensus pattern (27 bp):
TTTGCTATATATATCCAATTCATTTTC
Found at i:34455778 original size:18 final size:18
Alignment explanation
Indices: 34455755--34455791 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
34455745 CTTGTCGTCT
34455755 TAATTTTATATTTTGTAA
1 TAATTTTATATTTTGTAA
34455773 TAATTTTATATTTTGTAA
1 TAATTTTATATTTTGTAA
34455791 T
1 T
34455792 TTCTTTGATT
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:0.32, C:0.00, G:0.05, T:0.62
Consensus pattern (18 bp):
TAATTTTATATTTTGTAA
Found at i:34457070 original size:49 final size:49
Alignment explanation
Indices: 34456974--34457097 Score: 133
Period size: 49 Copynumber: 2.5 Consensus size: 49
34456964 GTGTCATGAA
* * * *
34456974 ACTTGAACCCGTGACTGCATAACCATCATTAACTGGGATGCCCAGTTAT
1 ACTTGAACCCGTGACCGCATAACCACCATCAACTAGGATGCCCAGTTAT
* * *
34457023 ACTTGAACCCGTGACCGCATAATCACCGTCAACTAGGA-GTCCTAGTTAT
1 ACTTGAACCCGTGACCGCATAACCACCATCAACTAGGATG-CCCAGTTAT
* * **
34457072 ACTTAAACCCATGACCATATAACCAC
1 ACTTGAACCCGTGACCGCATAACCAC
34457098 ATTGAATTGG
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
48 1 0.02
49 61 0.98
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.24
Consensus pattern (49 bp):
ACTTGAACCCGTGACCGCATAACCACCATCAACTAGGATGCCCAGTTAT
Found at i:34458838 original size:75 final size:75
Alignment explanation
Indices: 34458749--34459055 Score: 596
Period size: 75 Copynumber: 4.1 Consensus size: 75
34458739 AATTTTCACA
34458749 TTTGCAAAGATGCACATTTTAAAATCACATAACTTTATTTCTCAAGCTAAGATAAATCAAAACAT
1 TTTG-AAAGATGCACATTTTAAAATCACATAACTTTATTTCTCAAGCTAAGATAAATCAAAACAT
34458814 ACAACAAATCT
65 ACAACAAATCT
34458825 TTTGAAAGATGCACATTTTAAAATCACATAACTTTATTTCTCAAGCTAAGATAAATCAAAACATA
1 TTTGAAAGATGCACATTTTAAAATCACATAACTTTATTTCTCAAGCTAAGATAAATCAAAACATA
34458890 CAACAAATCT
66 CAACAAATCT
34458900 TTTGAAAGATGCACATTTTAAAATCACATAACTTTATTTCTCAAGCTAAGATAAATCAAAACATA
1 TTTGAAAGATGCACATTTTAAAATCACATAACTTTATTTCTCAAGCTAAGATAAATCAAAACATA
34458965 CAACAAATCT
66 CAACAAATCT
34458975 TTTGAAAGATGCACATTTTAAAATCACATAACTTTATTTCTCAAGCTAAGATAAATCAAAACATA
1 TTTGAAAGATGCACATTTTAAAATCACATAACTTTATTTCTCAAGCTAAGATAAATCAAAACATA
*
34459040 AAACAAATCT
66 CAACAAATCT
34459050 TTTGAA
1 TTTGAA
34459056 GCACTAGAGT
Statistics
Matches: 230, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
75 226 0.98
76 4 0.02
ACGTcount: A:0.45, C:0.17, G:0.07, T:0.31
Consensus pattern (75 bp):
TTTGAAAGATGCACATTTTAAAATCACATAACTTTATTTCTCAAGCTAAGATAAATCAAAACATA
CAACAAATCT
Found at i:34464447 original size:46 final size:46
Alignment explanation
Indices: 34464369--34464459 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 46
34464359 ACATTGCTAT
* *
34464369 AACTCAGTATGGTTTTCTTCATGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCATGGAAACACCATACCTACATTTCAC
34464415 AACTCAGTATGGTTTTCTTCACT-GAAACACCATACCTACATTTCA
1 AACTCAGTATGGTTTTCTTCA-TGGAAACACCATACCTACATTTCA
34464460 TACTTTTCCA
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
46 41 0.98
47 1 0.02
ACGTcount: A:0.30, C:0.25, G:0.10, T:0.35
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCATGGAAACACCATACCTACATTTCAC
Found at i:34464626 original size:100 final size:100
Alignment explanation
Indices: 34464453--34464652 Score: 400
Period size: 100 Copynumber: 2.0 Consensus size: 100
34464443 ACCATACCTA
34464453 CATTTCATACTTTTCCATGGATCCACCATGGACTTATCTGTCAATTCATCACTGGTTACCGAACG
1 CATTTCATACTTTTCCATGGATCCACCATGGACTTATCTGTCAATTCATCACTGGTTACCGAACG
34464518 TATGTACTCAATCCTGTGTATCCCTTAATTTGAAC
66 TATGTACTCAATCCTGTGTATCCCTTAATTTGAAC
34464553 CATTTCATACTTTTCCATGGATCCACCATGGACTTATCTGTCAATTCATCACTGGTTACCGAACG
1 CATTTCATACTTTTCCATGGATCCACCATGGACTTATCTGTCAATTCATCACTGGTTACCGAACG
34464618 TATGTACTCAATCCTGTGTATCCCTTAATTTGAAC
66 TATGTACTCAATCCTGTGTATCCCTTAATTTGAAC
34464653 TAACAATCTC
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 100 1.00
ACGTcount: A:0.25, C:0.26, G:0.13, T:0.36
Consensus pattern (100 bp):
CATTTCATACTTTTCCATGGATCCACCATGGACTTATCTGTCAATTCATCACTGGTTACCGAACG
TATGTACTCAATCCTGTGTATCCCTTAATTTGAAC
Found at i:34465832 original size:16 final size:17
Alignment explanation
Indices: 34465786--34465833 Score: 71
Period size: 17 Copynumber: 2.9 Consensus size: 17
34465776 AAATTCTTTT
34465786 TAAATCACAAAATTCAA
1 TAAATCACAAAATTCAA
*
34465803 TAAATCACAAAATTCAC
1 TAAATCACAAAATTCAA
*
34465820 TAATTCA-AAAATTC
1 TAAATCACAAAATTC
34465834 TTCTAAAGTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 7 0.24
17 22 0.76
ACGTcount: A:0.54, C:0.19, G:0.00, T:0.27
Consensus pattern (17 bp):
TAAATCACAAAATTCAA
Found at i:34467215 original size:95 final size:95
Alignment explanation
Indices: 34467105--34467287 Score: 296
Period size: 96 Copynumber: 1.9 Consensus size: 95
34467095 CAAATGAAAG
* * *
34467105 GAGAAATACGATTGAGATATCACCTTTTGTGCACTGTTATTGGTG-AGTTCAAAAGATCATAAGA
1 GAGAAATACAATTGAGATATCACCTTTTGTGCAATGTTATTAGTGTAGTTCAAAAGATCATAAGA
*
34467169 GCTTCCAGTGTCCAATTAAATATCCAAATA
66 GCTTCCAATGTCCAATTAAATATCCAAATA
34467199 GAGAGAATACAATTGAGATATCACCTTTTGTGCAATGTTATTAGTGTAGTTCAAAAGATCATAAG
1 GAGA-AATACAATTGAGATATCACCTTTTGTGCAATGTTATTAGTGTAGTTCAAAAGATCATAAG
* *
34467264 GGTTTCCAATGTCCAATTAAATAT
65 AGCTTCCAATGTCCAATTAAATAT
34467288 TTAACTAGAG
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
94 4 0.05
95 38 0.47
96 39 0.48
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (95 bp):
GAGAAATACAATTGAGATATCACCTTTTGTGCAATGTTATTAGTGTAGTTCAAAAGATCATAAGA
GCTTCCAATGTCCAATTAAATATCCAAATA
Found at i:34473273 original size:32 final size:32
Alignment explanation
Indices: 34473232--34473300 Score: 129
Period size: 32 Copynumber: 2.2 Consensus size: 32
34473222 TTTTTACTTA
34473232 AAATTGTTGTTAAAACCAAGTAATTGTTTAAT
1 AAATTGTTGTTAAAACCAAGTAATTGTTTAAT
*
34473264 AAATTGTTGTTAAAATCAAGTAATTGTTTAAT
1 AAATTGTTGTTAAAACCAAGTAATTGTTTAAT
34473296 AAATT
1 AAATT
34473301 AATGAAATAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.42, C:0.04, G:0.12, T:0.42
Consensus pattern (32 bp):
AAATTGTTGTTAAAACCAAGTAATTGTTTAAT
Done.