Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 98 of 427
Found at i:25942131 original size:67 final size:67
Alignment explanation
Indices: 25942023--25942155 Score: 212
Period size: 67 Copynumber: 2.0 Consensus size: 67
25942013 TCCTTTTCAA
**
25942023 AGAGCACACTCCCGTGAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTGTA
1 AGAGCACACTCCCGCAAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTGTA
25942088 AG
66 AG
* * * *
25942090 AGAGCACACTCCCGCAAACCTCATTTCTTATAGCTGGATTACCAGTCTAGGTTAAATCCCCTGTA
1 AGAGCACACTCCCGCAAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTGTA
25942155 A
66 A
25942156 CATATGCTCA
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.25
Consensus pattern (67 bp):
AGAGCACACTCCCGCAAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCTGTA
AG
Found at i:25949072 original size:3 final size:3
Alignment explanation
Indices: 25949064--25949127 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
25949054 GACTTAGCTT
*
25949064 AGA AGA AGA AGA AGA AAA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
25949112 AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA A
25949128 TTTTCCCAAG
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:25950275 original size:18 final size:18
Alignment explanation
Indices: 25950233--25950277 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
25950223 ATTTCAATTT
** *
25950233 TTTAATTTTTTTAAATAA
1 TTTAATTTTTAAAAAAAA
25950251 TTATAATTTTTAAAAAAAA
1 TT-TAATTTTTAAAAAAAA
25950270 TTTAATTT
1 TTTAATTT
25950278 AAAAAAATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTAATTTTTAAAAAAAA
Found at i:25952131 original size:17 final size:16
Alignment explanation
Indices: 25952094--25952127 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
25952084 TGTTAATTTT
25952094 AATGTTAAATGACTAA
1 AATGTTAAATGACTAA
25952110 AATGTTAAAGTGA-TAA
1 AATGTTAAA-TGACTAA
25952126 AA
1 AA
25952128 ATGTAAGGAC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.82
17 3 0.18
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.29
Consensus pattern (16 bp):
AATGTTAAATGACTAA
Found at i:25952794 original size:26 final size:26
Alignment explanation
Indices: 25952737--25953016 Score: 215
Period size: 26 Copynumber: 10.8 Consensus size: 26
25952727 AAATATTCTA
* *
25952737 TCAGGTTTTGTGCCGGTGATTTACTG
1 TCAGGCTTTGTGTCGGTGATTTACTG
* * *
25952763 TTAGGCTTTATGTCGGTGATTTATTG
1 TCAGGCTTTGTGTCGGTGATTTACTG
25952789 TCAGGCTTTGTG-CTGGTGATTTACTG
1 TCAGGCTTTGTGTC-GGTGATTTACTG
* * * *
25952815 TCAGGATTTGTGCCGATGATTTACTA
1 TCAGGCTTTGTGTCGGTGATTTACTG
* * * *
25952841 TCAGGCTCTGTGCCGATTATTTACTG
1 TCAGGCTTTGTGTCGGTGATTTACTG
* * * *
25952867 TTAGGCTTCGTG-CTGATGATTTACTA
1 TCAGGCTTTGTGTC-GGTGATTTACTG
* * * *
25952893 TCAGGATTCGTATCGGTGATTTATTG
1 TCAGGCTTTGTGTCGGTGATTTACTG
* * *
25952919 TCAGGCTTCGTGTTGATGATTTACTG
1 TCAGGCTTTGTGTCGGTGATTTACTG
* *
25952945 TCTA-GCTCTGTGTTGGTGATTTACTG
1 TC-AGGCTTTGTGTCGGTGATTTACTG
* * **
25952971 TCAGGCTTCGTGTAGGTGATTTGTTG
1 TCAGGCTTTGTGTCGGTGATTTACTG
* * *
25952997 TTAGGCTCTGTGCCGGTGAT
1 TCAGGCTTTGTGTCGGTGAT
25953017 ATGGACCGCA
Statistics
Matches: 204, Mismatches: 44, Indels: 12
0.78 0.17 0.05
Matches are distributed among these distances:
25 3 0.01
26 198 0.97
27 3 0.01
ACGTcount: A:0.15, C:0.15, G:0.28, T:0.42
Consensus pattern (26 bp):
TCAGGCTTTGTGTCGGTGATTTACTG
Found at i:25952815 original size:52 final size:52
Alignment explanation
Indices: 25952745--25953016 Score: 253
Period size: 52 Copynumber: 5.2 Consensus size: 52
25952735 TATCAGGTTT
* ** * * *
25952745 TGTGCCGGTGATTTACTGTTAGGCTTTATGTCGGTGATTTATTGTCAGGCTT
1 TGTGCCGGTGATTTACTGTCAGGCTTCGTGTCGATGATTTACTGTCAGGCTC
* * * * *
25952797 TGTGCTGGTGATTTACTGTCAGGATTTGTGCCGATGATTTACTATCAGGCTC
1 TGTGCCGGTGATTTACTGTCAGGCTTCGTGTCGATGATTTACTGTCAGGCTC
* * * * *
25952849 TGTGCCGATTATTTACTGTTAGGCTTCGTG-CTGATGATTTACTATCAGGAT-
1 TGTGCCGGTGATTTACTGTCAGGCTTCGTGTC-GATGATTTACTGTCAGGCTC
** * *
25952900 TCGTATCGGTGATTTATTGTCAGGCTTCGTGTTGATGATTTACTGTCTA-GCTC
1 T-GTGCCGGTGATTTACTGTCAGGCTTCGTGTCGATGATTTACTGTC-AGGCTC
** * * ** *
25952953 TGTGTTGGTGATTTACTGTCAGGCTTCGTGTAGGTGATTTGTTGTTAGGCTC
1 TGTGCCGGTGATTTACTGTCAGGCTTCGTGTCGATGATTTACTGTCAGGCTC
25953005 TGTGCCGGTGAT
1 TGTGCCGGTGAT
25953017 ATGGACCGCA
Statistics
Matches: 179, Mismatches: 35, Indels: 12
0.79 0.15 0.05
Matches are distributed among these distances:
51 3 0.02
52 174 0.97
53 2 0.01
ACGTcount: A:0.15, C:0.15, G:0.28, T:0.42
Consensus pattern (52 bp):
TGTGCCGGTGATTTACTGTCAGGCTTCGTGTCGATGATTTACTGTCAGGCTC
Found at i:25952873 original size:78 final size:77
Alignment explanation
Indices: 25952737--25952975 Score: 255
Period size: 78 Copynumber: 3.1 Consensus size: 77
25952727 AAATATTCTA
* * * * * *
25952737 TCAGGTTTTGTGCCGGTGATTTACTGTTAGGCTTTATGTCGGTGATTTATTGTCAGGCTTTGTGC
1 TCAGGATTTGTGCCGGTGATTTACTGTCAGGC-TTGTGTCGATGATTTACTGTTAGGCTTTGTGC
25952802 TGGTGATTTACTG
65 TGGTGATTTACTG
* * * * *
25952815 TCAGGATTTGTGCCGATGATTTACTATCAGGCTCTGTGCCGATTATTTACTGTTAGGCTTCGTGC
1 TCAGGATTTGTGCCGGTGATTTACTGTCAGGCT-TGTGTCGATGATTTACTGTTAGGCTTTGTGC
* *
25952880 TGATGATTTACTA
65 TGGTGATTTACTG
* ** * * *
25952893 TCAGGATTCGTATCGGTGATTTATTGTCAGGCTTCGTGTTGATGATTTACTGTCTA-GCTCTGTG
1 TCAGGATTTGTGCCGGTGATTTACTGTCAGGCTT-GTGTCGATGATTTACTGT-TAGGCTTTGTG
*
25952957 TTGGTGATTTACTG
64 CTGGTGATTTACTG
25952971 TCAGG
1 TCAGG
25952976 CTTCGTGTAG
Statistics
Matches: 131, Mismatches: 27, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
77 2 0.02
78 127 0.97
79 2 0.02
ACGTcount: A:0.16, C:0.15, G:0.27, T:0.42
Consensus pattern (77 bp):
TCAGGATTTGTGCCGGTGATTTACTGTCAGGCTTGTGTCGATGATTTACTGTTAGGCTTTGTGCT
GGTGATTTACTG
Found at i:25954602 original size:20 final size:20
Alignment explanation
Indices: 25954577--25954619 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
25954567 TAACGGAACC
*
25954577 GAGCAGAGCAGAACTAAACA
1 GAGCAGAGCAGAACGAAACA
25954597 GAGCAGAGCAGAACGAAACA
1 GAGCAGAGCAGAACGAAACA
25954617 GAG
1 GAG
25954620 TAGAAACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.19, G:0.30, T:0.02
Consensus pattern (20 bp):
GAGCAGAGCAGAACGAAACA
Found at i:25959683 original size:40 final size:40
Alignment explanation
Indices: 25959628--25959795 Score: 187
Period size: 40 Copynumber: 4.2 Consensus size: 40
25959618 TGAATGATAC
* *
25959628 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* *
25959668 CCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG-TTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATTATAT
* * ** *
25959708 CCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
* * * * *
25959748 CCGGGTTAAGACTCGAAGGCAATTGTGCTTGTGGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
25959788 CC-GGCTAA
1 CCGGGCTAA
25959796 ATTTCGAAGA
Statistics
Matches: 105, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
39 6 0.06
40 97 0.92
41 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATTATAT
Found at i:25969514 original size:28 final size:28
Alignment explanation
Indices: 25969445--25969545 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
25969435 GACAAGATTG
* * * *
25969445 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
25969475 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
25969503 GCACTAAGTGTGCGAG-CTGAATGTATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
25969532 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
25969546 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 24 0.38
29 20 0.31
30 18 0.28
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:25969539 original size:29 final size:28
Alignment explanation
Indices: 25969474--25969545 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
25969464 AAAATTGTAC
*
25969474 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
25969502 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
25969531 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
25969546 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:25971690 original size:40 final size:39
Alignment explanation
Indices: 25971641--25971848 Score: 231
Period size: 40 Copynumber: 5.2 Consensus size: 39
25971631 TCTTCGGAAT
* *
25971641 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCACAA-TGCCTTCGGGTC
* * *** *
25971680 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
25971720 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
*
25971760 TTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAACAACTAGCAC-AATGCCTTCGGGTC
* * *
25971800 TTAGCCCGGATATAATC-ATTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAA-CAACTAGCA-CAATGCCTTCGGGTC
25971840 TTAGCCCGG
1 TTAGCCCGG
25971849 GTATCATTCA
Statistics
Matches: 146, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.02
40 140 0.96
41 3 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (39 bp):
TTAGCCCGGATATAACAACTAGCACAATGCCTTCGGGTC
Found at i:25980967 original size:34 final size:33
Alignment explanation
Indices: 25980923--25981010 Score: 95
Period size: 34 Copynumber: 2.6 Consensus size: 33
25980913 GAACAGTCTG
* **
25980923 GGCCTGAGCCCATATCAGTGGCAATATCAGTGTC
1 GGCCTTAGCCCAT-TCAGTAACAATATCAGTGTC
* * *
25980957 GGCCTTAGCCCATTACAGTAACAGTATTAGTGTG
1 GGCCTTAGCCCATT-CAGTAACAATATCAGTGTC
25980991 GGCCTTAGCCCATCTCAGTA
1 GGCCTTAGCCCAT-TCAGTA
25981011 CAGTATCCAA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
33 1 0.02
34 44 0.96
35 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (33 bp):
GGCCTTAGCCCATTCAGTAACAATATCAGTGTC
Found at i:25982405 original size:15 final size:15
Alignment explanation
Indices: 25982385--25982414 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25982375 CATTTTATTT
*
25982385 ATATTAGGATAATTA
1 ATATTAAGATAATTA
25982400 ATATTAAGATAATTA
1 ATATTAAGATAATTA
25982415 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:25982442 original size:27 final size:26
Alignment explanation
Indices: 25982381--25982443 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
25982371 ACTCCATTTT
25982381 ATTTATATTAGGATAATTAATATTAAG
1 ATTT-TATTAGGATAATTAATATTAAG
* * * *
25982408 ATAATTATTAGGATTATTTAATTTTAGG
1 AT-TTTATTAGGA-TAATTAATATTAAG
25982436 ATTTTATT
1 ATTTTATT
25982444 TTAATTATCT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 15 0.52
28 14 0.48
ACGTcount: A:0.38, C:0.00, G:0.11, T:0.51
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:25990970 original size:34 final size:34
Alignment explanation
Indices: 25990895--25990973 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
25990885 AGAGGAGACT
* ** *
25990895 AAAAAGAAAAGAAAGAAACAAAATGGAATTGAGA
1 AAAAATAAAAGAAAGAAACAAAATGGAAAGGAAA
* *
25990929 AAGAATAAAAGAAAGAGGA-AAAATGGAAAGGAAA
1 AAAAATAAAAGAAAGA-AACAAAATGGAAAGGAAA
25990963 AAAAATAAAAG
1 AAAAATAAAAG
25990974 GGAAAGTGAA
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
34 36 0.97
35 1 0.03
ACGTcount: A:0.70, C:0.01, G:0.22, T:0.08
Consensus pattern (34 bp):
AAAAATAAAAGAAAGAAACAAAATGGAAAGGAAA
Found at i:25994051 original size:47 final size:47
Alignment explanation
Indices: 25993962--25994078 Score: 121
Period size: 47 Copynumber: 2.5 Consensus size: 47
25993952 ACACACCAAC
* * * *
25993962 AATAAATGTAGACAATGCCACCAGAATCGCAGACAAGTTGCCAGAGTA
1 AATAAATGTGGTCAA-GCCACCAGAATCGCAGACAAGCTGCCAGAATA
** *
25994010 AATAAATGTGGTCAAGCCACCAGAATCGTTGTCAAGCTGCCAGAATA
1 AATAAATGTGGTCAAGCCACCAGAATCGCAGACAAGCTGCCAGAATA
* * *
25994057 GAT--ATGTGGTTAAACCACCAGA
1 AATAAATGTGGTCAAGCCACCAGA
25994079 TAGTGCAAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
45 17 0.29
47 29 0.49
48 13 0.22
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (47 bp):
AATAAATGTGGTCAAGCCACCAGAATCGCAGACAAGCTGCCAGAATA
Found at i:25995993 original size:19 final size:20
Alignment explanation
Indices: 25995969--25996017 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
25995959 AATGAACTAC
25995969 TTTTTTTGAACTTCATTGTT
1 TTTTTTTGAACTTCATTGTT
* * *
25995989 TTTTTTTGTATTTGATT-TT
1 TTTTTTTGAACTTCATTGTT
25996008 TTTTTTTGAA
1 TTTTTTTGAA
25996018 TCTATTCAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 11 0.44
20 14 0.56
ACGTcount: A:0.14, C:0.04, G:0.10, T:0.71
Consensus pattern (20 bp):
TTTTTTTGAACTTCATTGTT
Found at i:25997380 original size:23 final size:24
Alignment explanation
Indices: 25997330--25997381 Score: 72
Period size: 23 Copynumber: 2.2 Consensus size: 24
25997320 ATTTAGATCA
*
25997330 AAAGAAGAGAAATGAAATGAAAAG
1 AAAGAAGAGAAAAGAAATGAAAAG
*
25997354 -AAGAAGAGAAAAGATA-GAAAAG
1 AAAGAAGAGAAAAGAAATGAAAAG
25997376 AAAGAA
1 AAAGAA
25997382 AGATTAGATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 6 0.24
23 19 0.76
ACGTcount: A:0.69, C:0.00, G:0.25, T:0.06
Consensus pattern (24 bp):
AAAGAAGAGAAAAGAAATGAAAAG
Found at i:25997381 original size:18 final size:19
Alignment explanation
Indices: 25997354--25997395 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
25997344 AAATGAAAAG
25997354 AAGAAGAGAAAAGA-TAGAA
1 AAGAAGAG-AAAGATTAGAA
*
25997373 AAGAA-AGAAAGATTAGAT
1 AAGAAGAGAAAGATTAGAA
25997391 AAGAA
1 AAGAA
25997396 TGGTGGTGCA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 5 0.24
18 11 0.52
19 5 0.24
ACGTcount: A:0.67, C:0.00, G:0.24, T:0.10
Consensus pattern (19 bp):
AAGAAGAGAAAGATTAGAA
Found at i:26017666 original size:57 final size:58
Alignment explanation
Indices: 26017529--26017669 Score: 169
Period size: 57 Copynumber: 2.4 Consensus size: 58
26017519 CATTACAGTA
* * * *
26017529 AGGATTTAGCCTGGACTAGTAATCCTAATATAAGCTCTCTTGAGCATATGATATAGAT
1 AGGATTTAGCCTGGACAAGTAATCCTAATATAAGCTCTCTTAAGCATATGATAGACAT
** ** *
26017587 AGGATTTAGCCCAGACGGGTAATCCTAAT-TAAGCTCT-TATAAGCATATGTTAGACAT
1 AGGATTTAGCCTGGACAAGTAATCCTAATATAAGCTCTCT-TAAGCATATGATAGACAT
*
26017644 AGGATTTAGCTTGGACAAGTAATCCT
1 AGGATTTAGCCTGGACAAGTAATCCT
26017670 GTTATATGAT
Statistics
Matches: 69, Mismatches: 13, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
56 1 0.01
57 43 0.62
58 25 0.36
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (58 bp):
AGGATTTAGCCTGGACAAGTAATCCTAATATAAGCTCTCTTAAGCATATGATAGACAT
Found at i:26019322 original size:22 final size:22
Alignment explanation
Indices: 26019297--26019340 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
26019287 TAGTTAATTA
*
26019297 AAAGATGAAAAGAAATTATCAT
1 AAAGATGAAAAAAAATTATCAT
26019319 AAAGATGAAAAAAAATTATCAT
1 AAAGATGAAAAAAAATTATCAT
26019341 CTTTCTCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.61, C:0.05, G:0.11, T:0.23
Consensus pattern (22 bp):
AAAGATGAAAAAAAATTATCAT
Found at i:26023475 original size:29 final size:29
Alignment explanation
Indices: 26023415--26023476 Score: 97
Period size: 29 Copynumber: 2.1 Consensus size: 29
26023405 TTTCTATGAT
* * *
26023415 TATGGATATTATGGGATATTGTAAGTTCA
1 TATGGATATTATGGGAAATTGTAAGCTAA
26023444 TATGGATATTATGGGAAATTGTAAGCTAA
1 TATGGATATTATGGGAAATTGTAAGCTAA
26023473 TATG
1 TATG
26023477 TAAGTAATAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.24, T:0.39
Consensus pattern (29 bp):
TATGGATATTATGGGAAATTGTAAGCTAA
Found at i:26023773 original size:64 final size:64
Alignment explanation
Indices: 26023669--26023877 Score: 190
Period size: 67 Copynumber: 3.2 Consensus size: 64
26023659 CATCATGTGT
* *
26023669 ACAAGAGAGCTACAAGACATTATTATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TA-TATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATG
26023734 TAG
62 TAG
* * * * * *
26023737 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGTGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGT
26023802 AG
63 AG
* * * * * *
26023804 ATAAGAGAGCTACGAGATAAAT-TGGTTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG
26023866 TACAAGAGAGCT
1 -ACAAGAGAGCT
26023878 GAACTATATG
Statistics
Matches: 115, Mismatches: 21, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.17
64 26 0.23
65 2 0.02
66 22 0.19
67 32 0.28
68 13 0.11
ACGTcount: A:0.31, C:0.15, G:0.29, T:0.25
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAG
Found at i:26024970 original size:2 final size:2
Alignment explanation
Indices: 26024963--26024989 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
26024953 TCATGACATG
26024963 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
26024990 GACTAGTCTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:26027753 original size:67 final size:67
Alignment explanation
Indices: 26027554--26027792 Score: 252
Period size: 67 Copynumber: 3.6 Consensus size: 67
26027544 AAATCAACAT
* * * *
26027554 GTTGCCATAGTCGAGCTATGGTCTTACA-TATATAA-CCCATGCTTAATGTCCTTGTGGACTCTA
1 GTTGCCATAGTCGAGCTATGGTCTTACACCATGTAACCCCATGTTTAATGTCCTGGT-GACTCTA
26027617 -TA
65 TTA
* * * * * **
26027619 GGTTGTCATAGTCGAGCTATGGGCTTACACCTTGTATCTCCATGTTTAACATCCTGGTGAACTCT
1 -GTTGCCATAGTCGAGCTATGGTCTTACACCATGTAACCCCATGTTTAATGTCCTGGTG-ACTCT
*
26027684 ATTC
64 ATTA
* * *
26027688 GTTGCCACAGTTGAGCTATGGTCTTACA-CATGTAACCCCATGTTTAATGTCCTGGTAGACACTA
1 GTTGCCATAGTCGAGCTATGGTCTTACACCATGTAACCCCATGTTTAATGTCCTGGT-GACTCTA
26027752 TTA
65 TTA
** *
26027755 GTTGCCATAGTCGAGCTATACTCTTACACCTTGTAACC
1 GTTGCCATAGTCGAGCTATGGTCTTACACCATGTAACC
26027793 TTTGTTCAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
66 26 0.19
67 58 0.42
68 54 0.39
69 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.34
Consensus pattern (67 bp):
GTTGCCATAGTCGAGCTATGGTCTTACACCATGTAACCCCATGTTTAATGTCCTGGTGACTCTAT
TA
Found at i:26032128 original size:26 final size:26
Alignment explanation
Indices: 26032092--26032147 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
26032082 AATCAAAATA
26032092 TATAATAATCATTCACAATTGTCCCT
1 TATAATAATCATTCACAATTGTCCCT
26032118 TATAATAATCATTCACAATTGTCCCT
1 TATAATAATCATTCACAATTGTCCCT
26032144 TATA
1 TATA
26032148 TATACTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.21, G:0.04, T:0.39
Consensus pattern (26 bp):
TATAATAATCATTCACAATTGTCCCT
Found at i:26032534 original size:42 final size:43
Alignment explanation
Indices: 26032469--26032550 Score: 116
Period size: 42 Copynumber: 1.9 Consensus size: 43
26032459 TCATACATGT
26032469 AATCAAATATCGATGCTACTGTCCCAGAC-TGGGTCTTACACAA
1 AATCAAATATCGATGCTACTGTCCCAGACAT-GGTCTTACACAA
*
26032512 AATCAAATA-CGATGCTGA-TGTCCTAGACATGGTCTTACA
1 AATCAAATATCGATGCT-ACTGTCCCAGACATGGTCTTACA
26032551 TGTAAATCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
42 25 0.69
43 11 0.31
ACGTcount: A:0.33, C:0.23, G:0.17, T:0.27
Consensus pattern (43 bp):
AATCAAATATCGATGCTACTGTCCCAGACATGGTCTTACACAA
Found at i:26032558 original size:43 final size:42
Alignment explanation
Indices: 26032446--26032596 Score: 130
Period size: 43 Copynumber: 3.5 Consensus size: 42
26032436 CAATGCCAAC
* *
26032446 GTCCTAGACGTGGTCATACATGT-AATCAAATATCGATGCTACT
1 GTCCTAGACATGGTCTTACATGTAAATCAAATA-CGATGCTA-T
* **
26032489 GTCCCAGAC-TGGGTCTTACA-CAAAATCAAATACGATGCTGAT
1 GTCCTAGACAT-GGTCTTACATGTAAATCAAATACGATGCT-AT
* *
26032531 GTCCTAGACATGGTCTTACATGTAAATCATAAGT-CGATGCCAAC
1 GTCCTAGACATGGTCTTACATGTAAATCA-AA-TACGATG-CTAT
* *
26032575 GTTCTAAACATGGTCTTACATG
1 GTCCTAGACATGGTCTTACATG
26032597 AAAACATATC
Statistics
Matches: 89, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
42 26 0.29
43 33 0.37
44 28 0.31
45 2 0.02
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (42 bp):
GTCCTAGACATGGTCTTACATGTAAATCAAATACGATGCTAT
Found at i:26035414 original size:2 final size:2
Alignment explanation
Indices: 26035407--26035565 Score: 318
Period size: 2 Copynumber: 79.5 Consensus size: 2
26035397 TAAGTGACAA
26035407 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
26035449 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
26035491 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
26035533 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
26035566 ATGTAAAAGA
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 157 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:26041280 original size:21 final size:21
Alignment explanation
Indices: 26041254--26041293 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26041244 TAAAAAAATA
*
26041254 ATTGAGAATTGAGAATTGAGG
1 ATTGAGAATTGAAAATTGAGG
*
26041275 ATTGAGGATTGAAAATTGA
1 ATTGAGAATTGAAAATTGA
26041294 AAAATGAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.30, T:0.30
Consensus pattern (21 bp):
ATTGAGAATTGAAAATTGAGG
Found at i:26041296 original size:7 final size:7
Alignment explanation
Indices: 26041253--26041293 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
26041243 CTAAAAAAAT
26041253 AATTGAG
1 AATTGAG
26041260 AATTGAG
1 AATTGAG
26041267 AATTGAG
1 AATTGAG
*
26041274 GATTGAG
1 AATTGAG
* *
26041281 GATTGAA
1 AATTGAG
26041288 AATTGA
1 AATTGA
26041294 AAAATGAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.41, C:0.00, G:0.29, T:0.29
Consensus pattern (7 bp):
AATTGAG
Found at i:26047897 original size:20 final size:20
Alignment explanation
Indices: 26047874--26047934 Score: 88
Period size: 20 Copynumber: 3.1 Consensus size: 20
26047864 ATTTTGAAGT
*
26047874 TTTTTAATGTATTTTTAATA
1 TTTTTAATGTATTTTTAAAA
* *
26047894 TTTTTATTTTATTTTTAAAA
1 TTTTTAATGTATTTTTAAAA
26047914 TTTTT-ATGTATTTTTAAAA
1 TTTTTAATGTATTTTTAAAA
26047933 TT
1 TT
26047935 AGGATCAAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
19 14 0.39
20 22 0.61
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (20 bp):
TTTTTAATGTATTTTTAAAA
Found at i:26056461 original size:21 final size:21
Alignment explanation
Indices: 26056436--26056476 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
26056426 AATTTTCAGT
26056436 CAAATATC-TTTAACCCTTTTC
1 CAAATATCTTTTAA-CCTTTTC
26056457 CAAATATCTTTTAACCTTTT
1 CAAATATCTTTTAACCTTTT
26056477 GCCATAAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (21 bp):
CAAATATCTTTTAACCTTTTC
Found at i:26063906 original size:28 final size:28
Alignment explanation
Indices: 26063874--26063938 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
26063864 ATTTACTAGA
*
26063874 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
26063902 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
26063930 ATACCCCTA
1 ATACCCCTA
26063939 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:26064085 original size:28 final size:28
Alignment explanation
Indices: 26064044--26064131 Score: 117
Period size: 28 Copynumber: 3.1 Consensus size: 28
26064034 AGGAAGCGTC
26064044 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
* *
26064072 TTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
26064100 CTGGTGGCACTGCCACAACA-TATCTGTAT
1 CTGGTGGCACTGCCACAA-ATTATCTGT-T
26064129 CTG
1 CTG
26064132 ATGACTCTGT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
28 48 0.91
29 5 0.09
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:26072964 original size:2 final size:2
Alignment explanation
Indices: 26072957--26072995 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
26072947 GTATCTTTCT
26072957 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26072996 TTGATTCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26076764 original size:25 final size:25
Alignment explanation
Indices: 26076730--26076799 Score: 95
Period size: 25 Copynumber: 2.8 Consensus size: 25
26076720 TCCTATACAT
*
26076730 GTATGCTCACACGAGCTGTGAATCG
1 GTATGCTCACACGAGCTGTGAATCA
* * * *
26076755 GTATACTCACACAAGTTGTAAATCA
1 GTATGCTCACACGAGCTGTGAATCA
26076780 GTATGCTCACACGAGCTGTG
1 GTATGCTCACACGAGCTGTG
26076800 GGTTGAAACG
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
GTATGCTCACACGAGCTGTGAATCA
Found at i:26077964 original size:24 final size:24
Alignment explanation
Indices: 26077927--26078000 Score: 121
Period size: 24 Copynumber: 3.1 Consensus size: 24
26077917 AAGTCTGCCA
* *
26077927 GGAGGGGATTTAGGAGTTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
*
26077951 GGATAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
26077975 GGAGAGGATTTAGGAGCTGATAAG
1 GGAGAGGATTTAGGAGCTGATAAG
26077999 GG
1 GG
26078001 GAGAAAATCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.31, C:0.03, G:0.43, T:0.23
Consensus pattern (24 bp):
GGAGAGGATTTAGGAGCTGATAAG
Found at i:26078014 original size:25 final size:24
Alignment explanation
Indices: 26077962--26078014 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
26077952 GATAGGATTT
** **
26077962 AGGAGCTGATAAGGGAGAGGATTT
1 AGGAGCTGATAAGGGAGAAAATCA
26077986 AGGAGCTGATAAGGGGAGAAAATCA
1 AGGAGCTGATAA-GGGAGAAAATCA
26078011 AGGA
1 AGGA
26078015 ATCTGAGGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 12 0.50
25 12 0.50
ACGTcount: A:0.40, C:0.06, G:0.40, T:0.15
Consensus pattern (24 bp):
AGGAGCTGATAAGGGAGAAAATCA
Found at i:26078236 original size:16 final size:16
Alignment explanation
Indices: 26078215--26078247 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
26078205 AACTGAATTC
26078215 TCTGCTCATCTCTTCT
1 TCTGCTCATCTCTTCT
*
26078231 TCTGCTCATCTTTTCT
1 TCTGCTCATCTCTTCT
26078247 T
1 T
26078248 TTTCTTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.33, G:0.06, T:0.55
Consensus pattern (16 bp):
TCTGCTCATCTCTTCT
Found at i:26078997 original size:8 final size:8
Alignment explanation
Indices: 26078984--26079013 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
26078974 CTAGATCGGC
26078984 AAAAGCCG
1 AAAAGCCG
26078992 AAAAGCCG
1 AAAAGCCG
*
26079000 AAATGCCG
1 AAAAGCCG
26079008 AAAAGC
1 AAAAGC
26079014 TGGTATTTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.23, G:0.23, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:26079471 original size:27 final size:27
Alignment explanation
Indices: 26079433--26079538 Score: 142
Period size: 27 Copynumber: 4.0 Consensus size: 27
26079423 AAGCGTCCTA
* *
26079433 GTGGCTATGCCACATTTATCTGATCTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
* *
26079460 GTGGCTCTGCCACATATACCTGTTCTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
*
26079487 GTGGCTCTGCCACAATTATCTGTTCTG
1 GTGGCTCTGCCACATTTATCTGTTCTG
* *
26079514 GTGACTCTGTCACA-TTATCTGTTCT
1 GTGGCTCTGCCACATTTATCTGTTCT
26079539 AGCAGCCATG
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
26 11 0.16
27 59 0.84
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (27 bp):
GTGGCTCTGCCACATTTATCTGTTCTG
Found at i:26086274 original size:40 final size:40
Alignment explanation
Indices: 26086229--26086395 Score: 158
Period size: 40 Copynumber: 4.2 Consensus size: 40
26086219 CGGAATATAA
26086229 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
26086269 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
26086309 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * * *
26086349 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-ATTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
26086388 CCGGATAT
1 CCGGATAT
26086396 CATTCAATTT
Statistics
Matches: 102, Mismatches: 24, Indels: 3
0.79 0.19 0.02
Matches are distributed among these distances:
39 13 0.13
40 89 0.87
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:26086379 original size:80 final size:79
Alignment explanation
Indices: 26086245--26086393 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 79
26086235 ATAATCACGT
* *
26086245 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-ATTAGCC
26086310 CGGATGTAGCCACTA
65 CGGATGTAGCCACTA
* * * * *
26086325 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTAGC
26086388 CCGGAT
64 CCGGAT
26086394 ATCATTCAAT
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
79 14 0.23
80 46 0.77
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTAGCCC
GGATGTAGCCACTA
Found at i:26094259 original size:40 final size:40
Alignment explanation
Indices: 26094214--26094381 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
26094204 CGGAATATAA
26094214 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
26094254 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
26094294 CCGGATGTAGCCACTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
26094334 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
26094374 CCGGATAT
1 CCGGATAT
26094382 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
39 1 0.01
40 99 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.24, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:26096431 original size:31 final size:31
Alignment explanation
Indices: 26096388--26096533 Score: 267
Period size: 31 Copynumber: 4.7 Consensus size: 31
26096378 TTAGTCTTGA
*
26096388 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
26096418 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
26096449 CATATCACTGGGCCAAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
26096480 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
26096511 CATATCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
26096534 ACTGTAAACG
Statistics
Matches: 112, Mismatches: 3, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
30 5 0.04
31 107 0.96
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:26096604 original size:42 final size:42
Alignment explanation
Indices: 26096557--26096690 Score: 232
Period size: 42 Copynumber: 3.2 Consensus size: 42
26096547 TGGCCCTTAG
*
26096557 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
*
26096599 GCCCATTTCGATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
* *
26096641 TCCCAATTCAATATCACATGTAATGTCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
26096683 GCCCATTT
1 GCCCATTT
26096691 GGGGAGACTA
Statistics
Matches: 85, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 85 1.00
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGTAATGTCAATGAATGTATGCAA
Found at i:26097722 original size:27 final size:27
Alignment explanation
Indices: 26097692--26097756 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 27
26097682 GGGCATATTC
26097692 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * * *
26097719 GTCACTTTACCCTACAGGGGCTTTATG
1 GTCATTTTACCATACAAGGGCTTTACG
*
26097746 GTCTTTTTACC
1 GTCATTTTACC
26097757 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.18, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:26097830 original size:27 final size:27
Alignment explanation
Indices: 26097788--26098056 Score: 184
Period size: 27 Copynumber: 9.9 Consensus size: 27
26097778 TTCATCCTAC
* * *
26097788 AAGGGTGTTTTGGTAAATTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
* ** *
26097815 AAGGGTATTTCAGTAATTTTGTAAACC
1 AAGGGTATTTCGGTAATTTTACAAACT
* ** * *
26097842 AATGGTATTTCTATAATTTTTAGAAAGT
1 AAGGGTATTTCGGTAA-TTTTACAAACT
* **
26097870 CAAGGGTATTTCTGTAATTTTGTAAA-T
1 -AAGGGTATTTCGGTAATTTTACAAACT
* * *
26097897 CAGGGGTATTTTGGTAATTTTACAAATT
1 -AAGGGTATTTCGGTAATTTTACAAACT
* * * *
26097925 GAGGGTATTTCGATAATTTCACAAACC
1 AAGGGTATTTCGGTAATTTTACAAACT
*
26097952 AATGGTATTTCGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
* *
26097979 AGGGGTATTTTGGTAATTTTACAAACT
1 AAGGGTATTTCGGTAATTTTACAAACT
* * * **
26098006 -AGAGGTATTTTGGTAACTCTATCCTAC-
1 AAG-GGTATTTCGGTAATTTTA-CAAACT
* *
26098033 AAGGGTATTTCAGTAATTTCACAA
1 AAGGGTATTTCGGTAATTTTACAA
26098057 TCGAGGGTAA
Statistics
Matches: 186, Mismatches: 50, Indels: 13
0.75 0.20 0.05
Matches are distributed among these distances:
26 2 0.01
27 150 0.81
28 20 0.11
29 14 0.08
ACGTcount: A:0.32, C:0.10, G:0.19, T:0.39
Consensus pattern (27 bp):
AAGGGTATTTCGGTAATTTTACAAACT
Found at i:26098013 original size:81 final size:84
Alignment explanation
Indices: 26097787--26098015 Score: 236
Period size: 81 Copynumber: 2.8 Consensus size: 84
26097777 TTTCATCCTA
* * * * ** ** * *
26097787 CAAGGGTGTTTTGGTAAATTTACAAACTAAGGGTATTTCAGTAATTTTGTAAACCA-ATGGTATT
1 CAAGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGAGGGTATT
* * * *
26097851 TCTATAATTTTTAGAAAGT
66 TCGATAATTTTCACAAAGC
* ** *
26097870 CAAGGGTATTTCTGTAATTTTGTAAA-TCAGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTAT
1 CAAGGGTATTTCGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACTAGAGGGTAT
26097933 TTCGATAA-TTTCACAAA-C
65 TTCGATAATTTTCACAAAGC
*
26097951 CAATGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGA-GGTATT
1 CAAGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGAGGGTATT
26098015 T
66 T
26098016 TGGTAACTCT
Statistics
Matches: 119, Mismatches: 23, Indels: 10
0.78 0.15 0.07
Matches are distributed among these distances:
81 54 0.45
82 12 0.10
83 53 0.45
ACGTcount: A:0.32, C:0.09, G:0.19, T:0.40
Consensus pattern (84 bp):
CAAGGGTATTTCGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAACTAGAGGGTATT
TCGATAATTTTCACAAAGC
Found at i:26098094 original size:27 final size:27
Alignment explanation
Indices: 26098055--26098238 Score: 156
Period size: 27 Copynumber: 6.8 Consensus size: 27
26098045 GTAATTTCAC
* * *
26098055 AATCGAGGGTAAAACAATAATTTTGTA
1 AATCGAAGGTAAAATAGTAATTTTGTA
*
26098082 AA-CTGAAGGTAAAATGGTAATTTTGTA
1 AATC-GAAGGTAAAATAGTAATTTTGTA
* *
26098109 AATCGAGGGTAAAATAGTAATTCTGTA
1 AATCGAAGGTAAAATAGTAATTTTGTA
* * * *
26098136 AATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAAGGTAAAATAGTAATTTTGTA
*
26098163 AATCGAGGGTAAAAT-GATAATTTTGTA
1 AATCGAAGGTAAAATAG-TAATTTTGTA
* * ** * *
26098190 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAAGGTAAAATAGTAATTTTGTA
* * *
26098217 AATTGAGGGTAAAATGGTAATT
1 AATCGAAGGTAAAATAGTAATT
26098239 CTACAAATTG
Statistics
Matches: 135, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
26 2 0.01
27 131 0.97
28 2 0.01
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.30
Consensus pattern (27 bp):
AATCGAAGGTAAAATAGTAATTTTGTA
Found at i:26098130 original size:54 final size:54
Alignment explanation
Indices: 26098055--26098238 Score: 246
Period size: 54 Copynumber: 3.4 Consensus size: 54
26098045 GTAATTTCAC
* * * * *
26098055 AATCGAGGGTAAAACAATAATTTTGTAAA-CTGAAGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTGTAAATC-GAGGGTAAAATGGTAATTCTATA
*
26098109 AATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* *
26098163 AATCGAGGGTAAAAT-GATAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAATAG-TAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
* *
26098217 AATTGAGGGTAAAATGGTAATT
1 AATCGAGGGTAAAATAGTAATT
26098239 CTACAAATTG
Statistics
Matches: 117, Mismatches: 10, Indels: 6
0.88 0.08 0.05
Matches are distributed among these distances:
53 1 0.01
54 114 0.97
55 2 0.02
ACGTcount: A:0.41, C:0.06, G:0.23, T:0.30
Consensus pattern (54 bp):
AATCGAGGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATTCTATA
Found at i:26098174 original size:81 final size:81
Alignment explanation
Indices: 26098089--26098252 Score: 256
Period size: 81 Copynumber: 2.0 Consensus size: 81
26098079 GTAAACTGAA
* * *
26098089 GGTAAAATGGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAAAATGGT
1 GGTAAAATGATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGT
*
26098154 AATTCTATAAATCGAG
66 AATTCTACAAATCGAG
* * *
26098170 GGTAAAATGATAATTTTGTAAATCGAGGGTGAAACGGTAATTCTATAAATTGAGGGTAAAATGGT
1 GGTAAAATGATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGT
*
26098235 AATTCTACAAATTGAG
66 AATTCTACAAATCGAG
26098251 GG
1 GG
26098253 CATTTCAGTA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.30
Consensus pattern (81 bp):
GGTAAAATGATAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATGGT
AATTCTACAAATCGAG
Found at i:26098239 original size:27 final size:27
Alignment explanation
Indices: 26098089--26098252 Score: 220
Period size: 27 Copynumber: 6.1 Consensus size: 27
26098079 GTAAACTGAA
* *
26098089 GGTAAAATGGTAATTTTGTAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
* *
26098116 GGTAAAATAGTAATTCTGTAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
26098143 GGTAAAATGGTAATTCTATAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
* * *
26098170 GGTAAAATGATAATTTTGTAAATCGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
* * *
26098197 GGTGAAACGGTAATTCTATAAATTGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
* *
26098224 GGTAAAATGGTAATTCTACAAATTGAG
1 GGTAAAATGGTAATTCTATAAATCGAG
26098251 GG
1 GG
26098253 CATTTCAGTA
Statistics
Matches: 121, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.39, C:0.06, G:0.24, T:0.30
Consensus pattern (27 bp):
GGTAAAATGGTAATTCTATAAATCGAG
Found at i:26102711 original size:14 final size:15
Alignment explanation
Indices: 26102675--26102711 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
26102665 TGAGTGTATG
26102675 TGATGTATGATTAAC
1 TGATGTATGATTAAC
26102690 T-ATGTATGATT-AC
1 TGATGTATGATTAAC
*
26102703 TGATATATG
1 TGATGTATG
26102712 TATGTATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 3 0.15
14 16 0.80
15 1 0.05
ACGTcount: A:0.32, C:0.05, G:0.19, T:0.43
Consensus pattern (15 bp):
TGATGTATGATTAAC
Found at i:26105739 original size:26 final size:23
Alignment explanation
Indices: 26105702--26105748 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
26105692 TAAGAAATTT
26105702 TGATAAATGAATTGATAGTTGGTTA
1 TGATAAATGAATT-ATA-TTGGTTA
*
26105727 TGATTAATCGAATTATATTGGT
1 TGATAAAT-GAATTATATTGGT
26105749 GTGAATTTGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
24 5 0.25
25 10 0.50
26 5 0.25
ACGTcount: A:0.34, C:0.02, G:0.21, T:0.43
Consensus pattern (23 bp):
TGATAAATGAATTATATTGGTTA
Found at i:26105984 original size:22 final size:22
Alignment explanation
Indices: 26105958--26105999 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
26105948 TAACTATTCA
* *
26105958 GCACTTCAGTGCCTATTGTTTT
1 GCACTACAGTGCCTACTGTTTT
*
26105980 GCACTACGGTGCCTACTGTT
1 GCACTACAGTGCCTACTGTT
26106000 AAAGCACTTC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.14, C:0.26, G:0.21, T:0.38
Consensus pattern (22 bp):
GCACTACAGTGCCTACTGTTTT
Found at i:26111298 original size:28 final size:28
Alignment explanation
Indices: 26111266--26111320 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
26111256 TAAAAGTCAT
*
26111266 GACCTTTAGCGGCGCTTCTCCCACAAAC
1 GACCTTTAGCAGCGCTTCTCCCACAAAC
26111294 GACCTTTAGCAGCGCTTCTCCCACAAA
1 GACCTTTAGCAGCGCTTCTCCCACAAA
26111321 TGCCACTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.24, C:0.38, G:0.16, T:0.22
Consensus pattern (28 bp):
GACCTTTAGCAGCGCTTCTCCCACAAAC
Found at i:26112539 original size:22 final size:22
Alignment explanation
Indices: 26112514--26112557 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
26112504 TATTTATTGT
*
26112514 TATTTAAAAAAATTATATATAA
1 TATTTAAAAAAATTAAATATAA
* *
26112536 TATTTATAAATATTAAATATAA
1 TATTTAAAAAAATTAAATATAA
26112558 AATATTAATC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TATTTAAAAAAATTAAATATAA
Found at i:26113143 original size:30 final size:29
Alignment explanation
Indices: 26113063--26113153 Score: 164
Period size: 29 Copynumber: 3.1 Consensus size: 29
26113053 TTTTATACCG
26113063 GAATAACATTGACTACATTAAAAAATTCT
1 GAATAACATTGACTACATTAAAAAATTCT
26113092 GAATAACATTGACTACATTAAAAAATTCT
1 GAATAACATTGACTACATTAAAAAATTCT
*
26113121 GAATAACATTGACTACATTTAAAAATTGCT
1 GAATAACATTGACTACATTAAAAAATT-CT
26113151 GAA
1 GAA
26113154 ATCCAGACTC
Statistics
Matches: 60, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
29 55 0.92
30 5 0.08
ACGTcount: A:0.47, C:0.13, G:0.09, T:0.31
Consensus pattern (29 bp):
GAATAACATTGACTACATTAAAAAATTCT
Found at i:26116490 original size:7 final size:7
Alignment explanation
Indices: 26116478--26116592 Score: 65
Period size: 7 Copynumber: 16.1 Consensus size: 7
26116468 ACTAATTAAT
26116478 CTAAACC
1 CTAAACC
26116485 CTAAACC
1 CTAAACC
*
26116492 TCTTAACCC
1 -C-TAAACC
*
26116501 CT-ATCC
1 CTAAACC
*
26116507 CATAAACA
1 C-TAAACC
26116515 CTAAACC
1 CTAAACC
*
26116522 CTTAACC
1 CTAAACC
*
26116529 CTTAACC
1 CTAAACC
*
26116536 CCAAACC
1 CTAAACC
*
26116543 CTTACACC
1 C-TAAACC
*
26116551 TTAAACTC
1 CTAAAC-C
26116559 C--AACC
1 CTAAACC
26116564 CTAAACC
1 CTAAACC
26116571 CTAAACC
1 CTAAACC
* * *
26116578 ATAATCT
1 CTAAACC
26116585 CTAAACC
1 CTAAACC
26116592 C
1 C
26116593 ATAATTCATC
Statistics
Matches: 81, Mismatches: 19, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
5 2 0.02
6 7 0.09
7 57 0.70
8 10 0.12
9 5 0.06
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:26116647 original size:14 final size:14
Alignment explanation
Indices: 26116637--26116681 Score: 63
Period size: 14 Copynumber: 3.2 Consensus size: 14
26116627 TCCTAAACAT
26116637 TAAACCTTAAACCA
1 TAAACCTTAAACCA
* *
26116651 TATATCTTAAACCA
1 TAAACCTTAAACCA
*
26116665 TAAACCTTAAACTA
1 TAAACCTTAAACCA
26116679 TAA
1 TAA
26116682 TGATAATTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 26 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:26116894 original size:41 final size:41
Alignment explanation
Indices: 26116848--26117090 Score: 264
Period size: 41 Copynumber: 6.0 Consensus size: 41
26116838 GTTATATGAC
*
26116848 TTTTAGCGGCGTTTTAGCAAAAGCGCCACTAATGCTCTGGT
1 TTTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGT
* * *
26116889 TTTTAGTGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGT
* **
26116930 TTTTAGTGGCGTTTTATTAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGT
*
26116971 TTTTAGCGGCGTTTTACCGC-AAA-CGCCGCTATTGCTCT-GT
1 TTTTAGCGGCGTTTTA--GCAAAAGCGCCGCTAATGCTCTGGT
* * *
26117011 TTTTAGCGGTGTTTTTTGCTAAAA-CGCCGCTATTGCTCT-GT
1 TTTTAGCGGCG-TTTTAGC-AAAAGCGCCGCTAATGCTCTGGT
* * * *
26117052 TTTTAGAGGCGTTTTTGGTAAAA-CGCCGCTATTGCTCTG
1 TTTTAGCGGCG-TTTTAGCAAAAGCGCCGCTAATGCTCTG
26117091 TATTTTACAA
Statistics
Matches: 179, Mismatches: 17, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 2 0.01
40 31 0.17
41 143 0.80
42 3 0.02
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTAGCAAAAGCGCCGCTAATGCTCTGGT
Found at i:26116985 original size:82 final size:81
Alignment explanation
Indices: 26116848--26117097 Score: 292
Period size: 82 Copynumber: 3.1 Consensus size: 81
26116838 GTTATATGAC
** * *
26116848 TTTTAGCGGCGTTTTAGCAAAAGCGCCACTAATGCTCTGGTTTTTAGTGGCGTTTTACCG-AAAG
1 TTTTAGCGGCGTTTTATTAAAAGCGCCGCTAATGCTCTGGTTTTTAGAGGCGTTTTACCGCAAA-
26116912 CGCCGCTAATGCTCTGGT
65 CGCCGCTAATGCTCT-GT
* *
26116930 TTTTAGTGGCGTTTTATTAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCGTTTTACCGCAAAC
1 TTTTAGCGGCGTTTTATTAAAAGCGCCGCTAATGCTCTGGTTTTTAGAGGCGTTTTACCGCAAAC
*
26116995 GCCGCTATTGCTCTGT
66 GCCGCTAATGCTCTGT
* * * ** *
26117011 TTTTAGCGGTGTTTTTTGCTAAAA-CGCCGCTATTGCTCT-GTTTTTAGAGGCGTTTT-TGGTAA
1 TTTTAGCGGCGTTTTAT--TAAAAGCGCCGCTAATGCTCTGGTTTTTAGAGGCGTTTTACCG-CA
*
26117073 AACGCCGCTATTGCTCTGT
63 AACGCCGCTAATGCTCTGT
26117092 ATTTTA
1 -TTTTA
26117098 CAATTTTTGT
Statistics
Matches: 149, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
80 1 0.01
81 52 0.35
82 88 0.59
83 8 0.05
ACGTcount: A:0.18, C:0.20, G:0.24, T:0.38
Consensus pattern (81 bp):
TTTTAGCGGCGTTTTATTAAAAGCGCCGCTAATGCTCTGGTTTTTAGAGGCGTTTTACCGCAAAC
GCCGCTAATGCTCTGT
Found at i:26117007 original size:123 final size:121
Alignment explanation
Indices: 26116848--26117090 Score: 296
Period size: 123 Copynumber: 2.0 Consensus size: 121
26116838 GTTATATGAC
* *
26116848 TTTTAGCGGCGTTTTAGCAAAAGCGCCACTAATGCTCTGGTTTTTAGTGGCG-TTTTACCGAAAG
1 TTTTAGCGGCGTTTTAGCAAAAGCGCCACTAATGCTCT-GTTTTTAGCGGCGTTTTTACCGAAAA
*
26116912 CGCCGCTAATGCTCTGGTTTTTAGTGGCGTTTTAT-TAAAAGCGCCGCTAATGCTCTGGT
65 CGCCGCTAATGCTCT-GTTTTTAGAGGCGTTTT-TGTAAAA-CGCCGCTAATGCTCTGGT
* * * ** *
26116971 TTTTAGCGGCGTTTTACCGC-AAA-CGCCGCTATTGCTCTGTTTTTAGCGGTGTTTTTTGCTAAA
1 TTTTAGCGGCGTTTTA--GCAAAAGCGCCACTAATGCTCTGTTTTTAGCGGCGTTTTTACCGAAA
* *
26117034 ACGCCGCTATTGCTCTGTTTTTAGAGGCGTTTTTGGTAAAACGCCGCTATTGCTCTG
64 ACGCCGCTAATGCTCTGTTTTTAGAGGCGTTTTT-GTAAAACGCCGCTAATGCTCTG
26117091 TATTTTACAA
Statistics
Matches: 104, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
121 1 0.01
122 42 0.40
123 56 0.54
124 3 0.03
125 2 0.02
ACGTcount: A:0.18, C:0.21, G:0.24, T:0.37
Consensus pattern (121 bp):
TTTTAGCGGCGTTTTAGCAAAAGCGCCACTAATGCTCTGTTTTTAGCGGCGTTTTTACCGAAAAC
GCCGCTAATGCTCTGTTTTTAGAGGCGTTTTTGTAAAACGCCGCTAATGCTCTGGT
Found at i:26119230 original size:3 final size:3
Alignment explanation
Indices: 26119222--26119273 Score: 52
Period size: 3 Copynumber: 17.7 Consensus size: 3
26119212 ACAAATTAAA
* * * * *
26119222 AAT AAT AAT ATT AAT AAT AAT GAT GAT GAT AGT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
26119269 AAT AA
1 AAT AA
26119274 AGATCTAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 40 0.95
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:26119240 original size:15 final size:15
Alignment explanation
Indices: 26119216--26119273 Score: 55
Period size: 15 Copynumber: 3.7 Consensus size: 15
26119206 TGTAAAACAA
*
26119216 ATTAAAAATAATAAT
1 ATTAATAATAATAAT
*
26119231 ATTAATAATAATGAT
1 ATTAATAATAATAAT
*
26119246 GATGATAGTAATAATAAT
1 -AT--TAATAATAATAAT
26119264 A-TAATAATAA
1 ATTAATAATAA
26119274 AGATCTAAAG
Statistics
Matches: 35, Mismatches: 5, Indels: 7
0.74 0.11 0.15
Matches are distributed among these distances:
14 8 0.23
15 13 0.37
16 2 0.06
17 1 0.03
18 11 0.31
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (15 bp):
ATTAATAATAATAAT
Found at i:26122539 original size:24 final size:24
Alignment explanation
Indices: 26122506--26122559 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
26122496 CATATTTGTA
*
26122506 TCTGTAATCTGAATCTAG-ATCTGAT
1 TCTG-AATCTGAAACT-GTATCTGAT
*
26122531 TCTGAATCTGAAACTGTATCTGCT
1 TCTGAATCTGAAACTGTATCTGAT
26122555 TCTGA
1 TCTGA
26122560 CTGTGTGTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 1 0.04
24 21 0.81
25 4 0.15
ACGTcount: A:0.26, C:0.19, G:0.17, T:0.39
Consensus pattern (24 bp):
TCTGAATCTGAAACTGTATCTGAT
Found at i:26126225 original size:19 final size:18
Alignment explanation
Indices: 26126201--26126241 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
26126191 TTGTATTGTA
26126201 TATTTTATATAATTATTCT
1 TATTTT-TATAATTATTCT
*
26126220 TA-TTTTATAATTATTTT
1 TATTTTTATAATTATTCT
26126237 TATTT
1 TATTT
26126242 GTAGAACTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 13 0.65
18 5 0.25
19 2 0.10
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.68
Consensus pattern (18 bp):
TATTTTTATAATTATTCT
Found at i:26126230 original size:17 final size:17
Alignment explanation
Indices: 26126208--26126241 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
26126198 GTATATTTTA
26126208 TATAATTATTCTTATTT
1 TATAATTATTCTTATTT
*
26126225 TATAATTATTTTTATTT
1 TATAATTATTCTTATTT
26126242 GTAGAACTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (17 bp):
TATAATTATTCTTATTT
Found at i:26127629 original size:20 final size:20
Alignment explanation
Indices: 26127584--26127634 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
26127574 AATTATGAAA
*
26127584 AATAAAAAATAATAAATTTT
1 AATAAAAATTAATAAATTTT
* *
26127604 -AGAAAAATTATTAAATTTT
1 AATAAAAATTAATAAATTTT
26127623 AATAAAAATTAA
1 AATAAAAATTAA
26127635 AAAAATAGTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
19 16 0.64
20 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (20 bp):
AATAAAAATTAATAAATTTT
Found at i:26127651 original size:17 final size:18
Alignment explanation
Indices: 26127631--26127674 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 18
26127621 TTAATAAAAA
26127631 TTAAAAAAATAGT-TTTT
1 TTAAAAAAATAGTATTTT
*
26127648 TTAAAAAATTAGTAATTTT
1 TTAAAAAAATAGT-ATTTT
26127667 TTAAAAAA
1 TTAAAAAA
26127675 TTAGAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 12 0.50
19 12 0.50
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (18 bp):
TTAAAAAAATAGTATTTT
Found at i:26127666 original size:19 final size:19
Alignment explanation
Indices: 26127631--26127696 Score: 82
Period size: 19 Copynumber: 3.5 Consensus size: 19
26127621 TTAATAAAAA
*
26127631 TTAAAAAAATAGT--TTTT
1 TTAAAAAATTAGTAATTTT
26127648 TTAAAAAATTAGTAATTTT
1 TTAAAAAATTAGTAATTTT
*
26127667 TTAAAAAATTAGAAATTTT
1 TTAAAAAATTAGTAATTTT
26127686 TATATAAAAAT
1 T-TA-AAAAAT
26127697 CATAAAAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.28
19 23 0.53
20 2 0.05
21 6 0.14
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.44
Consensus pattern (19 bp):
TTAAAAAATTAGTAATTTT
Found at i:26127720 original size:9 final size:9
Alignment explanation
Indices: 26127688--26127740 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
26127678 GAAATTTTTA
26127688 TATAAAAAT
1 TATAAAAAT
* *
26127697 CATAAAAAA
1 TATAAAAAT
26127706 TA-AAAAAT
1 TATAAAAAT
* *
26127714 TGTAAAATTT
1 TATAAAA-AT
26127724 TATAAAAAT
1 TATAAAAAT
26127733 TATAAAAA
1 TATAAAAA
26127741 AATTAATGAC
Statistics
Matches: 34, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
8 6 0.18
9 21 0.62
10 7 0.21
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (9 bp):
TATAAAAAT
Found at i:26127966 original size:9 final size:9
Alignment explanation
Indices: 26127944--26128048 Score: 65
Period size: 9 Copynumber: 11.7 Consensus size: 9
26127934 TTTTTTACGA
*
26127944 TTTTATAAAA
1 TTTTAT-AAT
26127954 TTTTATAAT
1 TTTTATAAT
26127963 TTTT-TACGAT
1 TTTTATA--AT
*
26127973 TTTTATAAAA
1 TTTTAT-AAT
* *
26127983 TTTTACAAA
1 TTTTATAAT
26127992 TTTT-TAAT
1 TTTTATAAT
*
26128000 TTTTATGAT
1 TTTTATAAT
*
26128009 TTTTATATT
1 TTTTATAAT
*
26128018 TTTTCTAA-
1 TTTTATAAT
26128026 TTTT-TAAT
1 TTTTATAAT
* *
26128034 GTTTAAAAT
1 TTTTATAAT
26128043 TTTTAT
1 TTTTAT
26128049 TAACATTTAA
Statistics
Matches: 74, Mismatches: 14, Indels: 15
0.72 0.14 0.15
Matches are distributed among these distances:
7 3 0.04
8 15 0.20
9 36 0.49
10 18 0.24
11 1 0.01
12 1 0.01
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:26127966 original size:29 final size:29
Alignment explanation
Indices: 26127934--26128021 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 29
26127924 TTGTATAACT
26127934 TTTTTTACGA-TTTTATAAAATTTTATAA
1 TTTTTTACGATTTTTATAAAATTTTATAA
*
26127962 TTTTTTACGATTTTTATAAAATTTTACAA
1 TTTTTTACGATTTTTATAAAATTTTATAA
* * *
26127991 ATTTTTA--ATTTTTAT-GATTTTTAT-A
1 TTTTTTACGATTTTTATAAAATTTTATAA
26128016 TTTTTT
1 TTTTTT
26128022 CTAATTTTTA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
25 6 0.11
26 6 0.11
27 8 0.15
28 10 0.19
29 23 0.43
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.62
Consensus pattern (29 bp):
TTTTTTACGATTTTTATAAAATTTTATAA
Found at i:26128002 original size:16 final size:16
Alignment explanation
Indices: 26127983--26128047 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
26127973 TTTTATAAAA
26127983 TTTTACAAATTTTTAAT
1 TTTTA-AAATTTTTAAT
**
26128000 TTTTATGATTTTTATATT
1 TTTTAAAATTTTTA-A-T
**
26128018 TTTTCTAATTTTTAAT
1 TTTTAAAATTTTTAAT
*
26128034 GTTTAAAATTTTTA
1 TTTTAAAATTTTTA
26128048 TTAACATTTA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 19 0.49
17 7 0.18
18 13 0.33
ACGTcount: A:0.29, C:0.03, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTTAAAATTTTTAAT
Found at i:26128028 original size:18 final size:16
Alignment explanation
Indices: 26127990--26128047 Score: 62
Period size: 16 Copynumber: 3.5 Consensus size: 16
26127980 AAATTTTACA
26127990 AATTTTTAATTTTTAT
1 AATTTTTAATTTTTAT
* *
26128006 GATTTTTATATTTTTTCT
1 AATTTTTA-A-TTTTTAT
* *
26128024 AATTTTTAATGTTTAA
1 AATTTTTAATTTTTAT
26128040 AATTTTTA
1 AATTTTTA
26128048 TTAACATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
16 19 0.56
17 2 0.06
18 13 0.38
ACGTcount: A:0.29, C:0.02, G:0.03, T:0.66
Consensus pattern (16 bp):
AATTTTTAATTTTTAT
Found at i:26134457 original size:12 final size:11
Alignment explanation
Indices: 26134440--26134480 Score: 57
Period size: 12 Copynumber: 3.6 Consensus size: 11
26134430 TTAGTACTTA
26134440 TTTTTTTCTTCT
1 TTTTTTTCTT-T
26134452 TTTTTTTCCTTT
1 TTTTTTT-CTTT
26134464 TTTTTTT-TTT
1 TTTTTTTCTTT
26134474 TTTTTTT
1 TTTTTTT
26134481 AAATTTTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 10 0.36
12 15 0.54
13 3 0.11
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:26134766 original size:118 final size:118
Alignment explanation
Indices: 26134606--26134836 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
26134596 TATTTCCGGT
26134606 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
26134671 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
26134724 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
26134789 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
26134837 ATGGAAAACA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:26135676 original size:41 final size:42
Alignment explanation
Indices: 26135619--26135721 Score: 138
Period size: 41 Copynumber: 2.5 Consensus size: 42
26135609 GGGATTCTAA
* * *
26135619 GGCTGAAATAGGACTGTTTGGCTGCAGAGATATGACATTCT-
1 GGCTGGAATAGAACTGTTTGGCAGCAGAGATATGACATTCTG
* * *
26135660 GGCTGGAATAGAACTG-TTGGCAGCAGGGATATGGCATTTTG
1 GGCTGGAATAGAACTGTTTGGCAGCAGAGATATGACATTCTG
26135701 GGCTGGAATAGAACTGTTTGG
1 GGCTGGAATAGAACTGTTTGG
26135722 TACCATGGAT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
40 20 0.37
41 30 0.56
42 4 0.07
ACGTcount: A:0.25, C:0.13, G:0.34, T:0.28
Consensus pattern (42 bp):
GGCTGGAATAGAACTGTTTGGCAGCAGAGATATGACATTCTG
Found at i:26135847 original size:15 final size:15
Alignment explanation
Indices: 26135827--26135913 Score: 72
Period size: 15 Copynumber: 5.6 Consensus size: 15
26135817 AATATTTAAC
26135827 TAAAATAAAATAAAA
1 TAAAATAAAATAAAA
26135842 TAAAATAATAAATAATAA
1 TAAAAT-A-AAATAA-AA
*
26135860 AAAAATAAAATAATAA
1 TAAAATAAAATAA-AA
*
26135876 -ATAATAAAATAAAA
1 TAAAATAAAATAAAA
*
26135890 -AATA-AAAATAAAAA
1 TAAAATAAAAT-AAAA
26135904 TAAAAATAAA
1 T-AAAATAAA
26135914 GATTGGGTTG
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
13 5 0.08
14 8 0.13
15 17 0.28
16 13 0.22
17 10 0.17
18 7 0.12
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (15 bp):
TAAAATAAAATAAAA
Found at i:26135853 original size:23 final size:22
Alignment explanation
Indices: 26135829--26135908 Score: 98
Period size: 23 Copynumber: 3.8 Consensus size: 22
26135819 TATTTAACTA
26135829 AAATAAAATAAAATAAAATAAT
1 AAATAAAATAAAATAAAATAAT
*
26135851 AAATAATAAAAAAATAAAATAAT
1 AAATAA-AATAAAATAAAATAAT
26135874 AAAT--AATAAAATAAAA-AAT
1 AAATAAAATAAAATAAAATAAT
*
26135893 AAA-AATA-AAAATAAAA
1 AAATAAAATAAAATAAAA
26135909 ATAAAGATTG
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
19 15 0.29
20 12 0.23
22 6 0.12
23 19 0.37
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (22 bp):
AAATAAAATAAAATAAAATAAT
Found at i:26135856 original size:7 final size:7
Alignment explanation
Indices: 26135844--26135912 Score: 72
Period size: 7 Copynumber: 9.9 Consensus size: 7
26135834 AAATAAAATA
26135844 AAATAAT
1 AAATAAT
26135851 AAATAAT
1 AAATAAT
*
26135858 AAAAAAAT
1 -AAATAAT
26135866 AAAATAAT
1 -AAATAAT
26135874 AAATAAT
1 AAATAAT
*
26135881 AAAATAAA
1 -AAATAAT
26135889 AAATAA-
1 AAATAAT
26135895 AAATAA-
1 AAATAAT
26135901 AAATAA-
1 AAATAAT
26135907 AAATAA
1 AAATAA
26135913 AGATTGGGTT
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
6 18 0.32
7 20 0.35
8 19 0.33
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (7 bp):
AAATAAT
Found at i:26135856 original size:12 final size:11
Alignment explanation
Indices: 26135828--26135913 Score: 90
Period size: 12 Copynumber: 7.7 Consensus size: 11
26135818 ATATTTAACT
26135828 AAAATAAAAT-
1 AAAATAAAATA
26135838 AAAATAAAATA
1 AAAATAAAATA
26135849 ATAAATAATAA-A
1 A-AAATAA-AATA
26135861 AAAATAAAATA
1 AAAATAAAATA
26135872 ATAAAT--AATA
1 A-AAATAAAATA
*
26135882 AAATAAAAAATA
1 AAA-ATAAAATA
26135894 AAAATAAAAATA
1 AAAAT-AAAATA
26135906 AAAATAAA
1 AAAATAAA
26135914 GATTGGGTTG
Statistics
Matches: 65, Mismatches: 2, Indels: 17
0.77 0.02 0.20
Matches are distributed among these distances:
9 2 0.03
10 18 0.28
11 13 0.20
12 30 0.46
13 2 0.03
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:26145370 original size:21 final size:21
Alignment explanation
Indices: 26145344--26145383 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
26145334 ATTCAAACTG
*
26145344 TAATTATACATTGATTTATCA
1 TAATTATACATTAATTTATCA
*
26145365 TAATTATATATTAATTTAT
1 TAATTATACATTAATTTAT
26145384 TAAATTAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.53
Consensus pattern (21 bp):
TAATTATACATTAATTTATCA
Found at i:26145744 original size:59 final size:60
Alignment explanation
Indices: 26145614--26145788 Score: 194
Period size: 59 Copynumber: 2.9 Consensus size: 60
26145604 TTGACTTAAT
* * * * * *
26145614 AATAAATTTAGCCCTTCAATGTTTACACAATTTATCAATTT-GATCCTAAATCTAAAAATTT
1 AATAAATTTAGCTC-TCAATGTTTAAAAAATTTATCAATTTAG-TTCTAATTCTAAAAATTC
* *
26145675 AATAATTTTAGCTCTCAATGTTTAAAAAATTTGTC-ATTTAGTTCTAATTCTAAAAATTC
1 AATAAATTTAGCTCTCAATGTTTAAAAAATTTATCAATTTAGTTCTAATTCTAAAAATTC
* ** * *
26145734 AATAAATTTAGCTTTCAACATTT-AAAAATTTATCAATTTAATTCTAATTTTAAAA
1 AATAAATTTAGCTCTCAATGTTTAAAAAATTTATCAATTTAGTTCTAATTCTAAAA
26145789 GTTAAAAAAA
Statistics
Matches: 97, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
58 10 0.10
59 56 0.58
60 19 0.20
61 12 0.12
ACGTcount: A:0.41, C:0.13, G:0.05, T:0.42
Consensus pattern (60 bp):
AATAAATTTAGCTCTCAATGTTTAAAAAATTTATCAATTTAGTTCTAATTCTAAAAATTC
Found at i:26147504 original size:17 final size:16
Alignment explanation
Indices: 26147469--26147504 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
26147459 CCCTCACTTG
*
26147469 CCCACTTGCGCCGAAC
1 CCCACTTGCGCCCAAC
26147485 CCCACTTGCGCACCAAC
1 CCCACTTGCGC-CCAAC
26147502 CCC
1 CCC
26147505 CTGCCATCTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 11 0.61
17 7 0.39
ACGTcount: A:0.19, C:0.56, G:0.14, T:0.11
Consensus pattern (16 bp):
CCCACTTGCGCCCAAC
Found at i:26149059 original size:2 final size:2
Alignment explanation
Indices: 26149052--26149081 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
26149042 ATATGTATTA
26149052 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
26149082 CTGATTCTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26158566 original size:47 final size:47
Alignment explanation
Indices: 26158497--26158666 Score: 313
Period size: 47 Copynumber: 3.6 Consensus size: 47
26158487 AACAGCTCGT
26158497 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
26158544 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
26158591 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
26158638 AGTGTATATATGTGGTAAAGCCGAATGGC
1 AGTGTATATATGTGATAAGGCCTAATGGC
26158667 TAATGTGAAA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 120 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:26158673 original size:47 final size:48
Alignment explanation
Indices: 26158497--26158916 Score: 317
Period size: 48 Copynumber: 8.8 Consensus size: 48
26158487 AACAGCTCGT
* * * **
26158497 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTG-ATGA-ATGTGAA
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAT-ACATGTGAA
* * * **
26158544 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTG-ATGA-ATGTGAA
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAT-ACATGTGAA
* * * **
26158591 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTG-ATGA-ATGTGAA
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAT-ACATGTGAA
**
26158638 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTG
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATACATGTGAA
* * **
26158687 A-TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTG
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATACATGTGAA
* * * **
26158735 A-TATGTATATGTGGTAAAGCCGAATGGATAATGTGAAATACATGTGTG
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATACATGTGAA
* * * * *
26158783 A-TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATACATGTGAA
* * * * * *
26158831 A-TGTGTATATGTCGTAAAGCCGAATGGCGAATGTGAAATGCGTATGAGAT
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATAC--ATGTGAA
*
26158881 A-TG-A-ATATGTGGTAAAGCCGAATGGCTAATGAGAAT
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAT
26158917 GTTGTAACCT
Statistics
Matches: 342, Mismatches: 26, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
47 128 0.37
48 199 0.58
49 8 0.02
50 7 0.02
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAATACATGTGAA
Found at i:26158703 original size:48 final size:48
Alignment explanation
Indices: 26158644--26158911 Score: 428
Period size: 48 Copynumber: 5.6 Consensus size: 48
26158634 TGAAAGTGTA
26158644 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
26158692 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
26158740 TATATGTGGTAAAGCCGAATGGATAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * * *
26158788 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * * * * *
26158836 TATATGTCGTAAAGCCGAATGGCGAATGTGAAATGCGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
26158884 AATATGTGGTAAAGCCGAATGGCTAATG
1 TATATGTGGTAAAGCCGAATGGCTAATG
26158912 AGAATGTTGT
Statistics
Matches: 205, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 205 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
Found at i:26159010 original size:37 final size:37
Alignment explanation
Indices: 26158960--26159045 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
26158950 GGAAATATAT
*
26158960 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
26158997 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
26159034 TCCGGGTAAGAC
1 TCCGGGTAAGAC
26159046 TTCGTAATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:26161007 original size:40 final size:40
Alignment explanation
Indices: 26160941--26161332 Score: 617
Period size: 40 Copynumber: 9.8 Consensus size: 40
26160931 AAGAATTGAG
* * *
26160941 AGTGATATATCCAGG-CTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCC-GGACTAAGTTCCGAAGAGCATTCGTGCT
26160981 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
26161021 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* *
26161061 AGTGATGTACCCGGATTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
26161101 AGTGATGTATCCGGATTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
*
26161141 AGTGATGTATCCAGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
26161181 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTC-TAGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGT-GCT
26161221 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * * * *
26161261 AGTAAGGCAACCGGACTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
* * *
26161301 AGTGATGTATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGACTAAGTTCCGAAGAGCA
26161333 ATCATGCTGG
Statistics
Matches: 329, Mismatches: 20, Indels: 6
0.93 0.06 0.02
Matches are distributed among these distances:
39 3 0.01
40 325 0.99
41 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
Found at i:26164873 original size:47 final size:47
Alignment explanation
Indices: 26164804--26164973 Score: 313
Period size: 47 Copynumber: 3.6 Consensus size: 47
26164794 AACAGCTCGT
26164804 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
26164851 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
26164898 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * *
26164945 AGTGTATATATGTGGTAAAGCCGAATGGC
1 AGTGTATATATGTGATAAGGCCTAATGGC
26164974 TAATGTGAAA
Statistics
Matches: 120, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 120 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:26164980 original size:47 final size:48
Alignment explanation
Indices: 26164804--26165223 Score: 317
Period size: 48 Copynumber: 8.8 Consensus size: 48
26164794 AACAGCTCGT
* * * **
26164804 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTG-ATGA-ATGTGAA
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAT-ACATGTGAA
* * * **
26164851 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTG-ATGA-ATGTGAA
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAT-ACATGTGAA
* * * **
26164898 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTG-ATGA-ATGTGAA
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAT-ACATGTGAA
**
26164945 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTG
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATACATGTGAA
* * **
26164994 A-TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTG
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATACATGTGAA
* * * **
26165042 A-TATGTATATGTGGTAAAGCCGAATGGATAATGTGAAATACATGTGTG
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATACATGTGAA
* * * * *
26165090 A-TATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATACATGTGAA
* * * * * *
26165138 A-TGTGTATATGTCGTAAAGCCGAATGGCGAATGTGAAATGCGTATGAGAT
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTG-AATAC--ATGTGAA
*
26165188 A-TG-A-ATATGTGGTAAAGCCGAATGGCTAATGAGAAT
1 AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAT
26165224 GTTGTAACCT
Statistics
Matches: 342, Mismatches: 26, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
47 128 0.37
48 199 0.58
49 8 0.02
50 7 0.02
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
AGTGTATATATGTGGTAAAGCCGAATGGCTAATGTGAATACATGTGAA
Found at i:26165010 original size:48 final size:48
Alignment explanation
Indices: 26164951--26165218 Score: 428
Period size: 48 Copynumber: 5.6 Consensus size: 48
26164941 TGAAAGTGTA
26164951 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
26164999 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
26165047 TATATGTGGTAAAGCCGAATGGATAATGTGAAATACATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * * *
26165095 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAGATGTG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
* * * * * *
26165143 TATATGTCGTAAAGCCGAATGGCGAATGTGAAATGCGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
*
26165191 AATATGTGGTAAAGCCGAATGGCTAATG
1 TATATGTGGTAAAGCCGAATGGCTAATG
26165219 AGAATGTTGT
Statistics
Matches: 205, Mismatches: 15, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
48 205 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.30
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATACATGTGTGATATG
Found at i:26165317 original size:37 final size:37
Alignment explanation
Indices: 26165267--26165352 Score: 163
Period size: 37 Copynumber: 2.3 Consensus size: 37
26165257 GGAAATATAT
*
26165267 TCCGGGTGAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
26165304 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
26165341 TCCGGGTAAGAC
1 TCCGGGTAAGAC
26165353 TTCGTAATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.23, C:0.20, G:0.34, T:0.23
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:26172093 original size:71 final size:70
Alignment explanation
Indices: 26172009--26172146 Score: 222
Period size: 71 Copynumber: 2.0 Consensus size: 70
26171999 ATTTTTACTT
*
26172009 TTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAAT
1 TTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAAT
26172074 TTATG
66 TTATG
** * *
26172079 TTCCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTTTCAA
1 TTCC-AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAA
26172144 TTT
65 TTT
26172147 CTACTTTCCA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
70 4 0.06
71 58 0.94
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (70 bp):
TTCCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAAT
TTATG
Found at i:26172315 original size:55 final size:56
Alignment explanation
Indices: 26172174--26172326 Score: 238
Period size: 56 Copynumber: 2.8 Consensus size: 56
26172164 TTTTTTCAAA
*
26172174 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTCAATTTATATTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTATATTTTTC
* * *
26172230 AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTTTAATTTCTGTTTTTC
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTATATTTTTC
*
26172286 -AAAAAAGCAACTCATATTGCGAGAGGTGAGTTGTA-CCTTTT
1 AAAAAAATCAACTCATATTGCGAGAGGTGAGTTG-AGCCTTTT
26172327 TGCTTTTCAA
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
55 37 0.41
56 53 0.59
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.34
Consensus pattern (56 bp):
AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTTTAATTTATATTTTTC
Found at i:26172498 original size:13 final size:14
Alignment explanation
Indices: 26172480--26172513 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
26172470 GCTGAGCTAT
*
26172480 TTTTTAATTTCT-G
1 TTTTTAATGTCTAG
26172493 TTTTTAATGTCTAG
1 TTTTTAATGTCTAG
26172507 TTTTTAA
1 TTTTTAA
26172514 AAGTCAATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 11 0.58
14 8 0.42
ACGTcount: A:0.21, C:0.06, G:0.09, T:0.65
Consensus pattern (14 bp):
TTTTTAATGTCTAG
Found at i:26173638 original size:10 final size:10
Alignment explanation
Indices: 26173623--26173657 Score: 52
Period size: 10 Copynumber: 3.3 Consensus size: 10
26173613 AAACATAAAG
26173623 AAAAAATAGAAA
1 AAAAAATAG--A
26173635 AAAAAATAGA
1 AAAAAATAGA
26173645 AAAAAATAGA
1 AAAAAATAGA
26173655 AAA
1 AAA
26173658 TTACCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.61
12 9 0.39
ACGTcount: A:0.83, C:0.00, G:0.09, T:0.09
Consensus pattern (10 bp):
AAAAAATAGA
Found at i:26173640 original size:12 final size:12
Alignment explanation
Indices: 26173623--26173650 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
26173613 AAACATAAAG
26173623 AAAAAATAGAAA
1 AAAAAATAGAAA
26173635 AAAAAATAGAAA
1 AAAAAATAGAAA
26173647 AAAA
1 AAAA
26173651 TAGAAAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (12 bp):
AAAAAATAGAAA
Found at i:26174552 original size:14 final size:15
Alignment explanation
Indices: 26174529--26174569 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
26174519 TTAATACTAC
26174529 GTTATGTATATATAT
1 GTTATGTATATATAT
*
26174544 -TTATATATAT-TAT
1 GTTATGTATATATAT
26174557 GTTATGTATATAT
1 GTTATGTATATAT
26174570 TTTGAACACT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 3 0.14
14 18 0.82
15 1 0.05
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (15 bp):
GTTATGTATATATAT
Found at i:26179370 original size:28 final size:28
Alignment explanation
Indices: 26179330--26179399 Score: 106
Period size: 28 Copynumber: 2.5 Consensus size: 28
26179320 ATAGTAAGTC
*
26179330 CGCACACTTAGTGCT-TAATAATCAAACT
1 CGCACACTTAGTGCTAT-ACAATCAAACT
*
26179358 CGCACACTTAGTGCTATACAATTAAACT
1 CGCACACTTAGTGCTATACAATCAAACT
26179386 CGCACACTTAGTGC
1 CGCACACTTAGTGC
26179400 CAATCTCATT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATACAATCAAACT
Found at i:26179961 original size:2 final size:2
Alignment explanation
Indices: 26179954--26179987 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
26179944 GGCATACATT
26179954 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
26179988 GCCGAATGTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26182089 original size:50 final size:49
Alignment explanation
Indices: 26181985--26182110 Score: 148
Period size: 50 Copynumber: 2.5 Consensus size: 49
26181975 CCAGTACATG
*
26181985 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATTTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-CTAACCATTTGATACACA
* * *
26182035 TAGTAGCCTGCACTTAGTACTACACACGTGA-TCA-CAGTTTTGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACTAACCA--TTT-GATACACA
* *
26182085 TAGTAACCTACACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
26182111 TGCTACCTCA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
47 2 0.03
48 2 0.03
49 3 0.04
50 60 0.90
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACTAACCATTTGATACACA
Found at i:26192724 original size:22 final size:22
Alignment explanation
Indices: 26192699--26192769 Score: 63
Period size: 22 Copynumber: 3.1 Consensus size: 22
26192689 ATAAAGGATT
* *
26192699 AATAAAAGAGAG-ATAAAATTAA
1 AATAAAAGAAAGAATAAAA-GAA
*
26192721 AATAAAATAAAGAATAAAAGAA
1 AATAAAAGAAAGAATAAAAGAA
*
26192743 AATAAAAGTAAAAGAAATCAAAGAA
1 AATAAAAG--AAAG-AATAAAAGAA
26192768 AA
1 AA
26192770 GAAGAGGATG
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
22 19 0.47
23 6 0.15
24 4 0.10
25 11 0.28
ACGTcount: A:0.73, C:0.01, G:0.11, T:0.14
Consensus pattern (22 bp):
AATAAAAGAAAGAATAAAAGAA
Found at i:26192756 original size:16 final size:16
Alignment explanation
Indices: 26192701--26192772 Score: 67
Period size: 17 Copynumber: 4.5 Consensus size: 16
26192691 AAAGGATTAA
* *
26192701 TAAAAGAGAGATAAAAT
1 TAAAAGA-AAATAAAAG
* *
26192718 TAAAATAAAATAAAGAA
1 TAAAAGAAAATAAA-AG
26192735 TAAAAGAAAATAAAAG
1 TAAAAGAAAATAAAAG
*
26192751 TAAAAG-AAATCAAAG
1 TAAAAGAAAATAAAAG
26192766 -AAAAGAA
1 TAAAAGAA
26192773 GAGGATGATA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
14 5 0.11
15 9 0.19
16 13 0.28
17 20 0.43
ACGTcount: A:0.72, C:0.01, G:0.12, T:0.14
Consensus pattern (16 bp):
TAAAAGAAAATAAAAG
Found at i:26199751 original size:22 final size:22
Alignment explanation
Indices: 26199723--26199766 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
26199713 ATTACGACAA
26199723 AGATGAAAGTTTGGAAAAATAC
1 AGATGAAAGTTTGGAAAAATAC
26199745 AGATGAAAGTTTGGAAAAATAC
1 AGATGAAAGTTTGGAAAAATAC
26199767 TTTAGGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.05, G:0.23, T:0.23
Consensus pattern (22 bp):
AGATGAAAGTTTGGAAAAATAC
Found at i:26202546 original size:243 final size:243
Alignment explanation
Indices: 26202118--26202606 Score: 798
Period size: 243 Copynumber: 2.0 Consensus size: 243
26202108 ACAATCTTCA
* * *
26202118 AAGTTGATAATAAAAAATGCATCTTTTTCTGCCATCGTCGAAAATTGCCACTATCAAACCGATCA
1 AAGTTGACAATAAAAAATGCATCTTTTTCTGCCATCGTCGAAAACTGCCACCATCAAACCGATCA
* * * * * * *
26202183 AGTTTGACAAAGTTGGAAGCCAACTTCCTTAGTGTTCCGCTTTTATGTGTTGTGGTGGCCATTAT
66 AGTTTGACAAAGTTGGAAGCCAACTCCCTTAGTATTCCACTTTCATATGTTGTGGTAGCCATCAT
* * *
26202248 GAAATATAACCTTAAAATTGTTATTACAAATATCTGGTGAGGAAAATCTCGAACATATGAACGAA
131 GAAATATAACCTTAAAATTGTTAGTACAAATATCTGGCGAGGAAAATCTCGAACATATGAACAAA
* *
26202313 ACTCGAATAGAAAATGAAGAAATAGGATAAGGCTCCAACGCTTGTATC
196 ACTCAAATAGAAAATGAAGAAATAGGATAAGGCTCCAACGCATGTATC
* *
26202361 AAGTTGACAATAAGAAATGCATCTTTTTCTGCCATCGTCGGAAACTGCCACCATCAAACCGATCA
1 AAGTTGACAATAAAAAATGCATCTTTTTCTGCCATCGTCGAAAACTGCCACCATCAAACCGATCA
26202426 AGTTTGACAAAGTTGGAAGCCAACTCCCTTAGTATTCCACTTTCATATGTTGTGGTAGCCATCAT
66 AGTTTGACAAAGTTGGAAGCCAACTCCCTTAGTATTCCACTTTCATATGTTGTGGTAGCCATCAT
* *
26202491 GAAATATAACCTTAAAATTGTTAGTACAAGTCTCTGGCGAGGAAAATCTCGAACATATGAACAAA
131 GAAATATAACCTTAAAATTGTTAGTACAAATATCTGGCGAGGAAAATCTCGAACATATGAACAAA
*
26202556 ACTCAAATAGAAAATGAAGAAATAGGATAAGGCTCCAAGGCATGTATC
196 ACTCAAATAGAAAATGAAGAAATAGGATAAGGCTCCAACGCATGTATC
26202604 AAG
1 AAG
26202607 CCACTATCTT
Statistics
Matches: 226, Mismatches: 20, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
243 226 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (243 bp):
AAGTTGACAATAAAAAATGCATCTTTTTCTGCCATCGTCGAAAACTGCCACCATCAAACCGATCA
AGTTTGACAAAGTTGGAAGCCAACTCCCTTAGTATTCCACTTTCATATGTTGTGGTAGCCATCAT
GAAATATAACCTTAAAATTGTTAGTACAAATATCTGGCGAGGAAAATCTCGAACATATGAACAAA
ACTCAAATAGAAAATGAAGAAATAGGATAAGGCTCCAACGCATGTATC
Found at i:26205729 original size:2 final size:2
Alignment explanation
Indices: 26205722--26205773 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
26205712 TTATCAATTC
26205722 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
26205764 AT AT AT AT AT
1 AT AT AT AT AT
26205774 TTTGGTTTAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:26208415 original size:30 final size:30
Alignment explanation
Indices: 26208353--26208415 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
26208343 ATTTATTTTA
* *
26208353 TTGTTAATTTTCTTATTATTTTAAAGGTAT
1 TTGTTAATTTTCTTATTATTTTAAAAGCAT
*
26208383 TTGTTAATTTTTTTATTATTTTAAAAGCAT
1 TTGTTAATTTTCTTATTATTTTAAAAGCAT
26208413 TTG
1 TTG
26208416 CTTGTTAAGT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.27, C:0.03, G:0.10, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTCTTATTATTTTAAAAGCAT
Found at i:26211744 original size:2 final size:2
Alignment explanation
Indices: 26211737--26211795 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
26211727 CTACCCAGAC
26211737 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
26211779 CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT C
26211796 CCCCCTTGGG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:26212649 original size:43 final size:43
Alignment explanation
Indices: 26212588--26212674 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
26212578 AACAGAGGAC
26212588 GAAGCTGGTGAGAAGGGTGGTTTGATTGAGAATCTTAGAGAAG
1 GAAGCTGGTGAGAAGGGTGGTTTGATTGAGAATCTTAGAGAAG
26212631 GAAGCTGGTGAGAAGGGTGGTTTGATTGAGAATCTTAGAGAAG
1 GAAGCTGGTGAGAAGGGTGGTTTGATTGAGAATCTTAGAGAAG
26212674 G
1 G
26212675 GTATGGATTA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.30, C:0.05, G:0.40, T:0.25
Consensus pattern (43 bp):
GAAGCTGGTGAGAAGGGTGGTTTGATTGAGAATCTTAGAGAAG
Found at i:26213791 original size:357 final size:357
Alignment explanation
Indices: 26213136--26213849 Score: 1383
Period size: 357 Copynumber: 2.0 Consensus size: 357
26213126 AAACCACCCC
26213136 CTTATTCCACAACAACAACAACCCAAACTAAGCACAGTTTTGACATGATTAGTTTCCATGGTGAG
1 CTTATTCCACAACAACAACAACCCAAACTAAGCACAGTTTTGACATGATTAGTTTCCATGGTGAG
*
26213201 TTTAGGGATTAAGAGTAGGACTGGGCAACGACCCAGAACTTATCACTTCATCTGGTTGACAATTA
66 TTTAGGGATTAAGAGTAGGACTGGGCAACGACCCAGAACCTATCACTTCATCTGGTTGACAATTA
26213266 CTAGCATTAAGAAAAGGGTCGACAAGGACAAGATGGTAGCGACGAGCCTGATGATTAGCAGAGTG
131 CTAGCATTAAGAAAAGGGTCGACAAGGACAAGATGGTAGCGACGAGCCTGATGATTAGCAGAGTG
26213331 GATGTGGGCATCGCAAGTGACGGCAGCTGAGGTCCCTGGCCTACTCGCACACCCACACCCTCTCA
196 GATGTGGGCATCGCAAGTGACGGCAGCTGAGGTCCCTGGCCTACTCGCACACCCACACCCTCTCA
* *
26213396 TCACGAGAAGAGACGAGCTTGTTTTTGCCAGGGTGAACTATGGAGTCACAACTCAAGGCACAACC
261 TCACCAGAAGAGACGAGCTTGTTTTTGCCAGGGTGAACTATGGAGTCACAACTCAAGGCACAACA
26213461 ACAACGGAGAAATGGAATTCGGGCAAGAGGAG
326 ACAACGGAGAAATGGAATTCGGGCAAGAGGAG
26213493 CTTATTCCACAACAACAACAACCCAAACTAAGCACAGTTTTGACATGATTAGTTTCCATGGTGAG
1 CTTATTCCACAACAACAACAACCCAAACTAAGCACAGTTTTGACATGATTAGTTTCCATGGTGAG
26213558 TTTAGGGATTAAGAGTAGGACTGGGCAACGACCCAGAACCTATCACTTCATCTGGTTGACAATTA
66 TTTAGGGATTAAGAGTAGGACTGGGCAACGACCCAGAACCTATCACTTCATCTGGTTGACAATTA
*
26213623 CTGGCATTAAGAAAAGGGTCGACAAGGACAAGATGGTAGCGACGAGCCTGATGATTAGCAGAGTG
131 CTAGCATTAAGAAAAGGGTCGACAAGGACAAGATGGTAGCGACGAGCCTGATGATTAGCAGAGTG
*
26213688 GATGTGGGCATCGCAAGTGACTGCAGCTGAGGTCCCTGGCCTACTCGCACACCCACACCCTCTCA
196 GATGTGGGCATCGCAAGTGACGGCAGCTGAGGTCCCTGGCCTACTCGCACACCCACACCCTCTCA
26213753 TCACCAGAAGAGACGAGCTTGTTTTTGCCAGGGTGAACTATGGAGTCACAACTCAAGGCACAACA
261 TCACCAGAAGAGACGAGCTTGTTTTTGCCAGGGTGAACTATGGAGTCACAACTCAAGGCACAACA
26213818 ACAACGGAGAAATGGAATTCGGGCAAGAGGAG
326 ACAACGGAGAAATGGAATTCGGGCAAGAGGAG
26213850 TCGAGATCGG
Statistics
Matches: 352, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
357 352 1.00
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.20
Consensus pattern (357 bp):
CTTATTCCACAACAACAACAACCCAAACTAAGCACAGTTTTGACATGATTAGTTTCCATGGTGAG
TTTAGGGATTAAGAGTAGGACTGGGCAACGACCCAGAACCTATCACTTCATCTGGTTGACAATTA
CTAGCATTAAGAAAAGGGTCGACAAGGACAAGATGGTAGCGACGAGCCTGATGATTAGCAGAGTG
GATGTGGGCATCGCAAGTGACGGCAGCTGAGGTCCCTGGCCTACTCGCACACCCACACCCTCTCA
TCACCAGAAGAGACGAGCTTGTTTTTGCCAGGGTGAACTATGGAGTCACAACTCAAGGCACAACA
ACAACGGAGAAATGGAATTCGGGCAAGAGGAG
Found at i:26220659 original size:64 final size:64
Alignment explanation
Indices: 26220586--26220802 Score: 152
Period size: 64 Copynumber: 3.3 Consensus size: 64
26220576 CTGGGCCAGA
* *
26220586 GCCCTTTTCAAATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
** ***** * ** *
26220650 GCCCATTTCAAAATACACGCAACATCAATAACATATGCAAGCCC--ATTTGGGTAACAGTGGTAC
1 GCCCATTTCAAAATACA-ATAA-A-CTGGGCCTTA-GC---CCCTTATTCAGATAACA---GTA-
* *
26220713 TGGGCCAGA-
55 TGGCCCATAG
* * *
26220722 GCCCTTTTCAGATTACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
1 GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
26220786 GCCCATTTCAAAATACA
1 GCCCATTTCAAAATACA
26220803 TGCAACATCA
Statistics
Matches: 105, Mismatches: 34, Indels: 28
0.63 0.20 0.17
Matches are distributed among these distances:
63 7 0.07
64 32 0.30
65 5 0.05
66 1 0.01
67 13 0.12
68 4 0.04
69 13 0.12
70 1 0.01
71 5 0.05
72 17 0.16
73 7 0.07
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.25
Consensus pattern (64 bp):
GCCCATTTCAAAATACAATAAACTGGGCCTTAGCCCCTTATTCAGATAACAGTATGGCCCATAG
Found at i:26220796 original size:136 final size:136
Alignment explanation
Indices: 26220552--26220836 Score: 534
Period size: 136 Copynumber: 2.1 Consensus size: 136
26220542 TATTGGGCCT
**
26220552 AAGCCCATTCAGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
26220617 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAATAAC
26220682 ATATGC
131 ATATGC
*
26220688 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAGATTACAATAAACTGGGCCTT
1 AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
*
26220753 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACATGCAACATCAATAAC
66 AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAATAAC
26220818 ATATGC
131 ATATGC
26220824 AAGCCCATTTGGG
1 AAGCCCATTTGGG
26220837 GAGACTACTC
Statistics
Matches: 145, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
136 145 1.00
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.24
Consensus pattern (136 bp):
AAGCCCATTTGGGTAACAGTGGTACTGGGCCAGAGCCCTTTTCAAATTACAATAAACTGGGCCTT
AGCCCCTTATTCAGATAACAGTATGGCCCATAGGCCCATTTCAAAATACACGCAACATCAATAAC
ATATGC
Found at i:26220872 original size:21 final size:21
Alignment explanation
Indices: 26220843--26220890 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
26220833 TGGGGAGACT
*
26220843 ACTCAACCC-ACCAACCACTAC
1 ACTCCACCCTACCAACCA-TAC
* *
26220864 ACTCCACCCTACCAGCTATAC
1 ACTCCACCCTACCAACCATAC
26220885 ACTCCA
1 ACTCCA
26220891 TATGGGGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.33, C:0.50, G:0.02, T:0.15
Consensus pattern (21 bp):
ACTCCACCCTACCAACCATAC
Done.