Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
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: 6772376
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 31 of 32
Found at i:6433249 original size:18 final size:19
Alignment explanation
Indices: 6433214--6433250 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
6433204 CACGGAATGT
6433214 AAGATTACCAGTGGGAATAA
1 AAGATTACCAG-GGGAATAA
6433234 AAGATTACCA-GGGAATA
1 AAGATTACCAGGGGAATA
6433251 GGATTACTAG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 7 0.41
20 10 0.59
ACGTcount: A:0.46, C:0.11, G:0.24, T:0.19
Consensus pattern (19 bp):
AAGATTACCAGGGGAATAA
Found at i:6434014 original size:13 final size:13
Alignment explanation
Indices: 6433996--6434021 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6433986 GACACGAACA
6433996 AAAATTTCTATAT
1 AAAATTTCTATAT
6434009 AAAATTTCTATAT
1 AAAATTTCTATAT
6434022 TTTGAATTAA
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:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAATTTCTATAT
Found at i:6436017 original size:37 final size:34
Alignment explanation
Indices: 6435976--6436072 Score: 85
Period size: 38 Copynumber: 2.8 Consensus size: 34
6435966 CATTAAACCT
6435976 TTTTATATTTTCAATTTTATAAAAAAATTTATATAAA
1 TTTTATATTTTCAATTTT-TAAAAAAA--TATATAAA
* *
6436013 TTTTATGAATTTAAATTTTTAAAGAAAATATATAAA
1 TTTTAT-ATTTTCAATTTTTAAA-AAAATATATAAA
6436049 ---TAT-TTTTCAATTTGTTTAAAAAAA
1 TTTTATATTTTCAA-TT-TTTAAAAAAA
6436073 CAAATATATA
Statistics
Matches: 52, Mismatches: 4, Indels: 13
0.75 0.06 0.19
Matches are distributed among these distances:
31 5 0.10
32 6 0.12
33 9 0.17
36 8 0.15
37 10 0.19
38 14 0.27
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.48
Consensus pattern (34 bp):
TTTTATATTTTCAATTTTTAAAAAAATATATAAA
Found at i:6437278 original size:2 final size:2
Alignment explanation
Indices: 6437271--6437303 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
6437261 AACAAACTTT
*
6437271 TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
6437304 ATATATATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:6444116 original size:76 final size:76
Alignment explanation
Indices: 6443990--6444141 Score: 286
Period size: 76 Copynumber: 2.0 Consensus size: 76
6443980 ACTATAAGGT
*
6443990 GTTGTTTTATTAAGTTTATTGATTATCAAAAGTTATAAAATGAGTCCCGACTAAAGGATGTTGTT
1 GTTGTTTTATTAAGTTTATTGATTATCAAAAGTTATAAAATGAGTCCCGACTAAAGGATATTGTT
6444055 TTGTTGAATCC
66 TTGTTGAATCC
*
6444066 GTTGTTTTATTAAGTTTATTGATTATCAAAAGTTATAAAATGGGTCCCGACTAAAGGATATTGTT
1 GTTGTTTTATTAAGTTTATTGATTATCAAAAGTTATAAAATGAGTCCCGACTAAAGGATATTGTT
6444131 TTGTTGAATCC
66 TTGTTGAATCC
6444142 CTCGACTATA
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
76 74 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.42
Consensus pattern (76 bp):
GTTGTTTTATTAAGTTTATTGATTATCAAAAGTTATAAAATGAGTCCCGACTAAAGGATATTGTT
TTGTTGAATCC
Found at i:6444232 original size:22 final size:22
Alignment explanation
Indices: 6444207--6444283 Score: 102
Period size: 22 Copynumber: 3.5 Consensus size: 22
6444197 TATTCTAAAT
6444207 ACTCTCAATCATTTGACAATGA
1 ACTCTCAATCATTTGACAATGA
* *
6444229 ACTCTCAATCATTTGATAATAA
1 ACTCTCAATCATTTGACAATGA
*
6444251 ACTCTCAGTCATTTGACAATTG-
1 ACTCTCAATCATTTGACAA-TGA
*
6444273 ACGCTCAATCA
1 ACTCTCAATCA
6444284 CCCTTACTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
22 46 0.98
23 1 0.02
ACGTcount: A:0.35, C:0.23, G:0.09, T:0.32
Consensus pattern (22 bp):
ACTCTCAATCATTTGACAATGA
Found at i:6457528 original size:4 final size:4
Alignment explanation
Indices: 6457519--6457544 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
6457509 TTTTATGTTG
6457519 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
6457545 CTTATATTTT
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:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:6458552 original size:27 final size:31
Alignment explanation
Indices: 6458510--6458585 Score: 88
Period size: 27 Copynumber: 2.6 Consensus size: 31
6458500 GGTGTTCAAA
* *
6458510 TAACCGAACTAATTCGGTTAA-TC-GATC-G
1 TAACCGAATTAGTTCGGTTAATTCGGATCGG
*
6458538 -AACCGAATTAGTTCGGTTAATTCGGTTCGG
1 TAACCGAATTAGTTCGGTTAATTCGGATCGG
*
6458568 TTACCGAATTAGTTCGGT
1 TAACCGAATTAGTTCGGT
6458586 CGGTTAACGG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
27 18 0.45
28 2 0.05
29 3 0.08
30 1 0.03
31 16 0.40
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.33
Consensus pattern (31 bp):
TAACCGAATTAGTTCGGTTAATTCGGATCGG
Found at i:6459180 original size:15 final size:15
Alignment explanation
Indices: 6459160--6459188 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6459150 AAAAAAAATT
6459160 TGGTTAATTCGGTTA
1 TGGTTAATTCGGTTA
6459175 TGGTTAATTCGGTT
1 TGGTTAATTCGGTT
6459189 CGGTCGGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.07, G:0.28, T:0.48
Consensus pattern (15 bp):
TGGTTAATTCGGTTA
Found at i:6463221 original size:18 final size:19
Alignment explanation
Indices: 6463180--6463218 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
6463170 TTGGTTCACC
6463180 GAATGTAAGATTACCAGTGG
1 GAATGTAAGATTACCAG-GG
6463200 GAATGTAAGATTACCAGGG
1 GAATGTAAGATTACCAGGG
6463219 AATATGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 2 0.11
20 17 0.89
ACGTcount: A:0.36, C:0.10, G:0.31, T:0.23
Consensus pattern (19 bp):
GAATGTAAGATTACCAGGG
Found at i:6467108 original size:177 final size:176
Alignment explanation
Indices: 6466791--6467147 Score: 660
Period size: 177 Copynumber: 2.0 Consensus size: 176
6466781 TATTTTAGAT
* * *
6466791 AAATGGATCTAATATTTATTAAAATATTAATCATTGTATGATAAAACTGACTTGGATTAATGATT
1 AAATAGATCTAATATTTATTAAAATATTAATCATTGTATGATAAAACTGACTTAGATTAATGAAT
* *
6466856 AAAACACGTAATTAAATTATCATAAGCTTTGAATACTTAACGAATTATACCTTAATATTTTCTTT
66 AAAACACGTAATTAAAATATCAAAAGCTTTGAATACTTAACGAATTATACCTTAATATTTTCTTT
6466921 TAAAAATTATGAAATGACCCTCAAAGCTTTGAGTTTTTTATTTCTC
131 TAAAAATTATGAAATGACCCTCAAAGCTTTGAGTTTTTTATTTCTC
6466967 AAATAGATCTAATATTTATTAAAATATTAATCATTGTATGATAAAACTGACTTAGATTAATGAAT
1 AAATAGATCTAATATTTATTAAAATATTAATCATTGTATGATAAAACTGACTTAGATTAATGAAT
6467032 AAAACAACGTAATTAAAATATCAAAAGCTTTGAATACTTAACGAATTATACCTTAATATTTTCTT
66 AAAAC-ACGTAATTAAAATATCAAAAGCTTTGAATACTTAACGAATTATACCTTAATATTTTCTT
6467097 TTAAAAATTATGAAATGACCCTCAAAGCTTTGAGTTTTTTATTTCTC
130 TTAAAAATTATGAAATGACCCTCAAAGCTTTGAGTTTTTTATTTCTC
6467144 AAAT
1 AAAT
6467148 GATAAAGCAT
Statistics
Matches: 175, Mismatches: 5, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
176 67 0.38
177 108 0.62
ACGTcount: A:0.41, C:0.11, G:0.09, T:0.39
Consensus pattern (176 bp):
AAATAGATCTAATATTTATTAAAATATTAATCATTGTATGATAAAACTGACTTAGATTAATGAAT
AAAACACGTAATTAAAATATCAAAAGCTTTGAATACTTAACGAATTATACCTTAATATTTTCTTT
TAAAAATTATGAAATGACCCTCAAAGCTTTGAGTTTTTTATTTCTC
Found at i:6467700 original size:16 final size:16
Alignment explanation
Indices: 6467679--6467713 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
6467669 GAGAGAGAAA
6467679 ATGACTAGGATGACAC
1 ATGACTAGGATGACAC
6467695 ATGACTAGGATGACAC
1 ATGACTAGGATGACAC
6467711 ATG
1 ATG
6467714 GGTTCCGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.37, C:0.17, G:0.26, T:0.20
Consensus pattern (16 bp):
ATGACTAGGATGACAC
Found at i:6468658 original size:21 final size:20
Alignment explanation
Indices: 6468625--6468664 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
6468615 CTCCAATTTT
6468625 GCAACACAGTTTCCAAATTC
1 GCAACACAGTTTCCAAATTC
* *
6468645 GCAACTCAGTTTTCAAATTC
1 GCAACACAGTTTCCAAATTC
6468665 ACAATTCGAA
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:0.33, C:0.28, G:0.10, T:0.30
Consensus pattern (20 bp):
GCAACACAGTTTCCAAATTC
Found at i:6468755 original size:22 final size:22
Alignment explanation
Indices: 6468727--6468782 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
6468717 AGAAAAAATC
6468727 CGCAACTCGAATTCGCCAATTT
1 CGCAACTCGAATTCGCCAATTT
*
6468749 CGCAACTTGAATTCGCCAATTT
1 CGCAACTCGAATTCGCCAATTT
*
6468771 AGCAACTC-AATT
1 CGCAACTCGAATT
6468783 ACTGATATAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
21 4 0.13
22 27 0.87
ACGTcount: A:0.30, C:0.29, G:0.12, T:0.29
Consensus pattern (22 bp):
CGCAACTCGAATTCGCCAATTT
Found at i:6468929 original size:22 final size:20
Alignment explanation
Indices: 6468904--6468955 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
6468894 TGAAAACTGA
*
6468904 GTTGCGAATTTAGGAAATTCTT
1 GTTGCGAATTT-GG-AATTCGT
* *
6468926 GTTGCGAAATTGGAGTTCGT
1 GTTGCGAATTTGGAATTCGT
6468946 GTTGCGAATT
1 GTTGCGAATT
6468956 CGTTGGTTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 14 0.54
21 2 0.08
22 10 0.38
ACGTcount: A:0.23, C:0.10, G:0.29, T:0.38
Consensus pattern (20 bp):
GTTGCGAATTTGGAATTCGT
Found at i:6469670 original size:18 final size:18
Alignment explanation
Indices: 6469647--6469681 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6469637 AACATTCTTA
* *
6469647 GTAATCTTATTTCCGCCG
1 GTAATCCTATTCCCGCCG
6469665 GTAATCCTATTCCCGCC
1 GTAATCCTATTCCCGCC
6469682 AATAATTTTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.34, G:0.14, T:0.34
Consensus pattern (18 bp):
GTAATCCTATTCCCGCCG
Found at i:6471414 original size:20 final size:20
Alignment explanation
Indices: 6471389--6471426 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6471379 TTTTAGTACC
6471389 TAAACTTTTAATTTTTTCCA
1 TAAACTTTTAATTTTTTCCA
6471409 TAAACTTTTAATTTTTTC
1 TAAACTTTTAATTTTTTC
6471427 TAAATTATAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.13, G:0.00, T:0.58
Consensus pattern (20 bp):
TAAACTTTTAATTTTTTCCA
Found at i:6472364 original size:29 final size:30
Alignment explanation
Indices: 6472297--6472364 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
6472287 TAATCATCTG
*
6472297 ATGATATAATTGAAGTTAAAATAAAATTTTA
1 ATGATATAATTGAAG-TAAAATAAAAATTTA
* *
6472328 AT-ATTATAGTTGAAG-AAATTAAAAATTTA
1 ATGA-TATAATTGAAGTAAAATAAAAATTTA
6472357 ATGATATA
1 ATGATATA
6472365 TGATCCAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
29 18 0.56
30 2 0.06
31 12 0.38
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (30 bp):
ATGATATAATTGAAGTAAAATAAAAATTTA
Found at i:6473789 original size:40 final size:39
Alignment explanation
Indices: 6473727--6473806 Score: 88
Period size: 40 Copynumber: 2.0 Consensus size: 39
6473717 CTTATAAGGT
* * *
6473727 TTTTTAATAGGCCTAAATCTGACATATTTAATTAAATAGG
1 TTTTTAAAAGGCCTAAACCTGACAT-TTTAACTAAATAGG
* * * *
6473767 TTTTTAAAAGGCCTGAGCCTGACCTTTTTACTAAATAGG
1 TTTTTAAAAGGCCTAAACCTGACATTTTAACTAAATAGG
6473806 T
1 T
6473807 CAGGTCAGGC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
39 13 0.39
40 20 0.61
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.39
Consensus pattern (39 bp):
TTTTTAAAAGGCCTAAACCTGACATTTTAACTAAATAGG
Found at i:6478686 original size:12 final size:12
Alignment explanation
Indices: 6478665--6478697 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
6478655 CTTATCTTCT
*
6478665 AATTGGTGCTTA
1 AATTGATGCTTA
6478677 AATTGATGCTTA
1 AATTGATGCTTA
6478689 AATTGATGC
1 AATTGATGC
6478698 ATAGAATAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.39
Consensus pattern (12 bp):
AATTGATGCTTA
Found at i:6478814 original size:82 final size:82
Alignment explanation
Indices: 6478677--6478948 Score: 429
Period size: 82 Copynumber: 3.3 Consensus size: 82
6478667 TTGGTGCTTA
* ** *
6478677 AATTGATGCTTAAATTGATGCATAGAATAGCCTAAATGGAAGTGTTAATCTCAAAGGGTCGTTTT
1 AATTGGTGCTTAAATTGATGCATAGCTTAGCCTACATGGAAGTGTTAATCTCAAAGGGTC-TTTT
6478742 TAGTG-ACCTTATCGTCT
65 TAGTGAACCTTATCGTCT
* *
6478759 AATTGGTGCTTAAATTTATGCATAGCTTAGCCTACATGGAAGTGTTAATCTCAAAGGGTCATTTT
1 AATTGGTGCTTAAATTGATGCATAGCTTAGCCTACATGGAAGTGTTAATCTCAAAGGGTCTTTTT
6478824 AGTGAACCTTATCGTCT
66 AGTGAACCTTATCGTCT
* *
6478841 AATTGGTGCTTAAATTTATGCATAGCTTAGGCTACATGGAAGTGTTAATCTCAAAGGGTCATTTT
1 AATTGGTGCTTAAATTGATGCATAGCTTAGCCTACATGGAAGTGTTAATCTCAAAGGGTC-TTTT
*
6478906 TAGTGAACCTTATCATCT
65 TAGTGAACCTTATCGTCT
*
6478924 AATTGGTGCCTAAATTGATGCATAG
1 AATTGGTGCTTAAATTGATGCATAG
6478949 ATGGACCTCA
Statistics
Matches: 177, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
81 8 0.05
82 126 0.71
83 43 0.24
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36
Consensus pattern (82 bp):
AATTGGTGCTTAAATTGATGCATAGCTTAGCCTACATGGAAGTGTTAATCTCAAAGGGTCTTTTT
AGTGAACCTTATCGTCT
Found at i:6500903 original size:31 final size:31
Alignment explanation
Indices: 6500834--6500906 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
6500824 TAAATTTTTT
*
6500834 TAATTTAATTACTTAACTTTCAAATTGATCT
1 TAATTTAATTACTTAACTTTCAAATTGATCA
*
6500865 TAATTTAATTACTCTAACTTTCAAATTTAT-A
1 TAATTTAATTACT-TAACTTTCAAATTGATCA
*
6500896 TATTTTAATTA
1 TAATTTAATTA
6500907 TATATTAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
31 23 0.61
32 15 0.39
ACGTcount: A:0.37, C:0.11, G:0.01, T:0.51
Consensus pattern (31 bp):
TAATTTAATTACTTAACTTTCAAATTGATCA
Found at i:6500905 original size:36 final size:31
Alignment explanation
Indices: 6500831--6500891 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
6500821 GTTTAAATTT
6500831 TTTTAATTTAATTACTTAACTTTCAAATTGA
1 TTTTAATTTAATTACTTAACTTTCAAATTGA
*
6500862 TCTTAATTTAATTACTCTAACTTTCAAATT
1 TTTTAATTTAATTACT-TAACTTTCAAATT
6500892 TATATATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
31 15 0.54
32 13 0.46
ACGTcount: A:0.34, C:0.13, G:0.02, T:0.51
Consensus pattern (31 bp):
TTTTAATTTAATTACTTAACTTTCAAATTGA
Found at i:6505050 original size:60 final size:57
Alignment explanation
Indices: 6504951--6505083 Score: 171
Period size: 60 Copynumber: 2.3 Consensus size: 57
6504941 ACTCTTGAGT
6504951 AAAG-TATACAAATAGTCCTTCGACTATAGAGTATGACTTTATTAAGTCTCACGACTATTA
1 AAAGTTATA-AAATAGTCCTTCGACTATAGAGTATGACTTTATTAAGT-T--CGACTATTA
* * * *
6505011 AAAGTTATAAAATAGTCTTTCGACTATAGAGTGTTACTTTATTGAGTTCGACTATTA
1 AAAGTTATAAAATAGTCCTTCGACTATAGAGTATGACTTTATTAAGTTCGACTATTA
*
6505068 AAAGTTA-CAAATAGTC
1 AAAGTTATAAAATAGTC
6505084 ACTCCACTAT
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
56 8 0.12
57 16 0.24
59 1 0.01
60 38 0.57
61 4 0.06
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.35
Consensus pattern (57 bp):
AAAGTTATAAAATAGTCCTTCGACTATAGAGTATGACTTTATTAAGTTCGACTATTA
Found at i:6506654 original size:109 final size:109
Alignment explanation
Indices: 6506516--6506733 Score: 436
Period size: 109 Copynumber: 2.0 Consensus size: 109
6506506 AACCTGTGAC
6506516 CTTAATAAAGATAACTATTCATTTAACCACGATAATACGAACTTTATCGCTTTAAATTTATTATA
1 CTTAATAAAGATAACTATTCATTTAACCACGATAATACGAACTTTATCGCTTTAAATTTATTATA
6506581 CTTTGATTTTTATTGCTTTGAACTATAATAATGATAATATATAT
66 CTTTGATTTTTATTGCTTTGAACTATAATAATGATAATATATAT
6506625 CTTAATAAAGATAACTATTCATTTAACCACGATAATACGAACTTTATCGCTTTAAATTTATTATA
1 CTTAATAAAGATAACTATTCATTTAACCACGATAATACGAACTTTATCGCTTTAAATTTATTATA
6506690 CTTTGATTTTTATTGCTTTGAACTATAATAATGATAATATATAT
66 CTTTGATTTTTATTGCTTTGAACTATAATAATGATAATATATAT
6506734 ATATGAGAAT
Statistics
Matches: 109, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
109 109 1.00
ACGTcount: A:0.38, C:0.12, G:0.07, T:0.43
Consensus pattern (109 bp):
CTTAATAAAGATAACTATTCATTTAACCACGATAATACGAACTTTATCGCTTTAAATTTATTATA
CTTTGATTTTTATTGCTTTGAACTATAATAATGATAATATATAT
Found at i:6507316 original size:37 final size:38
Alignment explanation
Indices: 6507248--6507321 Score: 116
Period size: 37 Copynumber: 2.0 Consensus size: 38
6507238 TAGTATATGC
*
6507248 TATCTAATACTATAATGTTATGTATTATATTTGTATAT
1 TATCTAATACTATAATGTTATGTATTATATTTATATAT
6507286 TATCTAATACTAT-AT-TATATGTATTATATTTATATA
1 TATCTAATACTATAATGT-TATGTATTATATTTATATA
6507322 ATATACAAGT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
36 1 0.03
37 20 0.59
38 13 0.38
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.53
Consensus pattern (38 bp):
TATCTAATACTATAATGTTATGTATTATATTTATATAT
Found at i:6508587 original size:19 final size:19
Alignment explanation
Indices: 6508550--6508588 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
6508540 ATTTACCATG
*
6508550 ACTCGACTTGAATTTAAAA
1 ACTCGACTTGAATTAAAAA
* *
6508569 ACTCGTCTTGACTTAAAAA
1 ACTCGACTTGAATTAAAAA
6508588 A
1 A
6508589 TTTAAAATCA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (19 bp):
ACTCGACTTGAATTAAAAA
Found at i:6511077 original size:22 final size:22
Alignment explanation
Indices: 6511049--6511090 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
6511039 CCTACTTCTA
*
6511049 ATTTTTATATTAT-TTTAAATTT
1 ATTTTTA-ATCATATTTAAATTT
6511071 ATTTTTAATCATATTTAAAT
1 ATTTTTAATCATATTTAAAT
6511091 AATGTATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTTTAATCATATTTAAATTT
Found at i:6523603 original size:29 final size:26
Alignment explanation
Indices: 6523571--6523649 Score: 72
Period size: 25 Copynumber: 2.9 Consensus size: 26
6523561 TTTAAGGTAT
*
6523571 ATTTTATTATATTTAATATTTTATTATTA
1 ATTTTATTATATTTAAT-TTTT-TTA-AA
6523600 A-TTTATTTAAGTATTTAATTTTTTTAAA
1 ATTTTA-TT-A-TATTTAATTTTTTTAAA
*
6523628 ATTTTATT-TAATTAATTTTTTT
1 ATTTTATTATATTTAATTTTTTT
6523650 CCCAGATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 12
0.76 0.03 0.21
Matches are distributed among these distances:
25 13 0.30
28 8 0.18
29 10 0.23
30 5 0.11
31 8 0.18
ACGTcount: A:0.33, C:0.00, G:0.01, T:0.66
Consensus pattern (26 bp):
ATTTTATTATATTTAATTTTTTTAAA
Found at i:6525959 original size:33 final size:34
Alignment explanation
Indices: 6525922--6525995 Score: 82
Period size: 34 Copynumber: 2.2 Consensus size: 34
6525912 TAATACTTAC
6525922 TTTATTTCATT-AATTTGGTTGGA-TTTATT-TTAA
1 TTTATTTCATTAAATTT-GTTGGACTTT-TTGTTAA
**
6525955 TTTATTTTGTTAAATTTGTTGGACTTTTTGTTAA
1 TTTATTTCATTAAATTTGTTGGACTTTTTGTTAA
*
6525989 TGTATTT
1 TTTATTT
6525996 TGGTTATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
33 17 0.49
34 18 0.51
ACGTcount: A:0.22, C:0.03, G:0.14, T:0.62
Consensus pattern (34 bp):
TTTATTTCATTAAATTTGTTGGACTTTTTGTTAA
Found at i:6525989 original size:34 final size:34
Alignment explanation
Indices: 6525933--6525997 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
6525923 TTATTTCATT
*
6525933 AATTTGGTTGGATTTATTTTAATTTATTTTGTTA
1 AATTTGGTTGGATTTATTTTAATGTATTTTGTTA
6525967 AATTT-GTTGGACTTT-TTGTTAATGTATTTTG
1 AATTTGGTTGGA-TTTATT-TTAATGTATTTTG
6525998 GTTATTTTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
33 8 0.29
34 20 0.71
ACGTcount: A:0.22, C:0.02, G:0.17, T:0.60
Consensus pattern (34 bp):
AATTTGGTTGGATTTATTTTAATGTATTTTGTTA
Found at i:6527001 original size:20 final size:20
Alignment explanation
Indices: 6526976--6527017 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
6526966 GGGAGCATAC
6526976 AAAGTGAGATTAAAAAACTT
1 AAAGTGAGATTAAAAAACTT
6526996 AAAGTGAGATTAAAAAACTT
1 AAAGTGAGATTAAAAAACTT
6527016 AA
1 AA
6527018 GAGTTATCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.05, G:0.14, T:0.24
Consensus pattern (20 bp):
AAAGTGAGATTAAAAAACTT
Found at i:6527377 original size:23 final size:23
Alignment explanation
Indices: 6527351--6527396 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
6527341 ATAAAGTACA
*
6527351 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
**
6527374 ATAATGTAATAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
6527397 TTACCTATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.33
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:6528142 original size:18 final size:18
Alignment explanation
Indices: 6528119--6528153 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6528109 GAAATATATA
6528119 TGAAATTCAAACTCAAAT
1 TGAAATTCAAACTCAAAT
* *
6528137 TGAAATTTAAATTCAAA
1 TGAAATTCAAACTCAAA
6528154 CTCCAATTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.11, G:0.06, T:0.31
Consensus pattern (18 bp):
TGAAATTCAAACTCAAAT
Found at i:6528403 original size:21 final size:22
Alignment explanation
Indices: 6528353--6528409 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
6528343 ATGCGAGATA
6528353 GATACCTATTACATTATATAAC
1 GATACCTATTACATTATATAAC
**
6528375 GATACCTATTACATTATA-AGG
1 GATACCTATTACATTATATAAC
*
6528396 GCTACCTATTACAT
1 GATACCTATTACAT
6528410 CATGTTTACC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
21 14 0.44
22 18 0.56
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (22 bp):
GATACCTATTACATTATATAAC
Found at i:6528802 original size:22 final size:23
Alignment explanation
Indices: 6528774--6528835 Score: 90
Period size: 22 Copynumber: 2.7 Consensus size: 23
6528764 ATATAACCAT
6528774 TACCTATTACATTATATAAACG-
1 TACCTATTACATTATATAAACGC
**
6528796 TACCTATTACATTATATAAGGGC
1 TACCTATTACATTATATAAACGC
*
6528819 TACCTATTACATCATAT
1 TACCTATTACATTATAT
6528836 GTTTACCTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 20 0.56
23 16 0.44
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGC
Found at i:6529213 original size:21 final size:20
Alignment explanation
Indices: 6529183--6529237 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 20
6529173 GATAGACACT
*
6529183 TTACAATATAACCATTACCTA
1 TTACATTATAACCA-TACCTA
*
6529204 TTACATTATATAAACGATACCTA
1 TTACA-T-TAT-AACCATACCTA
6529227 TTACATTATAA
1 TTACATTATAA
6529238 GGGCTACCTA
Statistics
Matches: 29, Mismatches: 2, Indels: 7
0.76 0.05 0.18
Matches are distributed among these distances:
20 2 0.07
21 8 0.28
22 1 0.03
23 14 0.48
24 4 0.14
ACGTcount: A:0.44, C:0.18, G:0.02, T:0.36
Consensus pattern (20 bp):
TTACATTATAACCATACCTA
Found at i:6529239 original size:423 final size:423
Alignment explanation
Indices: 6528355--6529356 Score: 1830
Period size: 423 Copynumber: 2.4 Consensus size: 423
6528345 GCGAGATAGA
6528355 TACCTATTACATTATAT-AACGATACCTATTACATTATAAGGGCTACCTATTACATC--ATGTTT
1 TACCTATTACATTATATAAACGATACCTATTACATTATAAGGGCTACCTATTACATCATATGTTT
6528417 ACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTT-AAACTTATG
66 ACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATG
6528481 TAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAAT
131 TAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAAT
6528546 TTCATTTGCACAAAAAAATATTTGATTGTTTTTATATTTTATAAATATTATTTAGAATTTTAATT
196 TTCATTTGCACAAAAAAATATTTGATTGTTTTTATATTTTATAAATATTATTTAGAATTTTAATT
6528611 TAATAATAATATACCGTAACGTAAAAAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
261 TAATAATAATATACCGTAACGTAAAAAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
6528676 AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAAGTATGGACACTTTT
326 AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAAGTATGGACACTTTT
6528741 ATAAAAAGGATAAACACTTTACAATATAACCAT
391 ATAAAAAGGATAAACACTTTACAATATAACCAT
6528774 TACCTATTACATTATATAAACG-TACCTATTACATTATATAAGGGCTACCTATTACATCATATGT
1 TACCTATTACATTATATAAACGATACCTATTACA-T-TATAAGGGCTACCTATTACATCATATGT
6528838 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
64 TTACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA
6528903 TGTAA-TTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGA-TTAATA
129 TGTAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATA
*
6528966 ATTTCATTTGCAC-AAAAATTATTTGATTGTTTTTATATTTTATAAAATATTATTTAGAATTTTT
194 ATTTCATTTGCACAAAAAAATATTTGATTGTTTTTATATTTTAT-AAATATTATTTAGAA-TTTT
6529030 AATTTAAT-ATATATATACCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACT-AATTA
257 AATTTAATAATA-ATATACCGTAACGT--AAAA-AAATCATTAGACGCCTATAATTACTAAATTA
6529093 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTG-AAAAAAGTATGG
318 ATATCTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAAGTATGG
*
6529157 ACACTTTTATAAAAAGGATAGACACTTTACAATATAACCAT
383 ACACTTTTATAAAAAGGATAAACACTTTACAATATAACCAT
6529198 TACCTATTACATTATATAAACGATACCTATTACATTATAAGGGCTACCTATTACATCATATGTTT
1 TACCTATTACATTATATAAACGATACCTATTACATTATAAGGGCTACCTATTACATCATATGTTT
6529263 ACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTA-G
66 ACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATG
6529327 TAATTTATGTTTCAATTTTTTTAACAGTGT
131 TAATTTATGTTTCAATTTTTTTAACAGTGT
6529357 ACTGCGAATT
Statistics
Matches: 567, Mismatches: 2, Indels: 24
0.96 0.00 0.04
Matches are distributed among these distances:
419 28 0.05
420 5 0.01
421 51 0.09
422 41 0.07
423 258 0.46
424 87 0.15
425 72 0.13
426 25 0.04
ACGTcount: A:0.38, C:0.13, G:0.08, T:0.40
Consensus pattern (423 bp):
TACCTATTACATTATATAAACGATACCTATTACATTATAAGGGCTACCTATTACATCATATGTTT
ACCTATTATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTTTTTTAAAACTTATG
TAATTTATGTTTCAATTTTTTTAACAGTGTTTCATGTTTTCCACCTACAATATTGATTTAATAAT
TTCATTTGCACAAAAAAATATTTGATTGTTTTTATATTTTATAAATATTATTTAGAATTTTAATT
TAATAATAATATACCGTAACGTAAAAAAATCATTAGACGCCTATAATTACTAAATTAATATCTTA
AAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAAGTATGGACACTTTT
ATAAAAAGGATAAACACTTTACAATATAACCAT
Found at i:6529245 original size:21 final size:22
Alignment explanation
Indices: 6529198--6529258 Score: 70
Period size: 21 Copynumber: 2.7 Consensus size: 22
6529188 ATATAACCAT
6529198 TACCTATTACATTATATAAACGA
1 TACCTATTACA-TATATAAACGA
** *
6529221 TACCTATTACAT-TATAAGGGC
1 TACCTATTACATATATAAACGA
6529242 TACCTATTACATCATAT
1 TACCTATTACAT-ATAT
6529259 GTTTACCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 18 0.55
22 1 0.03
23 14 0.42
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.36
Consensus pattern (22 bp):
TACCTATTACATATATAAACGA
Found at i:6532348 original size:181 final size:183
Alignment explanation
Indices: 6531793--6532641 Score: 1548
Period size: 181 Copynumber: 4.7 Consensus size: 183
6531783 TTTTAAATGG
*
6531793 TATGGACATAAAGTACCGACACAATATTATAAAGTGTCGATATAGGTTGTAGACCTATTCGCTCA
1 TATGGACATAAAGTACCGACACAATATTA-AAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
*
6531858 TAAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
65 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
6531923 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
130 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
6531977 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
6532042 TAAGACCGGTATA-TTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
65 TAAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCC
6532106 GATGTGTAAAATGTCGACAC-TTTTTAAATCGTATCGACACATTTTTCTTCCAA
130 GATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
6532159 TATGGACATAAAGTACCGACAC-ATATTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAT
1 TATGGACATAAAGTACCGACACAATATTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAT
6532223 AAGACCGGTATA-TTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
66 AAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
*
6532287 ATGTGTAAAATGTCGACACTTTTTTAAATTGTATCGACACATTTTTCTTCCAA
131 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
* *
6532340 TATGGACATAAAGTACCGACACAATA-TAAAAGTGTCGATATAGG-TGTAGACCTATTGGCTCAT
1 TATGGACATAAAGTACCGACACAATATTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAT
*
6532403 AAAACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
66 AAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
6532468 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
131 ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
6532521 TATGGACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
1 TATGGACATAAAGTACCGACACAATATT-AAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCA
**
6532586 TAAGACCGGTATATTTATACCGGTTATATTTACAAAATTATCTATTTTATTATAAT
65 TAAGACCGGTATATTTATACCGGTTATA-TTACAAAATTATCTATTACATTATAAT
6532642 ATGTTGAAAG
Statistics
Matches: 645, Mismatches: 12, Indels: 15
0.96 0.02 0.02
Matches are distributed among these distances:
180 148 0.23
181 207 0.32
182 59 0.09
183 88 0.14
184 117 0.18
185 26 0.04
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (183 bp):
TATGGACATAAAGTACCGACACAATATTAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCAT
AAGACCGGTATATTTATACCGGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCG
ATGTGTAAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAA
Found at i:6534112 original size:3 final size:3
Alignment explanation
Indices: 6534104--6534190 Score: 84
Period size: 3 Copynumber: 29.0 Consensus size: 3
6534094 ACTTGTTTGG
* * * **
6534104 ATC ATC ATC TTC ATC ATC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * * * *
6534152 AGC TTC ATC GTC ATC ATC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
6534191 GTCAGCTTCA
Statistics
Matches: 65, Mismatches: 19, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.24, C:0.34, G:0.06, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:6534127 original size:18 final size:18
Alignment explanation
Indices: 6534104--6534205 Score: 87
Period size: 18 Copynumber: 5.7 Consensus size: 18
6534094 ACTTGTTTGG
6534104 ATCATCATCTTCATCATC
1 ATCATCATCTTCATCATC
* *
6534122 ATCATCATCATCGTCATC
1 ATCATCATCTTCATCATC
* ** * *
6534140 ATCTTCATCGCCAGCTTC
1 ATCATCATCTTCATCATC
* *
6534158 ATCGTCATCATCATCATC
1 ATCATCATCTTCATCATC
* *
6534176 ATCGTCATCTTCATCGTC
1 ATCATCATCTTCATCATC
* *
6534194 AGCTTCATCTTC
1 ATCATCATCTTC
6534206 TGCGACCGAT
Statistics
Matches: 67, Mismatches: 17, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 67 1.00
ACGTcount: A:0.23, C:0.34, G:0.07, T:0.36
Consensus pattern (18 bp):
ATCATCATCTTCATCATC
Found at i:6534171 original size:42 final size:42
Alignment explanation
Indices: 6534112--6534202 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
6534102 GGATCATCAT
*
6534112 CTTCATCATCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
6534154 CTTCATCGTCATCATCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
6534196 CTTCATC
1 CTTCATC
6534203 TTCTGCGACC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.22, C:0.35, G:0.08, T:0.35
Consensus pattern (42 bp):
CTTCATCATCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:6536657 original size:197 final size:199
Alignment explanation
Indices: 6535655--6537642 Score: 3427
Period size: 197 Copynumber: 10.1 Consensus size: 199
6535645 TTTAAATTAG
* *
6535655 TATCGACACAAA-AATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
6535719 ATTGTACCGGTTAGATTGAAAAATTACATATT-CATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
6535783 CGACACTTTTTAAATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
6535848 AAAA
196 AAAA
6535852 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
6535917 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
6535982 CGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGG-A
6536047 AAAAAA
194 AAAAAA
6536053 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGAC-TATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* *
6536117 ATTGTACCGGTTAGATT-GAAAATTACATATTACATTATACTTTTGGGTTCGTTGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
6536181 CGACACTTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
6536245 AAAA
196 AAAA
6536249 TATCGACACAAACTATA-TAGTGTCGACACATTATTTAGAC-T-TTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
6536311 ATTGTACCGGTTAGATT-GAAAATTACATATTACATTATACTTTTGGGTTC---GA-TTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
6536371 CGACAC-TTTTAAATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAA-TCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
6536434 AAAA
196 AAAA
*
6536438 TATCGACA-AAACTATATTAGTGTCGACACATTATTTAGACTTATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
6536502 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTT-GGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
6536566 CGACACTTTTTTATATATGGATCGACAC-TTATGGGTGCACCTTGTTTTTAATTCATTCTGGGGA
131 CGACAC-TTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAA
6536630 AAAAA
195 AAAAA
6536635 TATCGACACAAACTAT-TTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
6536699 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
6536764 CGACACTTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
6536828 AAAA
196 AAAA
6536832 TATCG--ACAAA--ATATTAGTGTCGACACATTA-TTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
6536892 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
6536957 CGACACTTTTTATATA-GGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGG--GA
6537021 AAAAAA
194 AAAAAA
*
6537027 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAATCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
6537092 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
6537157 CGACAC-TTTTATATA-GGATCGACACTTTA-TGATGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
6537219 AAAA
196 AAAA
*
6537223 TATCGACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
* * *
6537288 ATTGTACCGGTTAGA-TGAAAAATTACAGATTACATTATACTTTTGGTTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
6537352 CGACAC-TTTTATATA-GGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT-GG-AA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
6537413 AAAA
196 AAAA
*
6537417 TATCCACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
6537482 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTT-GGAT
66 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
6537545 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
6537610 AAAA
196 AAAA
*
6537614 TATCGACACAAACTATATTAGTATCGACA
1 TATCGACACAAACTATATTAGTGTCGACA
6537643 TGACCCTTAA
Statistics
Matches: 1720, Mismatches: 37, Indels: 68
0.94 0.02 0.04
Matches are distributed among these distances:
188 8 0.00
189 52 0.03
190 52 0.03
191 44 0.03
192 26 0.02
193 161 0.09
194 190 0.11
195 209 0.12
196 175 0.10
197 284 0.17
198 146 0.08
199 132 0.08
200 193 0.11
201 48 0.03
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (199 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
AAAA
Found at i:6536969 original size:390 final size:394
Alignment explanation
Indices: 6535662--6537642 Score: 3361
Period size: 390 Copynumber: 5.1 Consensus size: 394
6535652 TAGTATCGAC
* *
6535662 ACAAAAATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATAATTGTACC
1 ACAAACATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACC
6535727 GGTTAGATTGAAAAATTACATATT-CATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTT
66 GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTT
*
6535791 TTTAAATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATC
131 TTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATC
6535856 GACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTG
196 GACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTG
6535921 TACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGAC
261 TACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGAC
6535986 ACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAA
326 AC-TTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGG-AAAAA
6536051 AATATCG
388 AATATCG
6536058 ACACAAACTATATTAGTGTCGACACATTATTTAGAC-TATTCTCTCATAAAACCGGTATAATTGT
1 --ACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGT
*
6536122 ACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGTTGATTTTGGGATCGACA
63 ACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACA
*
6536186 CTTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAAT
128 CTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAAT
6536250 ATCGACACAAACTATA-TAGTGTCGACACATTATTTAGAC-T-TTCTCTCATAAAACCGGTATAA
193 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAA
*
6536312 TTGTACCGGTTAGATT-GAAAATTACATATTACATTATACTTTTGGGTTC---GA-TTTGGGATC
258 TTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
** *
6536372 GACACTTTTAAATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAA-TCATTCTGGGAAAAA
323 GACACTTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAA
6536436 AATATCG
388 AATATCG
*
6536443 ACAAAACTATATTAGTGTCGACACATTATTTAGACTTATTATCTCATAAAACCGGTATAATTGTA
1 AC-AAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTA
*
6536508 CCGGTTAGATTAAAAAATTACATATTACATTATACTTTT-GGTTCGATGATTTTGGGATCGACAC
64 CCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACAC
* *
6536572 TTTTTTATATATGGATCGACAC-TTATGGGTGCACCTTGTTTTTAATTCATTCTGGGGAAAAAAT
129 -TTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAAT
6536636 ATCGACACAAACTAT-TTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAA
193 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAA
*
6536700 TTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
258 TTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
6536765 GACACTTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAA
323 GACACTTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAA
6536830 AATATCG
388 AATATCG
6536837 ACAAA-ATATTAGTGTCGACACATTA-TTAGACTTATTCTCTCATAAAACCGGTATAATTGTACC
1 ACAAACATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACC
6536900 GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTT
66 GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTT
*
6536965 TTTATATA-GGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAAAAAAATA
131 TTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGG--GAAAAAAATA
*
6537029 TCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAATCGGTATAAT
194 TCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAAT
6537094 TGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCG
259 TGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCG
* * *
6537159 ACACTTTTATATA-GGATCGACACTTTAT-GATGCACCTTGTTTTTAATTCATTCTGGAAAAAAA
324 ACACTTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAA
6537222 ATATCG
389 ATATCG
*
6537228 ACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGT
1 --ACAAAC-ATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGT
* *
6537293 ACCGGTTAGA-TGAAAAATTACAGATTACATTATACTTTTGGTTTCGATGATTTTGGGATCGACA
63 ACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACA
*
6537357 C-TTTTATATA-GGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT-GG-AAAAAAT
128 CTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAAT
*
6537418 ATCCACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAA
193 ATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAA
6537483 TTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTT-GGATC
258 TTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATC
* *
6537546 GACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGAAAAA
323 GACACTTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
6537611 AAATATCG
387 AAATATCG
*
6537619 ACACAAACTATATTAGTATCGACA
1 --ACAAAC-ATATTAGTGTCGACA
6537643 TGACCCTTAA
Statistics
Matches: 1519, Mismatches: 35, Indels: 65
0.94 0.02 0.04
Matches are distributed among these distances:
383 2 0.00
384 32 0.02
385 75 0.05
386 120 0.08
387 53 0.03
388 56 0.04
389 63 0.04
390 257 0.17
391 148 0.10
392 39 0.03
393 221 0.15
394 112 0.07
395 73 0.05
396 68 0.04
397 85 0.06
398 88 0.06
399 27 0.02
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (394 bp):
ACAAACATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTGTACC
GGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGACACTT
TTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAATATC
GACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATAATTG
TACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGATCGAC
ACTTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGAAAAAAAT
ATCG
Found at i:6537536 original size:783 final size:778
Alignment explanation
Indices: 6535655--6537642 Score: 3416
Period size: 783 Copynumber: 2.5 Consensus size: 778
6535645 TTTAAATTAG
* *
6535655 TATCGACACAAA-AATATTAGTGTCGACACATTATTTAGACATATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
6535719 ATTGTACCGGTTAGATTGAAAAATTACATATT-CATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTT-GGTTCGATGATTTTGGGAT
*
6535783 CGACACTTTTTAAATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
130 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGG-AA
6535848 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
194 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
6535913 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
259 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
6535978 GGATCGACACTTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
324 GGATCGACAC-TTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
6536043 GGAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTATTCTCTCATAAA
388 GG-AAAAAAATATCG--ACAAAC-ATATTAGTGTCGACACATTATTTAGACTATTCTCTCATAAA
*
6536108 ACCGGTATAATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGTTGAT
449 ACCGGTATAATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGAT
6536173 TTTGGGATCGACACTTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTC
514 TTTGGGATCGACACTTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTC
*
6536238 TGGGAAAAAAATATCGACACAAACTATATAGTGTCGACACATTATTTAGACTTTCTCTCATAAAA
579 TGGAAAAAAAATATCGACACAAACTATATAGTGTCGACACATTATTTAGACTTTCTCTCATAAAA
*
6536303 CCGGTATAATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATTTGG
644 CCGGTATAATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATTTGG
* *
6536368 GATCGACACTTTTAAATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATCATTCTGGGAA
709 GATCGACACTTTTAAATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATCATTCTGGAAA
6536433 AAAAA
774 AAAAA
*
6536438 TATCGACA-AAACTATATTAGTGTCGACACATTATTTAGACTTATTATCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
6536502 ATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGTTCGATGATTTTGGGATC
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTCGATGATTTTGGGATC
*
6536567 GACACTTTTTTATATATGGATCGACAC-TTATGGGTGCACCTTGTTTTTAATTCATTCTGGGGAA
131 GACAC-TTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCT-GGGAA
6536631 AAAATATCGACACAAACTAT-TTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
194 AAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGG
*
6536695 TATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
259 TATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTG
6536760 GGATCGACACTTTTT-TATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
324 GGATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGG
6536824 GAAAAAAATATCGACAAA-ATATTAGTGTCGACACATTA-TTAGACTTATTCTCTCATAAAACCG
389 GAAAAAAATATCGACAAACATATTAGTGTCGACACATTATTTAGAC-TATTCTCTCATAAAACCG
6536887 GTATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
453 GTATAATTGTACCGGTTAGATTG-AAAATTACATATTACATTATACTTTTGGGTTCGATGATTTT
*
6536952 GGGATCGACAC-TTTTTATATAGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTG
517 GGGATCGACACTTTTTTATAT-GGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTG
6537016 GAAAAAAAAAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATA
581 G--AAAAAAAATATCGACACAAACTATA-TAGTGTCGACACATTATTTAGAC-T-TTCTCTCATA
*
6537081 AAATCGGTATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGAT
641 AAACCGGTATAATTGTACCGGTTAGATT-AAAAATTACATATTACATTATACTTTTGGGTTC---
*
6537146 GATTTTGGGATCGACACTTTTATATA-GGATCGACACTTTA-TGATGCACCTTGTTTTTAATTCA
702 GA-TTTGGGATCGACACTTTTAAATATGGATCGACACTTTATTGATGCACCTTGTTTTTAA-TCA
6537209 TTCTGGAAAAAAAA
765 TTCTGGAAAAAAAA
*
6537223 TATCGACACAAACTATATTAGTATCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
*
6537288 ATTGTACCGGTTAGA-TGAAAAATTACAGATTACATTATACTTTTGGTTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGG-TTCGATGATTTTGGGAT
*
6537352 CGACAC-TTTTATATA-GGATCGACACTTTATTGATGCACCTTGTTTTTAATTCATTCT-GGAAA
130 CGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAA
*
6537414 AAATATCCACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
195 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGT
6537479 ATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGA-TTT-G
260 ATAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
* *
6537542 GATCGACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGA
325 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGG
*
6537607 AAAAAAATATCGACACAAACTATATTAGTATCGACA
390 AAAAAAATATCG--ACAAAC-ATATTAGTGTCGACA
6537643 TGACCCTTAA
Statistics
Matches: 1152, Mismatches: 26, Indels: 51
0.94 0.02 0.04
Matches are distributed among these distances:
774 6 0.01
775 70 0.06
776 94 0.08
777 5 0.00
778 24 0.02
779 35 0.03
780 51 0.04
781 57 0.05
782 239 0.21
783 278 0.24
784 96 0.08
785 69 0.06
786 128 0.11
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (778 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGTTCGATGATTTTGGGATC
GACACTTTTTATATATGGATCGACACTTTATTGGTGCACCTTGTTTTTAATTCATTCTGGGAAAA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACTTATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTAAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGGA
AAAAAATATCGACAAACATATTAGTGTCGACACATTATTTAGACTATTCTCTCATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGA
TCGACACTTTTTTATATGGATCGACACTTTATGGGTGCACCTTGTTTTTAATTCATTCTGGAAAA
AAAATATCGACACAAACTATATAGTGTCGACACATTATTTAGACTTTCTCTCATAAAACCGGTAT
AATTGTACCGGTTAGATTAAAAATTACATATTACATTATACTTTTGGGTTCGATTTGGGATCGAC
ACTTTTAAATATGGATCGACACTTTATTGATGCACCTTGTTTTTAATCATTCTGGAAAAAAAA
Found at i:6537750 original size:19 final size:19
Alignment explanation
Indices: 6537723--6537767 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
6537713 ATTCACATAA
*
6537723 AAAAATATAAATCGTATAC
1 AAAATTATAAATCGTATAC
*
6537742 AAAATTATAAATCTTATAC
1 AAAATTATAAATCGTATAC
6537761 AAAATTA
1 AAAATTA
6537768 ACTCGACATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.31
Consensus pattern (19 bp):
AAAATTATAAATCGTATAC
Found at i:6539576 original size:33 final size:33
Alignment explanation
Indices: 6539539--6539604 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
6539529 CATCTTAATA
*
6539539 TCACCCCTTAACACCGAAACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
***
6539572 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCGAAACTTCTTTCACCACT
6539605 CCATCTATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.24, C:0.45, G:0.02, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCGAAACTTCTTTCACCACT
Found at i:6541737 original size:24 final size:23
Alignment explanation
Indices: 6541700--6541751 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
6541690 CCGTTCTATC
6541700 TATTTTCAGAGGATAT-TTAGCTTA
1 TATTTTCAGAGGATATGTTA--TTA
**
6541724 TATTTTCATCGGATATGTTATTA
1 TATTTTCAGAGGATATGTTATTA
6541747 TATTT
1 TATTT
6541752 AATCGATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.32
24 14 0.56
25 3 0.12
ACGTcount: A:0.27, C:0.08, G:0.13, T:0.52
Consensus pattern (23 bp):
TATTTTCAGAGGATATGTTATTA
Found at i:6541940 original size:20 final size:19
Alignment explanation
Indices: 6541894--6541940 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
6541884 TCCGGTATCA
*
6541894 TTTTACCGTTTTTATCATT
1 TTTTACCGGTTTTATCATT
*
6541913 TTGATACCGGTTTTATCATAT
1 TT-TTACCGGTTTTATCAT-T
6541934 TTTTACC
1 TTTTACC
6541941 TGTTATATCG
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.19, C:0.17, G:0.09, T:0.55
Consensus pattern (19 bp):
TTTTACCGGTTTTATCATT
Found at i:6542088 original size:20 final size:20
Alignment explanation
Indices: 6542062--6542107 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
6542052 CACTTTTAAA
6542062 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
6542081 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
6542102 TTTACC
1 TTTACC
6542108 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:6546033 original size:38 final size:39
Alignment explanation
Indices: 6545988--6546078 Score: 114
Period size: 38 Copynumber: 2.4 Consensus size: 39
6545978 AAAAAATTAT
* *
6545988 GGTTCGGGTCGGGTCGAG-TTTTTTTAAGTTTGATATTCT
1 GGTTCGGGTCGGGT-GAGATTTTTTTAAGTGTGATATTCG
* *
6546027 GG-TCGGGTCGGATTAGATTTTTTTAAGTGTGATATTCG
1 GGTTCGGGTCGGGTGAGATTTTTTTAAGTGTGATATTCG
*
6546065 GGTTCGGGTTGGGT
1 GGTTCGGGTCGGGT
6546079 TTAGGGGTCG
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
37 2 0.05
38 31 0.70
39 11 0.25
ACGTcount: A:0.13, C:0.09, G:0.35, T:0.43
Consensus pattern (39 bp):
GGTTCGGGTCGGGTGAGATTTTTTTAAGTGTGATATTCG
Found at i:6546582 original size:17 final size:18
Alignment explanation
Indices: 6546560--6546608 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
6546550 GTTTCAGATT
* *
6546560 CAGATTCGAATTCC-TGA
1 CAGATTCCAATTCCTTCA
6546577 CAGATTCCAATTCCTTCA
1 CAGATTCCAATTCCTTCA
6546595 CAGATTCCAATTCC
1 CAGATTCCAATTCC
6546609 CTCGTAAACA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
17 13 0.45
18 16 0.55
ACGTcount: A:0.29, C:0.31, G:0.10, T:0.31
Consensus pattern (18 bp):
CAGATTCCAATTCCTTCA
Found at i:6547418 original size:48 final size:48
Alignment explanation
Indices: 6547363--6547455 Score: 159
Period size: 48 Copynumber: 1.9 Consensus size: 48
6547353 GTTCATATAA
* *
6547363 GCTTATATAGGGAAATTATTGTAAAAATAGTTTCGGTTTCTATTTGTT
1 GCTTATATAAGGAAATTATTGTAAAAATAGTTTCAGTTTCTATTTGTT
*
6547411 GCTTATATAAGGAAATTATTGTAAAAATAGTTTTAGTTTCTATTT
1 GCTTATATAAGGAAATTATTGTAAAAATAGTTTCAGTTTCTATTT
6547456 ATTGAATTAA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.32, C:0.05, G:0.16, T:0.46
Consensus pattern (48 bp):
GCTTATATAAGGAAATTATTGTAAAAATAGTTTCAGTTTCTATTTGTT
Found at i:6547584 original size:16 final size:16
Alignment explanation
Indices: 6547563--6547593 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6547553 TTGAGTTTGT
6547563 TTGATTATAAAAATTG
1 TTGATTATAAAAATTG
*
6547579 TTGATTATAGAAATT
1 TTGATTATAAAAATT
6547594 ATTATTCATA
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:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (16 bp):
TTGATTATAAAAATTG
Found at i:6547926 original size:19 final size:19
Alignment explanation
Indices: 6547902--6547940 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
6547892 CATTGACCAA
6547902 TTATTTAAAT-ACAAATTAT
1 TTATTTAAATCA-AAATTAT
*
6547921 TTATTTATATCAAAATTAT
1 TTATTTAAATCAAAATTAT
6547940 T
1 T
6547941 AATTAATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 17 0.94
20 1 0.06
ACGTcount: A:0.44, C:0.05, G:0.00, T:0.51
Consensus pattern (19 bp):
TTATTTAAATCAAAATTAT
Found at i:6550651 original size:3 final size:3
Alignment explanation
Indices: 6550643--6550677 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
6550633 AATAGTAAAT
6550643 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
6550678 TAATATTTAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:6553830 original size:21 final size:21
Alignment explanation
Indices: 6553806--6553845 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6553796 GCCGACGTGA
*
6553806 TAGTTAACGGTACTGATGTGG
1 TAGTCAACGGTACTGATGTGG
* *
6553827 TAGTCCACGGTATTGATGT
1 TAGTCAACGGTACTGATGT
6553846 CGTAATTCAT
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:0.23, C:0.12, G:0.30, T:0.35
Consensus pattern (21 bp):
TAGTCAACGGTACTGATGTGG
Found at i:6556603 original size:35 final size:35
Alignment explanation
Indices: 6556563--6556649 Score: 142
Period size: 35 Copynumber: 2.5 Consensus size: 35
6556553 TCAGCTTTGA
6556563 TACATTCGTGTATCAATGTTATCATATCACTTTAG
1 TACATTCGTGTATCAATGTTATCATATCACTTTAG
* *
6556598 TACATTCGTGTATCAATGTTATCATATCAGTTTGG
1 TACATTCGTGTATCAATGTTATCATATCACTTTAG
6556633 T--ATTCGTGTATCAATGT
1 TACATTCGTGTATCAATGT
6556650 CCACACCATA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
33 16 0.32
35 34 0.68
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (35 bp):
TACATTCGTGTATCAATGTTATCATATCACTTTAG
Found at i:6564140 original size:96 final size:95
Alignment explanation
Indices: 6564032--6564272 Score: 423
Period size: 96 Copynumber: 2.5 Consensus size: 95
6564022 CATGGTAACA
6564032 TATATTTGATTAAAATTTATAATCCATAAACAAATATTTATCTAACTCATAAGTTTTACACTAAT
1 TATATTTGATTAAAATTTATAATCCATAAACAAATATTTATCTAACTCATAAGTTTTACACTAAT
* *
6564097 TTATATTTATTAGATTTAAATAAATAAATGAC-
66 TTATAGTCATTAGATTT--A-AAATAAATGACT
6564129 T-TATTTGATTAAAATTTATAATCCATAAACAAATATTTATCTAACTCATAAGTTTTACACTAAT
1 TATATTTGATTAAAATTTATAATCCATAAACAAATATTTATCTAACTCATAAGTTTTACACTAAT
6564193 TTATAGTCATTAGATTTAAAATAAATGACT
66 TTATAGTCATTAGATTTAAAATAAATGACT
6564223 TATATTTGATTAAAATTTATAATCCATAAACAAATATTTATCTAACTCAT
1 TATATTTGATTAAAATTTATAATCCATAAACAAATATTTATCTAACTCAT
6564273 GGTAAAATAT
Statistics
Matches: 140, Mismatches: 2, Indels: 6
0.95 0.01 0.04
Matches are distributed among these distances:
93 11 0.08
94 2 0.01
95 48 0.34
96 78 0.56
97 1 0.01
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.42
Consensus pattern (95 bp):
TATATTTGATTAAAATTTATAATCCATAAACAAATATTTATCTAACTCATAAGTTTTACACTAAT
TTATAGTCATTAGATTTAAAATAAATGACT
Found at i:6576074 original size:3 final size:3
Alignment explanation
Indices: 6576061--6576135 Score: 100
Period size: 3 Copynumber: 25.3 Consensus size: 3
6576051 TTAAAAAATA
6576061 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TACT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT
* * *
6576106 TAT TA- TAT TAT TAA TAC TAT TAA TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6576136 TTTGCAGGTT
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
2 4 0.06
3 57 0.89
4 3 0.05
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:6581567 original size:105 final size:105
Alignment explanation
Indices: 6581287--6582296 Score: 1732
Period size: 105 Copynumber: 9.6 Consensus size: 105
6581277 AAGTTGTCTT
* * *
6581287 TCAACAAACAACTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAG
1 TCAACAAA-AATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
6581352 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
65 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* * * * *
6581393 TCAATAAACAATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAATGATATTGGACTCAAG
1 TCAACAAA-AATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
6581458 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
65 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
*
6581499 TCAACAAAAATCTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
1 TCAACAAAAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
6581564 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* *
6581604 TCCACAAAAATCTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
1 TCAACAAAAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
6581669 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* * *
6581709 TCAACAAACATTTCCCAATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGACTCCAGA
1 TCAACAAAAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
6581774 TAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
*
6581814 TCAACAAAAATCTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
1 TCAACAAAAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
6581879 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* *
6581919 TCCACAAAAATCTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
1 TCAACAAAAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
6581984 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* *
6582024 TCAACAAATAATTTCCCAATATCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
1 TCAACAAA-AATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAG
6582089 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
65 ACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
*
6582130 TCAACAAACATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
1 TCAACAAAAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
*
6582195 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGCTG
66 CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
* * * * * *
6582235 TCAACAAATGATTTCCCGATTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGGACTC
1 TCAACAAA-AATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
6582297 GGAACAATGC
Statistics
Matches: 865, Mismatches: 37, Indels: 4
0.95 0.04 0.00
Matches are distributed among these distances:
105 607 0.70
106 258 0.30
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.22
Consensus pattern (105 bp):
TCAACAAAAATTTCTCAATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGA
CAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTG
Found at i:6582647 original size:84 final size:83
Alignment explanation
Indices: 6582475--6582759 Score: 274
Period size: 84 Copynumber: 3.4 Consensus size: 83
6582465 ATCCAACTCA
** * * * *
6582475 GAGAAGGATTATCTGTCAACAAAGACCTTCGAGTTTGACTACGCTCAGCTCCAAGGCATATCATC
1 GAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * *
6582540 TGCAACACAACTT-GAATC
66 TGCAGCATAACTTAG-GTC
* * * *
6582558 TAGAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCACATCA
1 GAGAAGGGCTATCTGCCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAA-GGCACATCA
* **
6582622 TTTGCAGTATAGTTTAGGTC
64 TTTGCAGCATAACTTAGGTC
** * * *
6582642 GAGAAGGGCTATCTG-C--CAAAGACCCCCGAGTTCGATTACACTCAGCTCCGAGGCACATCATT
1 GAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* *
6582704 TGCAGCATAACTTAAGTT
66 TGCAGCATAACTTAGGTC
*
6582722 GAGAAGGGCTATCTGCCAACCAAAGACCTGACGAGTTC
1 GAGAAGGGCTATCTGCCAA-CAAAGACCT-TCGAGTTC
6582760 AATTTCATTC
Statistics
Matches: 163, Mismatches: 30, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
80 64 0.39
81 4 0.02
83 20 0.12
84 67 0.41
85 8 0.05
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.24
Consensus pattern (83 bp):
GAGAAGGGCTATCTGCCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
TGCAGCATAACTTAGGTC
Found at i:6582697 original size:80 final size:80
Alignment explanation
Indices: 6582589--6582740 Score: 216
Period size: 80 Copynumber: 1.9 Consensus size: 80
6582579 AAAGACCTTT
* * ** *
6582589 GAGTTCGACTACGCTCAGCTCAACGGCACATCATTTGCAGTATAGTTTAGGTCGAGAAGGGCTAT
1 GAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTAT
6582654 CTGCCAAAGACCCCC
66 CTGCCAAAGACCCCC
* * *
6582669 GAGTTCGATTACACTCAGCTCCGA-GGCACATCATTTGCAGCATAACTTAAGTTGAGAAGGGCTA
1 GAGTTCGACTACACTCAGCT-CAACGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTA
6582733 TCTGCCAA
65 TCTGCCAA
6582741 CCAAAGACCT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
80 61 0.97
81 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.24
Consensus pattern (80 bp):
GAGTTCGACTACACTCAGCTCAACGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTAT
CTGCCAAAGACCCCC
Found at i:6583003 original size:3 final size:3
Alignment explanation
Indices: 6582990--6583061 Score: 94
Period size: 3 Copynumber: 24.3 Consensus size: 3
6582980 TTAAAAAATA
6582990 TAT TA- TAT TAT TAT TAT TAT TAT TAT TAT TACT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * *
6583035 TA- TAT TAT TAA TAC TAT TAA TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
6583062 TTTGCAGGTT
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
2 4 0.07
3 54 0.89
4 3 0.05
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:6588397 original size:13 final size:13
Alignment explanation
Indices: 6588379--6588403 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6588369 TAATTTCTAA
6588379 TAATAAAATAATT
1 TAATAAAATAATT
6588392 TAATAAAATAAT
1 TAATAAAATAAT
6588404 ACTCAATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
TAATAAAATAATT
Found at i:6605330 original size:26 final size:26
Alignment explanation
Indices: 6605294--6605357 Score: 110
Period size: 26 Copynumber: 2.5 Consensus size: 26
6605284 TTGATAGTTC
*
6605294 ATGGTTGTTCATTAGCGTATTTGTTA
1 ATGGCTGTTCATTAGCGTATTTGTTA
*
6605320 ATGGCTGTTCATTTGCGTATTTGTTA
1 ATGGCTGTTCATTAGCGTATTTGTTA
6605346 ATGGCTGTTCAT
1 ATGGCTGTTCAT
6605358 CGGAGTATTG
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.17, C:0.11, G:0.23, T:0.48
Consensus pattern (26 bp):
ATGGCTGTTCATTAGCGTATTTGTTA
Found at i:6605365 original size:26 final size:26
Alignment explanation
Indices: 6605310--6605366 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
6605300 GTTCATTAGC
** *
6605310 GTATTTGTTAATGGCTGTTCATTTGC
1 GTATTTGTTAATGGCTGTTCATCGGA
6605336 GTATTTGTTAATGGCTGTTCATCGGA
1 GTATTTGTTAATGGCTGTTCATCGGA
6605362 GTATT
1 GTATT
6605367 GTATGATGTA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.18, C:0.11, G:0.25, T:0.47
Consensus pattern (26 bp):
GTATTTGTTAATGGCTGTTCATCGGA
Found at i:6617026 original size:35 final size:35
Alignment explanation
Indices: 6616987--6617061 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
6616977 TACTAAAGTG
6616987 AAACTAAAACTAAACTTTATGTATGATTTTGAGAA
1 AAACTAAAACTAAACTTTATGTATGATTTTGAGAA
6617022 AAACTAAAACTAAACTTTATGTATGATTTTGAGAA
1 AAACTAAAACTAAACTTTATGTATGATTTTGAGAA
6617057 AAACT
1 AAACT
6617062 GAAAGTTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.33
Consensus pattern (35 bp):
AAACTAAAACTAAACTTTATGTATGATTTTGAGAA
Found at i:6617296 original size:6 final size:6
Alignment explanation
Indices: 6617286--6617335 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
6617276 TACATATCAT
* * * *
6617286 CATCGT CATCGG CATCGG CATCGG CATTGG CATTGG CATCGG CATTGG
1 CATCGG CATCGG CATCGG CATCGG CATCGG CATCGG CATCGG CATCGG
6617334 CA
1 CA
6617336 ATGGAAGTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.18, C:0.28, G:0.30, T:0.24
Consensus pattern (6 bp):
CATCGG
Found at i:6617317 original size:18 final size:18
Alignment explanation
Indices: 6617286--6617335 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
6617276 TACATATCAT
* *
6617286 CATCGTCATCGGCATCGG
1 CATCGGCATTGGCATCGG
*
6617304 CATCGGCATTGGCATTGG
1 CATCGGCATTGGCATCGG
6617322 CATCGGCATTGGCA
1 CATCGGCATTGGCA
6617336 ATGGAAGTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.18, C:0.28, G:0.30, T:0.24
Consensus pattern (18 bp):
CATCGGCATTGGCATCGG
Found at i:6625982 original size:18 final size:17
Alignment explanation
Indices: 6625959--6626009 Score: 52
Period size: 18 Copynumber: 3.0 Consensus size: 17
6625949 TTATTTTTAC
*
6625959 TTTAATTACTTTTAGTTA
1 TTTAATCACTTTTA-TTA
*
6625977 TTTAATCGCTTTTATTA
1 TTTAATCACTTTTATTA
6625994 TTTTAAT-A-TTTTATTA
1 -TTTAATCACTTTTATTA
6626010 CCAAAATTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 8 0.28
17 3 0.10
18 18 0.62
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.63
Consensus pattern (17 bp):
TTTAATCACTTTTATTA
Found at i:6628899 original size:11 final size:11
Alignment explanation
Indices: 6628885--6628909 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
6628875 ATATTACATT
6628885 TTTATTTTTTA
1 TTTATTTTTTA
6628896 TTTATTTTTTA
1 TTTATTTTTTA
6628907 TTT
1 TTT
6628910 TGATCGAGCA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTATTTTTTA
Found at i:6629623 original size:12 final size:12
Alignment explanation
Indices: 6629606--6629630 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
6629596 CTGTCGAGAT
6629606 TACATATGAACA
1 TACATATGAACA
6629618 TACATATGAACA
1 TACATATGAACA
6629630 T
1 T
6629631 GATGCTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (12 bp):
TACATATGAACA
Found at i:6631623 original size:18 final size:18
Alignment explanation
Indices: 6631582--6631619 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
6631572 TTATTTTTAC
*
6631582 TTTAATTGCTTTTACTTA
1 TTTAATCGCTTTTACTTA
6631600 TTTAATCGCTTTTA-TTA
1 TTTAATCGCTTTTACTTA
6631617 TTT
1 TTT
6631620 TAATATTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.32
18 13 0.68
ACGTcount: A:0.21, C:0.11, G:0.05, T:0.63
Consensus pattern (18 bp):
TTTAATCGCTTTTACTTA
Found at i:6632213 original size:27 final size:26
Alignment explanation
Indices: 6632154--6632215 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 26
6632144 TTGAATTATT
*
6632154 TGAAATGACCAAAATACCCTTAGACC
1 TGAAATGACCAAAATACCCTTAAACC
* **
6632180 TCAAAATGACTTAAATACCCTTAAACTC
1 T-GAAATGACCAAAATACCCTTAAAC-C
6632208 TGAAATGA
1 TGAAATGA
6632216 AAAAATAACC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
26 1 0.03
27 26 0.90
28 2 0.07
ACGTcount: A:0.44, C:0.23, G:0.10, T:0.24
Consensus pattern (26 bp):
TGAAATGACCAAAATACCCTTAAACC
Found at i:6636991 original size:186 final size:186
Alignment explanation
Indices: 6636677--6637039 Score: 627
Period size: 186 Copynumber: 2.0 Consensus size: 186
6636667 GTAATAATAC
*
6636677 TATATGTCTTACGTAAGGTTTTAATTTTTATATTTTAGGATTCAAGGTTAAATTGATTAATGATT
1 TATATGTCTTACATAAGGTTTTAATTTTTATATTTTAGGATTCAAGGTTAAATTGATTAATGATT
* * *
6636742 TATGGGTAGTTTAAGTATTATATCTCATGTTCGAGTCGTTATGTGTGCAAAATATCATCATTGGA
66 TACGGGTAGTTTAAGTATAATATCTCATGTTCGAGTCGTTATGTGTGCAAAACATCATCATTGGA
**
6636807 AGACTCACCCACTAAAATCAGGTGTGCGGCACAAGTCAATCCGAATTGATGATTTT
131 AGACTCACAAACTAAAATCAGGTGTGCGGCACAAGTCAATCCGAATTGATGATTTT
* *
6636863 TATATGTCTTATATAAGGTTTTAATTTTTATATTTTAGGATTCAAGGTTAAATTGATTGATGATT
1 TATATGTCTTACATAAGGTTTTAATTTTTATATTTTAGGATTCAAGGTTAAATTGATTAATGATT
* *
6636928 TACGGGTAGTTTAAGTATAATATCTCATTTTCGAGTCGTTGTGTGTGCAAAACATCATCATTGGA
66 TACGGGTAGTTTAAGTATAATATCTCATGTTCGAGTCGTTATGTGTGCAAAACATCATCATTGGA
*
6636993 AGACTCACAAACTAAAATCAGGTGTGTGGCACAAGTCAATCCGAATT
131 AGACTCACAAACTAAAATCAGGTGTGCGGCACAAGTCAATCCGAATT
6637040 AATCAGGGTG
Statistics
Matches: 166, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
186 166 1.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (186 bp):
TATATGTCTTACATAAGGTTTTAATTTTTATATTTTAGGATTCAAGGTTAAATTGATTAATGATT
TACGGGTAGTTTAAGTATAATATCTCATGTTCGAGTCGTTATGTGTGCAAAACATCATCATTGGA
AGACTCACAAACTAAAATCAGGTGTGCGGCACAAGTCAATCCGAATTGATGATTTT
Found at i:6637180 original size:13 final size:12
Alignment explanation
Indices: 6637161--6637199 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
6637151 GTATAACTAT
6637161 TTTAATTTTAAA
1 TTTAATTTTAAA
*
6637173 TCTTAATTTAAAA
1 T-TTAATTTTAAA
*
6637186 TATAATTTTAAA
1 TTTAATTTTAAA
6637198 TT
1 TT
6637200 CTAAACTGCA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (12 bp):
TTTAATTTTAAA
Found at i:6640827 original size:16 final size:15
Alignment explanation
Indices: 6640816--6640846 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
6640806 ACCCGAACTG
6640816 AATCTAAACCGAAAT
1 AATCTAAACCGAAAT
6640831 AATCTAAACCCGAAAT
1 AATCTAAA-CCGAAAT
6640847 GACTCGACCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.52, C:0.23, G:0.06, T:0.19
Consensus pattern (15 bp):
AATCTAAACCGAAAT
Found at i:6640836 original size:15 final size:16
Alignment explanation
Indices: 6640806--6640846 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
6640796 TTGATATCTG
*
6640806 ACCCGAACTGAATCTAA
1 ACCCGAAAT-AATCTAA
6640823 A-CCGAAATAATCTAA
1 ACCCGAAATAATCTAA
6640838 ACCCGAAAT
1 ACCCGAAAT
6640847 GACTCGACCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 8 0.36
16 13 0.59
17 1 0.05
ACGTcount: A:0.46, C:0.27, G:0.10, T:0.17
Consensus pattern (16 bp):
ACCCGAAATAATCTAA
Found at i:6641884 original size:14 final size:14
Alignment explanation
Indices: 6641862--6641893 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
6641852 ATAAATACAG
*
6641862 AAATTAAATTCATT
1 AAATAAAATTCATT
6641876 AAATAAAATTCATT
1 AAATAAAATTCATT
6641890 AAAT
1 AAAT
6641894 TAATAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (14 bp):
AAATAAAATTCATT
Found at i:6642341 original size:99 final size:99
Alignment explanation
Indices: 6642170--6642377 Score: 373
Period size: 99 Copynumber: 2.1 Consensus size: 99
6642160 TCATCGTCGT
*
6642170 CATCATCATCACCAACGACACTTGCTTTGTGTTCTAAGCCACTAAGCTCTCCAACACCGGGAAGA
1 CATCATCATCACCAACAACACTTGCTTTGTGTTCTAAGCCACTAAGCTCTCCAACACCGGGAAGA
*
6642235 AACTCAGTAGCAGTATCACAGCTACATGACTCTG
66 AACTCAGTAGCAGTATAACAGCTACATGACTCTG
*
6642269 CATCATCATCACCAGCAACA-TCTGCTTTGTGTTCTAAGCCACTAAGCTCTCCAACACCGGGAAG
1 CATCATCATCACCAACAACACT-TGCTTTGTGTTCTAAGCCACTAAGCTCTCCAACACCGGGAAG
6642333 AAACTCAGTAGCAGTATAACAGCTACATGACTCTG
65 AAACTCAGTAGCAGTATAACAGCTACATGACTCTG
6642368 CATCATCATC
1 CATCATCATC
6642378 TTCGCCTTCA
Statistics
Matches: 105, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
98 1 0.01
99 104 0.99
ACGTcount: A:0.31, C:0.30, G:0.15, T:0.24
Consensus pattern (99 bp):
CATCATCATCACCAACAACACTTGCTTTGTGTTCTAAGCCACTAAGCTCTCCAACACCGGGAAGA
AACTCAGTAGCAGTATAACAGCTACATGACTCTG
Found at i:6642903 original size:2 final size:2
Alignment explanation
Indices: 6642898--6642934 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
6642888 ATATAATTAA
6642898 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6642935 AAGAGGTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:6653892 original size:107 final size:107
Alignment explanation
Indices: 6653670--6653982 Score: 427
Period size: 107 Copynumber: 2.9 Consensus size: 107
6653660 CCAAAATCAA
* * * * * *
6653670 TAAATTCACAAACATTTGACAATCATCAATCAATAATAAATCTTGTTAAAGCTCTCAAGAG-AAA
1 TAAATTCACAAACATTTGACAGT-A--AA-AAAT-ATAGATCTTGTTAAACCTCTGAACAGAAAA
** ** *
6653734 TGCCTAACATCATCG-TCGCAGAACTTCAATC--CACGTATTGCAACAG
61 TGCCTAACA-CAAAGTTCTTA-AACTCCAATCGGCACGTATTGCAACAG
6653780 TAAATTCACAAACATTTGACAGTAAAAAATATAGATCTTGTTAAACCTCTGAACAGAAAATGCCT
1 TAAATTCACAAACATTTGACAGTAAAAAATATAGATCTTGTTAAACCTCTGAACAGAAAATGCCT
6653845 AACACAAAGTTCTTAAACTCCAATCGGCACGTATTGCAACAG
66 AACACAAAGTTCTTAAACTCCAATCGGCACGTATTGCAACAG
6653887 TAAATTCACAAACATTTGACAGTAAAAAATATAGATCTTGTTAAACCTCTGAACAGAAAATGCCT
1 TAAATTCACAAACATTTGACAGTAAAAAATATAGATCTTGTTAAACCTCTGAACAGAAAATGCCT
6653952 AACAACAAAGTTCTTAAACTCCAATCGGCAC
66 AAC-ACAAAGTTCTTAAACTCCAATCGGCAC
6653983 AATGAAACAC
Statistics
Matches: 187, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
105 34 0.18
106 18 0.10
107 85 0.45
108 27 0.14
109 1 0.01
110 22 0.12
ACGTcount: A:0.42, C:0.21, G:0.11, T:0.26
Consensus pattern (107 bp):
TAAATTCACAAACATTTGACAGTAAAAAATATAGATCTTGTTAAACCTCTGAACAGAAAATGCCT
AACACAAAGTTCTTAAACTCCAATCGGCACGTATTGCAACAG
Found at i:6654177 original size:154 final size:154
Alignment explanation
Indices: 6653893--6654205 Score: 565
Period size: 154 Copynumber: 2.0 Consensus size: 154
6653883 ACAGTAAATT
6653893 CACAAACATTTGACAGTAAAAAATATAGATCTTGTTAAACCTCTGAACAGAAAATGCCTAACAAC
1 CACAAACATTTGACAGTAAAAAATATAGATCTTGTTAAACCTCTGAACAGAAAATGCCTAACAAC
6653958 AAAGTTCTTAAACTCCAATCGGCACAATGAAACACTCTGATATAGAGATTTAATGATACCAACTA
66 AAAGTTCTTAAACTCCAATCGGCACAATGAAACACTCTGATATAGAGATTTAATGATACCAACTA
6654023 AAAGGTGCAAGCATTTCATTTTAA
131 AAAGGTGCAAGCATTTCATTTTAA
6654047 CACAAACATTTGACAGTAAAAAATATAGATCTTGTTAAACCTCTGAACAGAAAATGCCTAACAAC
1 CACAAACATTTGACAGTAAAAAATATAGATCTTGTTAAACCTCTGAACAGAAAATGCCTAACAAC
* * * *
6654112 AAAGTTCTTGAACTCTAATCGGCACAATGAAACACTCTGACT-TAGAGATTTAATGCTACCTACT
66 AAAGTTCTTAAACTCCAATCGGCACAATGAAACACTCTGA-TATAGAGATTTAATGATACCAACT
*
6654176 AAAAGGTGCATGCATTTCATTTTAA
130 AAAAGGTGCAAGCATTTCATTTTAA
6654201 CACAA
1 CACAA
6654206 GGATGGACAT
Statistics
Matches: 153, Mismatches: 5, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
154 152 0.99
155 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.27
Consensus pattern (154 bp):
CACAAACATTTGACAGTAAAAAATATAGATCTTGTTAAACCTCTGAACAGAAAATGCCTAACAAC
AAAGTTCTTAAACTCCAATCGGCACAATGAAACACTCTGATATAGAGATTTAATGATACCAACTA
AAAGGTGCAAGCATTTCATTTTAA
Found at i:6658537 original size:31 final size:32
Alignment explanation
Indices: 6658502--6658570 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 32
6658492 TAAACATTAA
* * * *
6658502 TTTATAATAGTTTGATAAGT-TTAATGATCAT
1 TTTATAACAATTTGATAAATATTAATAATCAT
6658533 TTTATAACAATTTGATAAATATTAATAATCAT
1 TTTATAACAATTTGATAAATATTAATAATCAT
6658565 TTTATA
1 TTTATA
6658571 GATATTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 17 0.52
32 16 0.48
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (32 bp):
TTTATAACAATTTGATAAATATTAATAATCAT
Found at i:6658838 original size:2 final size:2
Alignment explanation
Indices: 6658831--6658865 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
6658821 AATAGAGAAT
6658831 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6658866 GTGTGTGTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:6659832 original size:28 final size:28
Alignment explanation
Indices: 6659796--6659856 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
6659786 ATTGAAAATG
* *
6659796 TTAACATAATATCAAATATTTATTTTAA
1 TTAAAATAATATCAAATATCTATTTTAA
* * *
6659824 TTAAAATAATTTTAAATATCTATTTTGA
1 TTAAAATAATATCAAATATCTATTTTAA
6659852 TTAAA
1 TTAAA
6659857 TGTATTTTAG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.05, G:0.02, T:0.48
Consensus pattern (28 bp):
TTAAAATAATATCAAATATCTATTTTAA
Found at i:6662061 original size:23 final size:23
Alignment explanation
Indices: 6662032--6662118 Score: 120
Period size: 23 Copynumber: 3.6 Consensus size: 23
6662022 AATATATTAA
6662032 AATGGCATGAATACAAAATATAT
1 AATGGCATGAATACAAAATATAT
* *
6662055 AATGGCATGAATACCTGAATATATTAA
1 AATGGCATGAATA-C--AAAATA-TAT
6662082 AATGGCATGAATACAAAATATAT
1 AATGGCATGAATACAAAATATAT
6662105 AATGGCATGAATAC
1 AATGGCATGAATAC
6662119 CTGAATATAT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
23 29 0.52
24 6 0.11
26 6 0.11
27 15 0.27
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.26
Consensus pattern (23 bp):
AATGGCATGAATACAAAATATAT
Found at i:6662085 original size:50 final size:50
Alignment explanation
Indices: 6662010--6662133 Score: 248
Period size: 50 Copynumber: 2.5 Consensus size: 50
6662000 GGTTCATTAA
6662010 CATGAATACCTGAATATATTAAAATGGCATGAATACAAAATATATAATGG
1 CATGAATACCTGAATATATTAAAATGGCATGAATACAAAATATATAATGG
6662060 CATGAATACCTGAATATATTAAAATGGCATGAATACAAAATATATAATGG
1 CATGAATACCTGAATATATTAAAATGGCATGAATACAAAATATATAATGG
6662110 CATGAATACCTGAATATATTAAAA
1 CATGAATACCTGAATATATTAAAA
6662134 ACCAATAATT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 74 1.00
ACGTcount: A:0.48, C:0.10, G:0.13, T:0.28
Consensus pattern (50 bp):
CATGAATACCTGAATATATTAAAATGGCATGAATACAAAATATATAATGG
Found at i:6663249 original size:17 final size:16
Alignment explanation
Indices: 6663218--6663267 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
6663208 ATAATTTTAG
6663218 AATATT-TTTTTTAAA
1 AATATTATTTTTTAAA
*
6663233 TATATTATTTTTATAAA
1 AATATTATTTTT-TAAA
*
6663250 AAAATTATTTTTCTAAA
1 AATATTATTTTT-TAAA
6663267 A
1 A
6663268 TTACAAAAGA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
15 5 0.17
16 5 0.17
17 19 0.66
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (16 bp):
AATATTATTTTTTAAA
Found at i:6663882 original size:13 final size:13
Alignment explanation
Indices: 6663864--6663926 Score: 69
Period size: 13 Copynumber: 4.9 Consensus size: 13
6663854 TAAAAAATTA
6663864 AATATTAATTTTT
1 AATATTAATTTTT
*
6663877 AATATT-ATATTAT
1 AATATTAAT-TTTT
6663890 AGATATTAA-TTTT
1 A-ATATTAATTTTT
6663903 AATATTAATTTTT
1 AATATTAATTTTT
*
6663916 AA-ATTTATTTT
1 AATATTAATTTT
6663927 ATATCATATA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
12 17 0.40
13 20 0.47
14 5 0.12
15 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (13 bp):
AATATTAATTTTT
Found at i:6663958 original size:20 final size:20
Alignment explanation
Indices: 6663914--6663972 Score: 65
Period size: 19 Copynumber: 3.1 Consensus size: 20
6663904 ATATTAATTT
6663914 TTAAATTTATTTTATATCA-TA
1 TTAAA-TTATTTTATAT-ATTA
6663935 -TAAATTATTTTATATATTA
1 TTAAATTATTTTATATATTA
6663954 TTAAA--ATTTTATAT-TTA
1 TTAAATTATTTTATATATTA
6663971 TT
1 TT
6663973 TTGATTATTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
17 5 0.14
18 10 0.28
19 13 0.36
20 8 0.22
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTAAATTATTTTATATATTA
Found at i:6666902 original size:20 final size:21
Alignment explanation
Indices: 6666877--6666927 Score: 77
Period size: 20 Copynumber: 2.5 Consensus size: 21
6666867 CCGGCTCTAA
*
6666877 AAATAAAGAAGCTAATATTT-
1 AAATAAAGAAGCTAAGATTTG
6666897 AAATAAAGAAGCTAAGATTTG
1 AAATAAAGAAGCTAAGATTTG
*
6666918 AAAAAAAGAA
1 AAATAAAGAA
6666928 AAAGAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
20 19 0.68
21 9 0.32
ACGTcount: A:0.61, C:0.04, G:0.14, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGCTAAGATTTG
Found at i:6674222 original size:14 final size:14
Alignment explanation
Indices: 6674203--6674232 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
6674193 TTTTAGTACC
6674203 ATTCCAATTGGTTA
1 ATTCCAATTGGTTA
*
6674217 ATTCCACTTGGTTA
1 ATTCCAATTGGTTA
6674231 AT
1 AT
6674233 CTAACCTCAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.17, G:0.13, T:0.43
Consensus pattern (14 bp):
ATTCCAATTGGTTA
Found at i:6679628 original size:29 final size:29
Alignment explanation
Indices: 6679594--6679649 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
6679584 TCCCAACACA
* *
6679594 TAGGTCGACATGCCCTCCAGGCGACCTTG
1 TAGGTCGACATGCACTCCAGGAGACCTTG
* *
6679623 TAGGTCGCCATGCACTCCGGGAGACCT
1 TAGGTCGACATGCACTCCAGGAGACCT
6679650 ACCCTCGCTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.18, C:0.34, G:0.29, T:0.20
Consensus pattern (29 bp):
TAGGTCGACATGCACTCCAGGAGACCTTG
Found at i:6679702 original size:33 final size:33
Alignment explanation
Indices: 6679665--6679727 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
6679655 CGCTCGACTT
*
6679665 CCCTCGGATTCCCTCGCATAGCTCGCTCGGTTA
1 CCCTCGGATGCCCTCGCATAGCTCGCTCGGTTA
*
6679698 CCCTCGGATGCCCTCGCATAGCTCGTTCGG
1 CCCTCGGATGCCCTCGCATAGCTCGCTCGG
6679728 ATGGCCTCGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.11, C:0.40, G:0.24, T:0.25
Consensus pattern (33 bp):
CCCTCGGATGCCCTCGCATAGCTCGCTCGGTTA
Found at i:6679711 original size:10 final size:10
Alignment explanation
Indices: 6679665--6679777 Score: 55
Period size: 10 Copynumber: 10.3 Consensus size: 10
6679655 CGCTCGACTT
*
6679665 CCCTCGGATT
1 CCCTCGGATG
*
6679675 CCCTCGCATAG
1 CCCTCGGAT-G
* *
6679686 CTCGCTCGGTTA
1 C-C-CTCGGATG
6679698 CCCTCGGATG
1 CCCTCGGATG
*
6679708 CCCTCGCATAG
1 CCCTCGGAT-G
*
6679719 CTCGTTCGGATGG
1 C-C-CTCGGAT-G
6679732 CCTCGGTCGGATG
1 CC-C--TCGGATG
*
6679745 GCCTCGGATG
1 CCCTCGGATG
*
6679755 CTCTCGGATG
1 CCCTCGGATG
*
6679765 GCCTCGGATG
1 CCCTCGGATG
6679775 CCC
1 CCC
6679778 AGTGTGTTGG
Statistics
Matches: 76, Mismatches: 19, Indels: 16
0.68 0.17 0.14
Matches are distributed among these distances:
10 47 0.62
11 4 0.05
12 5 0.07
13 14 0.18
14 6 0.08
ACGTcount: A:0.11, C:0.36, G:0.29, T:0.24
Consensus pattern (10 bp):
CCCTCGGATG
Found at i:6679736 original size:33 final size:32
Alignment explanation
Indices: 6679666--6679777 Score: 102
Period size: 33 Copynumber: 3.4 Consensus size: 32
6679656 GCTCGACTTC
* * **
6679666 CCTCGGATTCCCTCGCATAGCTCGCTCGGTTAC
1 CCTCGGATGCCCTCGCATAGCTCG-TCGGATGG
6679699 CCTCGGATGCCCTCGCATAGCTCGTTCGGATGG
1 CCTCGGATGCCCTCGCATAGCTCG-TCGGATGG
* *
6679732 CCTCGGTCGGATGGCCTCGGAT-GCTC-TCGGATGG
1 -C-C--TCGGATGCCCTCGCATAGCTCGTCGGATGG
6679766 CCTCGGATGCCC
1 CCTCGGATGCCC
6679778 AGTGTGTTGG
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
30 9 0.13
32 1 0.01
33 29 0.43
34 9 0.13
35 1 0.01
36 4 0.06
37 14 0.21
ACGTcount: A:0.11, C:0.36, G:0.29, T:0.24
Consensus pattern (32 bp):
CCTCGGATGCCCTCGCATAGCTCGTCGGATGG
Found at i:6679741 original size:14 final size:14
Alignment explanation
Indices: 6679719--6679751 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6679709 CCTCGCATAG
*
6679719 CTCGTTCGGATGGC
1 CTCGGTCGGATGGC
6679733 CTCGGTCGGATGGC
1 CTCGGTCGGATGGC
6679747 CTCGG
1 CTCGG
6679752 ATGCTCTCGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.06, C:0.30, G:0.39, T:0.24
Consensus pattern (14 bp):
CTCGGTCGGATGGC
Found at i:6679763 original size:20 final size:20
Alignment explanation
Indices: 6679738--6679775 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
6679728 ATGGCCTCGG
6679738 TCGGATGGCCTCGGATGCTC
1 TCGGATGGCCTCGGATGCTC
6679758 TCGGATGGCCTCGGATGC
1 TCGGATGGCCTCGGATGC
6679776 CCAGTGTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.11, C:0.29, G:0.37, T:0.24
Consensus pattern (20 bp):
TCGGATGGCCTCGGATGCTC
Found at i:6680754 original size:2 final size:2
Alignment explanation
Indices: 6680747--6680774 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6680737 CTCAAAAGGC
6680747 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
6680775 TCTTTTGATA
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:6685523 original size:18 final size:18
Alignment explanation
Indices: 6685502--6685537 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6685492 TAAGATTATC
6685502 GGCGAGAATAAAATTACT
1 GGCGAGAATAAAATTACT
* *
6685520 GGCGGGAATAAGATTACT
1 GGCGAGAATAAAATTACT
6685538 AAGAATGTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.39, C:0.11, G:0.28, T:0.22
Consensus pattern (18 bp):
GGCGAGAATAAAATTACT
Found at i:6698078 original size:50 final size:51
Alignment explanation
Indices: 6698003--6698100 Score: 146
Period size: 50 Copynumber: 1.9 Consensus size: 51
6697993 AGGGGATTCA
* *
6698003 CAAGGTGAAGTATTGAAGACATTATTACCTAACCAATC-TTTAAGACTGGG
1 CAAGGTGAAGTATTGAAGAAATTATTACCTAACCAACCTTTTAAGACTGGG
*
6698053 CAAGGTGAAGTCATT-AAGAAATTATTATCTAACCAACCTTTTAAGACT
1 CAAGGTGAAGT-ATTGAAGAAATTATTACCTAACCAACCTTTTAAGACT
6698101 ACGCCTATCT
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
50 31 0.72
51 12 0.28
ACGTcount: A:0.38, C:0.16, G:0.16, T:0.30
Consensus pattern (51 bp):
CAAGGTGAAGTATTGAAGAAATTATTACCTAACCAACCTTTTAAGACTGGG
Found at i:6705023 original size:2 final size:2
Alignment explanation
Indices: 6705016--6705042 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
6705006 AGACTCCCTC
6705016 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
6705043 CTGTGCTATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:6722191 original size:21 final size:21
Alignment explanation
Indices: 6722165--6722205 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
6722155 GACTATCACA
6722165 TTGCGATTTTCCAAATTCGCG
1 TTGCGATTTTCCAAATTCGCG
6722186 TTGCGATTTTCCAAATTCGC
1 TTGCGATTTTCCAAATTCGC
6722206 AATATGAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.24, G:0.17, T:0.39
Consensus pattern (21 bp):
TTGCGATTTTCCAAATTCGCG
Found at i:6722249 original size:20 final size:20
Alignment explanation
Indices: 6722211--6722252 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
6722201 TTCGCAATAT
6722211 GAATATGTAAATCGCAACGC
1 GAATATGTAAATCGCAACGC
6722231 GAATATGTAAATCGCAACGC
1 GAATATGTAAATCGCAACGC
6722251 GA
1 GA
6722253 TTCTGACTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (20 bp):
GAATATGTAAATCGCAACGC
Found at i:6722264 original size:20 final size:20
Alignment explanation
Indices: 6722241--6722332 Score: 82
Period size: 20 Copynumber: 4.7 Consensus size: 20
6722231 GAATATGTAA
*
6722241 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTAACT
* *
6722261 ATCGCAACGCGA-TCTCCAGT
1 ATCGCAACGCGATTCT-AACT
* * *
6722281 ATCGCAACAC-AGTTCCAAGT
1 ATCGCAACGCGA-TTCTAACT
*
6722301 -TCGCAACGCGAATCTAACT
1 ATCGCAACGCGATTCTAACT
6722320 ATCGCAACGCGAT
1 ATCGCAACGCGAT
6722333 AATACAAAAT
Statistics
Matches: 57, Mismatches: 10, Indels: 10
0.74 0.13 0.13
Matches are distributed among these distances:
19 17 0.30
20 38 0.67
21 2 0.04
ACGTcount: A:0.29, C:0.32, G:0.18, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGATTCTAACT
Found at i:6722552 original size:22 final size:22
Alignment explanation
Indices: 6722527--6722574 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
6722517 CGGCGACATT
6722527 CGTCCCCATCTCCGACGAAATC
1 CGTCCCCATCTCCGACGAAATC
*
6722549 CGTCCCCATCTCCGGCGAAATC
1 CGTCCCCATCTCCGACGAAATC
6722571 CGTC
1 CGTC
6722575 TATCTCCATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.19, C:0.46, G:0.17, T:0.19
Consensus pattern (22 bp):
CGTCCCCATCTCCGACGAAATC
Found at i:6723063 original size:40 final size:40
Alignment explanation
Indices: 6722993--6723086 Score: 107
Period size: 40 Copynumber: 2.4 Consensus size: 40
6722983 GCGATTTTCA
*
6722993 TTTCGCGTTGCGATAGTCAAATTCGCGTTGTGATAGCCAT
1 TTTCGTGTTGCGATAGTCAAATTCGCGTTGTGATAGCCAT
* ** * * ***
6723033 TTTTGTGTTGCGATAGTCATTTTTGTGTTGTGATTTTCAT
1 TTTCGTGTTGCGATAGTCAAATTCGCGTTGTGATAGCCAT
6723073 TTTCGTGTTGCGAT
1 TTTCGTGTTGCGAT
6723087 TTTAAGTTTC
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.15, C:0.14, G:0.24, T:0.47
Consensus pattern (40 bp):
TTTCGTGTTGCGATAGTCAAATTCGCGTTGTGATAGCCAT
Found at i:6723089 original size:20 final size:20
Alignment explanation
Indices: 6722974--6723086 Score: 93
Period size: 20 Copynumber: 5.7 Consensus size: 20
6722964 ACAATTTTAG
**
6722974 TTTCGCGTTGCGATTTTCA-
1 TTTCGCGTTGCGATAGTCAT
*
6722993 TTTCGCGTTGCGATAGTCAA
1 TTTCGCGTTGCGATAGTCAT
* * *
6723013 ATTCGCGTTGTGATAGCCAT
1 TTTCGCGTTGCGATAGTCAT
* *
6723033 TTTTGTGTTGCGATAGTCAT
1 TTTCGCGTTGCGATAGTCAT
* * * **
6723053 TTTTGTGTTGTGATTTTCAT
1 TTTCGCGTTGCGATAGTCAT
*
6723073 TTTCGTGTTGCGAT
1 TTTCGCGTTGCGAT
6723087 TTTAAGTTTC
Statistics
Matches: 77, Mismatches: 16, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
19 17 0.22
20 60 0.78
ACGTcount: A:0.14, C:0.15, G:0.24, T:0.47
Consensus pattern (20 bp):
TTTCGCGTTGCGATAGTCAT
Found at i:6723096 original size:20 final size:20
Alignment explanation
Indices: 6723057--6723096 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6723047 AGTCATTTTT
* * *
6723057 GTGTTGTGATTTTCATTTTC
1 GTGTTGCGATTTTAAGTTTC
6723077 GTGTTGCGATTTTAAGTTTC
1 GTGTTGCGATTTTAAGTTTC
6723097 AGAAACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.12, C:0.10, G:0.23, T:0.55
Consensus pattern (20 bp):
GTGTTGCGATTTTAAGTTTC
Found at i:6723287 original size:25 final size:24
Alignment explanation
Indices: 6723233--6723287 Score: 58
Period size: 25 Copynumber: 2.2 Consensus size: 24
6723223 TGTTTATTAT
* *
6723233 TGTTTTTGGTATATCTTCACAGTG
1 TGTTTTTGGTATATCTTAACAGTA
6723257 TAGTTTTTGGTATATC-TAACTTAGTA
1 T-GTTTTTGGTATATCTTAAC--AGTA
6723283 TGTTT
1 TGTTT
6723288 ATTGTTTTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
24 4 0.15
25 18 0.69
26 4 0.15
ACGTcount: A:0.20, C:0.09, G:0.18, T:0.53
Consensus pattern (24 bp):
TGTTTTTGGTATATCTTAACAGTA
Found at i:6725006 original size:20 final size:20
Alignment explanation
Indices: 6724983--6725031 Score: 80
Period size: 20 Copynumber: 2.5 Consensus size: 20
6724973 GAAACTTAAA
6724983 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
6725003 ATCGCAACGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
6725023 ATCGCAACG
1 ATCGCAACG
6725032 GGATAATTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.27, G:0.20, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:6725100 original size:19 final size:19
Alignment explanation
Indices: 6725078--6725119 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
6725068 AAATCGCAAC
6725078 GCGAATTTAGTTTCGCGTT
1 GCGAATTTAGTTTCGCGTT
* * *
6725097 GCGATTTTGGTTTCGTGTT
1 GCGAATTTAGTTTCGCGTT
6725116 GCGA
1 GCGA
6725120 TTTTCTCGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.12, C:0.14, G:0.31, T:0.43
Consensus pattern (19 bp):
GCGAATTTAGTTTCGCGTT
Found at i:6725120 original size:19 final size:19
Alignment explanation
Indices: 6725087--6725123 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
6725077 CGCGAATTTA
6725087 GTTTCGCGTTGCGATTTTG
1 GTTTCGCGTTGCGATTTTG
*
6725106 GTTTCGTGTTGCGATTTT
1 GTTTCGCGTTGCGATTTT
6725124 CTCGTTGCGA
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:0.05, C:0.14, G:0.30, T:0.51
Consensus pattern (19 bp):
GTTTCGCGTTGCGATTTTG
Found at i:6725135 original size:33 final size:33
Alignment explanation
Indices: 6725088--6725167 Score: 97
Period size: 33 Copynumber: 2.4 Consensus size: 33
6725078 GCGAATTTAG
* * **
6725088 TTTCGCGTTGCGATTTTGGTTTCGTGTTGCGAT
1 TTTCCCGTTGCGATTTTGATTTCGCATTGCGAT
* *
6725121 TTTCTCGTTGCGATTTTTATTTCGCATTGCGAT
1 TTTCCCGTTGCGATTTTGATTTCGCATTGCGAT
*
6725154 TCTCCCGTTGCGAT
1 TTTCCCGTTGCGAT
6725168 AGTAATTTCC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 40 1.00
ACGTcount: A:0.09, C:0.20, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCCCGTTGCGATTTTGATTTCGCATTGCGAT
Found at i:6725176 original size:33 final size:34
Alignment explanation
Indices: 6725114--6725187 Score: 87
Period size: 33 Copynumber: 2.2 Consensus size: 34
6725104 TGGTTTCGTG
* * ** *
6725114 TTGCGATTTTCTCGTTGCGATTTTTATTT-CGCA
1 TTGCGATTCTCCCGTTGCGATAGTAATTTCCGCA
*
6725147 TTGCGATTCTCCCGTTGCGATAGTAATTTCCGCG
1 TTGCGATTCTCCCGTTGCGATAGTAATTTCCGCA
6725181 TTGCGAT
1 TTGCGAT
6725188 AGTCATTTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
33 24 0.71
34 10 0.29
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.43
Consensus pattern (34 bp):
TTGCGATTCTCCCGTTGCGATAGTAATTTCCGCA
Found at i:6725773 original size:21 final size:21
Alignment explanation
Indices: 6725749--6725818 Score: 61
Period size: 21 Copynumber: 3.3 Consensus size: 21
6725739 CTATCATCCC
6725749 TCAAGAGTCCCCTCCCACCGT
1 TCAAGAGTCCCCTCCCACCGT
* ** *
6725770 TCAAGAGGCCCCTGTCATCGT
1 TCAAGAGTCCCCTCCCACCGT
* * *
6725791 TGAAGAGGT-CTCTCCCACCAT
1 TCAAGA-GTCCCCTCCCACCGT
6725812 TCAAGAG
1 TCAAGAG
6725819 CACGATTCAC
Statistics
Matches: 36, Mismatches: 12, Indels: 3
0.71 0.24 0.06
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.23, C:0.36, G:0.20, T:0.21
Consensus pattern (21 bp):
TCAAGAGTCCCCTCCCACCGT
Found at i:6725797 original size:42 final size:42
Alignment explanation
Indices: 6725696--6725818 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
6725686 GCCCGACTCA
* * * * *
6725696 CCTGTCATCGTTCAAGAGGCCTCTTCTATCGTTCAAAAGACC
1 CCTGTCATCGTTCAAGAGTCCTCTCCCACCGTTCAAGAGACC
* ** * *
6725738 CCTATCATCCCTCAAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTGTCATCGTTCAAGAGTCCTCTCCCACCGTTCAAGAGACC
* *
6725780 CCTGTCATCGTTGAAGAGGT-CTCTCCCACCATTCAAGAG
1 CCTGTCATCGTTCAAGA-GTCCTCTCCCACCGTTCAAGAG
6725819 CACGATTCAC
Statistics
Matches: 64, Mismatches: 16, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
42 62 0.97
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.17, T:0.24
Consensus pattern (42 bp):
CCTGTCATCGTTCAAGAGTCCTCTCCCACCGTTCAAGAGACC
Done.