Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13
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: 46006518
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2011935 characters in sequence are not A, C, G, or T
File 101 of 141
Found at i:32845239 original size:26 final size:25
Alignment explanation
Indices: 32845210--32845267 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
32845200 AAATCTCAAC
*
32845210 ATTGCCTATGAAGTTAAAAAAATTCA
1 ATTGCCTATGAA-CTAAAAAAATTCA
* **
32845236 ATTGCCTGTTTACTAAAAAAATTCA
1 ATTGCCTATGAACTAAAAAAATTCA
32845261 ATTGCCT
1 ATTGCCT
32845268 GTTTACTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
25 19 0.68
26 9 0.32
ACGTcount: A:0.40, C:0.16, G:0.10, T:0.34
Consensus pattern (25 bp):
ATTGCCTATGAACTAAAAAAATTCA
Found at i:32845258 original size:25 final size:25
Alignment explanation
Indices: 32845224--32845274 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
32845214 CCTATGAAGT
32845224 TAAAAAAATTCAATTGCCTGTTTAC
1 TAAAAAAATTCAATTGCCTGTTTAC
32845249 TAAAAAAATTCAATTGCCTGTTTAC
1 TAAAAAAATTCAATTGCCTGTTTAC
32845274 T
1 T
32845275 GAATAATTGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (25 bp):
TAAAAAAATTCAATTGCCTGTTTAC
Found at i:32847038 original size:22 final size:20
Alignment explanation
Indices: 32846980--32847039 Score: 59
Period size: 22 Copynumber: 2.9 Consensus size: 20
32846970 TAGCAAAACA
32846980 TAAAAATATTGAAAAATTTAT
1 TAAAAATATT-AAAAATTTAT
* *
32847001 AAATAAATATT-GAAATTTACT
1 TAA-AAATATTAAAAATTTA-T
32847022 TAAAAATAATTAAAAATT
1 TAAAAAT-ATTAAAAATT
32847040 AATCATAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
20 11 0.35
21 8 0.26
22 12 0.39
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (20 bp):
TAAAAATATTAAAAATTTAT
Found at i:32853616 original size:24 final size:24
Alignment explanation
Indices: 32853580--32853638 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
32853570 ATAAGAAGAT
32853580 GAAAGGTTTAAGGAAGATGAAAGGC
1 GAAAGG-TTAAGGAAGATGAAAGGC
* * * *
32853605 GGAAGGTTAAGGGATATGAAAGGT
1 GAAAGGTTAAGGAAGATGAAAGGC
32853629 GAAAGGTTAA
1 GAAAGGTTAA
32853639 ACATCCACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.42, C:0.02, G:0.37, T:0.19
Consensus pattern (24 bp):
GAAAGGTTAAGGAAGATGAAAGGC
Found at i:32855999 original size:24 final size:24
Alignment explanation
Indices: 32855963--32856021 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
32855953 ATAAGAAGAT
32855963 GAAAGGTTTAAGGAAGATGAAAGGC
1 GAAAGG-TTAAGGAAGATGAAAGGC
* * * *
32855988 GGAAGGTTAAGGGATATGAAAGGT
1 GAAAGGTTAAGGAAGATGAAAGGC
32856012 GAAAGGTTAA
1 GAAAGGTTAA
32856022 ACATCCACTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.42, C:0.02, G:0.37, T:0.19
Consensus pattern (24 bp):
GAAAGGTTAAGGAAGATGAAAGGC
Found at i:32860904 original size:33 final size:35
Alignment explanation
Indices: 32860857--32860928 Score: 112
Period size: 33 Copynumber: 2.1 Consensus size: 35
32860847 TAATATAAAT
* *
32860857 ATAAGTAGTTCCTTAACAA-ACTTTCAAGCA-AAC
1 ATAAGTAATCCCTTAACAATACTTTCAAGCATAAC
32860890 ATAAGTAATCCCTTAACAATACTTTCAAGCATAAC
1 ATAAGTAATCCCTTAACAATACTTTCAAGCATAAC
32860925 ATAA
1 ATAA
32860929 TAGAAAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
33 17 0.49
34 11 0.31
35 7 0.20
ACGTcount: A:0.44, C:0.21, G:0.07, T:0.28
Consensus pattern (35 bp):
ATAAGTAATCCCTTAACAATACTTTCAAGCATAAC
Found at i:32873692 original size:19 final size:19
Alignment explanation
Indices: 32873668--32873705 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
32873658 ATGTATTGGT
*
32873668 ATTAGATTTTTAGAGTTTA
1 ATTAGAGTTTTAGAGTTTA
*
32873687 ATTAGAGTTTTAGGGTTTA
1 ATTAGAGTTTTAGAGTTTA
32873706 TTTGATGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.29, C:0.00, G:0.21, T:0.50
Consensus pattern (19 bp):
ATTAGAGTTTTAGAGTTTA
Found at i:32881632 original size:17 final size:17
Alignment explanation
Indices: 32881601--32881642 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
32881591 ATATGCACAT
*
32881601 TTTAGTTTTAAAAAAAA
1 TTTATTTTTAAAAAAAA
32881618 -TTATTTTTGAAAAAAAA
1 TTTATTTTT-AAAAAAAA
32881635 TTTATTTT
1 TTTATTTT
32881643 GGCATGTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 7 0.32
17 8 0.36
18 7 0.32
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (17 bp):
TTTATTTTTAAAAAAAA
Found at i:32889129 original size:34 final size:34
Alignment explanation
Indices: 32889086--32889153 Score: 84
Period size: 34 Copynumber: 2.0 Consensus size: 34
32889076 GCATTTTTGA
* *
32889086 CACTGTACTGAGATGGGCTAAGG-CCAAAACTGT
1 CACTGTACTGAAAAGGGCTAAGGCCCAAAACTGT
* *
32889119 CACTGATACTGAAAAGGGCTCAGGCCCAAGACTGT
1 CACTG-TACTGAAAAGGGCTAAGGCCCAAAACTGT
32889154 TCAACTGTGC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 5 0.17
34 15 0.52
35 9 0.31
ACGTcount: A:0.31, C:0.24, G:0.26, T:0.19
Consensus pattern (34 bp):
CACTGTACTGAAAAGGGCTAAGGCCCAAAACTGT
Found at i:32889561 original size:14 final size:14
Alignment explanation
Indices: 32889542--32889579 Score: 76
Period size: 14 Copynumber: 2.7 Consensus size: 14
32889532 ACAATGAGGG
32889542 ATGTTTTAAAACAA
1 ATGTTTTAAAACAA
32889556 ATGTTTTAAAACAA
1 ATGTTTTAAAACAA
32889570 ATGTTTTAAA
1 ATGTTTTAAA
32889580 TGAATAAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.47, C:0.05, G:0.08, T:0.39
Consensus pattern (14 bp):
ATGTTTTAAAACAA
Found at i:32895231 original size:22 final size:23
Alignment explanation
Indices: 32895187--32895232 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
32895177 GACGATTTTA
32895187 AAATAATATATAAAAAGTTGAAAAC
1 AAATAATATATAAAAA--TGAAAAC
*
32895212 AAATAATATGTAAAAA-GAAAA
1 AAATAATATATAAAAATGAAAA
32895233 TTTCAAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
25 15 0.75
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (23 bp):
AAATAATATATAAAAATGAAAAC
Found at i:32899976 original size:14 final size:14
Alignment explanation
Indices: 32899957--32899987 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
32899947 TCAAAGTTTC
32899957 CAATTTTGGGTCAT
1 CAATTTTGGGTCAT
*
32899971 CAATTTTGGGTCTT
1 CAATTTTGGGTCAT
32899985 CAA
1 CAA
32899988 AGTTTCCAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.23, C:0.16, G:0.19, T:0.42
Consensus pattern (14 bp):
CAATTTTGGGTCAT
Found at i:32901485 original size:51 final size:52
Alignment explanation
Indices: 32901427--32901533 Score: 135
Period size: 51 Copynumber: 2.1 Consensus size: 52
32901417 TTTCATTTTC
** * * *
32901427 ATTTTCATTTTGGAGAAAACCACATTCATTTCGAAATGATT-CTATTTCTCA
1 ATTTTCATTAAGGAGAAAACCACAATCATTTCCAAATGATTCCTATTACTCA
* * *
32901478 ATTTTCATTAAGGAGAAAACCATAATCATTTCCAAATGTTTCCTATTACTCC
1 ATTTTCATTAAGGAGAAAACCACAATCATTTCCAAATGATTCCTATTACTCA
32901530 ATTT
1 ATTT
32901534 CTATTCATTT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
51 35 0.74
52 12 0.26
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (52 bp):
ATTTTCATTAAGGAGAAAACCACAATCATTTCCAAATGATTCCTATTACTCA
Found at i:32902985 original size:19 final size:19
Alignment explanation
Indices: 32902958--32903000 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
32902948 AGATTAATAA
*
32902958 TTAACTAATCCTAATTAAC
1 TTAACTAATCATAATTAAC
* *
32902977 TTAATTAATTATAATTAAC
1 TTAACTAATCATAATTAAC
32902996 -TAACT
1 TTAACT
32903001 CTAACCTTGA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.44, C:0.14, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAACTAATCATAATTAAC
Found at i:32906609 original size:21 final size:22
Alignment explanation
Indices: 32906583--32906635 Score: 74
Period size: 21 Copynumber: 2.5 Consensus size: 22
32906573 CTACAACTTA
*
32906583 AAGCAGAGGCAGTAGCGAGGG-
1 AAGCAGAGGCAGTAGCAAGGGC
*
32906604 AAGCAGAGGCAGTAGTAAGGGC
1 AAGCAGAGGCAGTAGCAAGGGC
32906626 AA-CAGAGGCA
1 AAGCAGAGGCA
32906636 ACAAGAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.38, C:0.15, G:0.42, T:0.06
Consensus pattern (22 bp):
AAGCAGAGGCAGTAGCAAGGGC
Found at i:32910397 original size:46 final size:45
Alignment explanation
Indices: 32910329--32910491 Score: 132
Period size: 46 Copynumber: 3.6 Consensus size: 45
32910319 TTTTTTGTAC
* * ** *
32910329 AGGTTAAACCCTAACGATTGACCAGACACTACTATTCAATTCGTGT
1 AGGTTCAACCCTAATGGGTGACCAGACACTA-TATTCGATTCGTGT
* ** **
32910375 AGGTTCAGCCCTAATGGGTGACCA-AGCACTATTACCCGATTTATGT
1 AGGTTCAACCCTAATGGGTGACCAGA-CACTA-TATTCGATTCGTGT
* * *
32910421 AGGTTCAACCCTAATGGGTGACCTGGCAGTAT-TGTCTGATTCGTGT
1 AGGTTCAACCCTAATGGGTGACCAGACACTATAT-TC-GATTCGTGT
* *
32910467 AGGTTTAACCCTAATGGGTAACCAG
1 AGGTTCAACCCTAATGGGTGACCAG
32910492 GAATTATGAT
Statistics
Matches: 91, Mismatches: 22, Indels: 8
0.75 0.18 0.07
Matches are distributed among these distances:
45 3 0.03
46 88 0.97
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (45 bp):
AGGTTCAACCCTAATGGGTGACCAGACACTATATTCGATTCGTGT
Found at i:32911293 original size:35 final size:35
Alignment explanation
Indices: 32911247--32911317 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
32911237 TATGCTTTGG
* *
32911247 ATTAGGTTTGAATGGTATTATTGAAATTTTAGGTC
1 ATTAGGTTTGAATGGTATGAATGAAATTTTAGGTC
*
32911282 ATTAGGTTTGAATGGTATGAATGACATTTTAGGTC
1 ATTAGGTTTGAATGGTATGAATGAAATTTTAGGTC
32911317 A
1 A
32911318 CCTTGTAGGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.30, C:0.04, G:0.24, T:0.42
Consensus pattern (35 bp):
ATTAGGTTTGAATGGTATGAATGAAATTTTAGGTC
Found at i:32913380 original size:18 final size:17
Alignment explanation
Indices: 32913354--32913388 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
32913344 CATGTTGCAT
32913354 GCCCATGTGGGCCCACAC
1 GCCCATGT-GGCCCACAC
*
32913372 GCCCGTGTGGCCCACAC
1 GCCCATGTGGCCCACAC
32913389 AGCCAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.14, C:0.46, G:0.29, T:0.11
Consensus pattern (17 bp):
GCCCATGTGGCCCACAC
Found at i:32928417 original size:38 final size:38
Alignment explanation
Indices: 32928374--32928448 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
32928364 AAGTAAAATC
* *
32928374 ATGCCTAAGTTATTCTTGTAATATTAATTGTTAGATAA
1 ATGCCTAAGTTATTCTTGCAATATTAATTATTAGATAA
32928412 ATGCCTAAGTTATTCTTGCAATATTAATTATTAGATA
1 ATGCCTAAGTTATTCTTGCAATATTAATTATTAGATA
32928449 CCTAATGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (38 bp):
ATGCCTAAGTTATTCTTGCAATATTAATTATTAGATAA
Found at i:32928482 original size:23 final size:23
Alignment explanation
Indices: 32928434--32928479 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
32928424 TTCTTGCAAT
* *
32928434 ATTAATTATTAGATACCTAATGA
1 ATTAATTATTAAATACATAATGA
*
32928457 ATTAATTATTAAAT-CATATTGA
1 ATTAATTATTAAATACATAATGA
32928479 A
1 A
32928480 ATTGTAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.41
Consensus pattern (23 bp):
ATTAATTATTAAATACATAATGA
Found at i:32947930 original size:14 final size:15
Alignment explanation
Indices: 32947908--32947984 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
32947898 CAATCAAACA
32947908 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
32947922 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
32947937 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
32947957 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
32947971 ACGGAAAAT-ATTTT
1 CCAGAAAATCATTTT
32947985 ACTGGCAATC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 21 0.42
15 15 0.30
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:32947949 original size:20 final size:20
Alignment explanation
Indices: 32947924--32947963 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
32947914 AATATTTTCC
*
32947924 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
32947944 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
32947964 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:32947969 original size:34 final size:35
Alignment explanation
Indices: 32947912--32947978 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
32947902 CAAACACCAG
*
32947912 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
32947947 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
32947979 TATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:32950138 original size:29 final size:29
Alignment explanation
Indices: 32950105--32950162 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
32950095 ATGCATCCAC
32950105 AACGAGTGGTTGTAACATCCCAAATGTAG
1 AACGAGTGGTTGTAACATCCCAAATGTAG
32950134 AACGAGTGGTTGTAACATCCCAAATGTAG
1 AACGAGTGGTTGTAACATCCCAAATGTAG
32950163 CGAATCCAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.34, C:0.17, G:0.24, T:0.24
Consensus pattern (29 bp):
AACGAGTGGTTGTAACATCCCAAATGTAG
Found at i:32954188 original size:14 final size:15
Alignment explanation
Indices: 32954159--32954190 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
32954149 AAAAACATCA
32954159 TAATTTTATCTATTT
1 TAATTTTATCTATTT
32954174 TAATTTTAT-TATTT
1 TAATTTTATCTATTT
32954188 TAA
1 TAA
32954191 CTATAACCAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTATCTATTT
Found at i:32958371 original size:241 final size:241
Alignment explanation
Indices: 32957924--32958417 Score: 855
Period size: 241 Copynumber: 2.1 Consensus size: 241
32957914 CAACCCACCC
*
32957924 CTTACGGAATTT-CATTTCCTTTTATTTCGACAATAGGGGTAAATTCACAATGCAACCCCTAAAA
1 CTTACAGAATTTCCATTTCCTTTTATTTCGACAATAGGGGTAAATTCACAATGCAACCCCTAAAA
32957988 CTTTGAAAGCATTAGCTATTTAGTCCAAATTTTTGCAATTACACAAGGATTTTGTTTTCTCTTCA
66 CTTTGAAAGCATTAGCTATTTAGTCCAAATTTTTGCAATTACACAAGGATTTTGTTTTCTCTTCA
* * *
32958053 AACCCCAATTCAAGTCATATTTCAACCGAATTCGTAATTGTAATTGGAAACATCCTTAACTATTC
131 AACCCCAATTCAAGTCATATTTCAACCGAATTCGTAATAGTAATTAGAAACATCCTTAACTATTA
* *
32958118 CCAAGAAGAAATAAGTATGTATCATTTCTTAAATTTGATCTTGAAT
196 CAAAGAAGAAATAAGTATGTATCAATTCTTAAATTTGATCTTGAAT
* * *
32958164 CTTATAGAATTTCCATTTCCTTTTATTTCGAGAATAGGGGTAAATTTACAATGCAACCCCTAAAA
1 CTTACAGAATTTCCATTTCCTTTTATTTCGACAATAGGGGTAAATTCACAATGCAACCCCTAAAA
32958229 CTTTGAAAGCATTAGCTATTTAGTCCAAATTTTTGCAATTACACAAGGATTTTGTTTTCTCTTCA
66 CTTTGAAAGCATTAGCTATTTAGTCCAAATTTTTGCAATTACACAAGGATTTTGTTTTCTCTTCA
* * * *
32958294 AGCCCCAATTCAAGTCATTTTTCAACTGAATTCGTAATAGTAATTAGAAACATCCTTAACTGTTA
131 AACCCCAATTCAAGTCATATTTCAACCGAATTCGTAATAGTAATTAGAAACATCCTTAACTATTA
*
32958359 CAAAGTAGAAATAAGTATGTATCAATTCTTAAATTTGATCTTGAAT
196 CAAAGAAGAAATAAGTATGTATCAATTCTTAAATTTGATCTTGAAT
32958405 CTTACAGAATTTC
1 CTTACAGAATTTC
32958418 TATCAAATGA
Statistics
Matches: 238, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
240 10 0.04
241 228 0.96
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.37
Consensus pattern (241 bp):
CTTACAGAATTTCCATTTCCTTTTATTTCGACAATAGGGGTAAATTCACAATGCAACCCCTAAAA
CTTTGAAAGCATTAGCTATTTAGTCCAAATTTTTGCAATTACACAAGGATTTTGTTTTCTCTTCA
AACCCCAATTCAAGTCATATTTCAACCGAATTCGTAATAGTAATTAGAAACATCCTTAACTATTA
CAAAGAAGAAATAAGTATGTATCAATTCTTAAATTTGATCTTGAAT
Found at i:32978262 original size:20 final size:17
Alignment explanation
Indices: 32978228--32978261 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32978218 ACTATTCCCA
32978228 AGAAGAAAAAAGTATGT
1 AGAAGAAAAAAGTATGT
*
32978245 AGAAGAAATAA-TATGT
1 AGAAGAAAAAAGTATGT
32978261 A
1 A
32978262 TCATTTCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.59, C:0.00, G:0.21, T:0.21
Consensus pattern (17 bp):
AGAAGAAAAAAGTATGT
Found at i:32984706 original size:44 final size:45
Alignment explanation
Indices: 32984627--32984722 Score: 124
Period size: 44 Copynumber: 2.2 Consensus size: 45
32984617 TTTGCTATGC
* **
32984627 ATCCACAACAATAGGCAGATTCCATCTGCGGTGTTT-TGTTGTGT
1 ATCCACAACAATAGGCAGATTCCACCTGCAATGTTTGTGTTGTGT
*
32984671 ATCCACAAGC-ATAGGCAGATTCCACCTGTAATGTTTGTGTTGTGT
1 ATCCACAA-CAATAGGCAGATTCCACCTGCAATGTTTGTGTTGTGT
*
32984716 GTCCACA
1 ATCCACA
32984723 GCCATTGGCA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
44 30 0.67
45 15 0.33
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.32
Consensus pattern (45 bp):
ATCCACAACAATAGGCAGATTCCACCTGCAATGTTTGTGTTGTGT
Found at i:32990566 original size:24 final size:24
Alignment explanation
Indices: 32990521--32990566 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
32990511 GAAGAACTTC
* *
32990521 TTATTGTGTTTCTAGAACAAAAAA
1 TTATAGTGTTTCTAGAAAAAAAAA
**
32990545 TTATAGTGTTTCTCTAAAAAAA
1 TTATAGTGTTTCTAGAAAAAAA
32990567 GTAGAAACAA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (24 bp):
TTATAGTGTTTCTAGAAAAAAAAA
Found at i:32994378 original size:30 final size:30
Alignment explanation
Indices: 32994321--32994403 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 30
32994311 GTTGCCTGCT
* * **
32994321 TCGGCAGTCATCAGCTTCTATTGGACACAA
1 TCGGCAGTCATCGGCTTCTGTCAGACACAA
*
32994351 TTGGCAGTCATCGGCTTCTGTCAGACACAA
1 TCGGCAGTCATCGGCTTCTGTCAGACACAA
* *
32994381 TCGGTAGTCATAGGCTTCTGTCA
1 TCGGCAGTCATCGGCTTCTGTCA
32994404 TATGAAATCA
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 45 1.00
ACGTcount: A:0.23, C:0.25, G:0.23, T:0.29
Consensus pattern (30 bp):
TCGGCAGTCATCGGCTTCTGTCAGACACAA
Found at i:32994418 original size:30 final size:30
Alignment explanation
Indices: 32994356--32994421 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
32994346 CACAATTGGC
* *
32994356 AGTCATCGGCTTCTGTCAGACACAATCGGT
1 AGTCATAGGCTTCTGTCAGACACAATCAGT
* *
32994386 AGTCATAGGCTTCTGTCATATGA-AATCAGT
1 AGTCATAGGCTTCTGTCAGA-CACAATCAGT
32994416 AGTCAT
1 AGTCAT
32994422 CAGCTTTTGA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 30 0.97
31 1 0.03
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.30
Consensus pattern (30 bp):
AGTCATAGGCTTCTGTCAGACACAATCAGT
Found at i:33004000 original size:16 final size:16
Alignment explanation
Indices: 33003979--33004044 Score: 57
Period size: 16 Copynumber: 4.2 Consensus size: 16
33003969 GTTCACATAT
33003979 GGGGGTTCGCATGAAA
1 GGGGGTTCGCATGAAA
* *
33003995 GGGGGTTTGCAT-ATA
1 GGGGGTTCGCATGAAA
* *
33004010 -GGTGTTCGCATGCAA
1 GGGGGTTCGCATGAAA
*
33004025 GAAGGGTT-GCATGAAA
1 G-GGGGTTCGCATGAAA
33004041 GGGG
1 GGGG
33004045 TTCACATGCA
Statistics
Matches: 37, Mismatches: 10, Indels: 7
0.69 0.19 0.13
Matches are distributed among these distances:
14 9 0.24
15 5 0.14
16 19 0.51
17 4 0.11
ACGTcount: A:0.24, C:0.11, G:0.42, T:0.23
Consensus pattern (16 bp):
GGGGGTTCGCATGAAA
Found at i:33004035 original size:30 final size:30
Alignment explanation
Indices: 33003965--33004054 Score: 83
Period size: 30 Copynumber: 2.9 Consensus size: 30
33003955 TTTGTAGGCT
* * *
33003965 AAGGGTTCACATATGGGGGTTCGCATGAAAG
1 AAGGGTT-GCATATAGGGGTTCGCATGCAAG
* *
33003996 -GGGGTTTGCATATAGGTGTTCGCATGCAAG
1 AAGGG-TTGCATATAGGGGTTCGCATGCAAG
* *
33004026 AAGGGTTGCATGAAAGGGGTTCACATGCA
1 AAGGGTTGCAT-ATAGGGGTTCGCATGCA
33004055 TGGGTTTGCT
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
30 28 0.60
31 19 0.40
ACGTcount: A:0.27, C:0.13, G:0.36, T:0.24
Consensus pattern (30 bp):
AAGGGTTGCATATAGGGGTTCGCATGCAAG
Found at i:33005569 original size:12 final size:12
Alignment explanation
Indices: 33005552--33005576 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33005542 GAACACAATT
33005552 TCAATTTTGAGA
1 TCAATTTTGAGA
33005564 TCAATTTTGAGA
1 TCAATTTTGAGA
33005576 T
1 T
33005577 TAAAGTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (12 bp):
TCAATTTTGAGA
Found at i:33007383 original size:15 final size:15
Alignment explanation
Indices: 33007329--33007493 Score: 96
Period size: 14 Copynumber: 11.5 Consensus size: 15
33007319 ATACATAAGA
33007329 AGGGTTTGCACATAT
1 AGGGTTTGCACATAT
* *
33007344 -GGGTTTGTACCT-T
1 AGGGTTTGCACATAT
* *
33007357 A-GGTTTCACACATGT
1 AGGGTTT-GCACATAT
*
33007372 AGGGTTTGCACATAC
1 AGGGTTTGCACATAT
*
33007387 AGGGTTCGCACATAT
1 AGGGTTTGCACATAT
* * *
33007402 -GGGTTCGTACCTA-
1 AGGGTTTGCACATAT
* * *
33007415 A-GGCTCGCACTTAT
1 AGGGTTTGCACATAT
*
33007429 -GGGTTTGCACCTA-
1 AGGGTTTGCACATAT
* * *
33007442 GGGGTTCGCACATGT
1 AGGGTTTGCACATAT
*
33007457 AAGGTTTGCACATAT
1 AGGGTTTGCACATAT
*
33007472 AGGGTTTGCATATAT
1 AGGGTTTGCACATAT
33007487 -GGGTTTG
1 AGGGTTTG
33007494 TACCTAGGGC
Statistics
Matches: 114, Mismatches: 27, Indels: 19
0.71 0.17 0.12
Matches are distributed among these distances:
13 15 0.13
14 50 0.44
15 44 0.39
16 5 0.04
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (15 bp):
AGGGTTTGCACATAT
Found at i:33007440 original size:27 final size:29
Alignment explanation
Indices: 33007336--33007517 Score: 99
Period size: 29 Copynumber: 6.4 Consensus size: 29
33007326 AGAAGGGTTT
* * **
33007336 GCACATATGGGTTTGTACCT-TAGGTTTC
1 GCACATATGGGTTTGCACCTACAGGGCTC
* * * *
33007364 ACACATGTAGGGTTTGCACATACAGGGTTC
1 GCACATAT-GGGTTTGCACCTACAGGGCTC
* *
33007394 GCACATATGGGTTCGTACCTA-A-GGCTC
1 GCACATATGGGTTTGCACCTACAGGGCTC
* * *
33007421 GCACTTATGGGTTTGCACCTA-GGGGTTC
1 GCACATATGGGTTTGCACCTACAGGGCTC
* * * * * *
33007449 GCACATGTAAGGTTTGCACATATAGGGTTT
1 GCACATAT-GGGTTTGCACCTACAGGGCTC
* *
33007479 GCATATATGGGTTTGTACCT--AGGGCTC
1 GCACATATGGGTTTGCACCTACAGGGCTC
*
33007506 ACACATA-GGGTT
1 GCACATATGGGTT
33007518 CCACATAGTA
Statistics
Matches: 117, Mismatches: 32, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
26 5 0.04
27 32 0.27
28 17 0.15
29 40 0.34
30 23 0.20
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (29 bp):
GCACATATGGGTTTGCACCTACAGGGCTC
Found at i:33007485 original size:13 final size:14
Alignment explanation
Indices: 33007459--33007493 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
33007449 GCACATGTAA
*
33007459 GGTTTGCACATATAG
1 GGTTTGCATATAT-G
33007474 GGTTTGCATATATG
1 GGTTTGCATATATG
33007488 GGTTTG
1 GGTTTG
33007494 TACCTAGGGC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.20, C:0.09, G:0.31, T:0.40
Consensus pattern (14 bp):
GGTTTGCATATATG
Found at i:33007487 original size:85 final size:85
Alignment explanation
Indices: 33007336--33007517 Score: 242
Period size: 85 Copynumber: 2.2 Consensus size: 85
33007326 AGAAGGGTTT
* * *
33007336 GCACATATGGGTTTGTACCTTAGGTTTCACACATGTAGGGTTTGCACATACAGGGTTCGCACATA
1 GCACATATGGGTTTGCACCTTAGGGTTCACACATGTAAGGTTTGCACATACAGGGTTCGCACATA
33007401 TGGGTTCGTACCTAAGGCTC
66 TGGGTTCGTACCTAAGGCTC
* * * * *
33007421 GCACTTATGGGTTTGCACC-TAGGGGTTCGCACATGTAAGGTTTGCACATATAGGGTTTGCATAT
1 GCACATATGGGTTTGCACCTTA-GGGTTCACACATGTAAGGTTTGCACATACAGGGTTCGCACAT
* *
33007485 ATGGGTTTGTACCTAGGGCTC
65 ATGGGTTCGTACCTAAGGCTC
*
33007506 ACACATA-GGGTT
1 GCACATATGGGTT
33007518 CCACATAGTA
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
84 7 0.08
85 77 0.92
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.31
Consensus pattern (85 bp):
GCACATATGGGTTTGCACCTTAGGGTTCACACATGTAAGGTTTGCACATACAGGGTTCGCACATA
TGGGTTCGTACCTAAGGCTC
Found at i:33008163 original size:13 final size:13
Alignment explanation
Indices: 33008147--33008171 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33008137 TTTTCTTGAA
33008147 AAAAATTCTAGGT
1 AAAAATTCTAGGT
33008160 AAAAATTCTAGG
1 AAAAATTCTAGG
33008172 GATTGAAAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.28
Consensus pattern (13 bp):
AAAAATTCTAGGT
Found at i:33011901 original size:18 final size:19
Alignment explanation
Indices: 33011856--33011902 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
33011846 ATTTAAACTA
33011856 ATAAATATT-TAAAAAATT
1 ATAAATATTATAAAAAATT
*
33011874 ATAAAAATTATAAAATAATT
1 ATAAATATTATAAAA-AATT
33011894 -T-AATATTAT
1 ATAAATATTAT
33011903 TTTAAATGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
18 15 0.60
19 6 0.24
20 4 0.16
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
ATAAATATTATAAAAAATT
Found at i:33017537 original size:82 final size:81
Alignment explanation
Indices: 33017436--33017771 Score: 386
Period size: 82 Copynumber: 4.1 Consensus size: 81
33017426 ACGATAGAAT
* * * * **
33017436 TAAATCCCGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATAAAAT
1 TAAATCCC-AAATAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCGAATAAAAT
*
33017501 CTTTTAAACGGCGGGAA
65 CTGTTAAACGGCGGGAA
33017518 TAAATCCCAAAGTAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCGAATAAAAT
1 TAAATCCCAAA-TAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCGAATAAAAT
33017583 CTGTTAAACGGCGGGAA
65 CTGTTAAACGGCGGGAA
* * * * * * *
33017600 TAAATCCCGAAATAGAGTTATTCAATTGATTCTTATTTTGAAATAAGATCAAAACCGAATAAAAT
1 TAAATCCC-AAATAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCGAATAAAAT
* * *
33017665 ATGTTAAACAGCGAGAA
65 CTGTTAAACGGCGGGAA
* * ** * *
33017682 TAAATCCTGAAATAAAATTATTCAATTAATTCTCGCTGGGAAACAAAATCAAAATAGAATAAAAT
1 TAAATCC-CAAATAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCGAATAAAAT
* * *
33017747 CTATTGAAA-GACAGGAA
65 CTGTT-AAACGGCGGGAA
33017764 TAAATCCC
1 TAAATCCC
33017772 GAAACAGGTT
Statistics
Matches: 213, Mismatches: 37, Indels: 9
0.82 0.14 0.03
Matches are distributed among these distances:
81 3 0.01
82 204 0.96
83 6 0.03
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.27
Consensus pattern (81 bp):
TAAATCCCAAATAGAATTATTCAATTAATTCTCATTTGGAAACAAAATCAAAATCGAATAAAATC
TGTTAAACGGCGGGAA
Found at i:33017606 original size:164 final size:164
Alignment explanation
Indices: 33017436--33017777 Score: 436
Period size: 164 Copynumber: 2.1 Consensus size: 164
33017426 ACGATAGAAT
* * *
33017436 TAAATCCCGAAACAAAATTATTTAATTAAATCTTGTTTGGAAACAAAATCAAAATCGAATAAAAT
1 TAAATCCCGAAACAAAATTATTCAATTAAATCTTATTTGGAAACAAAATCAAAACCGAATAAAAT
* * * * * * *
33017501 CTTTTAAACGGCGGGAATAAATCC-CAAAGTAGAATTATTCAATTAATTCTCATTTGGAAACAAA
66 ATGTTAAACAGCGAGAATAAATCCTCAAA-TAAAATTATTCAATTAATTCTCACTGGGAAACAAA
* * * *
33017565 ATCAAAATCGAATAAAATCTGTT-AAACGGCGGGAA
130 ATCAAAATAGAATAAAATCTATTGAAA-GACAGGAA
* * * * * * * *
33017600 TAAATCCCGAAATAGAGTTATTCAATTGATTCTTATTTTGAAATAAGATCAAAACCGAATAAAAT
1 TAAATCCCGAAACAAAATTATTCAATTAAATCTTATTTGGAAACAAAATCAAAACCGAATAAAAT
* *
33017665 ATGTTAAACAGCGAGAATAAATCCTGAAATAAAATTATTCAATTAATTCTCGCTGGGAAACAAAA
66 ATGTTAAACAGCGAGAATAAATCCTCAAATAAAATTATTCAATTAATTCTCACTGGGAAACAAAA
33017730 TCAAAATAGAATAAAATCTATTGAAAGACAGGAA
131 TCAAAATAGAATAAAATCTATTGAAAGACAGGAA
33017764 TAAATCCCGAAACA
1 TAAATCCCGAAACA
33017778 GGTTTTATTG
Statistics
Matches: 151, Mismatches: 25, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
164 145 0.96
165 6 0.04
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.27
Consensus pattern (164 bp):
TAAATCCCGAAACAAAATTATTCAATTAAATCTTATTTGGAAACAAAATCAAAACCGAATAAAAT
ATGTTAAACAGCGAGAATAAATCCTCAAATAAAATTATTCAATTAATTCTCACTGGGAAACAAAA
TCAAAATAGAATAAAATCTATTGAAAGACAGGAA
Found at i:33018717 original size:2 final size:2
Alignment explanation
Indices: 33018710--33018763 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
33018700 GTGGGTTCTC
33018710 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
33018752 AT AT AT AT AT AT
1 AT AT AT AT AT AT
33018764 TTCACTCTGG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33029930 original size:17 final size:17
Alignment explanation
Indices: 33029904--33029936 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
33029894 ATGCAGCCAC
*
33029904 ATTGTGATTACATTTTT
1 ATTGTCATTACATTTTT
33029921 ATTGTCATTACATTTT
1 ATTGTCATTACATTTT
33029937 CATGTTTGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:33033588 original size:163 final size:162
Alignment explanation
Indices: 33033405--33033758 Score: 476
Period size: 163 Copynumber: 2.2 Consensus size: 162
33033395 ATCAATTCTG
* * * *
33033405 TTAAACGATAAGATTAAATCCCGAAACAAAATTATTTAATTAAAACTTGTTTGGAAACAAAATCA
1 TTAAACGGT-AGAATAAATCCCGAAACAAAATTATTCAATTAAAACTCGTTTGGAAACAAAATCA
**
33033470 AAATCGAATAAAATCTGTTAAATGGC-AGAATAAATCCAGAAAAAGAATTATTCAATTAATTCTC
65 AAATCGAATAAAATCTGTTAAACAGCGAGAATAAATCCAGAAAAAGAATTATTCAATTAATTCTC
* *
33033534 ATTTGGAAACAAAATCAAAATCGAATAAAATCTA
130 ACTTGGAAACAAAATAAAAATCGAA-AAAATCTA
* **
33033568 TTAAACGGTGAGAATAAATCCCGAAACATAATTATTCAATTAATTCTCGTTTGGAAACAAAATCA
1 TTAAACGGT-AGAATAAATCCCGAAACAAAATTATTCAATTAAAACTCGTTTGGAAACAAAATCA
* * * * *
33033633 AATTTGAATAAAATCTGTTAAACAGCGGGAATAAATCCCGAAACAGAATTATTCAATTAATTCTC
65 AAATCGAATAAAATCTGTTAAACAGCGAGAATAAATCCAGAAAAAGAATTATTCAATTAATTCTC
* * * *
33033698 GCTTGGAGACAAAATAAAAATGGAAAAAATCTG
130 ACTTGGAAACAAAATAAAAATCGAAAAAATCTA
*
33033731 TTGAACGGTAGGAATAAATCCCGAAACA
1 TTAAACGGTA-GAATAAATCCCGAAACA
33033759 GGTTTTATTG
Statistics
Matches: 167, Mismatches: 22, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
162 1 0.01
163 111 0.66
164 55 0.33
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.27
Consensus pattern (162 bp):
TTAAACGGTAGAATAAATCCCGAAACAAAATTATTCAATTAAAACTCGTTTGGAAACAAAATCAA
AATCGAATAAAATCTGTTAAACAGCGAGAATAAATCCAGAAAAAGAATTATTCAATTAATTCTCA
CTTGGAAACAAAATAAAAATCGAAAAAATCTA
Found at i:33033623 original size:82 final size:82
Alignment explanation
Indices: 33033401--33033759 Score: 463
Period size: 82 Copynumber: 4.4 Consensus size: 82
33033391 CAAAATCAAT
* * * * * ** *
33033401 TCTGTTAAACGATAAGATTAAATCCCGAAACAAAATTATTTAATTAAAACTTGTTTGGAAACAAA
1 TCTGTTAAACGGTGAGAATAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAA
33033466 ATCAAAATCGAATAAAA
66 ATCAAAATCGAATAAAA
* * * * *
33033483 TCTGTTAAATGG-CAGAATAAATCCAGAAAAAGAATTATTCAATTAATTCTCATTTGGAAACAAA
1 TCTGTTAAACGGTGAGAATAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAA
33033547 ATCAAAATCGAATAAAA
66 ATCAAAATCGAATAAAA
* *
33033564 TCTATTAAACGGTGAGAATAAATCCCGAAACATAATTATTCAATTAATTCTCGTTTGGAAACAAA
1 TCTGTTAAACGGTGAGAATAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAA
* *
33033629 ATCAAATTTGAATAAAA
66 ATCAAAATCGAATAAAA
* * * * *
33033646 TCTGTTAAACAGCGGGAATAAATCCCGAAACAGAATTATTCAATTAATTCTCGCTTGGAGACAAA
1 TCTGTTAAACGGTGAGAATAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAA
* *
33033711 ATAAAAATGGAA-AAAA
66 ATCAAAATCGAATAAAA
*
33033727 TCTGTTGAACGGT-AGGAATAAATCCCGAAACAG
1 TCTGTTAAACGGTGA-GAATAAATCCCGAAACAG
33033760 GTTTTATTGA
Statistics
Matches: 240, Mismatches: 35, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
81 101 0.42
82 139 0.58
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.27
Consensus pattern (82 bp):
TCTGTTAAACGGTGAGAATAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAA
ATCAAAATCGAATAAAA
Found at i:33037504 original size:20 final size:20
Alignment explanation
Indices: 33037479--33037520 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
33037469 TTAGAGACTA
* *
33037479 AAACTTTTGAAATATTTCTG
1 AAACTTCTGAAAAATTTCTG
33037499 AAACTTCTGAAAAATTTCTG
1 AAACTTCTGAAAAATTTCTG
33037519 AA
1 AA
33037521 GCATAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.10, T:0.38
Consensus pattern (20 bp):
AAACTTCTGAAAAATTTCTG
Found at i:33047545 original size:164 final size:163
Alignment explanation
Indices: 33047285--33047641 Score: 450
Period size: 164 Copynumber: 2.2 Consensus size: 163
33047275 AATTATGTTG
* * * * * *
33047285 AACGACAGGACTAAATCTCGAAACAAAATCATTTAATTAAATCTTGTTTGGAAATAAAATCAAAA
1 AACGGCAGGAATAAATCTCGAAAC-AAATTATTCAATTAAATCTTGTTTGAAAACAAAATCAAAA
* **
33047350 TCGAATAAAATCTATTCAAAGGAGGGAATAAATCCCGAAACAGAATTATTCAATTAATTATCGTT
65 TCAAATAAAATCTATTCAAAGGAAAGAATAAATCCCGAAACAGAATTATTCAATTAATTATCGTT
*
33047415 TGGAAACAAAATCAAAATCAAATTAAATCTATTA
130 TGGAAACAAAATCAAAATCAAATAAAATCTATTA
* * *
33047449 AACGGCGGGAATAAATC-CTGAAACAGAATTATTCAATT-AATTTTAGTTTGAAAACAAAATTAA
1 AACGGCAGGAATAAATCTC-GAAACA-AATTATTCAATTAAATCTT-GTTTGAAAACAAAATCAA
* * * *
33047512 AATCAAATAAAATCTATT-AAATGACAAGAATAAATCCCGAAATAGAATTATTCAATTACTTCTC
63 AATCAAATAAAATCTATTCAAAGGA-AAGAATAAATCCCGAAACAGAATTATTCAATTAATTATC
** * *
33047576 GTTTGGAAACAAAATCAAAATGGAATAAAATCTGTTG
127 GTTTGGAAACAAAATCAAAATCAAATAAAATCTATTA
*
33047613 AACTGCAGGAATAAATCTCGAAACAAATT
1 AACGGCAGGAATAAATCTCGAAACAAATT
33047642 TTATTAAATT
Statistics
Matches: 165, Mismatches: 23, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
163 16 0.10
164 148 0.90
165 1 0.01
ACGTcount: A:0.48, C:0.13, G:0.12, T:0.27
Consensus pattern (163 bp):
AACGGCAGGAATAAATCTCGAAACAAATTATTCAATTAAATCTTGTTTGAAAACAAAATCAAAAT
CAAATAAAATCTATTCAAAGGAAAGAATAAATCCCGAAACAGAATTATTCAATTAATTATCGTTT
GGAAACAAAATCAAAATCAAATAAAATCTATTA
Found at i:33047625 original size:82 final size:82
Alignment explanation
Indices: 33047282--33047641 Score: 395
Period size: 82 Copynumber: 4.4 Consensus size: 82
33047272 ATCAATTATG
* * * * * * * *
33047282 TTGAAC-GACAGGACTAAATCTCGAAACAAAATCATTTAATTAAATCTTGTTTGGAAATAAAATC
1 TTGAACTG-CAGGAATAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATC
*
33047346 AAAATCGAATAAAATCTA
65 AAAATCAAATAAAATCTA
* * * *
33047364 TTCAA-AGGAGGGAATAAATCCCGAAACAGAATTATTCAATTAATTATCGTTTGGAAACAAAATC
1 TTGAACTGCA-GGAATAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATC
*
33047428 AAAATCAAATTAAATCTA
65 AAAATCAAATAAAATCTA
* * * * * * * *
33047446 TTAAACGGCGGGAATAAATCCTGAAACAGAATTATTCAATTAATTTTAGTTTGAAAACAAAATTA
1 TTGAACTGCAGGAATAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCA
33047511 AAATCAAATAAAATCTA
66 AAATCAAATAAAATCTA
* * * *
33047528 TT-AAATGACAAGAATAAATCCCGAAATAGAATTATTCAATTACTTCTCGTTTGGAAACAAAATC
1 TTGAACTG-CAGGAATAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATC
** *
33047592 AAAATGGAATAAAATCTG
65 AAAATCAAATAAAATCTA
*
33047610 TTGAACTGCAGGAATAAATCTCGAAACA-AATT
1 TTGAACTGCAGGAATAAATCCCGAAACAGAATT
33047642 TTATTAAATT
Statistics
Matches: 232, Mismatches: 41, Indels: 11
0.82 0.14 0.04
Matches are distributed among these distances:
81 8 0.03
82 219 0.94
83 5 0.02
ACGTcount: A:0.47, C:0.13, G:0.12, T:0.28
Consensus pattern (82 bp):
TTGAACTGCAGGAATAAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCA
AAATCAAATAAAATCTA
Found at i:33048080 original size:82 final size:82
Alignment explanation
Indices: 33047994--33048332 Score: 435
Period size: 82 Copynumber: 4.1 Consensus size: 82
33047984 CGGAAAGATG
* * * *
33047994 AAATCCCGAAACAAAATTATTTAATTAAATCTTGTTTAGAAACAAAATCAAAATCGAATAAAATC
1 AAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTAGAAACAAAATCAAAATCGAATAAAATC
**
33048059 TGTTAAACGGGGGGAAT
66 TGTTAAACGACGGGAAT
* * *
33048076 AAATCTCGAAACAGAATTATTCAATTAATTCTCGTTTGGAAACAAAATCAAAATCTAATAAAATC
1 AAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTAGAAACAAAATCAAAATCGAATAAAATC
* * *
33048141 CGTGAAACGGCGGGAAT
66 TGTTAAACGACGGGAAT
* * * * *
33048158 AAATCCCAAAACATAATTATTCAATTAATTCTCCTTTGGAAACAAAATTAAAATCGAATAAAATC
1 AAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTAGAAACAAAATCAAAATCGAATAAAATC
*
33048223 TGTTAAGCGACGGGAAT
66 TGTTAAACGACGGGAAT
* * * * *
33048240 AAATCCCGAAACAGAACTATTCAATTAATTCTTGCTTAGAAACAAAATCAAAATGGATTAAAATC
1 AAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTAGAAACAAAATCAAAATCGAATAAAATC
* * **
33048305 TGCTGAACGAAAGGAAT
66 TGTTAAACGACGGGAAT
33048322 AAATCCCGAAA
1 AAATCCCGAAA
33048333 TAGGTTTTAT
Statistics
Matches: 222, Mismatches: 35, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
82 222 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (82 bp):
AAATCCCGAAACAGAATTATTCAATTAATTCTCGTTTAGAAACAAAATCAAAATCGAATAAAATC
TGTTAAACGACGGGAAT
Found at i:33048636 original size:34 final size:34
Alignment explanation
Indices: 33048590--33048664 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
33048580 GCCCTAGCCA
* * * *
33048590 CTGCCACTGCCGCATGCCTCTGCCCACCTACCTT
1 CTGCCACCGCCGCATGCCTCTACCAACCTACCCT
*
33048624 CTGCCACCGCCGCATGCCTCTACCAACCTGCCCT
1 CTGCCACCGCCGCATGCCTCTACCAACCTACCCT
33048658 CTGCCAC
1 CTGCCAC
33048665 TGCCACTGCC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 36 1.00
ACGTcount: A:0.13, C:0.52, G:0.15, T:0.20
Consensus pattern (34 bp):
CTGCCACCGCCGCATGCCTCTACCAACCTACCCT
Found at i:33049652 original size:3 final size:3
Alignment explanation
Indices: 33049644--33049674 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
33049634 ATTAATCTTG
33049644 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
33049675 TACTTATTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:33049817 original size:2 final size:2
Alignment explanation
Indices: 33049801--33049833 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
33049791 CATACATTTT
33049801 TA TA -A TA TA -A TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
33049834 GCATATACAC
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 27 0.93
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:33053266 original size:12 final size:12
Alignment explanation
Indices: 33053251--33053292 Score: 59
Period size: 12 Copynumber: 3.6 Consensus size: 12
33053241 TGAAAATGAC
33053251 AAAAAAAA-AAG
1 AAAAAAAAGAAG
*
33053262 AAAAAAGAGAAG
1 AAAAAAAAGAAG
*
33053274 AAAAACAAGAAG
1 AAAAAAAAGAAG
33053286 AAAAAAA
1 AAAAAAA
33053293 GGAAAATGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
11 7 0.27
12 19 0.73
ACGTcount: A:0.83, C:0.02, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAG
Found at i:33053267 original size:21 final size:22
Alignment explanation
Indices: 33053234--33053289 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 22
33053224 AAAATATTTC
*
33053234 AAAAAA-ATGAAAATGACAA-AA
1 AAAAAAGAAGAAAA-GACAAGAA
*
33053255 AAAAAAGAA-AAAAGAGAAGAA
1 AAAAAAGAAGAAAAGACAAGAA
*
33053276 AAACAAGAAGAAAA
1 AAAAAAGAAGAAAA
33053290 AAAGGAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 4 0.14
21 20 0.69
22 5 0.17
ACGTcount: A:0.79, C:0.04, G:0.14, T:0.04
Consensus pattern (22 bp):
AAAAAAGAAGAAAAGACAAGAA
Found at i:33054710 original size:51 final size:51
Alignment explanation
Indices: 33054629--33054875 Score: 305
Period size: 51 Copynumber: 4.8 Consensus size: 51
33054619 CTGCAGACAA
* ** * * *
33054629 CGAATCTTATTTCCCTAACTTTGCAGTGGAACAAATTAAAGCTAAAGGTAG
1 CGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTAAAGGTAG
* * *
33054680 CGAATCTTGTTTCCCTGGCATTGCAATGGAATAGATTAAAGCTAAAGGCAA
1 CGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTAAAGGTAG
* * * * * * *
33054731 CGAATCCTATCTCCTTGGCGTTACAGTGGAATAGATTAAACCTAAAGGTAG
1 CGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTAAAGGTAG
* *
33054782 CGAATCTTGTTTCCCTGGCATTGCAGTGGAACAGATTAAGGCTAAAGGTAG
1 CGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTAAAGGTAG
* * *
33054833 CGAATCTTGTTTCCATGGCGTTCCAGTGGAATAGATTAAAGCT
1 CGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCT
33054876 GAAGTGGAGC
Statistics
Matches: 163, Mismatches: 33, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 163 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (51 bp):
CGAATCTTGTTTCCCTGGCATTGCAGTGGAATAGATTAAAGCTAAAGGTAG
Found at i:33054883 original size:21 final size:21
Alignment explanation
Indices: 33054857--33054900 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
33054847 ATGGCGTTCC
* *
33054857 AGTGGAATAGATTAAAGCTGA
1 AGTGGAACAAATTAAAGCTGA
*
33054878 AGTGGAGCAAATTAAAGCTGA
1 AGTGGAACAAATTAAAGCTGA
33054899 AG
1 AG
33054901 GCAGTGAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.07, G:0.30, T:0.20
Consensus pattern (21 bp):
AGTGGAACAAATTAAAGCTGA
Found at i:33055081 original size:51 final size:51
Alignment explanation
Indices: 33054976--33055082 Score: 133
Period size: 51 Copynumber: 2.1 Consensus size: 51
33054966 TTCCCTGGCG
* * * *
33054976 TTAAAGCTGAAGACAGCGAATCTTATTTCCCTGGCTTTGCAGTGGAACAAA
1 TTAAAGCTAAAGACAGCGAATCTTATTTCCCTGGCATTACAGTGAAACAAA
** * * *
33055027 TTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTGGCATTACAGTGAAATAGA
1 TTAAAGCTAAAGACAGCGAATCTTATTTCCCTGGCATTACAGTGAAACAAA
33055078 TTAAA
1 TTAAA
33055083 TCGAAGTGGA
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 47 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (51 bp):
TTAAAGCTAAAGACAGCGAATCTTATTTCCCTGGCATTACAGTGAAACAAA
Found at i:33055170 original size:51 final size:51
Alignment explanation
Indices: 33055087--33055238 Score: 205
Period size: 51 Copynumber: 3.0 Consensus size: 51
33055077 ATTAAATCGA
* * *
33055087 AGTGGAGCGGATTAAAGCTGAAGGCAGTGAATCCTATCTCCTTGGCGTTAC
1 AGTGGAACAGATTAAAGCTGAAGGCAGTGAATCTTATCTCCTTGGCGTTAC
* * * * **
33055138 AGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTATTTCCTTGGCGTTGT
1 AGTGGAACAGATTAAAGCTGAAGGCAGTGAATCTTATCTCCTTGGCGTTAC
* *
33055189 AGCGGAACAGATTAAAGCTGAAGGCAGTGAATCTTATCTCCCTGGCGTTA
1 AGTGGAACAGATTAAAGCTGAAGGCAGTGAATCTTATCTCCTTGGCGTTA
33055239 AAGCTGAAGA
Statistics
Matches: 85, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
51 85 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (51 bp):
AGTGGAACAGATTAAAGCTGAAGGCAGTGAATCTTATCTCCTTGGCGTTAC
Found at i:33055186 original size:209 final size:210
Alignment explanation
Indices: 33054780--33055186 Score: 636
Period size: 209 Copynumber: 1.9 Consensus size: 210
33054770 ACCTAAAGGT
* * *
33054780 AGCGAATCTTGTTTCCCTGGCATTGCAGTGGAACAGATTAAGGCTAAAGGTAGCGAATCTTGTTT
1 AGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAAATTAAAGCTAAAGGTAGCGAATCTTGTTT
* * *
33054845 CCATGGCGTTCCAGTGGAATAGATTAAAGCTGAAGTGGAGCAAATTAAAGCTGAAGGCAGTGAAT
66 CCATGGCATTACAGTGAAATAGATTAAAGCTGAAGTGGAGCAAATTAAAGCTGAAGGCAGTGAAT
* * * * *
33054910 CCCATCTTCTTGGCGTTACAGTGGAATAGATTAAAGTTAAAAGTAGTGAATCTTGTTTCCCTGGC
131 CCCATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAAGTAGCGAATCTTATTTCCCTGGC
33054975 GTTAAAGCTGAAGAC
196 GTTAAAGCTGAAGAC
*
33054990 AGCGAATCTTATTTCCCTGGCTTTGCAGTGGAACAAATTAAAGCTAAAGGTAGCGAATCTTGTTT
1 AGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAAATTAAAGCTAAAGGTAGCGAATCTTGTTT
* * **
33055055 CCCTGGCATTACAGTGAAATAGATTAAATC-GAAGTGGAGCGGATTAAAGCTGAAGGCAGTGAAT
66 CCATGGCATTACAGTGAAATAGATTAAAGCTGAAGTGGAGCAAATTAAAGCTGAAGGCAGTGAAT
* * *
33055119 CCTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGTAGCGAATCTTATTTCCTTGGC
131 CCCATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAAGTAGCGAATCTTATTTCCCTGGC
33055184 GTT
196 GTT
33055187 GTAGCGGAAC
Statistics
Matches: 178, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
209 92 0.52
210 86 0.48
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (210 bp):
AGCGAATCTTATTTCCCTGGCATTGCAGTGGAACAAATTAAAGCTAAAGGTAGCGAATCTTGTTT
CCATGGCATTACAGTGAAATAGATTAAAGCTGAAGTGGAGCAAATTAAAGCTGAAGGCAGTGAAT
CCCATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAAGTAGCGAATCTTATTTCCCTGGC
GTTAAAGCTGAAGAC
Found at i:33055201 original size:122 final size:122
Alignment explanation
Indices: 33054976--33055204 Score: 314
Period size: 122 Copynumber: 1.9 Consensus size: 122
33054966 TTCCCTGGCG
* * * *
33054976 TTAAAGCTGAAGACAGCGAATCTTATTTCCCTGGCTTTGCAGTGGAACAAATTAAAGCTAAAGGT
1 TTAAAGCTGAAGACAGCGAATCCTATCTCCCTGGCGTTACAGTGGAACAAATTAAAGCTAAAGGT
* * *
33055041 AGCGAATCTTGTTTCCCTGGCATTACAGTGAAATAGATTAAATCGAAGTGGAGCGGA
66 AGCGAATCTTATTTCCCTGGCATTACAGCGAAACAGATTAAATCGAAGTGGAGCGGA
* * * *
33055098 TTAAAGCTGAAGGCAGTGAATCCTATCTCCTTGGCGTTACAGTGGAACAGATTAAAGCTAAAGGT
1 TTAAAGCTGAAGACAGCGAATCCTATCTCCCTGGCGTTACAGTGGAACAAATTAAAGCTAAAGGT
* * ** *
33055163 AGCGAATCTTATTTCCTTGGCGTTGTAGCGGAACAGATTAAA
66 AGCGAATCTTATTTCCCTGGCATTACAGCGAAACAGATTAAA
33055205 GCTGAAGGCA
Statistics
Matches: 91, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
122 91 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.28
Consensus pattern (122 bp):
TTAAAGCTGAAGACAGCGAATCCTATCTCCCTGGCGTTACAGTGGAACAAATTAAAGCTAAAGGT
AGCGAATCTTATTTCCCTGGCATTACAGCGAAACAGATTAAATCGAAGTGGAGCGGA
Found at i:33055247 original size:36 final size:36
Alignment explanation
Indices: 33055200--33055273 Score: 130
Period size: 36 Copynumber: 2.1 Consensus size: 36
33055190 GCGGAACAGA
*
33055200 TTAAAGCTGAAGGCAGTGAATCTTATCTCCCTGGCG
1 TTAAAGCTGAAGACAGTGAATCTTATCTCCCTGGCG
*
33055236 TTAAAGCTGAAGACAGTGAATCTTATTTCCCTGGCG
1 TTAAAGCTGAAGACAGTGAATCTTATCTCCCTGGCG
33055272 TT
1 TT
33055274 GCAATGAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.31
Consensus pattern (36 bp):
TTAAAGCTGAAGACAGTGAATCTTATCTCCCTGGCG
Found at i:33055410 original size:143 final size:143
Alignment explanation
Indices: 33055242--33055591 Score: 468
Period size: 143 Copynumber: 2.4 Consensus size: 143
33055232 GGCGTTAAAG
* * * * *
33055242 CTGAAGACAGTGAATCTTATTTCCCTGGCGTTGCAAT-GAACAGATTAAAGCTAGAATTTATGGC
1 CTGAAGACAGCGAATATTATTTCCCTGACGTTGCAATGGAACAGATTAAAGCTACAAATTATGGC
* * * * * *
33055306 AGATCTTATCTTCCTGAAGTTTCAATGGAGTAGACTGAATACAGCGAATCTTATTTCCCTAAAGT
66 AGATCTTATCTTCCTGAAGTTACAATGGAGTAGACTGAAGACA-CCAACCTTATCTACCTAAAGT
33055371 TGCAGCGGAGCAGA
130 TGCAGCGGAGCAGA
* * *
33055385 CTGAAGACAGCGAATTTTATTTCCCTGACGTTGTAGTGGAACAGATTAAAGCTACAAATTATGGC
1 CTGAAGACAGCGAATATTATTTCCCTGACGTTGCAATGGAACAGATTAAAGCTACAAATTATGGC
* * * * * *
33055450 AGATCTTATCTTCCTGAAGTTACAGTGGCGTAGATTGAAGCCACCAGCCTTATCTACCTGAAGTT
66 AGATCTTATCTTCCTGAAGTTACAATGGAGTAGACTGAAGACACCAACCTTATCTACCTAAAGTT
33055515 GCAGCGGAGCAGA
131 GCAGCGGAGCAGA
* * * *
33055528 CTGAAGAGAGCGAATATTATTTCTCTGAAGTTGCAATGGAACAGATTAAAGCTATAAATTATGG
1 CTGAAGACAGCGAATATTATTTCCCTGACGTTGCAATGGAACAGATTAAAGCTACAAATTATGG
33055592 ATATTATCTC
Statistics
Matches: 180, Mismatches: 26, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
143 118 0.66
144 62 0.34
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (143 bp):
CTGAAGACAGCGAATATTATTTCCCTGACGTTGCAATGGAACAGATTAAAGCTACAAATTATGGC
AGATCTTATCTTCCTGAAGTTACAATGGAGTAGACTGAAGACACCAACCTTATCTACCTAAAGTT
GCAGCGGAGCAGA
Found at i:33055702 original size:180 final size:179
Alignment explanation
Indices: 33055460--33055809 Score: 511
Period size: 180 Copynumber: 1.9 Consensus size: 179
33055450 AGATCTTATC
* * *
33055460 TTCCTGAAGTTACAGTGGCGTAGATTGAAGCCACCAGCCTTATCTACCTGAAGTTGCAGCGGAGC
1 TTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTACCTAAAGTTGCAGCGGAGC
*
33055525 AGACTGAAGAGAGCGAATATTATTTCTCTGAAGTTGCAATGGAACAGATTAAAGCTATAAATTAT
66 AGACTGAAGAGAGCGAATATTATTTCTCTGAAGTTGCAATGGAACAGATTAAAGCTATAAATTAC
* *
33055590 GGATATTATCTCTCTGAAGTTGCAGTAGAGCAGATCATATCAAACCTTA
131 AGATATTATCTCTCTGAAGTTGCAATAGAGCAGATCATATCAAACCTTA
* * ** * *
33055639 TTCCTTGAAGTTCCAGTGGAGCAGGTTGAAGTTACTAGCCTTATCTTCCTAAAGTTGCAGCGGAG
1 TTCC-TGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTACCTAAAGTTGCAGCGGAG
* * * * * *
33055704 CAGACTGAAGATAGCGGATCTTATTTCTCTGAAGTTGCAGTGGAACAGATTGAAGCTATAAATTG
65 CAGACTGAAGAGAGCGAATATTATTTCTCTGAAGTTGCAATGGAACAGATTAAAGCTATAAATTA
* *
33055769 CAGATCTTATCTCTTTGAAGTTGCAATAGAGCAGATCATAT
130 CAGATATTATCTCTCTGAAGTTGCAATAGAGCAGATCATAT
33055810 TAAGTCGTAT
Statistics
Matches: 150, Mismatches: 20, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
179 4 0.03
180 146 0.97
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (179 bp):
TTCCTGAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTACCTAAAGTTGCAGCGGAGC
AGACTGAAGAGAGCGAATATTATTTCTCTGAAGTTGCAATGGAACAGATTAAAGCTATAAATTAC
AGATATTATCTCTCTGAAGTTGCAATAGAGCAGATCATATCAAACCTTA
Found at i:33056337 original size:27 final size:28
Alignment explanation
Indices: 33056300--33056363 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 28
33056290 TAAATTTCAA
*
33056300 ATTTTAT-ATATATATATATGCATACAT
1 ATTTTATAATATATATATATACATACAT
33056327 -TTTTATAATATATATATATACATACAT
1 ATTTTATAATATATATATATACATACAT
*
33056354 ATTTTTTAAT
1 ATTTTATAAT
33056364 TTTTATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
26 6 0.18
27 19 0.58
28 8 0.24
ACGTcount: A:0.41, C:0.06, G:0.02, T:0.52
Consensus pattern (28 bp):
ATTTTATAATATATATATATACATACAT
Found at i:33056383 original size:38 final size:38
Alignment explanation
Indices: 33056325--33056406 Score: 121
Period size: 38 Copynumber: 2.2 Consensus size: 38
33056315 ATATGCATAC
* *
33056325 ATTTTTATAATATATATATATACATACATA-TTTTTTA
1 ATTTTTATAATATATATATATACACACATACTTTTATA
33056362 ATTTTTATAAATATATATATATACACACATACTTTTATA
1 ATTTTTAT-AATATATATATATACACACATACTTTTATA
*
33056401 TTTTTT
1 ATTTTT
33056407 TTATATTTCA
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
37 8 0.20
38 21 0.52
39 11 0.28
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (38 bp):
ATTTTTATAATATATATATATACACACATACTTTTATA
Found at i:33057989 original size:5 final size:5
Alignment explanation
Indices: 33057981--33058011 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
33057971 AATTGCTTGG
33057981 AATCA AATCA AATCA AATCA AATCA AATCA A
1 AATCA AATCA AATCA AATCA AATCA AATCA A
33058012 GATATTTGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.61, C:0.19, G:0.00, T:0.19
Consensus pattern (5 bp):
AATCA
Found at i:33059463 original size:17 final size:17
Alignment explanation
Indices: 33059441--33059474 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
33059431 AATTAAGATT
33059441 TATAAAGGTGAGGCCAA
1 TATAAAGGTGAGGCCAA
33059458 TATAAAGGTGAGGCCAA
1 TATAAAGGTGAGGCCAA
33059475 CCTTTACCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.29, T:0.18
Consensus pattern (17 bp):
TATAAAGGTGAGGCCAA
Found at i:33060519 original size:27 final size:27
Alignment explanation
Indices: 33060484--33060543 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
33060474 TTAACTTAAA
*
33060484 AACCCTAACCCTTGACTTAAAAACCCT
1 AACCCTAACCCTTAACTTAAAAACCCT
* *
33060511 AACCGTAACCCTTAATTTAAAAACCCT
1 AACCCTAACCCTTAACTTAAAAACCCT
33060538 AACCCT
1 AACCCT
33060544 TAACTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.38, C:0.35, G:0.03, T:0.23
Consensus pattern (27 bp):
AACCCTAACCCTTAACTTAAAAACCCT
Found at i:33060531 original size:48 final size:45
Alignment explanation
Indices: 33060470--33061026 Score: 504
Period size: 43 Copynumber: 12.8 Consensus size: 45
33060460 GATCTTAAAG
*
33060470 ACCCTTAACTTAAAAACCCTAACCCTTGACTTAAAAACCCTAACCGTA
1 ACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAA-C--A
* *
33060518 ACCCTTAATTTAAAAACCCTAACCCTTAACTTAAAAA-CCTTA-A
1 ACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACA
33060561 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT---A
1 ACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACA
* ** * *
33060604 ACTCTTAACTTTTAAACCCTAAATCCTTAACTT-AAAACCAT-A-A
1 ACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACA
* * * *
33060647 ACCCTTAACCTAAAAATCATAAACCCTTAACTTAAAAA-CC--ATA
1 ACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACA
* * * * *
33060690 ACTCTTAACTTTAAAACCTTAAACCCTTAACTTTAAAGCCCT-A-A
1 ACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACA
33060734 ACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCC---CTA
1 ACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAAC-A
* * *** *
33060777 ACCTTTAACTTTAAAACCCTAAAATTTAACTTTAAAACCCT-A-A
1 ACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACA
* *
33060820 ACTCTTAACTTAAAACCCCTAACCCTTAACTTAAAAACCCT-A-A
1 ACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACA
* * * *
33060863 ACCCTAAACTTGAAAACCAT-ACCCTTAACTTTAAAACCCT-A-A
1 ACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACA
* * * * *
33060905 ACCCTTAACTTAAAAACCATAAATCCTTGACCTAAAAACACT-A-A
1 ACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACA
* *
33060949 ACCCTTAACTTAAAAACCCTAACCTTTAACTTTAAAACCCT---A
1 ACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACA
*
33060991 ACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAA
1 ACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAA
33061027 TATAATTTGA
Statistics
Matches: 430, Mismatches: 66, Indels: 32
0.81 0.12 0.06
Matches are distributed among these distances:
42 81 0.19
43 229 0.53
44 77 0.18
45 4 0.01
47 4 0.01
48 35 0.08
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.27
Consensus pattern (45 bp):
ACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACA
Found at i:33060563 original size:22 final size:22
Alignment explanation
Indices: 33060470--33061026 Score: 638
Period size: 22 Copynumber: 25.7 Consensus size: 22
33060460 GATCTTAAAG
33060470 ACCCTTAACTTAAAAACCCT-A
1 ACCCTTAACTTAAAAACCCTAA
*
33060491 ACCCTTGACTTAAAAACCCTAACCGTA
1 ACCCTTAACTTAAAAACCCT-A----A
*
33060518 ACCCTTAATTTAAAAACCCT-A
1 ACCCTTAACTTAAAAACCCTAA
*
33060539 ACCCTTAACTTAAAAACCTTAA
1 ACCCTTAACTTAAAAACCCTAA
33060561 ACCCTTAACTTAAAAACCCTAA
1 ACCCTTAACTTAAAAACCCTAA
33060583 ACCCTTAACTTAAAAACCCT-A
1 ACCCTTAACTTAAAAACCCTAA
* **
33060604 ACTCTTAACTTTTAAACCCTAA
1 ACCCTTAACTTAAAAACCCTAA
* *
33060626 ATCCTTAACTT-AAAACCATAA
1 ACCCTTAACTTAAAAACCCTAA
* * *
33060647 ACCCTTAACCTAAAAATCATAA
1 ACCCTTAACTTAAAAACCCTAA
*
33060669 ACCCTTAACTTAAAAACCAT-A
1 ACCCTTAACTTAAAAACCCTAA
* * *
33060690 ACTCTTAACTTTAAAACCTTAA
1 ACCCTTAACTTAAAAACCCTAA
* *
33060712 ACCCTTAACTTTAAAGCCCTAA
1 ACCCTTAACTTAAAAACCCTAA
33060734 ACCCTTAACTTAAAAACCCT-A
1 ACCCTTAACTTAAAAACCCTAA
33060755 ACCCTTAACTTAAAAACCCCT-A
1 ACCCTTAACTTAAAAA-CCCTAA
* *
33060777 ACCTTTAACTTTAAAACCCTAA
1 ACCCTTAACTTAAAAACCCTAA
** *
33060799 A-ATTTAACTTTAAAACCCTAA
1 ACCCTTAACTTAAAAACCCTAA
* *
33060820 ACTCTTAACTTAAAACCCCT-A
1 ACCCTTAACTTAAAAACCCTAA
33060841 ACCCTTAACTTAAAAACCCTAA
1 ACCCTTAACTTAAAAACCCTAA
* * *
33060863 ACCCTAAACTTGAAAA-CC-AT
1 ACCCTTAACTTAAAAACCCTAA
*
33060883 ACCCTTAACTTTAAAACCCTAA
1 ACCCTTAACTTAAAAACCCTAA
*
33060905 ACCCTTAACTTAAAAACCATAA
1 ACCCTTAACTTAAAAACCCTAA
* * * *
33060927 ATCCTTGACCTAAAAACACTAA
1 ACCCTTAACTTAAAAACCCTAA
33060949 ACCCTTAACTTAAAAACCCT-A
1 ACCCTTAACTTAAAAACCCTAA
* *
33060970 ACCTTTAACTTTAAAACCCT-A
1 ACCCTTAACTTAAAAACCCTAA
*
33060991 ACCCTTAACTTTAAAACCCT-A
1 ACCCTTAACTTAAAAACCCTAA
33061012 ACCCTTAACTTAAAA
1 ACCCTTAACTTAAAA
33061027 TATAATTTGA
Statistics
Matches: 464, Mismatches: 56, Indels: 32
0.84 0.10 0.06
Matches are distributed among these distances:
20 15 0.03
21 209 0.45
22 221 0.48
27 19 0.04
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.27
Consensus pattern (22 bp):
ACCCTTAACTTAAAAACCCTAA
Found at i:33060648 original size:86 final size:86
Alignment explanation
Indices: 33060470--33061026 Score: 664
Period size: 86 Copynumber: 6.4 Consensus size: 86
33060460 GATCTTAAAG
*
33060470 ACCCTTAACTTAAAAACCCTAACCCTTGACTTAAAAACCCTAACCGTAACCCTTAA-TTTAAAAA
1 ACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAA-C-T----CTTAACTTT-AAAA
* *
33060534 CCCT-AACCCTTAACTTAAAAACCTTAA
59 CCCTAAACCCTTAACTTTAAAACCCTAA
*
33060561 ACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACTCTTAACTTTTAAACCCTAA
1 ACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACTCTTAACTTTAAAACCCTAA
* *
33060626 ATCCTTAAC-TTAAAACCATAA
65 ACCCTTAACTTTAAAACCCTAA
* * * * *
33060647 ACCCTTAACCTAAAAATCATAAACCCTTAACTTAAAAACCATAACTCTTAACTTTAAAACCTTAA
1 ACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCTAACTCTTAACTTTAAAACCCTAA
*
33060712 ACCCTTAACTTTAAAGCCCTAA
65 ACCCTTAACTTTAAAACCCTAA
33060734 ACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCCTAAC-CTTTAACTTTAAAACCCTA
1 ACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAA-CCCTAACTC-TTAACTTTAAAACCCTA
**
33060798 AA-ATTTAACTTTAAAACCCTAA
64 AACCCTTAACTTTAAAACCCTAA
* * * * * *
33060820 ACTCTTAACTTAAAACCCCTAACCCTTAACTTAAAAACCCTAAACCCTAAACTTGAAAA-CC-AT
1 ACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCT-AACTCTTAACTTTAAAACCCTAA
33060883 ACCCTTAACTTTAAAACCCTAA
65 ACCCTTAACTTTAAAACCCTAA
* * * * * * *
33060905 ACCCTTAACTTAAAAACCATAAATCCTTGACCTAAAAACACTAAACCCTTAACTTAAAAACCCT-
1 ACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAAAACCCT-AACTCTTAACTTTAAAACCCTA
*
33060969 AACCTTTAACTTTAAAACCCT-A
64 AACCCTTAACTTTAAAACCCTAA
*
33060991 ACCCTTAACTTTAAAACCCTAACCCTTAACTTAAAA
1 ACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAA
33061027 TATAATTTGA
Statistics
Matches: 409, Mismatches: 45, Indels: 30
0.85 0.09 0.06
Matches are distributed among these distances:
84 2 0.00
85 54 0.13
86 224 0.55
87 85 0.21
90 1 0.00
91 21 0.05
92 22 0.05
ACGTcount: A:0.43, C:0.30, G:0.01, T:0.27
Consensus pattern (86 bp):
ACCCTTAACTTAAAAACCCTAACCCTTAACTTAAAAACCCTAACTCTTAACTTTAAAACCCTAAA
CCCTTAACTTTAAAACCCTAA
Found at i:33068281 original size:125 final size:125
Alignment explanation
Indices: 33067995--33068459 Score: 670
Period size: 125 Copynumber: 3.7 Consensus size: 125
33067985 CTAGAAGCGT
* *
33067995 TTTTTTAAAC-ATTTGCTCA-AAAAGTCAACTCAAAATTATTTTTCCAGGACCTACTGTAGC-AA
1 TTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAAGACCTACTGTAGCAAA
** * *
33068057 AGCATGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATCCAGCTTGAAGCA
66 AGCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGCTTGAAGCA
*
33068117 TTTTTTTAAACTGTTTGCTCAGAAACGTCAACTCAAAATTATTTCTTCCAAGACCTACTGTAGCA
1 -TTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTT-TTCCAAGACCTACTGTAGCA
* *
33068182 AAAGCGCGTCCACGAGGGCGCGATTTC-TAATTTCTTCTCAAATAGCATCCTGTTTGAAGCA
64 AAAGCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGCTTGAAGCA
* * *
33068243 TTTTTTAAACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCTAGTGTAGCAA
1 TTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTT-TTCCAAGACCTACTGTAGCAA
33068308 AAGCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCACAA-AGCATCCTGCTTGAAGCA
65 AAGCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCA-AATAGCATCCTGCTTGAAGCA
* * * * * *
33068369 TTTTTTATAGTATTTGCTCAGAAACATCAACTCGAAATTATTTTTCGAAGGCCTACTGTAGCAAA
1 TTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAAGACCTACTGTAGCAAA
* * *
33068434 AGCGCGTACACGTGGGCGCGACTTCA
66 AGCGCGTCCACGAGGGCGCGATTTCA
33068460 AAACTCCTTC
Statistics
Matches: 311, Mismatches: 25, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
123 10 0.03
124 8 0.03
125 149 0.48
126 117 0.38
127 27 0.09
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.31
Consensus pattern (125 bp):
TTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAAGACCTACTGTAGCAAA
AGCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGCTTGAAGCA
Found at i:33069552 original size:25 final size:25
Alignment explanation
Indices: 33069524--33069571 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
33069514 GGAGTTTAGC
33069524 GTGCTCTCTGATTATTAGCACATCG
1 GTGCTCTCTGATTATTAGCACATCG
33069549 GTGCTCTCTGATTATTAGCACAT
1 GTGCTCTCTGATTATTAGCACAT
33069572 TTATGTTCTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (25 bp):
GTGCTCTCTGATTATTAGCACATCG
Found at i:33070306 original size:30 final size:31
Alignment explanation
Indices: 33070282--33070340 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
33070272 GTAAATACTC
**
33070282 AAAATTTGAAGGGTTAA-AGTGTAAATATGA
1 AAAATTTGAAGGACTAATAGTGTAAATATGA
33070312 AAAATTTGAAGGACTAATAGTGTAAATAT
1 AAAATTTGAAGGACTAATAGTGTAAATAT
33070341 TTTAAGAGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.47, C:0.02, G:0.20, T:0.31
Consensus pattern (31 bp):
AAAATTTGAAGGACTAATAGTGTAAATATGA
Found at i:33078520 original size:41 final size:41
Alignment explanation
Indices: 33078416--33078525 Score: 141
Period size: 41 Copynumber: 2.7 Consensus size: 41
33078406 GTTAATTATT
* *
33078416 CCCTGAATTGCAGACACGTGCCCCTGTTTGTACTTCAGTAC
1 CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCAGTAC
* * ** **
33078457 CCATAAATTGCACATATATGCCCCTGTTTGTACTTTGGTAC
1 CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCAGTAC
33078498 CCCTGAATTGCACATACGTG-CCCTGTTT
1 CCCTGAATTGCACATACGTGCCCCTGTTT
33078526 ACACTTCGGT
Statistics
Matches: 57, Mismatches: 12, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
40 8 0.14
41 49 0.86
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (41 bp):
CCCTGAATTGCACATACGTGCCCCTGTTTGTACTTCAGTAC
Found at i:33079409 original size:12 final size:12
Alignment explanation
Indices: 33079392--33079421 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
33079382 TCAAGCAATT
33079392 ACACGGCCTAGC
1 ACACGGCCTAGC
*
33079404 ACACGGCCTGGC
1 ACACGGCCTAGC
33079416 ACACGG
1 ACACGG
33079422 GCGTGTGGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:33082041 original size:126 final size:124
Alignment explanation
Indices: 33081856--33082331 Score: 717
Period size: 124 Copynumber: 3.8 Consensus size: 124
33081846 ATATTTTGAG
** * * *
33081856 TTGACGTTTCTGATAAAATAGTATAAAATCGCTTATAGCAGGATGTTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* * *
33081921 AAATCGCGCCCTCGTGGACGTGCTTTTGCTACAGTAGGTCACGGAAGAAATAATTATTTTT
66 AAATCGCGCCCTCGTGCACGTGCTTTTGCTACAGTAGGTCATGTAAGAAATAA-T-TTTTT
* *
33081982 TTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGCAGAATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* *
33082047 AAATCGCGGCCTCGT-CA-GTGCGCTTTTGCTATAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGCACGT--GCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
*
33082106 TTGACGTTTCTGAGCAAACAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
33082171 AAATCGCGCCCTCGTCAGCAC--GCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGT--GCACGTGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
*
33082230 TTGACGTTTCTGAGTAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
* **
33082295 AAATCGCGCCCTCGTGGACGCACTTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGCACGTGCTTTTGCTACAGTAG
33082332 CATGTTTGGG
Statistics
Matches: 323, Mismatches: 19, Indels: 18
0.90 0.05 0.05
Matches are distributed among these distances:
122 3 0.01
124 213 0.66
125 2 0.01
126 103 0.32
127 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.22, T:0.33
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAATATAAAATCGCTTCTAGCAGGATGCTATTTGAGAAGAATTTGTG
AAATCGCGCCCTCGTGCACGTGCTTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
Found at i:33084989 original size:29 final size:29
Alignment explanation
Indices: 33084946--33085725 Score: 304
Period size: 29 Copynumber: 27.2 Consensus size: 29
33084936 NNNNNNNNNN
*
33084946 AGGGTTTAGGGTTTTTAATTAAATTAAGTT
1 AGGG-TTAGGGTTTTTAATTAAATTAGGTT
33084976 AGGGTTAGGGTTTTTTAATTAAATTAGGTT
1 AGGGTTAGGG-TTTTTAATTAAATTAGGTT
33085006 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
33085035 AAGGTTAGGGTTTTTAAGTT-AA--GGGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TT
*
33085063 AGGGTT----TTTAATTAAATT--A-G--GTT
1 AGGGTTAGGGTTT--TT-AATTAAATTAGGTT
*
33085086 AGGGTTATGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
33085115 AGGGTTAAGGTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
33085139 A-GGTTACGGTTTTTAATT---TTAAGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
33085164 AAGGGTTTAGAGTTTTTAATTAAATTAGGTT
1 -AGGG-TTAGGGTTTTTAATTAAATTAGGTT
*
33085195 AGGGTTTTTAAGTTCAGGGTTTAGGGTTTTTAATTAAATTAAGTT
1 A-GG-------GTT-AGGGTTT-------TTAATTAAATTAGGTT
33085240 AGGGTTAGGGTTTTTTAATTAAATTAGGTT
1 AGGGTTAGGG-TTTTTAATTAAATTAGGTT
33085270 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
33085299 AAGGTTAGGGTTTTTAAGTT-AA--GGGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TT
*
33085327 AGGGTT----TTTAATTAAATT--A-G--GTT
1 AGGGTTAGGGTTT--TT-AATTAAATTAGGTT
*
33085350 AGGGTTATGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
33085379 AGGGTTAAGGTTTTTAATT-AA--A--TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
33085403 A-GGTTACGGTTTTTAATT---TTAAGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
*
33085428 AAGGGTTTAGAGTTTTTAATTAAATTAGGTT
1 -AGGG-TTAGGGTTTTTAATTAAATTAGGTT
*
33085459 AGGGTTTTTAAGTTCAGGGTTTAGGGTTTTTAATTAAATTAAGTT
1 A-GG-------GTT-AGGGTTT-------TTAATTAAATTAGGTT
*
33085504 AGGGTTAGGGTTTGTAATT-AA-T---TT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
33085528 A-GGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* * * *
33085556 AAGGTTAGGATTTTTAAGTT-CA--GGGTTT
1 AGGGTTAGGGTTTTTAA-TTAAATTAGG-TT
*
33085584 AGGGTT----TTTAATTAAATT--A-GA--TT
1 AGGGTTAGGGTTT--TT-AATTAAATTAGGTT
* *
33085607 AGGGTTAGGGTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
****
33085636 AGGGGTTAGGG---TT-A-GGGGTTAGGGTT
1 A-GGGTTAGGGTTTTTAATTAAATTA-GGTT
33085662 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
* *
33085691 AGGGTTAAGGTTTTTAATTAATTTAGGTT
1 AGGGTTAGGGTTTTTAATTAAATTAGGTT
33085720 AGGGTT
1 AGGGTT
33085726 TAGAGTTAAA
Statistics
Matches: 593, Mismatches: 45, Indels: 225
0.69 0.05 0.26
Matches are distributed among these distances:
23 74 0.12
24 34 0.06
25 25 0.04
26 24 0.04
27 28 0.05
28 58 0.10
29 183 0.31
30 77 0.13
31 16 0.03
36 11 0.02
37 13 0.02
38 14 0.02
44 4 0.01
45 32 0.05
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (29 bp):
AGGGTTAGGGTTTTTAATTAAATTAGGTT
Found at i:33085067 original size:22 final size:20
Alignment explanation
Indices: 33085032--33085077 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
33085022 ATTAAATTAG
33085032 GTTAAGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
33085052 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGGGTTTTTAA
33085074 -TTAA
1 GTTAA
33085078 ATTAGGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:33085109 original size:80 final size:79
Alignment explanation
Indices: 33084969--33085572 Score: 408
Period size: 80 Copynumber: 7.7 Consensus size: 79
33084959 TTTAATTAAA
*
33084969 TTAAGTT-AGGGTTAGGGTTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
1 TTAAGTTAAGGGTTAGGG-TTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGG
33085033 TTAAGGTTAGGGTTT
65 TTAAGGTTAGGGTTT
* *
33085048 TTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTATGGTTTTTAATTAAATTAGG
1 TTAAGTTAAGGG-TTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGG
* *
33085113 TTAGGGTTAAGGTTT
65 TTAAGGTTAGGGTTT
* * *
33085128 TTAA-TTAAATTAGGTTACGGTTTTTAATT---TTAAGTTAAGGGTTTAGAGTTTTTAATT-AA-
1 TTAAGTT-AA--GGGTTAGGGTTTTTAATTAAATTAAGTT-AGGG-TTAGGGTTTTTAATTAAAT
33085187 -A--TT-AGGTTAGGGTTT
61 TAGGTTAAGGTTAGGGTTT
*
33085202 TTAAGTTCAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTTAATTAAATTAG
1 TTAAGTTAAGGG-TTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGG-TTTTTAATTAAATTAG
*
33085267 GTTAGGGTTAGGGTTT
64 GTTAAGGTTAGGGTTT
* * **** *
33085283 TTAA-TTAAATTAGGTTAAGG-TTAGGGTT--TTTAAGTTAAGGGTTTAGGGTTTTTAATTAAAT
1 TTAAGTT-AA--GGGTTAGGGTTTTTAATTAAATTAAGTT-AGGG-TTAGGGTTTTTAATTAAAT
* *
33085344 TAGGTTAGGGTTATGGTTT
61 TAGGTTAAGGTTAGGGTTT
* * *
33085363 TTAA-TTAAATTAGGTTAGGGTTAAGGTTT--TT-AATTAAATTA-GGTTACGGTTTTTAATT--
1 TTAAGTT-AA--GGGTTAGGGTT----TTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAA
* *
33085421 -TTAAGTTAAGGGTTTAGAGTTT
59 ATTAGGTTAA-GG-TTAGGGTTT
* * * *
33085443 TTAA-TTAAATTAGGTTAGGG--TTT--TTAAGTTCAG---GGTTTAGGGTTTTTAATTAAATTA
1 TTAAGTT-AA--GGGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTA
* *
33085500 AGTTAGGGTTAGGGTTT
63 GGTTAAGGTTAGGGTTT
* * * * *
33085517 GTAA-TTAATTTAGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGATTTTTAA
1 TTAAGTTAA---GGGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAA
33085573 GTTCAGGGTT
Statistics
Matches: 432, Mismatches: 48, Indels: 88
0.76 0.08 0.15
Matches are distributed among these distances:
72 2 0.00
73 31 0.07
74 49 0.11
75 23 0.05
76 20 0.05
77 1 0.00
78 21 0.05
79 24 0.06
80 166 0.38
81 74 0.17
82 9 0.02
83 5 0.01
84 6 0.01
85 1 0.00
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.47
Consensus pattern (79 bp):
TTAAGTTAAGGGTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTAATTAAATTAGGT
TAAGGTTAGGGTTT
Found at i:33085139 original size:109 final size:109
Alignment explanation
Indices: 33084946--33085725 Score: 501
Period size: 109 Copynumber: 6.9 Consensus size: 109
33084936 NNNNNNNNNN
*
33084946 AGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTTAATTAAATTAGGTTAGGGT
1 AGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTATGG-TTTTTAATTAAATTAGGTTAGGGT
*
33085011 TAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTT-A
65 TAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTAA
*
33085056 AGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTATGGTTTTTAATTAAATTAGGTTAGGGTT
1 AGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTATGGTTTTTAATTAAATTAGGTTAGGGTT
* * *****
33085121 AAGGTTTTTAATTAAATTAGGTTACGGTTTTTAATTTTAAGTT-A
66 AGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA-TTAA
* *
33085165 AGGGTTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTCAGGGTTTAGGGTTTTTAATT
1 AGGGTTTAGGGTTTTTAATTAAATTAAGTTA-GG-------GTT-A-----T--GGTTTTTAATT
*
33085230 AAATTAAGTTAGGGTTAGGGTTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
50 AAATTAGGTTAGGGTTAGGG-TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* * **** * *
33085291 ATTAGG-TTAAGG-TTAGGGTT--TTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAG
1 A--GGGTTTAGGGTTTTTAATTAAATTAAGTT-AGGG-TTATGGTTTTTAATTAAATTAGGTTAG
* *
33085352 GGTTATGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAA
62 GGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* *
33085400 ATTAGG-TTACGGTTTTTAATT---TTAAGTTAAGGGTT-TAGAGTTTTTAATTAAATTAGGTTA
1 A--GGGTTTAGGGTTTTTAATTAAATTAAGTT-AGGGTTAT-G-GTTTTTAATTAAATTAGGTTA
* *
33085460 GGGTTTTTAAGTTCAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTGTAATTAA
61 -GG-------GTT-A--G-----GGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* * *
33085525 TTTA-GG-TTAGGGTTTTTAATTAAATTAGGTTAAGGTTA-GG-ATTT--TT--A--A-GTTCAG
1 ---AGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTATGGTTTTTAATTAAATTAGGTT-AG
* *
33085579 GGTTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTTTGTAATTAA
62 GG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
* **** ** * *
33085628 TTTA-GG-TTAGGGGTTAGGGTTAGGGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTT
1 ---AGGGTTTAGGGTTTTTAATTA--AATTA-AGTTAGGGTTATGGTTTTTAATTAAATTAGGTT
* *
33085691 AGGGTTAAGGTTTTTAATTAATTTAGGTTAGGGTT
60 AGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
33085726 TAGAGTTAAA
Statistics
Matches: 549, Mismatches: 59, Indels: 121
0.75 0.08 0.17
Matches are distributed among these distances:
103 57 0.10
105 3 0.01
106 10 0.02
107 2 0.00
108 7 0.01
109 175 0.32
110 79 0.14
111 2 0.00
112 1 0.00
113 28 0.05
114 5 0.01
115 3 0.01
117 13 0.02
118 6 0.01
120 1 0.00
122 2 0.00
123 1 0.00
124 11 0.02
125 88 0.16
126 37 0.07
127 9 0.02
128 9 0.02
ACGTcount: A:0.27, C:0.01, G:0.26, T:0.46
Consensus pattern (109 bp):
AGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTATGGTTTTTAATTAAATTAGGTTAGGGTT
AGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAA
Found at i:33085186 original size:21 final size:22
Alignment explanation
Indices: 33085155--33085231 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
33085145 CGGTTTTTAA
*
33085155 TTTTAAGTTAAGGGTTTAGAGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
33085177 TTTTAA-TTAAATTAGG-TTAGGGT
1 TTTTAAGTT-AA--GGGTTTAGGGT
*
33085200 TTTTAAGTTCAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
33085222 TTTTAA-TTAA
1 TTTTAAGTTAA
33085232 ATTAAGTTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
21 7 0.16
22 21 0.47
23 13 0.29
24 4 0.09
ACGTcount: A:0.27, C:0.01, G:0.23, T:0.48
Consensus pattern (22 bp):
TTTTAAGTTAAGGGTTTAGGGT
Found at i:33085284 original size:184 final size:183
Alignment explanation
Indices: 33085048--33085464 Score: 505
Period size: 184 Copynumber: 2.2 Consensus size: 183
33085038 GTTAGGGTTT
*
33085048 TTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTATGGTTTTTAATTAAATTAGG
1 TTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
*
33085113 TTAGGGTTAAGGTTTTTAA-TTAAATTAGG-TTACGGTTTTTAATT-TTAAGTTAAGGGTT-TAG
66 TTAAGGTTAAGGTTTTTAAGTT-AA--AGGTTTACGGTTTTTAATTATTAAGTT-AGGGTTAT-G
33085174 AGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTCAGGGTTTAGGGTTTTTAATTAAA
126 -GTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTCAGGGTTTAGGGTTTTTAATTAAA
33085233 TTAAGTT-AGGG-TTAGGGTTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
1 TTAAGTTAAGGGTTTAGGG-TTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAG
* * * *
33085296 GTTAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTATGGT
65 GTTAAGGTTAAGGTTTTTAAGTTAAAGGTTTACGGTTTTTAATT--ATTAAGTTAGGGTTATGGT
* * *
33085361 TTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAA-TTAAATTAGG-TTACGGTTTTTAATT---
128 TTTTAATTAAATTAGGTTA--G----GGTTTTTAAGTT-CA--GGGTTTAGGGTTTTTAATTAAA
*
33085421 TTAAGTTAAGGGTTTAGAGTTTTTAATTAAATTAGGTTAGGGTT
1 TTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTT
33085465 TTTAAGTTCA
Statistics
Matches: 204, Mismatches: 10, Indels: 32
0.83 0.04 0.13
Matches are distributed among these distances:
182 2 0.01
183 20 0.10
184 89 0.44
185 16 0.08
186 8 0.04
188 7 0.03
189 31 0.15
190 15 0.07
191 14 0.07
192 2 0.01
ACGTcount: A:0.28, C:0.01, G:0.24, T:0.47
Consensus pattern (183 bp):
TTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGG
TTAAGGTTAAGGTTTTTAAGTTAAAGGTTTACGGTTTTTAATTATTAAGTTAGGGTTATGGTTTT
TAATTAAATTAGGTTAGGGTTTTTAAGTTCAGGGTTTAGGGTTTTTAATTAAA
Found at i:33085318 original size:155 final size:154
Alignment explanation
Indices: 33085036--33085355 Score: 532
Period size: 155 Copynumber: 2.1 Consensus size: 154
33085026 AATTAGGTTA
* *
33085036 AGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAGGTTAGGGTTATGGTTTTT
1 AGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTT
* ***
33085101 AATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTACGGTTTTTAATTTTAAGTTAA
66 AATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAAGGTTAGGAATTTTAAGTTAA
33085166 GGGTTTAGAGTTTTTAATTAAATT
131 GGGTTTAGAGTTTTTAATTAAATT
*
33085190 AGGTTAGGGTTTTTAAGTTCAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTT
1 AGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGG-TTTT
* **
33085255 TAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTA
65 TAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAAGGTTAGGAATTTTAAGTTA
*
33085320 AGGGTTTAGGGTTTTTAATTAAATT
130 AGGGTTTAGAGTTTTTAATTAAATT
33085345 AGGTTAGGGTT
1 AGGTTAGGGTT
33085356 ATGGTTTTTA
Statistics
Matches: 154, Mismatches: 11, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
154 57 0.37
155 97 0.63
ACGTcount: A:0.28, C:0.01, G:0.26, T:0.46
Consensus pattern (154 bp):
AGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTT
AATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAGGTTAAGGTTAGGAATTTTAAGTTAA
GGGTTTAGAGTTTTTAATTAAATT
Found at i:33085331 original size:22 final size:20
Alignment explanation
Indices: 33085296--33085341 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 20
33085286 ATTAAATTAG
33085296 GTTAAGGTTAGGGTTTTTAA
1 GTTAAGGTTAGGGTTTTTAA
33085316 GTTAAGGGTTTAGGGTTTTTAA
1 GTTAA-GG-TTAGGGTTTTTAA
33085338 -TTAA
1 GTTAA
33085342 ATTAGGTTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 5 0.21
21 6 0.25
22 13 0.54
ACGTcount: A:0.26, C:0.00, G:0.28, T:0.46
Consensus pattern (20 bp):
GTTAAGGTTAGGGTTTTTAA
Found at i:33085416 original size:264 final size:264
Alignment explanation
Indices: 33084946--33085648 Score: 1276
Period size: 264 Copynumber: 2.7 Consensus size: 264
33084936 NNNNNNNNNN
33084946 AGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTTAATTAAATTAGGTTAGGGT
1 AGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTTAATTAAATTAGGTTAGGGT
33085011 TAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
66 TAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
33085076 AAATTAGGTTAGGGTTATGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAG
131 AAATTAGGTTAGGGTTATGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAG
33085141 GTTACGGTTTTTAATTTTAAGTTAAGGGTTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
196 GTTACGGTTTTTAATTTTAAGTTAAGGGTTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
33085206 GTTC
261 GTTC
33085210 AGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTTAATTAAATTAGGTTAGGGT
1 AGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTTAATTAAATTAGGTTAGGGT
33085275 TAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
66 TAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
33085340 AAATTAGGTTAGGGTTATGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAG
131 AAATTAGGTTAGGGTTATGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAG
33085405 GTTACGGTTTTTAATTTTAAGTTAAGGGTTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
196 GTTACGGTTTTTAATTTTAAGTTAAGGGTTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
33085470 GTTC
261 GTTC
*
33085474 AGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGG-TTTGTAATT-AA-T---TTA-GGT
1 AGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTTAATTAAATTAGGTTAGGGT
* *
33085532 TAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGATTTTTAAGTTCAGGGTTTAGGGTTTTTAATT
66 TAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
* * * * *
33085597 AAATTAGATTAGGGTTAGGGTTTGTAATTAATTTAGGTTAGGGGTTAGGGTT
131 AAATTAGGTTAGGGTTATGGTTTTTAATTAAATTAGGTTA-GGGTTAAGGTT
33085649 AGGGGTTAGG
Statistics
Matches: 430, Mismatches: 8, Indels: 8
0.96 0.02 0.02
Matches are distributed among these distances:
257 102 0.24
258 13 0.03
261 1 0.00
262 2 0.00
263 8 0.02
264 304 0.71
ACGTcount: A:0.28, C:0.01, G:0.25, T:0.46
Consensus pattern (264 bp):
AGGGTTTAGGGTTTTTAATTAAATTAAGTTAGGGTTAGGGTTTTTTAATTAAATTAGGTTAGGGT
TAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTAATT
AAATTAGGTTAGGGTTATGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAATTAG
GTTACGGTTTTTAATTTTAAGTTAAGGGTTTAGAGTTTTTAATTAAATTAGGTTAGGGTTTTTAA
GTTC
Found at i:33085450 original size:21 final size:22
Alignment explanation
Indices: 33085419--33085495 Score: 79
Period size: 22 Copynumber: 3.5 Consensus size: 22
33085409 CGGTTTTTAA
*
33085419 TTTTAAGTTAAGGGTTTAGAGT
1 TTTTAAGTTAAGGGTTTAGGGT
*
33085441 TTTTAA-TTAAATTAGG-TTAGGGT
1 TTTTAAGTT-AA--GGGTTTAGGGT
*
33085464 TTTTAAGTTCAGGGTTTAGGGT
1 TTTTAAGTTAAGGGTTTAGGGT
33085486 TTTTAA-TTAA
1 TTTTAAGTTAA
33085496 ATTAAGTTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 11
0.74 0.08 0.18
Matches are distributed among these distances:
21 7 0.16
22 21 0.47
23 13 0.29
24 4 0.09
ACGTcount: A:0.27, C:0.01, G:0.23, T:0.48
Consensus pattern (22 bp):
TTTTAAGTTAAGGGTTTAGGGT
Found at i:33085485 original size:154 final size:157
Alignment explanation
Indices: 33085270--33085726 Score: 497
Period size: 154 Copynumber: 2.9 Consensus size: 157
33085260 AAATTAGGTT
* *
33085270 AGGG-TTAGGGTTTTTAATTAAATTAGGTTAAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTT
1 AGGGTTTAGAGTTTTTAATT-AA-TAGATT-AGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTT
*
33085334 TTAATTAAATTAGGTTAGGGTTATGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTA
63 TTAATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTA
* **
33085399 AATTAGGTTACGGTTTTTAATTTTAAGTTA
128 AATTAGGTTAAGGTTTGGAATTTTAAGTTA
*
33085429 AGGGTTTAGAGTTTTTAATT-A-A-ATTAGGTTAGGGTTTTTAAGTTCAGGGTTTAGGGTTTTTA
1 AGGGTTTAGAGTTTTTAATTAATAGATTAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTA
* * *
33085491 ATTAAATTAAGTTAGGGTTAGGGTTTGTAATT-AA-T---TTA-GGTTAGGGTTTTTAATTAAAT
66 ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAAT
* * *
33085550 TAGGTTAAGGTTAGGATTTTTAAGTTC
131 TAGGTTAAGGTTTGGAATTTTAAGTTA
* * *
33085577 AGGGTTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTTTGTAA-TTAATTTAGG-TTAGGG
1 AGGGTTTAGAGTTTTTAATT-AA-TAGATTA-GGTTAGGGTTTTTAAGTTAA---GGGTTTAGGG
* **** **
33085640 GTTAGGGTTAGGGGTTAGGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTT
60 TTTTTAATTA--AATTA-GGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTT
* *
33085705 TAATTAATTTAGGTTAGGGTTT
122 TAATTAAATTAGGTTAAGGTTT
33085727 AGAGTTAAAT
Statistics
Matches: 249, Mismatches: 30, Indels: 33
0.80 0.10 0.11
Matches are distributed among these distances:
148 60 0.24
149 3 0.01
150 1 0.00
152 2 0.01
153 9 0.04
154 79 0.32
155 13 0.05
156 3 0.01
157 3 0.01
158 22 0.09
159 6 0.02
160 15 0.06
163 3 0.01
164 30 0.12
ACGTcount: A:0.27, C:0.01, G:0.27, T:0.45
Consensus pattern (157 bp):
AGGGTTTAGAGTTTTTAATTAATAGATTAGGTTAGGGTTTTTAAGTTAAGGGTTTAGGGTTTTTA
ATTAAATTAGGTTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAAAT
TAGGTTAAGGTTTGGAATTTTAAGTTA
Found at i:33085639 original size:23 final size:24
Alignment explanation
Indices: 33085495--33085639 Score: 107
Period size: 23 Copynumber: 5.8 Consensus size: 24
33085485 TTTTTAATTA
*
33085495 AATTAAGTTAGGGTTAGGGTTTGT
1 AATTAATTTAGGGTTAGGGTTTGT
*
33085519 AATTAATTTA-GGTTAGGGTTTTT
1 AATTAATTTAGGGTTAGGGTTTGT
* * *
33085542 AATTAAATTA-GGTTAAGGTTAGGAT
1 AATTAATTTAGGGTTAGGGTT-TG-T
** * *
33085567 TTTTAAGTTCAGGGTTTAGGGTTTTT
1 AATTAA-TTTAGGG-TTAGGGTTTGT
33085593 AATTAAATTAGATTAGGGTTAGGGTTTGT
1 AATT-AA-T---TTAGGGTTAGGGTTTGT
33085622 AATTAATTTA-GGTTAGGG
1 AATTAATTTAGGGTTAGGG
33085640 GTTAGGGTTA
Statistics
Matches: 94, Mismatches: 18, Indels: 19
0.72 0.14 0.15
Matches are distributed among these distances:
23 38 0.40
24 12 0.13
25 5 0.05
26 5 0.05
27 6 0.06
28 9 0.10
29 14 0.15
30 5 0.05
ACGTcount: A:0.28, C:0.01, G:0.27, T:0.44
Consensus pattern (24 bp):
AATTAATTTAGGGTTAGGGTTTGT
Found at i:33085649 original size:6 final size:6
Alignment explanation
Indices: 33085632--33085673 Score: 66
Period size: 6 Copynumber: 6.7 Consensus size: 6
33085622 AATTAATTTA
33085632 GGTTAGG GGTTAG GGTTAGG GGTTAG GGTTAG GGTTAG GGTT
1 GGTTA-G GGTTAG GGTTA-G GGTTAG GGTTAG GGTTAG GGTT
33085674 TTTAATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
6 23 0.68
7 11 0.32
ACGTcount: A:0.14, C:0.00, G:0.52, T:0.33
Consensus pattern (6 bp):
GGTTAG
Found at i:33085650 original size:13 final size:13
Alignment explanation
Indices: 33085632--33085673 Score: 77
Period size: 13 Copynumber: 3.3 Consensus size: 13
33085622 AATTAATTTA
33085632 GGTTAGGGGTTAG
1 GGTTAGGGGTTAG
33085645 GGTTAGGGGTTAG
1 GGTTAGGGGTTAG
33085658 GGTTA-GGGTTAG
1 GGTTAGGGGTTAG
33085670 GGTT
1 GGTT
33085674 TTTAATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
12 11 0.38
13 18 0.62
ACGTcount: A:0.14, C:0.00, G:0.52, T:0.33
Consensus pattern (13 bp):
GGTTAGGGGTTAG
Found at i:33085662 original size:19 final size:20
Alignment explanation
Indices: 33085632--33085671 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
33085622 AATTAATTTA
33085632 GGTTAGGGGTTAGGGTTAGG
1 GGTTAGGGGTTAGGGTTAGG
33085652 GGTTA-GGGTTAGGGTTAGG
1 GGTTAGGGGTTAGGGTTAGG
33085671 G
1 G
33085672 TTTTTAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.15, C:0.00, G:0.55, T:0.30
Consensus pattern (20 bp):
GGTTAGGGGTTAGGGTTAGG
Found at i:33085685 original size:84 final size:85
Alignment explanation
Indices: 33085577--33085733 Score: 262
Period size: 84 Copynumber: 1.9 Consensus size: 85
33085567 TTTTAAGTTC
*
33085577 AGGGTTTAGGGTTTTTAATTAAATTAGATTAGGGTTAGGGTTTGTAATTAATTTAGGTTAGGGGT
1 AGGGTTTAGGGTTTTTAATTAAATTAGATTAGGGTTAAGGTTTGTAATTAATTTAGGTTAGGGGT
*
33085642 TAGGGTTAGGGGTTAGGGTT
66 TAGAGTTAGGGGTTAGGGTT
* * *
33085662 AGGG-TTAGGGTTTTTAATTAAATTAGGTTAGGGTTAAGGTTTTTAATTAATTTAGGTTAGGGTT
1 AGGGTTTAGGGTTTTTAATTAAATTAGATTAGGGTTAAGGTTTGTAATTAATTTAGGTTAGGGGT
33085726 TAGAGTTA
66 TAGAGTTA
33085734 AATTAGGTTA
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
84 63 0.94
85 4 0.06
ACGTcount: A:0.25, C:0.00, G:0.32, T:0.43
Consensus pattern (85 bp):
AGGGTTTAGGGTTTTTAATTAAATTAGATTAGGGTTAAGGTTTGTAATTAATTTAGGTTAGGGGT
TAGAGTTAGGGGTTAGGGTT
Found at i:33085694 original size:23 final size:23
Alignment explanation
Indices: 33085664--33085752 Score: 88
Period size: 23 Copynumber: 3.6 Consensus size: 23
33085654 TTAGGGTTAG
33085664 GGTTAGGGTTTTTAATTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
*
33085687 GGTTAGGGTTAAGGTTTTTAATTAATTTA
1 GGTTA--G----GGTTTTTAATTAAATTA
** *
33085716 GGTTAGGGTTTAGAGTTAAATTA
1 GGTTAGGGTTTTTAATTAAATTA
33085739 GGTTAGGGTTTTTA
1 GGTTAGGGTTTTTA
33085753 TTACATCAAA
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
23 30 0.57
25 1 0.02
27 1 0.02
29 21 0.40
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTAAATTA
Found at i:33085748 original size:29 final size:28
Alignment explanation
Indices: 33085577--33085748 Score: 110
Period size: 29 Copynumber: 6.2 Consensus size: 28
33085567 TTTTAAGTTC
* *
33085577 AGGGTTTAGGGTTTTTAATTAAATTAGATT
1 AGGG-TTAGGG-TTTGAATTAAATTAGGTT
*
33085607 AGGGTTAGGGTTTGTAATTAATTTAGGTT
1 AGGGTTAGGGTTTG-AATTAAATTAGGTT
* ** *
33085636 AGGGGTTAGGGTTAGGGGTT--A--GGGTT
1 A-GGGTTAGGGTT-TGAATTAAATTAGGTT
*
33085662 AGGGTTAGGGTTTTTAATTAAATTAGGTT
1 AGGGTTAGGG-TTTGAATTAAATTAGGTT
* **
33085691 AGGGTTAAGGTTT---TT-AATTAATTT
1 AGGGTTAGGGTTTGAATTAAATTAGGTT
*
33085715 A-GGTTAGGGTTTAGAGTTAAATTAGGTT
1 AGGGTTAGGGTTT-GAATTAAATTAGGTT
33085743 AGGGTT
1 AGGGTT
33085749 TTTATTACAT
Statistics
Matches: 109, Mismatches: 19, Indels: 29
0.69 0.12 0.18
Matches are distributed among these distances:
23 10 0.09
24 8 0.07
25 13 0.12
26 7 0.06
27 3 0.03
28 14 0.13
29 36 0.33
30 17 0.16
31 1 0.01
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (28 bp):
AGGGTTAGGGTTTGAATTAAATTAGGTT
Found at i:33085776 original size:25 final size:25
Alignment explanation
Indices: 33085748--33085860 Score: 94
Period size: 25 Copynumber: 4.7 Consensus size: 25
33085738 AGGTTAGGGT
33085748 TTTTATTACATCAAATAAACTTTTA
1 TTTTATTACATCAAATAAACTTTTA
* *
33085773 TTTTATTACATCAAAT-AA-TATCA
1 TTTTATTACATCAAATAAACTTTTA
** * ***
33085796 --AAATAAC-TCGAAAT-TTTTTTTA
1 TTTTATTACATC-AAATAAACTTTTA
*
33085818 TTTTATTACATCAAATAAACTTCTA
1 TTTTATTACATCAAATAAACTTTTA
33085843 TTTTATTACATCAAATAA
1 TTTTATTACATCAAATAA
33085861 TATCAAAATA
Statistics
Matches: 66, Mismatches: 16, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
20 2 0.03
21 8 0.12
22 3 0.05
23 3 0.05
24 10 0.15
25 40 0.61
ACGTcount: A:0.42, C:0.12, G:0.01, T:0.45
Consensus pattern (25 bp):
TTTTATTACATCAAATAAACTTTTA
Found at i:33085866 original size:35 final size:35
Alignment explanation
Indices: 33085757--33085867 Score: 93
Period size: 35 Copynumber: 3.2 Consensus size: 35
33085747 TTTTTATTAC
*
33085757 ATCAAATAAACTTTTATTTTATTACATCAAATAAT
1 ATCAAATAAACTTCTATTTTATTACATCAAATAAT
* ** *** * *
33085792 ATCAAA-ATAAC-TCGAAATTTT-TTTTATTTTATTAC
1 ATCAAATA-AACTTC--TATTTTATTACATCAAATAAT
33085827 ATCAAATAAACTTCTATTTTATTACATCAAATAAT
1 ATCAAATAAACTTCTATTTTATTACATCAAATAAT
33085862 ATCAAA
1 ATCAAA
33085868 ATATTCAAAA
Statistics
Matches: 53, Mismatches: 17, Indels: 12
0.65 0.21 0.15
Matches are distributed among these distances:
34 7 0.13
35 38 0.72
36 8 0.15
ACGTcount: A:0.44, C:0.13, G:0.01, T:0.42
Consensus pattern (35 bp):
ATCAAATAAACTTCTATTTTATTACATCAAATAAT
Found at i:33086972 original size:7 final size:7
Alignment explanation
Indices: 33086962--33086986 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
33086952 TTATATACAT
33086962 AATACTA
1 AATACTA
33086969 AATACTA
1 AATACTA
33086976 AATACTA
1 AATACTA
33086983 AATA
1 AATA
33086987 TCAATCGAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:33088026 original size:22 final size:22
Alignment explanation
Indices: 33088001--33088057 Score: 96
Period size: 22 Copynumber: 2.5 Consensus size: 22
33087991 AAATATGAAT
*
33088001 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTGTGGAAGGAAA
33088023 TTGAGAGAATTGTGGAAGGAAA
1 TTGAGAGAATTGTGGAAGGAAA
33088045 TTGAGAGGAATTG
1 TTGAGA-GAATTG
33088058 AGAGGAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
22 27 0.82
23 6 0.18
ACGTcount: A:0.39, C:0.00, G:0.35, T:0.26
Consensus pattern (22 bp):
TTGAGAGAATTGTGGAAGGAAA
Found at i:33088316 original size:42 final size:42
Alignment explanation
Indices: 33088209--33088316 Score: 162
Period size: 42 Copynumber: 2.6 Consensus size: 42
33088199 CGTCAGCAAC
* *
33088209 TCGCGCTGACATGGACGCGATTTCCTGGCGCGTACCCTAACA
1 TCGCGCTGACGTGGACGCGATTTTCTGGCGCGTACCCTAACA
* *
33088251 TCGCGCTGACGTGGACGCAATTTTCTGGCGCGTACCCTGACA
1 TCGCGCTGACGTGGACGCGATTTTCTGGCGCGTACCCTAACA
* *
33088293 TCGTGCTGACGTGGACACGATTTT
1 TCGCGCTGACGTGGACGCGATTTT
33088317 GCGGAAAAGG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 59 1.00
ACGTcount: A:0.18, C:0.30, G:0.28, T:0.25
Consensus pattern (42 bp):
TCGCGCTGACGTGGACGCGATTTTCTGGCGCGTACCCTAACA
Found at i:33090668 original size:6 final size:6
Alignment explanation
Indices: 33090657--33090689 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
33090647 AAATAAACAA
33090657 GGGTAG GGGTAG GGGTAG GGGTAGG GGGTAG GG
1 GGGTAG GGGTAG GGGTAG GGGTA-G GGGTAG GG
33090690 CCAGTGGTGG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.15, C:0.00, G:0.70, T:0.15
Consensus pattern (6 bp):
GGGTAG
Found at i:33094213 original size:16 final size:15
Alignment explanation
Indices: 33094192--33094223 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
33094182 CGTTTTTTGA
33094192 ATTTTTTTGAATTTTT
1 ATTTTTTT-AATTTTT
33094208 ATTTTTTTAATTTTT
1 ATTTTTTTAATTTTT
33094223 A
1 A
33094224 AATTATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.22, C:0.00, G:0.03, T:0.75
Consensus pattern (15 bp):
ATTTTTTTAATTTTT
Found at i:33097460 original size:12 final size:12
Alignment explanation
Indices: 33097443--33097468 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
33097433 TGGATATTCT
33097443 CCCTCATAATCC
1 CCCTCATAATCC
33097455 CCCTCATAATCC
1 CCCTCATAATCC
33097467 CC
1 CC
33097469 TAATTCACTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.54, G:0.00, T:0.23
Consensus pattern (12 bp):
CCCTCATAATCC
Found at i:33097889 original size:14 final size:14
Alignment explanation
Indices: 33097870--33097897 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
33097860 CCTCACAGTC
33097870 CAAACCGAATTGGG
1 CAAACCGAATTGGG
33097884 CAAACCGAATTGGG
1 CAAACCGAATTGGG
33097898 GTAAGGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.21, G:0.29, T:0.14
Consensus pattern (14 bp):
CAAACCGAATTGGG
Found at i:33099923 original size:16 final size:19
Alignment explanation
Indices: 33099881--33099923 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 19
33099871 AGAGATTGTG
33099881 ATAATAT-TTAGTATACTT
1 ATAATATGTTAGTATACTT
33099899 ATAAT-TGTTA-TA-ACTT
1 ATAATATGTTAGTATACTT
33099915 -TAATATGTT
1 ATAATATGTT
33099924 TGATGATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 4 0.17
16 8 0.35
17 3 0.13
18 8 0.35
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (19 bp):
ATAATATGTTAGTATACTT
Found at i:33110190 original size:25 final size:25
Alignment explanation
Indices: 33110162--33110230 Score: 84
Period size: 25 Copynumber: 2.7 Consensus size: 25
33110152 TTTAAATTTA
* *
33110162 TTATCTGATGTAATAAAATATAAGT
1 TTATTTGATGTAATAAAATAGAAGT
* *
33110187 TTATTTAATATAATAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
*
33110212 TCAATTTGATGTAATAAAA
1 T-TATTTGATGTAATAAAA
33110231 ACCCTAATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 22 0.61
26 14 0.39
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:33110249 original size:18 final size:18
Alignment explanation
Indices: 33110226--33110274 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
33110216 TTTGATGTAA
* *
33110226 TAAAAACCCTAATTTATT
1 TAAAAACCCTAACTTAAT
33110244 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACTTAAT
33110262 TAAAAACCCTAAC
1 TAAAAACCCTAAC
33110275 CCTAACCTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (18 bp):
TAAAAACCCTAACTTAAT
Found at i:33110276 original size:24 final size:24
Alignment explanation
Indices: 33110248--33110373 Score: 130
Period size: 24 Copynumber: 5.0 Consensus size: 24
33110238 TTTATTTAAA
33110248 AACCCTAACTTAATTAAAAACCCT
1 AACCCTAACTTAATTAAAAACCCT
*
33110272 AACCCTAACCTAATTAAAAACCCT
1 AACCCTAACTTAATTAAAAACCCT
33110296 AACCCTAACCCTAACCTAATTAAAAACCCT
1 AACCCTAA--CT----TAATTAAAAACCCT
* **
33110326 AACCCTAACCTAACTT-AATTCCCT
1 AACCCTAACTTAA-TTAAAAACCCT
*
33110350 AA-CCTAATTTAATTAAAAACCCT
1 AACCCTAACTTAATTAAAAACCCT
33110373 A
1 A
33110374 NNNNNNNNNN
Statistics
Matches: 85, Mismatches: 9, Indels: 17
0.77 0.08 0.15
Matches are distributed among these distances:
22 2 0.02
23 15 0.18
24 42 0.49
25 2 0.02
26 1 0.01
28 1 0.01
30 22 0.26
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.25
Consensus pattern (24 bp):
AACCCTAACTTAATTAAAAACCCT
Found at i:33110293 original size:18 final size:18
Alignment explanation
Indices: 33110226--33110329 Score: 67
Period size: 18 Copynumber: 5.8 Consensus size: 18
33110216 TTTGATGTAA
** *
33110226 TAAAAACCCTAATTTATT
1 TAAAAACCCTAACCTAAT
*
33110244 TAAAAACCCTAACTTAAT
1 TAAAAACCCTAACCTAAT
33110262 TAAAAACCCTAACCCTAACCTAAT
1 T--AAA----AACCCTAACCTAAT
*
33110286 TAAAAACCCTAACC---C
1 TAAAAACCCTAACCTAAT
33110301 T---AACCCTAACCTAAT
1 TAAAAACCCTAACCTAAT
33110316 TAAAAACCCTAACC
1 TAAAAACCCTAACC
33110330 CTAACCTAAC
Statistics
Matches: 69, Mismatches: 5, Indels: 24
0.70 0.05 0.24
Matches are distributed among these distances:
12 10 0.14
15 2 0.03
18 37 0.54
20 3 0.04
22 3 0.04
24 14 0.20
ACGTcount: A:0.46, C:0.30, G:0.00, T:0.24
Consensus pattern (18 bp):
TAAAAACCCTAACCTAAT
Found at i:33110300 original size:30 final size:30
Alignment explanation
Indices: 33110266--33110345 Score: 144
Period size: 30 Copynumber: 2.7 Consensus size: 30
33110256 CTTAATTAAA
33110266 AACCCTAACCCTAACCTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAATTAAAAACCCT
33110296 AACCCTAACCCTAACCTAATTAAAAACCCT
1 AACCCTAACCCTAACCTAATTAAAAACCCT
*
33110326 AACCCTAA-CCTAACTTAATT
1 AACCCTAACCCTAACCTAATT
33110346 CCCTAACCTA
Statistics
Matches: 49, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 11 0.22
30 38 0.78
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (30 bp):
AACCCTAACCCTAACCTAATTAAAAACCCT
Found at i:33110351 original size:18 final size:18
Alignment explanation
Indices: 33110328--33110363 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
33110318 AAAACCCTAA
33110328 CCCTAACCTAACTTAATT
1 CCCTAACCTAACTTAATT
*
33110346 CCCTAACCTAATTTAATT
1 CCCTAACCTAACTTAATT
33110364 AAAAACCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.31, G:0.00, T:0.36
Consensus pattern (18 bp):
CCCTAACCTAACTTAATT
Found at i:33110861 original size:18 final size:18
Alignment explanation
Indices: 33110838--33110872 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
33110828 TTTGGACTTA
33110838 ATAATTTTACCTAATTTG
1 ATAATTTTACCTAATTTG
*
33110856 ATAATTTTTCCTAATTT
1 ATAATTTTACCTAATTT
33110873 AATTAAAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.54
Consensus pattern (18 bp):
ATAATTTTACCTAATTTG
Found at i:33110937 original size:56 final size:56
Alignment explanation
Indices: 33110793--33110965 Score: 217
Period size: 56 Copynumber: 3.1 Consensus size: 56
33110783 TAACCTAACT
* *
33110793 TAATTTGATAAATTTTACTAACCATTAACACAATTTTTGGACTTAATAATTTTACC
1 TAATTTGATAAATTTTACTAACCATTAACAAAATTTTTGGACTTAATAATTTTACA
* * * * * *
33110849 TAATTTGATAATTTTTCCTAA--TTTAATTAAAATTTTTTTGTCTTAATAATTTTACA
1 TAATTTGATAAATTTTACTAACCATTAA-CAAAA-TTTTTGGACTTAATAATTTTACA
* *
33110905 TAATTTGA-AAATTTTACTAACCATTAACAAAATTTTGGGACCTAATAATTTTACA
1 TAATTTGATAAATTTTACTAACCATTAACAAAATTTTTGGACTTAATAATTTTACA
33110960 TAATTT
1 TAATTT
33110966 TACATAATGT
Statistics
Matches: 97, Mismatches: 16, Indels: 9
0.80 0.13 0.07
Matches are distributed among these distances:
54 4 0.04
55 38 0.39
56 51 0.53
57 4 0.04
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.46
Consensus pattern (56 bp):
TAATTTGATAAATTTTACTAACCATTAACAAAATTTTTGGACTTAATAATTTTACA
Found at i:33110964 original size:10 final size:10
Alignment explanation
Indices: 33110949--33110973 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
33110939 TTGGGACCTA
33110949 ATAATTTTAC
1 ATAATTTTAC
33110959 ATAATTTTAC
1 ATAATTTTAC
33110969 ATAAT
1 ATAAT
33110974 GTTAGATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:33114333 original size:123 final size:123
Alignment explanation
Indices: 33114058--33114390 Score: 551
Period size: 123 Copynumber: 2.7 Consensus size: 123
33114048 GTACTGTAGT
* * * *
33114058 GCGTCCACGAGGGCGCGATTTCACAATATCTTCCCAAATAGCATCCTGGTAAAGGCGATTTTATA
1 GCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAGCCGATTTTATA
* *
33114123 CTATTTTCTCAGAAACGTCAAAAAAAATTATTTCTTACATGACCTACTGTAGCAAAATC
66 CTATTTGCTCAGAAACGTC-AAAAAAATTATTTCTTACATGACCTACTATAGCAAAATC
*
33114182 GCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAGCCAATTTTATA
1 GCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAGCCGATTTTATA
*
33114247 CTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGACCTACTATAGCGAAATC
66 CTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGACCTACTATAGCAAAATC
* *
33114305 GCGTCCACAAGGGCGCGATTTCAGAATTTCTTCTCAAATAGCATCCTGGTAGAGCCGATTTTATA
1 GCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAGCCGATTTTATA
33114370 CTATTTGAC-CAGAAACGTCAA
66 CTATTTG-CTCAGAAACGTCAA
33114391 CTCAAAATAA
Statistics
Matches: 197, Mismatches: 11, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
123 118 0.60
124 79 0.40
ACGTcount: A:0.32, C:0.23, G:0.17, T:0.29
Consensus pattern (123 bp):
GCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAGCCGATTTTATA
CTATTTGCTCAGAAACGTCAAAAAAATTATTTCTTACATGACCTACTATAGCAAAATC
Found at i:33116801 original size:16 final size:15
Alignment explanation
Indices: 33116780--33116832 Score: 52
Period size: 16 Copynumber: 3.3 Consensus size: 15
33116770 TTAGATTATC
*
33116780 AATTAAATCCTAAATT
1 AATTAAAT-ATAAATT
33116796 AATTAATATATAAATT
1 AATTAA-ATATAAATT
*
33116812 AAATAAATATATAATAT
1 AATTAAATATA-AAT-T
33116829 AATT
1 AATT
33116833 CAATTAATAC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
15 5 0.16
16 20 0.65
17 6 0.19
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.40
Consensus pattern (15 bp):
AATTAAATATAAATT
Found at i:33116822 original size:17 final size:16
Alignment explanation
Indices: 33116790--33116825 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
33116780 AATTAAATCC
*
33116790 TAAATTAATTAATATA
1 TAAATTAATAAATATA
33116806 TAAATTAAATAAATATA
1 TAAATT-AATAAATATA
33116823 TAA
1 TAA
33116826 TATAATTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (16 bp):
TAAATTAATAAATATA
Found at i:33118083 original size:3 final size:3
Alignment explanation
Indices: 33118075--33118101 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
33118065 AATTAATCAA
33118075 ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT
33118102 NNNNNNNNNN
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:33120382 original size:345 final size:345
Alignment explanation
Indices: 33119746--33120440 Score: 1381
Period size: 345 Copynumber: 2.0 Consensus size: 345
33119736 AATCTCAGAT
*
33119746 CCAATCGATGTTCCGCAATAACTCAACAAGTTTTAGCCAATGTACCTTGGGATGCTAATAAGTGC
1 CCAAACGATGTTCCGCAATAACTCAACAAGTTTTAGCCAATGTACCTTGGGATGCTAATAAGTGC
33119811 TCTAGAAAAACTGCCCAATAATGTTTTTCGTAAAAGGTAGCTAGTCCTTCACAGTTACGTAGGTG
66 TCTAGAAAAACTGCCCAATAATGTTTTTCGTAAAAGGTAGCTAGTCCTTCACAGTTACGTAGGTG
33119876 ATTTCATCAAGTCTATCTCAATATAGACCACCCTAATCAGGGCTATAAAATCATTAAGAGCTTTC
131 ATTTCATCAAGTCTATCTCAATATAGACCACCCTAATCAGGGCTATAAAATCATTAAGAGCTTTC
33119941 ATTAAACTCATCCTTTCAAATTTAAGTTCGGTGAATTCATCAAGTCCATCTCAATATGATCACCC
196 ATTAAACTCATCCTTTCAAATTTAAGTTCGGTGAATTCATCAAGTCCATCTCAATATGATCACCC
33120006 AAACTCTGGGATATGAACTCATTAAGAGTAATAAACTCAACCTCTTAAGTCGGTGAATTCATCAA
261 AAACTCTGGGATATGAACTCATTAAGAGTAATAAACTCAACCTCTTAAGTCGGTGAATTCATCAA
33120071 GTCCATCTCAATAGGACCAC
326 GTCCATCTCAATAGGACCAC
33120091 CCAAACGATGTTCCGCAATAACTCAACAAGTTTTAGCCAATGTACCTTGGGATGCTAATAAGTGC
1 CCAAACGATGTTCCGCAATAACTCAACAAGTTTTAGCCAATGTACCTTGGGATGCTAATAAGTGC
33120156 TCTAGAAAAACTGCCCAATAATGTTTTTCGTAAAAGGTAGCTAGTCCTTCACAGTTACGTAGGTG
66 TCTAGAAAAACTGCCCAATAATGTTTTTCGTAAAAGGTAGCTAGTCCTTCACAGTTACGTAGGTG
33120221 ATTTCATCAAGTCTATCTCAATATAGACCACCCTAATCAGGGCTATAAAATCATTAAGAGCTTTC
131 ATTTCATCAAGTCTATCTCAATATAGACCACCCTAATCAGGGCTATAAAATCATTAAGAGCTTTC
33120286 ATTAAACTCATCCTTTCAAATTTAAGTTCGGTGAATTCATCAAGTCCATCTCAATATGATCACCC
196 ATTAAACTCATCCTTTCAAATTTAAGTTCGGTGAATTCATCAAGTCCATCTCAATATGATCACCC
33120351 AAACTCTGGGATATGAACTCATTAAGAGTAATAAACTCAACCTCTTAAGTCGGTGAATTCATCAA
261 AAACTCTGGGATATGAACTCATTAAGAGTAATAAACTCAACCTCTTAAGTCGGTGAATTCATCAA
33120416 GTCCATCTCAATAGGACCAC
326 GTCCATCTCAATAGGACCAC
33120436 CCAAA
1 CCAAA
33120441 TTTTGGGCTA
Statistics
Matches: 349, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
345 349 1.00
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (345 bp):
CCAAACGATGTTCCGCAATAACTCAACAAGTTTTAGCCAATGTACCTTGGGATGCTAATAAGTGC
TCTAGAAAAACTGCCCAATAATGTTTTTCGTAAAAGGTAGCTAGTCCTTCACAGTTACGTAGGTG
ATTTCATCAAGTCTATCTCAATATAGACCACCCTAATCAGGGCTATAAAATCATTAAGAGCTTTC
ATTAAACTCATCCTTTCAAATTTAAGTTCGGTGAATTCATCAAGTCCATCTCAATATGATCACCC
AAACTCTGGGATATGAACTCATTAAGAGTAATAAACTCAACCTCTTAAGTCGGTGAATTCATCAA
GTCCATCTCAATAGGACCAC
Done.