Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr11
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: 61124829
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1263459 characters in sequence are not A, C, G, or T
File 123 of 205
Found at i:36886502 original size:21 final size:22
Alignment explanation
Indices: 36886473--36886518 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
36886463 AAATTTAATT
36886473 TTTATA-TTTTTAATTTTAAGAA
1 TTTATATTTTTTAATTTTAA-AA
*
36886495 TTTA-ATTTTTTATTTTTAAAA
1 TTTATATTTTTTAATTTTAAAA
36886516 TTT
1 TTT
36886519 TAAAATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTATATTTTTTAATTTTAAAA
Found at i:36886511 original size:29 final size:29
Alignment explanation
Indices: 36886463--36886545 Score: 91
Period size: 29 Copynumber: 2.9 Consensus size: 29
36886453 GAGAGATTGG
*
36886463 AAATTTAATTTTTATATTTT-TAATTTTA
1 AAATTTAATTTTTATATTTTAAAATTTTA
36886491 AGAATTTAATTTTT-TATTTTTAAAATTTTA
1 A-AATTTAATTTTTATA-TTTTAAAATTTTA
* * *
36886521 AAATTT-ATGTTAAAATTTTAAAATT
1 AAATTTAATTTTTATATTTTAAAATT
36886546 ATTTTATTAA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
28 17 0.36
29 22 0.47
30 8 0.17
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (29 bp):
AAATTTAATTTTTATATTTTAAAATTTTA
Found at i:36894190 original size:18 final size:18
Alignment explanation
Indices: 36894167--36894203 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
36894157 ATCAAATAAC
36894167 TCATTCTTGATATAATTT
1 TCATTCTTGATATAATTT
36894185 TCATTCTTGATATAATTT
1 TCATTCTTGATATAATTT
36894203 T
1 T
36894204 GAAATATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.27, C:0.11, G:0.05, T:0.57
Consensus pattern (18 bp):
TCATTCTTGATATAATTT
Found at i:36897944 original size:22 final size:22
Alignment explanation
Indices: 36897918--36897971 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
36897908 AACAAGAAAC
* **
36897918 AAAAGACAGAAGAACGAAGAAG
1 AAAAGAAAGAAGAAAAAAGAAG
36897940 AAAAGAAAGAAGAAAAAAGAAG
1 AAAAGAAAGAAGAAAAAAGAAG
36897962 AAAAGCAAAG
1 AAAAG-AAAG
36897972 TGCCAAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 24 0.86
23 4 0.14
ACGTcount: A:0.70, C:0.06, G:0.24, T:0.00
Consensus pattern (22 bp):
AAAAGAAAGAAGAAAAAAGAAG
Found at i:36897951 original size:15 final size:14
Alignment explanation
Indices: 36897927--36897960 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
36897917 CAAAAGACAG
*
36897927 AAGAACGAAGAAGAA
1 AAGAAAGAAGAA-AA
36897942 AAGAAAGAAGAAAA
1 AAGAAAGAAGAAAA
36897956 AAGAA
1 AAGAA
36897961 GAAAAGCAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.74, C:0.03, G:0.24, T:0.00
Consensus pattern (14 bp):
AAGAAAGAAGAAAA
Found at i:36905518 original size:40 final size:40
Alignment explanation
Indices: 36905418--36905762 Score: 376
Period size: 40 Copynumber: 8.7 Consensus size: 40
36905408 GCTCCTCGTT
* * * *
36905418 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
36905458 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
36905497 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* **
36905537 CGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
36905577 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
36905617 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
* *
36905657 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
36905697 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
36905738 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
36905763 CAGCATTCAA
Statistics
Matches: 277, Mismatches: 22, Indels: 12
0.89 0.07 0.04
Matches are distributed among these distances:
39 39 0.14
40 223 0.81
41 15 0.05
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:36905771 original size:41 final size:41
Alignment explanation
Indices: 36905694--36905771 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
36905684 TTTGTATCTC
* * *
36905694 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
36905735 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
36905772 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:36912409 original size:13 final size:13
Alignment explanation
Indices: 36912391--36912430 Score: 80
Period size: 13 Copynumber: 3.1 Consensus size: 13
36912381 AGGGTTTTGA
36912391 AGAGAGAAACGTG
1 AGAGAGAAACGTG
36912404 AGAGAGAAACGTG
1 AGAGAGAAACGTG
36912417 AGAGAGAAACGTG
1 AGAGAGAAACGTG
36912430 A
1 A
36912431 AGAATGAATG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.47, C:0.07, G:0.38, T:0.07
Consensus pattern (13 bp):
AGAGAGAAACGTG
Found at i:36919769 original size:32 final size:30
Alignment explanation
Indices: 36919728--36919822 Score: 102
Period size: 32 Copynumber: 3.1 Consensus size: 30
36919718 CGGCCCGTTT
**
36919728 TTAAAATAAATACCAAAAATTTATTTTAAAAA
1 TTAAAATAAATA--AAAAAAGTATTTTAAAAA
* *
36919760 TTAAAATAAAAATTAAAAAAGTATTTTAAAAT
1 TTAAAAT--AAATAAAAAAAGTATTTTAAAAA
*
36919792 TTAAAA-AATTAAAAAAAGTATTTTAAAAA
1 TTAAAATAAATAAAAAAAGTATTTTAAAAA
36919821 TT
1 TT
36919823 TTAAAATTAA
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
29 22 0.41
32 28 0.52
34 4 0.07
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (30 bp):
TTAAAATAAATAAAAAAAGTATTTTAAAAA
Found at i:36919778 original size:20 final size:20
Alignment explanation
Indices: 36919755--36919805 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
36919745 AATTTATTTT
36919755 AAAAATTAAAATAAAAATTA
1 AAAAATTAAAATAAAAATTA
* *** *
36919775 AAAAAGTATTTTAAAATTTA
1 AAAAATTAAAATAAAAATTA
36919795 AAAAATTAAAA
1 AAAAATTAAAA
36919806 AAAGTATTTT
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (20 bp):
AAAAATTAAAATAAAAATTA
Found at i:36919809 original size:29 final size:29
Alignment explanation
Indices: 36919766--36919837 Score: 112
Period size: 29 Copynumber: 2.5 Consensus size: 29
36919756 AAAATTAAAA
36919766 TAAAAATT-AAAAAAGTATTTT-AAAATT
1 TAAAAATTAAAAAAAGTATTTTAAAAATT
36919793 TAAAAAATTAAAAAAAGTATTTTAAAAATT
1 T-AAAAATTAAAAAAAGTATTTTAAAAATT
*
36919823 TTAAAATTAAAAAAA
1 TAAAAATTAAAAAAA
36919838 ATTAAAAAAA
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
27 1 0.02
28 7 0.17
29 26 0.63
30 7 0.17
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (29 bp):
TAAAAATTAAAAAAAGTATTTTAAAAATT
Found at i:36919889 original size:41 final size:41
Alignment explanation
Indices: 36919776--36919889 Score: 162
Period size: 41 Copynumber: 2.8 Consensus size: 41
36919766 TAAAAATTAA
** *
36919776 AAAAGTATTTTAAAATTTAAAAAATTAAAAAA-AGTATTTT
1 AAAAGTATTTTAAAATAAAAAAAATAAAAAAATAGTATTTT
36919816 AAAA--ATTTTAAAATTAAAAAAAATTAAAAAAATAGTATTTT
1 AAAAGTATTTTAAAA-TAAAAAAAA-TAAAAAAATAGTATTTT
36919857 AAAAGTATTTTAAAATAAAAAAAATAAAAAAAT
1 AAAAGTATTTTAAAATAAAAAAAATAAAAAAAT
36919890 TTATTATTCG
Statistics
Matches: 66, Mismatches: 3, Indels: 9
0.85 0.04 0.12
Matches are distributed among these distances:
38 9 0.14
39 7 0.11
40 11 0.17
41 21 0.32
42 9 0.14
43 9 0.14
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (41 bp):
AAAAGTATTTTAAAATAAAAAAAATAAAAAAATAGTATTTT
Found at i:36926938 original size:22 final size:22
Alignment explanation
Indices: 36926912--36926961 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
36926902 ACCGAAATTT
*
36926912 CATGAATTTGAGTTTAAAAGGG
1 CATGAATTTGAGTTAAAAAGGG
*
36926934 CATGAATTTGAGTTAAAAATGG
1 CATGAATTTGAGTTAAAAAGGG
36926956 CATGAA
1 CATGAA
36926962 AAAGTCTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (22 bp):
CATGAATTTGAGTTAAAAAGGG
Found at i:36933315 original size:10 final size:10
Alignment explanation
Indices: 36933292--36933339 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
36933282 GAATCTATTG
* *
36933292 AAAATAAATA
1 AAAATTAATT
36933302 AAAATTAATT
1 AAAATTAATT
*
36933312 AAAATTTATTAT
1 AAAA-TTAAT-T
36933324 AAAATTAATT
1 AAAATTAATT
36933334 AAAATT
1 AAAATT
36933340 CAACATGTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
10 19 0.59
11 8 0.25
12 5 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
AAAATTAATT
Found at i:36942149 original size:18 final size:19
Alignment explanation
Indices: 36942123--36942159 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
36942113 AATTTTGGAA
36942123 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
36942141 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
36942160 ATGTAAATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:36942511 original size:18 final size:19
Alignment explanation
Indices: 36942485--36942521 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
36942475 AATTTTGGAA
36942485 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
36942503 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
36942522 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:36942513 original size:362 final size:362
Alignment explanation
Indices: 36941848--36942530 Score: 1152
Period size: 362 Copynumber: 1.9 Consensus size: 362
36941838 TAACAACATA
* *
36941848 ACAAATTAAATTCAAGCTAAATTGATTAAATTAACCATTCCAAAAACATAAATATTCATATATAT
1 ACAAATTAAATTCAAGCTAAATTGATTAAATCAACCATTCCAAAAACATAAATATTCATAGATAT
* *
36941913 GTTCAACATAACAACAACAAAAATTAAAGAGATAGGGAACAAGAATCAAATTCGGTGTTTTTTCG
66 GTTCAACATAACAACAACAAAAATAAAAGAGATAGGGAACAAGAATCAAATCCGGTGTTTTTTCG
* * *
36941978 TGGCTTGACTAGTTGCTCCATTCTTTCTTCTCCATTGTCCTCGTCAACCAAGGCTGCTATGAACA
131 TGGCTTGACTAGTTACTCCATTCTTCCTTCTCCATTGTCCTCGTCAACCAAGGCTACTATGAACA
*
36942043 CTTAATTGCTTCTCCAAATAGCTGATGAATCTCCTTTTCCCAAGAGGAGAAATCGGCAAGAGAGC
196 CTTAATTGCTGCTCCAAATAGCTGATGAATCTCCTTTTCCCAAGAGGAGAAATCGGCAAGAGAGC
36942108 AAGGGAATTTTGGAATGGAAAGAAGAGAGAAAGTGGAGAGAAGAGAGGAAAGATGTAAATGTATT
261 AAGGGAATTTTGGAATGGAAAGAAGAGAGAAAGTGGAGAGAAGAGAGGAAAGATGTAAATGTATT
36942173 TCAATAATTTTAACAAACGAAATGCAATCAACCTAAC
326 TCAATAATTTTAACAAACGAAATGCAATCAACCTAAC
* *
36942210 ACAAATTAAGTTCAAGCTAAATTGATTAAATCAACCATTCCAACAACATAAATATTCATAGATAT
1 ACAAATTAAATTCAAGCTAAATTGATTAAATCAACCATTCCAAAAACATAAATATTCATAGATAT
* * * *
36942275 GTTCAGCATAACAATAACAGAAATAAAAGAGATAGGGAACAAGAATCAAATCCGTTG-TTTTTCT
66 GTTCAACATAACAACAACAAAAATAAAAGAGATAGGGAACAAGAATCAAATCCGGTGTTTTTTC-
** *** *
36942339 GTGGCTTGACTAGTTACTCTGTTCTTCCTTCTTTGTTGTCCTCGTCGACCAAGGCTACTATGAAC
130 GTGGCTTGACTAGTTACTCCATTCTTCCTTCTCCATTGTCCTCGTCAACCAAGGCTACTATGAAC
*
36942404 ACTTAATTGCTGCTCCAAATAGCTGATGAATGTCCTTTTCCCAAGAGGAGAAATCGGCAAGAGAG
195 ACTTAATTGCTGCTCCAAATAGCTGATGAATCTCCTTTTCCCAAGAGGAGAAATCGGCAAGAGAG
*
36942469 CAAGGGAATTTTGGAATGGAAAGAAGAGAGAAAGTGGAGAGAAGAGAGGAAAGATGTGAATG
260 CAAGGGAATTTTGGAATGGAAAGAAGAGAGAAAGTGGAGAGAAGAGAGGAAAGATGTAAATG
36942531 CTTGAGGTGT
Statistics
Matches: 298, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
361 6 0.02
362 292 0.98
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (362 bp):
ACAAATTAAATTCAAGCTAAATTGATTAAATCAACCATTCCAAAAACATAAATATTCATAGATAT
GTTCAACATAACAACAACAAAAATAAAAGAGATAGGGAACAAGAATCAAATCCGGTGTTTTTTCG
TGGCTTGACTAGTTACTCCATTCTTCCTTCTCCATTGTCCTCGTCAACCAAGGCTACTATGAACA
CTTAATTGCTGCTCCAAATAGCTGATGAATCTCCTTTTCCCAAGAGGAGAAATCGGCAAGAGAGC
AAGGGAATTTTGGAATGGAAAGAAGAGAGAAAGTGGAGAGAAGAGAGGAAAGATGTAAATGTATT
TCAATAATTTTAACAAACGAAATGCAATCAACCTAAC
Found at i:36943516 original size:383 final size:383
Alignment explanation
Indices: 36942809--36943566 Score: 1516
Period size: 383 Copynumber: 2.0 Consensus size: 383
36942799 CTTGGGACGG
36942809 TTTTTGGGCTGTCCATTTCTTGGTCGGTTCAGTTCACTCGGTTTAGTTCAACTGGACCACTTTTT
1 TTTTTGGGCTGTCCATTTCTTGGTCGGTTCAGTTCACTCGGTTTAGTTCAACTGGACCACTTTTT
36942874 CATAATTAATTAATAATAATTTATTAACCCAAGTCAAATTGGATATAAATTAAAATTAATTATAT
66 CATAATTAATTAATAATAATTTATTAACCCAAGTCAAATTGGATATAAATTAAAATTAATTATAT
36942939 TATGAATTAATATATATAAATTTGAACTATCTTAGGCTGAAATTTAGTTCACCTCGATACTTCAA
131 TATGAATTAATATATATAAATTTGAACTATCTTAGGCTGAAATTTAGTTCACCTCGATACTTCAA
36943004 ATTGCTTCTTGGTTTTGCGCTTCTAGTAGTGTTTGTCGAGCCATTTTTCGTCCTTTGTGCAAATC
196 ATTGCTTCTTGGTTTTGCGCTTCTAGTAGTGTTTGTCGAGCCATTTTTCGTCCTTTGTGCAAATC
36943069 TGTTGAAAATAACAAAAATTCATCAAAATTAATTATAAAATTAAATAAAATTCAACATGGTCATA
261 TGTTGAAAATAACAAAAATTCATCAAAATTAATTATAAAATTAAATAAAATTCAACATGGTCATA
36943134 TTTTAAGTGCACTTTAATTATTTTGTAAAAATTAATTATTTTTTCGACAAAGGGACTA
326 TTTTAAGTGCACTTTAATTATTTTGTAAAAATTAATTATTTTTTCGACAAAGGGACTA
36943192 TTTTTGGGCTGTCCATTTCTTGGTCGGTTCAGTTCACTCGGTTTAGTTCAACTGGACCACTTTTT
1 TTTTTGGGCTGTCCATTTCTTGGTCGGTTCAGTTCACTCGGTTTAGTTCAACTGGACCACTTTTT
36943257 CATAATTAATTAATAATAATTTATTAACCCAAGTCAAATTGGATATAAATTAAAATTAATTATAT
66 CATAATTAATTAATAATAATTTATTAACCCAAGTCAAATTGGATATAAATTAAAATTAATTATAT
36943322 TATGAATTAATATATATAAATTTGAACTATCTTAGGCTGAAATTTAGTTCACCTCGATACTTCAA
131 TATGAATTAATATATATAAATTTGAACTATCTTAGGCTGAAATTTAGTTCACCTCGATACTTCAA
36943387 ATTGCTTCTTGGTTTTGCGCTTCTAGTAGTGTTTGTCGAGCCATTTTTCGTCCTTTGTGCAAATC
196 ATTGCTTCTTGGTTTTGCGCTTCTAGTAGTGTTTGTCGAGCCATTTTTCGTCCTTTGTGCAAATC
36943452 TGTTGAAAATAACAAAAATTCATCAAAATTAATTATAAAATTAAATAAAATTCAACATGGTCATA
261 TGTTGAAAATAACAAAAATTCATCAAAATTAATTATAAAATTAAATAAAATTCAACATGGTCATA
36943517 TTTTAAGTGCACTTTAATTATTTTGTAAAAATTAATTATTTTTTCGACAA
326 TTTTAAGTGCACTTTAATTATTTTGTAAAAATTAATTATTTTTTCGACAA
36943567 GAATTTTATC
Statistics
Matches: 375, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
383 375 1.00
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.41
Consensus pattern (383 bp):
TTTTTGGGCTGTCCATTTCTTGGTCGGTTCAGTTCACTCGGTTTAGTTCAACTGGACCACTTTTT
CATAATTAATTAATAATAATTTATTAACCCAAGTCAAATTGGATATAAATTAAAATTAATTATAT
TATGAATTAATATATATAAATTTGAACTATCTTAGGCTGAAATTTAGTTCACCTCGATACTTCAA
ATTGCTTCTTGGTTTTGCGCTTCTAGTAGTGTTTGTCGAGCCATTTTTCGTCCTTTGTGCAAATC
TGTTGAAAATAACAAAAATTCATCAAAATTAATTATAAAATTAAATAAAATTCAACATGGTCATA
TTTTAAGTGCACTTTAATTATTTTGTAAAAATTAATTATTTTTTCGACAAAGGGACTA
Found at i:36951860 original size:32 final size:32
Alignment explanation
Indices: 36951824--36951884 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
36951814 CGTTTTTGCA
* *
36951824 CACAAACGCTGCTAAAGAACATGATCTTTTAT
1 CACAAACGCCGCTAAAGAACATGACCTTTTAT
*
36951856 CACAAATGCCGCTAAAGAACATGACCTTT
1 CACAAACGCCGCTAAAGAACATGACCTTT
36951885 AGCAACGCTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.38, C:0.25, G:0.13, T:0.25
Consensus pattern (32 bp):
CACAAACGCCGCTAAAGAACATGACCTTTTAT
Found at i:36951956 original size:43 final size:43
Alignment explanation
Indices: 36951849--36951999 Score: 187
Period size: 43 Copynumber: 3.5 Consensus size: 43
36951839 AGAACATGAT
* * **
36951849 CTTTTATCACAAATGCCGCTAAAGAACATGACCTTTAGCAACG
1 CTTTTATCACAAACGCCGCTAAAGAACATGATCTTTAGCGGCG
* * ** * *
36951892 CTTTT-TCACAAATGTCGCTAAAGGTCATGTTCTTTAGCGGTG
1 CTTTTATCACAAACGCCGCTAAAGAACATGATCTTTAGCGGCG
* *
36951934 CTTTTAACACAAACGCCGCTAAAGAACATAATCTTTAGCGGCG
1 CTTTTATCACAAACGCCGCTAAAGAACATGATCTTTAGCGGCG
36951977 CTTTTATCACAAACGCCGCTAAA
1 CTTTTATCACAAACGCCGCTAAA
36952000 AGTACCGTTC
Statistics
Matches: 90, Mismatches: 17, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
42 34 0.38
43 56 0.62
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (43 bp):
CTTTTATCACAAACGCCGCTAAAGAACATGATCTTTAGCGGCG
Found at i:36952012 original size:43 final size:43
Alignment explanation
Indices: 36951849--36952019 Score: 150
Period size: 43 Copynumber: 4.0 Consensus size: 43
36951839 AGAACATGAT
* * * ** **
36951849 CTTTTATCACAAATGCCGCTAAAGAACATGACCTTTAGCAACG
1 CTTTTATCACAAACGCCGCTAAAGTACACGTTCTTTAGCGGCG
* * * *
36951892 CTTTT-TCACAAATGTCGCTAAAGGT-CATGTTCTTTAGCGGTG
1 CTTTTATCACAAACGCCGCTAAA-GTACACGTTCTTTAGCGGCG
* * ***
36951934 CTTTTAACACAAACGCCGCTAAAGAACATAATCTTTAGCGGCG
1 CTTTTATCACAAACGCCGCTAAAGTACACGTTCTTTAGCGGCG
*
36951977 CTTTTATCACAAACGCCGCTAAAAGTAC-CGTTCTTTGGCGGCG
1 CTTTTATCACAAACGCCGCT-AAAGTACACGTTCTTTAGCGGCG
36952020 TTTATGAAAA
Statistics
Matches: 104, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
42 34 0.33
43 64 0.62
44 6 0.06
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (43 bp):
CTTTTATCACAAACGCCGCTAAAGTACACGTTCTTTAGCGGCG
Found at i:36952087 original size:16 final size:16
Alignment explanation
Indices: 36952068--36952101 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
36952058 AAATATTAAA
*
36952068 TATTAAAATCAAACAT
1 TATTAAAATCAAAAAT
*
36952084 TATTAATATCAAAAAT
1 TATTAAAATCAAAAAT
36952100 TA
1 TA
36952102 ATATGTATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.35
Consensus pattern (16 bp):
TATTAAAATCAAAAAT
Found at i:36953324 original size:21 final size:21
Alignment explanation
Indices: 36953298--36953376 Score: 140
Period size: 21 Copynumber: 3.8 Consensus size: 21
36953288 TATATATCTG
36953298 CTCTGCTTCCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGTAGC
*
36953319 CTCTGCTTTCCTCGCTGTAGC
1 CTCTGCTTCCCTCGCTGTAGC
*
36953340 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGTAGC
36953361 CTCTGCTTCCCTCGCT
1 CTCTGCTTCCCTCGCT
36953377 ACAACCTGTA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 55 1.00
ACGTcount: A:0.04, C:0.44, G:0.18, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGTAGC
Found at i:36953390 original size:21 final size:21
Alignment explanation
Indices: 36953298--36953390 Score: 60
Period size: 21 Copynumber: 4.4 Consensus size: 21
36953288 TATATATCTG
* ** *
36953298 CTCTGCTTCCCTCGCTGTAGC
1 CTCTACTTCCCTCGCTACAAC
* * ** *
36953319 CTCTGCTTTCCTCGCTGTAGC
1 CTCTACTTCCCTCGCTACAAC
* * *
36953340 CTCTGCTTCCCTCGCTGCAGC
1 CTCTACTTCCCTCGCTACAAC
*
36953361 CTCTGCTTCCCTCGCTACAAC
1 CTCTACTTCCCTCGCTACAAC
*
36953382 CTGTACTTC
1 CTCTACTTC
36953391 TCTAGCTGCC
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.08, C:0.43, G:0.16, T:0.33
Consensus pattern (21 bp):
CTCTACTTCCCTCGCTACAAC
Found at i:36953399 original size:42 final size:42
Alignment explanation
Indices: 36953298--36953411 Score: 111
Period size: 42 Copynumber: 2.7 Consensus size: 42
36953288 TATATATCTG
* * * * ** *
36953298 CTCTGCTTCCCTCGCTGTAGCCTCTGCTTTCCTCGCTGTAGC
1 CTCTACTTCCCTAGCTGCAGCCTCTGCTTCCCTCGCTACAAC
* *
36953340 CTCTGCTTCCCTCGCTGCAGCCTCTGCTTCCCTCGCTACAAC
1 CTCTACTTCCCTAGCTGCAGCCTCTGCTTCCCTCGCTACAAC
* * * *
36953382 CTGTACTTCTCTAGCTGCCGCCTCTACTTC
1 CTCTACTTCCCTAGCTGCAGCCTCTGCTTC
36953412 TCTTACTACC
Statistics
Matches: 61, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 61 1.00
ACGTcount: A:0.08, C:0.43, G:0.16, T:0.33
Consensus pattern (42 bp):
CTCTACTTCCCTAGCTGCAGCCTCTGCTTCCCTCGCTACAAC
Found at i:36953498 original size:66 final size:66
Alignment explanation
Indices: 36953423--36953548 Score: 193
Period size: 66 Copynumber: 1.9 Consensus size: 66
36953413 CTTACTACCG
36953423 CATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGCTG
1 CATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT-GTTGAACCTCAGCTTCTCTCGCTG
36953486 CTA
64 CTA
* * *
36953489 CATCTGCTTTTAGTTGTAGCTGGAGTTCTTCATATCTTTTTTGAACCTCAGCTTCTCTCG
1 CATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTCG
36953549 ATGTTGCCTC
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
65 1 0.02
66 50 0.91
67 4 0.07
ACGTcount: A:0.15, C:0.26, G:0.17, T:0.41
Consensus pattern (66 bp):
CATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTGTTGAACCTCAGCTTCTCTCGCTGCT
A
Found at i:36953564 original size:66 final size:66
Alignment explanation
Indices: 36953423--36953571 Score: 185
Period size: 66 Copynumber: 2.3 Consensus size: 66
36953413 CTTACTACCG
* * *
36953423 CATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGCTGC
1 CATCCGCTTTAAGTTG-TAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGC
36953487 TA
65 TA
* * * *
36953489 CATCTGCTTTTAGTTGTAGCTGGAGTTCTTCATATCTTT-TTTGAACCTCAGCTTCTCTCGATGT
1 CATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGTTGAACCTCAGCTTCTCTCGATGC
*
36953553 TG
65 TA
*
36953555 CCTCCGCTTTAAGTTGT
1 CATCCGCTTTAAGTTGT
36953572 GTAATTTGCT
Statistics
Matches: 72, Mismatches: 9, Indels: 4
0.85 0.11 0.05
Matches are distributed among these distances:
65 1 0.01
66 67 0.93
67 4 0.06
ACGTcount: A:0.15, C:0.26, G:0.18, T:0.42
Consensus pattern (66 bp):
CATCCGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTTGAACCTCAGCTTCTCTCGATGCT
A
Found at i:36958998 original size:9 final size:9
Alignment explanation
Indices: 36958984--36959094 Score: 103
Period size: 9 Copynumber: 13.2 Consensus size: 9
36958974 TAAGGGATAT
36958984 TTATGTAAG
1 TTATGTAAG
36958993 TTATGT-A-
1 TTATGTAAG
* *
36959000 TTAAGTAAA
1 TTATGTAAG
36959009 TTATGTAAG
1 TTATGTAAG
36959018 TTATGT-A-
1 TTATGTAAG
*
36959025 TTATCTAAG
1 TTATGTAAG
36959034 TTATGTAAG
1 TTATGTAAG
36959043 TTATGT-A-
1 TTATGTAAG
* *
36959050 TTAAGTAGG
1 TTATGTAAG
*
36959059 TTATGTAAT
1 TTATGTAAG
*
36959068 TTATGT--C
1 TTATGTAAG
36959075 TTATGTAAG
1 TTATGTAAG
36959084 TTATGTAAG
1 TTATGTAAG
36959093 TT
1 TT
36959095 TTTGATTTTG
Statistics
Matches: 82, Mismatches: 12, Indels: 16
0.75 0.11 0.15
Matches are distributed among these distances:
7 21 0.26
8 5 0.06
9 56 0.68
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:36959012 original size:25 final size:25
Alignment explanation
Indices: 36958984--36959094 Score: 159
Period size: 25 Copynumber: 4.4 Consensus size: 25
36958974 TAAGGGATAT
*
36958984 TTATGTAAGTTATGTATTAAGTAAA
1 TTATGTAAGTTATGTATTAAGTAAG
**
36959009 TTATGTAAGTTATGTATTATCTAAG
1 TTATGTAAGTTATGTATTAAGTAAG
*
36959034 TTATGTAAGTTATGTATTAAGTAGG
1 TTATGTAAGTTATGTATTAAGTAAG
* * *
36959059 TTATGTAATTTATGTCTTATGTAAG
1 TTATGTAAGTTATGTATTAAGTAAG
36959084 TTATGTAAGTT
1 TTATGTAAGTT
36959095 TTTGATTTTG
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 75 1.00
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTAAGTAAG
Found at i:36959027 original size:16 final size:16
Alignment explanation
Indices: 36959008--36959090 Score: 80
Period size: 16 Copynumber: 5.1 Consensus size: 16
36958998 TATTAAGTAA
36959008 ATTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
*
36959024 ATTATCTAAGTTATGT
1 ATTATGTAAGTTATGT
*
36959040 AAGTTATGT-A-TTAAGT
1 -A-TTATGTAAGTTATGT
*
36959056 AGGTTATGTAATTTATGT
1 A--TTATGTAAGTTATGT
*
36959074 CTTATGTAAGTTATGT
1 ATTATGTAAGTTATGT
36959090 A
1 A
36959091 AGTTTTTGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
15 1 0.02
16 41 0.75
17 3 0.05
18 10 0.18
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.48
Consensus pattern (16 bp):
ATTATGTAAGTTATGT
Found at i:36959039 original size:50 final size:50
Alignment explanation
Indices: 36958984--36959094 Score: 177
Period size: 50 Copynumber: 2.2 Consensus size: 50
36958974 TAAGGGATAT
36958984 TTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATCTAAG
1 TTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATCTAAG
** * * *
36959034 TTATGTAAGTTATGTATTAAGTAGGTTATGTAATTTATGTCTTATGTAAG
1 TTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATCTAAG
36959084 TTATGTAAGTT
1 TTATGTAAGTT
36959095 TTTGATTTTG
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 56 1.00
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (50 bp):
TTATGTAAGTTATGTATTAAGTAAATTATGTAAGTTATGTATTATCTAAG
Found at i:36959184 original size:12 final size:12
Alignment explanation
Indices: 36959143--36959205 Score: 54
Period size: 12 Copynumber: 5.2 Consensus size: 12
36959133 TGGTTATGTA
36959143 TTATTATGTAAG
1 TTATTATGTAAG
* * *
36959155 TTACTATTTAGG
1 TTATTATGTAAG
36959167 TTATTATGTAAG
1 TTATTATGTAAG
* * *
36959179 TCATTATATATG
1 TTATTATGTAAG
*
36959191 TTGGTTATGTAAG
1 TT-ATTATGTAAG
36959204 TT
1 TT
36959206 GTGATATGAT
Statistics
Matches: 37, Mismatches: 13, Indels: 1
0.73 0.25 0.02
Matches are distributed among these distances:
12 28 0.76
13 9 0.24
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.51
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:36959407 original size:29 final size:29
Alignment explanation
Indices: 36959374--36959448 Score: 132
Period size: 29 Copynumber: 2.6 Consensus size: 29
36959364 ACGTAGGCTA
*
36959374 TGTATTATGCAAGTTATTTATGTAAGTGG
1 TGTATTATGCAAGTTATTTATGTAAATGG
36959403 TGTATTATGCAAGTTATTTATGTAAATGG
1 TGTATTATGCAAGTTATTTATGTAAATGG
*
36959432 TGTATTATGTAAGTTAT
1 TGTATTATGCAAGTTAT
36959449 GTACGCTATG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 44 1.00
ACGTcount: A:0.29, C:0.03, G:0.21, T:0.47
Consensus pattern (29 bp):
TGTATTATGCAAGTTATTTATGTAAATGG
Found at i:36959451 original size:16 final size:16
Alignment explanation
Indices: 36959340--36959451 Score: 65
Period size: 16 Copynumber: 7.2 Consensus size: 16
36959330 ACGTAAGTGG
36959340 TGTATTATGTAAGTTA
1 TGTATTATGTAAGTTA
* * * *
36959356 AGTAAGTTACGTAGGCTA
1 TGT-A-TTATGTAAGTTA
*
36959374 TGTATTATGCAAGTTA
1 TGTATTATGTAAGTTA
**
36959390 --T-TTATGTAAGTGG
1 TGTATTATGTAAGTTA
*
36959403 TGTATTATGCAAGTTA
1 TGTATTATGTAAGTTA
* **
36959419 --T-TTATGTAAATGG
1 TGTATTATGTAAGTTA
36959432 TGTATTATGTAAGTTA
1 TGTATTATGTAAGTTA
36959448 TGTA
1 TGTA
36959452 CGCTATGTAT
Statistics
Matches: 66, Mismatches: 22, Indels: 16
0.63 0.21 0.15
Matches are distributed among these distances:
13 17 0.26
14 2 0.03
15 2 0.03
16 32 0.48
17 2 0.03
18 11 0.17
ACGTcount: A:0.30, C:0.04, G:0.22, T:0.44
Consensus pattern (16 bp):
TGTATTATGTAAGTTA
Found at i:36960257 original size:23 final size:20
Alignment explanation
Indices: 36960212--36960252 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
36960202 ATGTTATTCG
36960212 AATTTTAAATATATATA-TA
1 AATTTTAAATATATATATTA
36960231 AATTTTAAATATATATATTA
1 AATTTTAAATATATATATTA
36960251 AA
1 AA
36960253 AAATTATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
AATTTTAAATATATATATTA
Found at i:36960902 original size:29 final size:29
Alignment explanation
Indices: 36960869--36960930 Score: 99
Period size: 29 Copynumber: 2.1 Consensus size: 29
36960859 GCAAATAAAT
*
36960869 CCTCACCGACAAAAA-ATTAAAAATTGAAA
1 CCTCACC-AAAAAAACATTAAAAATTGAAA
36960898 CCTCACCAAAAAAACATTAAAAATTGAAA
1 CCTCACCAAAAAAACATTAAAAATTGAAA
36960927 CCTC
1 CCTC
36960931 TGTGAATAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.53, C:0.24, G:0.05, T:0.18
Consensus pattern (29 bp):
CCTCACCAAAAAAACATTAAAAATTGAAA
Found at i:36962316 original size:13 final size:13
Alignment explanation
Indices: 36962298--36962327 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
36962288 AATTAGAAAA
*
36962298 TTTTTTATTTCAT
1 TTTTTTATTCCAT
36962311 TTTTTTATTCCAT
1 TTTTTTATTCCAT
36962324 TTTT
1 TTTT
36962328 ATTTTTGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTTTTATTCCAT
Found at i:36962344 original size:19 final size:19
Alignment explanation
Indices: 36962300--36962346 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
36962290 TTAGAAAATT
* *
36962300 TTTTA-TTTCATTTTTTTA
1 TTTTATTTTTATTTTTGTA
**
36962318 TTCCATTTTTATTTTTGTA
1 TTTTATTTTTATTTTTGTA
36962337 TTTTATTTTT
1 TTTTATTTTT
36962347 TCTTATAATT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
18 3 0.14
19 19 0.86
ACGTcount: A:0.15, C:0.06, G:0.02, T:0.77
Consensus pattern (19 bp):
TTTTATTTTTATTTTTGTA
Found at i:36962729 original size:23 final size:23
Alignment explanation
Indices: 36962685--36962738 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
36962675 ACCCTTGAAA
* * *
36962685 CCCTAAA-TCCCTAGCTCTTAAC
1 CCCTAAACCCCCTAACTCCTAAC
36962707 CCCTAAACCCCCTAACTCCTAAC
1 CCCTAAACCCCCTAACTCCTAAC
36962730 CCCTAAACC
1 CCCTAAACC
36962739 TTAAACCATA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 7 0.25
23 21 0.75
ACGTcount: A:0.30, C:0.48, G:0.02, T:0.20
Consensus pattern (23 bp):
CCCTAAACCCCCTAACTCCTAAC
Found at i:36963209 original size:15 final size:16
Alignment explanation
Indices: 36963183--36963216 Score: 61
Period size: 15 Copynumber: 2.2 Consensus size: 16
36963173 CTATACCTCT
36963183 AACCCTTAAATCCATA
1 AACCCTTAAATCCATA
36963199 AACCC-TAAATCCATA
1 AACCCTTAAATCCATA
36963214 AAC
1 AAC
36963217 ACCATATTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.47, C:0.32, G:0.00, T:0.21
Consensus pattern (16 bp):
AACCCTTAAATCCATA
Found at i:36963572 original size:41 final size:41
Alignment explanation
Indices: 36963504--36963698 Score: 189
Period size: 41 Copynumber: 4.8 Consensus size: 41
36963494 TAAAAAAAAT
* * * **
36963504 ATTAGCGGCG-TTTTTGAAAAAGCGCCGCTAAAGATCTTAGC
1 ATTAGCGGCGCTTCTTCAAAAA-CGCCGCTAAAGACCAGAGC
* *
36963545 ATTAGCGGCGCTTCTTCAAAAATGCCGCTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGC
* * *
36963586 ATTACCGGCGCTTCTTCAAAAACGTCGCTAAAGGA-TAGAGC
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAA-GACCAGAGC
* * * * * *
36963627 ATTAGCGGCG-TTTTTGAGTAAGCGCCGTTAAAGGCCAGAGC
1 ATTAGCGGCGCTTCTTCA-AAAACGCCGCTAAAGACCAGAGC
*
36963668 ATTAGCGGCGCTTCTTAAAAAACGCCGCTAA
1 ATTAGCGGCGCTTCTTCAAAAACGCCGCTAA
36963699 GGGCCCCAAA
Statistics
Matches: 123, Mismatches: 26, Indels: 10
0.77 0.16 0.06
Matches are distributed among these distances:
40 6 0.05
41 102 0.83
42 15 0.12
ACGTcount: A:0.29, C:0.23, G:0.25, T:0.23
Consensus pattern (41 bp):
ATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGACCAGAGC
Found at i:36963806 original size:39 final size:40
Alignment explanation
Indices: 36963740--36963873 Score: 132
Period size: 40 Copynumber: 3.4 Consensus size: 40
36963730 TGGCTTAGGC
*
36963740 TTTTT-GCGGCGATTTTCAG-AAAACGCCGCTAATGCT-AA
1 TTTTTAGCGGCG-TTTTCTGTAAAACGCCGCTAATGCTCAA
* *
36963778 TTTTTAGCGGCGTTTTCTGTAAAGCGCCGCTAATGCTCTA
1 TTTTTAGCGGCGTTTTCTGTAAAACGCCGCTAATGCTCAA
** * * *
36963818 CCTTTAGCGGCGTTTT-TATAAAATTGCCGCTAATGCTCGA
1 TTTTTAGCGGCGTTTTCTGTAAAA-CGCCGCTAATGCTCAA
* *
36963858 TTTATAGTGGCGTTTT
1 TTTTTAGCGGCGTTTT
36963874 TTGTCCAAAC
Statistics
Matches: 79, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
38 11 0.14
39 27 0.34
40 41 0.52
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTCTGTAAAACGCCGCTAATGCTCAA
Found at i:36967312 original size:4 final size:4
Alignment explanation
Indices: 36967303--36967327 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
36967293 ATCTGTTACT
36967303 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
36967328 CAATGTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:36967588 original size:14 final size:14
Alignment explanation
Indices: 36967569--36967705 Score: 53
Period size: 15 Copynumber: 9.5 Consensus size: 14
36967559 AATCTAAACT
36967569 CTAAACCCTTAACC
1 CTAAACCCTTAACC
*
36967583 CTAAACCCCTAACC
1 CTAAACCCTTAACC
*
36967597 TCTAAA-ACTTGAACC
1 -CTAAACCCTT-AACC
*
36967612 C-CAACCCTTAAACC
1 CTAAACCCTT-AACC
* * *
36967626 GTAAACCATAAACC
1 CTAAACCCTTAACC
* * * * *
36967640 ATAAATCATAAACA
1 CTAAACCCTTAACC
*
36967654 CTAAACCCATAATCC
1 CTAAACCCTTAA-CC
* *
36967669 TTAAACCCATAATCC
1 CTAAACCCTTAA-CC
* *
36967684 ATAAACCCATAATCC
1 CTAAACCCTTAA-CC
*
36967699 ATAAACC
1 CTAAACC
36967706 TTGAAATAGT
Statistics
Matches: 97, Mismatches: 21, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
13 2 0.02
14 45 0.46
15 50 0.52
ACGTcount: A:0.44, C:0.35, G:0.01, T:0.20
Consensus pattern (14 bp):
CTAAACCCTTAACC
Found at i:36967594 original size:8 final size:7
Alignment explanation
Indices: 36967562--36967705 Score: 58
Period size: 7 Copynumber: 20.0 Consensus size: 7
36967552 ACTAATTAAT
*
36967562 CTAAACT
1 CTAAACC
36967569 CTAAACC
1 CTAAACC
*
36967576 CTTAACC
1 CTAAACC
36967583 CTAAACCC
1 CTAAA-CC
36967591 CT-AACC
1 CTAAACC
*
36967597 TCTAAAAC
1 -CTAAACC
* *
36967605 TTGAACC
1 CTAAACC
*
36967612 C-CAACC
1 CTAAACC
36967618 CTTAAACC
1 C-TAAACC
*
36967626 GTAAACC
1 CTAAACC
*
36967633 ATAAACC
1 CTAAACC
* *
36967640 ATAAATC
1 CTAAACC
* *
36967647 ATAAACA
1 CTAAACC
36967654 CTAAACC
1 CTAAACC
*
36967661 CATAATCC
1 C-TAAACC
*
36967669 TTAAACC
1 CTAAACC
*
36967676 CATAATCC
1 C-TAAACC
*
36967684 ATAAACC
1 CTAAACC
*
36967691 CATAATCC
1 C-TAAACC
*
36967699 ATAAACC
1 CTAAACC
36967706 TTGAAATAGT
Statistics
Matches: 101, Mismatches: 28, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
6 7 0.07
7 68 0.67
8 26 0.26
ACGTcount: A:0.44, C:0.35, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:36967673 original size:15 final size:15
Alignment explanation
Indices: 36967655--36967705 Score: 93
Period size: 15 Copynumber: 3.4 Consensus size: 15
36967645 TCATAAACAC
*
36967655 TAAACCCATAATCCT
1 TAAACCCATAATCCA
36967670 TAAACCCATAATCCA
1 TAAACCCATAATCCA
36967685 TAAACCCATAATCCA
1 TAAACCCATAATCCA
36967700 TAAACC
1 TAAACC
36967706 TTGAAATAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.22
Consensus pattern (15 bp):
TAAACCCATAATCCA
Found at i:36967754 original size:14 final size:14
Alignment explanation
Indices: 36967729--36967773 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
36967719 TTTTAAACCT
36967729 TAAACCCTAAACTA
1 TAAACCCTAAACTA
* *
36967743 TATACCAC-AAACCA
1 TAAACC-CTAAACTA
36967757 TAAACCCTAAACTA
1 TAAACCCTAAACTA
36967771 TAA
1 TAA
36967774 TGATAATTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 1 0.04
14 23 0.92
15 1 0.04
ACGTcount: A:0.51, C:0.29, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACTA
Found at i:36967903 original size:15 final size:15
Alignment explanation
Indices: 36967883--36967915 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
36967873 ATTCAACCCT
36967883 TAAATCCCTAAATCC
1 TAAATCCCTAAATCC
*
36967898 TAAATCCCTAACTCC
1 TAAATCCCTAAATCC
36967913 TAA
1 TAA
36967916 CCCCTAAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.39, C:0.33, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAATCCCTAAATCC
Found at i:36967914 original size:22 final size:22
Alignment explanation
Indices: 36967877--36967951 Score: 75
Period size: 22 Copynumber: 3.4 Consensus size: 22
36967867 ACCCTAATTC
* *
36967877 AACCCTTAAATCCCTAAATCCTA
1 AACCCTTAACT-CCTAAACCCTA
*
36967900 AATCCC-TAACTCCTAACCCCTA
1 AA-CCCTTAACTCCTAAACCCTA
36967922 AACCCTTAACTCCT-AACCCTTA
1 AACCCTTAACTCCTAAACCC-TA
36967944 AA-CCTTAA
1 AACCCTTAA
36967952 ATCCCAACCA
Statistics
Matches: 45, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
21 13 0.29
22 23 0.51
23 6 0.13
24 3 0.07
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (22 bp):
AACCCTTAACTCCTAAACCCTA
Found at i:36967939 original size:14 final size:14
Alignment explanation
Indices: 36967903--36967944 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
36967893 AATCCTAAAT
36967903 CCCTAACTCC-TAAC
1 CCCTAAC-CCTTAAC
36967917 CCCTAAACCCTTAAC
1 CCCT-AACCCTTAAC
*
36967932 TCCTAACCCTTAA
1 CCCTAACCCTTAA
36967945 ACCTTAAATC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 15 0.60
15 10 0.40
ACGTcount: A:0.31, C:0.45, G:0.00, T:0.24
Consensus pattern (14 bp):
CCCTAACCCTTAAC
Found at i:36967965 original size:21 final size:21
Alignment explanation
Indices: 36967920--36967976 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
36967910 TCCTAACCCC
* * *
36967920 TAAACCCTTAACTCCTAACCCT
1 TAAA-CCTTAAATCCCAACCAT
36967942 TAAACCTTAAATCCCAACCAT
1 TAAACCTTAAATCCCAACCAT
*
36967963 TAAACCAT-AATCCC
1 TAAACCTTAAATCCC
36967977 TAATCCATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.19
21 21 0.68
22 4 0.13
ACGTcount: A:0.39, C:0.37, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCTTAAATCCCAACCAT
Found at i:36968395 original size:41 final size:41
Alignment explanation
Indices: 36968350--36968464 Score: 158
Period size: 41 Copynumber: 2.8 Consensus size: 41
36968340 TAAAATATTT
*
36968350 TTAGCGGCGCTTTTTCAAAAATACCGCTAAAGCACCGAGCA
1 TTAGCGGCGCTTTTTCAAAAACACCGCTAAAGCACCGAGCA
* * * *
36968391 TTAGCGGCGCTTTTTGAAAAACGCCGCTAAAGCCCCTAGCA
1 TTAGCGGCGCTTTTTCAAAAACACCGCTAAAGCACCGAGCA
* *
36968432 TTAGCGACGCTTTCTCAAAAAACACCGCTAAAG
1 TTAGCGGCGCTTTTTC-AAAAACACCGCTAAAG
36968465 AACGAAAAGA
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
41 49 0.77
42 15 0.23
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACACCGCTAAAGCACCGAGCA
Found at i:36972426 original size:27 final size:27
Alignment explanation
Indices: 36972388--36972636 Score: 239
Period size: 27 Copynumber: 9.2 Consensus size: 27
36972378 ATTCAGGGGC
*
36972388 AAATGACCGAAATACCCTCGATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
* * *
36972415 AAATGACTGAAATACCTTCGATCGATA
1 AAATGACTGAAATACCCTCGATGGGTA
* * * *
36972442 AATTTACCGAAATACCCTCTATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
* * * **
36972469 AAATTAATGAAATAACCTTAATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
* * *
36972496 AAATAACTGAAATACCTTCGATGGATA
1 AAATGACTGAAATACCCTCGATGGGTA
** ** * *
36972523 AAAAAACCAAAATACCGTTGATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
* ** *
36972550 AAATAACCCAAATACCCTCGATAGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
36972577 AAATGA-TCGAAATACCCTCGATGGGTA
1 AAATGACT-GAAATACCCTCGATGGGTA
*
36972604 AAATGACTGAAATACCCTCTATGGGTA
1 AAATGACTGAAATACCCTCGATGGGTA
36972631 AAATGA
1 AAATGA
36972637 TTGTTATACC
Statistics
Matches: 180, Mismatches: 40, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
27 179 0.99
28 1 0.01
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.24
Consensus pattern (27 bp):
AAATGACTGAAATACCCTCGATGGGTA
Found at i:36972647 original size:81 final size:81
Alignment explanation
Indices: 36972396--36972634 Score: 275
Period size: 81 Copynumber: 3.0 Consensus size: 81
36972386 GCAAATGACC
* * *
36972396 GAAATACCCTCGATGGGTAAAATGACTGAAATACCTTCGATCGATAAATTTACCGAAATACCCTC
1 GAAATACCCTCGATGGGTAAAATGACTGAAATACCTTCGATGGATAAAATAACCGAAATACCCTC
*
36972461 TATGGGTAAAATTAAT
66 TATGGGTAAAATAAAT
* ** * * * *
36972477 GAAATAACCTTAATGGGTAAAATAACTGAAATACCTTCGATGGATAAAAAAACCAAAATACCGT-
1 GAAATACCCTCGATGGGTAAAATGACTGAAATACCTTCGATGGATAAAATAACCGAAATACCCTC
**
36972541 TGATGGGTAAAATAACC
66 T-ATGGGTAAAATAAAT
* * * * * *
36972558 CAAATACCCTCGATAGGTAAAATGA-TCGAAATACCCTCGATGGGTAAAATGACTGAAATACCCT
1 GAAATACCCTCGATGGGTAAAATGACT-GAAATACCTTCGATGGATAAAATAACCGAAATACCCT
36972622 CTATGGGTAAAAT
65 CTATGGGTAAAAT
36972635 GATTGTTATA
Statistics
Matches: 129, Mismatches: 26, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
80 2 0.02
81 126 0.98
82 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.17, T:0.24
Consensus pattern (81 bp):
GAAATACCCTCGATGGGTAAAATGACTGAAATACCTTCGATGGATAAAATAACCGAAATACCCTC
TATGGGTAAAATAAAT
Found at i:36972831 original size:27 final size:26
Alignment explanation
Indices: 36972792--36972859 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 26
36972782 GAAGTATATT
**
36972792 TTACTGGTGGCTTTGCCACATATACTA
1 TTACTGGCAGCTTTGCCACAT-TACTA
*** * *
36972819 TTACTGGCAGCTTTGTTGCGTTACTG
1 TTACTGGCAGCTTTGCCACATTACTA
36972845 TTACTGGCAGCTTTG
1 TTACTGGCAGCTTTG
36972860 TTGTGTCATT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
26 19 0.56
27 15 0.44
ACGTcount: A:0.16, C:0.21, G:0.24, T:0.40
Consensus pattern (26 bp):
TTACTGGCAGCTTTGCCACATTACTA
Found at i:36972850 original size:26 final size:26
Alignment explanation
Indices: 36972814--36972885 Score: 99
Period size: 26 Copynumber: 2.8 Consensus size: 26
36972804 TTGCCACATA
36972814 TACTATTACTGGCAGCTTTGTTGCGT
1 TACTATTACTGGCAGCTTTGTTGCGT
* *
36972840 TACTGTTACTGGCAGCTTTGTTGTGT
1 TACTATTACTGGCAGCTTTGTTGCGT
* * *
36972866 CATTATTACTGGCAACTTTG
1 TACTATTACTGGCAGCTTTG
36972886 CTACGATATT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.17, C:0.18, G:0.22, T:0.43
Consensus pattern (26 bp):
TACTATTACTGGCAGCTTTGTTGCGT
Found at i:36973047 original size:28 final size:27
Alignment explanation
Indices: 36973005--36973061 Score: 87
Period size: 28 Copynumber: 2.1 Consensus size: 27
36972995 TATTGATTAT
* *
36973005 TGTATTGGGCTAAGGCCCACACTGTTAC
1 TGTAATGGGCCAAGGCCCACACTG-TAC
36973033 TGTAATGGGCCAAGGCCCACACTGTAC
1 TGTAATGGGCCAAGGCCCACACTGTAC
36973060 TG
1 TG
36973062 ATACTGTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
27 5 0.19
28 22 0.81
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (27 bp):
TGTAATGGGCCAAGGCCCACACTGTAC
Found at i:36973879 original size:26 final size:26
Alignment explanation
Indices: 36973812--36973883 Score: 90
Period size: 27 Copynumber: 2.7 Consensus size: 26
36973802 CAGTGAACCC
* *
36973812 TAAAGAAACTCCTTTGTGGCGCAGTA
1 TAAAGAAACGCCTTTGTGGCGCAATA
* *
36973838 TGAAAGGAACGACTTTGTGGCGCAATA
1 T-AAAGAAACGCCTTTGTGGCGCAATA
*
36973865 TAAAGAAAAGCCTTTGTGG
1 TAAAGAAACGCCTTTGTGG
36973884 TGACTGATGA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
26 16 0.42
27 22 0.58
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.25
Consensus pattern (26 bp):
TAAAGAAACGCCTTTGTGGCGCAATA
Found at i:36986164 original size:3 final size:3
Alignment explanation
Indices: 36986156--36986180 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
36986146 GGTTAAAAAT
36986156 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
36986181 GAAAAGATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:36989568 original size:19 final size:19
Alignment explanation
Indices: 36989532--36989570 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
36989522 TTACCATGTA
* **
36989532 TAATCTCTATTTTTCAATT
1 TAATCCCTATTTGACAATT
36989551 TAATCCCTATTTGACAATT
1 TAATCCCTATTTGACAATT
36989570 T
1 T
36989571 CATCAAAAAT
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:0.28, C:0.18, G:0.03, T:0.51
Consensus pattern (19 bp):
TAATCCCTATTTGACAATT
Found at i:36990670 original size:36 final size:35
Alignment explanation
Indices: 36990619--36990746 Score: 107
Period size: 36 Copynumber: 3.6 Consensus size: 35
36990609 AGTACATTAA
* * * *
36990619 TAATCCAACCAAAACACACCAGTTGCTCATAAGAGC
1 TAATACAACCGAAACACACCA-CTGCTCAGAAGAGC
*
36990655 TAA-ACCATCCGAAACACACCACTGCTCAGAAGAGC
1 TAATA-CAACCGAAACACACCACTGCTCAGAAGAGC
* * * *
36990690 TAATACAACTGAAACACACCAATGACTCCGAAAAGC
1 TAATACAACCGAAACACACCACTG-CTCAGAAGAGC
* *
36990726 -AAGTCCAATCGAAACACACCA
1 TAA-TACAACCGAAACACACCA
36990747 AAATAGAGAG
Statistics
Matches: 75, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
35 33 0.44
36 42 0.56
ACGTcount: A:0.44, C:0.31, G:0.12, T:0.13
Consensus pattern (35 bp):
TAATACAACCGAAACACACCACTGCTCAGAAGAGC
Found at i:36990688 original size:35 final size:36
Alignment explanation
Indices: 36990619--36990710 Score: 107
Period size: 35 Copynumber: 2.6 Consensus size: 36
36990609 AGTACATTAA
* * * *
36990619 TAATCCAACCAAAACACACCAGTTGCTCATAAGAGC
1 TAATACAACCGAAACACACCAGCTGCTCAGAAGAGC
*
36990655 TAA-ACCATCCGAAACACACCA-CTGCTCAGAAGAGC
1 TAATA-CAACCGAAACACACCAGCTGCTCAGAAGAGC
*
36990690 TAATACAACTGAAACACACCA
1 TAATACAACCGAAACACACCA
36990711 ATGACTCCGA
Statistics
Matches: 47, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
35 29 0.62
36 18 0.38
ACGTcount: A:0.43, C:0.32, G:0.11, T:0.14
Consensus pattern (36 bp):
TAATACAACCGAAACACACCAGCTGCTCAGAAGAGC
Found at i:36997625 original size:35 final size:35
Alignment explanation
Indices: 36997574--36997686 Score: 111
Period size: 35 Copynumber: 3.2 Consensus size: 35
36997564 AATCCAACCA
*
36997574 AAACACATCAAATGCTCATAAGAGCTAAACCATCTG
1 AAACACA-CAAATGCTCATAAGAGCTAAACCAACTG
* * *
36997610 AAACACACCAATGCTCATAATAGCTAATCCAACTG
1 AAACACACAAATGCTCATAAGAGCTAAACCAACTG
* * ** *
36997645 AAACAAACTAATGGCTC-TGAAGAGCTAGTCCAACCG
1 AAACACACAAAT-GCTCAT-AAGAGCTAAACCAACTG
36997681 AAACAC
1 AAACAC
36997687 GCCAAAACAA
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
35 35 0.54
36 30 0.46
ACGTcount: A:0.43, C:0.27, G:0.12, T:0.18
Consensus pattern (35 bp):
AAACACACAAATGCTCATAAGAGCTAAACCAACTG
Found at i:36998778 original size:12 final size:12
Alignment explanation
Indices: 36998761--36998790 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
36998751 CCTCACACAC
36998761 TCGTGTGCCAGG
1 TCGTGTGCCAGG
*
36998773 TCGTGTGCTAGG
1 TCGTGTGCCAGG
36998785 TCGTGT
1 TCGTGT
36998791 AACTTTCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.07, C:0.20, G:0.40, T:0.33
Consensus pattern (12 bp):
TCGTGTGCCAGG
Found at i:36999740 original size:84 final size:84
Alignment explanation
Indices: 36999599--36999766 Score: 318
Period size: 84 Copynumber: 2.0 Consensus size: 84
36999589 GATAGTGTGA
36999599 TAGATCTCTGACGAGCTTCCAAATTGATTGAGCTTCTGATAATCTGTAAAGTAAGGAAAATAACT
1 TAGATCTCTGACGAGCTTCCAAATTGATTGAGCTTCTGATAATCTGTAAAGTAAGGAAAATAACT
36999664 ACGTAAGCAATGAATGCTT
66 ACGTAAGCAATGAATGCTT
*
36999683 TAGATCTCTGACGAGTTTCCAAATTGATTGAGCTTCTGATAATCTGTAAAGTAAGGAAAATAACT
1 TAGATCTCTGACGAGCTTCCAAATTGATTGAGCTTCTGATAATCTGTAAAGTAAGGAAAATAACT
*
36999748 ACGTAAGCAATGGATGCTT
66 ACGTAAGCAATGAATGCTT
36999767 AGTAAGCTCA
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (84 bp):
TAGATCTCTGACGAGCTTCCAAATTGATTGAGCTTCTGATAATCTGTAAAGTAAGGAAAATAACT
ACGTAAGCAATGAATGCTT
Found at i:37003859 original size:52 final size:52
Alignment explanation
Indices: 37003798--37003901 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
37003788 TATAGAGAGA
37003798 ATTTACTTTCCTATTGAAAGTAAATAAATCATTTTCATACTGTGACTTGGTT
1 ATTTACTTTCCTATTGAAAGTAAATAAATCATTTTCATACTGTGACTTGGTT
37003850 ATTTACTTTCCTATTGAAAGTAAATAAATCATTTTCATACTGTGACTTGGTT
1 ATTTACTTTCCTATTGAAAGTAAATAAATCATTTTCATACTGTGACTTGGTT
37003902 TGTGTTGCTT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.31, C:0.13, G:0.12, T:0.44
Consensus pattern (52 bp):
ATTTACTTTCCTATTGAAAGTAAATAAATCATTTTCATACTGTGACTTGGTT
Found at i:37005009 original size:24 final size:24
Alignment explanation
Indices: 37004977--37005023 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
37004967 GTATTTTTGT
*
37004977 GAGTACCATATTTCTAGTTAATGC
1 GAGTACCATATTTCTACTTAATGC
37005001 GAGTACCATATTTCTACTTAATG
1 GAGTACCATATTTCTACTTAATG
37005024 TTTGTTTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.38
Consensus pattern (24 bp):
GAGTACCATATTTCTACTTAATGC
Found at i:37006648 original size:8 final size:8
Alignment explanation
Indices: 37006635--37006659 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
37006625 ATGCCCATAA
37006635 TATATTTT
1 TATATTTT
37006643 TATATTTT
1 TATATTTT
37006651 TATATTTT
1 TATATTTT
37006659 T
1 T
37006660 TATGTACCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (8 bp):
TATATTTT
Found at i:37007123 original size:15 final size:14
Alignment explanation
Indices: 37007086--37007123 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
37007076 TAAAAATTAA
37007086 CAAATTTA-ACTGT
1 CAAATTTATACTGT
37007099 CAACATTTATACATGT
1 CAA-ATTTATAC-TGT
37007115 CAAATTTAT
1 CAAATTTAT
37007124 GCTGATACTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 3 0.14
14 5 0.23
15 8 0.36
16 6 0.27
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (14 bp):
CAAATTTATACTGT
Found at i:37011452 original size:14 final size:14
Alignment explanation
Indices: 37011435--37011473 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
37011425 TTTTATACCA
*
37011435 ATAATTTTTATAAT
1 ATAATATTTATAAT
*
37011449 ATAATATTTATATT
1 ATAATATTTATAAT
*
37011463 ATAACATTTAT
1 ATAATATTTAT
37011474 TTAATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (14 bp):
ATAATATTTATAAT
Found at i:37014428 original size:18 final size:18
Alignment explanation
Indices: 37014388--37014454 Score: 59
Period size: 18 Copynumber: 3.8 Consensus size: 18
37014378 TTTCGCGATA
*
37014388 AATAACGTTTTGAAAATT
1 AATAACGTTTTGAAAATG
*
37014406 TATAACGTTTTGAAAGA-G
1 AATAACGTTTTGAAA-ATG
* *
37014424 AATAAC-TTATGAATATG
1 AATAACGTTTTGAAAATG
*
37014441 AATCACG-TTTGAAA
1 AATAACGTTTTGAAA
37014455 TTGATCGACA
Statistics
Matches: 38, Mismatches: 8, Indels: 7
0.72 0.15 0.13
Matches are distributed among these distances:
16 1 0.03
17 17 0.45
18 19 0.50
19 1 0.03
ACGTcount: A:0.43, C:0.07, G:0.15, T:0.34
Consensus pattern (18 bp):
AATAACGTTTTGAAAATG
Found at i:37016170 original size:14 final size:13
Alignment explanation
Indices: 37016122--37016171 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 13
37016112 ACTGGTCATA
37016122 GAGAGA-ATTGAG
1 GAGAGATATTGAG
* *
37016134 GAGGGATATT-TG
1 GAGAGATATTGAG
37016146 GAGAGAT-TTGAG
1 GAGAGATATTGAG
37016158 GAGAGAATATTGAG
1 GAGAG-ATATTGAG
37016172 ATTTGGGGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
11 2 0.07
12 18 0.60
13 5 0.17
14 5 0.17
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.24
Consensus pattern (13 bp):
GAGAGATATTGAG
Found at i:37016856 original size:27 final size:27
Alignment explanation
Indices: 37016826--37016968 Score: 189
Period size: 27 Copynumber: 5.3 Consensus size: 27
37016816 GAGAGGTCAA
37016826 TAAAATGACCGAAATACCCCCATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
** *
37016853 TAAAATGACCGAAATACCCATATAAGG
1 TAAAATGACCGAAATACCCCCATAGGG
** *
37016880 TAAAATGACTAAAATACCCCCATAGGC
1 TAAAATGACCGAAATACCCCCATAGGG
* *
37016907 TAGAATGACCGAAATACCCTCATAGGG
1 TAAAATGACCGAAATACCCCCATAGGG
* *
37016934 TAAAATGACC-AAATACCCCTATTGGG
1 TAAAATGACCGAAATACCCCCATAGGG
37016960 TAAAATGAC
1 TAAAATGAC
37016969 TATTATACCC
Statistics
Matches: 98, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 22 0.22
27 76 0.78
ACGTcount: A:0.43, C:0.22, G:0.16, T:0.19
Consensus pattern (27 bp):
TAAAATGACCGAAATACCCCCATAGGG
Found at i:37020351 original size:56 final size:56
Alignment explanation
Indices: 37020282--37020615 Score: 372
Period size: 55 Copynumber: 6.0 Consensus size: 56
37020272 ATAGTATAAT
* * * * * * *
37020282 AATGCTTACTTTGAGACACTGAAGCAAC-ACTTTAATTTAATTTAGGATAGCAT-AA
1 AATGCTCAATTTGAAACACTAAAACAACAAC-TTAATTTAATTTAAGACAGCATGAA
* * * *
37020337 TAATACTCAATTTGAAACA-TTAAATAGCAACTTAATTTAATTTAAGACAGCATGAA
1 -AATGCTCAATTTGAAACACTAAAACAACAACTTAATTTAATTTAAGACAGCATGAA
* *
37020393 AATGCTCAATTTGAAACA-TTAAATAACAACTTAATTTAATTTAAGACAGCATGAA
1 AATGCTCAATTTGAAACACTAAAACAACAACTTAATTTAATTTAAGACAGCATGAA
* * *
37020448 AATGCTCAATTTGATAA-ACTAAAACACCAACTTTAATTCAATTTATGACAGCATGAA
1 AATGCTCAATTTGA-AACACTAAAACAACAAC-TTAATTTAATTTAAGACAGCATGAA
* * * *
37020505 AATGCTCAATTTGAAACACTAAAACAACAGCTTGATTCAATTTAAGACAGTATGAA
1 AATGCTCAATTTGAAACACTAAAACAACAACTTAATTTAATTTAAGACAGCATGAA
* * * *
37020561 AATGCTCAATTTGAAACACTCAAACAACAACTTTAATTCATTTTATGACAGCATG
1 AATGCTCAATTTGAAACACTAAAACAACAAC-TTAATTTAATTTAAGACAGCATG
37020616 CAAACAGTAA
Statistics
Matches: 243, Mismatches: 28, Indels: 13
0.86 0.10 0.05
Matches are distributed among these distances:
55 93 0.38
56 82 0.34
57 68 0.28
ACGTcount: A:0.43, C:0.16, G:0.10, T:0.31
Consensus pattern (56 bp):
AATGCTCAATTTGAAACACTAAAACAACAACTTAATTTAATTTAAGACAGCATGAA
Found at i:37020592 original size:113 final size:112
Alignment explanation
Indices: 37020313--37020615 Score: 389
Period size: 113 Copynumber: 2.7 Consensus size: 112
37020303 AAGCAACACT
* * * * * * * *
37020313 TTAATTTAATTTAGGATAGCAT-AATAATACTCAATTTGAAACA-TTAAATAGCAAC-TTAATTT
1 TTAATTCAATTTAAGACAGCATGAA-AATGCTCAATTTGAAACACTAAAACAACAACTTTAATTC
* * *
37020375 AATTTAAGACAGCATGAAAATGCTCAATTTGAAACATTAAATAACAAC
65 AATTTATGACAGCATGAAAATGCTCAATTTGAAACATAAAACAACAAC
* *
37020423 TTAATTTAATTTAAGACAGCATGAAAATGCTCAATTTGATAA-ACTAAAACACCAACTTTAATTC
1 TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGA-AACACTAAAACAACAACTTTAATTC
*
37020487 AATTTATGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAACAGC
65 AATTTATGACAGCATGAAAATGCTCAATTTGAAACA-TAAAACAACAAC
* * *
37020536 TTGATTCAATTTAAGACAGTATGAAAATGCTCAATTTGAAACACTCAAACAACAACTTTAATTCA
1 TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCA
*
37020601 TTTTATGACAGCATG
66 ATTTATGACAGCATG
37020616 CAAACAGTAA
Statistics
Matches: 170, Mismatches: 17, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
110 34 0.20
111 13 0.08
112 43 0.25
113 80 0.47
ACGTcount: A:0.44, C:0.15, G:0.10, T:0.31
Consensus pattern (112 bp):
TTAATTCAATTTAAGACAGCATGAAAATGCTCAATTTGAAACACTAAAACAACAACTTTAATTCA
ATTTATGACAGCATGAAAATGCTCAATTTGAAACATAAAACAACAAC
Found at i:37021457 original size:18 final size:18
Alignment explanation
Indices: 37021434--37021478 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
37021424 TTTATGATTG
37021434 GGTTGGGTAATTGAGTTT
1 GGTTGGGTAATTGAGTTT
* * *
37021452 GGTTGGATACTTGGGTTT
1 GGTTGGGTAATTGAGTTT
37021470 GGATTGGGT
1 GG-TTGGGT
37021479 TTAGGTGAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 17 0.77
19 5 0.23
ACGTcount: A:0.13, C:0.02, G:0.42, T:0.42
Consensus pattern (18 bp):
GGTTGGGTAATTGAGTTT
Found at i:37029313 original size:27 final size:27
Alignment explanation
Indices: 37029283--37029487 Score: 146
Period size: 27 Copynumber: 7.9 Consensus size: 27
37029273 TAACCTATAA
37029283 GGGTATTTCGATAATTTCACAAACTAG
1 GGGTATTTCGATAATTTCACAAACTAG
*
37029310 GGGTATTTCGGTAATTTCACAAA-TCAG
1 GGGTATTTCGATAATTTCACAAACT-AG
* * *
37029337 GGGTATTTCAATAATTTTACACAC-AG
1 GGGTATTTCGATAATTTCACAAACTAG
*
37029363 AGGGTATTT---TAA--T-A-AAACTGG
1 -GGGTATTTCGATAATTTCACAAACTAG
*
37029384 GGGTATTTCGATAATTTCACAAATTAG
1 GGGTATTTCGATAATTTCACAAACTAG
** * * *
37029411 GGGCGTTTCGGTAATTTTACAAATTAG
1 GGGTATTTCGATAATTTCACAAACTAG
* * * *
37029438 AGGTATTTC-AGTAATTTTACACAC-CG
1 GGGTATTTCGA-TAATTTCACAAACTAG
37029464 GGAGTATTTC-AGTAATTTCACAAA
1 GG-GTATTTCGA-TAATTTCACAAA
37029488 TTGGGGGTCT
Statistics
Matches: 142, Mismatches: 23, Indels: 26
0.74 0.12 0.14
Matches are distributed among these distances:
20 11 0.08
21 2 0.01
22 1 0.01
23 3 0.02
24 3 0.02
25 1 0.01
26 6 0.04
27 115 0.81
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.35
Consensus pattern (27 bp):
GGGTATTTCGATAATTTCACAAACTAG
Found at i:37029368 original size:54 final size:53
Alignment explanation
Indices: 37029283--37029488 Score: 167
Period size: 54 Copynumber: 3.9 Consensus size: 53
37029273 TAACCTATAA
*
37029283 GGGTATTTCGATAATTTCACAAACTAGGGGTATTTCGGTAATTTCACAAATCAG
1 GGGTATTTCAATAATTTCACAAAC-AGGGGTATTTCGGTAATTTCACAAATCAG
* * *
37029337 GGGTATTTCAATAATTTTACACACAGAGGGTATTT---TAA--T-A-AAA-CTGG
1 GGGTATTTCAATAATTTCACAAACAG-GGGTATTTCGGTAATTTCACAAATC-AG
* * ** * *
37029384 GGGTATTTCGATAATTTCACAAATTAGGGGCGTTTCGGTAATTTTACAAATTAG
1 GGGTATTTCAATAATTTCACAAA-CAGGGGTATTTCGGTAATTTCACAAATCAG
* * * * * *
37029438 AGGTATTTCAGTAATTTTACACACCGGGAGTATTTCAGTAATTTCACAAAT
1 GGGTATTTCAATAATTTCACAAACAGGG-GTATTTCGGTAATTTCACAAAT
37029489 TGGGGGTCTC
Statistics
Matches: 117, Mismatches: 23, Indels: 24
0.71 0.14 0.15
Matches are distributed among these distances:
46 1 0.01
47 30 0.26
48 3 0.03
49 1 0.01
50 3 0.03
51 3 0.03
52 1 0.01
53 6 0.05
54 69 0.59
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.35
Consensus pattern (53 bp):
GGGTATTTCAATAATTTCACAAACAGGGGTATTTCGGTAATTTCACAAATCAG
Found at i:37032442 original size:39 final size:39
Alignment explanation
Indices: 37032384--37032523 Score: 133
Period size: 39 Copynumber: 3.6 Consensus size: 39
37032374 AACACACCAG
*
37032384 TTTGACACCCAGTGCCTCATCGAATAATTCGAAGTAATAA
1 TTTGACA-CCAGTGCCTCATCGAATAATCCGAAGTAATAA
* ** *
37032424 TTTGACACCAGTGTCTCATCGGCTAAACCGAAGT-A-AA
1 TTTGACACCAGTGCCTCATCGAATAATCCGAAGTAATAA
* *
37032461 -TTGGCACTCAGTGCCTCATCGAATTAATCCGAAGTAGTAA
1 TTTGACAC-CAGTGCCTCATCGAA-TAATCCGAAGTAATAA
* * *
37032501 ATTGACACCTAGTGTCTTATCGA
1 TTTGACACC-AGTGCCTCATCGA
37032524 CTCGAAGTTG
Statistics
Matches: 80, Mismatches: 14, Indels: 11
0.76 0.13 0.10
Matches are distributed among these distances:
36 6 0.08
37 14 0.17
38 11 0.14
39 22 0.28
40 10 0.12
41 17 0.21
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.28
Consensus pattern (39 bp):
TTTGACACCAGTGCCTCATCGAATAATCCGAAGTAATAA
Found at i:37033360 original size:22 final size:22
Alignment explanation
Indices: 37033333--37033403 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 22
37033323 TAATTTCTCC
37033333 TTTCTTTCTTTCTCTTTCTCTT
1 TTTCTTTCTTTCTCTTTCTCTT
* *
37033355 TTTCTTTCTTTCCCTTTCT-AT
1 TTTCTTTCTTTCTCTTTCTCTT
*
37033376 TTTCGTTTCTATCTCTGTT-TCTT
1 TTTC-TTTCTTTCTCT-TTCTCTT
37033399 TTTCT
1 TTTCT
37033404 ATTTTCTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
21 5 0.12
22 29 0.71
23 7 0.17
ACGTcount: A:0.03, C:0.25, G:0.03, T:0.69
Consensus pattern (22 bp):
TTTCTTTCTTTCTCTTTCTCTT
Found at i:37033859 original size:3 final size:3
Alignment explanation
Indices: 37033851--37033885 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
37033841 AACTAAAAGA
37033851 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
37033886 AATGAATAGC
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:37037419 original size:41 final size:41
Alignment explanation
Indices: 37037330--37037438 Score: 114
Period size: 41 Copynumber: 2.7 Consensus size: 41
37037320 TCAGGCTCTG
* * * *
37037330 TGCCTAGCAGGCTTAATGCCGGTGAAATATTTCAGACTTTA
1 TGCCTAGCAGGCTTCATGCCGGTGTATTATATCAGACTTTA
* *
37037371 TGTCTAGCAGGCTTCATGCCGGTGTATTGA-ATCAGGCTTT-
1 TGCCTAGCAGGCTTCATGCCGGTGTATT-ATATCAGACTTTA
* *
37037411 TGGCCTAGCAGGCTTCGTGCCAGTGTAT
1 T-GCCTAGCAGGCTTCATGCCGGTGTAT
37037439 CATTTCAAGA
Statistics
Matches: 57, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
40 1 0.02
41 55 0.96
42 1 0.02
ACGTcount: A:0.20, C:0.21, G:0.27, T:0.32
Consensus pattern (41 bp):
TGCCTAGCAGGCTTCATGCCGGTGTATTATATCAGACTTTA
Found at i:37046688 original size:15 final size:16
Alignment explanation
Indices: 37046670--37046699 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
37046660 ATAAGAAAGG
37046670 AAATAAATG-AAAATT
1 AAATAAATGCAAAATT
37046685 AAATAAATGCAAAAT
1 AAATAAATGCAAAAT
37046700 AAGAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (16 bp):
AAATAAATGCAAAATT
Found at i:37049303 original size:25 final size:24
Alignment explanation
Indices: 37049266--37049331 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
37049256 TCCTTTACAT
37049266 GTATGCTCATACGAGCTCTAAATCG
1 GTATGCTCATACGAGCTCT-AATCG
* * *
37049291 GTATGCTCTTACGACCTGTAATCG
1 GTATGCTCATACGAGCTCTAATCG
* *
37049315 GTAAGATCATACGAGCT
1 GTATGCTCATACGAGCT
37049332 AAATAATAGT
Statistics
Matches: 34, Mismatches: 7, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 18 0.53
25 16 0.47
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (24 bp):
GTATGCTCATACGAGCTCTAATCG
Found at i:37049382 original size:25 final size:25
Alignment explanation
Indices: 37049270--37049383 Score: 81
Period size: 25 Copynumber: 4.6 Consensus size: 25
37049260 TTACATGTAT
* * *
37049270 GCTCATACGAGCTCTAA-ATCGGTAT
1 GCTCATACGAGCT-GAATAACGGTAA
* *
37049295 GCTCTTACGACCTG--TAATCGGTAA
1 GCTCATACGAGCTGAATAA-CGGTAA
* * **
37049319 GATCATACGAGCTAAATAATAGTAA
1 GCTCATACGAGCTGAATAACGGTAA
* *
37049344 GCTCATGCTAGCTGAATAACGGTAA
1 GCTCATACGAGCTGAATAACGGTAA
*
37049369 GCTCGTACGAGCTGA
1 GCTCATACGAGCTGA
37049384 GAATCTGTAA
Statistics
Matches: 65, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
23 1 0.02
24 15 0.23
25 46 0.71
26 3 0.05
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (25 bp):
GCTCATACGAGCTGAATAACGGTAA
Found at i:37063151 original size:3 final size:3
Alignment explanation
Indices: 37063143--37063177 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
37063133 GGCTTAAATA
37063143 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
37063178 AACTGACGCT
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:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:37064948 original size:51 final size:51
Alignment explanation
Indices: 37064866--37065054 Score: 195
Period size: 51 Copynumber: 3.7 Consensus size: 51
37064856 TATCAATACG
* * *
37064866 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATCGATA-GATAATGGTCACA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGGAT-ATGGTCACA
* * * * *
37064917 TGTGTAGTACTATGTGCAGGCGACTATGTGTACCGAAAGGCTTTGGTCACC
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGGATATGGTCACA
* * * *
37064968 TGTGTAGTACTATGTGCAGGCTACTACGTGAACCGGAAA-G-TTTGATCACG
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACC-GAAAGGATATGGTCACA
* * * *
37065018 TGTGTAGTACTACGTGAAGGCTACTCCGTGTATCGAA
1 TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAA
37065055 TGATAATAAT
Statistics
Matches: 118, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
49 3 0.03
50 37 0.31
51 72 0.61
52 6 0.05
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTATGTGCAGGCTACTACGTGTACCGAAAGGATATGGTCACA
Found at i:37079071 original size:79 final size:82
Alignment explanation
Indices: 37078960--37079144 Score: 238
Period size: 79 Copynumber: 2.3 Consensus size: 82
37078950 GCTACTCGTT
* *
37078960 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
37079023 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
37079040 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
37079103 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
37079120 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37079145 CATCATTCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 55 0.60
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:37079144 original size:40 final size:40
Alignment explanation
Indices: 37078941--37079144 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
37078931 CGGAATTTAA
** *
37078941 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
37078981 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
37079021 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
37079060 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
37079100 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
37079140 CCGGA
1 CCGGA
37079145 CATCATTCAA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:37087012 original size:79 final size:78
Alignment explanation
Indices: 37086910--37087132 Score: 272
Period size: 79 Copynumber: 2.8 Consensus size: 78
37086900 GCTCCTCGTT
* *
37086910 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGG
*
37086975 ATTTAGTAACTCGCA
64 AATTAGTAACTCGCA
* *
37086990 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGA
*
37087054 ATTAGTATCTCGCA
65 ATTAGTAACTCGCA
* * * * *
37087068 CAAATGCCTTCGGATCTTAGTCCGGATATTGTCACTTAGCAC-AA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGCCCG
37087131 GA
63 GA
37087133 CATCATTCAA
Statistics
Matches: 125, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
78 45 0.36
79 60 0.48
80 20 0.16
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGAA
TTAGTAACTCGCA
Found at i:37087027 original size:39 final size:40
Alignment explanation
Indices: 37086910--37087132 Score: 280
Period size: 39 Copynumber: 5.7 Consensus size: 40
37086900 GCTCCTCGTT
* *
37086910 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
37086950 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
37086990 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
37087029 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
37087068 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
37087109 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
37087133 CATCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
38 2 0.01
39 88 0.53
40 67 0.40
41 10 0.06
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:37091965 original size:28 final size:28
Alignment explanation
Indices: 37091899--37091965 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
37091889 CTTTGACAGT
*
37091899 AACAGTAT-AGTGTGGGCCTTAGCCCAA
1 AACAGTATCAGTGTGGGCCTAAGCCCAA
* * * *
37091926 AATAGAAACAGTGTGGGCCTAAGCCCGA
1 AACAGTATCAGTGTGGGCCTAAGCCCAA
*
37091954 TACAGTATCAGT
1 AACAGTATCAGT
37091966 ATGGTGCAAG
Statistics
Matches: 30, Mismatches: 9, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
27 5 0.17
28 25 0.83
ACGTcount: A:0.33, C:0.21, G:0.25, T:0.21
Consensus pattern (28 bp):
AACAGTATCAGTGTGGGCCTAAGCCCAA
Found at i:37092221 original size:32 final size:32
Alignment explanation
Indices: 37092177--37092492 Score: 389
Period size: 32 Copynumber: 9.9 Consensus size: 32
37092167 GTCACAACAA
* * * *
37092177 TAATATGTTTGGCACAAAGCCATCAGTAGCAG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* * * *
37092209 TGATATGATTGGCACACAGTCATCAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* * *
37092241 TAATATGATCGGTACAAAGCTATCAGTAATGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* *
37092273 TAAAATGATTGGCACAAAGCCATCAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
*
37092305 TAATATGATCGGCACAAAGCCATTAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
*
37092337 TAATATGATCAGCACAAAGCCATCAGTAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* * * *
37092369 TAATATGATTGGCACAAAGCTATCAATAACGA
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* * * *
37092401 TAATATGACCAGTACAAAGCCATCAGTAATGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
* *
37092433 TAATATGATCGACACAAAGCCATCAATAACGG
1 TAATATGATCGGCACAAAGCCATCAGTAACGG
**
37092465 TAATATGATCGAAACAAAGCCATCAGTA
1 TAATATGATCGGCACAAAGCCATCAGTA
37092493 GTATCGCAAC
Statistics
Matches: 240, Mismatches: 44, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 240 1.00
ACGTcount: A:0.40, C:0.18, G:0.20, T:0.22
Consensus pattern (32 bp):
TAATATGATCGGCACAAAGCCATCAGTAACGG
Found at i:37092603 original size:27 final size:27
Alignment explanation
Indices: 37092564--37092877 Score: 391
Period size: 27 Copynumber: 11.7 Consensus size: 27
37092554 CCTCGAGGGT
* *
37092564 ATTATGGTTATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* * *
37092591 ATTACGGTCATTTGACCCTACAGAGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
** *
37092618 ATTACTATCATTTTACCATACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
37092645 ATTACGGTTATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
*
37092672 ATTACGGTCATTTTACCCTACAAGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* * *
37092699 ATTATGGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
*
37092726 ATTAC-GACATTTTACCCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
37092752 ATTACGGTCATTTAAACCTACAGGGGC
1 ATTACGGTCATTTTACCCTACAGGGGC
* *
37092779 ATTACGGTTATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTACAGGGGC
*
37092806 ATTACGGTCATTTTACCCTACAGGGAC
1 ATTACGGTCATTTTACCCTACAGGGGC
*
37092833 ATTA-GGTTCATTTTACCCTACAGGGGTA
1 ATTACGG-TCATTTTACCCTACAGGGG-C
*
37092861 ATT-CGGTAATTTTACCC
1 ATTACGGTCATTTTACCC
37092878 ATCGAGGGTA
Statistics
Matches: 243, Mismatches: 40, Indels: 8
0.84 0.14 0.03
Matches are distributed among these distances:
26 25 0.10
27 213 0.88
28 5 0.02
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.33
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTACAGGGGC
Found at i:37092917 original size:27 final size:27
Alignment explanation
Indices: 37092856--37092908 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
37092846 TACCCTACAG
* *
37092856 GGGTAATTCGGTAATTTTACCCATCGA
1 GGGTATTTCGATAATTTTACCCATCGA
37092883 GGGTATTTCGATAATTTTACCCATCG
1 GGGTATTTCGATAATTTTACCCATCG
37092909 GGTTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (27 bp):
GGGTATTTCGATAATTTTACCCATCGA
Found at i:37092924 original size:27 final size:26
Alignment explanation
Indices: 37092866--37092953 Score: 97
Period size: 27 Copynumber: 3.3 Consensus size: 26
37092856 GGGTAATTCG
*
37092866 GTAATTTTACCCATCGAGGGTA-TTTC
1 GTAATTTTACCCATCG-GGGTATTTTA
*
37092892 GATAATTTTACCCATCGGGTTTATTTTA
1 G-TAATTTTACCCATCGGG-GTATTTTA
* *
37092920 GTAATTTTACCAATCAGGGGTATTTTG
1 GTAATTTTACCCATC-GGGGTATTTTA
37092947 GTAATTT
1 GTAATTT
37092954 AACAACTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
26 3 0.06
27 43 0.81
28 7 0.13
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (26 bp):
GTAATTTTACCCATCGGGGTATTTTA
Found at i:37096079 original size:22 final size:21
Alignment explanation
Indices: 37096025--37096089 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
37096015 TGCCAGTAGT
37096025 CAGAATGGCTAAGAGCCATAAA
1 CAGAATGGCTAA-AGCCATAAA
* * * *
37096047 GAGGATAGCTATAAGCTATAAA
1 CAGAATGGCTA-AAGCCATAAA
37096069 CAGAATGGCTACAAGCCATAA
1 CAGAATGGCTA-AAGCCATAA
37096090 GTATAGTAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
22 32 0.97
23 1 0.03
ACGTcount: A:0.45, C:0.17, G:0.22, T:0.17
Consensus pattern (21 bp):
CAGAATGGCTAAAGCCATAAA
Found at i:37096149 original size:32 final size:32
Alignment explanation
Indices: 37096106--37096347 Score: 286
Period size: 32 Copynumber: 7.6 Consensus size: 32
37096096 TAATATTTTT
* * *
37096106 GGCACAAAGCCATCAGTAGCAGTGATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* * *
37096138 GGCACACAGCCATCAGTAATGATAATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* * *
37096170 GGTACAAAGCCATCAGTAATGGTAATATGATT
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
37096202 GGCACAAAGCCATCAGTAACGGTAATATGATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* *
37096234 GACACAAAGCCATCAGTAACGGTAATATGACC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* * * *
37096266 GGTACAAAGCCATCAATAACGGCAATATAATC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
* * * * * *
37096298 GGTACAAAGCCATAAATAACGATAATATAACC
1 GGCACAAAGCCATCAGTAACGGTAATATGATC
*
37096330 GGCACAAGGCCATCAGTA
1 GGCACAAAGCCATCAGTA
37096348 GCGTCGCACC
Statistics
Matches: 181, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 181 1.00
ACGTcount: A:0.40, C:0.21, G:0.20, T:0.19
Consensus pattern (32 bp):
GGCACAAAGCCATCAGTAACGGTAATATGATC
Found at i:37096540 original size:24 final size:23
Alignment explanation
Indices: 37096498--37096572 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
37096488 TCAGAATTAG
* * *
37096498 TCATCCAAATCACAAACAAATCAG
1 TCATCTAAA-CACAGACAAATCAA
* *
37096522 TCATACTAAACATAGACAAATCAT
1 TCAT-CTAAACACAGACAAATCAA
* *
37096546 TCATTTAACCACAGACAAATCAA
1 TCATCTAAACACAGACAAATCAA
37096569 TCAT
1 TCAT
37096573 TTGACCTCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
23 19 0.45
24 19 0.45
25 4 0.10
ACGTcount: A:0.48, C:0.25, G:0.04, T:0.23
Consensus pattern (23 bp):
TCATCTAAACACAGACAAATCAA
Found at i:37096565 original size:23 final size:23
Alignment explanation
Indices: 37096508--37096574 Score: 71
Period size: 23 Copynumber: 2.9 Consensus size: 23
37096498 TCATCCAAAT
* * *
37096508 CACAAACAAATCAGTCATACTAAA
1 CACAGACAAATCAATCAT-TTAAA
* * *
37096532 CATAGACAAATCATTCATTTAAC
1 CACAGACAAATCAATCATTTAAA
37096555 CACAGACAAATCAATCATTT
1 CACAGACAAATCAATCATTT
37096575 GACCTCAAGG
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
23 21 0.58
24 15 0.42
ACGTcount: A:0.48, C:0.24, G:0.04, T:0.24
Consensus pattern (23 bp):
CACAGACAAATCAATCATTTAAA
Found at i:37096619 original size:27 final size:27
Alignment explanation
Indices: 37096587--37097037 Score: 551
Period size: 27 Copynumber: 16.7 Consensus size: 27
37096577 CCTCAAGGGT
37096587 ATTACGGTCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
37096614 ATTACGGTCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
*
37096641 ATTACGGTCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* *
37096668 ATTACGATCAGTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
* * * * *
37096695 ATTACGATCATTTTACGCTACAAGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* *
37096722 ATTACGGTCATTTTATCCTATTGGGGGC
1 ATTACGGTCATTTTACCCTA-TAGGGGC
* *
37096750 ATTACGATCATTTTACCCTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
*
37096777 ATTACGATCATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
* * *
37096804 ATTACGATCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* *
37096831 ATTACAGTTATTTTACCCTATAGGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
* *
37096858 ATTACGGTCATTTTACCCTACAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* * *
37096885 ATTACGATCATTTTACCCTAGAGGGAC
1 ATTACGGTCATTTTACCCTATAGGGGC
* *
37096912 ATTACGGTCATTTTACCCTACATGGGC
1 ATTACGGTCATTTTACCCTATAGGGGC
* * * *
37096939 TTTACGATCATTTTACCTTATAGGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
* * * *
37096966 ATTATGGTCATTTTACCCTACATGGAC
1 ATTACGGTCATTTTACCCTATAGGGGC
* * *
37096993 ATTACGGTCATTTTACCCTAAAAGGGT
1 ATTACGGTCATTTTACCCTATAGGGGC
**
37097020 ATTTTGGTCATTTTACCC
1 ATTACGGTCATTTTACCC
37097038 ATCGGGGGTA
Statistics
Matches: 362, Mismatches: 61, Indels: 2
0.85 0.14 0.00
Matches are distributed among these distances:
27 341 0.94
28 21 0.06
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (27 bp):
ATTACGGTCATTTTACCCTATAGGGGC
Found at i:37097046 original size:27 final size:27
Alignment explanation
Indices: 37097016--37097077 Score: 97
Period size: 27 Copynumber: 2.3 Consensus size: 27
37097006 TACCCTAAAA
* *
37097016 GGGTATTTTGGTCATTTTACCCATCGG
1 GGGTATTTTGGTAATTTTACCCATCAG
*
37097043 GGGTATTTTGGTAATTTTATCCATCAG
1 GGGTATTTTGGTAATTTTACCCATCAG
37097070 GGGTATTT
1 GGGTATTT
37097078 CAGTAAAAGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.18, C:0.13, G:0.26, T:0.44
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACCCATCAG
Found at i:37097083 original size:27 final size:27
Alignment explanation
Indices: 37097029--37097083 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
37097019 TATTTTGGTC
* **
37097029 ATTTTACCCATCGGGGGTATTTTGGTA
1 ATTTTACCCATCAGGGGTATTTCAGTA
*
37097056 ATTTTATCCATCAGGGGTATTTCAGTA
1 ATTTTACCCATCAGGGGTATTTCAGTA
37097083 A
1 A
37097084 AAGGTCTACG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.40
Consensus pattern (27 bp):
ATTTTACCCATCAGGGGTATTTCAGTA
Found at i:37101032 original size:15 final size:17
Alignment explanation
Indices: 37101006--37101037 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
37100996 GTATTATTGA
37101006 ATAAATTTATA-TGTTT
1 ATAAATTTATATTGTTT
37101022 ATAAA-TTATATTGTTT
1 ATAAATTTATATTGTTT
37101038 TCTATTTGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 5 0.33
16 10 0.67
ACGTcount: A:0.38, C:0.00, G:0.06, T:0.56
Consensus pattern (17 bp):
ATAAATTTATATTGTTT
Found at i:37101362 original size:20 final size:20
Alignment explanation
Indices: 37101339--37101386 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
37101329 TTGCACTCCA
37101339 GTGCCT-TTGTCTACACTTCG
1 GTGCCTCTT-TCTACACTTCG
* *
37101359 GTGCCTCTTTCTGCACTTTG
1 GTGCCTCTTTCTACACTTCG
37101379 GTGCCTCT
1 GTGCCTCT
37101387 GTTATGCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 23 0.92
21 2 0.08
ACGTcount: A:0.06, C:0.31, G:0.21, T:0.42
Consensus pattern (20 bp):
GTGCCTCTTTCTACACTTCG
Found at i:37103986 original size:20 final size:20
Alignment explanation
Indices: 37103963--37104009 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
37103953 GGGTTAAGAT
*
37103963 TGAGCTGAATTGAGCTTGAG
1 TGAGCTGAATTGAGCTCGAG
* *
37103983 TGAGTTGACTTGAGCTCGAG
1 TGAGCTGAATTGAGCTCGAG
37104003 TGAGCTG
1 TGAGCTG
37104010 GAAACGAGCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.21, C:0.13, G:0.36, T:0.30
Consensus pattern (20 bp):
TGAGCTGAATTGAGCTCGAG
Found at i:37105735 original size:48 final size:48
Alignment explanation
Indices: 37105680--37105785 Score: 137
Period size: 48 Copynumber: 2.2 Consensus size: 48
37105670 TTGTCTTTTC
*
37105680 TTTCTTTTTCAATTT-TCTCT-TTTTCCTCACA-CTTTTGTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTT--TCACATCCTTT-TTCAATCTCAA
* *
37105728 TTTCTTTTTCGATTTCTTTCTCTTTTTCACATCCTTTTTCAATCTCAA
1 TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
37105776 TTTCTTTTTC
1 TTTCTTTTTC
37105786 CATGACACTC
Statistics
Matches: 52, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
48 40 0.77
49 8 0.15
50 4 0.08
ACGTcount: A:0.14, C:0.25, G:0.02, T:0.59
Consensus pattern (48 bp):
TTTCTTTTTCAATTTCTCTCTCTTTTTCACATCCTTTTTCAATCTCAA
Found at i:37106863 original size:23 final size:24
Alignment explanation
Indices: 37106833--37106887 Score: 78
Period size: 23 Copynumber: 2.3 Consensus size: 24
37106823 TTAACTTGAT
*
37106833 TTTTTTTTGCTC-ACTTTTTTT-TC
1 TTTTTTTTGCTCGA-TTTTTTTCAC
37106856 TTTTTTTTGCTCGATTTTTTTCAC
1 TTTTTTTTGCTCGATTTTTTTCAC
37106880 TTTTTTTT
1 TTTTTTTT
37106888 TGAATTTTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.05, C:0.15, G:0.05, T:0.75
Consensus pattern (24 bp):
TTTTTTTTGCTCGATTTTTTTCAC
Found at i:37106895 original size:11 final size:11
Alignment explanation
Indices: 37106881--37106905 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
37106871 TTTTTTCACT
37106881 TTTTTTTTGAA
1 TTTTTTTTGAA
37106892 TTTTTTTTGAA
1 TTTTTTTTGAA
37106903 TTT
1 TTT
37106906 CGATTTTTTT
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:0.08, T:0.76
Consensus pattern (11 bp):
TTTTTTTTGAA
Found at i:37116770 original size:14 final size:14
Alignment explanation
Indices: 37116751--37116782 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
37116741 AAATACGCAT
37116751 TTTATTGATCCTTA
1 TTTATTGATCCTTA
37116765 TTTATTGATCCTTA
1 TTTATTGATCCTTA
37116779 TTTA
1 TTTA
37116783 CTAAGGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.12, G:0.06, T:0.59
Consensus pattern (14 bp):
TTTATTGATCCTTA
Found at i:37117249 original size:39 final size:39
Alignment explanation
Indices: 37117206--37117283 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
37117196 AAGAAAGGAA
37117206 AGATTAAACCCAATTCAGAGTGGTTGTCACCCAAGACTC
1 AGATTAAACCCAATTCAGAGTGGTTGTCACCCAAGACTC
37117245 AGATTAAACCCAATTCAGAGTGGTTGTCACCCAAGACTC
1 AGATTAAACCCAATTCAGAGTGGTTGTCACCCAAGACTC
37117284 TGACTGACGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.18, T:0.23
Consensus pattern (39 bp):
AGATTAAACCCAATTCAGAGTGGTTGTCACCCAAGACTC
Found at i:37121643 original size:69 final size:67
Alignment explanation
Indices: 37121559--37121809 Score: 279
Period size: 69 Copynumber: 3.7 Consensus size: 67
37121549 ATAGTTGGAC
* ** *
37121559 ATTATAATGTCATTTTGATTCTATAAAATATATGTTTCAATTGAATTTTAATGTTGCCTATTTTA
1 ATTATCATGTCATTTTGATGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGCC-ATTTTA
37121624 GTAT
65 G-AT
* * * *
37121628 ATTGTCATGTCATTTTGGTGGTATAAAATATGTGTTTCAATTGAAGTTTAATGTTATCCATTTTG
1 ATTATCATGTCATTTTGATGGTATAAAATATATGTTTCAATTGAAGTTTAATGTT-GCCATTTT-
*
37121693 GGAT
64 AGAT
** * * *
37121697 ATTATCATGTCATTCCGGTTGTATAAAATATATGTTTCAATAGAAGTTTAATGTTGTCCATTTTA
1 ATTATCATGTCATTTTGATGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTG-CCATTTT-
*
37121762 AGAC
64 AGAT
* *
37121766 ATTACCATGTCATTTT-AGTGGTATAAAATACATGTTTCAATTGA
1 ATTATCATGTCATTTTGA-TGGTATAAAATATATGTTTCAATTGA
37121810 GGTAGCAATG
Statistics
Matches: 152, Mismatches: 26, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
69 149 0.98
70 3 0.02
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (67 bp):
ATTATCATGTCATTTTGATGGTATAAAATATATGTTTCAATTGAAGTTTAATGTTGCCATTTTAG
AT
Found at i:37125323 original size:26 final size:26
Alignment explanation
Indices: 37125294--37125362 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
37125284 CATTCTGACC
*
37125294 CACAGCTCATGTGAGTAGACCAATTT
1 CACAGCTCATGTGAGCAGACCAATTT
* * * *
37125320 CACAACTCGTGTGAGCAGGCCCATTT
1 CACAGCTCATGTGAGCAGACCAATTT
*
37125346 CATAGCTCATGTGAGCA
1 CACAGCTCATGTGAGCA
37125363 ACGATGTAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.25
Consensus pattern (26 bp):
CACAGCTCATGTGAGCAGACCAATTT
Found at i:37129350 original size:25 final size:25
Alignment explanation
Indices: 37129308--37129378 Score: 90
Period size: 25 Copynumber: 2.9 Consensus size: 25
37129298 ACAGCTCGTG
* *
37129308 AGAGCA-AACAATTTATAGCTTATA
1 AGAGCATACCAATTTATAGCTCATA
*
37129332 AGAGCATACCAATTTATAGCTCATG
1 AGAGCATACCAATTTATAGCTCATA
**
37129357 AGAGCATACTGATTTATAGCTC
1 AGAGCATACCAATTTATAGCTC
37129379 GAGTGAGCAT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
24 6 0.15
25 35 0.85
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (25 bp):
AGAGCATACCAATTTATAGCTCATA
Found at i:37129386 original size:25 final size:25
Alignment explanation
Indices: 37129333--37129440 Score: 112
Period size: 25 Copynumber: 4.3 Consensus size: 25
37129323 TAGCTTATAA
* *
37129333 GAGCATACCAATTTATAGCTC-ATGA
1 GAGCATACCGATTTATAGCTCGA-GT
*
37129358 GAGCATACTGATTTATAGCTCGAGT
1 GAGCATACCGATTTATAGCTCGAGT
* * *
37129383 GAGCATATCGATCTACAGCTCGAGT
1 GAGCATACCGATTTATAGCTCGAGT
* *
37129408 GAGCATACCGACTCATAGCTCGTA-T
1 GAGCATACCGATTTATAGCTCG-AGT
37129433 GAGCATAC
1 GAGCATAC
37129441 ATGTACATGA
Statistics
Matches: 69, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
25 67 0.97
26 2 0.03
ACGTcount: A:0.31, C:0.22, G:0.21, T:0.26
Consensus pattern (25 bp):
GAGCATACCGATTTATAGCTCGAGT
Found at i:37142789 original size:50 final size:50
Alignment explanation
Indices: 37142690--37142928 Score: 237
Period size: 50 Copynumber: 4.7 Consensus size: 50
37142680 AAAGAGATCT
37142690 CATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGGTTATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--TGA-G--ATGAGAGGTCC
* * *
37142746 CATGTAAGACCATGTCTGTGAGATGGCATTAGCACTGAGATGAGAGGTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCC
** * * * **
37142796 CCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCC
* * * * * * **
37142846 CATGTAAGACCATATCTGGGATATGGCATTGGCAGT-ACAAGAAACATCC
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCC
* *
37142895 CATGTAAGACCATGCCTGGGACATGGCTTTGGCA
1 CATGTAAGACCATGTCTGGGACATGGCATTGGCA
37142929 TGTTATTATC
Statistics
Matches: 154, Mismatches: 29, Indels: 7
0.81 0.15 0.04
Matches are distributed among these distances:
49 38 0.25
50 80 0.52
52 1 0.01
53 3 0.02
55 1 0.01
56 31 0.20
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (50 bp):
CATGTAAGACCATGTCTGGGACATGGCATTGGCACTGAGATGAGAGGTCC
Found at i:37150334 original size:39 final size:39
Alignment explanation
Indices: 37150290--37150392 Score: 109
Period size: 39 Copynumber: 2.7 Consensus size: 39
37150280 ACCTAACATA
* * * * *
37150290 CAAGCATATATCACCATACTCATATAATCTCATAGCGTT
1 CAAGCATATATCACAATACTCATAAAATCACATAACCTT
* * * *
37150329 TAAGCATATGTCATAATACTCGTAAAATCACATAACCTT
1 CAAGCATATATCACAATACTCATAAAATCACATAACCTT
*
37150368 CAAGCATATACCACAATACTC-TAAA
1 CAAGCATATATCACAATACTCATAAA
37150393 GCATCTTTAT
Statistics
Matches: 51, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
38 4 0.08
39 47 0.92
ACGTcount: A:0.41, C:0.24, G:0.07, T:0.28
Consensus pattern (39 bp):
CAAGCATATATCACAATACTCATAAAATCACATAACCTT
Found at i:37161614 original size:38 final size:39
Alignment explanation
Indices: 37161570--37161673 Score: 129
Period size: 38 Copynumber: 2.7 Consensus size: 39
37161560 CTCTATAAGT
* *
37161570 TGAGCATTAGCGGTGTTTTTTGAAAA-CACCGCTATAGA
1 TGAGCATTAGCGGCGTTTTTTGAAAAGCACCACTATAGA
** **
37161608 TGAGCATTAGCGGCACTTTTTGAAAAGCGTCACTATAGA
1 TGAGCATTAGCGGCGTTTTTTGAAAAGCACCACTATAGA
*
37161647 TCGAGCATTAGCGGCGTTTTTTAAAAA
1 T-GAGCATTAGCGGCGTTTTTTGAAAA
37161674 AACGCCGTAA
Statistics
Matches: 55, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
38 23 0.42
39 10 0.18
40 22 0.40
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (39 bp):
TGAGCATTAGCGGCGTTTTTTGAAAAGCACCACTATAGA
Found at i:37165557 original size:43 final size:43
Alignment explanation
Indices: 37165504--37165714 Score: 210
Period size: 43 Copynumber: 4.9 Consensus size: 43
37165494 GTTTGTTCAT
* * * *
37165504 AAACGTCGCTAAAGAACGGTACT-TTTAGCGGTGTTTGTGATAA
1 AAACGCCGCTAAAGATC-ATACTCTTTAGCGGCGTTTGTGATAA
**
37165547 AAACGCCGCTAAAGATCATTTTCTTTAGCGGCGTTTGTGATAA
1 AAACGCCGCTAAAGATCATACTCTTTAGCGGCGTTTGTGATAA
* * * *
37165590 AAGCGCCGCTAAAGATCATGCTCTTTAGCGACGTTTCTGATAA
1 AAACGCCGCTAAAGATCATACTCTTTAGCGGCGTTTGTGATAA
* * ** *
37165633 AAACGCCTCTAAAGGTCATGTTCTTTAGCGGCGTTTGTGGGT-A
1 AAACGCCGCTAAAGATCATACTCTTTAGCGGCGTTTGT-GATAA
* * * **
37165676 AAGCGCTGCTAAAGGTCATGTTCTTTAGCGGCGTTTGTG
1 AAACGCCGCTAAAGATCATACTCTTTAGCGGCGTTTGTG
37165715 GGTAAAGTGC
Statistics
Matches: 145, Mismatches: 21, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
42 3 0.02
43 140 0.97
44 2 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATACTCTTTAGCGGCGTTTGTGATAA
Found at i:37165715 original size:43 final size:43
Alignment explanation
Indices: 37165527--37165754 Score: 273
Period size: 43 Copynumber: 5.3 Consensus size: 43
37165517 GAACGGTACT
* * * *
37165527 TTTAGCGGTGTTTGTGATAAAAACGCCGCTAAAGATCATTTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* *
37165570 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGATCATGCTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* * * *
37165613 TTTAGCGACGTTTCTGATAAAAACGCCTCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
* *
37165656 TTTAGCGGCGTTTGTGGGT-AAAGCGCTGCTAAAGGTCATGTTC
1 TTTAGCGGCGTTTGT-GATAAAAGCGCCGCTAAAGGTCATGTTC
* * *
37165699 TTTAGCGGCGTTTGTGGGT-AAAGTGCCGCTAAAAGTCATGTTC
1 TTTAGCGGCGTTTGT-GATAAAAGCGCCGCTAAAGGTCATGTTC
37165742 TATT-GCGGCGTTT
1 T-TTAGCGGCGTTT
37165755 TTCACATAAA
Statistics
Matches: 164, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
43 160 0.98
44 4 0.02
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGATAAAAGCGCCGCTAAAGGTCATGTTC
Done.