Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 14 of 135
Found at i:6248978 original size:13 final size:13
Alignment explanation
Indices: 6248932--6248979 Score: 51
Period size: 13 Copynumber: 3.6 Consensus size: 13
6248922 GTTGCAAAAG
6248932 ACAATTTTACTCT
1 ACAATTTTACTCT
* * *
6248945 TCAATTATACCCT
1 ACAATTTTACTCT
*
6248958 CCCAATTTTACTCT
1 -ACAATTTTACTCT
6248972 ACAATTTT
1 ACAATTTT
6248980 TTTTTTTTTC
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
13 17 0.63
14 10 0.37
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.44
Consensus pattern (13 bp):
ACAATTTTACTCT
Found at i:6250456 original size:22 final size:22
Alignment explanation
Indices: 6250405--6250484 Score: 97
Period size: 23 Copynumber: 3.5 Consensus size: 22
6250395 GCTGGGGAAA
*
6250405 CAGTAAGCACACACAGTGCAAT
1 CAGTAGGCACACACAGTGCAAT
*
6250427 CCAGTAGGCACACACAATGCAAT
1 -CAGTAGGCACACACAGTGCAAT
* * *
6250450 CAGTAGGCGCACATAGCGCAAAT
1 CAGTAGGCACACACAGTGC-AAT
6250473 CAGTAGGCACAC
1 CAGTAGGCACAC
6250485 GATGTGCGAA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
22 15 0.31
23 34 0.69
ACGTcount: A:0.38, C:0.29, G:0.21, T:0.12
Consensus pattern (22 bp):
CAGTAGGCACACACAGTGCAAT
Found at i:6250509 original size:23 final size:23
Alignment explanation
Indices: 6250473--6250549 Score: 109
Period size: 23 Copynumber: 3.3 Consensus size: 23
6250463 TAGCGCAAAT
* *
6250473 CAGTAGGCACACGATGTGCGAAA
1 CAGTAAGCACACGAAGTGCGAAA
*
6250496 CAATAAGCACACGAAGTGCGAAA
1 CAGTAAGCACACGAAGTGCGAAA
* *
6250519 CAGTAAGCACACAAAGTGCAAAA
1 CAGTAAGCACACGAAGTGCGAAA
6250542 CAGTAAGC
1 CAGTAAGC
6250550 GCACTAGCGT
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.10
Consensus pattern (23 bp):
CAGTAAGCACACGAAGTGCGAAA
Found at i:6252913 original size:2 final size:2
Alignment explanation
Indices: 6252906--6252933 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6252896 ATTGCCATTA
6252906 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6252934 TAAGTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6254151 original size:154 final size:154
Alignment explanation
Indices: 6253871--6254179 Score: 591
Period size: 154 Copynumber: 2.0 Consensus size: 154
6253861 GCTGAGATTT
6253871 ATGCTTGTTGCATTTTCTCGTCAGCTTAGTGTGAGCAGCATCATAGGGAACAGATTTACCGTACC
1 ATGCTTGTTGCATTTTCTCGTCAGCTTAGTGTGAGCAGCATCATAGGGAACAGATTTACCGTACC
*
6253936 GATGATTAAGAATAACATCGTATACTGGTAATAGACATGACCTCTGGGTCAATAAGGAGTAAATG
66 GATGATTAAGAATAACATCGTATACTGGTAACAGACATGACCTCTGGGTCAATAAGGAGTAAATG
6254001 AGCATCATGCCCTTTGTGTCAACA
131 AGCATCATGCCCTTTGTGTCAACA
*
6254025 ATGCTTGTTGCATTTTCTCGTCAGCTTAGTGTGAGCAGCATCGTAGGGAACAGATTTACCGTACC
1 ATGCTTGTTGCATTTTCTCGTCAGCTTAGTGTGAGCAGCATCATAGGGAACAGATTTACCGTACC
*
6254090 GATGGTTAAGAATAACATCGTATACTGGTAACAGACATGACCTCTGGGTCAATAAGGAGTAAATG
66 GATGATTAAGAATAACATCGTATACTGGTAACAGACATGACCTCTGGGTCAATAAGGAGTAAATG
6254155 AGCATCATGCCCTTTGTGTCAACA
131 AGCATCATGCCCTTTGTGTCAACA
6254179 A
1 A
6254180 GGAGTAAAAT
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
154 152 1.00
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (154 bp):
ATGCTTGTTGCATTTTCTCGTCAGCTTAGTGTGAGCAGCATCATAGGGAACAGATTTACCGTACC
GATGATTAAGAATAACATCGTATACTGGTAACAGACATGACCTCTGGGTCAATAAGGAGTAAATG
AGCATCATGCCCTTTGTGTCAACA
Found at i:6254871 original size:21 final size:21
Alignment explanation
Indices: 6254847--6254906 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 21
6254837 TAGATGCATG
6254847 ACTTGTATCGGTAGAAATTGC
1 ACTTGTATCGGTAGAAATTGC
* *
6254868 ACTTGTATCGGTAGGACTTGC
1 ACTTGTATCGGTAGAAATTGC
** *
6254889 ACAAGTATCGATAGAAAT
1 ACTTGTATCGGTAGAAAT
6254907 CTGTACAGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (21 bp):
ACTTGTATCGGTAGAAATTGC
Found at i:6255666 original size:25 final size:25
Alignment explanation
Indices: 6255580--6255658 Score: 142
Period size: 25 Copynumber: 3.2 Consensus size: 25
6255570 TGAAGTACTT
*
6255580 AACAGAAGCGCATAAGTGCTGGGGA
1 AACAGAAGCACATAAGTGCTGGGGA
6255605 AACAGAAGCACATAAGTGCTGGGGA
1 AACAGAAGCACATAAGTGCTGGGGA
6255630 AACAGAAGCACATAAGTGCT-GGGA
1 AACAGAAGCACATAAGTGCTGGGGA
6255654 AACAG
1 AACAG
6255659 TAGGCACACA
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
24 9 0.17
25 44 0.83
ACGTcount: A:0.41, C:0.16, G:0.32, T:0.11
Consensus pattern (25 bp):
AACAGAAGCACATAAGTGCTGGGGA
Found at i:6255688 original size:22 final size:23
Alignment explanation
Indices: 6255654--6255708 Score: 67
Period size: 22 Copynumber: 2.4 Consensus size: 23
6255644 AGTGCTGGGA
*
6255654 AACAGTAGGCACACACAATGCTG
1 AACAGTAAGCACACACAATGCTG
* *
6255677 AACAG-AAGCACACGCAGTGCTG
1 AACAGTAAGCACACACAATGCTG
*
6255699 ATCAGTAAGC
1 AACAGTAAGC
6255709 GCGCTAATGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.38, C:0.25, G:0.24, T:0.13
Consensus pattern (23 bp):
AACAGTAAGCACACACAATGCTG
Found at i:6255809 original size:24 final size:26
Alignment explanation
Indices: 6255771--6255818 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
6255761 TCTACATGGG
6255771 CATAATCTCTCATAT-TCATCATTTCT
1 CATAATCTCTCATATATCA-CATTTCT
6255797 CATAAT-T-TCATATATCACATTT
1 CATAATCTCTCATATATCACATTT
6255819 ACATTTCTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.31, C:0.23, G:0.00, T:0.46
Consensus pattern (26 bp):
CATAATCTCTCATATATCACATTTCT
Found at i:6265561 original size:20 final size:20
Alignment explanation
Indices: 6265536--6265584 Score: 91
Period size: 19 Copynumber: 2.5 Consensus size: 20
6265526 CAAATGATTT
6265536 TAAAATTATTTTTTAAAATA
1 TAAAATTATTTTTTAAAATA
6265556 TAAAATTA-TTTTTAAAATA
1 TAAAATTATTTTTTAAAATA
6265575 TAAAATTATT
1 TAAAATTATT
6265585 AAAATTATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 19 0.68
20 9 0.32
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAAATTATTTTTTAAAATA
Found at i:6265589 original size:28 final size:25
Alignment explanation
Indices: 6265549--6265601 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 25
6265539 AATTATTTTT
6265549 TAAAATATAAAATTATTTTTAAAATA
1 TAAAATATAAAATTA-TTTTAAAATA
6265575 TAAAATTATTAAAATTATTTTAAAATA
1 TAAAA-TA-TAAAATTATTTTAAAATA
6265602 GTTTTTCTGG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 5 0.20
27 12 0.48
28 8 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
TAAAATATAAAATTATTTTAAAATA
Found at i:6268758 original size:32 final size:32
Alignment explanation
Indices: 6268707--6268791 Score: 111
Period size: 31 Copynumber: 2.7 Consensus size: 32
6268697 AGTTTTTGAA
*
6268707 AGAGTAAATTTTTGA-GGAAAAGTAAATAAGG
1 AGAGTAAAATTTTGAGGGAAAAGTAAATAAGG
*
6268738 AGAGTAAAATTTTGAGGG-AAAGTAAATAGGG
1 AGAGTAAAATTTTGAGGGAAAAGTAAATAAGG
* *
6268769 GGTGTAAAATTTTGGAGGGAAAA
1 AGAGTAAAATTTT-GAGGGAAAA
6268792 TATTAAAAAA
Statistics
Matches: 47, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
31 37 0.79
32 7 0.15
33 3 0.06
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.25
Consensus pattern (32 bp):
AGAGTAAAATTTTGAGGGAAAAGTAAATAAGG
Found at i:6269879 original size:19 final size:18
Alignment explanation
Indices: 6269857--6269920 Score: 60
Period size: 19 Copynumber: 3.4 Consensus size: 18
6269847 TTAAACAAAT
6269857 TTATAAAATCGTAAGAAAA
1 TTATAAAATCGTAA-AAAA
6269876 TTATAAAAAAT-GTAAAGAAA
1 TTAT--AAAATCGTAAA-AAA
*
6269896 -TATAAAATTCGTTAAAAA
1 TTATAAAA-TCGTAAAAAA
6269914 TTATAAA
1 TTATAAA
6269921 TTATCATATT
Statistics
Matches: 38, Mismatches: 1, Indels: 12
0.75 0.02 0.24
Matches are distributed among these distances:
17 4 0.11
18 4 0.11
19 18 0.47
20 7 0.18
21 5 0.13
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (18 bp):
TTATAAAATCGTAAAAAA
Found at i:6269883 original size:38 final size:37
Alignment explanation
Indices: 6269833--6269920 Score: 101
Period size: 38 Copynumber: 2.4 Consensus size: 37
6269823 AAAAATATAG
6269833 AAAAAATT-TAAAAAT-TAAACAAATTTATAAAA-TCGT
1 AAAAAATTATAAAAATGTAAACAAA--TATAAAATTCGT
*
6269869 AAGAAAATTATAAAAAATGTAAAGAAATATAAAATTCGT
1 AA-AAAATTAT-AAAAATGTAAACAAATATAAAATTCGT
*
6269908 TAAAAATTATAAA
1 AAAAAATTATAAA
6269921 TTATCATATT
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
36 2 0.04
37 9 0.20
38 16 0.36
39 11 0.24
40 7 0.16
ACGTcount: A:0.62, C:0.03, G:0.06, T:0.28
Consensus pattern (37 bp):
AAAAAATTATAAAAATGTAAACAAATATAAAATTCGT
Found at i:6270112 original size:15 final size:16
Alignment explanation
Indices: 6270084--6270116 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
6270074 ATTTTGCATT
*
6270084 TTTTATAATTTTTTTA
1 TTTTATAATATTTTTA
6270100 TTTT-TAATATTTTTA
1 TTTTATAATATTTTTA
6270115 TT
1 TT
6270117 AAAATTTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTATAATATTTTTA
Found at i:6270480 original size:99 final size:101
Alignment explanation
Indices: 6270342--6270525 Score: 239
Period size: 99 Copynumber: 1.8 Consensus size: 101
6270332 AATTGTTTTT
* * * * * * *
6270342 TTTTTTTGAAAAAGTATAAGCACATTTTTTTATATATTTTGAAAGTTTAAGTATCCAATTGAATG
1 TTTTTTTGAAAAAATATAAGCACATTTTTTAATACATTTTGAAAGTTCAAATACCCAATTAAATG
* *
6270407 TAAAAA-ATAATTAAAAAAAGTATGGGCTTAATTGC
66 AAAAAAGACAATTAAAAAAAGTATGGGCTTAATTGC
* *
6270442 TTTTTTTGAAAAAATTTGAAG-AC-TTTTTTAATGCATTTTGAAAGTTCAAATACCCAATTAAAT
1 TTTTTTTGAAAAAATAT-AAGCACATTTTTTAATACATTTTGAAAGTTCAAATACCCAATTAAAT
6270505 GAAAAAAGACAATTAAAAAAA
65 GAAAAAAGACAATTAAAAAAA
6270526 ATAGAAATTT
Statistics
Matches: 71, Mismatches: 11, Indels: 4
0.83 0.13 0.05
Matches are distributed among these distances:
99 39 0.55
100 29 0.41
101 3 0.04
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (101 bp):
TTTTTTTGAAAAAATATAAGCACATTTTTTAATACATTTTGAAAGTTCAAATACCCAATTAAATG
AAAAAAGACAATTAAAAAAAGTATGGGCTTAATTGC
Found at i:6275244 original size:13 final size:13
Alignment explanation
Indices: 6275226--6275259 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
6275216 TTTTCATACC
6275226 AAAAAAAAAAAAG
1 AAAAAAAAAAAAG
*
6275239 AAAAAAAAAAGAG
1 AAAAAAAAAAAAG
6275252 AACAAAAA
1 AA-AAAAA
6275260 TTGGCATAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.88, C:0.03, G:0.09, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAG
Found at i:6276056 original size:18 final size:18
Alignment explanation
Indices: 6276033--6276071 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
6276023 TCGGAGTTGG
*
6276033 TTTATTAT-AGTTGAATTA
1 TTTATTATGA-TTAAATTA
6276051 TTTATTATGATTAAATTA
1 TTTATTATGATTAAATTA
6276069 TTT
1 TTT
6276072 TTCTATTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 18 0.95
19 1 0.05
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.59
Consensus pattern (18 bp):
TTTATTATGATTAAATTA
Found at i:6282013 original size:17 final size:18
Alignment explanation
Indices: 6281993--6282026 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
6281983 TTTTATTTTT
6281993 TTAAAAAATTA-ATAAAC
1 TTAAAAAATTATATAAAC
*
6282010 TTAAATAATTATATAAA
1 TTAAAAAATTATATAAA
6282027 ATTCTTATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
TTAAAAAATTATATAAAC
Found at i:6285642 original size:19 final size:19
Alignment explanation
Indices: 6285605--6285653 Score: 84
Period size: 18 Copynumber: 2.7 Consensus size: 19
6285595 GCTACTTTAT
6285605 AAATCATTATTTTAGAAAA
1 AAATCATTATTTTAGAAAA
6285624 AAAT-ATTATTTTAG-AAA
1 AAATCATTATTTTAGAAAA
6285641 AAATCATTATTTT
1 AAATCATTATTTT
6285654 TTAAAAATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
17 7 0.24
18 18 0.62
19 4 0.14
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (19 bp):
AAATCATTATTTTAGAAAA
Found at i:6287159 original size:21 final size:21
Alignment explanation
Indices: 6287135--6287182 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
6287125 TTCAGCCGCC
6287135 GCTTCTGCGGCAGCTGCCTTG
1 GCTTCTGCGGCAGCTGCCTTG
6287156 GCTTCTGCGGCAGCTGCCTTG
1 GCTTCTGCGGCAGCTGCCTTG
6287177 GCTTCT
1 GCTTCT
6287183 TTGCTTTGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.04, C:0.33, G:0.31, T:0.31
Consensus pattern (21 bp):
GCTTCTGCGGCAGCTGCCTTG
Found at i:6292571 original size:44 final size:44
Alignment explanation
Indices: 6292521--6292608 Score: 176
Period size: 44 Copynumber: 2.0 Consensus size: 44
6292511 GAGGCATCCA
6292521 ACCATATGTCTGTAATGAAATCAACTTAAAAAATACAAGGAAAG
1 ACCATATGTCTGTAATGAAATCAACTTAAAAAATACAAGGAAAG
6292565 ACCATATGTCTGTAATGAAATCAACTTAAAAAATACAAGGAAAG
1 ACCATATGTCTGTAATGAAATCAACTTAAAAAATACAAGGAAAG
6292609 TGGACATCTG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.23
Consensus pattern (44 bp):
ACCATATGTCTGTAATGAAATCAACTTAAAAAATACAAGGAAAG
Found at i:6311211 original size:16 final size:17
Alignment explanation
Indices: 6311184--6311215 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
6311174 GACTTGACCC
6311184 AATTTGATTTTAAATTA
1 AATTTGATTTTAAATTA
6311201 AATTT-ATTTTAAATT
1 AATTTGATTTTAAATT
6311216 TAATCATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (17 bp):
AATTTGATTTTAAATTA
Found at i:6317070 original size:188 final size:188
Alignment explanation
Indices: 6316753--6317129 Score: 709
Period size: 188 Copynumber: 2.0 Consensus size: 188
6316743 GAGATTTAAA
*
6316753 TTTGGTAATTGTTTTTATATTAGGGCTTGAATTTTTTTAATCCAATTTAGTTCCTTAACTTGGTG
1 TTTGGTAATTGTTTTTATATTAGAGCTTGAATTTTTTTAATCCAATTTAGTTCCTTAACTTGGTG
* *
6316818 ATTGTTCCCGTATTGAGGTCTAAATCTTTTTAATTCAAGTTAATCCATGATATTTCCTTAACAAA
66 ATTGTTCCCGTATTGACGTCTAAATCTTTTTAATTCAAATTAATCCATGATATTTCCTTAACAAA
*
6316883 AATTAAAACACAAAAATATTCAAACCCTAATTTAAAAACAATTGCTTAACTCAGATCT
131 AATTAAAACACAAAAATATTCAAACCCTAATATAAAAACAATTGCTTAACTCAGATCT
*
6316941 TTTGGTAATTGTTTTTATATTAGAGCTTGAATTTTTTTGATCCAATTTAGTTCCTTAACTTGGTG
1 TTTGGTAATTGTTTTTATATTAGAGCTTGAATTTTTTTAATCCAATTTAGTTCCTTAACTTGGTG
6317006 ATTGTTCCCGTATTGACGTCTAAATCTTTTTAATTCAAATTAATCCATGATATTTCCTTAACAAA
66 ATTGTTCCCGTATTGACGTCTAAATCTTTTTAATTCAAATTAATCCATGATATTTCCTTAACAAA
6317071 AATTAAAACACAAAAATATTCAAACCCTAATATAAAAACAATTGCTTAACTCAGATCT
131 AATTAAAACACAAAAATATTCAAACCCTAATATAAAAACAATTGCTTAACTCAGATCT
6317129 T
1 T
6317130 AATATGTGAA
Statistics
Matches: 184, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
188 184 1.00
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.41
Consensus pattern (188 bp):
TTTGGTAATTGTTTTTATATTAGAGCTTGAATTTTTTTAATCCAATTTAGTTCCTTAACTTGGTG
ATTGTTCCCGTATTGACGTCTAAATCTTTTTAATTCAAATTAATCCATGATATTTCCTTAACAAA
AATTAAAACACAAAAATATTCAAACCCTAATATAAAAACAATTGCTTAACTCAGATCT
Found at i:6319247 original size:17 final size:18
Alignment explanation
Indices: 6319221--6319262 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
6319211 TTTTATTGAA
* *
6319221 ATAATATTTTAATTAA-T
1 ATAATTTTTTAATAAATT
6319238 ATAATTTTTTTAATAAATT
1 ATAA-TTTTTTAATAAATT
6319257 ATAATT
1 ATAATT
6319263 ATTATGGTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
17 4 0.19
18 12 0.57
19 5 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATAATTTTTTAATAAATT
Found at i:6319250 original size:18 final size:19
Alignment explanation
Indices: 6319227--6319262 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
6319217 TGAAATAATA
*
6319227 TTTTAATTAA-TATAATTT
1 TTTTAATAAATTATAATTT
6319245 TTTTAATAAATTATAATT
1 TTTTAATAAATTATAATT
6319263 ATTATGGTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
TTTTAATAAATTATAATTT
Found at i:6330475 original size:21 final size:22
Alignment explanation
Indices: 6330436--6330476 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
6330426 AATTTTAAAA
6330436 ATTTTTGTTACTAAATTTTATG
1 ATTTTTGTTACTAAATTTTATG
* *
6330458 ATTTTT-TTAGTAATTTTTA
1 ATTTTTGTTACTAAATTTTA
6330477 AATTATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.27, C:0.02, G:0.07, T:0.63
Consensus pattern (22 bp):
ATTTTTGTTACTAAATTTTATG
Found at i:6341214 original size:13 final size:14
Alignment explanation
Indices: 6341190--6341218 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
6341180 CTAAAGATAA
6341190 TTTAATTGTATTAT
1 TTTAATTGTATTAT
6341204 TTTAATT-TATTAT
1 TTTAATTGTATTAT
6341217 TT
1 TT
6341219 AATATTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (14 bp):
TTTAATTGTATTAT
Found at i:6341495 original size:7 final size:7
Alignment explanation
Indices: 6341483--6341527 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
6341473 GACTTATATA
6341483 TATAGAT
1 TATAGAT
6341490 TATAGAT
1 TATAGAT
* *
6341497 TATAAAC
1 TATAGAT
6341504 TATAGATGT
1 TATAGA--T
6341513 TATAGAT
1 TATAGAT
6341520 TATAGAT
1 TATAGAT
6341527 T
1 T
6341528 TTCAAATAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
7 26 0.81
9 6 0.19
ACGTcount: A:0.42, C:0.02, G:0.13, T:0.42
Consensus pattern (7 bp):
TATAGAT
Found at i:6344620 original size:28 final size:29
Alignment explanation
Indices: 6344572--6344647 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 29
6344562 TTAAGTTAAT
*
6344572 AAATGATAAAAT-TATACTTT-ATCAC-TCA
1 AAATGATAAAATAT-TAATTTAATC-CTTCA
*
6344600 AAATGATAAAATATTAATTTAATCCTTTA
1 AAATGATAAAATATTAATTTAATCCTTCA
* *
6344629 AAATTATAAAATATAAATT
1 AAATGATAAAATATTAATT
6344648 ATTAAATTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
28 18 0.44
29 23 0.56
ACGTcount: A:0.51, C:0.08, G:0.03, T:0.38
Consensus pattern (29 bp):
AAATGATAAAATATTAATTTAATCCTTCA
Found at i:6344645 original size:7 final size:8
Alignment explanation
Indices: 6344627--6344667 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
6344617 TTTAATCCTT
6344627 TAAAATTA
1 TAAAATTA
6344635 TAAAA-TA
1 TAAAATTA
6344642 T-AAATTA
1 TAAAATTA
*
6344649 TTAAATTAA
1 TAAAATT-A
6344658 TAAAATTA
1 TAAAATTA
6344666 TA
1 TA
6344668 TTTTAACTCC
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
6 3 0.10
7 6 0.21
8 13 0.45
9 7 0.24
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (8 bp):
TAAAATTA
Found at i:6347322 original size:2 final size:2
Alignment explanation
Indices: 6347315--6347340 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
6347305 ATAATTAATA
6347315 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
6347341 TAGCAAAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6350660 original size:20 final size:21
Alignment explanation
Indices: 6350616--6350666 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
6350606 TATATTTGAC
6350616 AATTACTTT-AATAAAATTTT
1 AATTACTTTAAATAAAATTTT
* *
6350636 TATTACTTTAAATGAAA-TTT
1 AATTACTTTAAATAAAATTTT
*
6350656 AATTATTTTAA
1 AATTACTTTAA
6350667 CAAATTTTAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (21 bp):
AATTACTTTAAATAAAATTTT
Found at i:6352957 original size:19 final size:19
Alignment explanation
Indices: 6352913--6352959 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
6352903 AATACATGTG
6352913 AAAAATAATAAAATGAACA
1 AAAAATAATAAAATGAACA
* * *
6352932 AATAATACATTAAATTAA-A
1 AAAAATA-ATAAAATGAACA
6352951 AAAAATAAT
1 AAAAATAAT
6352960 TCTTAATTTA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 2 0.09
19 13 0.57
20 8 0.35
ACGTcount: A:0.70, C:0.04, G:0.02, T:0.23
Consensus pattern (19 bp):
AAAAATAATAAAATGAACA
Found at i:6352965 original size:21 final size:22
Alignment explanation
Indices: 6352931--6352980 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
6352921 TAAAATGAAC
6352931 AAATAATACATTAAATTAAAAA
1 AAATAATACATTAAATTAAAAA
* * *
6352953 AAATAATTC-TTAATTTAAAGA
1 AAATAATACATTAAATTAAAAA
6352974 AAATAAT
1 AAATAAT
6352981 GTAATTATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (22 bp):
AAATAATACATTAAATTAAAAA
Found at i:6355629 original size:20 final size:20
Alignment explanation
Indices: 6355604--6355643 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6355594 GTAAATAAAA
* *
6355604 ATATATAATTTTCTTATTAT
1 ATATATAAATTTCATATTAT
6355624 ATATATAAATTTCATATTAT
1 ATATATAAATTTCATATTAT
6355644 CTAACAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (20 bp):
ATATATAAATTTCATATTAT
Found at i:6367281 original size:30 final size:30
Alignment explanation
Indices: 6367247--6367318 Score: 90
Period size: 30 Copynumber: 2.4 Consensus size: 30
6367237 AATTAGTAAA
*
6367247 ATAAAATTATACTTTAATTTCATAAAAATG
1 ATAAAATTATAATTTAATTTCATAAAAATG
* ** *
6367277 ATAAAATTTTAATTTAATTTTTTAAAAATT
1 ATAAAATTATAATTTAATTTCATAAAAATG
*
6367307 ATAAAAATATAA
1 ATAAAATTATAA
6367319 ACCATTTAAT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.43
Consensus pattern (30 bp):
ATAAAATTATAATTTAATTTCATAAAAATG
Found at i:6373178 original size:3 final size:3
Alignment explanation
Indices: 6373170--6373204 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
6373160 GGATTGTTTT
* *
6373170 TTA TTA TTA CTA TTA TTA TTA CTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6373205 GTGTTTTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:6373187 original size:12 final size:12
Alignment explanation
Indices: 6373170--6373202 Score: 66
Period size: 12 Copynumber: 2.8 Consensus size: 12
6373160 GGATTGTTTT
6373170 TTATTATTACTA
1 TTATTATTACTA
6373182 TTATTATTACTA
1 TTATTATTACTA
6373194 TTATTATTA
1 TTATTATTA
6373203 TTGTGTTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (12 bp):
TTATTATTACTA
Found at i:6409621 original size:12 final size:13
Alignment explanation
Indices: 6409596--6409632 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
6409586 ATATAATCAG
*
6409596 AATT-TATAATAA
1 AATTATATAAAAA
6409608 AATTAT-TAAAAA
1 AATTATATAAAAA
6409620 AATTATATAAAAA
1 AATTATATAAAAA
6409633 TACTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 15 0.68
13 7 0.32
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
AATTATATAAAAA
Found at i:6410039 original size:13 final size:13
Alignment explanation
Indices: 6410021--6410047 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6410011 TTGAAATTTG
6410021 AAATTAAAAAAAT
1 AAATTAAAAAAAT
6410034 AAATTAAAAAAAT
1 AAATTAAAAAAAT
6410047 A
1 A
6410048 TTAAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AAATTAAAAAAAT
Found at i:6410978 original size:29 final size:29
Alignment explanation
Indices: 6410946--6411003 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
6410936 AGTCATACTG
**
6410946 ATAACACAACTCAGAATAACATCACACAA
1 ATAACACAACAAAGAATAACATCACACAA
* *
6410975 ATAACACAACAAAGAGTAATATCACACAA
1 ATAACACAACAAAGAATAACATCACACAA
6411004 CAAAATGTAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.57, C:0.24, G:0.05, T:0.14
Consensus pattern (29 bp):
ATAACACAACAAAGAATAACATCACACAA
Found at i:6413483 original size:26 final size:26
Alignment explanation
Indices: 6413451--6413504 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
6413441 TTTGAAATTT
* * * *
6413451 TTCGAATCGAGTCGAGTGAAATGAAA
1 TTCGAATCGAATAGAATCAAATGAAA
6413477 TTCGAATCGAATAGAATCAAATGAAA
1 TTCGAATCGAATAGAATCAAATGAAA
6413503 TT
1 TT
6413505 GTTCGAGTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.26
Consensus pattern (26 bp):
TTCGAATCGAATAGAATCAAATGAAA
Found at i:6436993 original size:24 final size:24
Alignment explanation
Indices: 6436957--6437002 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
6436947 TAATAAAAAT
*
6436957 AATTCAATTTAAAACCCGACCTAA
1 AATTCAATCTAAAACCCGACCTAA
* *
6436981 AATTCGATCTAAAATCCGACCT
1 AATTCAATCTAAAACCCGACCT
6437003 GAGATCCAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.26, G:0.07, T:0.26
Consensus pattern (24 bp):
AATTCAATCTAAAACCCGACCTAA
Found at i:6438693 original size:13 final size:13
Alignment explanation
Indices: 6438675--6438705 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
6438665 ACTTGGACTT
6438675 GGATATGAGCATC
1 GGATATGAGCATC
6438688 GGATATGAGCATC
1 GGATATGAGCATC
*
6438701 AGATA
1 GGATA
6438706 CACGTATGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.35, C:0.13, G:0.29, T:0.23
Consensus pattern (13 bp):
GGATATGAGCATC
Found at i:6439474 original size:3 final size:3
Alignment explanation
Indices: 6439466--6439501 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
6439456 CATCTTCGCT
* *
6439466 ATC ATC ATC ATC ATC ATC ATC TTC ATC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
6439502 CTCTGAGGCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.28, C:0.33, G:0.00, T:0.39
Consensus pattern (3 bp):
ATC
Found at i:6464373 original size:26 final size:26
Alignment explanation
Indices: 6464343--6464394 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
6464333 CCAATGATAT
*
6464343 AACCAATACGAAGCAACATGATTAAC
1 AACCAATACGAAACAACATGATTAAC
* **
6464369 AACCAATATGAAACAATGTGATTAAC
1 AACCAATACGAAACAACATGATTAAC
6464395 GACAAAATAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.50, C:0.19, G:0.12, T:0.19
Consensus pattern (26 bp):
AACCAATACGAAACAACATGATTAAC
Found at i:6465809 original size:23 final size:26
Alignment explanation
Indices: 6465783--6465834 Score: 74
Period size: 23 Copynumber: 2.1 Consensus size: 26
6465773 TCATTTAATT
*
6465783 ATAAAAAA-ATTAAAA-TAG-TTAAA
1 ATAAAAAATATAAAAATTAGTTTAAA
6465806 ATAAAAAATATAAAAATTAGTTTAAA
1 ATAAAAAATATAAAAATTAGTTTAAA
6465832 ATA
1 ATA
6465835 TCAATTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 8 0.32
24 6 0.24
25 3 0.12
26 8 0.32
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (26 bp):
ATAAAAAATATAAAAATTAGTTTAAA
Found at i:6465955 original size:19 final size:21
Alignment explanation
Indices: 6465931--6465969 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
6465921 TAAAATAATA
6465931 TGTATTGAT-CAATA-CGATC
1 TGTATTGATACAATATCGATC
6465950 TGTATTGATACAATATCGAT
1 TGTATTGATACAATATCGAT
6465970 TACCATTGTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 9 0.50
20 5 0.28
21 4 0.22
ACGTcount: A:0.33, C:0.13, G:0.15, T:0.38
Consensus pattern (21 bp):
TGTATTGATACAATATCGATC
Found at i:6466499 original size:30 final size:29
Alignment explanation
Indices: 6466435--6466501 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
6466425 TGTACAGTTG
** *
6466435 AAATTTAGTTTTTATATTTTTATTTTTAG
1 AAATTTAGTTTTTATATTTTTAGATTTAA
*
6466464 GAATTTAG-TTTTACTATCTTTTAGATTTAA
1 AAATTTAGTTTTTA-TAT-TTTTAGATTTAA
6466494 AAATTTAG
1 AAATTTAG
6466502 GTGTAGTTGT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 5 0.16
29 10 0.32
30 16 0.52
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.57
Consensus pattern (29 bp):
AAATTTAGTTTTTATATTTTTAGATTTAA
Found at i:6477840 original size:48 final size:48
Alignment explanation
Indices: 6477746--6477841 Score: 131
Period size: 48 Copynumber: 2.0 Consensus size: 48
6477736 TTAATACCTC
* * *
6477746 CCCCCATGTGTTTGGGAGCAATGTCACTTTATTACTTTATGTAAGCCT
1 CCCCCATGTGTCTGGGAGCAAGGTCACTTTATTACTTTATGCAAGCCT
* *
6477794 CCCCCATGTGTCTGGGAGTAAGGTCATTTTATTAC-TTATCGCAAGCCT
1 CCCCCATGTGTCTGGGAGCAAGGTCACTTTATTACTTTAT-GCAAGCCT
6477842 TTGTGAATCC
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
47 4 0.10
48 38 0.90
ACGTcount: A:0.21, C:0.24, G:0.20, T:0.35
Consensus pattern (48 bp):
CCCCCATGTGTCTGGGAGCAAGGTCACTTTATTACTTTATGCAAGCCT
Found at i:6477957 original size:58 final size:58
Alignment explanation
Indices: 6477868--6478001 Score: 148
Period size: 58 Copynumber: 2.3 Consensus size: 58
6477858 CTCTTGACAG
** * * *
6477868 AGGTGAGGTATATCTTCAACATTCGGACTCCTCCATGAA-CCTTTCAAGTTCTCAAT-A
1 AGGTGAGACATATCTTCAACATTCAGACTCCTCCATGAATCC-ATCAAGCTCTCAATGA
* *
6477925 GAGGTGAGACGTATCTTCAACATTCA-AGCTCCTTCATGAATCCATCAAGCTCTCAATGA
1 -AGGTGAGACATATCTTCAACATTCAGA-CTCCTCCATGAATCCATCAAGCTCTCAATGA
*
6477984 AGGTGAGGCATATCTTCA
1 AGGTGAGACATATCTTCA
6478002 TAAAAATCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
57 1 0.02
58 60 0.94
59 3 0.05
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (58 bp):
AGGTGAGACATATCTTCAACATTCAGACTCCTCCATGAATCCATCAAGCTCTCAATGA
Found at i:6478307 original size:36 final size:36
Alignment explanation
Indices: 6478222--6478311 Score: 128
Period size: 35 Copynumber: 2.5 Consensus size: 36
6478212 CAGACATTAT
* * *
6478222 CATTTCTTACGTTTTATATTGCCAACAAATGGTACA
1 CATTTCTTATGTTTTATATTACCAACAAATAGTACA
* *
6478258 CA-TTCTTATGTTTTATATTACTAGCAAATAGTACA
1 CATTTCTTATGTTTTATATTACCAACAAATAGTACA
6478293 CATTTCTTATGTTTTATAT
1 CATTTCTTATGTTTTATAT
6478312 CTGTCGAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
35 30 0.62
36 18 0.38
ACGTcount: A:0.30, C:0.16, G:0.09, T:0.46
Consensus pattern (36 bp):
CATTTCTTATGTTTTATATTACCAACAAATAGTACA
Found at i:6481066 original size:15 final size:15
Alignment explanation
Indices: 6481042--6481091 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
6481032 AAAGGCTGAC
6481042 GTGG-ACGTGATGAT
1 GTGGCACGTGATGAT
*
6481056 GTGGCACGTGATGAC
1 GTGGCACGTGATGAT
* *
6481071 ATGGCAGGTGATGAT
1 GTGGCACGTGATGAT
6481086 GTGGCA
1 GTGGCA
6481092 ACTGACGTGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 4 0.13
15 26 0.87
ACGTcount: A:0.22, C:0.12, G:0.42, T:0.24
Consensus pattern (15 bp):
GTGGCACGTGATGAT
Found at i:6481264 original size:17 final size:17
Alignment explanation
Indices: 6481239--6481334 Score: 93
Period size: 17 Copynumber: 5.6 Consensus size: 17
6481229 TTTAATTTTC
*
6481239 AATTCAAAATAAATTCA
1 AATTTAAAATAAATTCA
*
6481256 AATTTAAAATAAATTTAA
1 AATTTAAAATAAA-TTCA
*** * * *
6481274 AACCCAACATGATTTCA
1 AATTTAAAATAAATTCA
6481291 AATTTAAAATAAATTCA
1 AATTTAAAATAAATTCA
*
6481308 AATTTAAAATAAATTAA
1 AATTTAAAATAAATTCA
*
6481325 AATTTTAAAT
1 AATTTAAAAT
6481335 TAAAAGTTGG
Statistics
Matches: 61, Mismatches: 17, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
17 51 0.84
18 10 0.16
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.34
Consensus pattern (17 bp):
AATTTAAAATAAATTCA
Found at i:6481271 original size:35 final size:35
Alignment explanation
Indices: 6481232--6481334 Score: 93
Period size: 35 Copynumber: 3.0 Consensus size: 35
6481222 TAATTAATTT
6481232 AATTTTCAATTCAAAATAAATTCAAATTTAAAATA
1 AATTTTCAATTCAAAATAAATTCAAATTTAAAATA
** ** * * *
6481267 AATTTAAAACCCAACATGATTTCAAATTTAAAATA
1 AATTTTCAATTCAAAATAAATTCAAATTTAAAATA
* * *
6481302 AA--TTCAAATTTAAAATAAATTAAAATTTTAAAT
1 AATTTTC-AATTCAAAATAAATTCAAATTTAAAAT
6481335 TAAAAGTTGG
Statistics
Matches: 50, Mismatches: 17, Indels: 3
0.71 0.24 0.04
Matches are distributed among these distances:
33 1 0.02
34 19 0.38
35 30 0.60
ACGTcount: A:0.54, C:0.09, G:0.01, T:0.36
Consensus pattern (35 bp):
AATTTTCAATTCAAAATAAATTCAAATTTAAAATA
Found at i:6490638 original size:14 final size:14
Alignment explanation
Indices: 6490599--6490646 Score: 71
Period size: 14 Copynumber: 3.5 Consensus size: 14
6490589 CTTGGAATTC
6490599 AAGATTTAGGGTTT
1 AAGATTTAGGGTTT
*
6490613 AAG-TTTAAGGTTT
1 AAGATTTAGGGTTT
*
6490626 ATGATTTAGGGTTT
1 AAGATTTAGGGTTT
6490640 AAGATTT
1 AAGATTT
6490647 GGAGCTCGAG
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
13 11 0.38
14 18 0.62
ACGTcount: A:0.29, C:0.00, G:0.25, T:0.46
Consensus pattern (14 bp):
AAGATTTAGGGTTT
Found at i:6491170 original size:23 final size:22
Alignment explanation
Indices: 6491144--6491188 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
6491134 TGTCATATTA
*
6491144 TTTATTCAAATCAATCACAAATT
1 TTTATCCAAATCAATC-CAAATT
*
6491167 TTTATCCAAATTAATCCAAATT
1 TTTATCCAAATCAATCCAAATT
6491189 AATCACAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTATCCAAATCAATCCAAATT
Found at i:6495785 original size:19 final size:20
Alignment explanation
Indices: 6495744--6495785 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
6495734 ATGTCTCGTT
* *
6495744 AAAAACTTATTAAAATTTAA
1 AAAAACTAATGAAAATTTAA
*
6495764 AAAAACTAATGAAAATTGAA
1 AAAAACTAATGAAAATTTAA
6495784 AA
1 AA
6495786 CATAGACTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.64, C:0.05, G:0.05, T:0.26
Consensus pattern (20 bp):
AAAAACTAATGAAAATTTAA
Found at i:6496853 original size:29 final size:30
Alignment explanation
Indices: 6496795--6496868 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
6496785 TTAAATTTGT
* * *
6496795 AATGATAAAATTATATTTTATTTTTTTAAA
1 AATGATAAAATTATAGTTTAATCTTTTAAA
6496825 AATGATAAAATT-TAGTTTAATCTTTTAAA
1 AATGATAAAATTATAGTTTAATCTTTTAAA
* *
6496854 AATTATAAAAATATA
1 AATGATAAAATTATA
6496869 AACTATTAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
29 24 0.63
30 14 0.37
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (30 bp):
AATGATAAAATTATAGTTTAATCTTTTAAA
Found at i:6505356 original size:18 final size:18
Alignment explanation
Indices: 6505333--6505369 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
6505323 AGTAATGAAC
6505333 ATCCTTGATCATTAAACT
1 ATCCTTGATCATTAAACT
6505351 ATCCTTGATCATTAAACT
1 ATCCTTGATCATTAAACT
6505369 A
1 A
6505370 ACACACGGAT
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:0.35, C:0.22, G:0.05, T:0.38
Consensus pattern (18 bp):
ATCCTTGATCATTAAACT
Found at i:6507486 original size:2 final size:2
Alignment explanation
Indices: 6507479--6507508 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
6507469 GATGCTGGTC
6507479 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6507509 GTTTACATGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6512684 original size:16 final size:16
Alignment explanation
Indices: 6512663--6512694 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
6512653 ATAATTTTTA
6512663 AGTGACCTAAAAGTTG
1 AGTGACCTAAAAGTTG
*
6512679 AGTGACTTAAAAGTTG
1 AGTGACCTAAAAGTTG
6512695 GGGGTTCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.28
Consensus pattern (16 bp):
AGTGACCTAAAAGTTG
Found at i:6523776 original size:26 final size:26
Alignment explanation
Indices: 6523747--6523801 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
6523737 GTGCCCAACT
6523747 GTAACACCCCTATACCCGATTTATAC
1 GTAACACCCCTATACCCGATTTATAC
6523773 GTAACACCCCTATACCCGATTTATAC
1 GTAACACCCCTATACCCGATTTATAC
6523799 GTA
1 GTA
6523802 TAAACCCAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.31, C:0.33, G:0.09, T:0.27
Consensus pattern (26 bp):
GTAACACCCCTATACCCGATTTATAC
Found at i:6524625 original size:23 final size:23
Alignment explanation
Indices: 6524576--6524725 Score: 142
Period size: 23 Copynumber: 6.5 Consensus size: 23
6524566 TAAACGGAAC
* * *
6524576 AAACAGAGAGTAC-CGAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
*
6524598 GAACAGAGAGCACACAAAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
6524621 AAACAGAGAGTACACAAAGTACT
1 AAACAGAGAGCACACAAAGTGCT
* * *
6524644 GATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
*
6524667 AATAACAGAGAGCACA-AGACGTGCT
1 -A-AACAGAGAGCACACA-AAGTGCT
*
6524692 AAACAGAGAGCACACACAGTGCT
1 AAACAGAGAGCACACAAAGTGCT
* *
6524715 AATCAAAGAGC
1 AAACAGAGAGC
6524726 GCGCTAGTGT
Statistics
Matches: 103, Mismatches: 20, Indels: 9
0.78 0.15 0.07
Matches are distributed among these distances:
22 11 0.11
23 72 0.70
24 3 0.03
25 17 0.17
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (23 bp):
AAACAGAGAGCACACAAAGTGCT
Found at i:6524651 original size:46 final size:46
Alignment explanation
Indices: 6524576--6524716 Score: 180
Period size: 46 Copynumber: 3.0 Consensus size: 46
6524566 TAAACGGAAC
* *
6524576 AAACAGAGAGTAC-CGAAGTACTGAACAGAGAGCACACAAAGTGCT
1 AAACAGAGAGTACACAAAGTACTGAACAGAGAGCACACACAGTGCT
*
6524621 AAACAGAGAGTACACAAAGTACTGATCAGAGAGCACACACAGTGCT
1 AAACAGAGAGTACACAAAGTACTGAACAGAGAGCACACACAGTGCT
* *
6524667 AATAACAGAGAG--CACAAGACGTGCTAAACAGAGAGCACACACAGTGCT
1 -A-AACAGAGAGTACACAA-A-GTACTGAACAGAGAGCACACACAGTGCT
6524715 AA
1 AA
6524717 TCAAAGAGCG
Statistics
Matches: 85, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
45 13 0.15
46 35 0.41
47 3 0.04
48 34 0.40
ACGTcount: A:0.45, C:0.21, G:0.23, T:0.11
Consensus pattern (46 bp):
AAACAGAGAGTACACAAAGTACTGAACAGAGAGCACACACAGTGCT
Found at i:6524699 original size:48 final size:47
Alignment explanation
Indices: 6524577--6524717 Score: 164
Period size: 48 Copynumber: 3.0 Consensus size: 47
6524567 AAACGGAACA
* * *
6524577 AACAGAGAGTAC-CGAAGTACTGAACAGAGAGCACACAAAGTGCT-A-
1 AACAGAGAG-ACACAAAGTACTAAACAGAGAGCACACACAGTGCTAAT
* *
6524622 AACAGAGAGTACACAAAGTACTGATCAGAGAGCACACACAGTGCTAAT
1 AACAGAGAG-ACACAAAGTACTAAACAGAGAGCACACACAGTGCTAAT
*
6524670 AACAGAGAG-CACAAGACGTGCTAAACAGAGAGCACACACAGTGCTAAT
1 AACAGAGAGACACAA-A-GTACTAAACAGAGAGCACACACAGTGCTAAT
6524718 CAAAGAGCGC
Statistics
Matches: 85, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
45 12 0.14
46 34 0.40
47 2 0.02
48 37 0.44
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (47 bp):
AACAGAGAGACACAAAGTACTAAACAGAGAGCACACACAGTGCTAAT
Found at i:6531042 original size:23 final size:23
Alignment explanation
Indices: 6531009--6531132 Score: 115
Period size: 23 Copynumber: 5.3 Consensus size: 23
6530999 GCTGGGCAAT
6531009 AGAGAGCACACAAAGTGCTAAAC
1 AGAGAGCACACAAAGTGCTAAAC
* * * *
6531032 AGAGAGTACACAAAGTACTGATC
1 AGAGAGCACACAAAGTGCTAAAC
* *
6531055 AGAGAGCATACACAGTGCTAATAAC
1 AGAGAGCACACAAAGTGCT-A-AAC
* *
6531080 AGAGAGCACGA-GACGTGCTAAAC
1 AGAGAGCAC-ACAAAGTGCTAAAC
* *
6531103 AGAGAGCACACACAGTGCTAATC
1 AGAGAGCACACAAAGTGCTAAAC
*
6531126 AAAGAGC
1 AGAGAGC
6531133 GCGCTAGTGT
Statistics
Matches: 78, Mismatches: 19, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
22 1 0.01
23 60 0.77
24 1 0.01
25 15 0.19
26 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (23 bp):
AGAGAGCACACAAAGTGCTAAAC
Found at i:6531084 original size:71 final size:71
Alignment explanation
Indices: 6530958--6531132 Score: 176
Period size: 71 Copynumber: 2.5 Consensus size: 71
6530948 TAAATGAAAC
* * * * ** *
6530958 AAACAGAGAGTGC-CGAAGTACTGAACAGAGAGCATATAAGTGCTGGGCAATAGAGAGCAC-ACA
1 AAACAGAGAGTACACAAAGTACTGATCAGAGAGCATACAAGTGCTGAACAACAGAGAGCACGA-A
6531021 AAGTGCT
65 AAGTGCT
* *
6531028 AAACAGAGAGTACACAAAGTACTGATCAGAGAGCATACACAGTGCT-AATAACAGAGAGCACGAG
1 AAACAGAGAGTACACAAAGTACTGATCAGAGAGCATACA-AGTGCTGAACAACAGAGAGCACGAA
*
6531092 ACGTGCT
65 AAGTGCT
* * * * *
6531099 AAACAGAGAGCACACACAGTGCTAATCAAAGAGC
1 AAACAGAGAGTACACAAAGTACTGATCAGAGAGC
6531133 GCGCTAGTGT
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
70 12 0.14
71 68 0.78
72 7 0.08
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.13
Consensus pattern (71 bp):
AAACAGAGAGTACACAAAGTACTGATCAGAGAGCATACAAGTGCTGAACAACAGAGAGCACGAAA
AGTGCT
Found at i:6548657 original size:21 final size:22
Alignment explanation
Indices: 6548631--6548767 Score: 134
Period size: 23 Copynumber: 6.0 Consensus size: 22
6548621 ACGGAACAAG
* *
6548631 CAGAGAGTAC-CAAAGTACTAA
1 CAGAGAGCACACAAAGTGCTAA
*
6548652 CAGAGAGCACA-TAAGTGCTGGGCAA
1 CAGAGAGCACACAAAGTGCT----AA
*
6548677 CAGAGAGCACACACAGTGCTAAA
1 CAGAGAGCACACAAAGTGCT-AA
* *
6548700 CAGAGAGTACACAAAGTACTAA
1 CAGAGAGCACACAAAGTGCTAA
6548722 TCAGAGAGCACACAAAGTGCTAA
1 -CAGAGAGCACACAAAGTGCTAA
*
6548745 TCAGAGAGCACACACAGTGCTAA
1 -CAGAGAGCACACAAAGTGCTAA
6548768 TAACAGAGAG
Statistics
Matches: 97, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
21 15 0.15
22 2 0.02
23 61 0.63
25 13 0.13
26 6 0.06
ACGTcount: A:0.43, C:0.22, G:0.23, T:0.12
Consensus pattern (22 bp):
CAGAGAGCACACAAAGTGCTAA
Found at i:6548701 original size:23 final size:23
Alignment explanation
Indices: 6548675--6548801 Score: 157
Period size: 23 Copynumber: 5.4 Consensus size: 23
6548665 AGTGCTGGGC
6548675 AACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACACACAGTGCTA
* * *
6548698 AACAGAGAGTACACAAAGTACTA
1 AACAGAGAGCACACACAGTGCTA
* *
6548721 ATCAGAGAGCACACAAAGTGCTA
1 AACAGAGAGCACACACAGTGCTA
*
6548744 ATCAGAGAGCACACACAGTGCTAA
1 AACAGAGAGCACACACAGTGCT-A
*
6548768 TAACAGAGAGCACGAGAC-GTGCTA
1 -AACAGAGAGCAC-ACACAGTGCTA
6548792 AACAGAGAGC
1 AACAGAGAGC
6548802 GCGCTAGTGT
Statistics
Matches: 92, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
23 71 0.77
24 2 0.02
25 16 0.17
26 3 0.03
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (23 bp):
AACAGAGAGCACACACAGTGCTA
Found at i:6548704 original size:48 final size:43
Alignment explanation
Indices: 6548650--6548801 Score: 135
Period size: 48 Copynumber: 3.2 Consensus size: 43
6548640 CCAAAGTACT
6548650 AACAGAGAGCACATAAGTGCTGGGCAACAGAGAGCACACACAGTGCTA
1 AACAGAGAGCACA-AAGTGCT----AACAGAGAGCACACACAGTGCTA
* *
6548698 AACAGAGAGTACACAAAGTACTAATCAGAGAGCACACAAAGTGCTA
1 AACAGAGAG--CACAAAGTGCTAA-CAGAGAGCACACACAGTGCTA
* *
6548744 ATCAGAGAGCACACACAGTGCTAATAACAGAGAGCACGAGAC-GTGCTA
1 AACAGAGAGCACA-A-AGTGC---TAACAGAGAGCAC-ACACAGTGCTA
6548792 AACAGAGAGC
1 AACAGAGAGC
6548802 GCGCTAGTGT
Statistics
Matches: 88, Mismatches: 7, Indels: 18
0.78 0.06 0.16
Matches are distributed among these distances:
44 4 0.05
45 3 0.03
46 32 0.36
48 34 0.39
49 11 0.12
50 4 0.05
ACGTcount: A:0.43, C:0.22, G:0.24, T:0.11
Consensus pattern (43 bp):
AACAGAGAGCACAAAGTGCTAACAGAGAGCACACACAGTGCTA
Found at i:6548750 original size:69 final size:68
Alignment explanation
Indices: 6548631--6548777 Score: 201
Period size: 69 Copynumber: 2.1 Consensus size: 68
6548621 ACGGAACAAG
*
6548631 CAGAGAGTACCAAAGTACTAACAGAGAGCACATAAGTGCTGGGCAACAGAGAGCACACACAGTGC
1 CAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCT--G-AACAGAGAGCACACACAGTGC
6548696 T-A-AA
63 TAATAA
6548700 CAGAGAGTACACAAAGTACTAATCAGAGAGCACACAAAGTGCT-AATCAGAGAGCACACACAGTG
1 CAGAGAGTAC-CAAAGTACTAA-CAGAGAGCACA-AAAGTGCTGAA-CAGAGAGCACACACAGTG
6548764 CTAATAA
62 CTAATAA
6548771 CAGAGAG
1 CAGAGAG
6548778 CACGAGACGT
Statistics
Matches: 71, Mismatches: 1, Indels: 10
0.87 0.01 0.12
Matches are distributed among these distances:
68 2 0.03
69 30 0.42
70 12 0.17
71 20 0.28
72 7 0.10
ACGTcount: A:0.44, C:0.21, G:0.23, T:0.12
Consensus pattern (68 bp):
CAGAGAGTACCAAAGTACTAACAGAGAGCACAAAAGTGCTGAACAGAGAGCACACACAGTGCTAA
TAA
Found at i:6557860 original size:21 final size:21
Alignment explanation
Indices: 6557827--6557866 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6557817 TTAAAAATCA
* *
6557827 ATTTCATTTATTTGAATTATT
1 ATTTAATTAATTTGAATTATT
*
6557848 ATTTAATTAATTTTAATTA
1 ATTTAATTAATTTGAATTA
6557867 AATAATTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (21 bp):
ATTTAATTAATTTGAATTATT
Found at i:6558034 original size:17 final size:16
Alignment explanation
Indices: 6557992--6558042 Score: 57
Period size: 17 Copynumber: 3.0 Consensus size: 16
6557982 ATAAAATTAG
*
6557992 AAATGTAATTGAGTTGAA
1 AAAT-TAATTTAGTT-AA
*
6558010 AAAATAATTTAGTTAA
1 AAATTAATTTAGTTAA
6558026 CAAATTAATTTAGTTAA
1 -AAATTAATTTAGTTAA
6558043 TAATATTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
16 2 0.07
17 24 0.83
18 3 0.10
ACGTcount: A:0.49, C:0.02, G:0.12, T:0.37
Consensus pattern (16 bp):
AAATTAATTTAGTTAA
Found at i:6560277 original size:11 final size:11
Alignment explanation
Indices: 6560263--6560295 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
6560253 TCTAAAAAGA
6560263 TAAATATAAAT
1 TAAATATAAAT
*
6560274 TAAATACAAAT
1 TAAATATAAAT
6560285 TAAATATAAAT
1 TAAATATAAAT
6560296 AATATCCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (11 bp):
TAAATATAAAT
Found at i:6563040 original size:22 final size:23
Alignment explanation
Indices: 6563003--6563045 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
6562993 CCTTACAATA
6563003 ATTAAATGAAATTAAAATATATT
1 ATTAAATGAAATTAAAATATATT
*
6563026 ATTAAATG-AATTAAATTATA
1 ATTAAATGAAATTAAAATATA
6563046 CATAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (23 bp):
ATTAAATGAAATTAAAATATATT
Found at i:6563444 original size:18 final size:16
Alignment explanation
Indices: 6563423--6563520 Score: 63
Period size: 17 Copynumber: 5.6 Consensus size: 16
6563413 TTGAACCCAT
6563423 TTTAAGATTTATTTTAA
1 TTTAA-ATTTATTTTAA
*
6563440 GTTTAAATTGATTTTTGAA
1 -TTTAAATTTA-TTTT-AA
*
6563459 ATTAAATTTATTTTAAA
1 TTTAAATTTATTTT-AA
6563476 TTTAAATTT-TGCTTTAAAA
1 TTTAAATTTAT--TTT--AA
*
6563495 TTTAAATTTAATTTAAA
1 TTTAAATTT-ATTTTAA
*
6563512 TTTAGATTT
1 TTTAAATTT
6563521 TTAGATGAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
16 1 0.02
17 28 0.42
18 20 0.30
19 16 0.24
21 1 0.02
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.55
Consensus pattern (16 bp):
TTTAAATTTATTTTAA
Found at i:6563472 original size:17 final size:16
Alignment explanation
Indices: 6563424--6563513 Score: 65
Period size: 18 Copynumber: 5.1 Consensus size: 16
6563414 TGAACCCATT
*
6563424 TTAAGATTTATTTTAAGT
1 TTAA-ATTTATTTTAA-A
*
6563442 TTAAATTGATTTTTGAAA
1 TTAAATTTA-TTTT-AAA
6563460 TTAAATTTATTTTAAA
1 TTAAATTTATTTTAAA
6563476 TTTAAATTT-TGCTTTAAAA
1 -TTAAATTTAT--TTT-AAA
*
6563495 TTTAAATTTAATTTAAA
1 -TTAAATTTATTTTAAA
6563512 TT
1 TT
6563514 TAGATTTTTA
Statistics
Matches: 61, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
16 6 0.10
17 19 0.31
18 22 0.36
19 14 0.23
ACGTcount: A:0.39, C:0.01, G:0.06, T:0.54
Consensus pattern (16 bp):
TTAAATTTATTTTAAA
Found at i:6563481 original size:6 final size:6
Alignment explanation
Indices: 6563460--6563520 Score: 54
Period size: 6 Copynumber: 10.3 Consensus size: 6
6563450 ATTTTTGAAA
* ***
6563460 TTAAAT TT-ATT TTAAAT TTAAAT TTTGCT TTAAAAT TTAAAT TT-AAT
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TTAAAT TTAAAT
*
6563507 TTAAAT TTAGAT TT
1 TTAAAT TTAAAT TT
6563521 TTAGATGAAT
Statistics
Matches: 43, Mismatches: 9, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
5 9 0.21
6 31 0.72
7 3 0.07
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (6 bp):
TTAAAT
Found at i:6563509 original size:11 final size:11
Alignment explanation
Indices: 6563460--6563520 Score: 50
Period size: 11 Copynumber: 5.2 Consensus size: 11
6563450 ATTTTTGAAA
*
6563460 TTAAATTTATT
1 TTAAATTTAAT
6563471 TTAAATTTAAAT
1 TTAAATTT-AAT
***
6563483 TTTGCTTTAAAAT
1 TTAAATTT--AAT
6563496 TTAAATTTAAT
1 TTAAATTTAAT
6563507 TTAAATTTAGAT
1 TTAAATTTA-AT
6563519 TT
1 TT
6563521 TTAGATGAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
11 20 0.50
12 11 0.28
13 9 0.22
ACGTcount: A:0.39, C:0.02, G:0.03, T:0.56
Consensus pattern (11 bp):
TTAAATTTAAT
Found at i:6564297 original size:25 final size:22
Alignment explanation
Indices: 6564269--6564325 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
6564259 TAATACCTTA
*
6564269 AATAATAATATTAAGTAAGTTTAAT
1 AATAATAATATTAA-TAA--TAAAT
6564294 AATAA-ATATATTAATAATAAAT
1 AATAATA-ATATTAATAATAAAT
6564316 AATAATAATA
1 AATAATAATA
6564326 ATAACTGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
22 12 0.41
23 1 0.03
24 4 0.14
25 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (22 bp):
AATAATAATATTAATAATAAAT
Found at i:6564309 original size:15 final size:16
Alignment explanation
Indices: 6564289--6564329 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
6564279 TTAAGTAAGT
6564289 TTAATAATAAAT-ATA
1 TTAATAATAAATAATA
6564304 TTAATAATAAATAATA
1 TTAATAATAAATAATA
*
6564320 ATAATAATAA
1 TTAATAATAA
6564330 CTGAAGAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAATAATAAATAATA
Found at i:6565519 original size:59 final size:59
Alignment explanation
Indices: 6565452--6565735 Score: 351
Period size: 59 Copynumber: 4.8 Consensus size: 59
6565442 AAAACTTTCA
* *
6565452 AAAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTGACCCTAATTTCACC
1 AAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTGACCCTGATTTCACC
* * * * *
6565511 AAAAATTACCATTTTACCCCCAAACTTTCCAAAAT-CTA-TTTTAACCCCGATTTCACC
1 AAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTGACCCTGATTTCACC
* * *
6565568 AAAAATTACCTTTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCTTGATTTCACC
1 AAAAATTACC-ATTTTACCCTCGAACTTTCCAAAATCCCATTTTTGACCCTGATTTCACC
* * * * *
6565628 AAAAATTACCATTTCACCCCCGAACTTTCCAAAATTCCGTTTTTGA-CCTCGATTACACC
1 AAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTGACCCT-GATTTCACC
* * *
6565687 AAAAATTGCCATTTTA-CCTCTGAACCTTCCAAAATCCCATTTTTAACCC
1 AAAAATTACCATTTTACCCTC-GAACTTTCCAAAATCCCATTTTTGACCC
6565736 CGAATTTTCC
Statistics
Matches: 194, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
57 26 0.13
58 29 0.15
59 111 0.57
60 28 0.14
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (59 bp):
AAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTGACCCTGATTTCACC
Found at i:6565587 original size:117 final size:118
Alignment explanation
Indices: 6565452--6565735 Score: 396
Period size: 117 Copynumber: 2.4 Consensus size: 118
6565442 AAAACTTTCA
*
6565452 AAAAATTACCATTTTACCCTCAAACTTTCCAAAATCCCATTTTTGACCCTAATTTCACCAAAAAT
1 AAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTGACCCTAATTTCACCAAAAAT
* *
6565517 TACCATTTTACCCCCAAACTTTCCAAAA-T-C-TATTTTAACCCCGATTTCACC
66 TACCATTTCACCCCCAAACTTTCCAAAATTCCGT-TTTTAACCCCGATTACACC
* * * *
6565568 AAAAATTACCTTTTTTACCCTCGAACTTTCCAAAATTCCATTTTTGACCTTGATTTCACCAAAAA
1 AAAAATTACC-ATTTTACCCTCGAACTTTCCAAAATCCCATTTTTGACCCTAATTTCACCAAAAA
* * *
6565633 TTACCATTTCACCCCCGAACTTTCCAAAATTCCGTTTTTGACCTCGATTACACC
65 TTACCATTTCACCCCCAAACTTTCCAAAATTCCGTTTTTAACCCCGATTACACC
* * *
6565687 AAAAATTGCCATTTTA-CCTCTGAACCTTCCAAAATCCCATTTTTAACCC
1 AAAAATTACCATTTTACCCTC-GAACTTTCCAAAATCCCATTTTTGACCC
6565736 CGAATTTTCC
Statistics
Matches: 147, Mismatches: 16, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
116 10 0.07
117 80 0.54
118 30 0.20
119 26 0.18
120 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.04, T:0.34
Consensus pattern (118 bp):
AAAAATTACCATTTTACCCTCGAACTTTCCAAAATCCCATTTTTGACCCTAATTTCACCAAAAAT
TACCATTTCACCCCCAAACTTTCCAAAATTCCGTTTTTAACCCCGATTACACC
Found at i:6565660 original size:30 final size:30
Alignment explanation
Indices: 6565384--6565661 Score: 129
Period size: 30 Copynumber: 9.4 Consensus size: 30
6565374 GAGGTCCCTA
* ** *
6565384 AACTATCCAAAAATT-GTATTTTGACCCTCG
1 AACTTTCCAAAAATTACCATTTT-ACCCCCG
* **
6565414 AAC-TTCTCAAAAATTA-TATTTTGACCCCAA
1 AACTTTC-CAAAAATTACCATTTT-ACCCCCG
* * *
6565444 AACTTTCAAAAAATTACCATTTTACCCTCA
1 AACTTTCCAAAAATTACCATTTTACCCCCG
* *** *
6565474 AACTTTCC-AAAA-TCCCATTTTTGACCCT
1 AACTTTCCAAAAATTACCATTTTACCCCCG
*
6565502 AA-TTTCACCAAAAATTACCATTTTACCCCCA
1 AACTTT--CCAAAAATTACCATTTTACCCCCG
* *
6565533 AACTTTCC-AAAA-T-CTATTTTAACCCCG
1 AACTTTCCAAAAATTACCATTTTACCCCCG
* *
6565560 -A-TTTCACCAAAAATTACCTTTTTTACCCTCG
1 AACTTT--CCAAAAATTACC-ATTTTACCCCCG
**
6565591 AACTTTCC-AAAATT-CCATTTTTGA-CCTTG
1 AACTTTCCAAAAATTACCA-TTTT-ACCCCCG
*
6565620 -A-TTTCACCAAAAATTACCATTTCACCCCCG
1 AACTTT--CCAAAAATTACCATTTTACCCCCG
6565650 AACTTTCCAAAA
1 AACTTTCCAAAA
6565662 TTCCGTTTTT
Statistics
Matches: 190, Mismatches: 32, Indels: 52
0.69 0.12 0.19
Matches are distributed among these distances:
25 3 0.02
26 1 0.01
27 19 0.10
28 18 0.09
29 26 0.14
30 77 0.41
31 36 0.19
32 7 0.04
33 3 0.02
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.33
Consensus pattern (30 bp):
AACTTTCCAAAAATTACCATTTTACCCCCG
Found at i:6573571 original size:36 final size:35
Alignment explanation
Indices: 6573518--6573596 Score: 99
Period size: 36 Copynumber: 2.3 Consensus size: 35
6573508 AACTTATAAA
*
6573518 AAAAATCA-TAAATTATTAAAAAATATTAAACATCAT
1 AAAAATTATTAAATTATTAAAAAATATT-AAC-TCAT
* *
6573554 AAAAATTATTAAA-TATTAAAAAGTATTAACTTAT
1 AAAAATTATTAAATTATTAAAAAATATTAACTCAT
6573588 AAAAATTAT
1 AAAAATTAT
6573597 AATAAAATCT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
34 12 0.31
35 3 0.08
36 20 0.51
37 4 0.10
ACGTcount: A:0.59, C:0.05, G:0.01, T:0.34
Consensus pattern (35 bp):
AAAAATTATTAAATTATTAAAAAATATTAACTCAT
Found at i:6573573 original size:17 final size:18
Alignment explanation
Indices: 6573534--6573596 Score: 67
Period size: 17 Copynumber: 3.6 Consensus size: 18
6573524 CATAAATTAT
* *
6573534 TAAAAAATATTAAACATCA
1 TAAAAATTATTAAATAT-A
6573553 TAAAAATTATTAAATAT-
1 TAAAAATTATTAAATATA
* *
6573570 TAAAAAGTATTAACT-TA
1 TAAAAATTATTAAATATA
6573587 TAAAAATTAT
1 TAAAAATTAT
6573597 AATAAAATCT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
16 1 0.03
17 22 0.58
19 15 0.39
ACGTcount: A:0.59, C:0.05, G:0.02, T:0.35
Consensus pattern (18 bp):
TAAAAATTATTAAATATA
Found at i:6578950 original size:3 final size:3
Alignment explanation
Indices: 6578942--6578967 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6578932 CGTTTTATAT
6578942 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
6578968 TTACTATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:6579729 original size:21 final size:21
Alignment explanation
Indices: 6579691--6579732 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
6579681 TTTTAAAAAA
*
6579691 ATATATTTTAAATTTTATTAT
1 ATATATTTTAAATGTTATTAT
**
6579712 ATATATTTTATGTGTTATTAT
1 ATATATTTTAAATGTTATTAT
6579733 TAATTAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
ATATATTTTAAATGTTATTAT
Found at i:6585571 original size:30 final size:30
Alignment explanation
Indices: 6585458--6585575 Score: 105
Period size: 30 Copynumber: 4.0 Consensus size: 30
6585448 TTTTTGCCTC
* * * * *
6585458 CAAACTTTTGAAAATTATATTTTTATCCC-
1 CAAACTTCTAAAAATCACATTTTTACCCCT
* * *
6585487 CAAATTTTTAAAAATCACATTTTTA-CCAT
1 CAAACTTCTAAAAATCACATTTTTACCCCT
* *
6585516 CAAACTTCTCAAAAATTACACTTTTACCCCT
1 CAAACTTCT-AAAAATCACATTTTTACCCCT
* *
6585547 CGAACTTCTAAATATCACATTTTTACCCC
1 CAAACTTCTAAAAATCACATTTTTACCCC
6585576 AAACTTTCCT
Statistics
Matches: 72, Mismatches: 14, Indels: 5
0.79 0.15 0.05
Matches are distributed among these distances:
28 2 0.03
29 28 0.39
30 31 0.43
31 11 0.15
ACGTcount: A:0.36, C:0.25, G:0.02, T:0.38
Consensus pattern (30 bp):
CAAACTTCTAAAAATCACATTTTTACCCCT
Found at i:6585596 original size:29 final size:28
Alignment explanation
Indices: 6585447--6585663 Score: 125
Period size: 29 Copynumber: 7.4 Consensus size: 28
6585437 TTGACCCTCA
* ** *
6585447 ATTTTTGCCTCCAAACTTTTGAAAATTAT
1 ATTTTTACC-CCAAACTTTCCAAAATTAC
* ** *
6585476 ATTTTTATCCCCAAATTTTTAAAAATCAC
1 ATTTTTA-CCCCAAACTTTCCAAAATTAC
* *
6585505 ATTTTTACCATCAAACTTCTCAAAAATTAC
1 ATTTTTACC-CCAAACTT-TCCAAAATTAC
* * * *
6585535 ACTTTTACCCCTCGAAC-TTCTAAATATCAC
1 ATTTTTA-CCC-CAAACTTTCCAAA-ATTAC
*
6585565 ATTTTTACCCCAAACTTTCCTAAATTGAC
1 ATTTTTACCCCAAACTTTCCAAAATT-AC
* *
6585594 A-TTTTACCCTTAAAACTTTCCAAAATTAT
1 ATTTTTACCC--CAAACTTTCCAAAATTAC
* * *
6585623 ATTTTAACCCCAAACTCTTCGAAACTT-C
1 ATTTTTACCCCAAACT-TTCCAAAATTAC
6585651 ATTTTTAACCCCA
1 ATTTTT-ACCCCA
6585664 TTTTTCTTTA
Statistics
Matches: 147, Mismatches: 28, Indels: 26
0.73 0.14 0.13
Matches are distributed among these distances:
28 26 0.18
29 66 0.45
30 49 0.33
31 6 0.04
ACGTcount: A:0.34, C:0.25, G:0.02, T:0.38
Consensus pattern (28 bp):
ATTTTTACCCCAAACTTTCCAAAATTAC
Found at i:6585611 original size:58 final size:59
Alignment explanation
Indices: 6585497--6585638 Score: 146
Period size: 58 Copynumber: 2.4 Consensus size: 59
6585487 CAAATTTTTA
* **
6585497 AAAATCACATTTTTACCATCAAACTTCTCAAAAATTACACTTTTACCCCTCGAAC-TTCT
1 AAAATCACATTTTTACC-CCAAACTTCTCAAAAATTACACTTTTACCCCTAAAACTTTCT
** * *
6585556 AAATATCACATTTTTACCCCAAACTT-TCCTAAATTGACA-TTTTACCCTTAAAACTTTCC
1 AAA-ATCACATTTTTACCCCAAACTTCTCAAAAATT-ACACTTTTACCCCTAAAACTTTCT
* * *
6585615 AAAATTATATTTTAACCCCAAACT
1 AAAATCACATTTTTACCCCAAACT
6585639 CTTCGAAACT
Statistics
Matches: 70, Mismatches: 10, Indels: 7
0.80 0.11 0.08
Matches are distributed among these distances:
58 37 0.53
59 19 0.27
60 14 0.20
ACGTcount: A:0.37, C:0.27, G:0.01, T:0.35
Consensus pattern (59 bp):
AAAATCACATTTTTACCCCAAACTTCTCAAAAATTACACTTTTACCCCTAAAACTTTCT
Found at i:6587895 original size:25 final size:26
Alignment explanation
Indices: 6587822--6587911 Score: 80
Period size: 25 Copynumber: 3.5 Consensus size: 26
6587812 TAATTAAATT
* * *
6587822 AAATTAAATTAATTT-AAAAATATTA
1 AAATTATATAAATTTAAAAAATATAA
*
6587847 AAATTATATAAACTTATAATAAATA-AA
1 AAATTATATAAA-TT-TAAAAAATATAA
6587874 AAATTATA-AATATTTAAAAAATATAA
1 AAATTATATAA-ATTTAAAAAATATAA
6587900 AAATCTAT-TAAA
1 AAAT-TATATAAA
6587912 GTATATTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 13
0.75 0.07 0.18
Matches are distributed among these distances:
25 18 0.34
26 13 0.25
27 16 0.30
28 6 0.11
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (26 bp):
AAATTATATAAATTTAAAAAATATAA
Found at i:6588141 original size:27 final size:28
Alignment explanation
Indices: 6588096--6588148 Score: 83
Period size: 27 Copynumber: 1.9 Consensus size: 28
6588086 ACTTATGAAT
6588096 ATTATAAAAAATCTAATAAATCTAATCA
1 ATTATAAAAAATCTAATAAATCTAATCA
6588124 ATTATTAAAAAAT-T-ATAAATCTAAT
1 ATTA-TAAAAAATCTAATAAATCTAAT
6588149 TTTATTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 11 0.46
28 5 0.21
29 8 0.33
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.36
Consensus pattern (28 bp):
ATTATAAAAAATCTAATAAATCTAATCA
Found at i:6588155 original size:28 final size:29
Alignment explanation
Indices: 6588095--6588157 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
6588085 AACTTATGAA
6588095 TATTA-TAAAAAATCTAATAAATCTAATC
1 TATTATTAAAAAATCTAATAAATCTAATC
* *
6588123 AATTATTAAAAAAT-T-ATAAATCTAATTT
1 TATTATTAAAAAATCTAATAAATCTAA-TC
6588151 TATTATT
1 TATTATT
6588158 TCCAAATCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
27 10 0.33
28 12 0.40
29 8 0.27
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (29 bp):
TATTATTAAAAAATCTAATAAATCTAATC
Found at i:6588439 original size:3 final size:3
Alignment explanation
Indices: 6588433--6588471 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
6588423 ATGTTGTTTT
*
6588433 ATA ATA ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
6588472 TACATATACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:6597848 original size:100 final size:100
Alignment explanation
Indices: 6597675--6597874 Score: 382
Period size: 100 Copynumber: 2.0 Consensus size: 100
6597665 TAACTGTAAA
*
6597675 TAACAATAATGTATTTCGTAGATAATATACATAATTTTGTAACAAATAACAGGTTTAAACTCAGT
1 TAACAATAATGTATTTCGCAGATAATATACATAATTTTGTAACAAATAACAGGTTTAAACTCAGT
6597740 TGATTATGTGCTACTATTAAGATTAAAAAAATGGC
66 TGATTATGTGCTACTATTAAGATTAAAAAAATGGC
6597775 TAACAATAATGTATTTCGCAGATAATATACATAATTTTGTAACAAATAACAGGTTTAAACTCAGT
1 TAACAATAATGTATTTCGCAGATAATATACATAATTTTGTAACAAATAACAGGTTTAAACTCAGT
*
6597840 TGATTATGTGCTACTATTAAGATTAAAACAATGGC
66 TGATTATGTGCTACTATTAAGATTAAAAAAATGGC
6597875 CAGCCGCCAG
Statistics
Matches: 98, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
100 98 1.00
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.34
Consensus pattern (100 bp):
TAACAATAATGTATTTCGCAGATAATATACATAATTTTGTAACAAATAACAGGTTTAAACTCAGT
TGATTATGTGCTACTATTAAGATTAAAAAAATGGC
Found at i:6601816 original size:48 final size:46
Alignment explanation
Indices: 6601755--6601873 Score: 143
Period size: 48 Copynumber: 2.5 Consensus size: 46
6601745 GCGCTCTTTG
*
6601755 ATTAGCACTGTGTGTGCTCTCTGTTTAGCACATCTCGTG-CTCTCTGTT
1 ATTAGCACTGTGTGTGCTCTCTGTTCAGCAC-T-TCGTGACTCTCTG-T
* * *
6601803 ATTAGCACTGTGTGTGCTCTCTGATCAGTACTTTGTGTACTCTCTGT
1 ATTAGCACTGTGTGTGCTCTCTGTTCAGCACTTCGTG-ACTCTCTGT
*
6601850 -TTAGCACTTTGTGTGCTCTCTGTT
1 ATTAGCACTGTGTGTGCTCTCTGTT
6601874 GCCCAGCACT
Statistics
Matches: 63, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
46 26 0.41
47 2 0.03
48 35 0.56
ACGTcount: A:0.13, C:0.23, G:0.21, T:0.44
Consensus pattern (46 bp):
ATTAGCACTGTGTGTGCTCTCTGTTCAGCACTTCGTGACTCTCTGT
Found at i:6601866 original size:71 final size:71
Alignment explanation
Indices: 6601747--6601922 Score: 196
Period size: 71 Copynumber: 2.5 Consensus size: 71
6601737 ACACTAGCGC
* * * * **
6601747 GCTCTTTGATTAGCACTGTGTGTGCTCTCTGTTTAGCACATCTCGTGCTCTCTGTT-ATTAGCAC
1 GCTCTTTGATCAGTACTTTGTGTACTCTCTGTTTAGCACATCTCGTGCTCTCTGTTGACCAGCAC
*
6601811 TGTGTGT
66 T-TATGT
* * * *
6601818 GCTCTCTGATCAGTACTTTGTGTACTCTCTGTTTAGCAC-TTTGTGTGCTCTCTGTTGCCCAGCA
1 GCTCTTTGATCAGTACTTTGTGTACTCTCTGTTTAGCACATCT-CGTGCTCTCTGTTGACCAGCA
6601882 CTTATGT
65 CTTATGT
* *
6601889 GCTCTTTGTTCAGTACTTCG-GTACTCTCTGTTTA
1 GCTCTTTGATCAGTACTTTGTGTACTCTCTGTTTA
6601923 TTCCGTTCAT
Statistics
Matches: 89, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
70 16 0.18
71 67 0.75
72 6 0.07
ACGTcount: A:0.12, C:0.24, G:0.20, T:0.43
Consensus pattern (71 bp):
GCTCTTTGATCAGTACTTTGTGTACTCTCTGTTTAGCACATCTCGTGCTCTCTGTTGACCAGCAC
TTATGT
Found at i:6601872 original size:23 final size:23
Alignment explanation
Indices: 6601747--6601873 Score: 130
Period size: 23 Copynumber: 5.4 Consensus size: 23
6601737 ACACTAGCGC
* *
6601747 GCTCTTTGATTAGCACTGTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* *
6601770 GCTCTCTGTTTAGCACATCT-CGT
1 GCTCTCTGTTTAGCAC-TGTGTGT
6601793 GCTCTCTGTTATTAGCACTGTGTGT
1 GCTCTCTG-T-TTAGCACTGTGTGT
* * * *
6601818 GCTCTCTGATCAGTACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
* *
6601841 ACTCTCTGTTTAGCACTTTGTGT
1 GCTCTCTGTTTAGCACTGTGTGT
6601864 GCTCTCTGTT
1 GCTCTCTGTT
6601874 GCCCAGCACT
Statistics
Matches: 85, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
23 63 0.74
24 5 0.06
25 17 0.20
ACGTcount: A:0.12, C:0.23, G:0.21, T:0.44
Consensus pattern (23 bp):
GCTCTCTGTTTAGCACTGTGTGT
Found at i:6610059 original size:21 final size:22
Alignment explanation
Indices: 6610033--6610080 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
6610023 ATTTTTCACA
*
6610033 TATTATGAAAATATTAAATA-T
1 TATTATGAAAATAGTAAATATT
**
6610054 TATTATGTTAATAGTAAATATT
1 TATTATGAAAATAGTAAATATT
6610076 TATTA
1 TATTA
6610081 CAATTATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (22 bp):
TATTATGAAAATAGTAAATATT
Found at i:6621039 original size:18 final size:17
Alignment explanation
Indices: 6621018--6621056 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
6621008 TGTAAAGTTT
*
6621018 TTAAAAAATAATATAATA
1 TTAAAAAATAA-ATAAAA
6621036 TT-AAAAATAAATAAAA
1 TTAAAAAATAAATAAAA
6621052 TTAAA
1 TTAAA
6621057 GTAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
16 7 0.37
17 10 0.53
18 2 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
TTAAAAAATAAATAAAA
Found at i:6621049 original size:16 final size:17
Alignment explanation
Indices: 6621021--6621056 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
6621011 AAAGTTTTTA
*
6621021 AAAAATAATATAATATT
1 AAAAATAATATAAAATT
6621038 AAAAATAA-ATAAAATT
1 AAAAATAATATAAAATT
6621054 AAA
1 AAA
6621057 GTAATTGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (17 bp):
AAAAATAATATAAAATT
Found at i:6624906 original size:23 final size:22
Alignment explanation
Indices: 6624880--6624993 Score: 106
Period size: 23 Copynumber: 5.0 Consensus size: 22
6624870 TTACCGTTCA
*
6624880 GCACTGTGTGTGCTTACTGTTTC
1 GCACT-TGTGTGCCTACTGTTTC
6624903 GCACTTTGTGTGCCTACTGTTTC
1 GCAC-TTGTGTGCCTACTGTTTC
6624926 GCACTTCGTGTGCCTACTGATTT-
1 GCACTT-GTGTGCCTACTG-TTTC
* * *
6624949 GCGCTATGTGCGCCTACTGATT-
1 GCACT-TGTGTGCCTACTGTTTC
* *
6624971 ACACTGTGTGTGCTTACTGTTTC
1 GCACT-TGTGTGCCTACTGTTTC
6624994 CCCAGCACTT
Statistics
Matches: 76, Mismatches: 10, Indels: 10
0.79 0.10 0.10
Matches are distributed among these distances:
22 20 0.26
23 51 0.67
24 5 0.07
ACGTcount: A:0.11, C:0.25, G:0.24, T:0.40
Consensus pattern (22 bp):
GCACTTGTGTGCCTACTGTTTC
Found at i:6631113 original size:32 final size:35
Alignment explanation
Indices: 6631077--6631154 Score: 117
Period size: 32 Copynumber: 2.3 Consensus size: 35
6631067 TTAACATGTG
6631077 TATTTAAAATATTTCACATAT-A-AA-TATAATGA
1 TATTTAAAATATTTCACATATAAGAATTATAATGA
* *
6631109 TATTTAAAATATTTTACATATAAGAATTATAATTA
1 TATTTAAAATATTTCACATATAAGAATTATAATGA
6631144 TATTTAAAATA
1 TATTTAAAATA
6631155 ATTATTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
32 20 0.49
33 1 0.02
34 2 0.05
35 18 0.44
ACGTcount: A:0.50, C:0.04, G:0.03, T:0.44
Consensus pattern (35 bp):
TATTTAAAATATTTCACATATAAGAATTATAATGA
Found at i:6632781 original size:7 final size:7
Alignment explanation
Indices: 6632765--6632838 Score: 139
Period size: 7 Copynumber: 10.6 Consensus size: 7
6632755 TTTTAGATCT
*
6632765 TTTCTAG
1 TTTCTGG
6632772 TTTCTGG
1 TTTCTGG
6632779 TTTCTGG
1 TTTCTGG
6632786 TTTCTGG
1 TTTCTGG
6632793 TTTCTGG
1 TTTCTGG
6632800 TTTCTGG
1 TTTCTGG
6632807 TTTCTGG
1 TTTCTGG
6632814 TTTCTGG
1 TTTCTGG
6632821 TTTCTGG
1 TTTCTGG
6632828 TTTCTGG
1 TTTCTGG
6632835 TTTC
1 TTTC
6632839 AATCGCATCC
Statistics
Matches: 66, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
7 66 1.00
ACGTcount: A:0.01, C:0.15, G:0.26, T:0.58
Consensus pattern (7 bp):
TTTCTGG
Found at i:6636595 original size:25 final size:27
Alignment explanation
Indices: 6636565--6636627 Score: 85
Period size: 25 Copynumber: 2.4 Consensus size: 27
6636555 GGTTTAAGTC
6636565 TATTTAAAATTAAAATT-TTAAAGG-T
1 TATTTAAAATTAAAATTATTAAAGGTT
* **
6636590 TATTTAAAATTAAATTTATTTTAGGTT
1 TATTTAAAATTAAAATTATTAAAGGTT
6636617 TATTTAAAATT
1 TATTTAAAATT
6636628 TTTCATGATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
25 16 0.48
26 5 0.15
27 12 0.36
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (27 bp):
TATTTAAAATTAAAATTATTAAAGGTT
Found at i:6643286 original size:13 final size:13
Alignment explanation
Indices: 6643268--6643293 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6643258 TTTACATGTT
6643268 TGGTTGATGAGAA
1 TGGTTGATGAGAA
6643281 TGGTTGATGAGAA
1 TGGTTGATGAGAA
6643294 AATATAAATA
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:0.31, C:0.00, G:0.38, T:0.31
Consensus pattern (13 bp):
TGGTTGATGAGAA
Found at i:6643304 original size:6 final size:6
Alignment explanation
Indices: 6643293--6643341 Score: 53
Period size: 6 Copynumber: 7.5 Consensus size: 6
6643283 GTTGATGAGA
*
6643293 AAATAT AAATAT AAATAT AAAGTAT AAAAAAAT AAATAT AAATTAT AAA
1 AAATAT AAATAT AAATAT AAA-TAT --AAATAT AAATAT AAA-TAT AAA
6643342 AATTTGAACA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
6 23 0.62
7 9 0.24
8 2 0.05
9 3 0.08
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (6 bp):
AAATAT
Found at i:6643329 original size:21 final size:21
Alignment explanation
Indices: 6643303--6643343 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6643293 AAATATAAAT
6643303 ATAAATATAAAGTATAAAAAA
1 ATAAATATAAAGTATAAAAAA
*
6643324 ATAAATATAAATTATAAAAA
1 ATAAATATAAAGTATAAAAA
6643344 TTTGAACAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (21 bp):
ATAAATATAAAGTATAAAAAA
Found at i:6645535 original size:22 final size:22
Alignment explanation
Indices: 6645461--6645585 Score: 151
Period size: 23 Copynumber: 5.5 Consensus size: 22
6645451 GCCGGGGAAA
* *
6645461 CAGTAAGCACACACAGCGCAAT
1 CAGTAGGCACACACAGTGCAAT
6645483 CCAGTAGGCACACACAGTGCAAT
1 -CAGTAGGCACACACAGTGCAAT
*
6645506 CCAGTAGGCACACACAATGCAAT
1 -CAGTAGGCACACACAGTGCAAT
* *
6645529 CAGTAGGCGCACATAGTGCAAT
1 CAGTAGGCACACACAGTGCAAT
* * *
6645551 CAGTAGGCGCACATAGCGCAAAT
1 CAGTAGGCACACACAGTGC-AAT
6645574 CAGTAGGCACAC
1 CAGTAGGCACAC
6645586 GAAGTGTGAA
Statistics
Matches: 93, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
22 37 0.40
23 56 0.60
ACGTcount: A:0.36, C:0.29, G:0.22, T:0.13
Consensus pattern (22 bp):
CAGTAGGCACACACAGTGCAAT
Found at i:6645548 original size:45 final size:44
Alignment explanation
Indices: 6645461--6645585 Score: 160
Period size: 45 Copynumber: 2.8 Consensus size: 44
6645451 GCCGGGGAAA
*
6645461 CAGTAAGCACACACAGCGCAATCCAGTAGGCACACACAGTGCAAT
1 CAGTAGGCACACACAGCGCAAT-CAGTAGGCACACACAGTGCAAT
** * *
6645506 CCAGTAGGCACACACAATGCAATCAGTAGGCGCACATAGTGCAAT
1 -CAGTAGGCACACACAGCGCAATCAGTAGGCACACACAGTGCAAT
* *
6645551 CAGTAGGCGCACATAGCGCAAATCAGTAGGCACAC
1 CAGTAGGCACACACAGCGC-AATCAGTAGGCACAC
6645586 GAAGTGTGAA
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
44 15 0.22
45 34 0.50
46 19 0.28
ACGTcount: A:0.36, C:0.29, G:0.22, T:0.13
Consensus pattern (44 bp):
CAGTAGGCACACACAGCGCAATCAGTAGGCACACACAGTGCAAT
Found at i:6651903 original size:22 final size:22
Alignment explanation
Indices: 6651852--6651953 Score: 123
Period size: 22 Copynumber: 4.5 Consensus size: 22
6651842 GCCGGGGAAA
*
6651852 CAGTAAGCACACACAGTGCAAT
1 CAGTAGGCACACACAGTGCAAT
6651874 CCAGTAGGCACACACAGTGCAAT
1 -CAGTAGGCACACACAGTGCAAT
* * *
6651897 CAGTAGGCGCATATAGTGCAAT
1 CAGTAGGCACACACAGTGCAAT
* * *
6651919 CAGTAGGCGCACATAGCGCAAAT
1 CAGTAGGCACACACAGTGC-AAT
6651942 CAGTAGGCACAC
1 CAGTAGGCACAC
6651954 GAAGTGTGAA
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
22 36 0.51
23 35 0.49
ACGTcount: A:0.35, C:0.26, G:0.24, T:0.15
Consensus pattern (22 bp):
CAGTAGGCACACACAGTGCAAT
Found at i:6655186 original size:15 final size:17
Alignment explanation
Indices: 6655166--6655203 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
6655156 AATATAAATT
6655166 ATAATTT-TTAAT-TAA
1 ATAATTTATTAATATAA
*
6655181 ATAATTTATTATTATAA
1 ATAATTTATTAATATAA
6655198 ATAATT
1 ATAATT
6655204 AAAATTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 4 0.20
17 9 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATAATTTATTAATATAA
Found at i:6659881 original size:3 final size:3
Alignment explanation
Indices: 6659873--6659923 Score: 50
Period size: 3 Copynumber: 17.0 Consensus size: 3
6659863 GAGATGACAG
* * * *
6659873 TGA TGA TGA TGA TGA TGA TAA TGG TG- TGGA CGA TGA TGA TGT TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA T-GA TGA TGA TGA TGA TGA
6659918 TGA TGA
1 TGA TGA
6659924 AACAGGCTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
2 1 0.03
3 38 0.97
ACGTcount: A:0.29, C:0.02, G:0.35, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:6662512 original size:99 final size:98
Alignment explanation
Indices: 6662397--6662699 Score: 311
Period size: 103 Copynumber: 3.0 Consensus size: 98
6662387 CAAAATTGGC
* *
6662397 TTTTCAAAGTCGGTCTTTCGCGATCTTAATCGTTTGTTAAAAAAAAATGAAGAGATTAAAATTCA
1 TTTTCAAAGTAGGTCTTTC-CGATCTTTATCGTTTGTTAAAAAAAAATGAAGAGATTAAAATTCA
*
6662462 TAATTATGAAAAAAGATGAAGAAAAAGATTCGAT
65 TAATTATGACAAAAGATGAAGAAAAAGATTCGAT
* * * *
6662496 TTTTCAACGTGGGTCTTTTACGATCTTTATCGTTTGTTAAAAAAGAAAATATTAAGAGATTAAAA
1 TTTTCAAAGTAGGTC-TTTCCGATCTTTATCGTTTGTT--AAAA-AAAA-ATGAAGAGATTAAAA
* *
6662561 TTCATAATTATGACAAAAGATGAAAAAAAAGAAGATTTGAT
61 TTCATAATTATGACAAAAGATG--AAGAAA-AAGATTCGAT
* * * * * *
6662602 TTTTCAATGCAGGTCTTTACTGATCTTTATCATTTGTTAAAAAGGAAAA-GTACTGAAATTAAAA
1 TTTTCAAAGTAGGTCTTT-CCGATCTTTATCGTTTGTTAAAAA--AAAATG-A-AGAGATTAAAA
** *
6662666 TTCATAAAAATGGCAAAAGATGAAGAAAAAGATT
61 TTCATAATTATGACAAAAGATGAAGAAAAAGATT
6662700 TGGTTTTTGA
Statistics
Matches: 170, Mismatches: 21, Indels: 23
0.79 0.10 0.11
Matches are distributed among these distances:
99 30 0.18
100 3 0.02
101 4 0.02
102 10 0.06
103 41 0.24
104 6 0.04
105 39 0.23
106 37 0.22
ACGTcount: A:0.44, C:0.09, G:0.16, T:0.32
Consensus pattern (98 bp):
TTTTCAAAGTAGGTCTTTCCGATCTTTATCGTTTGTTAAAAAAAAATGAAGAGATTAAAATTCAT
AATTATGACAAAAGATGAAGAAAAAGATTCGAT
Found at i:6662642 original size:106 final size:106
Alignment explanation
Indices: 6662408--6662697 Score: 330
Period size: 105 Copynumber: 2.8 Consensus size: 106
6662398 TTTCAAAGTC
** * *
6662408 GGTCTTTCGCGATCTTAATCGTTTGTT--AAAA-AAAA-ATGAAGAGATTAAAATTCATAATTAT
1 GGTCTTTTACGATCTTTATCGTTTGTTAAAAAAGAAAATATTAAGAGATTAAAATTCATAATTAT
* * **
6662469 GAAAAAAGATG--AAGAAA-AAGATTCGATTTTTCAACGTG
66 GACAAAAGATGAAAAAAAAGAAGATTCGATTTTTCAACGCA
6662507 GGTCTTTTACGATCTTTATCGTTTGTTAAAAAAGAAAATATTAAGAGATTAAAATTCATAATTAT
1 GGTCTTTTACGATCTTTATCGTTTGTTAAAAAAGAAAATATTAAGAGATTAAAATTCATAATTAT
* *
6662572 GACAAAAGATGAAAAAAAAGAAGATTTGATTTTTCAATGCA
66 GACAAAAGATGAAAAAAAAGAAGATTCGATTTTTCAACGCA
* * * * **
6662613 GGTC-TTTACTGATCTTTATCATTTGTTAAAAAGGAAAAGTACT--GAAATTAAAATTCATAAAA
1 GGTCTTTTAC-GATCTTTATCGTTTGTTAAAAAAGAAAA-TATTAAGAGATTAAAATTCATAATT
* *
6662675 ATGGCAAAAGATGAAGAAAAAGA
64 ATGACAAAAGATGAAAAAAAAGA
6662698 TTTGGTTTTT
Statistics
Matches: 164, Mismatches: 18, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
99 24 0.15
101 4 0.02
102 4 0.02
103 35 0.21
105 47 0.29
106 47 0.29
107 3 0.02
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.31
Consensus pattern (106 bp):
GGTCTTTTACGATCTTTATCGTTTGTTAAAAAAGAAAATATTAAGAGATTAAAATTCATAATTAT
GACAAAAGATGAAAAAAAAGAAGATTCGATTTTTCAACGCA
Found at i:6662695 original size:105 final size:105
Alignment explanation
Indices: 6662408--6662697 Score: 319
Period size: 106 Copynumber: 2.8 Consensus size: 105
6662398 TTTCAAAGTC
** * * *
6662408 GGTCTTTCGCGATCTTAATCGTTTGTT-AAAAA-AAAATGA--AGAGATTAAAATTCATAATTAT
1 GGTCTTTTACGATCTTTATCATTTGTTAAAAAAGAAAAT-ACTAGAAATTAAAATTCATAATTAT
* **
6662469 GAAAAAAGATGAAG--AAA-AAGATTCGATTTTTCAACGTG
65 GACAAAAGATGAAGAAAAAGAAGATTCGATTTTTCAACGCA
* * *
6662507 GGTCTTTTACGATCTTTATCGTTTGTTAAAAAAGAAAATATTAAGAGATTAAAATTCATAATTAT
1 GGTCTTTTACGATCTTTATCATTTGTTAAAAAAGAAAATACT-AGAAATTAAAATTCATAATTAT
* * *
6662572 GACAAAAGATGAAAAAAAAGAAGATTTGATTTTTCAATGCA
65 GACAAAAGATGAAGAAAAAGAAGATTCGATTTTTCAACGCA
* **
6662613 GGTC-TTTACTGATCTTTATCATTTGTTAAAAAGGAAAAGTACT-GAAATTAAAATTCATAAAAA
1 GGTCTTTTAC-GATCTTTATCATTTGTTAAAAAAGAAAA-TACTAGAAATTAAAATTCATAATTA
*
6662676 TGGCAAAAGATGAAGAAAAAGA
64 TGACAAAAGATGAAGAAAAAGA
6662698 TTTGGTTTTT
Statistics
Matches: 164, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
99 24 0.15
100 6 0.04
101 5 0.03
103 34 0.21
105 45 0.27
106 47 0.29
107 3 0.02
ACGTcount: A:0.44, C:0.08, G:0.16, T:0.31
Consensus pattern (105 bp):
GGTCTTTTACGATCTTTATCATTTGTTAAAAAAGAAAATACTAGAAATTAAAATTCATAATTATG
ACAAAAGATGAAGAAAAAGAAGATTCGATTTTTCAACGCA
Found at i:6671707 original size:14 final size:14
Alignment explanation
Indices: 6671690--6671723 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
6671680 AAATTAAAAA
6671690 TTTTATACTTAATT
1 TTTTATACTTAATT
*
6671704 TTTTAATATTTAATT
1 TTTT-ATACTTAATT
6671719 TTTTA
1 TTTTA
6671724 ATTTATCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (14 bp):
TTTTATACTTAATT
Done.