Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 97 of 203
Found at i:30762892 original size:12 final size:12
Alignment explanation
Indices: 30762875--30762900 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
30762865 AGTTCATATG
30762875 ACTTACAATTTA
1 ACTTACAATTTA
30762887 ACTTACAATTTA
1 ACTTACAATTTA
30762899 AC
1 AC
30762901 CTAGCTTCTT
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:0.42, C:0.19, G:0.00, T:0.38
Consensus pattern (12 bp):
ACTTACAATTTA
Found at i:30766104 original size:37 final size:37
Alignment explanation
Indices: 30766063--30766139 Score: 136
Period size: 37 Copynumber: 2.1 Consensus size: 37
30766053 AGAGAGACAA
*
30766063 TCTACTATCTTTAAGCTTGTACAATGAATGATTTAAG
1 TCTACTATCTTCAAGCTTGTACAATGAATGATTTAAG
*
30766100 TCTACTATCTTCAAGCTTGTGCAATGAATGATTTAAG
1 TCTACTATCTTCAAGCTTGTACAATGAATGATTTAAG
30766137 TCT
1 TCT
30766140 TACAACTCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.40
Consensus pattern (37 bp):
TCTACTATCTTCAAGCTTGTACAATGAATGATTTAAG
Found at i:30767163 original size:24 final size:25
Alignment explanation
Indices: 30767116--30767174 Score: 75
Period size: 24 Copynumber: 2.4 Consensus size: 25
30767106 TAATAAACTG
** *
30767116 AAGTAATAAACCTATTCAATTATAT
1 AAGTAATAAACCTATAAAAATATAT
30767141 AAGTAATAAA-CTATAAAAATATAT
1 AAGTAATAAACCTATAAAAATATAT
*
30767165 AAGAAATAAA
1 AAGTAATAAA
30767175 TTGAATTCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
24 20 0.67
25 10 0.33
ACGTcount: A:0.59, C:0.07, G:0.05, T:0.29
Consensus pattern (25 bp):
AAGTAATAAACCTATAAAAATATAT
Found at i:30769395 original size:22 final size:21
Alignment explanation
Indices: 30769366--30769407 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
30769356 TGAAATTTAT
*
30769366 TACTTTTCCATCTTTCCACTC
1 TACTTTTCCATCCTTCCACTC
30769387 TACTCTTTCCATCCTTCCACT
1 TACT-TTTCCATCCTTCCACT
30769408 TCCCCATTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.14, C:0.40, G:0.00, T:0.45
Consensus pattern (21 bp):
TACTTTTCCATCCTTCCACTC
Found at i:30770894 original size:14 final size:14
Alignment explanation
Indices: 30770875--30770911 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
30770865 TTAAGTTAGG
*
30770875 GATTTGGGGAAAAT
1 GATTTGGGGAAAAA
30770889 GATTTGGGGAAAAA
1 GATTTGGGGAAAAA
*
30770903 GAGTTGGGG
1 GATTTGGGG
30770912 GCTTAGCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.43, T:0.24
Consensus pattern (14 bp):
GATTTGGGGAAAAA
Found at i:30771403 original size:15 final size:15
Alignment explanation
Indices: 30771365--30771403 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
30771355 ATTTTGTGCT
*
30771365 TATTTTATTTAATTA
1 TATTTTATTTAAATA
*
30771380 TA-ATTATTTAAATA
1 TATTTTATTTAAATA
30771394 TATTTTATTT
1 TATTTTATTT
30771404 GTAATTGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
14 12 0.60
15 8 0.40
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTTATTTAAATA
Found at i:30771856 original size:15 final size:14
Alignment explanation
Indices: 30771830--30771862 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
30771820 TTCACCGTCC
30771830 AAAA-AAAATATTG
1 AAAAGAAAATATTG
30771843 AAAAGAAAATTATTG
1 AAAAGAAAA-TATTG
30771858 AAAAG
1 AAAAG
30771863 GGTACACAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 4 0.22
15 10 0.56
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (14 bp):
AAAAGAAAATATTG
Found at i:30774320 original size:2 final size:2
Alignment explanation
Indices: 30774313--30774460 Score: 296
Period size: 2 Copynumber: 74.0 Consensus size: 2
30774303 GCCATATCCT
30774313 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
30774355 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
30774397 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
30774439 TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC
30774461 GGTTTTCAAT
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 146 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:30778289 original size:342 final size:342
Alignment explanation
Indices: 30777664--30778346 Score: 1143
Period size: 342 Copynumber: 2.0 Consensus size: 342
30777654 AAGCATTTAC
*
30777664 CTTTTCAATCAGTCTGTCCTCTTGTCCTTATTCTGGCTCTCGATCTCTACAGATGAACTGGCCTC
1 CTTTTCAATCAGTCTGTCCTCTTGTCCTTATTCTGGCTCTCGATCTCTACAGATGAACCGGCCTC
*
30777729 CACTAGATCACCTTGATCTCCTCCTTGTTCCATCTTGTCTTCCTCATTTGTTATACTTTGTATCA
66 CACTAGATCACCTTGATCTCCTCCTTGTTCCATCTTGTCTTCCTCATTTGTTATACTCTGTATCA
* *
30777794 AAAATTGGTGCAGTGAGAGTGTGAAACTCCTGGTTACCCTAATTACCCCGAAAGTTAGGAAAGCT
131 AAAATTGGTACAGTGAGAGTGTGAAACTCCCGGTTACCCTAATTACCCCGAAAGTTAGGAAAGCT
* *
30777859 AGGATTAAATTGAAAGGACTAGTAAATTGCGGGGCTCCAATAAGAGGCTAGAAAATTTTAGCGGC
196 AGGATTAAATTGAAAGGACTAGTAAATTGCGGGACTCCAATAAGAGACTAGAAAATTTTAGCGGC
* *
30777924 TAAATTATAAATAGCTGGAATTTGATTCCACTTCAGTTGGATTGGAACTTGCTGGTTCCAAAGTG
261 TAAATTATAAATAGCTGGAATTTGATTCCACTTCAGTTAGATTGGAACTGGCTGGTTCCAAAGTG
30777989 AGAGACAAAATCATTAT
326 AGAGACAAAATCATTAT
*
30778006 CTTTTCAATCAGTCTGTCCTTTTGTCCTTATTCTGGCTCTCGATCTCTACAGATGAACCGGCCTC
1 CTTTTCAATCAGTCTGTCCTCTTGTCCTTATTCTGGCTCTCGATCTCTACAGATGAACCGGCCTC
*
30778071 CACTAGATCACCTTGATCTCCTCCTTGTTCCA-CATTGTCTTCCTCCTTTGTTATACTCTGTATC
66 CACTAGATCACCTTGATCTCCTCCTTGTTCCATC-TTGTCTTCCTCATTTGTTATACTCTGTATC
* * * * *
30778135 AACAATTGGTACAGTGAGAGTGTGTAACTCCCGGTTATCCTAATTACCCCGAAAGTTGGGAAATC
130 AAAAATTGGTACAGTGAGAGTGTGAAACTCCCGGTTACCCTAATTACCCCGAAAGTTAGGAAAGC
* ** *
30778200 TAGGATTAAATTGAAAGGACTAGTAAATTGTGGGACTCCAATGGGAGATTAGAAAATTTTAGCGG
195 TAGGATTAAATTGAAAGGACTAGTAAATTGCGGGACTCCAATAAGAGACTAGAAAATTTTAGCGG
* * *
30778265 CTGAATTATAAATAGTTGGAATTTGATTCCACTTCAGTTAGATTGGAACTGGTTGGTTCCAAAGT
260 CTAAATTATAAATAGCTGGAATTTGATTCCACTTCAGTTAGATTGGAACTGGCTGGTTCCAAAGT
*
30778330 GAGAGACAAAATGATTA
325 GAGAGACAAAATCATTA
30778347 GGAATGGATG
Statistics
Matches: 317, Mismatches: 23, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
341 1 0.00
342 316 1.00
ACGTcount: A:0.27, C:0.20, G:0.19, T:0.33
Consensus pattern (342 bp):
CTTTTCAATCAGTCTGTCCTCTTGTCCTTATTCTGGCTCTCGATCTCTACAGATGAACCGGCCTC
CACTAGATCACCTTGATCTCCTCCTTGTTCCATCTTGTCTTCCTCATTTGTTATACTCTGTATCA
AAAATTGGTACAGTGAGAGTGTGAAACTCCCGGTTACCCTAATTACCCCGAAAGTTAGGAAAGCT
AGGATTAAATTGAAAGGACTAGTAAATTGCGGGACTCCAATAAGAGACTAGAAAATTTTAGCGGC
TAAATTATAAATAGCTGGAATTTGATTCCACTTCAGTTAGATTGGAACTGGCTGGTTCCAAAGTG
AGAGACAAAATCATTAT
Found at i:30787981 original size:20 final size:21
Alignment explanation
Indices: 30787935--30787981 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
30787925 TTTTCCAGGT
30787935 GGTATCGATACTACTTAAAGGA
1 GGTATCGATACTAC-TAAAGGA
* *
30787957 AGTATCGATACTAC-AAAGGC
1 GGTATCGATACTACTAAAGGA
30787977 GGTAT
1 GGTAT
30787982 AGATGCCTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 9 0.41
22 13 0.59
ACGTcount: A:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (21 bp):
GGTATCGATACTACTAAAGGA
Found at i:30794400 original size:6 final size:6
Alignment explanation
Indices: 30794389--30794415 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
30794379 TCCCTCACTA
30794389 TTTATT TTTATT TTTATT TTTATT TTT
1 TTTATT TTTATT TTTATT TTTATT TTT
30794416 CCGTTTCTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTATT
Found at i:30808656 original size:24 final size:24
Alignment explanation
Indices: 30808629--30808678 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
30808619 TTCATAGGTC
*
30808629 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATGCT
* *
30808653 AAATATATTATACTAATAAATTCT
1 AAATAAATTATACTAATAAATGCT
30808677 AA
1 AA
30808679 CTATTCTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATGCT
Found at i:30811619 original size:24 final size:24
Alignment explanation
Indices: 30811587--30811655 Score: 120
Period size: 24 Copynumber: 2.9 Consensus size: 24
30811577 CCAATCCACT
*
30811587 CCACTGCAAAGTCAAGGACATACC
1 CCACTGCAAAGTCAGGGACATACC
*
30811611 CCACTGCAAAGTCAGGGACATACT
1 CCACTGCAAAGTCAGGGACATACC
30811635 CCACTGCAAAGTCAGGGACAT
1 CCACTGCAAAGTCAGGGACAT
30811656 GGGGCTTGGA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.35, C:0.30, G:0.20, T:0.14
Consensus pattern (24 bp):
CCACTGCAAAGTCAGGGACATACC
Found at i:30812325 original size:57 final size:56
Alignment explanation
Indices: 30812149--30812312 Score: 204
Period size: 57 Copynumber: 2.9 Consensus size: 56
30812139 AGGGAGATAA
* * *
30812149 GATCTGTAATTTTCAACCTATTCCACTGCTGTCCAAGGAAATAGGACTGAGGTCTTC
1 GATCTGTAATTTTCAATCTATTCCACTGCTGTCCAAGGAGATAGGACT-AGGGCTTC
* * * * * *
30812206 GATTTGTAATTTTCAATCCACTCCTCTGTTGTCCAAGGAGATAGGACTAGGGTCTTT
1 GATCTGTAATTTTCAATCTATTCCACTGCTGTCCAAGGAGATAGGACTAGGG-CTTC
*
30812263 GATCTGTAATTTTCAATCTATTCCACTACTGT-CAAGGGAGATAGGACTAG
1 GATCTGTAATTTTCAATCTATTCCACTGCTGTCCAA-GGAGATAGGACTAG
30812313 TGGGTTCAAT
Statistics
Matches: 90, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
56 6 0.07
57 84 0.93
ACGTcount: A:0.26, C:0.20, G:0.20, T:0.34
Consensus pattern (56 bp):
GATCTGTAATTTTCAATCTATTCCACTGCTGTCCAAGGAGATAGGACTAGGGCTTC
Found at i:30812484 original size:44 final size:44
Alignment explanation
Indices: 30812362--30812484 Score: 167
Period size: 44 Copynumber: 2.8 Consensus size: 44
30812352 ATTCGCCATC
* * * * * * *
30812362 TTCAATCTGCTCCACTACTGTTTAGGGAGATAAGATCTGTAATT
1 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCTGTAATA
30812406 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCT-TCAATA
1 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCTGT-AATA
30812450 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGG
1 TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGG
30812485 CTTGCTTCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
43 1 0.01
44 70 0.99
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
TTCAACCTACTCCACTGCTGCTCAGGGAGATAAGGTCTGTAATA
Found at i:30812604 original size:51 final size:51
Alignment explanation
Indices: 30812530--30812763 Score: 129
Period size: 51 Copynumber: 4.7 Consensus size: 51
30812520 CGCTAGGGAC
* *** *
30812530 ATAAGATTCGCTACCTTTAGCTTTAATCTGCTCCACTATAATGCCAAAGAG
1 ATAAGATTCGCTGCCCACAGCTTTAATCTGCTCCACTATAACGCCAAAGAG
* * * **
30812581 ATAGGATTCGCTGCCCACCGCTTTAATCCGCT---C---AACGCCAGTGAG
1 ATAAGATTCGCTGCCCACAGCTTTAATCTGCTCCACTATAACGCCAAAGAG
* * * *** ** * * *
30812626 ATAAGACTCGTTGCCCTCAGCTTTAATCTGCTCTGTTGCAACGCTAGAGAA
1 ATAAGATTCGCTGCCCACAGCTTTAATCTGCTCCACTATAACGCCAAAGAG
* * *** * * *
30812677 ACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCATTATAATGCCAAAGAG
1 ATAAGATTCGCTGCCCACAGCTTTAATCTGCTCCACTATAACGCCAAAGAG
* * * *
30812728 ATAGGATTCACTGCCCACCGCTGTAATCTGCTCCAC
1 ATAAGATTCGCTGCCCACAGCTTTAATCTGCTCCAC
30812764 CTCAGCTATT
Statistics
Matches: 131, Mismatches: 46, Indels: 12
0.69 0.24 0.06
Matches are distributed among these distances:
45 35 0.27
48 1 0.01
51 95 0.73
ACGTcount: A:0.27, C:0.27, G:0.17, T:0.29
Consensus pattern (51 bp):
ATAAGATTCGCTGCCCACAGCTTTAATCTGCTCCACTATAACGCCAAAGAG
Found at i:30812903 original size:169 final size:169
Alignment explanation
Indices: 30812624--30812989 Score: 588
Period size: 169 Copynumber: 2.2 Consensus size: 169
30812614 AACGCCAGTG
* * *
30812624 AGATAAGACTCGTTGCCCTCAGCTTTAATCTGCTCTGTTGCAACGCTAGAGAAACAAGATTCGCT
1 AGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAACGCTAGAGAAACAAGATTCGCT
* *
30812689 ACCTTTAGCTTTAATCTGTTCCATTATAATGCCAAAGAGATAGGATTCACTGCCCACCGCTGTAA
66 ACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTGCCCACAGCTGTAA
* *
30812754 TCTGCTCCACCTCAGCTATTCTAAGTCTTAAAGCCAGGA
131 TCCGCTCCACCTCAGCTATTCCAAGTCTTAAAGCCAGGA
*
30812793 AGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAACGCTAGGGAAACAAGATTCGCT
1 AGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAACGCTAGAGAAACAAGATTCGCT
** *
30812858 ATGTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTGCCCACAGCTTTAA
66 ACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTGCCCACAGCTGTAA
* * *
30812923 TCCGCTCCACCTTAGCTATTCCAAGTCTTAACGCCAGGG
131 TCCGCTCCACCTCAGCTATTCCAAGTCTTAAAGCCAGGA
* *
30812962 ATATAAGATTGGCTGCCCTCAGCTTTAA
1 AGATAAGATTCGCTGCCCTCAGCTTTAA
30812990 CGCTAGGGAG
Statistics
Matches: 181, Mismatches: 16, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
169 181 1.00
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (169 bp):
AGATAAGATTCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAACGCTAGAGAAACAAGATTCGCT
ACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGGATTCACTGCCCACAGCTGTAA
TCCGCTCCACCTCAGCTATTCCAAGTCTTAAAGCCAGGA
Found at i:30812998 original size:36 final size:36
Alignment explanation
Indices: 30812950--30813025 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
30812940 ATTCCAAGTC
* *
30812950 TTAACGCCAGGGATATAAGATTGGCTGCCCTCAGCT
1 TTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCT
* *
30812986 TTAACGCTAGGGAGATAAGATTCGCTGCCCTTAGCT
1 TTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCT
30813022 TTAA
1 TTAA
30813026 TCTGCTCTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (36 bp):
TTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCT
Found at i:30814928 original size:169 final size:169
Alignment explanation
Indices: 30814643--30814964 Score: 527
Period size: 169 Copynumber: 1.9 Consensus size: 169
30814633 ATCTTTTCCN
*
30814643 GCTAGAGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCATTATAATGCCAAAGAGATAGG
1 GCTAGAGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGG
* * *
30814708 ATTCACTGCCCACCGCTGTAATCTGCTCCACCTCAGCTATTCTAAGTCTTAAAGCCAGGAAGATA
66 ATTCACTGCCCACAGCTGTAATCCGCTCCACCTCAGCTATTCCAAGTCTTAAAGCCAGGAAGATA
30814773 AGATTCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAAC
131 AGATTCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAAC
* **
30814812 GCTAGGGAAACAAGATTCGCTATGTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGG
1 GCTAGAGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGG
* * * * *
30814877 ATTCACTGCCCACAGCTTTAATCCGCTCCACCTTAGCTATTCCAAGTCTTAACGCCAGGGATATA
66 ATTCACTGCCCACAGCTGTAATCCGCTCCACCTCAGCTATTCCAAGTCTTAAAGCCAGGAAGATA
*
30814942 AGATTGGCTGCCCTCAGCTTTAA
131 AGATTCGCTGCCCTCAGCTTTAA
30814965 CGCTAGGGAG
Statistics
Matches: 140, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
169 140 1.00
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.29
Consensus pattern (169 bp):
GCTAGAGAAACAAGATTCGCTACCTTTAGCTTTAATCTGTTCCACTATAATGCCAAAGAGATAGG
ATTCACTGCCCACAGCTGTAATCCGCTCCACCTCAGCTATTCCAAGTCTTAAAGCCAGGAAGATA
AGATTCGCTGCCCTCAGCTTTAATCTGCTCTGCTGCAAC
Found at i:30814973 original size:36 final size:36
Alignment explanation
Indices: 30814925--30815000 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
30814915 ATTCCAAGTC
* *
30814925 TTAACGCCAGGGATATAAGATTGGCTGCCCTCAGCT
1 TTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCT
* *
30814961 TTAACGCTAGGGAGATAAGATTCGCTGCCCTTAGCT
1 TTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCT
30814997 TTAA
1 TTAA
30815001 TCTGCTCTGC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.26, C:0.22, G:0.24, T:0.28
Consensus pattern (36 bp):
TTAACGCCAGGGAGATAAGATTCGCTGCCCTCAGCT
Found at i:30821569 original size:26 final size:26
Alignment explanation
Indices: 30821540--30821674 Score: 76
Period size: 26 Copynumber: 5.4 Consensus size: 26
30821530 ATCAAAATTA
30821540 ATAAAAATAAATAAATATGTATATAT
1 ATAAAAATAAATAAATATGTATATAT
*
30821566 ATAAATATGAGAA-AAATAT-TAGT-TA-
1 ATAAAAAT-A-AATAAATATGTA-TATAT
*
30821591 A-AAAAAT--ATAAATATGTACATA-
1 ATAAAAATAAATAAATATGTATATAT
*
30821613 A-AAAAATAAATATACATATATATAT-T
1 ATAAAAATAAATA-A-ATATGTATATAT
* * * * *
30821639 AAAAAAATAATTACATATGAAAAT-T
1 ATAAAAATAAATAAATATGTATATAT
30821664 ATAAAAATAAA
1 ATAAAAATAAA
30821675 ATAATAATTA
Statistics
Matches: 85, Mismatches: 12, Indels: 25
0.70 0.10 0.20
Matches are distributed among these distances:
20 1 0.01
21 6 0.07
22 11 0.13
24 8 0.09
25 19 0.22
26 20 0.24
27 18 0.21
28 2 0.02
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.30
Consensus pattern (26 bp):
ATAAAAATAAATAAATATGTATATAT
Found at i:30821664 original size:25 final size:26
Alignment explanation
Indices: 30821590--30821673 Score: 68
Period size: 25 Copynumber: 3.3 Consensus size: 26
30821580 AATATTAGTT
* * * *
30821590 AAAAA-AATATAAATATGTACATAAA
1 AAAAATAATATACATATATAAATTAA
*
30821615 AAAATA-AATATACATATATATATTAA
1 AAAA-ATAATATACATATATAAATTAA
*
30821641 AAAAATAAT-TACATATGA-AAATTAT
1 AAAAATAATATACATAT-ATAAATTAA
30821666 AAAAATAA
1 AAAAATAA
30821674 AATAATAATT
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
25 25 0.50
26 25 0.50
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (26 bp):
AAAAATAATATACATATATAAATTAA
Found at i:30822947 original size:20 final size:20
Alignment explanation
Indices: 30822924--30822972 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
30822914 ATAAGCCCAT
*
30822924 TATATTATAGATA-AGTTTAG
1 TATATTATAGATAGA-TTTAA
*
30822944 TATATTAGAGATAGATTTAA
1 TATATTATAGATAGATTTAA
30822964 TATATTATA
1 TATATTATA
30822973 TAAGCTCCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 24 0.96
21 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.12, T:0.45
Consensus pattern (20 bp):
TATATTATAGATAGATTTAA
Found at i:30828556 original size:22 final size:23
Alignment explanation
Indices: 30828530--30828588 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 23
30828520 AGTTGGTAGT
30828530 ATTTAACACCTCAAA-TTACAAC
1 ATTTAACACCTCAAATTTACAAC
* * * *
30828552 TTTTAA-ACATCATAATTTGCAGC
1 ATTTAACACCTCA-AATTTACAAC
30828575 ATTTAACACCTCAA
1 ATTTAACACCTCAA
30828589 CATTCATGTA
Statistics
Matches: 28, Mismatches: 6, Indels: 5
0.72 0.15 0.13
Matches are distributed among these distances:
21 5 0.18
22 7 0.25
23 11 0.39
24 5 0.18
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.32
Consensus pattern (23 bp):
ATTTAACACCTCAAATTTACAAC
Found at i:30842167 original size:21 final size:21
Alignment explanation
Indices: 30842143--30842182 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
30842133 AAATCTCGAC
*
30842143 AGAAAAAGAGTCAATAAAACG
1 AGAAAAAGACTCAATAAAACG
*
30842164 AGAAAAAGTCTCAATAAAA
1 AGAAAAAGACTCAATAAAA
30842183 ATTGAGTTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.62, C:0.10, G:0.15, T:0.12
Consensus pattern (21 bp):
AGAAAAAGACTCAATAAAACG
Found at i:30843033 original size:6 final size:6
Alignment explanation
Indices: 30843022--30843097 Score: 55
Period size: 6 Copynumber: 12.2 Consensus size: 6
30843012 GAAGTACAAG
* * *
30843022 AAAATA AAAATA AAACA-A AACAACTA AAAATA GAAATA AACATA AACATA
1 AAAATA AAAATA AAA-ATA AA-AA-TA AAAATA AAAATA AAAATA AAAATA
* * *
30843072 AAAAGA TAAATTA AAATTA AAAATA A
1 AAAATA -AAAATA AAAATA AAAATA A
30843098 TACAAATAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 10
0.76 0.11 0.13
Matches are distributed among these distances:
6 46 0.81
7 8 0.14
8 3 0.05
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:30852035 original size:19 final size:19
Alignment explanation
Indices: 30852013--30852062 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
30852003 AGGAAGAATA
30852013 AAAATAAGAAATGAC-ATGG
1 AAAATAAGAAATGACAAT-G
*
30852032 AAAACTAA-AATTGACAATG
1 AAAA-TAAGAAATGACAATG
30852051 AAAATAATGAAA
1 AAAATAA-GAAA
30852063 CACCAGGACG
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
18 3 0.12
19 15 0.60
20 7 0.28
ACGTcount: A:0.62, C:0.06, G:0.14, T:0.18
Consensus pattern (19 bp):
AAAATAAGAAATGACAATG
Found at i:30866997 original size:82 final size:80
Alignment explanation
Indices: 30866911--30867170 Score: 281
Period size: 82 Copynumber: 3.2 Consensus size: 80
30866901 TTTTTAAAAC
* * *
30866911 GCACCGCTAATGCTCAGGGCTTTAGCAGCGTTTTTGAAGAAGCG-TCGTTAATACTCAGGGCTTT
1 GCACCGCTAATGCTCA-GGCTTTAGCAGCGTTTTT-AAGAAGCGCT-GCTAATGCTCAGGGTTTT
*
30866975 AGAGGCATTTTTGAAGGA
63 AGAGGCATTTTTGAAGAA
** * *
30866993 GCACCGCTAATGCTCTA-TTTTTAGCGGCGTTTTTATGAAAGCGCTGCTAATGCTCAGGGTTTTA
1 GCACCGCTAATGCTC-AGGCTTTAGCAGCGTTTTTAAG-AAGCGCTGCTAATGCTCAGGGTTTTA
* *
30867057 GCGGCATTTTTTAAGAA
64 GAGGCATTTTTGAAGAA
* * * * *
30867074 GCGCCGCTGATGCTCAAGGCTTTAGCAGCATGTTTAATGAAGCACTGCTAATGCTCAGGGTTTTA
1 GCACCGCTAATGCTC-AGGCTTTAGCAGCGTTTTTAA-GAAGCGCTGCTAATGCTCAGGGTTTTA
* *
30867139 GTGGCGTTTTTGAAGAA
64 GAGGCATTTTTGAAGAA
*
30867156 GCGCCGCTAATGCTC
1 GCACCGCTAATGCTC
30867171 TATTTTAGCG
Statistics
Matches: 149, Mismatches: 24, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
80 2 0.01
81 63 0.42
82 82 0.55
83 2 0.01
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (80 bp):
GCACCGCTAATGCTCAGGCTTTAGCAGCGTTTTTAAGAAGCGCTGCTAATGCTCAGGGTTTTAGA
GGCATTTTTGAAGAA
Found at i:30867067 original size:41 final size:40
Alignment explanation
Indices: 30866914--30867188 Score: 209
Period size: 41 Copynumber: 6.8 Consensus size: 40
30866904 TTAAAACGCA
* * * *
30866914 CCGCTAATGCTCAGGGCTTTAGCAGCGTTTTTGAAGAAGCG
1 CCGCTAATGCTCAGGGTTTTAGCGGCATTTTT-ATGAAGCG
* * * * * * * *
30866955 TCGTTAATACTCAGGGCTTTAGAGGCATTTTTGAAGGAGCA
1 CCGCTAATGCTCAGGGTTTTAGCGGCATTTTT-ATGAAGCG
* *
30866996 CCGCTAATGCTCTA--TTTTTAGCGGCGTTTTTATGAAAGCG
1 CCGCTAATGCTC-AGGGTTTTAGCGGCATTTTTATG-AAGCG
* *
30867036 CTGCTAATGCTCAGGGTTTTAGCGGCATTTTTTAAGAAGCG
1 CCGCTAATGCTCAGGGTTTTAGCGGCA-TTTTTATGAAGCG
* * * * * *
30867077 CCGCTGATGCTCAAGGCTTTAGCAGCATGTTTAATGAAGCA
1 CCGCTAATGCTCAGGGTTTTAGCGGCAT-TTTTATGAAGCG
* * * *
30867118 CTGCTAATGCTCAGGGTTTTAGTGGCGTTTTTGAAGAAGCG
1 CCGCTAATGCTCAGGGTTTTAGCGGCATTTTT-ATGAAGCG
30867159 CCGCTAATGCTCTA---TTTTAGCGGCATTTTT
1 CCGCTAATGCTC-AGGGTTTTAGCGGCATTTTT
30867189 GAAAAAGCGC
Statistics
Matches: 183, Mismatches: 43, Indels: 18
0.75 0.18 0.07
Matches are distributed among these distances:
39 17 0.09
40 31 0.17
41 126 0.69
42 9 0.05
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (40 bp):
CCGCTAATGCTCAGGGTTTTAGCGGCATTTTTATGAAGCG
Found at i:30867151 original size:163 final size:162
Alignment explanation
Indices: 30866890--30867188 Score: 399
Period size: 163 Copynumber: 1.8 Consensus size: 162
30866880 TGCATGGGGC
* * * *
30866890 TTTAGCGGAGTTTTTTAAAACGCACCGCTAATGCTCAGGGCTTTAGCAGCGTTTTTGAAGAAGCG
1 TTTAGCGGAGTTTTTTAAAACGCACCGCTAATGCTCAAGGCTTTAGCAGCATGTTTGAAGAAGCC
* *
30866955 TCGTTAATACTCAGGGCTTTAGAGGCATTTTTGAAGGAGCACCGCTAATGCTCTATTTTTAGCGG
66 TCGCTAATACTCAGGGCTTTAGAGGCATTTTTGAAGAAGCACCGCTAATGCTCTA-TTTTAGCGG
*
30867020 CGTTTTTATGAAAGCGCTGCTAATGCTCAGGGT
130 CATTTTTATGAAAGCGCTGCTAATGCTCAGGGT
* *
30867053 TTTAGCGGCA-TTTTTTAAGAA-GCGCCGCTGATGCTCAAGGCTTTAGCAGCATGTTT-AATGAA
1 TTTAGCGG-AGTTTTTTAA-AACGCACCGCTAATGCTCAAGGCTTTAGCAGCATGTTTGAA-GAA
* * * * *
30867115 GCACT-GCTAATGCTCAGGGTTTTAGTGGCGTTTTTGAAGAAGCGCCGCTAATGCTCTATTTTAG
63 GC-CTCGCTAATACTCAGGGCTTTAGAGGCATTTTTGAAGAAGCACCGCTAATGCTCTATTTTAG
30867179 CGGCATTTTT
127 CGGCATTTTT
30867189 GAAAAAGCGC
Statistics
Matches: 118, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
162 17 0.14
163 97 0.82
164 4 0.03
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (162 bp):
TTTAGCGGAGTTTTTTAAAACGCACCGCTAATGCTCAAGGCTTTAGCAGCATGTTTGAAGAAGCC
TCGCTAATACTCAGGGCTTTAGAGGCATTTTTGAAGAAGCACCGCTAATGCTCTATTTTAGCGGC
ATTTTTATGAAAGCGCTGCTAATGCTCAGGGT
Found at i:30867574 original size:22 final size:22
Alignment explanation
Indices: 30867549--30867591 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
30867539 GAGTTACTAT
*
30867549 TTTAAGGTTTATGAATTATGGG
1 TTTAAGGGTTATGAATTATGGG
* *
30867571 TTTAGGGGTTATGATTTATGG
1 TTTAAGGGTTATGAATTATGG
30867592 TTTGCAGTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.30, T:0.47
Consensus pattern (22 bp):
TTTAAGGGTTATGAATTATGGG
Found at i:30867660 original size:15 final size:15
Alignment explanation
Indices: 30867635--30867681 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
30867625 AGGTTATGTG
30867635 TTAAGGGTTTAGGGTT
1 TTAA-GGTTTAGGGTT
* *
30867651 TTATGGTTTAGGATT
1 TTAAGGTTTAGGGTT
30867666 TTAAGGTTTAGGGTT
1 TTAAGGTTTAGGGTT
30867681 T
1 T
30867682 AAATTAACTA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
15 24 0.89
16 3 0.11
ACGTcount: A:0.19, C:0.00, G:0.32, T:0.49
Consensus pattern (15 bp):
TTAAGGTTTAGGGTT
Found at i:30868802 original size:4 final size:4
Alignment explanation
Indices: 30868793--30868818 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
30868783 CTTGCTTTCT
30868793 CTCC CTCC CTCC CTCC CTCC CTCC CT
1 CTCC CTCC CTCC CTCC CTCC CTCC CT
30868819 GGGACATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.00, C:0.73, G:0.00, T:0.27
Consensus pattern (4 bp):
CTCC
Found at i:30874848 original size:21 final size:21
Alignment explanation
Indices: 30874824--30874869 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
30874814 ATATATATAT
*
30874824 GTTTAGCTTAGTATTGATCTA
1 GTTTAGCTTAATATTGATCTA
* *
30874845 GTTTAGCTTAATATTGGTCTG
1 GTTTAGCTTAATATTGATCTA
30874866 GTTT
1 GTTT
30874870 TTTTACATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.20, C:0.09, G:0.22, T:0.50
Consensus pattern (21 bp):
GTTTAGCTTAATATTGATCTA
Found at i:30876861 original size:43 final size:42
Alignment explanation
Indices: 30876776--30876862 Score: 102
Period size: 43 Copynumber: 2.0 Consensus size: 42
30876766 CTTTGAGTTC
* * ** *
30876776 ATTACAAGGTTTCCTTGATTAAGTTAATGTATTATATCTTTT
1 ATTACAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
* *
30876818 ATTACCAAGATTTACTTGATTAAGAAAATGCATTGTATTTTTT
1 ATTA-CAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
30876861 AT
1 AT
30876863 CACCTTGCAA
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 4 0.11
43 33 0.89
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.47
Consensus pattern (42 bp):
ATTACAAGATTTACTTGATTAAGAAAATGCATTATATCTTTT
Found at i:30877371 original size:43 final size:43
Alignment explanation
Indices: 30877308--30877442 Score: 171
Period size: 43 Copynumber: 3.1 Consensus size: 43
30877298 TAAAGGACAT
* * *
30877308 GCGTTTGTGACAAAAGCGTCGCTAAAGTTCATGACCTTTAGTG
1 GCGTTTGTGACAAAAGCGTCGTTAAAGATCATGACCTTTAGCG
* * *
30877351 GTGTTTGTGACAAAAGCGTCGTTAAGGACCATGACCTTTAGCG
1 GCGTTTGTGACAAAAGCGTCGTTAAAGATCATGACCTTTAGCG
* * ** *
30877394 GCGTTTGTGATAAAAGCGTCGTTAAAGGTCATGGTCTTTAACG
1 GCGTTTGTGACAAAAGCGTCGTTAAAGATCATGACCTTTAGCG
30877437 GCGTTT
1 GCGTTT
30877443 TTTCACATAA
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 78 1.00
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.31
Consensus pattern (43 bp):
GCGTTTGTGACAAAAGCGTCGTTAAAGATCATGACCTTTAGCG
Found at i:30879095 original size:22 final size:21
Alignment explanation
Indices: 30879070--30879113 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 21
30879060 TGATAAAATT
30879070 TAATATATA-ATTATATTATTTA
1 TAATATATATATTA-ATT-TTTA
*
30879092 TAATTTATATATTAATTTTTA
1 TAATATATATATTAATTTTTA
30879113 T
1 T
30879114 CAACTTAGCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 5 0.25
22 11 0.55
23 4 0.20
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAATATATATATTAATTTTTA
Found at i:30887139 original size:3 final size:3
Alignment explanation
Indices: 30887131--30887183 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
30887121 TTGGCATACT
30887131 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30887179 TTA TT
1 TTA TT
30887184 TTGGTGGAAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:30887572 original size:5 final size:5
Alignment explanation
Indices: 30887564--30887590 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
30887554 GAGATGGATT
30887564 TCGAA TCGAA TCGAA TCGAA TCGAA TC
1 TCGAA TCGAA TCGAA TCGAA TCGAA TC
30887591 TATTTGTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.37, C:0.22, G:0.19, T:0.22
Consensus pattern (5 bp):
TCGAA
Found at i:30888140 original size:16 final size:16
Alignment explanation
Indices: 30888119--30888149 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30888109 GGGGAAAATA
*
30888119 AAAAGTTTTAGGGAAT
1 AAAAGTTTGAGGGAAT
30888135 AAAAGTTTGAGGGAA
1 AAAAGTTTGAGGGAA
30888150 AGTAAACAGG
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:0.45, C:0.00, G:0.29, T:0.26
Consensus pattern (16 bp):
AAAAGTTTGAGGGAAT
Found at i:30888587 original size:9 final size:9
Alignment explanation
Indices: 30888570--30888600 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
30888560 TCGAGTTGAT
30888570 TCGAATAAC
1 TCGAATAAC
*
30888579 TCGATTAAC
1 TCGAATAAC
30888588 TCGAATAAC
1 TCGAATAAC
30888597 TCGA
1 TCGA
30888601 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:30889894 original size:48 final size:47
Alignment explanation
Indices: 30889842--30889987 Score: 128
Period size: 48 Copynumber: 3.2 Consensus size: 47
30889832 GTTTTTATTT
*
30889842 TTTTTATATCTGTAAATTTAATGTAGTTGTTTAGGATTTAAGGTATCA
1 TTTTTATATCTGTAAATTTAAT-TAGTTGTTTAGGATTTAATGTATCA
** * * * *
30889890 TTTTTATAT-T-TTCATGT-ATTAATT-TCTTAGAATGTT--TTTAT--
1 TTTTTATATCTGTAAATTTAATTAGTTGT-TTAGGAT-TTAATGTATCA
*
30889931 TTTTTATATCTGTAAATTTAATATAGTTGTTTAGGATTTAATGTTTCA
1 TTTTTATATCTGTAAATTTAAT-TAGTTGTTTAGGATTTAATGTATCA
30889979 TTTTTATAT
1 TTTTTATAT
30889988 TTTCGCGTAT
Statistics
Matches: 73, Mismatches: 14, Indels: 22
0.67 0.13 0.20
Matches are distributed among these distances:
41 9 0.12
42 1 0.01
43 8 0.11
44 14 0.19
45 14 0.19
46 8 0.11
47 1 0.01
48 18 0.25
ACGTcount: A:0.27, C:0.04, G:0.12, T:0.57
Consensus pattern (47 bp):
TTTTTATATCTGTAAATTTAATTAGTTGTTTAGGATTTAATGTATCA
Found at i:30889966 original size:89 final size:89
Alignment explanation
Indices: 30889813--30890024 Score: 327
Period size: 89 Copynumber: 2.4 Consensus size: 89
30889803 TCAAAATAAT
* *
30889813 TGTATT-ATTTCTTTAGAGTGTTTTTATTTTTTTTATATCTGTAAATTTAATGTAGTTGTTTAGG
1 TGTATTAATTTC-TTAGAATGTTTTTA--TTTTTTATATCTGTAAATTTAATATAGTTGTTTAGG
30889877 ATTTAAGGTATCATTTTTATATTTTCA
63 ATTTAAGGTATCATTTTTATATTTTCA
30889904 TGTATTAATTTCTTAGAATGTTTTTATTTTTTATATCTGTAAATTTAATATAGTTGTTTAGGATT
1 TGTATTAATTTCTTAGAATGTTTTTATTTTTTATATCTGTAAATTTAATATAGTTGTTTAGGATT
* * *
30889969 TAATGTTTCATTTTTATATTTTCG
66 TAAGGTATCATTTTTATATTTTCA
* *
30889993 CGTATTAATTTCTTAGAATGTTTGTATTTTTT
1 TGTATTAATTTCTTAGAATGTTTTTATTTTTT
30890025 TTTGTATCTA
Statistics
Matches: 113, Mismatches: 7, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
89 89 0.79
91 19 0.17
92 5 0.04
ACGTcount: A:0.25, C:0.05, G:0.12, T:0.58
Consensus pattern (89 bp):
TGTATTAATTTCTTAGAATGTTTTTATTTTTTATATCTGTAAATTTAATATAGTTGTTTAGGATT
TAAGGTATCATTTTTATATTTTCA
Found at i:30892732 original size:16 final size:18
Alignment explanation
Indices: 30892711--30892749 Score: 55
Period size: 16 Copynumber: 2.3 Consensus size: 18
30892701 ATTTATTTAC
30892711 CATTTCAATT-TT-TTTT
1 CATTTCAATTCTTATTTT
*
30892727 CATTTCAGTTCTTATTTT
1 CATTTCAATTCTTATTTT
30892745 CATTT
1 CATTT
30892750 TCATTTATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 9 0.45
17 2 0.10
18 9 0.45
ACGTcount: A:0.18, C:0.15, G:0.03, T:0.64
Consensus pattern (18 bp):
CATTTCAATTCTTATTTT
Found at i:30892768 original size:17 final size:17
Alignment explanation
Indices: 30892746--30892795 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
30892736 TCTTATTTTC
30892746 ATTTTCATTTATAATTT
1 ATTTTCATTTATAATTT
*
30892763 ATTTTCATTTAAACATTT
1 ATTTTCATTTATA-ATTT
30892781 A-TTTCATTTCATAAT
1 ATTTTCATTT-ATAAT
30892796 CATCATTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 22 0.76
18 7 0.24
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTCATTTATAATTT
Found at i:30892805 original size:19 final size:19
Alignment explanation
Indices: 30892781--30892817 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
30892771 TTAAACATTT
30892781 ATTTCATTTCATAATCATC
1 ATTTCATTTCATAATCATC
*
30892800 ATTTCATTTCATATTCAT
1 ATTTCATTTCATAATCAT
30892818 TACAAATTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (19 bp):
ATTTCATTTCATAATCATC
Found at i:30892853 original size:23 final size:22
Alignment explanation
Indices: 30892777--30892854 Score: 70
Period size: 23 Copynumber: 3.4 Consensus size: 22
30892767 TCATTTAAAC
*
30892777 ATTT-ATTTCATTTCATAATCAT
1 ATTTCATTTCATTTC-TATTCAT
*
30892799 CATTTCATTTCATATTC-ATTACAA
1 -ATTTCATTTCAT-TTCTATT-CAT
*
30892823 ATTACATTTCATTTCTTATTCAT
1 ATTTCATTTCATTTC-TATTCAT
30892846 ATTTCATTT
1 ATTTCATTT
30892855 AATATTTGAT
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
22 3 0.07
23 27 0.60
24 12 0.27
25 3 0.07
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (22 bp):
ATTTCATTTCATTTCTATTCAT
Found at i:30893284 original size:5 final size:5
Alignment explanation
Indices: 30893276--30893351 Score: 73
Period size: 5 Copynumber: 14.6 Consensus size: 5
30893266 ACCTTTTTTT
* * *
30893276 TTTCA TTTCA TTTGTA TTTCA TTTGCA TTTCA TTTC- TTCCT TTTCA TTTCA
1 TTTCA TTTCA TTT-CA TTTCA TTT-CA TTTCA TTTCA TTTCA TTTCA TTTCA
*
30893327 TTTATA TTTTCA TTTCA TTTCA TTT
1 TTT-CA -TTTCA TTTCA TTTCA TTT
30893352 ACACCTACAT
Statistics
Matches: 59, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
4 3 0.05
5 42 0.71
6 11 0.19
7 3 0.05
ACGTcount: A:0.17, C:0.17, G:0.03, T:0.63
Consensus pattern (5 bp):
TTTCA
Found at i:30893296 original size:11 final size:11
Alignment explanation
Indices: 30893279--30893351 Score: 64
Period size: 11 Copynumber: 6.9 Consensus size: 11
30893269 TTTTTTTTTT
30893279 CATTTCATTTG
1 CATTTCATTTG
*
30893290 TATTTCATTTG
1 CATTTCATTTG
30893301 CATTTCATTT-
1 CATTTCATTTG
* *
30893311 C--TTCCTTTT
1 CATTTCATTTG
*
30893320 CATTTCATTTA
1 CATTTCATTTG
*
30893331 TATTTTCATTT-
1 CA-TTTCATTTG
30893342 CATTTCATTT
1 CATTTCATTT
30893352 ACACCTACAT
Statistics
Matches: 51, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
8 6 0.12
9 1 0.02
10 9 0.18
11 27 0.53
12 8 0.16
ACGTcount: A:0.18, C:0.18, G:0.03, T:0.62
Consensus pattern (11 bp):
CATTTCATTTG
Found at i:30893362 original size:22 final size:22
Alignment explanation
Indices: 30893317--30893363 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
30893307 ATTTCTTCCT
* ** *
30893317 TTTCATTTCATTTATATTTTCA
1 TTTCATTTCATTTACACCTACA
30893339 TTTCATTTCATTTACACCTACA
1 TTTCATTTCATTTACACCTACA
30893361 TTT
1 TTT
30893364 AAATGAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.57
Consensus pattern (22 bp):
TTTCATTTCATTTACACCTACA
Found at i:30893395 original size:17 final size:17
Alignment explanation
Indices: 30893375--30893443 Score: 67
Period size: 17 Copynumber: 4.1 Consensus size: 17
30893365 AATGAATTTT
30893375 TTTTCCATTTAAATTAA
1 TTTTCCATTTAAATTAA
30893392 TTTTCCATTT--A-T-A
1 TTTTCCATTTAAATTAA
30893405 TTTT-CATTTAAATTAATTA
1 TTTTCCATTTAAATT-A--A
30893424 TTTTCCATTTAAATTTAA
1 TTTTCCATTTAAA-TTAA
30893442 TT
1 TT
30893444 ATTTCTCATT
Statistics
Matches: 43, Mismatches: 0, Indels: 17
0.72 0.00 0.28
Matches are distributed among these distances:
12 5 0.12
13 5 0.12
14 2 0.05
15 2 0.05
17 10 0.23
18 3 0.07
19 5 0.12
20 9 0.21
21 2 0.05
ACGTcount: A:0.32, C:0.10, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTCCATTTAAATTAA
Found at i:30893432 original size:32 final size:30
Alignment explanation
Indices: 30893375--30893439 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 30
30893365 AATGAATTTT
*
30893375 TTTTCCATTTAAATTAATTTTCCATTTATA
1 TTTTCCATTTAAATTAATTTTCCATTTAAA
30893405 TTTT-CATTTAAATTAATTATTTTCCATTTAAA
1 TTTTCCATTTAAATT-A--ATTTTCCATTTAAA
30893437 TTT
1 TTT
30893440 AATTATTTCT
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
29 10 0.32
30 5 0.16
32 16 0.52
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.58
Consensus pattern (30 bp):
TTTTCCATTTAAATTAATTTTCCATTTAAA
Found at i:30893434 original size:20 final size:20
Alignment explanation
Indices: 30893403--30893518 Score: 100
Period size: 21 Copynumber: 5.7 Consensus size: 20
30893393 TTTCCATTTA
30893403 TATTTTCATTTAAA-TTAAT
1 TATTTTCATTTAAATTTAAT
30893422 TATTTTCCATTTAAATTTAAT
1 TATTTT-CATTTAAATTTAAT
30893443 TATTTCTCATTTCAAAATTT--T
1 TATTT-TCATTT--AAATTTAAT
* *
30893464 TATTTTCATTTCAGTTT--T
1 TATTTTCATTTAAATTTAAT
30893482 TGA-TTTCATTTAAATTTATAATT
1 T-ATTTTCATTTAAA-TT-TAA-T
30893505 TATTTTCATTTAAA
1 TATTTTCATTTAAA
30893519 CGTCATTCCA
Statistics
Matches: 81, Mismatches: 4, Indels: 20
0.77 0.04 0.19
Matches are distributed among these distances:
18 15 0.19
19 9 0.11
20 15 0.19
21 21 0.26
22 2 0.02
23 19 0.23
ACGTcount: A:0.31, C:0.09, G:0.02, T:0.59
Consensus pattern (20 bp):
TATTTTCATTTAAATTTAAT
Found at i:30893548 original size:5 final size:5
Alignment explanation
Indices: 30893540--30893640 Score: 58
Period size: 5 Copynumber: 18.0 Consensus size: 5
30893530 TTCATAATCA
* **
30893540 TCATT TCATT TTATAT TCATT TAACACC TCATT TCATT TCATAT TCATT
1 TCATT TCATT TCAT-T TCATT T--CATT TCATT TCATT TCAT-T TCATT
* *
30893589 ACAAATT ACATT TCATT TCATAT TCATATT TCATT TAACATT TCATT TCATT
1 TC--ATT TCATT TCATT TCAT-T TC--ATT TCATT T--CATT TCATT TCATT
30893641 AATTTTTTTC
Statistics
Matches: 77, Mismatches: 8, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
5 47 0.61
6 12 0.16
7 16 0.21
8 2 0.03
ACGTcount: A:0.30, C:0.19, G:0.00, T:0.51
Consensus pattern (5 bp):
TCATT
Found at i:30893651 original size:30 final size:29
Alignment explanation
Indices: 30893569--30893664 Score: 85
Period size: 30 Copynumber: 3.3 Consensus size: 29
30893559 TTTAACACCT
* * *
30893569 CATTTCATTTCATATT-CATTACAAATT-A
1 CATTTCATTTCATATTATATTTC-ATTTAA
30893597 CATTTCATTTCATATTCATATTTCATTTAA
1 CATTTCATTTCATATT-ATATTTCATTTAA
*
30893627 CATTTCATTTCATTAATT-TTTTTCATTTAA
1 CATTTCATTTCA-T-ATTATATTTCATTTAA
30893657 -ATTT-ATTT
1 CATTTCATTT
30893665 TTTCCTAATA
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
28 20 0.34
29 7 0.12
30 28 0.47
31 1 0.02
32 3 0.05
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (29 bp):
CATTTCATTTCATATTATATTTCATTTAA
Found at i:30893666 original size:19 final size:18
Alignment explanation
Indices: 30893629--30893667 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
30893619 TCATTTAACA
*
30893629 TTTCATTTCATTAATTTT
1 TTTCATTTAATTAATTTT
*
30893647 TTTCATTTAAATTTATTTT
1 TTTCATTT-AATTAATTTT
30893666 TT
1 TT
30893668 CCTAATATAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (18 bp):
TTTCATTTAATTAATTTT
Found at i:30894058 original size:17 final size:17
Alignment explanation
Indices: 30894024--30894089 Score: 71
Period size: 17 Copynumber: 3.9 Consensus size: 17
30894014 TTTTTCTTTT
*
30894024 CATTTCTATTTCAA-TTC
1 CATTTC-ATTTAAATTTC
*
30894041 CATTTAATTTAAATTTC
1 CATTTCATTTAAATTTC
** *
30894058 CATTTCATTTCCATTTT
1 CATTTCATTTAAATTTC
30894075 CATTTCATTTAAATT
1 CATTTCATTTAAATT
30894090 ATATTTTTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
16 6 0.15
17 34 0.85
ACGTcount: A:0.27, C:0.18, G:0.00, T:0.55
Consensus pattern (17 bp):
CATTTCATTTAAATTTC
Found at i:30894117 original size:20 final size:20
Alignment explanation
Indices: 30894077--30894119 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
30894067 TCCATTTTCA
*
30894077 TTTCATTTAAATTATATTTT
1 TTTCATTTAAATTATAATTT
30894097 TTTCTATTTAAATT-TAATTT
1 TTTC-ATTTAAATTATAATTT
30894117 TTT
1 TTT
30894120 TTCTCATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 12 0.57
21 9 0.43
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTCATTTAAATTATAATTT
Found at i:30894120 original size:24 final size:23
Alignment explanation
Indices: 30894077--30894287 Score: 118
Period size: 24 Copynumber: 9.0 Consensus size: 23
30894067 TCCATTTTCA
*
30894077 TTTCATTTAAA-TT-A-TATTTT
1 TTTCATTTAAATTTAATTTTTTT
30894097 TTTCTATTTAAATTTAATTTTTTT
1 TTTC-ATTTAAATTTAATTTTTTT
* *
30894121 TCTCATTT-CATTTAAATTATTTTT
1 TTTCATTTAAATTT-AATT-TTTTT
*
30894145 TTTCATGTAAATTTAATTTTTTCTT
1 TTTCATTTAAATTTAA-TTTTT-TT
30894170 ATTTCATTTAAA-TT-ATTTTTTT
1 -TTTCATTTAAATTTAATTTTTTT
* *
30894192 CATTTAAATTTAAATTTAATTTCTTCCTCA
1 --TTT-CATTTAAATTTAATTT-TT--T-T
* *
30894222 TTTCATTTAAA-TT-ATATTTCT
1 TTTCATTTAAATTTAATTTTTTT
* * **
30894243 TTCCATTTTAATTT--TTTTCTCA
1 TTTCATTTAAATTTAATTTT-TTT
30894265 TTTCATTTAAATTTAATTTTTTT
1 TTTCATTTAAATTTAATTTTTTT
30894288 CTCTTGTCAT
Statistics
Matches: 148, Mismatches: 21, Indels: 41
0.70 0.10 0.20
Matches are distributed among these distances:
20 4 0.03
21 19 0.13
22 24 0.16
23 19 0.13
24 38 0.26
25 15 0.10
26 16 0.11
27 9 0.06
28 3 0.02
29 1 0.01
ACGTcount: A:0.27, C:0.09, G:0.00, T:0.64
Consensus pattern (23 bp):
TTTCATTTAAATTTAATTTTTTT
Found at i:30894166 original size:20 final size:19
Alignment explanation
Indices: 30894126--30894166 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
30894116 TTTTTTCTCA
* *
30894126 TTTCATTTAAATTATTTTT
1 TTTCATGTAAATTAATTTT
30894145 TTTCATGTAAATTTAATTTT
1 TTTCATGTAAA-TTAATTTT
30894165 TT
1 TT
30894167 CTTATTTCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (19 bp):
TTTCATGTAAATTAATTTT
Found at i:30894173 original size:68 final size:69
Alignment explanation
Indices: 30894077--30894207 Score: 171
Period size: 68 Copynumber: 1.9 Consensus size: 69
30894067 TCCATTTTCA
* * *
30894077 TTTCATTTAAATTATATTTTTTTCTATTTAAATTT-AATT-TTTTTTCTCATTT-CATTTAAATT
1 TTTCATGTAAATTATAATTTTTTCTATTT-AATTTAAATTATTTTTT-TCATTTAAATTTAAATT
30894139 ATTTTT
64 ATTTTT
*
30894145 TTTCATGTAAATT-TAATTTTTTCTTATTTCATTTAAATTATTTTTTTCATTTAAATTTAAATT
1 TTTCATGTAAATTATAATTTTTTC-TATTTAATTTAAATTATTTTTTTCATTTAAATTTAAATT
30894208 TAATTTCTTC
Statistics
Matches: 55, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
67 13 0.24
68 27 0.49
69 15 0.27
ACGTcount: A:0.28, C:0.07, G:0.01, T:0.64
Consensus pattern (69 bp):
TTTCATGTAAATTATAATTTTTTCTATTTAATTTAAATTATTTTTTTCATTTAAATTTAAATTAT
TTTT
Found at i:30894231 original size:21 final size:20
Alignment explanation
Indices: 30894205--30894279 Score: 55
Period size: 21 Copynumber: 3.5 Consensus size: 20
30894195 TTAAATTTAA
*
30894205 ATTTAATTTCTTCCTCATTTC
1 ATTTAATTTATT-CTCATTTC
30894226 ATTTAAATTATATT-TC-TTTCC
1 ATTT-AATT-TATTCTCATTT-C
*
30894247 ATTTTAATTTTTTTCTCATTTC
1 A-TTTAA-TTTATTCTCATTTC
30894269 ATTTAAATTTA
1 ATTT-AATTTA
30894280 ATTTTTTTCT
Statistics
Matches: 43, Mismatches: 3, Indels: 16
0.69 0.05 0.26
Matches are distributed among these distances:
20 3 0.07
21 19 0.44
22 15 0.35
23 6 0.14
ACGTcount: A:0.25, C:0.15, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTAATTTATTCTCATTTC
Found at i:30894311 original size:26 final size:27
Alignment explanation
Indices: 30894249--30894320 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
30894239 TTCTTTCCAT
30894249 TTTAATTTTTTTCTCATTTCATTTAAA
1 TTTAATTTTTTTCTCATTTCATTTAAA
*
30894276 TTTAATTTTTTTCTC-TTGTCATTTCAA
1 TTTAATTTTTTTCTCATT-TCATTTAAA
*
30894303 -TTATCTTTTTTTCT-ATTT
1 TTTA-ATTTTTTTCTCATTT
30894321 TAATTTACAT
Statistics
Matches: 40, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
26 6 0.15
27 34 0.85
ACGTcount: A:0.19, C:0.12, G:0.01, T:0.67
Consensus pattern (27 bp):
TTTAATTTTTTTCTCATTTCATTTAAA
Found at i:30894339 original size:70 final size:70
Alignment explanation
Indices: 30894077--30894346 Score: 243
Period size: 70 Copynumber: 3.8 Consensus size: 70
30894067 TCCATTTTCA
* * *
30894077 TTTCATTTAAATTATATTTTTTTCTATTTAAATTTAATTTTTTTTCTCATTT-CATTTAAATTAT
1 TTTCATTTAAATTATATTTTTTTCTATTTTAATTTAATTTTTTTT-TCATTTAAATTTAAATTTT
30894141 TTT-T-
65 TTTCTC
* * *
30894145 TTTCATGTAAATT-TAATTTTTTCT-TATTTCATTTAAATTATTTTTTTCATTTAAATTTAAATT
1 TTTCATTTAAATTATATTTTTTTCTAT-TTTAATTT-AATT-TTTTTTTCATTTAAATTTAAA-T
30894208 TAATTTCTTCCTC
62 T--TTT-TT-CTC
* * *
30894221 ATTTCATTTAAATTATATTTCTTTCCATTTTAATTT--TTTTCTCATTTCATTTAAATTT-AATT
1 -TTTCATTTAAATTATATTTTTTTCTATTTTAATTTAATTTT-T-TTTTCATTTAAATTTAAATT
30894283 TTTTTCTC
63 TTTTTCTC
* *
30894291 TTGTCATTTCAATTATCTTTTTTTCTATTTTAATTTACA-TTTTTTTTCATATTAAA
1 TT-TCATTTAAATTATATTTTTTTCTATTTTAATTTA-ATTTTTTTTTCAT-TTAAA
30894347 ATTTCTCTCA
Statistics
Matches: 164, Mismatches: 17, Indels: 39
0.75 0.08 0.18
Matches are distributed among these distances:
66 1 0.01
67 16 0.10
68 22 0.13
69 15 0.09
70 40 0.24
71 8 0.05
72 8 0.05
73 2 0.01
74 4 0.02
75 6 0.04
76 14 0.09
77 12 0.07
78 15 0.09
79 1 0.01
ACGTcount: A:0.26, C:0.10, G:0.01, T:0.63
Consensus pattern (70 bp):
TTTCATTTAAATTATATTTTTTTCTATTTTAATTTAATTTTTTTTTCATTTAAATTTAAATTTTT
TTCTC
Found at i:30894453 original size:18 final size:17
Alignment explanation
Indices: 30894415--30894454 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
30894405 ATTGTATTAT
*
30894415 ATTTAATAAAGTGTATA
1 ATTTAATAAAGTATATA
*
30894432 ATTTGAATAAAGTATATC
1 ATTT-AATAAAGTATATA
30894450 ATTTA
1 ATTTA
30894455 TCTAATTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.45, C:0.03, G:0.10, T:0.42
Consensus pattern (17 bp):
ATTTAATAAAGTATATA
Found at i:30900379 original size:29 final size:30
Alignment explanation
Indices: 30900337--30900399 Score: 110
Period size: 29 Copynumber: 2.1 Consensus size: 30
30900327 TATGAATTGT
30900337 TAAGTCTAAGGCAAAGCCTAAGGA-AATGC
1 TAAGTCTAAGGCAAAGCCTAAGGACAATGC
*
30900366 TAAGTCTAAGGCAAAGCCTAAGGACAATGT
1 TAAGTCTAAGGCAAAGCCTAAGGACAATGC
30900396 TAAG
1 TAAG
30900400 GCCAAGCCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 24 0.75
30 8 0.25
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (30 bp):
TAAGTCTAAGGCAAAGCCTAAGGACAATGC
Found at i:30904175 original size:23 final size:23
Alignment explanation
Indices: 30904138--30904196 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 23
30904128 GTGTGGCTGA
* *
30904138 CCGTGTAACTATCGAGGGTGTAG
1 CCGTGTGACTGTCGAGGGTGTAG
*
30904161 CCGTGTGACTGTCGAGGGTGTGG
1 CCGTGTGACTGTCGAGGGTGTAG
30904184 CCGTGTGACTGTC
1 CCGTGTGACTGTC
30904197 AAAGGTATGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.14, C:0.20, G:0.39, T:0.27
Consensus pattern (23 bp):
CCGTGTGACTGTCGAGGGTGTAG
Found at i:30904211 original size:23 final size:23
Alignment explanation
Indices: 30904160--30904213 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
30904150 CGAGGGTGTA
* * *
30904160 GCCGTGTGACTGTCGAGGGTGTG
1 GCCGTGTGACTGTCAAAGGTATG
30904183 GCCGTGTGACTGTCAAAGGTATG
1 GCCGTGTGACTGTCAAAGGTATG
*
30904206 GTCGTGTG
1 GCCGTGTG
30904214 TGAGACCCGG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.13, C:0.17, G:0.43, T:0.28
Consensus pattern (23 bp):
GCCGTGTGACTGTCAAAGGTATG
Found at i:30909986 original size:5 final size:5
Alignment explanation
Indices: 30909976--30910013 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
30909966 TTAAATCCTA
30909976 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
30910014 TTCCCTCTTT
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:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:30915579 original size:7 final size:7
Alignment explanation
Indices: 30915567--30915604 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
30915557 TCCAAAATAA
30915567 AATGTCC
1 AATGTCC
30915574 AATGTCC
1 AATGTCC
30915581 AATGTCC
1 AATGTCC
30915588 AATGTCC
1 AATGTCC
*
30915595 AAAGTCC
1 AATGTCC
30915602 AAT
1 AAT
30915605 TACAACCAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.34, C:0.26, G:0.13, T:0.26
Consensus pattern (7 bp):
AATGTCC
Found at i:30943298 original size:7 final size:7
Alignment explanation
Indices: 30943288--30943396 Score: 114
Period size: 7 Copynumber: 15.6 Consensus size: 7
30943278 TAGGATTTAG
30943288 AATTGAA
1 AATTGAA
30943295 AATTGAA
1 AATTGAA
30943302 AATTGAA
1 AATTGAA
30943309 AATTGAA
1 AATTGAA
30943316 AATTCG-A
1 AATT-GAA
30943323 AATTCG-A
1 AATT-GAA
30943330 AATTGAA
1 AATTGAA
30943337 AATTGAA
1 AATTGAA
*
30943344 GATTGAA
1 AATTGAA
*
30943351 AATAGAA
1 AATTGAA
*
30943358 AATTGGA
1 AATTGAA
*
30943365 AATTGGA
1 AATTGAA
*
30943372 GATTGAA
1 AATTGAA
*
30943379 GATTGAA
1 AATTGAA
* *
30943386 GATTGAG
1 AATTGAA
30943393 AATT
1 AATT
30943397 TGGGAAGGAA
Statistics
Matches: 91, Mismatches: 9, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
6 1 0.01
7 89 0.98
8 1 0.01
ACGTcount: A:0.50, C:0.02, G:0.20, T:0.28
Consensus pattern (7 bp):
AATTGAA
Found at i:30943335 original size:42 final size:42
Alignment explanation
Indices: 30943288--30943396 Score: 155
Period size: 42 Copynumber: 2.6 Consensus size: 42
30943278 TAGGATTTAG
*
30943288 AATTGAAAATTGAAAATTGAAAATTGAAAATTCGAAATTCGA
1 AATTGAAAATTGAAGATTGAAAATTGAAAATTCGAAATTCGA
* * *
30943330 AATTGAAAATTGAAGATTGAAAATAGAAAATTGGAAATTGGA
1 AATTGAAAATTGAAGATTGAAAATTGAAAATTCGAAATTCGA
* * *
30943372 GATTGAAGATTGAAGATTGAGAATT
1 AATTGAAAATTGAAGATTGAAAATT
30943397 TGGGAAGGAA
Statistics
Matches: 59, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.50, C:0.02, G:0.20, T:0.28
Consensus pattern (42 bp):
AATTGAAAATTGAAGATTGAAAATTGAAAATTCGAAATTCGA
Found at i:30950265 original size:40 final size:39
Alignment explanation
Indices: 30950167--30950429 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
30950157 TCCTCGTTCA
* * * *
30950167 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
30950206 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
30950245 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
30950285 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
30950325 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
30950365 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
30950406 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
30950430 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:30950389 original size:120 final size:119
Alignment explanation
Indices: 30950167--30950429 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
30950157 TCCTCGTTCA
* * *
30950167 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
30950232 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
30950285 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
30950350 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
30950406 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
30950430 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:30950438 original size:41 final size:41
Alignment explanation
Indices: 30950361--30950438 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
30950351 TTTGTATCTC
* * *
30950361 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
30950402 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
30950439 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:30956784 original size:24 final size:24
Alignment explanation
Indices: 30956757--30956814 Score: 107
Period size: 24 Copynumber: 2.4 Consensus size: 24
30956747 ACCGTAACTC
30956757 CGAACCCGAGACCGACACCGGAGT
1 CGAACCCGAGACCGACACCGGAGT
30956781 CGAACCCGAGACCGACACCGGAGT
1 CGAACCCGAGACCGACACCGGAGT
*
30956805 CGAACACGAG
1 CGAACCCGAG
30956815 GTGTTAACAG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 33 1.00
ACGTcount: A:0.31, C:0.36, G:0.29, T:0.03
Consensus pattern (24 bp):
CGAACCCGAGACCGACACCGGAGT
Found at i:30958228 original size:79 final size:78
Alignment explanation
Indices: 30958126--30958348 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
30958116 GCTCCTCGTT
* *
30958126 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
30958191 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
30958206 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
30958270 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
30958284 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
30958347 GA
63 GA
30958349 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:30958243 original size:39 final size:40
Alignment explanation
Indices: 30958126--30958348 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
30958116 GCTCCTCGTT
* *
30958126 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
30958166 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
30958206 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
30958245 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
30958284 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
30958325 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30958349 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:30965653 original size:3 final size:3
Alignment explanation
Indices: 30965645--30965687 Score: 77
Period size: 3 Copynumber: 14.0 Consensus size: 3
30965635 AATTGTGTTA
30965645 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT ATAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT
30965688 GTGTTAAACA
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:30967582 original size:26 final size:26
Alignment explanation
Indices: 30967553--30967631 Score: 80
Period size: 26 Copynumber: 3.3 Consensus size: 26
30967543 TATATTAAGA
30967553 AAATTATAAAATTTTACTATCAGGGT
1 AAATTATAAAATTTTACTATCAGGGT
* * * *
30967579 AAATTAT----TTATA-TATTA-AGA
1 AAATTATAAAATTTTACTATCAGGGT
30967599 AAATTATAAAATTTTACTATCAGGGT
1 AAATTATAAAATTTTACTATCAGGGT
30967625 AAATTAT
1 AAATTAT
30967632 TTATATATTA
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
20 8 0.21
21 4 0.10
22 4 0.10
24 4 0.10
25 4 0.10
26 15 0.38
ACGTcount: A:0.46, C:0.05, G:0.09, T:0.41
Consensus pattern (26 bp):
AAATTATAAAATTTTACTATCAGGGT
Found at i:30967586 original size:46 final size:46
Alignment explanation
Indices: 30967536--30967659 Score: 239
Period size: 46 Copynumber: 2.7 Consensus size: 46
30967526 GTAGGATAAC
30967536 TTATTTATATATTAAGAAAATTATAAAATTTTACTATCAGGGTAAA
1 TTATTTATATATTAAGAAAATTATAAAATTTTACTATCAGGGTAAA
30967582 TTATTTATATATTAAGAAAATTATAAAATTTTACTATCAGGGTAAA
1 TTATTTATATATTAAGAAAATTATAAAATTTTACTATCAGGGTAAA
*
30967628 TTATTTATATATTAAGAAAATTATAAACTTTT
1 TTATTTATATATTAAGAAAATTATAAAATTTT
30967660 GAAATTTTGA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (46 bp):
TTATTTATATATTAAGAAAATTATAAAATTTTACTATCAGGGTAAA
Found at i:30967602 original size:20 final size:20
Alignment explanation
Indices: 30967579--30967651 Score: 56
Period size: 20 Copynumber: 3.4 Consensus size: 20
30967569 CTATCAGGGT
30967579 AAATTATTTATATATTAAGA
1 AAATTATTTATATATTAAGA
* * * *
30967599 AAATTATAAAATTTTACTATCAGGGT
1 AAATTAT----TTATA-TATTA-AGA
30967625 AAATTATTTATATATTAAGA
1 AAATTATTTATATATTAAGA
30967645 AAATTAT
1 AAATTAT
30967652 AAACTTTTGA
Statistics
Matches: 39, Mismatches: 8, Indels: 12
0.66 0.14 0.20
Matches are distributed among these distances:
20 15 0.38
21 4 0.10
22 4 0.10
24 4 0.10
25 4 0.10
26 8 0.21
ACGTcount: A:0.48, C:0.03, G:0.07, T:0.42
Consensus pattern (20 bp):
AAATTATTTATATATTAAGA
Found at i:30967828 original size:64 final size:64
Alignment explanation
Indices: 30967751--30967881 Score: 226
Period size: 64 Copynumber: 2.0 Consensus size: 64
30967741 GTTCCTATTC
* *
30967751 TAAATTAAGTGATTAAAAATTTATTTTATATTAATATTTCTATATTTCTCCTAAATTTTATTGT
1 TAAATTAAATGATTAAAAATTCATTTTATATTAATATTTCTATATTTCTCCTAAATTTTATTGT
* *
30967815 TAAATTAAATGATTAAAACTTCATTTTATATTAATATTTCTATGTTTCTCCTAAATTTTATTGT
1 TAAATTAAATGATTAAAAATTCATTTTATATTAATATTTCTATATTTCTCCTAAATTTTATTGT
30967879 TAA
1 TAA
30967882 GACAATTTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.36, C:0.08, G:0.05, T:0.52
Consensus pattern (64 bp):
TAAATTAAATGATTAAAAATTCATTTTATATTAATATTTCTATATTTCTCCTAAATTTTATTGT
Found at i:30967873 original size:32 final size:32
Alignment explanation
Indices: 30967773--30967875 Score: 84
Period size: 32 Copynumber: 3.2 Consensus size: 32
30967763 TTAAAAATTT
*
30967773 ATTTTATATTAATATTTCTATATTTCTCCTAA
1 ATTTTATATTAATATTTCTATGTTTCTCCTAA
* ** **** **
30967805 ATTTTATTGTTAA-A-TTAAATGATTAAAACTTC
1 ATTTTA-TATTAATATTTCTATG-TTTCTCCTAA
30967837 ATTTTATATTAATATTTCTATGTTTCTCCTAA
1 ATTTTATATTAATATTTCTATGTTTCTCCTAA
30967869 ATTTTAT
1 ATTTTAT
30967876 TGTTAAGACA
Statistics
Matches: 48, Mismatches: 19, Indels: 8
0.64 0.25 0.11
Matches are distributed among these distances:
31 9 0.19
32 29 0.60
33 10 0.21
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.54
Consensus pattern (32 bp):
ATTTTATATTAATATTTCTATGTTTCTCCTAA
Found at i:30971518 original size:11 final size:11
Alignment explanation
Indices: 30971502--30971526 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30971492 GAATCCACTT
30971502 TTATCATTAAA
1 TTATCATTAAA
30971513 TTATCATTAAA
1 TTATCATTAAA
30971524 TTA
1 TTA
30971527 CTTATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (11 bp):
TTATCATTAAA
Found at i:30974482 original size:41 final size:41
Alignment explanation
Indices: 30974437--30974569 Score: 221
Period size: 41 Copynumber: 3.2 Consensus size: 41
30974427 GAACACCGGT
* * *
30974437 ATTAAGCCTACTAGATGTAAAGTCTGAAATATTTCACTGGC
1 ATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGGC
*
30974478 ATTAAGCCTGCTAGACGTAAAGTTTGAATTATTTCACTGGC
1 ATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGGC
*
30974519 ATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACTAGC
1 ATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGGC
30974560 ATTAAGCCTG
1 ATTAAGCCTG
30974570 AATTATTTCA
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 86 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (41 bp):
ATTAAGCCTGCTAGACGTAAAGTCTGAATTATTTCACTGGC
Found at i:30974570 original size:25 final size:25
Alignment explanation
Indices: 30974542--30974594 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
30974532 GACGTAAAGT
30974542 CTGAATTATTTCACTAGCATTAAGC
1 CTGAATTATTTCACTAGCATTAAGC
* *
30974567 CTGAATTATTTCACTGGCGTTAAGC
1 CTGAATTATTTCACTAGCATTAAGC
30974592 CTG
1 CTG
30974595 CTAAGTACAG
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:0.26, C:0.21, G:0.17, T:0.36
Consensus pattern (25 bp):
CTGAATTATTTCACTAGCATTAAGC
Found at i:30974793 original size:61 final size:61
Alignment explanation
Indices: 30974710--30974840 Score: 156
Period size: 61 Copynumber: 2.1 Consensus size: 61
30974700 ACATGAAAAA
* * * * *
30974710 ATATATATAATTCATAACATTAAGTTTAGCTCAAAGAACTTGTATA-TTACATTCGAACCTC
1 ATATATATAATTCAAAACATTAAATTCAGCTCAAAGAACTTGTA-ACCTACATTCGAACCAC
* * * * *
30974771 ATATGTATAGTTCAAAACATTAAATTCAGCTCAATGAATTTGTAACCTATATTCGAACCAC
1 ATATATATAATTCAAAACATTAAATTCAGCTCAAAGAACTTGTAACCTACATTCGAACCAC
30974832 ATATATATA
1 ATATATATA
30974841 TAAATGTATA
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
60 1 0.02
61 57 0.98
ACGTcount: A:0.40, C:0.16, G:0.08, T:0.35
Consensus pattern (61 bp):
ATATATATAATTCAAAACATTAAATTCAGCTCAAAGAACTTGTAACCTACATTCGAACCAC
Found at i:30977190 original size:37 final size:37
Alignment explanation
Indices: 30977140--30977218 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
30977130 TTATTACGAA
* * *
30977140 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
30977177 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
30977214 GTCTT
1 GTCTT
30977219 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:30977415 original size:47 final size:47
Alignment explanation
Indices: 30977337--30977747 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
30977327 CCCTTCGGGA
* * * * * *
30977337 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
30977384 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30977431 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30977478 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30977525 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30977572 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30977619 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30977666 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
30977713 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
30977748 AGAATCCTAA
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:30988216 original size:25 final size:25
Alignment explanation
Indices: 30988165--30988218 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
30988155 TGAACCTTTG
*
30988165 ACCTCCTTACCACACCTGTGATGCC
1 ACCTCCTTACCACACCTGTGATACC
*
30988190 ACCTCCTTGCCACACCTGTG-TCACC
1 ACCTCCTTACCACACCTGTGAT-ACC
30988215 ACCT
1 ACCT
30988219 TGCCAGTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.19, C:0.46, G:0.11, T:0.24
Consensus pattern (25 bp):
ACCTCCTTACCACACCTGTGATACC
Found at i:30999618 original size:18 final size:17
Alignment explanation
Indices: 30999592--30999640 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
30999582 TAAGAAAAAA
*
30999592 AATGTTTTGAAATTGAAT
1 AATGATTTGAAA-TGAAT
30999610 AATGATTTGTAAATGAAT
1 AATGATTTG-AAATGAAT
*
30999628 AATAATTTAGAAA
1 AATGATTT-GAAA
30999641 CGAACGATAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 23 0.85
19 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.39
Consensus pattern (17 bp):
AATGATTTGAAATGAAT
Found at i:31006243 original size:18 final size:19
Alignment explanation
Indices: 31006222--31006272 Score: 52
Period size: 18 Copynumber: 2.7 Consensus size: 19
31006212 TTTTGAAATT
31006222 GAATAACGATTTGT-AAAC
1 GAATAACGATTTGTGAAAC
* *
31006240 GAATAATG-TTTTTGAAAC
1 GAATAACGATTTGTGAAAC
31006258 GAATGACACGATTTG
1 GAAT-A-ACGATTTG
31006273 AAATTAACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 5
0.74 0.12 0.15
Matches are distributed among these distances:
17 4 0.16
18 15 0.60
19 1 0.04
20 2 0.08
21 3 0.12
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.31
Consensus pattern (19 bp):
GAATAACGATTTGTGAAAC
Found at i:31007394 original size:14 final size:14
Alignment explanation
Indices: 31007375--31007402 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
31007365 TAAATTTATA
31007375 TTTAATATTTCATT
1 TTTAATATTTCATT
31007389 TTTAATATTTCATT
1 TTTAATATTTCATT
31007403 AATAAATTGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTAATATTTCATT
Found at i:31007874 original size:19 final size:19
Alignment explanation
Indices: 31007852--31007889 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
31007842 TCAATCATCC
31007852 CTCATCCCATCA-TCTCTCA
1 CTCAT-CCATCATTCTCTCA
*
31007871 CTCATTCATCATTCTCTCA
1 CTCATCCATCATTCTCTCA
31007890 ACTCTTTTAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.21, C:0.42, G:0.00, T:0.37
Consensus pattern (19 bp):
CTCATCCATCATTCTCTCA
Found at i:31009548 original size:15 final size:17
Alignment explanation
Indices: 31009511--31009550 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
31009501 ACTAAAAAAA
31009511 ATTT-AAAATAATATTT
1 ATTTAAAAATAATATTT
31009527 ATATTAAAAATAA-A-TT
1 AT-TTAAAAATAATATTT
31009543 ATTTAAAA
1 ATTTAAAA
31009551 TTATTTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.27
16 6 0.27
17 3 0.14
18 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
ATTTAAAAATAATATTT
Found at i:31010554 original size:117 final size:113
Alignment explanation
Indices: 31010416--31010734 Score: 369
Period size: 117 Copynumber: 2.8 Consensus size: 113
31010406 ATGTTCATAT
* * *
31010416 CTTAAATACAAAAAACC-GATATAAGATACTTCAAAAACATTAATAAAACAAATTAAGCATACCT
1 CTTAAATACAAAAAACCTGATATAAGATACATCAAAAACATTAATAAAACAAACTAATCATACCT
*
31010480 TTAATACAAACTTAAACCTAATAAAACACAGCCA-AAAAAAATGTCCTTCCC
66 TTAATACAAACTTAAACCTAATAAAACACA---ATAAAAAAAT-TCATTCCC
* *
31010531 CTTAAATACAAAAAAACCTGATATAAGATACCA-CAAAAACATTAACAAAACAAACTAATCATGC
1 CTTAAATAC-AAAAAACCTGATATAAGATA-CATCAAAAACATTAATAAAACAAACTAATCATAC
* * * ***
31010595 CGTTAATACAAACTTAAAGCTAATAAAACACAATAAAAAAATTTATTTGT
64 CTTTAATACAAACTTAAACCTAATAAAACACAATAAAAAAATTCATTCCC
* * * * * *
31010645 CTTAAATACATAAAA-CTGATATACGGTATCAT-AAAAACAATAATAAAACAAACAAATCATACT
1 CTTAAATACAAAAAACCTGATATAAGATA-CATCAAAAACATTAATAAAACAAACTAATCATACC
*
31010708 TTTAATACAAACTTAAACTTAATAAAA
65 TTTAATACAAACTTAAACCTAATAAAA
31010735 TACACACACA
Statistics
Matches: 175, Mismatches: 24, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
112 63 0.36
113 5 0.03
114 13 0.07
115 17 0.10
116 8 0.05
117 68 0.39
118 1 0.01
ACGTcount: A:0.54, C:0.18, G:0.04, T:0.24
Consensus pattern (113 bp):
CTTAAATACAAAAAACCTGATATAAGATACATCAAAAACATTAATAAAACAAACTAATCATACCT
TTAATACAAACTTAAACCTAATAAAACACAATAAAAAAATTCATTCCC
Found at i:31015096 original size:36 final size:36
Alignment explanation
Indices: 31015056--31015126 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
31015046 TTAGCTCCAG
31015056 TTCTTCCAAAAATGGATGCAATGGCATATGTGTCAA
1 TTCTTCCAAAAATGGATGCAATGGCATATGTGTCAA
* *
31015092 TTCTTCTAGAAATGGATGCAATGGCATATGTGTCA
1 TTCTTCCAAAAATGGATGCAATGGCATATGTGTCA
31015127 GGTTGGTGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.32
Consensus pattern (36 bp):
TTCTTCCAAAAATGGATGCAATGGCATATGTGTCAA
Found at i:31019537 original size:16 final size:16
Alignment explanation
Indices: 31019485--31019524 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
31019475 TTTTTATTTT
* *
31019485 TATTAAAAAATTATTA
1 TATTAAATAATAATTA
31019501 TATTAAATAATAATTA
1 TATTAAATAATAATTA
31019517 TATTAAAT
1 TATTAAAT
31019525 TATGATTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TATTAAATAATAATTA
Found at i:31020779 original size:22 final size:21
Alignment explanation
Indices: 31020726--31020781 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
31020716 AACAAAGTTT
31020726 AAAAATAAAATA-AAATTCTA
1 AAAAATAAAATATAAATTCTA
* *
31020746 AAATATATAAATATAAATTTTA
1 AAAAATA-AAATATAAATTCTA
31020768 AAAAATCAAAATAT
1 AAAAAT-AAAATAT
31020782 TATATAAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
20 6 0.20
21 5 0.17
22 18 0.60
23 1 0.03
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAATAAAATATAAATTCTA
Found at i:31028390 original size:17 final size:17
Alignment explanation
Indices: 31028368--31028407 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 17
31028358 AATCAACCTT
31028368 CACCTCCGGCACCAATC
1 CACCTCCGGCACCAATC
*
31028385 CACCT-C--CACCGATC
1 CACCTCCGGCACCAATC
31028399 CACCTCCGG
1 CACCTCCGG
31028408 TCCTTCACGA
Statistics
Matches: 19, Mismatches: 1, Indels: 6
0.73 0.04 0.23
Matches are distributed among these distances:
14 12 0.63
15 1 0.05
16 1 0.05
17 5 0.26
ACGTcount: A:0.20, C:0.55, G:0.12, T:0.12
Consensus pattern (17 bp):
CACCTCCGGCACCAATC
Found at i:31030431 original size:91 final size:91
Alignment explanation
Indices: 31030284--31030491 Score: 335
Period size: 91 Copynumber: 2.3 Consensus size: 91
31030274 TTGATTTTAG
* *
31030284 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTAT
* * *
31030349 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
*
31030376 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
31030441 TGTAATAATAATTATTTTAAATTATA
66 TGTAATAATAATTATTTTAAATTATA
* *
31030467 CAAATTCATATAAGATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
31030492 GTTATAATTA
Statistics
Matches: 108, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
91 92 0.85
92 16 0.15
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATCATTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:31030460 original size:26 final size:28
Alignment explanation
Indices: 31030406--31030466 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
31030396 TATTATCAAG
* *
31030406 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
31030434 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
31030460 AATTATA
1 AATTATA
31030467 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:31030466 original size:44 final size:43
Alignment explanation
Indices: 31030324--31030466 Score: 121
Period size: 44 Copynumber: 3.2 Consensus size: 43
31030314 GAATTTTATG
* *
31030324 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTT
1 AAATTATATATTATTATTAAATTATA-TTAATAATAATTATTTT
* ** * *
31030368 AAATTGTATAAATTCATATAAGAAAATT-TATT-ATCAAGAATT-TTATG
1 AAA-T-TATATATT-AT-T-ATTAAATTATATTAAT-AATAATTATT-TT
31030415 AAATTATATATTATTATTAAATTATATGTAATAATAATTATTTT
1 AAATTATATATTATTATTAAATTATAT-TAATAATAATTATTTT
31030459 AAATTATA
1 AAATTATA
31030467 CAAATTCATA
Statistics
Matches: 76, Mismatches: 12, Indels: 22
0.69 0.11 0.20
Matches are distributed among these distances:
42 6 0.08
43 4 0.05
44 21 0.28
45 12 0.16
46 11 0.14
47 13 0.17
48 3 0.04
49 6 0.08
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (43 bp):
AAATTATATATTATTATTAAATTATATTAATAATAATTATTTT
Found at i:31030533 original size:17 final size:17
Alignment explanation
Indices: 31030508--31030541 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
31030498 ATTATTTTAA
*
31030508 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
31030525 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
31030542 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:31030543 original size:15 final size:16
Alignment explanation
Indices: 31030508--31030546 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
31030498 ATTATTTTAA
*
31030508 ATTTTATTAAATCATAT
1 ATTTAATTAAATCA-AT
31030525 ATTTAATTAAATC-AT
1 ATTTAATTAAATCAAT
31030540 ATTTAAT
1 ATTTAAT
31030547 ATTAATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.43
17 12 0.57
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (16 bp):
ATTTAATTAAATCAAT
Found at i:31030550 original size:17 final size:18
Alignment explanation
Indices: 31030512--31030551 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
31030502 TTTTAAATTT
*
31030512 TATTAAATCATATATTTA
1 TATTAAATCATATATTAA
31030530 -ATTAAATCATAT-TTAA
1 TATTAAATCATATATTAA
31030546 TATTAA
1 TATTAA
31030552 TTATTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.47
Consensus pattern (18 bp):
TATTAAATCATATATTAA
Found at i:31030655 original size:18 final size:17
Alignment explanation
Indices: 31030627--31030661 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31030617 ATTCTTAAGA
*
31030627 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
31030644 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
31030662 TTAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:31030775 original size:18 final size:17
Alignment explanation
Indices: 31030747--31030781 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31030737 ATTATTAAGA
*
31030747 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
31030764 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
31030782 TTAATAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:31030781 original size:16 final size:16
Alignment explanation
Indices: 31030747--31030792 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
31030737 ATTATTAAGA
31030747 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
31030764 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
31030780 A-TTTAATAAAAAT
1 ATTTTAATTAAAAT
31030793 TATGCTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 11 0.41
16 5 0.19
17 5 0.19
18 6 0.22
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:31030795 original size:120 final size:120
Alignment explanation
Indices: 31030507--31030787 Score: 494
Period size: 120 Copynumber: 2.4 Consensus size: 120
31030497 AATTATTTTA
* * *
31030507 AATTTTATTAAATCATATA-TTTAATT-AAATCATATTTAATATTAATTATTTGAAATTTTCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAAT-ATATTTAATATTAATTATTTCAAATTATCTTT
*
31030570 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTCTTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
31030626 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
*
31030691 ATGGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
31030746 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATA
31030788 AAAATTATGC
Statistics
Matches: 155, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
119 18 0.12
120 133 0.86
121 4 0.03
ACGTcount: A:0.42, C:0.04, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATCTTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:31031051 original size:17 final size:16
Alignment explanation
Indices: 31031017--31031069 Score: 97
Period size: 16 Copynumber: 3.2 Consensus size: 16
31031007 GATTTGCTAT
31031017 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
31031033 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
31031050 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
31031066 TACA
1 TACA
31031070 GCGAACCAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
16 20 0.56
17 16 0.44
ACGTcount: A:0.38, C:0.38, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:31037321 original size:16 final size:15
Alignment explanation
Indices: 31037300--31037343 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
31037290 TAATCACATT
31037300 AATATTAAATTAATAA
1 AATATTAAATTAAT-A
*
31037316 AATATTATA-TAGATA
1 AATATTAAATTA-ATA
31037331 AATATTAAATTAA
1 AATATTAAATTAA
31037344 ATTTAATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (15 bp):
AATATTAAATTAATA
Found at i:31037769 original size:20 final size:19
Alignment explanation
Indices: 31037741--31037788 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
31037731 GTTTTCAGTC
*
31037741 TCAAGTTTTGATTCTCGGGT
1 TCAATTTTTGATT-TCGGGT
* *
31037761 TCAATTTTTTATTTTGGGT
1 TCAATTTTTGATTTCGGGT
*
31037780 CCAATTTTT
1 TCAATTTTT
31037789 AAGTTCAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.17, C:0.12, G:0.17, T:0.54
Consensus pattern (19 bp):
TCAATTTTTGATTTCGGGT
Found at i:31040648 original size:19 final size:20
Alignment explanation
Indices: 31040604--31040652 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
31040594 GTATCATTAG
*
31040604 AAATTTTGGTATTTGGTTAC
1 AAATTTTGGTATCTGGTTAC
31040624 AAATTTTGGTATCT-GTTA-
1 AAATTTTGGTATCTGGTTAC
31040642 AAGATTTTGGT
1 AA-ATTTTGGT
31040653 TACGTTATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 2 0.07
19 12 0.44
20 13 0.48
ACGTcount: A:0.27, C:0.04, G:0.20, T:0.49
Consensus pattern (20 bp):
AAATTTTGGTATCTGGTTAC
Found at i:31040667 original size:19 final size:19
Alignment explanation
Indices: 31040604--31040672 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
31040594 GTATCATTAG
* *
31040604 AAATTTTGGTATTTGGTTAC
1 AAATTTTGGTATCT-GTTAA
31040624 AAATTTTGGTATCTGTTAA
1 AAATTTTGGTATCTGTTAA
*
31040643 AGATTTTGGT-TAC-GTTATA
1 AAATTTTGGTAT-CTGTTA-A
31040662 AAA-TTTGGTAT
1 AAATTTTGGTAT
31040673 ATCAAAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
18 11 0.26
19 18 0.43
20 13 0.31
ACGTcount: A:0.29, C:0.04, G:0.19, T:0.48
Consensus pattern (19 bp):
AAATTTTGGTATCTGTTAA
Found at i:31049193 original size:11 final size:10
Alignment explanation
Indices: 31049179--31049225 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
31049169 TATTTAAAAA
*
31049179 TTAAAAATATG
1 TTAAAAAT-TT
31049190 TT-AAAATTT
1 TTAAAAATTT
31049199 TTAAAAATTT
1 TTAAAAATTT
* *
31049209 TAAAAAAATT
1 TTAAAAATTT
31049219 TTAAAAA
1 TTAAAAA
31049226 ATAGAAATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
9 3 0.10
10 26 0.84
11 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (10 bp):
TTAAAAATTT
Found at i:31049204 original size:9 final size:9
Alignment explanation
Indices: 31049135--31049225 Score: 62
Period size: 9 Copynumber: 9.7 Consensus size: 9
31049125 AAAAAAACCC
31049135 TAAAAATCTT
1 TAAAAAT-TT
*
31049145 TAAAAA-TA
1 TAAAAATTT
*
31049153 TAAAAATTA
1 TAAAAATTT
*
31049162 CAAAAACTATT
1 TAAAAA-T-TT
31049173 TAAAAA--T
1 TAAAAATTT
31049180 TAAAAATATGT
1 TAAAAAT-T-T
*
31049191 TAAAATTTT
1 TAAAAATTT
31049200 TAAAAATTT
1 TAAAAATTT
31049209 TAAAAAAATTT
1 T--AAAAATTT
31049220 TAAAAA
1 TAAAAA
31049226 ATAGAAATTG
Statistics
Matches: 66, Mismatches: 6, Indels: 19
0.73 0.07 0.21
Matches are distributed among these distances:
7 7 0.11
8 7 0.11
9 22 0.33
10 8 0.12
11 22 0.33
ACGTcount: A:0.60, C:0.03, G:0.01, T:0.35
Consensus pattern (9 bp):
TAAAAATTT
Found at i:31049214 original size:10 final size:10
Alignment explanation
Indices: 31049192--31049227 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
31049182 AAAATATGTT
*
31049192 AAAATTTTTA
1 AAAATTTTAA
31049202 AAAATTTTAAA
1 AAAATTTT-AA
31049213 AAAATTTTAA
1 AAAATTTTAA
31049223 AAAAT
1 AAAAT
31049228 AGAAATTGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
10 15 0.62
11 9 0.38
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:31049214 original size:47 final size:46
Alignment explanation
Indices: 31049153--31049261 Score: 114
Period size: 47 Copynumber: 2.3 Consensus size: 46
31049143 TTTAAAAATA
* * * *
31049153 TAAAAATTA-CAAAAACTATTTAAAAATTAAAAATATGTTAAAAT-TTT
1 TAAAAATTATAAAAAAAT-TTTAAAAAATAAAAAT-TG-TAAAATATTG
* *
31049200 TAAAAATTTTAAAAAAATTTTAAAAAATAGAAATTGTAAAATATTG
1 TAAAAATTATAAAAAAATTTTAAAAAATAAAAATTGTAAAATATTG
31049246 TAAGAAATTATAAAAA
1 TAA-AAATTATAAAAA
31049262 TGATTAGAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
45 6 0.12
46 7 0.13
47 33 0.63
48 6 0.12
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.34
Consensus pattern (46 bp):
TAAAAATTATAAAAAAATTTTAAAAAATAAAAATTGTAAAATATTG
Done.