Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 100 of 210
Found at i:34165083 original size:22 final size:22
Alignment explanation
Indices: 34165051--34165093 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
34165041 TTTTTGCGCT
*
34165051 AAAAAACGCCGCTAAAGGCCTA
1 AAAAAACGCCGCTAAAAGCCTA
*
34165073 AAAAAATGCCGCTAAAAGCCT
1 AAAAAACGCCGCTAAAAGCCT
34165094 GTTTTGGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.47, C:0.26, G:0.16, T:0.12
Consensus pattern (22 bp):
AAAAAACGCCGCTAAAAGCCTA
Found at i:34167894 original size:823 final size:823
Alignment explanation
Indices: 34166309--34167954 Score: 3292
Period size: 823 Copynumber: 2.0 Consensus size: 823
34166299 AGAGTCTTGG
34166309 TAAACAAGTCTACAAGGTTGTCCTCATATGCAAATTTAACTACAATTACGATTACATCTGTAATT
1 TAAACAAGTCTACAAGGTTGTCCTCATATGCAAATTTAACTACAATTACGATTACATCTGTAATT
34166374 GACTCCTTTATGATATGATACTTTCTATCAATATGTTTTATCCTCTTGTAGTTTTTGGTTTCCTT
66 GACTCCTTTATGATATGATACTTTCTATCAATATGTTTTATCCTCTTGTAGTTTTTGGTTTCCTT
34166439 GGTGTTAGCTATTGTCGCACTGTTGCCACAATACAATGTGATAGTTTTTTCATAACAAGAACGAC
131 GGTGTTAGCTATTGTCGCACTGTTGCCACAATACAATGTGATAGTTTTTTCATAACAAGAACGAC
34166504 TTCAAGATCCATAAGGAACTTTTGAAGCCATATTTCTTCTTTTATAGCCTCAGAAGCATCCACAC
196 TTCAAGATCCATAAGGAACTTTTGAAGCCATATTTCTTCTTTTATAGCCTCAGAAGCATCCACAC
34166569 ATTCGACCTTCATAGTAAAGTCAGCAATACAACTTTGCTTGACACTTCTCCACGCAATGGACCCA
261 ATTCGACCTTCATAGTAAAGTCAGCAATACAACTTTGCTTGACACTTCTCCACGCAATGGACCCA
34166634 CCGCCAAGGATAAAAACCCAGCTCGATGTCGATTTCCTTGAAACTCAACACGTTTAGAAGTCAGA
326 CCGCCAAGGATAAAAACCCAGCTCGATGTCGATTTCCTTGAAACTCAACACGTTTAGAAGTCAGA
34166699 GTCAGTATATATGATAGGAGTAAGATCTCCTCCGAAATACTCAGGCATATAATCTCTCATTCTCT
391 GTCAGTATATATGATAGGAGTAAGATCTCCTCCGAAATACTCAGGCATATAATCTCTCATTCTCT
34166764 ATAAATACTGGAGTATATGCTTAACTAGCAACAATGGAGTAAACATATGAGTAAAGATGATATAG
456 ATAAATACTGGAGTATATGCTTAACTAGCAACAATGGAGTAAACATATGAGTAAAGATGATATAG
34166829 CTGATAGCCGGTATGTTTGGTACATAACTTGTGTATGACATGGCTTTATTAGTAACAATGGAATT
521 CTGATAGCCGGTATGTTTGGTACATAACTTGTGTATGACATGGCTTTATTAGTAACAATGGAATT
34166894 CATAACTTTATTAAAAAGTTAATAATATCCTCTCACTGGCATTATGTGGGTTGATAAATATAGAA
586 CATAACTTTATTAAAAAGTTAATAATATCCTCTCACTGGCATTATGTGGGTTGATAAATATAGAA
34166959 CATGTCCACAGGTCACTCATTCCCGAACGAGCAATTTATCATAGTCATTAGTTGACAGTGATCAT
651 CATGTCCACAGGTCACTCATTCCCGAACGAGCAATTTATCATAGTCATTAGTTGACAGTGATCAT
34167024 ATTAATCATTAAGAAGACACAATGGTGACAATGAGATAAAATAGGATTGTATTGAGCAAACGAAT
716 ATTAATCATTAAGAAGACACAATGGTGACAATGAGATAAAATAGGATTGTATTGAGCAAACGAAT
34167089 TTAACTCAAAGGAATTAAGGATATCATATGAGGGTAGCATACA
781 TTAACTCAAAGGAATTAAGGATATCATATGAGGGTAGCATACA
34167132 TAAACAAGTCTACAAGGTTGTCCTCATATGCAAATTTAACTACAATTACGATTACATCTGTAATT
1 TAAACAAGTCTACAAGGTTGTCCTCATATGCAAATTTAACTACAATTACGATTACATCTGTAATT
34167197 GACTCCTTTATGATATGATACTTTCTATCAATATGTTTTATCCTCTTGTAGTTTTTGGTTTCCTT
66 GACTCCTTTATGATATGATACTTTCTATCAATATGTTTTATCCTCTTGTAGTTTTTGGTTTCCTT
34167262 GGTGTTAGCTATTGTCGCACTGTTGCCACAATACAATGTGATAGTTTTTTCATAACAAGAACGAC
131 GGTGTTAGCTATTGTCGCACTGTTGCCACAATACAATGTGATAGTTTTTTCATAACAAGAACGAC
34167327 TTCAAGATCCATAAGGAACTTTTGAAGCCATATTTCTTCTTTTATAGCCTCAGAAGCATCCACAC
196 TTCAAGATCCATAAGGAACTTTTGAAGCCATATTTCTTCTTTTATAGCCTCAGAAGCATCCACAC
34167392 ATTCGACCTTCATAGTAAAGTCAGCAATACAACTTTGCTTGACACTTCTCCACGCAATGGACCCA
261 ATTCGACCTTCATAGTAAAGTCAGCAATACAACTTTGCTTGACACTTCTCCACGCAATGGACCCA
34167457 CCGCCAAGGATAAAAACCCAGCTCGATGTCGATTTCCTTGAAACTCAACACGTTTAGAAGTCAGA
326 CCGCCAAGGATAAAAACCCAGCTCGATGTCGATTTCCTTGAAACTCAACACGTTTAGAAGTCAGA
34167522 GTCAGTATATATGATAGGAGTAAGATCTCCTCCGAAATACTCAGGCATATAATCTCTCATTCTCT
391 GTCAGTATATATGATAGGAGTAAGATCTCCTCCGAAATACTCAGGCATATAATCTCTCATTCTCT
34167587 ATAAATACTGGAGTATATGCTTAACTAGCAACAATGGAGTAAACATATGAGTAAAGATGATATAG
456 ATAAATACTGGAGTATATGCTTAACTAGCAACAATGGAGTAAACATATGAGTAAAGATGATATAG
34167652 CTGATAGCCGGTATGTTTGGTACATAACTTGTGTATGACATGGCTTTATTAGTAACAATGGAATT
521 CTGATAGCCGGTATGTTTGGTACATAACTTGTGTATGACATGGCTTTATTAGTAACAATGGAATT
34167717 CATAACTTTATTAAAAAGTTAATAATATCCTCTCACTGGCATTATGTGGGTTGATAAATATAGAA
586 CATAACTTTATTAAAAAGTTAATAATATCCTCTCACTGGCATTATGTGGGTTGATAAATATAGAA
34167782 CATGTCCACAGGTCACTCATTCCCGAACGAGCAATTTATCATAGTCATTAGTTGACAGTGATCAT
651 CATGTCCACAGGTCACTCATTCCCGAACGAGCAATTTATCATAGTCATTAGTTGACAGTGATCAT
34167847 ATTAATCATTAAGAAGACACAATGGTGACAATGAGATAAAATAGGATTGTATTGAGCAAACGAAT
716 ATTAATCATTAAGAAGACACAATGGTGACAATGAGATAAAATAGGATTGTATTGAGCAAACGAAT
34167912 TTAACTCAAAGGAATTAAGGATATCATATGAGGGTAGCATACA
781 TTAACTCAAAGGAATTAAGGATATCATATGAGGGTAGCATACA
34167955 CATGACGAGG
Statistics
Matches: 823, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
823 823 1.00
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (823 bp):
TAAACAAGTCTACAAGGTTGTCCTCATATGCAAATTTAACTACAATTACGATTACATCTGTAATT
GACTCCTTTATGATATGATACTTTCTATCAATATGTTTTATCCTCTTGTAGTTTTTGGTTTCCTT
GGTGTTAGCTATTGTCGCACTGTTGCCACAATACAATGTGATAGTTTTTTCATAACAAGAACGAC
TTCAAGATCCATAAGGAACTTTTGAAGCCATATTTCTTCTTTTATAGCCTCAGAAGCATCCACAC
ATTCGACCTTCATAGTAAAGTCAGCAATACAACTTTGCTTGACACTTCTCCACGCAATGGACCCA
CCGCCAAGGATAAAAACCCAGCTCGATGTCGATTTCCTTGAAACTCAACACGTTTAGAAGTCAGA
GTCAGTATATATGATAGGAGTAAGATCTCCTCCGAAATACTCAGGCATATAATCTCTCATTCTCT
ATAAATACTGGAGTATATGCTTAACTAGCAACAATGGAGTAAACATATGAGTAAAGATGATATAG
CTGATAGCCGGTATGTTTGGTACATAACTTGTGTATGACATGGCTTTATTAGTAACAATGGAATT
CATAACTTTATTAAAAAGTTAATAATATCCTCTCACTGGCATTATGTGGGTTGATAAATATAGAA
CATGTCCACAGGTCACTCATTCCCGAACGAGCAATTTATCATAGTCATTAGTTGACAGTGATCAT
ATTAATCATTAAGAAGACACAATGGTGACAATGAGATAAAATAGGATTGTATTGAGCAAACGAAT
TTAACTCAAAGGAATTAAGGATATCATATGAGGGTAGCATACA
Found at i:34172384 original size:44 final size:44
Alignment explanation
Indices: 34172274--34172389 Score: 119
Period size: 44 Copynumber: 2.7 Consensus size: 44
34172264 AGCTCGTACA
** *** *
34172274 ATGCCAACGTCCCAGACGTGGTCTTACA-TGTAATCACATATCG
1 ATGCCAATATCCCAGACGTGGTCTTACACACAAATCACAAATCG
* * *
34172317 ATGCCACTGTCCCAGACAG-GGTCTTACACACAAATCATAAATCG
1 ATGCCAATATCCCAGAC-GTGGTCTTACACACAAATCACAAATCG
*
34172361 ATGCCAATATCCTAGACGTGGTCTTACAC
1 ATGCCAATATCCCAGACGTGGTCTTACAC
34172390 GATAACACAT
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
43 25 0.42
44 35 0.58
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (44 bp):
ATGCCAATATCCCAGACGTGGTCTTACACACAAATCACAAATCG
Found at i:34172575 original size:17 final size:17
Alignment explanation
Indices: 34172553--34172589 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
34172543 AATTTTTGAA
34172553 TTAGTGAATTCTGTGAT
1 TTAGTGAATTCTGTGAT
*
34172570 TTAGTGAATTTTGTGAT
1 TTAGTGAATTCTGTGAT
34172587 TTA
1 TTA
34172590 AAAAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.03, G:0.22, T:0.51
Consensus pattern (17 bp):
TTAGTGAATTCTGTGAT
Found at i:34173867 original size:46 final size:45
Alignment explanation
Indices: 34173814--34173953 Score: 226
Period size: 46 Copynumber: 3.0 Consensus size: 45
34173804 CCATGTAAAA
34173814 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAACTCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAC-CATACTGAG
34173860 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAG-AAACCATACTGAG
* * *
34173906 TTGAGAAAAGTAGCTATGGTATTTCAGTGAAGGAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAA-GAAACCATACTGAG
34173952 TT
1 TT
34173954 ATAGCATTGT
Statistics
Matches: 89, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
46 84 0.94
47 5 0.06
ACGTcount: A:0.34, C:0.09, G:0.27, T:0.29
Consensus pattern (45 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAACCATACTGAG
Found at i:34176220 original size:177 final size:178
Alignment explanation
Indices: 34175923--34176276 Score: 622
Period size: 177 Copynumber: 2.0 Consensus size: 178
34175913 GTATTCGAAG
34175923 CAACGATCTCAAAAACATAAAAATTATCAAAAACCGAACAAAAAACTAACCTTGAATCAAGCTTC
1 CAACGATCTCAAAAACATAAAAATTATCAAAAACCGAACAAAAAACTAACCTTGAATCAAGCTTC
* *
34175988 AAAGATGGCTGAACCTAGCTTAGGTTTCTTTCTTTTTTCTTTTCTTTAGTTTCGGTCAAAATAAG
66 AAAAATGACTGAACCTAGCTTAGGTTTCTTTCTTTTTTCTTTTCTTTAGTTTCGGTCAAAATAAG
*
34176053 ATGAGAATATGGCTTTTAAATTTGTTTGTCTTTTATTATAATAACTTC
131 ATGAGAATATGGCTTTTAAATTTGTTTGTCTTTTATAATAATAACTTC
* * *
34176101 CAACGATCTCAAAAACGTAAAAATTATCAAAAACCGAA-TAAAAACTAACTTTGAATCAAGCTTC
1 CAACGATCTCAAAAACATAAAAATTATCAAAAACCGAACAAAAAACTAACCTTGAATCAAGCTTC
34176165 AAAAATGACTGAACCTAGCTTAGGTTTCTTTCTTCTTTT-TTTTCTTTAGTTTCGGTCAAAATAA
66 AAAAATGACTGAACCTAGCTTAGGTTTCTTTCTT-TTTTCTTTTCTTTAGTTTCGGTCAAAATAA
*
34176229 GATGAGGATATGGCTTTTAAATTTGTTTGTCTTTTATAATAATAACTT
130 GATGAGAATATGGCTTTTAAATTTGTTTGTCTTTTATAATAATAACTT
34176277 TATAATATAA
Statistics
Matches: 168, Mismatches: 7, Indels: 3
0.94 0.04 0.02
Matches are distributed among these distances:
177 127 0.76
178 41 0.24
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.37
Consensus pattern (178 bp):
CAACGATCTCAAAAACATAAAAATTATCAAAAACCGAACAAAAAACTAACCTTGAATCAAGCTTC
AAAAATGACTGAACCTAGCTTAGGTTTCTTTCTTTTTTCTTTTCTTTAGTTTCGGTCAAAATAAG
ATGAGAATATGGCTTTTAAATTTGTTTGTCTTTTATAATAATAACTTC
Found at i:34183981 original size:18 final size:17
Alignment explanation
Indices: 34183953--34183987 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34183943 AATTATAAGA
*
34183953 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34183970 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34183988 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34184244 original size:16 final size:16
Alignment explanation
Indices: 34184223--34184258 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
34184213 GATTTGCTAT
34184223 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34184239 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34184255 TACA
1 TACA
34184259 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:34192550 original size:16 final size:16
Alignment explanation
Indices: 34192496--34192550 Score: 74
Period size: 16 Copynumber: 3.4 Consensus size: 16
34192486 TGAATTACTG
* *
34192496 ATTACAACTTTATTCC
1 ATTACAGCTCTATTCC
* *
34192512 ATTACAGTTCTATTCA
1 ATTACAGCTCTATTCC
34192528 ATTACAGCTCTATTCC
1 ATTACAGCTCTATTCC
34192544 ATTACAG
1 ATTACAG
34192551 TGAACCAAAC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.31, C:0.24, G:0.05, T:0.40
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:34193339 original size:16 final size:16
Alignment explanation
Indices: 34193318--34193353 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
34193308 ATAATATTGT
34193318 TTTAATGAATTTAATA
1 TTTAATGAATTTAATA
*
34193334 TTTAATTAATTTAATA
1 TTTAATGAATTTAATA
34193350 TTTA
1 TTTA
34193354 TCTAGATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (16 bp):
TTTAATGAATTTAATA
Found at i:34196036 original size:51 final size:52
Alignment explanation
Indices: 34195980--34196087 Score: 164
Period size: 51 Copynumber: 2.1 Consensus size: 52
34195970 TCATTTTCAT
* *
34195980 TTTTCATTTTGGAGAAAACCACATTCATTTTCAAATGATT-TAATTTCTCCA
1 TTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCTAATTTCTCCA
* * *
34196031 TTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGTTTCTCATTTCTCCA
1 TTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCTAATTTCTCCA
34196083 TTTTC
1 TTTTC
34196088 TTCATTTCTA
Statistics
Matches: 51, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
51 36 0.71
52 15 0.29
ACGTcount: A:0.29, C:0.19, G:0.07, T:0.44
Consensus pattern (52 bp):
TTTTCATTTTGGAGAAAACCACAATCATTTCCAAATGATTCTAATTTCTCCA
Found at i:34196119 original size:19 final size:20
Alignment explanation
Indices: 34196083--34196120 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
34196073 CATTTCTCCA
*
34196083 TTTTCTTCATTTCTATTCAT
1 TTTTCTTCATTTCGATTCAT
*
34196103 TTTTGTTCATTT-GATTCA
1 TTTTCTTCATTTCGATTCA
34196121 ACATGCAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.16, C:0.16, G:0.05, T:0.63
Consensus pattern (20 bp):
TTTTCTTCATTTCGATTCAT
Found at i:34197451 original size:21 final size:21
Alignment explanation
Indices: 34197417--34197456 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
34197407 CAAAACTATT
* *
34197417 AAAAATATTCAAAATTGTAAA
1 AAAAAAATTCAAAAATGTAAA
*
34197438 AAAAAAATTTAAAAATGTA
1 AAAAAAATTCAAAAATGTA
34197457 GACTGTGCAT
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:0.65, C:0.03, G:0.05, T:0.28
Consensus pattern (21 bp):
AAAAAAATTCAAAAATGTAAA
Found at i:34197579 original size:20 final size:20
Alignment explanation
Indices: 34197578--34197673 Score: 101
Period size: 21 Copynumber: 4.8 Consensus size: 20
34197568 AAATTGTAAA
34197578 AAAAATT-T-AAAAATGTATT
1 AAAAATTGTAAAAAAT-TATT
*
34197597 AAAAATTGTAAATAATTATT
1 AAAAATTGTAAAAAATTATT
*
34197617 AAATATTGTCAAAAATATT-TT
1 AAAAATTGT-AAAAA-ATTATT
34197638 -AAAATTGTAAAAAATTTATT
1 AAAAATTGTAAAAAA-TTATT
*
34197658 AAAAATTATAAAAAAT
1 AAAAATTGTAAAAAAT
34197674 CATTTANNNN
Statistics
Matches: 65, Mismatches: 5, Indels: 13
0.78 0.06 0.16
Matches are distributed among these distances:
18 1 0.02
19 14 0.22
20 23 0.35
21 24 0.37
22 3 0.05
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.38
Consensus pattern (20 bp):
AAAAATTGTAAAAAATTATT
Found at i:34197665 original size:51 final size:49
Alignment explanation
Indices: 34197536--34197673 Score: 134
Period size: 51 Copynumber: 2.7 Consensus size: 49
34197526 GACCACGTTG
** *
34197536 AAAATTTGTAAAAAGGTTATAAAAAATATTAAAAATTGTAAAAAAAATTT
1 AAAA-TTGTAAAAAATTTATAAAAATTATTAAAAATTGTAAAAAAAATTT
* * * * *
34197586 AAAAATGTATTAAAAATTGTA-AATAATTATTAAATATTGTCAAAAATATTTT
1 AAAATTGTA--AAAAATT-TATAAAAATTATTAAAAATTGT-AAAAAAAATTT
*
34197638 AAAATTGTAAAAAATTTATTAAAAATTATAAAAAAT
1 AAAATTGTAAAAAATTTA-TAAAAATTATTAAAAAT
34197674 CATTTANNNN
Statistics
Matches: 70, Mismatches: 12, Indels: 11
0.75 0.13 0.12
Matches are distributed among these distances:
49 6 0.09
50 11 0.16
51 34 0.49
52 19 0.27
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.36
Consensus pattern (49 bp):
AAAATTGTAAAAAATTTATAAAAATTATTAAAAATTGTAAAAAAAATTT
Found at i:34197672 original size:41 final size:41
Alignment explanation
Indices: 34197598--34197678 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
34197588 AAATGTATTA
* * * *
34197598 AAAATTGTAAATAATTATTAAATATTGTCAAAAAT-ATTTT
1 AAAATTGTAAAAAATTATTAAAAATTATAAAAAATCATTTT
34197638 AAAATTGTAAAAAATTTATTAAAAATTATAAAAAATCATTT
1 AAAATTGTAAAAAA-TTATTAAAAATTATAAAAAATCATTT
34197679 ANNNNNNNNN
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 13 0.37
41 18 0.51
42 4 0.11
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (41 bp):
AAAATTGTAAAAAATTATTAAAAATTATAAAAAATCATTTT
Found at i:34198004 original size:21 final size:21
Alignment explanation
Indices: 34197978--34198020 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
34197968 GGTCTAGTCA
34197978 ACTGCCACATCAACAGTCAAT
1 ACTGCCACATCAACAGTCAAT
34197999 ACTGCCACATCAACAGTCAAT
1 ACTGCCACATCAACAGTCAAT
34198020 A
1 A
34198021 AGGACGCGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.33, G:0.09, T:0.19
Consensus pattern (21 bp):
ACTGCCACATCAACAGTCAAT
Found at i:34209408 original size:22 final size:22
Alignment explanation
Indices: 34209366--34209444 Score: 68
Period size: 22 Copynumber: 3.5 Consensus size: 22
34209356 ATTCAAAGCA
* *
34209366 AAAAAAAAAAACAAAACAAAAAC
1 AAAAACAAAAATAAAA-AAAAAC
* *
34209389 AAAAACAAGAATAAAAAAAATC
1 AAAAACAAAAATAAAAAAAAAC
** *
34209411 AAAGTCAAAAATAAAAAAAAGAG
1 AAAAACAAAAATAAAAAAAA-AC
*
34209434 AAAAAGAAAAA
1 AAAAACAAAAA
34209445 GGAGAGGTCA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
22 22 0.51
23 21 0.49
ACGTcount: A:0.81, C:0.08, G:0.06, T:0.05
Consensus pattern (22 bp):
AAAAACAAAAATAAAAAAAAAC
Found at i:34209420 original size:34 final size:33
Alignment explanation
Indices: 34209368--34209432 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
34209358 TCAAAGCAAA
*
34209368 AAAAAAAAACAAAACAAAAACAAAAACAAGAAT
1 AAAAAAAAACAAAACAAAAACAAAAAAAAGAAT
* * *
34209401 AAAAAAAATCAAAGTCAAAAATAAAAAAAAGA
1 AAAAAAAAACAAA-ACAAAAACAAAAAAAAGA
34209433 GAAAAAGAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 12 0.44
34 15 0.56
ACGTcount: A:0.80, C:0.09, G:0.05, T:0.06
Consensus pattern (33 bp):
AAAAAAAAACAAAACAAAAACAAAAAAAAGAAT
Found at i:34212699 original size:46 final size:44
Alignment explanation
Indices: 34212642--34212750 Score: 121
Period size: 46 Copynumber: 2.4 Consensus size: 44
34212632 AGGTCTTATT
34212642 TCCCTGAGATTACAGTGGAACAGACCGAAGA-ATGTCAGATCCTATC
1 TCCCTGAGATTACAGTGGAACAGACCGAAGATA-GT-A-ATCCTATC
* ** * ** *
34212688 TCCTTGAGATTACAGCAGAGCAGATTGAAGTTAGTAATCCTATC
1 TCCCTGAGATTACAGTGGAACAGACCGAAGATAGTAATCCTATC
34212732 TCCCTGAGATTACAGTGGA
1 TCCCTGAGATTACAGTGGA
34212751 GCGGATTAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
44 24 0.46
45 1 0.02
46 26 0.50
47 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (44 bp):
TCCCTGAGATTACAGTGGAACAGACCGAAGATAGTAATCCTATC
Found at i:34212776 original size:44 final size:43
Alignment explanation
Indices: 34212631--34213145 Score: 205
Period size: 44 Copynumber: 11.9 Consensus size: 43
34212621 TAGATCGCGT
* * ** *
34212631 CAGG-TCTTATTTCCCTGAGATTACAGTGGAACAGACCGAAGAATGT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--C
* * ** * **
34212677 CA-GATCCTATCTCCTTGAGATTACAGCAGAGCAGATTGAAGT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAC
* * * *
34212719 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAAC
1 CAG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAC
* * ***
34212763 CAAGGATCTTATCTCTCTGA-AGTTACAGTAGAGCAGA-TCGCAC
1 C-AGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAC
* * * * *
34212806 CAGG-TCTTATTTCCCTGAGGTTACAGTGGAACAGATCGAAGAATTT
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGAT-TAA-AA--C
* * * *
34212852 CA-GAACTTATCTCCCTGAAATTACAGCGGAGCAGATTAAAGC
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAC
* * * * *
34212894 TAGTAATCTTATCTCCTTGAGATTACAATGGAGCAGATTAAAATA
1 CAG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAA-C
* * * * *** *
34212939 AAGGATCTTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCGTAT
1 CAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAAC
* * * * ** *
34212981 CAGG-TTTTATCTCCCTAAGATTGCAGTGGAGTAGACCGAAGAATTG
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--C
* * * *
34213027 CA-GATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAAGC
1 CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAC
* * * *
34213069 TAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT--AA-
1 CAG-GATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAC
* *
34213110 -AGGATCTTATCTCTCTGA-AGTTACAGTAGAGCAGAT
1 CAGGATCTTATCTCCCTGAGA-TTACAGTGGAGCAGAT
34213146 CGCACCAGGT
Statistics
Matches: 342, Mismatches: 101, Indels: 59
0.68 0.20 0.12
Matches are distributed among these distances:
38 1 0.00
39 27 0.08
40 2 0.01
41 49 0.14
42 12 0.04
43 8 0.02
44 150 0.44
45 11 0.03
46 82 0.24
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (43 bp):
CAGGATCTTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAC
Found at i:34212886 original size:175 final size:174
Alignment explanation
Indices: 34212588--34213168 Score: 855
Period size: 175 Copynumber: 3.4 Consensus size: 174
34212578 NNNNNNNNNN
* **
34212588 CAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGCGTCAGGTCTTATTTCCCTGAGATT
1 CAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGATT
* * * *
34212653 ACAGTGGAACAGACCGAAGAATGTCAGATCCTATCTCCTTGAGATTACAGCAGAGCAGATTGAAG
66 ACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
*
34212718 TTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
131 CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
*
34212762 CCAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGGT
1 -CAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGAT
* * * *
34212827 TACAGTGGAACAGATCGAAGAATTTCAGAACTTATCTCCCTGAAATTACAGCGGAGCAGATTAAA
65 TACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAA
* * * *
34212892 GCTAGTAATCTTATCTCCTTGAGATTACAATGGAGCAGATTAAAA
130 GCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
* * * * * * *
34212937 TAAAGGATCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGGTTTTATCTCCCTAAGAT
1 -CAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGAT
* ** * *
34213002 TGCAGTGGAGTAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATTACAGCGGAGCAAATTGAA
65 TACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAA
34213067 GCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATT---A
130 GCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
34213109 -AAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGA
1 CAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGA
34213169 NNNNNNNNNN
Statistics
Matches: 361, Mismatches: 45, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
170 54 0.15
172 1 0.00
175 306 0.85
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (174 bp):
CAAGGATCTTATCTCTCTGAAGTTACAGTAGAGCAGATCGCACCAGGTCTTATTTCCCTGAGATT
ACAGTGGAACAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCGGAGCAGATTGAAG
CTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAA
Found at i:34215445 original size:14 final size:16
Alignment explanation
Indices: 34215413--34215448 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
34215403 ATACACATAC
34215413 ATATACATACTTTTAT
1 ATATACATACTTTTAT
**
34215429 ATATACATGTTTTTAT
1 ATATACATACTTTTAT
34215445 ATAT
1 ATAT
34215449 TTCTATAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.53
Consensus pattern (16 bp):
ATATACATACTTTTAT
Found at i:34216149 original size:109 final size:109
Alignment explanation
Indices: 34215953--34216273 Score: 470
Period size: 109 Copynumber: 3.0 Consensus size: 109
34215943 ATTTTTTCTA
* *
34215953 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGTTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
*
34216018 GGTGTCGATTTTTCTTGTTCAACCAAATAGCTAAATATCCTTTC
66 GGTGTTGATTTTTCTTGTTCAACCAAATAGCTAAATATCCTTTC
* * *
34216062 AAAAGTTTCAAAATAAGGCAATGTTTTGCGTTTAGAAATTCGAGAAAACATGCCCTAAGGTACTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * *
34216127 AGTGTTGATTTTTCTCGTTCAACCAAATAGCTAAATATCTTTTC
66 GGTGTTGATTTTTCTTGTTCAACCAAATAGCTAAATATCCTTTC
* * *
34216171 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCAAG-GAACGTGCCCTAAGGTGCTG
1 AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
* * *
34216235 GGT-TTCGA--TTTCTTGTTTAACCAAATTGCCAAATATCCT
66 GGTGTT-GATTTTTCTTGTTCAACCAAATAGCTAAATATCCT
34216274 CTTGAATTTT
Statistics
Matches: 190, Mismatches: 21, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
106 26 0.14
107 2 0.01
108 21 0.11
109 141 0.74
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.34
Consensus pattern (109 bp):
AAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTG
GGTGTTGATTTTTCTTGTTCAACCAAATAGCTAAATATCCTTTC
Found at i:34217273 original size:21 final size:20
Alignment explanation
Indices: 34217247--34217286 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
34217237 GGTTCAAGTT
*
34217247 TAGGTTCAGGGTTCGAGGGTA
1 TAGGTT-AGGGTTCAAGGGTA
*
34217268 TAGGTTTGGGTTCAAGGGT
1 TAGGTTAGGGTTCAAGGGT
34217287 TTAGTGTTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.17, C:0.07, G:0.42, T:0.33
Consensus pattern (20 bp):
TAGGTTAGGGTTCAAGGGTA
Found at i:34224538 original size:21 final size:22
Alignment explanation
Indices: 34224492--34224538 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
34224482 ACGTTAGGAG
*
34224492 TAAATTAGAGTCATTACAACAT
1 TAAATTAGAGTCATTACAACAA
*
34224514 TAAATTTGAG-CATTA-AGACAA
1 TAAATTAGAGTCATTACA-ACAA
34224535 TAAA
1 TAAA
34224539 CCACTTGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 1 0.05
21 12 0.55
22 9 0.41
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.30
Consensus pattern (22 bp):
TAAATTAGAGTCATTACAACAA
Found at i:34225869 original size:29 final size:30
Alignment explanation
Indices: 34225827--34225883 Score: 98
Period size: 29 Copynumber: 1.9 Consensus size: 30
34225817 CACAGTCTAG
*
34225827 CACATGGCCATGTG-GCAGCCCGTGTGGCT
1 CACATGGCCATGTGTCCAGCCCGTGTGGCT
34225856 CACATGGCCATGTGTCCAGCCCGTGTGG
1 CACATGGCCATGTGTCCAGCCCGTGTGG
34225884 GAAGGCCCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.14, C:0.32, G:0.33, T:0.21
Consensus pattern (30 bp):
CACATGGCCATGTGTCCAGCCCGTGTGGCT
Found at i:34229671 original size:21 final size:22
Alignment explanation
Indices: 34229614--34229690 Score: 72
Period size: 21 Copynumber: 3.5 Consensus size: 22
34229604 ATTAATAGTT
* *
34229614 AAGAAGAGAAGGACAAGAAGGA-
1 AAGAA-AGAAAGAAAAGAAGGAG
*
34229636 AAGGAAGAAAGAAAAGAAGGAG
1 AAGAAAGAAAGAAAAGAAGGAG
34229658 AAGAAAG--AGAAAA-AACGGGAG
1 AAGAAAGAAAGAAAAGAA--GGAG
34229679 AAGAAAGAAAGA
1 AAGAAAGAAAGA
34229691 GATAAGTCTC
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
19 2 0.04
20 6 0.13
21 25 0.54
22 10 0.22
23 3 0.07
ACGTcount: A:0.64, C:0.03, G:0.34, T:0.00
Consensus pattern (22 bp):
AAGAAAGAAAGAAAAGAAGGAG
Found at i:34233297 original size:346 final size:346
Alignment explanation
Indices: 34232664--34233356 Score: 1386
Period size: 346 Copynumber: 2.0 Consensus size: 346
34232654 GACGTCGTTT
34232664 TGAGACTGGCCTCAAACGCCCAAAACGACGTCGTTTTGGGGCGACCCGATTACCCAACCCATTAA
1 TGAGACTGGCCTCAAACGCCCAAAACGACGTCGTTTTGGGGCGACCCGATTACCCAACCCATTAA
34232729 CCCCTAGGATCCGTGTGTTTTTTAACGGAAGGGCTAATTGCGCCTTTAGCCCTTACACTTTTTTA
66 CCCCTAGGATCCGTGTGTTTTTTAACGGAAGGGCTAATTGCGCCTTTAGCCCTTACACTTTTTTA
34232794 TTATTTACAATTAAGTTTCTTTCATTTTTAATTTTTACCCTATAATTTATTTCGGCTTTCAATTT
131 TTATTTACAATTAAGTTTCTTTCATTTTTAATTTTTACCCTATAATTTATTTCGGCTTTCAATTT
34232859 GGTCCACCTTGAAGTTGTGCGTTTTGGAGGGTGGGGATTATTGCCCATTTTGGTCCCTCCTTGTT
196 GGTCCACCTTGAAGTTGTGCGTTTTGGAGGGTGGGGATTATTGCCCATTTTGGTCCCTCCTTGTT
34232924 ATTCACGCGTTCTACTTGGTCCTTTTCCTTTTATTTATTTCTGATTTGCCCCAAACTTCTGCTTT
261 ATTCACGCGTTCTACTTGGTCCTTTTCCTTTTATTTATTTCTGATTTGCCCCAAACTTCTGCTTT
34232989 AAAACTCAATTTAGCCCTTTA
326 AAAACTCAATTTAGCCCTTTA
34233010 TGAGACTGGCCTCAAACGCCCAAAACGACGTCGTTTTGGGGCGACCCGATTACCCAACCCATTAA
1 TGAGACTGGCCTCAAACGCCCAAAACGACGTCGTTTTGGGGCGACCCGATTACCCAACCCATTAA
34233075 CCCCTAGGATCCGTGTGTTTTTTAACGGAAGGGCTAATTGCGCCTTTAGCCCTTACACTTTTTTA
66 CCCCTAGGATCCGTGTGTTTTTTAACGGAAGGGCTAATTGCGCCTTTAGCCCTTACACTTTTTTA
34233140 TTATTTACAATTAAGTTTCTTTCATTTTTAATTTTTACCCTATAATTTATTTCGGCTTTCAATTT
131 TTATTTACAATTAAGTTTCTTTCATTTTTAATTTTTACCCTATAATTTATTTCGGCTTTCAATTT
34233205 GGTCCACCTTGAAGTTGTGCGTTTTGGAGGGTGGGGATTATTGCCCATTTTGGTCCCTCCTTGTT
196 GGTCCACCTTGAAGTTGTGCGTTTTGGAGGGTGGGGATTATTGCCCATTTTGGTCCCTCCTTGTT
34233270 ATTCACGCGTTCTACTTGGTCCTTTTCCTTTTATTTATTTCTGATTTGCCCCAAACTTCTGCTTT
261 ATTCACGCGTTCTACTTGGTCCTTTTCCTTTTATTTATTTCTGATTTGCCCCAAACTTCTGCTTT
34233335 AAAACTCAATTTAGCCCTTTA
326 AAAACTCAATTTAGCCCTTTA
34233356 T
1 T
34233357 TTGTTATTTT
Statistics
Matches: 347, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
346 347 1.00
ACGTcount: A:0.20, C:0.23, G:0.17, T:0.40
Consensus pattern (346 bp):
TGAGACTGGCCTCAAACGCCCAAAACGACGTCGTTTTGGGGCGACCCGATTACCCAACCCATTAA
CCCCTAGGATCCGTGTGTTTTTTAACGGAAGGGCTAATTGCGCCTTTAGCCCTTACACTTTTTTA
TTATTTACAATTAAGTTTCTTTCATTTTTAATTTTTACCCTATAATTTATTTCGGCTTTCAATTT
GGTCCACCTTGAAGTTGTGCGTTTTGGAGGGTGGGGATTATTGCCCATTTTGGTCCCTCCTTGTT
ATTCACGCGTTCTACTTGGTCCTTTTCCTTTTATTTATTTCTGATTTGCCCCAAACTTCTGCTTT
AAAACTCAATTTAGCCCTTTA
Found at i:34236831 original size:81 final size:81
Alignment explanation
Indices: 34236732--34236901 Score: 277
Period size: 81 Copynumber: 2.1 Consensus size: 81
34236722 AGAACAATGG
* ** *
34236732 CTGCAAGAAATTAAAGAGGAAAAGAGTAGAGCCAATCAATGAGAAAGGAAATTCTGAGATGTTTA
1 CTGCAAGAAATTAAAGAGGAAAAGAGTAGAGCCAATCAATGAAAAAGGAAATTCCAAGATGCTTA
34236797 AGCACGAGAAGACATT
66 AGCACGAGAAGACATT
*
34236813 CTGCAAGAAATTAAAGAGGAAAAGAGTAGAGCCAGTCAATGAAAAAGGAAATTCCAAGATGCTTA
1 CTGCAAGAAATTAAAGAGGAAAAGAGTAGAGCCAATCAATGAAAAAGGAAATTCCAAGATGCTTA
* *
34236878 AGCATGAGAAGACGTT
66 AGCACGAGAAGACATT
34236894 CTGCAAGA
1 CTGCAAGA
34236902 GAGTTTGGTA
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
81 82 1.00
ACGTcount: A:0.45, C:0.12, G:0.25, T:0.18
Consensus pattern (81 bp):
CTGCAAGAAATTAAAGAGGAAAAGAGTAGAGCCAATCAATGAAAAAGGAAATTCCAAGATGCTTA
AGCACGAGAAGACATT
Found at i:34239031 original size:15 final size:14
Alignment explanation
Indices: 34239010--34239045 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
34239000 ATAATCATTA
*
34239010 ATAATTATCTTAAT
1 ATAATTATCCTAAT
34239024 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
34239039 ATAATTA
1 ATAATTA
34239046 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:34239286 original size:98 final size:98
Alignment explanation
Indices: 34239117--34239308 Score: 339
Period size: 98 Copynumber: 2.0 Consensus size: 98
34239107 CTTGCACTTT
*
34239117 TGGCACCAACTTTTCCTTGTGTCGCACATTAGCCCATTTTATCTCTAAATTCACGCTTTTGGCCC
1 TGGCACCAACTTTTCCTTGTGTCACACATTAGCCCATTTTATCTCTAAATTCACGCTTTTGGCCC
*
34239182 TTAATTTTGCTTTTGCTTCAAATTTAGTCCCTA
66 TTAATTTTGCTTTTGCCTCAAATTTAGTCCCTA
* * *
34239215 TGGCACCAACTTTTCCTTGTGTCACAGATTGGCCCATTTTATCTCTAAATTCATGCTTTTGGCCC
1 TGGCACCAACTTTTCCTTGTGTCACACATTAGCCCATTTTATCTCTAAATTCACGCTTTTGGCCC
34239280 TTAATTTTGCTTTTGCCTCAAATTTAGTC
66 TTAATTTTGCTTTTGCCTCAAATTTAGTC
34239309 TTTATGAGAT
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
98 89 1.00
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (98 bp):
TGGCACCAACTTTTCCTTGTGTCACACATTAGCCCATTTTATCTCTAAATTCACGCTTTTGGCCC
TTAATTTTGCTTTTGCCTCAAATTTAGTCCCTA
Found at i:34248108 original size:44 final size:44
Alignment explanation
Indices: 34248036--34249043 Score: 351
Period size: 44 Copynumber: 22.4 Consensus size: 44
34248026 TTACCCATAC
* * *
34248036 CCCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCT
1 CCCTGAAGTTGCAGTGGAACAGATTGAAGTTACAAATCTTATCT
* * * * *
34248080 CCCTGAAGTTACAGTGGAACAGACTGAAGATAGCGAATCTTATTT
1 CCCTGAAGTTGCAGTGGAACAGATTGAAGTTA-CAAATCTTATCT
* * *
34248125 CCCTAAAGTTGCAGTGGAATAGATTAAAGCTACAAATTACAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAACAGATT---G----AAGTTACAAATCTTATCT
* * * * *
34248176 ACCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAGATCTTATCT
1 CCCTGAAGTTGCAGTGGAACAGATTGAAGTTACAAATCTTATCT
** * * *
34248220 TTCTGAAGTTGCAGT-AAAGTAGATTGAAGATAGCAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAA-CAGATTGAAGTTA-CAAATCTTATCT
* * * * * * * *
34248265 CTCTGAAGTTGCAGT-AAAGCATATTAAAGCTATAAACCGTATCT
1 CCCTGAAGTTGCAGTGGAA-CAGATTGAAGTTACAAATCTTATCT
* * * * *
34248309 TCCTAAAGTTACAGTGGAACAGGTTGAAGTTACAAGTCTTATCT
1 CCCTGAAGTTGCAGTGGAACAGATTGAAGTTACAAATCTTATCT
* * * * *
34248353 CCCTAAAGTTGCAGTAGAACAGACTGAAGGTTACAAATATTGTCT
1 CCCTGAAGTTGCAGTGGAACAGATTGAA-GTTACAAATCTTATCT
** ** * * *
34248398 CCCTGAAGTTATAGTGGGGCAGGTTGAAGTTATAGATCTTATCT
1 CCCTGAAGTTGCAGTGGAACAGATTGAAGTTACAAATCTTATCT
* * * ** * *
34248442 CCCTAAAGCTGTAGTGGAGTAGA-TCAGAGATAGCAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAACAGATTGA-AGTTA-CAAATCTTATCT
* * * * * * * * *
34248487 CTCTGAAGTTGTAGTAGAGCAGATTAAAGCTATAAACCTTATAT
1 CCCTGAAGTTGCAGTGGAACAGATTGAAGTTACAAATCTTATCT
* * * * * * * *
34248531 TCTTGAAGTTGCAGTGGAGCTGGTTAAAAATAAACAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAACAGATT-GAAGT-TACAAATCTTATCT
* * ** * * * *
34248577 CCCTGAAGTTGCAATAGAGTAAATAGGAGATAGCAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAACAGATTGAAGTTA-CAAATCTTATCT
* * * * * * * *
34248622 CTCTGAAATTGCAAT-AAAGCAGATTAAAGCTATAAACCTTATCT
1 CCCTGAAGTTGCAGTGGAA-CAGATTGAAGTTACAAATCTTATCT
** * * * * *
34248666 CTTTGAAGTTGTAGTGGAGA-AAATTAAAAATAAACAAATCTTATCT
1 CCCTGAAGTTGCAGTGGA-ACAGATT-GAAGT-TACAAATCTTATCT
* *
34248712 CCTTGAAATTGCAGT-GAAGCAGATTGAAGATAAGCTACAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAA-CAGATTGAAG-T----TACAAATCTTATCT
* * * * *** * *
34248761 CCTTGAAGTTGCAGTGGAGCAAATTAAAGCCGCAAACCTTTTCT
1 CCCTGAAGTTGCAGTGGAACAGATTGAAGTTACAAATCTTATCT
* * * * * * *
34248805 CCCTAAAATTGCAGTGGAGCAGGTTACAAATAACAAATCTTATCT
1 CCCTGAAGTTGCAGTGGAACAGATT-GAAGTTACAAATCTTATCT
*** * ** * * * *
34248850 TTTTCAAGTTGCAGCAGAGCAGATTAAAGCTACACA-CTTTATCT
1 CCCTGAAGTTGCAGTGGAACAGATTGAAGTTACAAATC-TTATCT
* * * ** * ** * **
34248894 CTCT-TAGTTTGTAGTAAAACAGATAGAAGACACAAACCTCCTCT
1 CCCTGAAG-TTGCAGTGGAACAGATTGAAGTTACAAATCTTATCT
* * * * * *
34248938 CCTTGAAGTTGCAGCT-GAGCAAATTGAAGCTATAAGTCTTATCT
1 CCCTGAAGTTGCAG-TGGAACAGATTGAAGTTACAAATCTTATCT
* * ** * * *
34248982 CTCTGAAGTTACAGTGGAATGGATCGAAGCTACAAGTCTTATCT
1 CCCTGAAGTTGCAGTGGAACAGATTGAAGTTACAAATCTTATCT
* *
34249026 CCCTAAAGTTGTAGTGGA
1 CCCTGAAGTTGCAGTGGA
34249044 GTGGTCGAAG
Statistics
Matches: 700, Mismatches: 227, Indels: 74
0.70 0.23 0.07
Matches are distributed among these distances:
43 7 0.01
44 351 0.50
45 211 0.30
46 57 0.08
48 2 0.00
49 35 0.05
50 2 0.00
51 31 0.04
52 4 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (44 bp):
CCCTGAAGTTGCAGTGGAACAGATTGAAGTTACAAATCTTATCT
Found at i:34248257 original size:96 final size:96
Alignment explanation
Indices: 34248065--34248257 Score: 221
Period size: 96 Copynumber: 2.0 Consensus size: 96
34248055 CAGGTTGAAG
* * *
34248065 TTACAAGTCTTATCTCCCTGAAGTTACAGTGGAACAGACTGAAGATAGCGAATCTTATTTCCCTA
1 TTACAAATCTTATCTACCTGAAGTTACAGTGGAACAGACTGAAGATAGAGAATCTTATTTCCCTA
* *
34248130 AAGTTGCAGTGGAATAGATTAAAGCTACAAA
66 AAGTTGCAGTGAAATAGATTAAAGATACAAA
* * * * * *
34248161 TTACAAATCTTATCTACCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAG-ATCTTATCTT-TCT
1 TTACAAATCTTATCTACCTGAAGTTACAGTGGAACAGACTGAAGATAGAGAATCTTAT-TTCCCT
* *
34248224 GAAGTTGCAGT-AAAGTAGATTGAAGATAGCAAA
65 AAAGTTGCAGTGAAA-TAGATTAAAGATA-CAAA
34248257 T
1 T
34248258 CTTATCTCTC
Statistics
Matches: 81, Mismatches: 13, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
94 2 0.02
95 30 0.37
96 49 0.60
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.30
Consensus pattern (96 bp):
TTACAAATCTTATCTACCTGAAGTTACAGTGGAACAGACTGAAGATAGAGAATCTTATTTCCCTA
AAGTTGCAGTGAAATAGATTAAAGATACAAA
Found at i:34248277 original size:89 final size:88
Alignment explanation
Indices: 34248162--34249036 Score: 391
Period size: 89 Copynumber: 9.8 Consensus size: 88
34248152 AGCTACAAAT
* * * **
34248162 TACAAATCTTATCTAC-CTGAAGTTGCAGTGGAGCAGATTGAAGCTATAGATCTTATCTTTCTGA
1 TACAAATCTTATCT-CTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGA
* *
34248226 AGTTGCAGTAAAGTAGATTGAAGA
65 AGTTGCAGTAGAGCAGATTGAAGA
** * * * * * *
34248250 TAGCAAATCTTATCTCTCTGAAGTTGCAGTAAAGCATATTAAAGCTATAAACCGTATCTTCCTAA
1 TA-CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGA
* * * * *
34248315 AGTTACAGTGGAACAGGTTGAAGT
65 AGTTGCAGTAGAGCAGATTGAAGA
* * * * * * * * * *
34248339 TACAAGTCTTATCTCCCTAAAGTTGCAGTAGAACAGACTGAAGGTTACAAATATTGTCTCCCTGA
1 TACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGA-TTAAAGCTACAAATCTTATCTCCCTGA
** * * * *
34248404 AGTTATAGTGGGGCAGGTTGAAGT
65 AGTTGCAGTAGAGCAGATTGAAGA
* * * * * * * * * * *
34248428 TATAGATCTTATCTCCCTAAAGCTGTAGTGGAGTAGATCAGAGATAGCAAATCTTATCTCTCTGA
1 TACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTA-CAAATCTTATCTCCCTGA
* * *
34248493 AGTTGTAGTAGAGCAGATTAAAGC
65 AGTTGCAGTAGAGCAGATTGAAGA
* * * * * **
34248517 TATAAACCTTATAT-TCTTGAAGTTGCAGTGGAGCTGGTTAAAAATAAACAAATCTTATCTCCCT
1 TACAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATTAAAGCT--ACAAATCTTATCTCCCT
* * * * *
34248581 GAAGTTGCAATAGAGTAAATAGGAGA
63 GAAGTTGCAGTAGAGCAGATTGAAGA
* * ** * * **
34248607 TAGCAAATCTTATCTCTCTGAAATTGCAATAAAGCAGATTAAAGCTATAAACCTTATCTCTTTGA
1 TA-CAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGA
* * * * * *
34248672 AGTTGTAGTGGAGAAAATTAAAAA
65 AGTTGCAGTAGAGCAGATTGAAGA
* *
34248696 TAAACAAATCTTATCTC-CTTGAAATTGCAGTGAAGCAGATTGAAGATAAGCTACAAATCTTATC
1 T--ACAAATCTTATCTCTC-TGAAGTTGCAGTGGAGCAGATT----A-AAGCTACAAATCTTATC
* * * * *
34248760 TCCTTGAAGTTGCAGTGGAGCAAATTAAAGC
58 TCCCTGAAGTTGCAGTAGAGCAGATTGAAGA
** * * * * * * * *** *
34248791 CGCAAACCTTTTCTCCCTAAAATTGCAGTGGAGCAGGTTACAA-ATAACAAATCTTATCTTTTTC
1 TACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTA-AAGCT-ACAAATCTTATCTCCCTG
* * *
34248855 AAGTTGCAGCAGAGCAGATTAAAGC
64 AAGTTGCAGTAGAGCAGATTGAAGA
* * * ** * * ** *
34248880 TACACA-CTTTATCTCTCT-TAGTTTGTAGTAAAACAGA-TAGAAGAC-ACAAACCTCCTCTCCT
1 TACAAATC-TTATCTCTCTGAAG-TTGCAGTGGAGCAGATTA-AAG-CTACAAATCTTATCTCCC
* *
34248941 TGAAGTTGCAGCT-GAGCAAATTGAAGC
62 TGAAGTTGCAG-TAGAGCAGATTGAAGA
* * * *** ** * *
34248968 TATAAGTCTTATCTCTCTGAAGTTACAGTGGAATGGATCGAAGCTACAAGTCTTATCTCCCTAAA
1 TACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAA
34249033 GTTG
66 GTTG
34249037 TAGTGGAGTG
Statistics
Matches: 593, Mismatches: 166, Indels: 56
0.73 0.20 0.07
Matches are distributed among these distances:
87 1 0.00
88 121 0.20
89 297 0.50
90 68 0.11
91 31 0.05
92 2 0.00
93 30 0.05
94 2 0.00
95 41 0.07
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (88 bp):
TACAAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAATCTTATCTCCCTGAA
GTTGCAGTAGAGCAGATTGAAGA
Found at i:34248291 original size:140 final size:140
Alignment explanation
Indices: 34248037--34248407 Score: 343
Period size: 140 Copynumber: 2.7 Consensus size: 140
34248027 TACCCATACC
* * *
34248037 CCTGAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTACAGTGGAACAG
1 CCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTTATCTCCCTGAAGTTACAGTGAAACAG
* * * *
34248102 ACTGAAGATAGCGAATCTTATTTCCCTAAAGTTGCAGTGGAATAGATTAAAGCTACAAATTACAA
66 ACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGAAACAGATTAAAGCTACAAATTACAA
34248167 ATCTTATCTA
131 ATCTTATCTA
* ** * *
34248177 CCTGAAGTTGCAGTGGAGCAGATTGAAGCTA-TAGATCTTATCTTTCTGAAGTTGCAGT-AAAGT
1 CCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAG-TCTTATCTCCCTGAAGTTACAGTGAAA-C
* * * *
34248240 AGATTGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGT-AAAGCATATTAAAGCT----A-T-
64 AGACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGAAA-CAGATTAAAGCTACAAATTA
* * *
34248298 -AAACCGTATCTT
128 CAAATCTTATCTA
* * * * * * *
34248310 CCTAAAGTTACAGTGGAACAGGTTGAAGTTACAAGTCTTATCTCCCTAAAGTTGCAGT-AGAACA
1 CCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTTATCTCCCTGAAGTTACAGTGA-AACA
* * * *
34248374 GACTGAAGGTTA-CAAATATTGTCTCCCTGAAGTT
65 GACTGAA-GATAGCAAATCTTATCTCCCTAAAGTT
34248408 ATAGTGGGGC
Statistics
Matches: 191, Mismatches: 34, Indels: 19
0.78 0.14 0.08
Matches are distributed among these distances:
133 82 0.43
134 7 0.04
135 1 0.01
136 1 0.01
139 6 0.03
140 94 0.49
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (140 bp):
CCTGAAGTTGCAGTGGAGCAGATTGAAGCTACAAGTCTTATCTCCCTGAAGTTACAGTGAAACAG
ACTGAAGATAGCAAATCTTATCTCCCTAAAGTTGCAGTGAAACAGATTAAAGCTACAAATTACAA
ATCTTATCTA
Found at i:34248465 original size:222 final size:224
Alignment explanation
Indices: 34248161--34248594 Score: 550
Period size: 222 Copynumber: 1.9 Consensus size: 224
34248151 AAGCTACAAA
* * ** *
34248161 TTACAAATCTTATCTACCTGAAGTTGCAGTGGAGCAGATTGAAGCTATAGATCTTATCTTTCTGA
1 TTACAAATATTATCTACCTGAAGTTACAGTGGAGCAGATTGAAGCTATAGATCTTATCTCCCTAA
* * *
34248226 AGTTGCAGTAAAGTAGAT-TGAAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAAAGCATATT
66 AGCTGCAGTAAAGTAGATCAG-AGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATT
* * * * *
34248290 AAAGCTATAAACCGTATCTTCCTAAAGTTACAGTGGAACAGGTT-GAAGT-TACAAGTCTTATCT
130 AAAGCTATAAACCGTATATTCCTAAAGTTACAGTGGAACAGGTTAAAAATAAACAAATCTTATCT
*
34248353 CCCTAAAGTTGCAGTAGAACAGACTGAAGG
195 CCCTAAAGTTGCAATAGAACAGACTGAAGG
* * * * * *
34248383 TTACAAATATTGTCTCCCTGAAGTTATAGTGGGGCAGGTTGAAGTTATAGATCTTATCTCCCTAA
1 TTACAAATATTATCTACCTGAAGTTACAGTGGAGCAGATTGAAGCTATAGATCTTATCTCCCTAA
* ** * *
34248448 AGCTGTAGTGGAGTAGATCAGAGATAGCAAATCTTATCTCTCTGAAGTTGTAGTAGAGCAGATTA
66 AGCTGCAGTAAAGTAGATCAGAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATTA
* * * * * *
34248513 AAGCTATAAACCTTATATTCTTGAAGTTGCAGTGGAGCTGGTTAAAAATAAACAAATCTTATCTC
131 AAGCTATAAACCGTATATTCCTAAAGTTACAGTGGAACAGGTTAAAAATAAACAAATCTTATCTC
*
34248578 CCTGAAGTTGCAATAGA
196 CCTAAAGTTGCAATAGA
34248595 GTAAATAGGA
Statistics
Matches: 177, Mismatches: 32, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
222 145 0.82
223 4 0.02
224 28 0.16
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (224 bp):
TTACAAATATTATCTACCTGAAGTTACAGTGGAGCAGATTGAAGCTATAGATCTTATCTCCCTAA
AGCTGCAGTAAAGTAGATCAGAGATAGCAAATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATTA
AAGCTATAAACCGTATATTCCTAAAGTTACAGTGGAACAGGTTAAAAATAAACAAATCTTATCTC
CCTAAAGTTGCAATAGAACAGACTGAAGG
Found at i:34248607 original size:135 final size:133
Alignment explanation
Indices: 34248433--34248849 Score: 428
Period size: 135 Copynumber: 3.1 Consensus size: 133
34248423 GAAGTTATAG
* * *
34248433 ATCTTATCTCCCTAAAGCTGTAGTGGAGTAGATCA-GAGATAGCAAATCTTATCTCTCTGAAGTT
1 ATCTTATCTCCCTGAAGTTGCAGT-GAGTAGAT-AGGAGATAGCAAATCTTATCTCTCTGAAGTT
* *
34248497 GTAGTAGAGCAGATTAAAGCTATAAACCTTATATTCTTGAAGTTGCAGTGGAGCTGGTTAAAAAT
64 GCAGTAGAGCAGATTAAAGCTATAAACCTTAT-TTCTTGAAGTTGCAGTGGAGCAGGTTAAAAAT
34248562 AAACAA
128 AAACAA
* * *
34248568 ATCTTATCTCCCTGAAGTTGCAATAGAGTAAATAGGAGATAGCAAATCTTATCTCTCTGAAATTG
1 ATCTTATCTCCCTGAAGTTGCAGT-GAGTAGATAGGAGATAGCAAATCTTATCTCTCTGAAGTTG
* * * * * **
34248633 CAATAAAGCAGATTAAAGCTATAAACCTTATCTCTTTGAAGTTGTAGTGGAGAAAATTAAAAATA
65 CAGTAGAGCAGATTAAAGCTATAAACCTTATTTC-TTGAAGTTGCAGTGGAGCAGGTTAAAAATA
34248698 AACAA
129 AACAA
* * * * *
34248703 ATCTTATCTCCTTGAAATTGCAGTGAAGCAGATTGAAGATAAGCTACAAATCTTATCTC-CTTGA
1 ATCTTATCTCCCTGAAGTTGCAGTG-AGTAGATAGGAGAT-AG---CAAATCTTATCTCTC-TGA
* * *** * * *
34248767 AGTTGCAGTGGAGCAAATTAAAGCCGCAAACCTT-TTCTCCCTAAAATTGCAGTGGAGCAGGTTA
60 AGTTGCAGTAGAGCAGATTAAAGCTATAAACCTTATT-T-CTTGAAGTTGCAGTGGAGCAGGTTA
*
34248831 CAAAT-AACAA
123 AAAATAAACAA
34248841 ATCTTATCT
1 ATCTTATCT
34248850 TTTTCAAGTT
Statistics
Matches: 232, Mismatches: 40, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
134 4 0.02
135 145 0.62
136 2 0.01
138 16 0.07
139 64 0.28
140 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (133 bp):
ATCTTATCTCCCTGAAGTTGCAGTGAGTAGATAGGAGATAGCAAATCTTATCTCTCTGAAGTTGC
AGTAGAGCAGATTAAAGCTATAAACCTTATTTCTTGAAGTTGCAGTGGAGCAGGTTAAAAATAAA
CAA
Found at i:34248773 original size:49 final size:49
Alignment explanation
Indices: 34248648--34248788 Score: 171
Period size: 49 Copynumber: 2.9 Consensus size: 49
34248638 AAGCAGATTA
* * * * *
34248648 AAGCTATAAACCTTATCTCTTTGAAGTTGTAGTGGAGAAAATTAAAAAT
1 AAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAATTAAAAAT
* * * * *
34248697 AA---ACAAATCTTATCTCCTTGAAATTGCAGTGAAGCAGATTGAAGAT
1 AAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAATTAAAAAT
34248743 AAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAATTAAA
1 AAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAATTAAA
34248789 GCCGCAAACC
Statistics
Matches: 75, Mismatches: 14, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
46 36 0.48
49 39 0.52
ACGTcount: A:0.39, C:0.14, G:0.17, T:0.30
Consensus pattern (49 bp):
AAGCTACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAATTAAAAAT
Found at i:34248785 original size:95 final size:89
Alignment explanation
Indices: 34248564--34248788 Score: 238
Period size: 95 Copynumber: 2.5 Consensus size: 89
34248554 TTAAAAATAA
* * * * * * *
34248564 ACAAATCTTATCTCCCTGAAGTTGCAATAGAGTAAA-TAGGAGATAGCAAATCTTATCTCTCTGA
1 ACAAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAATTA-AAAATAACAAATCTTATCTCTCTGA
34248628 AATTGCAATAAAGCAGATTAAAGCT
65 AATTGCAATAAAGCAGATTAAAGCT
* * * *
34248653 ATAAACCTTATCTCTTTGAAGTTGTAGTGGAGAAAATTAAAAATAAACAAATCTTATCTC-CTTG
1 ACAAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAATTAAAAAT-AACAAATCTTATCTCTC-TG
* *
34248717 AAATTGCAGTGAAGCAGATTGAAGATAAGCT
64 AAATTGCAATAAAGCAGATT----A-AAGCT
*
34248748 ACAAATCTTATCTCCTTGAAGTTGCAGTGGAGCAAATTAAA
1 ACAAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAATTAAA
34248789 GCCGCAAACC
Statistics
Matches: 110, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
89 32 0.29
90 36 0.33
94 1 0.01
95 41 0.37
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.29
Consensus pattern (89 bp):
ACAAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAATTAAAAATAACAAATCTTATCTCTCTGAA
ATTGCAATAAAGCAGATTAAAGCT
Found at i:34249085 original size:43 final size:44
Alignment explanation
Indices: 34248971--34249085 Score: 117
Period size: 43 Copynumber: 2.6 Consensus size: 44
34248961 TTGAAGCTAT
* * *
34248971 AAGTCTTATCTCTCTGAAGTTACAGTGGAATGGATCGAAGCTAC
1 AAGTCCTATCTCCCTGAAGTTACAGTGGAATGGATCGAAGCGAC
* * ** *
34249015 AAGTCTTATCTCCCTAAAGTTGTAGTGGAGTGG-TCGAAGCGAC
1 AAGTCCTATCTCCCTGAAGTTACAGTGGAATGGATCGAAGCGAC
* *
34249058 AATTCCTATAC-CCCTGAAGATACAGTGG
1 AAGTCCTAT-CTCCCTGAAGTTACAGTGG
34249086 GTTCGAATGA
Statistics
Matches: 58, Mismatches: 12, Indels: 3
0.79 0.16 0.04
Matches are distributed among these distances:
43 29 0.50
44 29 0.50
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (44 bp):
AAGTCCTATCTCCCTGAAGTTACAGTGGAATGGATCGAAGCGAC
Found at i:34250613 original size:15 final size:15
Alignment explanation
Indices: 34250568--34250625 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
34250558 CAAACGTTAG
*
34250568 ATTATTCATTATTTTT
1 ATTA-TCATTATTATT
34250584 ATTATCATTCA-TATT
1 ATTATCATT-ATTATT
*
34250599 ATTCTCATTATTATT
1 ATTATCATTATTATT
* *
34250614 AGTATTATTATT
1 ATTATCATTATT
34250626 TTTAAAACCC
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
14 1 0.03
15 29 0.83
16 5 0.14
ACGTcount: A:0.29, C:0.09, G:0.02, T:0.60
Consensus pattern (15 bp):
ATTATCATTATTATT
Found at i:34253972 original size:26 final size:26
Alignment explanation
Indices: 34253922--34253974 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
34253912 ACAAATTTGC
**
34253922 TAACTCTATTAACAAATAGTTTTTTT
1 TAACTCTATTAACAAATAGACTTTTT
*
34253948 TAACTCTTTTAACAAATAGACTTTTT
1 TAACTCTATTAACAAATAGACTTTTT
34253974 T
1 T
34253975 CTTCTTTTAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.04, T:0.49
Consensus pattern (26 bp):
TAACTCTATTAACAAATAGACTTTTT
Found at i:34253980 original size:25 final size:25
Alignment explanation
Indices: 34253924--34253983 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
34253914 AAATTTGCTA
* **
34253924 ACTCTATTAACAAATAGTTTTTTTT
1 ACTCTTTTAACAAATAGACTTTTTT
34253949 AACTCTTTTAACAAATAGACTTTTTT
1 -ACTCTTTTAACAAATAGACTTTTTT
34253975 -CTTCTTTTA
1 AC-TCTTTTA
34253984 GCTATCAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 1 0.03
25 7 0.23
26 22 0.73
ACGTcount: A:0.30, C:0.15, G:0.03, T:0.52
Consensus pattern (25 bp):
ACTCTTTTAACAAATAGACTTTTTT
Found at i:34261859 original size:23 final size:22
Alignment explanation
Indices: 34261805--34261886 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 22
34261795 GAGCCATGAT
34261805 CGGTAAGCTCCTTCCGAGCTGATAAA
1 CGGTAAGCT-CTT-CGAGCTG--AAA
*
34261831 CAGTAAGCTCTATCGAGCTGAAA
1 CGGTAAGCTCT-TCGAGCTGAAA
* *
34261854 CGGTAAGCTCCGTAGAGCTGAAA
1 CGGTAAGCT-CTTCGAGCTGAAA
34261877 CGGTAAGCTC
1 CGGTAAGCTC
34261887 ATACAAGCTG
Statistics
Matches: 50, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
22 1 0.02
23 30 0.60
24 1 0.02
25 9 0.18
26 9 0.18
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.21
Consensus pattern (22 bp):
CGGTAAGCTCTTCGAGCTGAAA
Found at i:34261895 original size:23 final size:22
Alignment explanation
Indices: 34261805--34261896 Score: 78
Period size: 23 Copynumber: 3.9 Consensus size: 22
34261795 GAGCCATGAT
*
34261805 CGGTAAGCTCCTTCCGAGCTGATAAA
1 CGGTAAGCT-C-TACGAGCTG--AAA
*
34261831 CAGTAAGCTCTATCGAGCTGAAA
1 CGGTAAGCTCTA-CGAGCTGAAA
34261854 CGGTAAGCTCCGTA-GAGCTGAAA
1 CGGTAAGCT-C-TACGAGCTGAAA
*
34261877 CGGTAAGCTCATACAAGCTG
1 CGGTAAGCTC-TACGAGCTG
34261897 TGGTGAGTCC
Statistics
Matches: 57, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
22 3 0.05
23 34 0.60
24 2 0.04
25 10 0.18
26 8 0.14
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (22 bp):
CGGTAAGCTCTACGAGCTGAAA
Found at i:34261896 original size:46 final size:48
Alignment explanation
Indices: 34261805--34261896 Score: 109
Period size: 46 Copynumber: 1.9 Consensus size: 48
34261795 GAGCCATGAT
* * *
34261805 CGGTAAGCTCCTTCCGAGCTGATAAACAGTAAGCTCTATCGAGCTGAAA
1 CGGTAAGCTCCGTCAGAGCTGA-AAACAGTAAGCTCTATCAAGCTGAAA
*
34261854 CGGTAAGCTCCGT-AGAGCTG-AAACGGTAAGCTC-ATACAAGCTG
1 CGGTAAGCTCCGTCAGAGCTGAAAACAGTAAGCTCTAT-CAAGCTG
34261897 TGGTGAGTCC
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
45 2 0.05
46 18 0.47
48 6 0.16
49 12 0.32
ACGTcount: A:0.30, C:0.24, G:0.25, T:0.21
Consensus pattern (48 bp):
CGGTAAGCTCCGTCAGAGCTGAAAACAGTAAGCTCTATCAAGCTGAAA
Found at i:34268134 original size:36 final size:37
Alignment explanation
Indices: 34268059--34268139 Score: 119
Period size: 37 Copynumber: 2.2 Consensus size: 37
34268049 ATAAGCATAT
** *
34268059 ATGTACTCTTTAATCATTTGAAGGTATTTCATTATAG
1 ATGTACTCTTTAATCATTTGAAGGTATTTCACCACAG
*
34268096 ATGTACTCTTTAATCATTTGGAGG-ATTTCACCACAG
1 ATGTACTCTTTAATCATTTGAAGGTATTTCACCACAG
34268132 ATGTACTC
1 ATGTACTC
34268140 ATCATATCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
36 17 0.43
37 23 0.57
ACGTcount: A:0.28, C:0.16, G:0.15, T:0.41
Consensus pattern (37 bp):
ATGTACTCTTTAATCATTTGAAGGTATTTCACCACAG
Found at i:34277087 original size:30 final size:30
Alignment explanation
Indices: 34277053--34277113 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 30
34277043 AAACACACTT
34277053 ACTAGCTATGTAAATAAA-AATAATAATATC
1 ACTAGCTATGTAAATAAAGAA-AATAATATC
34277083 ACTAGCTATGTAAATAAAGAAAATAATATC
1 ACTAGCTATGTAAATAAAGAAAATAATATC
34277113 A
1 A
34277114 TAATGAGCGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 28 0.93
31 2 0.07
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.28
Consensus pattern (30 bp):
ACTAGCTATGTAAATAAAGAAAATAATATC
Found at i:34290455 original size:13 final size:14
Alignment explanation
Indices: 34290439--34290472 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
34290429 AATAAATATA
34290439 TATTTTTT-ATTTT
1 TATTTTTTAATTTT
34290452 TATTTTTTAATTTT
1 TATTTTTTAATTTT
34290466 TAATTTT
1 T-ATTTT
34290473 AAAATACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 6 0.32
15 5 0.26
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (14 bp):
TATTTTTTAATTTT
Found at i:34292801 original size:98 final size:98
Alignment explanation
Indices: 34292627--34292823 Score: 340
Period size: 98 Copynumber: 2.0 Consensus size: 98
34292617 GTACAATAAA
* * *
34292627 ACTTTAAAAGAATATCCACTTATCCAAGATTTAAGAAATCACACCCAATATGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
34292692 CCTCTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
34292725 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
34292790 CCTTTAAAATCCCAAACTTGGAATATTTCCTTT
66 CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
34292823 A
1 A
34292824 TAATTTTTTT
Statistics
Matches: 93, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
98 93 1.00
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTCTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:34294880 original size:44 final size:44
Alignment explanation
Indices: 34294769--34295110 Score: 208
Period size: 44 Copynumber: 7.9 Consensus size: 44
34294759 AGACTTGCTT
* * *
34294769 TCTTAAGTCTACTCCACTGCAACTTCAGGGAGATTAAGACCCGAT-G
1 TCTTAA-TCTGCTCCACTGCAACTTCAGGGAGA-TAAGATCTG-TGG
* * * *
34294815 ---TGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGG
1 TCTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGG
* * *
34294856 TCATAATCCGCTCCACTGCAACTTCAGGGAGATAGGAT-TGTCGG
1 TCTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGT-GG
* * * *
34294900 -CTTTAATCTGTTCCACTGTAACTTCAGGGAGATAAGATTTGCT-T
1 TC-TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTG-TGG
* * * *
34294944 TGCTTAGTCTGCTCCACTGCAATTTCAGGGAGATAAGA-CT-AGA
1 T-CTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGG
* * * * ** *
34294987 TAC--GATCTACT-CTCTGCATCTTCAGAAAGATAAGATCTGAGG
1 T-CTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGG
* ** * * *
34295029 TTTTAATCCACTCCACTGTAACTTCAGGGAGATAGGAT-TATCGG
1 TCTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGT-GG
*
34295073 -CTTTAATCTGCTCCACCGCAACTTCAGGGAGATAAGAT
1 TC-TTAATCTGCTCCACTGCAACTTCAGGGAGATAAGAT
34295111 TTGCCATCTT
Statistics
Matches: 227, Mismatches: 51, Indels: 38
0.72 0.16 0.12
Matches are distributed among these distances:
40 20 0.09
41 15 0.07
42 27 0.12
43 15 0.07
44 115 0.51
45 33 0.15
46 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
TCTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATCTGTGG
Found at i:34294974 original size:45 final size:44
Alignment explanation
Indices: 34294691--34295197 Score: 192
Period size: 44 Copynumber: 11.6 Consensus size: 44
34294681 TCTCGATCCA
* * * * * * *
34294691 CTCCACTGCAACGTCGGGGAGATAGGATTGGTATGTTTGGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGCTTTGCTTAGTCTG
* * * *
34294735 TTCCACAGCAATTTCAAGGG-GATAAGACTTGCTTT-CTTAAGTCTA
1 CTCCACTGCAACTTC-AGGGAGATAAGA-TTGCTTTGCTT-AGTCTG
** ** * *
34294780 CTCCACTGCAACTTCAGGGAGATTAAGA-CCCGATG-TGA-TCTA
1 CTCCACTGCAACTTCAGGGAGA-TAAGATTGCTTTGCTTAGTCTG
* * * * * *
34294822 CTCTACTGCAACTTCAGAGAGATAAGA-T-CTGTGGTCATAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGCT-TTG-CTTAGTCTG
* ** *
34294866 CTCCACTGCAACTTCAGGGAGATAGGATTG-TCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGCTTTGC-TTAGTCTG
* *
34294910 TTCCACTGTAACTTCAGGGAGATAAGATTTGCTTTGCTTAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGCTTTGCTTAGTCTG
* * * *
34294955 CTCCACTGCAATTTCAGGGAGATAAGA---C-TAG-ATACGATCTA
1 CTCCACTGCAACTTCAGGGAGATAAGATTGCTTTGCTTA-G-TCTG
* * ** ** * **
34294996 CT-CTCTGCATCTTCAGAAAGATAAGATCTGAGGTT--TTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TG-CTTTGCTTAGTCTG
* * * ** *
34295039 CTCCACTGTAACTTCAGGGAGATAGGATT-ATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTGCTTTGC-TTAGTCTG
* **
34295083 CTCCACCGCAACTTCAGGGAGATAAGATTTGCCAT-CTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTGCTTTGCTT-AGTCTG
* ** * *
34295128 C-CTCA-TCACAACTTCA-AAAGGATAAGACTTACTTTACTTAGTCTG
1 CTC-CACT-GCAACTTCAGGGA-GATAAGA-TTGCTTTGCTTAGTCTG
34295173 CTCCACTGCAACTTCAGGGAGATAA
1 CTCCACTGCAACTTCAGGGAGATAA
34295198 AACTAGATGC
Statistics
Matches: 338, Mismatches: 88, Indels: 73
0.68 0.18 0.15
Matches are distributed among these distances:
39 2 0.01
40 23 0.07
41 12 0.04
42 24 0.07
43 9 0.03
44 137 0.41
45 116 0.34
46 15 0.04
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTGCTTTGCTTAGTCTG
Found at i:34295018 original size:129 final size:128
Alignment explanation
Indices: 34294871--34295109 Score: 295
Period size: 129 Copynumber: 1.9 Consensus size: 128
34294861 ATCCGCTCCA
** * * ***
34294871 CTGCAACTTCAGGGAGATAGGAT-TGTCGGCTTTAATCTGTTCCACTGTAACTTCAGGGAGATAA
1 CTGCAACTTCAGAAAGATAAGATCTG-AGGCTTTAATCCACTCCACTGTAACTTCAGGGAGATAA
* * * *
34294935 GATT-TGCTTTGC-TTAGTCTGCTCCACTGCAATTTCAGGGAGATAAGACTAGATACGATCTACT
65 GATTAT-C--GGCTTTAATCTGCTCCACCGCAACTTCAGGGAGATAAGACTAGATACGATCTACT
34294998 CT
127 CT
* * *
34295000 CTGCATCTTCAGAAAGATAAGATCTGAGGTTTTAATCCACTCCACTGTAACTTCAGGGAGATAGG
1 CTGCAACTTCAGAAAGATAAGATCTGAGGCTTTAATCCACTCCACTGTAACTTCAGGGAGATAAG
34295065 ATTATCGGCTTTAATCTGCTCCACCGCAACTTCAGGGAGATAAGA
66 ATTATCGGCTTTAATCTGCTCCACCGCAACTTCAGGGAGATAAGA
34295110 TTTGCCATCT
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
127 2 0.02
128 32 0.34
129 56 0.60
130 3 0.03
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.30
Consensus pattern (128 bp):
CTGCAACTTCAGAAAGATAAGATCTGAGGCTTTAATCCACTCCACTGTAACTTCAGGGAGATAAG
ATTATCGGCTTTAATCTGCTCCACCGCAACTTCAGGGAGATAAGACTAGATACGATCTACTCT
Found at i:34295075 original size:173 final size:175
Alignment explanation
Indices: 34294686--34295114 Score: 562
Period size: 173 Copynumber: 2.5 Consensus size: 175
34294676 TGGTGTCTCG
* * ** ** *
34294686 ATCCACTCCACTGCAACGTCGGGGAGATAGGATTGGTATG-TTTGGTCTGTTCCACAGCAATTTC
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATT-GTCGGCTTTAATCTGTTCCACAGCAACTTC
* *
34294750 AAGGG-GATAAGACTTGCTTTCTTAAGTCTACTCCACTGCAACTTCAGGGAGATTAAGACCCGAT
65 -AGGGAGATAAGATTTGCTTTCTTAAGTCTACTCCACTGCAACTTCAGGGAGATTAAGACCAGAT
** * *
34294814 GTGATCTACTCTACTGCAACTTCAGAGAGATAAGATCTGTGGTCATA
129 ACGATCTACTCTACTGCAACTTCAGAAAGATAAGATCTGAGGTCATA
* * *
34294861 ATCCGCTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGTTCCACTGTAACTTCA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGTTCCACAGCAACTTCA
* * *
34294926 GGGAGATAAGATTTGCTTTGCTT-AGTCTGCTCCACTGCAATTTCAGGGAGA-TAAGACTAGATA
66 GGGAGATAAGATTTGCTTT-CTTAAGTCTACTCCACTGCAACTTCAGGGAGATTAAGACCAGATA
* **
34294989 CGATCTACTCT-CTGCATCTTCAGAAAGATAAGATCTGAGGTTTTA
130 CGATCTACTCTACTGCAACTTCAGAAAGATAAGATCTGAGGTCATA
* * * *
34295034 ATCCACTCCACTGTAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTCCACCGCAACTTCA
1 ATCCACTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGTTCCACAGCAACTTCA
34295099 GGGAGATAAGATTTGC
66 GGGAGATAAGATTTGC
34295115 CATCTTCAGT
Statistics
Matches: 223, Mismatches: 28, Indels: 8
0.86 0.11 0.03
Matches are distributed among these distances:
173 104 0.47
174 26 0.12
175 90 0.40
176 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (175 bp):
ATCCACTCCACTGCAACTTCAGGGAGATAGGATTGTCGGCTTTAATCTGTTCCACAGCAACTTCA
GGGAGATAAGATTTGCTTTCTTAAGTCTACTCCACTGCAACTTCAGGGAGATTAAGACCAGATAC
GATCTACTCTACTGCAACTTCAGAAAGATAAGATCTGAGGTCATA
Found at i:34314697 original size:7 final size:7
Alignment explanation
Indices: 34314685--34314736 Score: 58
Period size: 7 Copynumber: 7.9 Consensus size: 7
34314675 TAGAGTGGAG
34314685 AAAAAAC
1 AAAAAAC
34314692 AAAAAAC
1 AAAAAAC
34314699 -AAAAAC
1 AAAAAAC
34314705 --AAAA-
1 AAAAAAC
34314709 AAAAAAC
1 AAAAAAC
*
34314716 AAGAAAAT
1 AA-AAAAC
34314724 AAAAAAC
1 AAAAAAC
34314731 AAAAAA
1 AAAAAA
34314737 AACCTCTACC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
5 4 0.10
6 10 0.26
7 19 0.49
8 6 0.15
ACGTcount: A:0.87, C:0.10, G:0.02, T:0.02
Consensus pattern (7 bp):
AAAAAAC
Found at i:34314714 original size:24 final size:26
Alignment explanation
Indices: 34314685--34314738 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
34314675 TAGAGTGGAG
*
34314685 AAAAAACAA-AAAA-CAAAAACAAAA
1 AAAAAACAAGAAAATAAAAAACAAAA
34314709 AAAAAACAAGAAAATAAAAAACAAAA
1 AAAAAACAAGAAAATAAAAAACAAAA
34314735 AAAA
1 AAAA
34314739 CCTCTACCGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 9 0.33
25 4 0.15
26 14 0.52
ACGTcount: A:0.87, C:0.09, G:0.02, T:0.02
Consensus pattern (26 bp):
AAAAAACAAGAAAATAAAAAACAAAA
Found at i:34315193 original size:14 final size:14
Alignment explanation
Indices: 34315174--34315205 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
34315164 TCATGAAAAG
34315174 AAAATAAAAAAATA
1 AAAATAAAAAAATA
*
34315188 AAAATAAAAGAATA
1 AAAATAAAAAAATA
34315202 AAAA
1 AAAA
34315206 AAAGAGGTCA
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:0.84, C:0.00, G:0.03, T:0.12
Consensus pattern (14 bp):
AAAATAAAAAAATA
Found at i:34316194 original size:44 final size:45
Alignment explanation
Indices: 34316123--34316241 Score: 143
Period size: 44 Copynumber: 2.7 Consensus size: 45
34316113 GTCATCATGG
* ** *
34316123 CGAATCTTATCTCCCTGAAA-TTACAGTGGAGTAGATTGAAG-CCA
1 CGAATCTTATCTCCCT-AAAGTTGCAGTGGAGTAGACCGAAGACAA
* *
34316167 CTAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACCGAAGACAA
1 CGAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGACCGAAGACAA
* *
34316212 CGAATCTTATTTCTCTAAAGTTGCAGTGGA
1 CGAATCTTATCTCCCTAAAGTTGCAGTGGA
34316242 AAAGACTGAA
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
43 3 0.05
44 32 0.51
45 28 0.44
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.29
Consensus pattern (45 bp):
CGAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGACCGAAGACAA
Found at i:34316759 original size:45 final size:44
Alignment explanation
Indices: 34316704--34316813 Score: 139
Period size: 45 Copynumber: 2.5 Consensus size: 44
34316694 CATAACAAGT
* *
34316704 CTTATCTCCCTGAAGTTGCAGTGGATCAGACTGAAGATAACCAAC
1 CTTATCTCCCTGAAGTTGCAGGGGAGCAGACTGAAGAT-ACCAAC
** *
34316749 CTTATCTCCCTGAAGTTGCAGGGGAGCAGGTTGAAGATACCAAT
1 CTTATCTCCCTGAAGTTGCAGGGGAGCAGACTGAAGATACCAAC
** *
34316793 CTCGTCCCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAG
34316814 CAGAGTGGAT
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 23 0.40
45 34 0.60
ACGTcount: A:0.26, C:0.25, G:0.24, T:0.25
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGGGGAGCAGACTGAAGATACCAAC
Found at i:34318906 original size:13 final size:13
Alignment explanation
Indices: 34318888--34318920 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
34318878 TTTTTATAAT
*
34318888 TTTATTTATTTTC
1 TTTATTTATTTAC
34318901 TTTATTTATTTAC
1 TTTATTTATTTAC
34318914 -TTATTTA
1 TTTATTTA
34318921 CGTTTTCATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTATTTATTTAC
Found at i:34320317 original size:17 final size:16
Alignment explanation
Indices: 34320295--34320344 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 16
34320285 GTTTATTTAT
*
34320295 TTAAAATAAATAAATTA
1 TTAAAA-AAATAAAATA
*
34320312 TTAAAAATATAAAATA
1 TTAAAAAAATAAAATA
34320328 TTTAAAAAATATAAAAT
1 -TTAAAAAA-ATAAAAT
34320345 CCAATTCAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 8 0.29
17 13 0.46
18 7 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
TTAAAAAAATAAAATA
Found at i:34320335 original size:18 final size:18
Alignment explanation
Indices: 34320292--34320344 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
34320282 TTAGTTTATT
*
34320292 TATTTAAAATAA-ATAAAT
1 TATTTAAAA-AATATAAAA
34320310 TA-TT-AAAAATATAAAA
1 TATTTAAAAAATATAAAA
34320326 TATTTAAAAAATATAAAA
1 TATTTAAAAAATATAAAA
34320344 T
1 T
34320345 CCAATTCAAC
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
15 2 0.06
16 10 0.32
17 4 0.13
18 15 0.48
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
TATTTAAAAAATATAAAA
Found at i:34327824 original size:30 final size:30
Alignment explanation
Indices: 34327788--34327857 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
34327778 AATGAAGAGT
* * *
34327788 AACATGTCCAAGATTAATATATGCAACATC
1 AACATGTACAACATGAATATATGCAACATC
* * *
34327818 AACATGTACAACATGGATATGTGCAACATG
1 AACATGTACAACATGAATATATGCAACATC
34327848 AACATGTACA
1 AACATGTACA
34327858 GGATTGACAC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (30 bp):
AACATGTACAACATGAATATATGCAACATC
Found at i:34327831 original size:15 final size:15
Alignment explanation
Indices: 34327811--34327857 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
34327801 TTAATATATG
*
34327811 CAACATCAACATGTA
1 CAACATGAACATGTA
* * *
34327826 CAACATGGATATGTG
1 CAACATGAACATGTA
34327841 CAACATGAACATGTA
1 CAACATGAACATGTA
34327856 CA
1 CA
34327858 GGATTGACAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.43, C:0.21, G:0.15, T:0.21
Consensus pattern (15 bp):
CAACATGAACATGTA
Found at i:34335606 original size:26 final size:26
Alignment explanation
Indices: 34335577--34335626 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
34335567 TTAGATACTT
*
34335577 TTTTTTTAATTTAATATTTATTGTTG
1 TTTTTTTAATTTAATACTTATTGTTG
34335603 TTTTTTTAATTTAATACTTATTGT
1 TTTTTTTAATTTAATACTTATTGT
34335627 CGAAACTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (26 bp):
TTTTTTTAATTTAATACTTATTGTTG
Found at i:34335743 original size:166 final size:166
Alignment explanation
Indices: 34335469--34335802 Score: 668
Period size: 166 Copynumber: 2.0 Consensus size: 166
34335459 GGATCTGGGC
34335469 CTCTGGCTGCCGGTCCAACAAAAGCACAAATTGGCAACAACCTTGCCCAAGATCTTATCAAATAC
1 CTCTGGCTGCCGGTCCAACAAAAGCACAAATTGGCAACAACCTTGCCCAAGATCTTATCAAATAC
34335534 GATGTTATTAGAGGTTCTTTTGGGATATTGAAGTTAGATACTTTTTTTTTAATTTAATATTTATT
66 GATGTTATTAGAGGTTCTTTTGGGATATTGAAGTTAGATACTTTTTTTTTAATTTAATATTTATT
34335599 GTTGTTTTTTTAATTTAATACTTATTGTCGAAACTG
131 GTTGTTTTTTTAATTTAATACTTATTGTCGAAACTG
34335635 CTCTGGCTGCCGGTCCAACAAAAGCACAAATTGGCAACAACCTTGCCCAAGATCTTATCAAATAC
1 CTCTGGCTGCCGGTCCAACAAAAGCACAAATTGGCAACAACCTTGCCCAAGATCTTATCAAATAC
34335700 GATGTTATTAGAGGTTCTTTTGGGATATTGAAGTTAGATACTTTTTTTTTAATTTAATATTTATT
66 GATGTTATTAGAGGTTCTTTTGGGATATTGAAGTTAGATACTTTTTTTTTAATTTAATATTTATT
34335765 GTTGTTTTTTTAATTTAATACTTATTGTCGAAACTG
131 GTTGTTTTTTTAATTTAATACTTATTGTCGAAACTG
34335801 CT
1 CT
34335803 TTTTTGAAAA
Statistics
Matches: 168, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
166 168 1.00
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (166 bp):
CTCTGGCTGCCGGTCCAACAAAAGCACAAATTGGCAACAACCTTGCCCAAGATCTTATCAAATAC
GATGTTATTAGAGGTTCTTTTGGGATATTGAAGTTAGATACTTTTTTTTTAATTTAATATTTATT
GTTGTTTTTTTAATTTAATACTTATTGTCGAAACTG
Found at i:34335772 original size:26 final size:26
Alignment explanation
Indices: 34335743--34335792 Score: 91
Period size: 26 Copynumber: 1.9 Consensus size: 26
34335733 TTAGATACTT
*
34335743 TTTTTTTAATTTAATATTTATTGTTG
1 TTTTTTTAATTTAATACTTATTGTTG
34335769 TTTTTTTAATTTAATACTTATTGT
1 TTTTTTTAATTTAATACTTATTGT
34335793 CGAAACTGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.24, C:0.02, G:0.06, T:0.68
Consensus pattern (26 bp):
TTTTTTTAATTTAATACTTATTGTTG
Found at i:34337078 original size:21 final size:21
Alignment explanation
Indices: 34337033--34337095 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
34337023 CGTATGTACA
*
34337033 AATATAAAAATAATAA-AAA-
1 AATATAACAATAATAATAAAT
** *
34337052 AA-ATAATGATGATAATAAAT
1 AATATAACAATAATAATAAAT
34337072 AATATAACAATAATAATAAAT
1 AATATAACAATAATAATAAAT
34337093 AAT
1 AAT
34337096 GGGAGAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 10 0.29
19 5 0.14
20 2 0.06
21 18 0.51
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (21 bp):
AATATAACAATAATAATAAAT
Found at i:34338885 original size:44 final size:44
Alignment explanation
Indices: 34338820--34338982 Score: 164
Period size: 44 Copynumber: 3.7 Consensus size: 44
34338810 GTCTATGTAG
*
34338820 GAAGGCAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
1 GAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
* * * * * ***
34338864 GAAGACAAGATCTGTTTTATTTAATCTACTCCACCACCAGTATGG
1 GAAGACAAGATCTGCTATATTTGATCTACTTCA-CGCCAGTACAT
* * * * *
34338909 GGAGACAAGATCTGGTATCTTCGATCTACTTCACGCCAATACAT
1 GAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
* * *
34338953 GAAGACAAGATCTGCTTTCTTGGATCTACT
1 GAAGACAAGATCTGCTATATTTGATCTACT
34338983 CTGCCACCGG
Statistics
Matches: 93, Mismatches: 25, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
44 60 0.65
45 33 0.35
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (44 bp):
GAAGACAAGATCTGCTATATTTGATCTACTTCACGCCAGTACAT
Found at i:34338936 original size:45 final size:45
Alignment explanation
Indices: 34338819--34339022 Score: 117
Period size: 44 Copynumber: 4.6 Consensus size: 45
34338809 TGTCTATGTA
* * * * * * **
34338819 GGAAGGCAAGATCTGCTATATTTGATCTACTTCA-CGCCAGTACA
1 GGAAGACAAGATCTGGTATCTTCGATCTACTCCACCACCAGTATG
* * * * **
34338863 TGAAGACAAGATCTGTTTTATTTAATCTACTCCACCACCAGTATG
1 GGAAGACAAGATCTGGTATCTTCGATCTACTCCACCACCAGTATG
* * * * **
34338908 GGGAGACAAGATCTGGTATCTTCGATCTACTTCA-CGCCAATACA
1 GGAAGACAAGATCTGGTATCTTCGATCTACTCCACCACCAGTATG
* * * * ** *
34338952 TGAAGACAAGATCTGCTTTCTTGGATCTACTCTGCCACCGGTATG
1 GGAAGACAAGATCTGGTATCTTCGATCTACTCCACCACCAGTATG
* * *
34338997 GGAAGATAAAATCT-GTATATTCGATC
1 GGAAGACAAGATCTGGTATCTTCGATC
34339023 CACTTCGCTA
Statistics
Matches: 117, Mismatches: 41, Indels: 4
0.72 0.25 0.02
Matches are distributed among these distances:
44 68 0.58
45 49 0.42
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (45 bp):
GGAAGACAAGATCTGGTATCTTCGATCTACTCCACCACCAGTATG
Found at i:34338952 original size:89 final size:89
Alignment explanation
Indices: 34338819--34339028 Score: 269
Period size: 89 Copynumber: 2.4 Consensus size: 89
34338809 TGTCTATGTA
* * * * *
34338819 GGAAGGCAAGATCTGCTATATTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTAT
1 GGAAGACAAGATCTGGTATATTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTAT
*
34338884 TTAATCTACTCCACCACCAGTATG
66 TGAATCTACTCCACCACCAGTATG
* * *
34338908 GGGAGACAAGATCTGGTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
1 GGAAGACAAGATCTGGTATATTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTAT
* ** *
34338973 TGGATCTACTCTGCCACCGGTATG
66 TGAATCTACTCCACCACCAGTATG
* * *
34338997 GGAAGATAAAATCT-GTATATTCGATCCACTTC
1 GGAAGACAAGATCTGGTATATTCGATCTACTTC
34339029 GCTACCGACA
Statistics
Matches: 103, Mismatches: 18, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
88 16 0.16
89 87 0.84
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (89 bp):
GGAAGACAAGATCTGGTATATTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTAT
TGAATCTACTCCACCACCAGTATG
Found at i:34339046 original size:89 final size:89
Alignment explanation
Indices: 34338819--34339055 Score: 206
Period size: 89 Copynumber: 2.7 Consensus size: 89
34338809 TGTCTATGTA
* * * * * * ** * *
34338819 GGAAGGCAAGATCTGCTATATTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGTTTTAT
1 GGAAGACAAAATCTGGTATATTCGATCCACTTCACACCAACACAGGAAGACAAGATCTGCTTTAT
*
34338884 TTAATCTACTCCACCACCAGTATG
66 TGAATCTACTCCACCACCAGTATG
* * * * * * * *
34338908 GGGAGACAAGATCTGGTATCTTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTCT
1 GGAAGACAAAATCTGGTATATTCGATCCACTTCACACCAACACAGGAAGACAAGATCTGCTTTAT
* ** *
34338973 TGGATCTACTCTGCCACCGGTATG
66 TGAATCTACTCCACCACCAGTATG
* * * * *
34338997 GGAAGATAAAATCT-GTATATTCGATCCACTTCGCTACCGACATAGGAAGACAGGATCTG
1 GGAAGACAAAATCTGGTATATTCGATCCACTTCAC-ACCAACACAGGAAGACAAGATCTG
34339056 TTATCTTTCA
Statistics
Matches: 122, Mismatches: 25, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
88 17 0.14
89 105 0.86
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.28
Consensus pattern (89 bp):
GGAAGACAAAATCTGGTATATTCGATCCACTTCACACCAACACAGGAAGACAAGATCTGCTTTAT
TGAATCTACTCCACCACCAGTATG
Found at i:34340292 original size:49 final size:47
Alignment explanation
Indices: 34340238--34340392 Score: 174
Period size: 47 Copynumber: 3.2 Consensus size: 47
34340228 CTTTGCGAAT
34340238 TTTCACCTTAGCCTCTCTATTTTTTTT-ACTCAAGGCTCCCTTTGTAGGG
1 TTTCACCTT-GCCTCTCT-TTTTTTTTGACTCAAGGC-CCCTTTGTAGGG
* *
34340287 TTTCACCCTG-GTCTCTTTTTTTTTTGACTCAAAGAGCCCCTTTGTAGGG
1 TTTCACCTTGCCTCTC-TTTTTTTTTGACTC-AAG-GCCCCTTTGTAGGG
* *
34340336 TTTCACCTTGGCC-CT-TTTTTTTTTGACTCAAAGCGCCCTTTGTAGGC
1 TTTCACCTT-GCCTCTCTTTTTTTTTGACTCAAGGC-CCCTTTGTAGGG
34340383 TTTCACCTTG
1 TTTCACCTTG
34340393 GTCCCACCTT
Statistics
Matches: 93, Mismatches: 6, Indels: 17
0.80 0.05 0.15
Matches are distributed among these distances:
46 3 0.03
47 34 0.37
48 20 0.22
49 31 0.33
50 5 0.05
ACGTcount: A:0.14, C:0.26, G:0.16, T:0.44
Consensus pattern (47 bp):
TTTCACCTTGCCTCTCTTTTTTTTTGACTCAAGGCCCCTTTGTAGGG
Found at i:34340353 original size:48 final size:47
Alignment explanation
Indices: 34340238--34340393 Score: 192
Period size: 49 Copynumber: 3.2 Consensus size: 47
34340228 CTTTGCGAAT
*
34340238 TTTCACCTTAGCCTCTCTATTTTTTTT-ACTC-AAGGCTCCCTTTGTAGGG
1 TTTCACCTTGGCC-CT-T-TTTTTTTTGACTCAAAGGC-CCCTTTGTAGGG
* *
34340287 TTTCACCCTGGTCTCTTTTTTTTTTGACTCAAAGAGCCCCTTTGTAGGG
1 TTTCACCTTGG-CCCTTTTTTTTTTGACTCAAAG-GCCCCTTTGTAGGG
*
34340336 TTTCACCTTGGCCCTTTTTTTTTTGACTCAAA-GCGCCCTTTGTAGGC
1 TTTCACCTTGGCCCTTTTTTTTTTGACTCAAAGGC-CCCTTTGTAGGG
34340383 TTTCACCTTGG
1 TTTCACCTTGG
34340394 TCCCACCTTT
Statistics
Matches: 96, Mismatches: 6, Indels: 12
0.84 0.05 0.11
Matches are distributed among these distances:
46 2 0.02
47 30 0.31
48 25 0.26
49 36 0.38
50 3 0.03
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.44
Consensus pattern (47 bp):
TTTCACCTTGGCCCTTTTTTTTTTGACTCAAAGGCCCCTTTGTAGGG
Found at i:34346108 original size:21 final size:21
Alignment explanation
Indices: 34346063--34346125 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
34346053 CGTATGTACA
*
34346063 AATATAAAAATAATAA-AAA-
1 AATATAACAATAATAATAAAT
** *
34346082 AA-ATAATGATGATAATAAAT
1 AATATAACAATAATAATAAAT
34346102 AATATAACAATAATAATAAAT
1 AATATAACAATAATAATAAAT
34346123 AAT
1 AAT
34346126 GGGAGAAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
18 10 0.29
19 5 0.14
20 2 0.06
21 18 0.51
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (21 bp):
AATATAACAATAATAATAAAT
Found at i:34347589 original size:118 final size:119
Alignment explanation
Indices: 34347456--34347693 Score: 460
Period size: 118 Copynumber: 2.0 Consensus size: 119
34347446 TAATCTTGGT
34347456 TCCCCTAAAAAAATTTCTAGCTTCGACCCTAATTTAAGTATCCAAAAATATTAAATTTTTAGTGT
1 TCCCCTAAAAAAATTTCTAGCTTCGACCCTAATTTAAGTATCCAAAAATATTAAATTTTTAGTGT
34347521 TTAATTCAGGTTTTAGGGTTGATTTGATGAAAGTTAATTGCT-ATATTATTATG
66 TTAATTCAGGTTTTAGGGTTGATTTGATGAAAGTTAATTGCTAATATTATTATG
*
34347574 TCCCCTAAAAAAATTTCTAGCTTCGACCCTAATTTTAGTATCCAAAAATATTAAATTTTTAGTGT
1 TCCCCTAAAAAAATTTCTAGCTTCGACCCTAATTTAAGTATCCAAAAATATTAAATTTTTAGTGT
34347639 TTAATTCAGGTTTTAGGGTTGATTTGATGAAAGTTAATTGCTAATATTATTATG
66 TTAATTCAGGTTTTAGGGTTGATTTGATGAAAGTTAATTGCTAATATTATTATG
34347693 T
1 T
34347694 TTGGATTGTT
Statistics
Matches: 118, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
118 106 0.90
119 12 0.10
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (119 bp):
TCCCCTAAAAAAATTTCTAGCTTCGACCCTAATTTAAGTATCCAAAAATATTAAATTTTTAGTGT
TTAATTCAGGTTTTAGGGTTGATTTGATGAAAGTTAATTGCTAATATTATTATG
Found at i:34350612 original size:19 final size:19
Alignment explanation
Indices: 34350580--34350630 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
34350570 TTTTTATGTA
34350580 TTTATATATATTTATAATCTT
1 TTTATA-AT-TTTATAATCTT
*
34350601 TTTATAATTTTATATTCTT
1 TTTATAATTTTATAATCTT
* *
34350620 TATATCATTTT
1 TTTATAATTTT
34350631 CAATTTTTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
19 19 0.70
20 2 0.07
21 6 0.22
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (19 bp):
TTTATAATTTTATAATCTT
Found at i:34351581 original size:20 final size:22
Alignment explanation
Indices: 34351553--34351609 Score: 73
Period size: 20 Copynumber: 2.6 Consensus size: 22
34351543 ATTTTTGAAA
*
34351553 TTTTAAATATTTTTATGTA-T-
1 TTTTTAATATTTTTATGTATTG
*
34351573 TTTTTAATATATTTATGTATTG
1 TTTTTAATATTTTTATGTATTG
34351595 TTTTTAAATATTTTT
1 TTTTT-AATATTTTT
34351610 TTAGAGTTAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 17 0.55
21 1 0.03
22 5 0.16
23 8 0.26
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (22 bp):
TTTTTAATATTTTTATGTATTG
Found at i:34359463 original size:26 final size:22
Alignment explanation
Indices: 34359433--34359549 Score: 108
Period size: 23 Copynumber: 4.8 Consensus size: 22
34359423 AGACTCACCA
34359433 CAGCTCGTATGAGCTTACCGATATAT
1 CAGCTCG-ATGAGCTTACC-AT-T-T
*
34359459 CAGCTCTTATGAGCTTACCATTT
1 CAGCTC-GATGAGCTTACCATTT
*
34359482 TAGCTCGATAGAGCTTACCATTT
1 CAGCTCGAT-GAGCTTACCATTT
*
34359505 TAGCTCGATAGAGCTTACCATTCTT
1 CAGCTCGAT-GAGCTTACCA-T-TT
34359530 CAGCTCGGAATGAGCTTACC
1 CAGCTC-G-ATGAGCTTACC
34359550 GATCATGGCT
Statistics
Matches: 81, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
22 2 0.02
23 39 0.48
24 2 0.02
25 9 0.11
26 27 0.33
27 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (22 bp):
CAGCTCGATGAGCTTACCATTT
Found at i:34359495 original size:23 final size:23
Alignment explanation
Indices: 34359469--34359549 Score: 119
Period size: 23 Copynumber: 3.4 Consensus size: 23
34359459 CAGCTCTTAT
34359469 GAGCTTACCATTTTAGCTCGATA
1 GAGCTTACCATTTTAGCTCGATA
34359492 GAGCTTACCATTTTAGCTCGATA
1 GAGCTTACCATTTTAGCTCGATA
34359515 GAGCTTACCATTCTTCAGCTCGGA-A
1 GAGCTTACCATT-TT-AGCTC-GATA
34359540 TGAGCTTACC
1 -GAGCTTACC
34359550 GATCATGGCT
Statistics
Matches: 54, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
23 35 0.65
24 2 0.04
25 6 0.11
26 11 0.20
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (23 bp):
GAGCTTACCATTTTAGCTCGATA
Found at i:34368339 original size:97 final size:98
Alignment explanation
Indices: 34368233--34368427 Score: 383
Period size: 97 Copynumber: 2.0 Consensus size: 98
34368223 TACGAATAAG
34368233 TATATTATTTTTATAATATATAACATTGACACATAAATAAGTTAGGGTTATACTTCTTTACCACA
1 TATATTATTTTTATAATATATAACATTGACACATAAATAAGTTAGGGTTATACTTCTTTACCACA
34368298 ACTTTTTATAAATAAATATATT-TAACACTTTT
66 ACTTTTTATAAATAAATATATTATAACACTTTT
34368330 TATATTATTTTTATAATATATAACATTGACACATAAATAAGTTAGGGTTATACTTCTTTACCACA
1 TATATTATTTTTATAATATATAACATTGACACATAAATAAGTTAGGGTTATACTTCTTTACCACA
34368395 ACTTTTTATAAATAAATATATTATAACACTTTT
66 ACTTTTTATAAATAAATATATTATAACACTTTT
34368428 ATAACATGTA
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 87 0.90
98 10 0.10
ACGTcount: A:0.39, C:0.11, G:0.05, T:0.44
Consensus pattern (98 bp):
TATATTATTTTTATAATATATAACATTGACACATAAATAAGTTAGGGTTATACTTCTTTACCACA
ACTTTTTATAAATAAATATATTATAACACTTTT
Found at i:34371357 original size:24 final size:26
Alignment explanation
Indices: 34371329--34371384 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 26
34371319 TAATTTTGAA
*
34371329 TTTTATAA-GTTATAAAT-ATTTTAT
1 TTTTATAATGTAATAAATCATTTTAT
*
34371353 TTTTA-AATGTAATAAGTCATTTTAT
1 TTTTATAATGTAATAAATCATTTTAT
34371378 TTTTATA
1 TTTTATA
34371385 CGATAACAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 12 0.44
25 12 0.44
26 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (26 bp):
TTTTATAATGTAATAAATCATTTTAT
Found at i:34372244 original size:28 final size:30
Alignment explanation
Indices: 34372192--34372264 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 30
34372182 TATGTTATAA
34372192 TAATAGTTATATATGTATTAATATTTTCA-G
1 TAATAGTTATATATGTATTAATATTTT-ATG
*
34372222 TAATAGTTATATAT-TA-TATTATTTTATG
1 TAATAGTTATATATGTATTAATATTTTATG
* *
34372250 TATTAGTAATATATG
1 TAATAGTTATATATG
34372265 AATTTAGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
27 1 0.03
28 21 0.55
29 2 0.05
30 14 0.37
ACGTcount: A:0.37, C:0.01, G:0.10, T:0.52
Consensus pattern (30 bp):
TAATAGTTATATATGTATTAATATTTTATG
Found at i:34372362 original size:24 final size:25
Alignment explanation
Indices: 34372335--34372388 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
34372325 ATATAATATA
*
34372335 TTATAG-TATCATTAAATTTTAATT
1 TTATAGATATCAATAAATTTTAATT
* * *
34372359 TTATAGATTTTAATAATTTTTAATT
1 TTATAGATATCAATAAATTTTAATT
34372384 TTATA
1 TTATA
34372389 TATTTATTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
24 6 0.24
25 19 0.76
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (25 bp):
TTATAGATATCAATAAATTTTAATT
Found at i:34387855 original size:42 final size:42
Alignment explanation
Indices: 34387808--34387953 Score: 157
Period size: 42 Copynumber: 3.2 Consensus size: 42
34387798 CTAGATTTAT
*
34387808 AGTCTGAATTTATTTCACCGGCATTAAGCCTGCTAAACGTGAAGTCTGA
1 AGTCTGAATTTATTTCACCGGCATTAAGCCTGCTAGACGT--A-----A
34387857 ATGAAGTCTGAATTTATTTCACCGGCATTAAGCCTGCTAGACGTAA
1 A-G---TCTGAATTTATTTCACCGGCATTAAGCCTGCTAGACGTAA
* * *
34387903 AGTCTGAATTCATTTCACTGGCATTGAGCCTGCTAGACGTAA
1 AGTCTGAATTTATTTCACCGGCATTAAGCCTGCTAGACGTAA
34387945 AGTCTGAAT
1 AGTCTGAAT
34387954 GGTTTCACTG
Statistics
Matches: 89, Mismatches: 4, Indels: 15
0.82 0.04 0.14
Matches are distributed among these distances:
42 46 0.52
45 1 0.01
46 2 0.02
49 1 0.01
50 1 0.01
51 1 0.01
53 37 0.42
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.31
Consensus pattern (42 bp):
AGTCTGAATTTATTTCACCGGCATTAAGCCTGCTAGACGTAA
Found at i:34387876 original size:53 final size:53
Alignment explanation
Indices: 34387808--34387911 Score: 190
Period size: 53 Copynumber: 2.0 Consensus size: 53
34387798 CTAGATTTAT
*
34387808 AGTCTGAATTTATTTCACCGGCATTAAGCCTGCTAAACGTGAAGTCTGAATGA
1 AGTCTGAATTTATTTCACCGGCATTAAGCCTGCTAAACGTAAAGTCTGAATGA
*
34387861 AGTCTGAATTTATTTCACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAT
1 AGTCTGAATTTATTTCACCGGCATTAAGCCTGCTAAACGTAAAGTCTGAAT
34387912 TCATTTCACT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.31
Consensus pattern (53 bp):
AGTCTGAATTTATTTCACCGGCATTAAGCCTGCTAAACGTAAAGTCTGAATGA
Found at i:34387974 original size:41 final size:42
Alignment explanation
Indices: 34387860--34387974 Score: 124
Period size: 42 Copynumber: 2.8 Consensus size: 42
34387850 AGTCTGAATG
* * * **
34387860 AAGTCTGAATTTATTTCACCGGCATTAAGCCTGCTAGACGTA
1 AAGTCTGAATTCATTTCACTGGAAACAAGCCTGCTAGACGTA
* ***
34387902 AAGTCTGAATTCATTTCACTGGCATTGAGCCTGCTAGACGTA
1 AAGTCTGAATTCATTTCACTGGAAACAAGCCTGCTAGACGTA
**
34387944 AAGTCTGAA-TGGTTTCACTGGAAACAAGCCT
1 AAGTCTGAATTCATTTCACTGGAAACAAGCCT
34387975 TGTAGGTACT
Statistics
Matches: 64, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
41 16 0.25
42 48 0.75
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (42 bp):
AAGTCTGAATTCATTTCACTGGAAACAAGCCTGCTAGACGTA
Found at i:34396032 original size:42 final size:42
Alignment explanation
Indices: 34395954--34396115 Score: 236
Period size: 42 Copynumber: 3.9 Consensus size: 42
34395944 TGATTCAGTA
* * * *
34395954 CACCGGC-TCTAAGCTTGCTAGACTTATAGTCAGAATTTATTT
1 CACCGGCAT-TAAGCCTGCTAGACGTAAAGTCTGAATTTATTT
* *
34395996 CACTGGCATTAAGCCTGCTAGACGTGAAGTCTGAATTTATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTTATTT
*
34396038 CACCGGCATTAAGCCTGCTAGACGTAAAGTTTGAATTTATTT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTTATTT
*
34396080 CACCGGCATGAAGCCTGCTAGACGTAAAGTCTGAAT
1 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAT
34396116 GGTTTCACTG
Statistics
Matches: 108, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
42 107 0.99
43 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (42 bp):
CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAATTTATTT
Found at i:34397609 original size:19 final size:19
Alignment explanation
Indices: 34397585--34397636 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
34397575 CCCGAATCGT
34397585 ATTTAATACTACAATCACA
1 ATTTAATACTACAATCACA
*
34397604 ATTTAATACTGCAATCACA
1 ATTTAATACTACAATCACA
34397623 ATTTAATAACTACA
1 ATTTAAT-ACTACA
34397637 TCTATATTGA
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 25 0.83
20 5 0.17
ACGTcount: A:0.46, C:0.19, G:0.02, T:0.33
Consensus pattern (19 bp):
ATTTAATACTACAATCACA
Found at i:34400006 original size:22 final size:22
Alignment explanation
Indices: 34399981--34400037 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 22
34399971 TACAAATTAA
34399981 ATCTCTAAGATTACAAAATCAT
1 ATCTCTAAGATTACAAAATCAT
* *
34400003 ATCTTCTAAGATTGC-ATATCAT
1 ATC-TCTAAGATTACAAAATCAT
34400025 A--TCTAAGATTACA
1 ATCTCTAAGATTACA
34400038 TATTATATCT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 10 0.33
22 10 0.33
23 10 0.33
ACGTcount: A:0.40, C:0.18, G:0.07, T:0.35
Consensus pattern (22 bp):
ATCTCTAAGATTACAAAATCAT
Found at i:34400014 original size:23 final size:22
Alignment explanation
Indices: 34399971--34400028 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
34399961 AAAAGGTATC
* *
34399971 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
34399992 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
34400015 TGCATATCATATCT
1 TACAAATCATATCT
34400029 AAGATTACAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:34400031 original size:19 final size:19
Alignment explanation
Indices: 34400007--34400098 Score: 148
Period size: 19 Copynumber: 4.8 Consensus size: 19
34399997 AATCATATCT
34400007 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
34400026 TCTAAGATTACATATTATA
1 TCTAAGATTGCATATCATA
34400045 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
* *
34400064 TCTAAGAATACATATCATA
1 TCTAAGATTGCATATCATA
34400083 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
34400099 CTTGAAGATT
Statistics
Matches: 65, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 65 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:34400056 original size:38 final size:38
Alignment explanation
Indices: 34400000--34400098 Score: 166
Period size: 38 Copynumber: 2.7 Consensus size: 38
34399990 ATTACAAAAT
*
34400000 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTA
1 CATATCATATCTAAGATTGCATATCATATCTAAGAATA
*
34400036 CATATTATATCTAAGATTGCATATCATATCTAAGAATA
1 CATATCATATCTAAGATTGCATATCATATCTAAGAATA
34400074 CATATCATATCTAAGATTGCATATC
1 CATATCATATCTAAGATTGCATATC
34400099 CTTGAAGATT
Statistics
Matches: 58, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 5 0.09
37 1 0.02
38 52 0.90
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.37
Consensus pattern (38 bp):
CATATCATATCTAAGATTGCATATCATATCTAAGAATA
Found at i:34400840 original size:44 final size:44
Alignment explanation
Indices: 34400738--34401114 Score: 233
Period size: 44 Copynumber: 8.7 Consensus size: 44
34400728 CTTTCTTGGG
* ** ***
34400738 TCTGCTCCACTGCAACTTCAGGGAGATAAGA-C-CCGA-TGCGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
**
34400779 TCTGCT-CTTTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
** * * **
34400822 TCCACTCCACTGCAACTTCAGAGAGAT-AGAATTTTTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAG-ATCTGTGATTTTAA
* * ** * *
34400866 TCTACTCCACTGCAACTTCAGGGAGATAAGAT-TCGCCATCTTCAG
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-GTGAT-TTTAA
* * * * *
34400911 TCTGCTTCACTACAACTTCAGA-AGGATAAG-GCT-TGCTTACTTAG
1 TCTGCTCCACTGCAACTTCAGAGA-GATAAGATCTGTGATT--TTAA
* * * ***
34400955 TCTGCTCCACTACAACTTCAGGGAGATAAGA-CT-AGA-TACGA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
*
34400996 TCTGCT-CTCTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
* * * * **
34401039 TCCGCTCCACTGCGACTTCAGAGAGATAGGAT-TATTGGCTTTAA
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGATCT-GTGATTTTAA
* *
34401083 TCTACTCCACTGCAACTTCAGGGAGATAAGAT
1 TCTGCTCCACTGCAACTTCAGAGAGATAAGAT
34401115 TCGTCATCTT
Statistics
Matches: 256, Mismatches: 61, Indels: 35
0.73 0.17 0.10
Matches are distributed among these distances:
40 42 0.16
41 15 0.06
42 5 0.02
43 19 0.07
44 144 0.56
45 31 0.12
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
TCTGCTCCACTGCAACTTCAGAGAGATAAGATCTGTGATTTTAA
Found at i:34400984 original size:217 final size:218
Alignment explanation
Indices: 34400686--34401130 Score: 705
Period size: 217 Copynumber: 2.0 Consensus size: 218
34400676 AGACTTGATT
* * * * * *
34400686 TCTTGAGTCTGCTCCACTGCAACTTCAAGGAGATAAGACTCGCTTTCTTGGGTCTGCTCCACTGC
1 TCTTCAGTCTGCTCCACTACAACTTCAAAGAGATAAGACTCGCTTACTTGAGTCTGCTCCACTAC
* * *
34400751 AACTTCAGGGAGATAAGACCCGATGCGATCTGCTCTTTGCAACTTCAGAGAGATAAGATCTGTGA
66 AACTTCAGGGAGATAAGACCAGATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGA
*
34400816 TTTTAATCCACTCCACTGCAACTTCAGAGAGATAGAATTTTTGGCTTTAATCTACTCCACTGCAA
131 TTTTAATCCACTCCACTGCAACTTCAGAGAGATAGAATTATTGGCTTTAATCTACTCCACTGCAA
34400881 CTTCAGGGAGATAAGATTCGCCA
196 CTTCAGGGAGATAAGATTCGCCA
* * *
34400904 TCTTCAGTCTGCTTCACTACAACTTCAGAAG-GATAAGGCTTGCTTACTT-AGTCTGCTCCACTA
1 TCTTCAGTCTGCTCCACTACAACTTCA-AAGAGATAAGACTCGCTTACTTGAGTCTGCTCCACTA
*
34400967 CAACTTCAGGGAGATAAGACTAGATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTG
65 CAACTTCAGGGAGATAAGACCAGATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTG
* * *
34401032 ATTTTAATCCGCTCCACTGCGACTTCAGAGAGATAGGATTATTGGCTTTAATCTACTCCACTGCA
130 ATTTTAATCCACTCCACTGCAACTTCAGAGAGATAGAATTATTGGCTTTAATCTACTCCACTGCA
*
34401097 ACTTCAGGGAGATAAGATTCGTCA
195 ACTTCAGGGAGATAAGATTCGCCA
34401121 TCTTCAGTCT
1 TCTTCAGTCT
34401131 TTTAAATTGC
Statistics
Matches: 208, Mismatches: 18, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
217 167 0.80
218 39 0.19
219 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (218 bp):
TCTTCAGTCTGCTCCACTACAACTTCAAAGAGATAAGACTCGCTTACTTGAGTCTGCTCCACTAC
AACTTCAGGGAGATAAGACCAGATACGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGTGA
TTTTAATCCACTCCACTGCAACTTCAGAGAGATAGAATTATTGGCTTTAATCTACTCCACTGCAA
CTTCAGGGAGATAAGATTCGCCA
Found at i:34401529 original size:44 final size:44
Alignment explanation
Indices: 34401479--34401598 Score: 165
Period size: 44 Copynumber: 2.7 Consensus size: 44
34401469 ATCTGCTATT
* *
34401479 TTCAACCTACTCCACTGTTGCTCAGAGAGATAGGA-TTCACAATC
1 TTCAACCTATTCCACTGCTGCTCAGAGAGATAGGACTT-ACAATC
*
34401523 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGACTTACAATC
1 TTCAACCTATTCCACTGCTG-CTCAGAGAGATAGGACTTACAATC
34401567 TTCAACCTATTCCACTGCTG-TCAAGAGAGATA
1 TTCAACCTATTCCACTGCTGCTC-AGAGAGATA
34401599 AGGCTGGGGT
Statistics
Matches: 68, Mismatches: 4, Indels: 8
0.85 0.05 0.10
Matches are distributed among these distances:
43 1 0.01
44 64 0.94
45 3 0.04
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGCTCAGAGAGATAGGACTTACAATC
Found at i:34401662 original size:88 final size:88
Alignment explanation
Indices: 34401588--34402090 Score: 609
Period size: 88 Copynumber: 5.7 Consensus size: 88
34401578 CCACTGCTGT
** * * *
34401588 CAAGAGAGATAAGGCTGGGGTCATCGATCTGCTTCGCTTTCGGTGCAGGAAGGCAAGATCTACTA
1 CAAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTTTCGGTGCAGGAAGGCAAGATCTGCTA
*
34401653 TTTTTAACCTGCTCCGCTACAAC
66 TTTTTAACCTGCTCCGCTGCAAC
* * * * *
34401676 CCAGGGAGGCAAGGTTGGTGTCCTCGATCTGCTTCGCTGTCGGTGCAGGAAGGCAAGATCTGCTA
1 CAAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTTTCGGTGCAGGAAGGCAAGATCTGCTA
* *
34401741 TTTTTAACCTGCTCCGCTACAAG
66 TTTTTAACCTGCTCCGCTGCAAC
* * *
34401764 CTAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCG-TTATCGGTGCAAGAAGGCAAGATCTG-T
1 CAAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTT-TCGGTGCAGGAAGGCAAGATCTGCT
*
34401827 AACTTTTAACCTGCTCCGCTGCAAC
65 -ATTTTTAACCTGCTCCGCTGCAAC
* * * * * *
34401852 CTAGAGAGGCAAGGCTGGTGTCTTCGATCTACTTCGCTGTCGATGTAGGAAGACAAGATCTGCTA
1 CAAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTTTCGGTGCAGGAAGGCAAGATCTGCTA
34401917 TTTTTAACCTGCTCCGCTGCAACC
66 TTTTTAACCTGCTCCGCTGCAA-C
* *
34401941 CAAG-GAGGCAAGGTTAGTGTCTTCGATCTGCTTCG-TTGTCGGTGCAGGAAGGCAAGATCTGCT
1 CAAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTT-TCGGTGCAGGAAGGCAAGATCTGCT
* * *
34402004 ATTTTTTAACCTGTTCTGCTACAAC
65 A-TTTTTAACCTGCTCCGCTGCAAC
* * * * * * * *
34402029 CCAGGGAAGCAAGGTTGGTGTCTTCGATCTGCTTCGATGTCCGTGCAGGAAGGTAAGATCTG
1 CAAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTTTCGGTGCAGGAAGGCAAGATCTG
34402091 TTATCTTCAC
Statistics
Matches: 363, Mismatches: 43, Indels: 17
0.86 0.10 0.04
Matches are distributed among these distances:
87 3 0.01
88 284 0.78
89 75 0.21
90 1 0.00
ACGTcount: A:0.22, C:0.23, G:0.27, T:0.28
Consensus pattern (88 bp):
CAAGAGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTTTCGGTGCAGGAAGGCAAGATCTGCTA
TTTTTAACCTGCTCCGCTGCAAC
Found at i:34401774 original size:44 final size:43
Alignment explanation
Indices: 34401632--34401776 Score: 103
Period size: 44 Copynumber: 3.3 Consensus size: 43
34401622 CGCTTTCGGT
* *
34401632 GCAGGAAGGCAAGATCTACTATTTTTAACCTGCTCCGCTACAA
1 GCAGGGAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAA
* * * * ** ** * * * **
34401675 CCCAGGGAGGCAAGGT-TGGTGTCCTCGATCTGCTTCGCTGTCGGT
1 -GCAGGGAGGCAAGATCTGCTATTTTTAACCTGCTCCGCT-AC-AA
*
34401720 GCAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAA
1 GCAGGGAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAA
34401763 GCTAGGGAGGCAAG
1 GC-AGGGAGGCAAG
34401777 GCTGGTGTCT
Statistics
Matches: 67, Mismatches: 30, Indels: 8
0.64 0.29 0.08
Matches are distributed among these distances:
43 16 0.24
44 36 0.54
45 15 0.22
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (43 bp):
GCAGGGAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAA
Found at i:34401809 original size:176 final size:174
Alignment explanation
Indices: 34401598--34402090 Score: 689
Period size: 176 Copynumber: 2.8 Consensus size: 174
34401588 CAAGAGAGAT
* *
34401598 AAGGCTGGGGTCATCGATCTGCTTCGCTTTCGGTGCAGGAAGGCAAGATCTACTATTTTTAACCT
1 AAGGCTGGTGTCTTCGATCTGCTTCG-TTTCGGTGCAGGAAGGCAAGATCT-CTATTTTTAACCT
*
34401663 GCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCCTCGATCTGCTTCGCTGTCGGTGCAGGAAG
64 GCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAG
* * *
34401728 GCAAGATCTGCTATTTTTAACCTGCTCCGCTACAAGCTAGGGAGGC
129 GCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAAGGAGGC
* * *
34401774 AAGGCTGGTGTCTTCGATCTGCTTCGTTATCGGTGCAAGAAGGCAAGATCTGTAACTTTTAACCT
1 AAGGCTGGTGTCTTCGATCTGCTTCGTT-TCGGTGCAGGAAGGCAAGATCTCT-ATTTTTAACCT
* * * * * * *
34401839 GCTCCGCTGCAACCTAGAGAGGCAAGGCTGGTGTCTTCGATCTACTTCGCTGTCGATGTAGGAAG
64 GCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAG
* *
34401904 ACAAGATCTGCTATTTTTAACCTGCTCCGCTGCAACCCAAGGAGGC
129 GCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAAGGAGGC
* *
34401950 AAGGTTAGTGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAGGCAAGATCTGCTATTTTTTAACC
1 AAGGCTGGTGTCTTCGATCTGCTTCGTT-TCGGTGCAGGAAGGCAAGATCT-CTA-TTTTTAACC
* * * * *
34402015 TGTTCTGCTACAACCCAGGGAAGCAAGGTTGGTGTCTTCGATCTGCTTCGATGTCCGTGCAGGAA
63 TGCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAA
*
34402080 GGTAAGATCTG
128 GGCAAGATCTG
34402091 TTATCTTCAC
Statistics
Matches: 275, Mismatches: 38, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
175 3 0.01
176 201 0.73
177 71 0.26
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (174 bp):
AAGGCTGGTGTCTTCGATCTGCTTCGTTTCGGTGCAGGAAGGCAAGATCTCTATTTTTAACCTGC
TCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCTTCGATCTGCTTCGCTGTCGGTGCAGGAAGGC
AAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAAGGAGGC
Found at i:34401934 original size:264 final size:265
Alignment explanation
Indices: 34401598--34402091 Score: 765
Period size: 264 Copynumber: 1.9 Consensus size: 265
34401588 CAAGAGAGAT
* * * *
34401598 AAGGCTGGGGTCATCGATCTGCTTCGCTTTCGGTGCAGGAAGGCAAGATCTACTATTTTTAACCT
1 AAGGCTGGGGTCATCGATCTACTTCGCTGTCGATGCAGGAAGACAAGATCTACTATTTTTAACCT
* *
34401663 GCTCCGCTACAACCCAGGGAGGCAAGGTTGGTGTCCTCGATCTGCTTCGCTGTCGGTGCAGGAAG
66 GCTCCGCTACAACCCAAGGAGGCAAGGTTAGTGTCCTCGATCTGCTTCGCTGTCGGTGCAGGAAG
* * *
34401728 GCAAGATCTGCTA-TTTTTAACCTGCTCCGCTACAAGCTAGGGAGGCAAGGCTGGTGTCTTCGAT
131 GCAAGATCTGCTATTTTTTAACCTGCTCCGCTACAACCCAGGGAAGCAAGGCTGGTGTCTTCGAT
* *
34401792 CTGCTTCGTTATCGGTGCAAGAAGGCAAGATCTGTAACTTTTAACCTGCTCCGCTGCAACCTAGA
196 CTGCTTCGATATCCGTGCAAGAAGGCAAGATCTGTAACTTTTAACCTGCTCCGCTGCAACCTAGA
34401857 GAGGC
261 GAGGC
* * * *
34401862 AAGGCTGGTGTCTTCGATCTACTTCGCTGTCGATGTAGGAAGACAAGATCTGCTATTTTTAACCT
1 AAGGCTGGGGTCATCGATCTACTTCGCTGTCGATGCAGGAAGACAAGATCTACTATTTTTAACCT
* * *
34401927 GCTCCGCTGCAACCCAAGGAGGCAAGGTTAGTGTCTTCGATCTGCTTCGTTGTCGGTGCAGGAAG
66 GCTCCGCTACAACCCAAGGAGGCAAGGTTAGTGTCCTCGATCTGCTTCGCTGTCGGTGCAGGAAG
* * *
34401992 GCAAGATCTGCTATTTTTTAACCTGTTCTGCTACAACCCAGGGAAGCAAGGTTGGTGTCTTCGAT
131 GCAAGATCTGCTATTTTTTAACCTGCTCCGCTACAACCCAGGGAAGCAAGGCTGGTGTCTTCGAT
* * *
34402057 CTGCTTCGATGTCCGTGCAGGAAGGTAAGATCTGT
196 CTGCTTCGATATCCGTGCAAGAAGGCAAGATCTGT
34402092 TATCTTCACT
Statistics
Matches: 205, Mismatches: 24, Indels: 1
0.89 0.10 0.00
Matches are distributed among these distances:
264 130 0.63
265 75 0.37
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.28
Consensus pattern (265 bp):
AAGGCTGGGGTCATCGATCTACTTCGCTGTCGATGCAGGAAGACAAGATCTACTATTTTTAACCT
GCTCCGCTACAACCCAAGGAGGCAAGGTTAGTGTCCTCGATCTGCTTCGCTGTCGGTGCAGGAAG
GCAAGATCTGCTATTTTTTAACCTGCTCCGCTACAACCCAGGGAAGCAAGGCTGGTGTCTTCGAT
CTGCTTCGATATCCGTGCAAGAAGGCAAGATCTGTAACTTTTAACCTGCTCCGCTGCAACCTAGA
GAGGC
Found at i:34403233 original size:22 final size:23
Alignment explanation
Indices: 34403185--34403234 Score: 59
Period size: 21 Copynumber: 2.2 Consensus size: 23
34403175 TTCTTTCTTC
*
34403185 TTTTCTCTCTCTATTTTTTTGCT
1 TTTTCTCTCTCTATTTTTTTGAT
*
34403208 TTTTCT-TCT-TATTTTTTTTAT
1 TTTTCTCTCTCTATTTTTTTGAT
34403229 ATTTTC
1 -TTTTC
34403235 AAATATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 10 0.42
22 8 0.33
23 6 0.25
ACGTcount: A:0.08, C:0.16, G:0.02, T:0.74
Consensus pattern (23 bp):
TTTTCTCTCTCTATTTTTTTGAT
Found at i:34404224 original size:25 final size:26
Alignment explanation
Indices: 34404173--34404233 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
34404163 AAGAAAATCC
* **
34404173 AAAAGAATGAAAGAATAATTCTTTCA
1 AAAAGAATGAAAAAATAATTCGCTCA
*
34404199 AAAAGAATGAAAAAAT-ATTGGCTCA
1 AAAAGAATGAAAAAATAATTCGCTCA
34404224 AAAATGAATG
1 AAAA-GAATG
34404234 CAAAGATGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
25 10 0.33
26 20 0.67
ACGTcount: A:0.56, C:0.07, G:0.15, T:0.23
Consensus pattern (26 bp):
AAAAGAATGAAAAAATAATTCGCTCA
Found at i:34408717 original size:19 final size:19
Alignment explanation
Indices: 34408663--34408774 Score: 134
Period size: 19 Copynumber: 5.7 Consensus size: 19
34408653 TTAAATCTCG
*
34408663 AAGATTACAAAATCATATTTCT
1 AAGATTAC-ATATCATA--TCT
*
34408685 AAGATTTGCATATCATATCT
1 AAGA-TTACATATCATATCT
34408705 AAGATTACATATCATATCT
1 AAGATTACATATCATATCT
*
34408724 AAGATTGCATATCATATCT
1 AAGATTACATATCATATCT
* *
34408743 AAGATTACATATTATATTT
1 AAGATTACATATCATATCT
*
34408762 AAGATTGCATATC
1 AAGATTACATATC
34408775 CTTGAATATT
Statistics
Matches: 80, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
19 59 0.74
20 7 0.09
22 11 0.14
23 3 0.04
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (19 bp):
AAGATTACATATCATATCT
Found at i:34408736 original size:38 final size:38
Alignment explanation
Indices: 34408663--34408774 Score: 161
Period size: 38 Copynumber: 2.8 Consensus size: 38
34408653 TTAAATCTCG
*
34408663 AAGATTACAAAATCATATTTCTAAGATTTGCATATCATATCT
1 AAGATTAC-ATATCATA--TCTAAGA-TTGCATATCATATCT
34408705 AAGATTACATATCATATCTAAGATTGCATATCATATCT
1 AAGATTACATATCATATCTAAGATTGCATATCATATCT
* *
34408743 AAGATTACATATTATATTTAAGATTGCATATC
1 AAGATTACATATCATATCTAAGATTGCATATC
34408775 CTTGAATATT
Statistics
Matches: 67, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
38 45 0.67
39 7 0.10
41 7 0.10
42 8 0.12
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (38 bp):
AAGATTACATATCATATCTAAGATTGCATATCATATCT
Found at i:34410931 original size:312 final size:312
Alignment explanation
Indices: 34410366--34410991 Score: 1243
Period size: 312 Copynumber: 2.0 Consensus size: 312
34410356 CTCCACCATT
34410366 CATCATTTGCAACACCTCGATCAAGTCGTTCTCGAATGTTGTTTGCTTGACTACAACCCTTCTCC
1 CATCATTTGCAACACCTCGATCAAGTCGTTCTCGAATGTTGTTTGCTTGACTACAACCCTTCTCC
34410431 TAAGTAAACCATTGCCCATAATAATGGTCAAGTCCTTTTTTATTTGATGAAAACACAACCTCATT
66 TAAGTAAACCATTGCCCATAATAATGGTCAAGTCCTTTTTTATTTGATGAAAACACAACCTCATT
*
34410496 AAAATCCTCTAAAACTAGCCAGAGGACATGTGGACAGTCATTTAATGAACACAACAAATCCATGA
131 AAAATCCTCTAAAACTAGCCAGAGGACATGTGGACAGTCATTTAATGAACACAACAAACCCATGA
34410561 AGCCTTCCTATGATTCTCCTAGGGTGTGTCATAGAAACTAGTACACCTCCACACATTTCCTTCCA
196 AGCCTTCCTATGATTCTCCTAGGGTGTGTCATAGAAACTAGTACACCTCCACACATTTCCTTCCA
34410626 AATCTTCATATATCATTATATCAATATGCCTTCTCAAAAACGAATGGAGAGA
261 AATCTTCATATATCATTATATCAATATGCCTTCTCAAAAACGAATGGAGAGA
34410678 CATCATTTGCAACACCTCGATCAAGTCGTTCTCGAATGTTGTTTGCTTGACTACAACCCTTCTCC
1 CATCATTTGCAACACCTCGATCAAGTCGTTCTCGAATGTTGTTTGCTTGACTACAACCCTTCTCC
34410743 TAAGTAAACCATTGCCCATAATAATGGTCAAGTCCTTTTTTATTTGATGAAAACACAACCTCATT
66 TAAGTAAACCATTGCCCATAATAATGGTCAAGTCCTTTTTTATTTGATGAAAACACAACCTCATT
34410808 AAAATCCTCTAAAACTAGCCAGAGGACATGTGGACAGTCATTTAATGAACACAACAAACCCATGA
131 AAAATCCTCTAAAACTAGCCAGAGGACATGTGGACAGTCATTTAATGAACACAACAAACCCATGA
34410873 AGCCTTCCTATGATTCTCCTAGGGTGTGTCATAGAAACTAGTACACCTCCACACATTTCCTTCCA
196 AGCCTTCCTATGATTCTCCTAGGGTGTGTCATAGAAACTAGTACACCTCCACACATTTCCTTCCA
34410938 AATCTTCATATATCATTATATCAATATGCCTTCTCAAAAACGAATGGAGAGA
261 AATCTTCATATATCATTATATCAATATGCCTTCTCAAAAACGAATGGAGAGA
34410990 CA
1 CA
34410992 CCTTAATATT
Statistics
Matches: 313, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
312 313 1.00
ACGTcount: A:0.33, C:0.25, G:0.13, T:0.30
Consensus pattern (312 bp):
CATCATTTGCAACACCTCGATCAAGTCGTTCTCGAATGTTGTTTGCTTGACTACAACCCTTCTCC
TAAGTAAACCATTGCCCATAATAATGGTCAAGTCCTTTTTTATTTGATGAAAACACAACCTCATT
AAAATCCTCTAAAACTAGCCAGAGGACATGTGGACAGTCATTTAATGAACACAACAAACCCATGA
AGCCTTCCTATGATTCTCCTAGGGTGTGTCATAGAAACTAGTACACCTCCACACATTTCCTTCCA
AATCTTCATATATCATTATATCAATATGCCTTCTCAAAAACGAATGGAGAGA
Found at i:34414403 original size:42 final size:42
Alignment explanation
Indices: 34414327--34414636 Score: 310
Period size: 43 Copynumber: 7.4 Consensus size: 42
34414317 ACATCGCTAA
* * *
34414327 CTTTTGCGGCGCTT-GCATAAAGAAACGCCGCTAAAGCTCATGTT
1 CTTTAGCGGCGCTTAG-A-AAA-AAACGCCCCTAAAGATCATGTT
34414371 CTTTAGCGGCGCTTAGAAAAAAACGCCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCCCTAAAGATCATGTT
*
34414413 CTTTAGCGGCACTT--AAAAAAACGCCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCCCTAAAGATCATGTT
* * *
34414453 CTTTAGCGGAGCTTAGAAAAAAAATGCCCCTAAAAATCATGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCCCTAAAGATCATGTT
* * *
34414496 CTTTAGCGGCGCTTA-AAATAAACGCCGCTAAAGCTCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCCCTAAAGATCATGTT
* * * * *
34414537 CTTTAGCGGTGCTTTGGAAGAAAACGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCCCTAAAGA-TCATGTT
* **** *
34414580 CTATAGCGGCGCTTCTTCAAAAACGCCACTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCCCTAAAGA-TCA-TGTT
34414622 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
34414637 TTTCACAAAC
Statistics
Matches: 227, Mismatches: 31, Indels: 18
0.82 0.11 0.07
Matches are distributed among these distances:
40 38 0.17
41 33 0.15
42 70 0.31
43 71 0.31
44 14 0.06
45 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCCCTAAAGATCATGTT
Found at i:34414442 original size:40 final size:40
Alignment explanation
Indices: 34414344--34414545 Score: 253
Period size: 40 Copynumber: 4.9 Consensus size: 40
34414334 GGCGCTTGCA
* * * *
34414344 TAAAGAAACGCCGCTAAAGCTCATGTTCTTTAGCGGCGCT
1 TAAAAAAACGCCCCTAAAGATCATGTTCTTTAGCGGCACT
34414384 TAGAAAAAAACGCCCCTAAAGATCATGTTCTTTAGCGGCACT
1 T--AAAAAAACGCCCCTAAAGATCATGTTCTTTAGCGGCACT
34414426 TAAAAAAACGCCCCTAAAGATCATGTTCTTTAGCGG-AGCT
1 TAAAAAAACGCCCCTAAAGATCATGTTCTTTAGCGGCA-CT
* * *
34414466 TAGAAAAAAAATGCCCCTAAAAATCATGTTCTTTAGCGGCGCT
1 T---AAAAAAACGCCCCTAAAGATCATGTTCTTTAGCGGCACT
* *
34414509 TAAAATAAACGCCGCTAAAGCTCATGTTCTTTAGCGG
1 TAAAA-AAACGCCCCTAAAGATCATGTTCTTTAGCGG
34414546 TGCTTTGGAA
Statistics
Matches: 143, Mismatches: 11, Indels: 15
0.85 0.07 0.09
Matches are distributed among these distances:
39 1 0.01
40 43 0.30
41 27 0.19
42 36 0.25
43 36 0.25
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (40 bp):
TAAAAAAACGCCCCTAAAGATCATGTTCTTTAGCGGCACT
Found at i:34414492 original size:43 final size:41
Alignment explanation
Indices: 34414327--34414635 Score: 304
Period size: 42 Copynumber: 7.3 Consensus size: 41
34414317 ACATCGCTAA
* * *
34414327 CTTTTGCGGCGCTTGCATAAAGAAACGCCGCTAAAGCTCATGTT
1 CTTTAGCGGCGCTTG-A-AAA-AAACGCCCCTAAAGATCATGTT
34414371 CTTTAGCGGCGCTTAGAAAAAAACGCCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTT-GAAAAAAACGCCCCTAAAGATCATGTT
*
34414413 CTTTAGCGGCACTT-AAAAAAACGCCCCTAAAGATCATGTT
1 CTTTAGCGGCGCTTGAAAAAAACGCCCCTAAAGATCATGTT
* * *
34414453 CTTTAGCGGAGCTTAGAAAAAAAATGCCCCTAAAAATCATGTT
1 CTTTAGCGGCGCTT-G-AAAAAAACGCCCCTAAAGATCATGTT
* *
34414496 CTTTAGCGGCGCTT-AAAATAAACGCCGCTAAAGCTCATGTT
1 CTTTAGCGGCGCTTGAAAA-AAACGCCCCTAAAGATCATGTT
* * * *
34414537 CTTTAGCGGTGCTTTGGAAGAAAACGCCTCTAAA-AGTAATGTT
1 CTTTAGCGGCGC-TT-GAAAAAAACGCCCCTAAAGA-TCATGTT
* *** *
34414580 CTATAGCGGCGCTTCTTCAAAAACGCCACTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTT-GAAAAAAACGCCCCTAAAGA-TCA-TGTT
34414622 CTTTAGCGGCGCTT
1 CTTTAGCGGCGCTT
34414636 ATTTCACAAA
Statistics
Matches: 228, Mismatches: 27, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
40 42 0.18
41 30 0.13
42 70 0.31
43 68 0.30
44 17 0.07
45 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.27
Consensus pattern (41 bp):
CTTTAGCGGCGCTTGAAAAAAACGCCCCTAAAGATCATGTT
Found at i:34414541 original size:84 final size:82
Alignment explanation
Indices: 34414344--34414636 Score: 347
Period size: 84 Copynumber: 3.5 Consensus size: 82
34414334 GGCGCTTGCA
* * *
34414344 TAAAGAAACGCCGCTAAAGCTCATGTTCTTTAGCGGCGCTTAGAAAAAAACGCCCCTAAAGATCA
1 TAAAAAAACGCCGCTAAAGCTCATGTTCTTTAGCGGAGCTTAGAAAAAAACGCCCCTAAAAATCA
*
34414409 TGTTCTTTAGCGGCACT
66 TGTTCTTTAGCGGCGCT
* * *
34414426 TAAAAAAACGCCCCTAAAGATCATGTTCTTTAGCGGAGCTTAGAAAAAAAATGCCCCTAAAAATC
1 TAAAAAAACGCCGCTAAAGCTCATGTTCTTTAGCGGAGCTTAG-AAAAAAACGCCCCTAAAAATC
34414491 ATGTTCTTTAGCGGCGCT
65 ATGTTCTTTAGCGGCGCT
* * * * *
34414509 TAAAATAAACGCCGCTAAAGCTCATGTTCTTTAGCGGTGCTTTGGAAGAAAACGCCTCTAAAAGT
1 TAAAA-AAACGCCGCTAAAGCTCATGTTCTTTAGCGGAGC-TTAGAAAAAAACGCCCCTAAAAAT
* *
34414574 AATGTTCTATAGCGGCGCTT
64 CATGTTCTTTAGCGGCGC-T
** * *
34414594 CTTCAAAAACGCCACTAAAAG-T-AGTGTTCTTTAGCGGCGCTTA
1 -TAAAAAAACGCCGCT-AAAGCTCA-TGTTCTTTAGCGGAGCTTA
34414637 TTTCACAAAC
Statistics
Matches: 182, Mismatches: 22, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
82 39 0.21
83 41 0.23
84 66 0.36
85 29 0.16
86 7 0.04
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.26
Consensus pattern (82 bp):
TAAAAAAACGCCGCTAAAGCTCATGTTCTTTAGCGGAGCTTAGAAAAAAACGCCCCTAAAAATCA
TGTTCTTTAGCGGCGCT
Found at i:34446240 original size:19 final size:19
Alignment explanation
Indices: 34446196--34446247 Score: 52
Period size: 21 Copynumber: 2.6 Consensus size: 19
34446186 TATAAAAATA
*
34446196 TATATAAATATGTATATAT
1 TATAAAAATATGTATATAT
34446215 TAAATAAAAATATGTA-AGTAT
1 T--ATAAAAATATGTATA-TAT
34446236 TATAAAATATAT
1 TATAAAA-ATAT
34446248 TTTTCAACAA
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
19 7 0.25
20 5 0.18
21 16 0.57
ACGTcount: A:0.54, C:0.00, G:0.06, T:0.40
Consensus pattern (19 bp):
TATAAAAATATGTATATAT
Found at i:34446515 original size:6 final size:6
Alignment explanation
Indices: 34446506--34446541 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
34446496 ATATTTACAT
*
34446506 ATAAAA ATAAAA ATAAAA ATAAAA A-AAAA GTAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA A
34446542 CTTGAAGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (6 bp):
ATAAAA
Found at i:34446529 original size:18 final size:17
Alignment explanation
Indices: 34446506--34446541 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
34446496 ATATTTACAT
34446506 ATAAAAATAAAAATAAAA
1 ATAAAAA-AAAAATAAAA
*
34446524 ATAAAAAAAAAGTAAAA
1 ATAAAAAAAAAATAAAA
34446541 A
1 A
34446542 CTTGAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (17 bp):
ATAAAAAAAAAATAAAA
Found at i:34450785 original size:30 final size:30
Alignment explanation
Indices: 34450751--34450812 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
34450741 CTTAACAAGT
34450751 AAATGCCTCTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
* *
34450781 AAATGTCTTTAAAATAATAACAAAATTAAC
1 AAATGCCTCTAAAATAATAACAAAATTAAC
34450811 AA
1 AA
34450813 TAAAATAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.58, C:0.13, G:0.03, T:0.26
Consensus pattern (30 bp):
AAATGCCTCTAAAATAATAACAAAATTAAC
Found at i:34450867 original size:22 final size:22
Alignment explanation
Indices: 34450842--34450884 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
34450832 TATCCAAATA
34450842 ATAACAATAAAATAGTAGCAAC
1 ATAACAATAAAATAGTAGCAAC
* * *
34450864 ATAATAGTAAAATTGTAGCAA
1 ATAACAATAAAATAGTAGCAA
34450885 AATAGGGAGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.09, G:0.12, T:0.23
Consensus pattern (22 bp):
ATAACAATAAAATAGTAGCAAC
Found at i:34461498 original size:33 final size:33
Alignment explanation
Indices: 34461399--34461500 Score: 100
Period size: 31 Copynumber: 3.1 Consensus size: 33
34461389 ATGCGAATTT
* * *
34461399 TTATTTATATATATATATACATACTTATGTTTATGC
1 TTATTT-TATATATATATATATAC--ATATTTATAC
** *
34461435 TTATAATATATATATACATATACATA--TATAC
1 TTATTTTATATATATATATATACATATTTATAC
*
34461466 TTATTTTATATATATATATGTACATATTTATAC
1 TTATTTTATATATATATATATACATATTTATAC
34461499 TT
1 TT
34461501 TTATATTGTT
Statistics
Matches: 54, Mismatches: 10, Indels: 7
0.76 0.14 0.10
Matches are distributed among these distances:
31 26 0.48
33 9 0.17
35 15 0.28
36 4 0.07
ACGTcount: A:0.38, C:0.08, G:0.03, T:0.51
Consensus pattern (33 bp):
TTATTTTATATATATATATATACATATTTATAC
Found at i:34466329 original size:17 final size:18
Alignment explanation
Indices: 34466309--34466343 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
34466299 AAAGAAGAAG
34466309 AAGAAGAA-AAAAAAAGA
1 AAGAAGAACAAAAAAAGA
*
34466326 AAGAAGAACAAGAAAAGA
1 AAGAAGAACAAAAAAAGA
34466344 GAGGCCAGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.77, C:0.03, G:0.20, T:0.00
Consensus pattern (18 bp):
AAGAAGAACAAAAAAAGA
Found at i:34466329 original size:23 final size:22
Alignment explanation
Indices: 34466296--34466341 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 22
34466286 TAAAAAATGT
*
34466296 AAAAAAGAAGAAGAAGAAGAAA
1 AAAAAAGAAGAAGAACAAGAAA
34466318 AAAAAAGAAAGAAGAACAAGAAA
1 AAAAAAG-AAGAAGAACAAGAAA
34466341 A
1 A
34466342 GAGAGGCCAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (22 bp):
AAAAAAGAAGAAGAACAAGAAA
Found at i:34467851 original size:50 final size:50
Alignment explanation
Indices: 34467792--34468351 Score: 384
Period size: 50 Copynumber: 11.2 Consensus size: 50
34467782 GCAATTAAAA
* * *
34467792 AGATTGAAGCTACAACGGCGAATCTTACTTCTCTGGAGATGCAGTGGAAC
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGGAGATGCAGTGGAAC
* * * * ** *
34467842 AGATTGAAGCTACAACAGTGAATCTCACTTCCCC-GACATTGCAATTAAAA
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGGAGA-TGCAGTGGAAC
* ** * *
34467892 AGATTGAAGCCACAACGGTGAATCTTACTTCCTAGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGGAGATGCAGTGGAAC
*
34467942 AGATTGAAGCTACAACGGTGAATCTTACTTTCCCAGGCA-ATGCAGTGGAAC
1 AGATTGAAGCTACAACGGTGAATCTTAC-TTCCCCGG-AGATGCAGTGGAAC
** * * * *
34467993 AGATTGAAGCTACAACGGTGAATCTCGCTTCCCCGGCA-TTGCAAT-TAAA
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGG-AGATGCAGTGGAAC
* * * * ** * * * *
34468042 ATATTGAAGCCACAACGGCGGATCTTACTTTCCCAAGCGGTGCAATGGAAT
1 AGATTGAAGCTACAACGGTGAATCTTAC-TTCCCCGGAGATGCAGTGGAAC
* * * * *
34468093 AGATTGAAGCTACAACGGTGAATCTCACTTCCCC-GACATTGCAAT-TAAA
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGGAGA-TGCAGTGGAAC
* * * * *
34468142 AGATTGAAGCCACAACGGTGGATCTTACTTTCCCAGGCGGTGCAGTGGAAC
1 AGATTGAAGCTACAACGGTGAATCTTAC-TTCCCCGGAGATGCAGTGGAAC
* * * * * *
34468193 AGATTGAAGCTACAACGGTGAATCTTGCTTCCCC-GACATTGTAAT-TAAA
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGGAGA-TGCAGTGGAAC
* * * * * * * *
34468242 AGATTG-AGGTCACAACGGCGAATCTTACTTTCCCTGATGGTGTAGTAGAAT
1 AGATTGAAGCT-ACAACGGTGAATCTTACTTCCCCGGA-GATGCAGTGGAAC
* * * * * **
34468293 AGATTGAAGCTACGACGGCGAATGTTACTT-CCCTGACATTGCAGTCAAAC
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGGAGA-TGCAGTGGAAC
34468343 AGATTGAAG
1 AGATTGAAG
34468352 AAGCCAATCC
Statistics
Matches: 397, Mismatches: 95, Indels: 36
0.75 0.18 0.07
Matches are distributed among these distances:
48 3 0.01
49 84 0.21
50 184 0.46
51 123 0.31
52 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.23, T:0.24
Consensus pattern (50 bp):
AGATTGAAGCTACAACGGTGAATCTTACTTCCCCGGAGATGCAGTGGAAC
Found at i:34468082 original size:151 final size:150
Alignment explanation
Indices: 34467792--34468225 Score: 505
Period size: 151 Copynumber: 2.9 Consensus size: 150
34467782 GCAATTAAAA
* * *
34467792 AGATTGAAGCTACAACGGCGAATCTTACTTCTCTGG-AGATGCAGTGGAACAGATTGAAGCTACA
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCAGGCA-ATGCAGTGGAACAGATTGAAGCTACA
* *
34467856 ACAGTGAATCTCACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGTGAATCTTACT
65 ACGGTGAATCTCACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACT
* * *
34467921 TCCTAGGCGGTGCAGTGGAAC
130 TCCCAAGCGGTGCAATGGAAC
34467942 AGATTGAAGCTACAACGGTGAATCTTACTTTCCCAGGCAATGCAGTGGAACAGATTGAAGCTACA
1 AGATTGAAGCTACAACGGTGAATCTTAC-TTCCCAGGCAATGCAGTGGAACAGATTGAAGCTACA
* * * *
34468007 ACGGTGAATCTCGCTTCCCCGGCATTGCAATT-AAAATATTGAAGCCACAACGGCGGATCTTACT
65 ACGGTGAATCTCACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTAC-
*
34468071 TTCCCAAGCGGTGCAATGGAAT
129 TTCCCAAGCGGTGCAATGGAAC
* * * * * * * *
34468093 AGATTGAAGCTACAACGGTGAATCTCACTTCCCCGACATTGCAAT-TAAAAGATTGAAGCCACAA
1 AGATTGAAGCTACAACGGTGAATCTTACTTCCCAGGCAATGCAGTGGAACAGATTGAAGCTACAA
* * * * ** * ** * * * *
34468157 CGGTGGATCTTACTTTCCCAGGCGGTGCAGTGGAACAGATTGAAGCTACAACGGTGAATCTTGCT
66 CGGTGAATCTCAC-TTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACT
34468222 TCCC
130 TCCC
34468226 CGACATTGTA
Statistics
Matches: 244, Mismatches: 35, Indels: 10
0.84 0.12 0.03
Matches are distributed among these distances:
149 26 0.11
150 86 0.35
151 131 0.54
152 1 0.00
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.24
Consensus pattern (150 bp):
AGATTGAAGCTACAACGGTGAATCTTACTTCCCAGGCAATGCAGTGGAACAGATTGAAGCTACAA
CGGTGAATCTCACTTCCCCGACATTGCAATTAAAAAGATTGAAGCCACAACGGCGAATCTTACTT
CCCAAGCGGTGCAATGGAAC
Done.