Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 75 of 135
Found at i:24910857 original size:90 final size:89
Alignment explanation
Indices: 24910580--24910967 Score: 320
Period size: 90 Copynumber: 4.3 Consensus size: 89
24910570 ATATTTTTAG
* * * **
24910580 AAAAGTTTAGGGGTAAAAATGTAATTTTAGGAAAGTTTAGGGTCAAAATATAATTTT-GAAAAGG
1 AAAAGTTTAAGGGTTAAAATGTAATTTTAGAAAAGTTTAGTATCAAAATATAATTTTGGAAAA-G
*
24910644 TTT-GGAGGTCAAAATGTGATTTT-A
65 TTTAGG-GGTCAAAATGTAATTTTGA
* * ** * ** * * *
24910668 GAGAAGTTTAAGGGTTAAAATGTAATTTTGGAATGGTTTGGGGTTAAAATGTGATTATTTTGGAG
1 -AAAAGTTTAAGGGTTAAAATGTAATTTTAGAAAAGTTTAGTATCAAAA--T-ATAATTTTGGAA
* *
24910733 AAGTTTGGGGGTTAAAATGTAATTTT-A
62 AAGTTTAGGGGTCAAAATGTAATTTTGA
* ** *
24910760 GAAAAGTTTGAGGGTTAAAATGCCATTTTAGAAAAGTTTAGCTATCAAAATGTAATTTTGGAAAA
1 -AAAAGTTTAAGGGTTAAAATGTAATTTTAGAAAAGTTTAG-TATCAAAATATAATTTTGGAAAA
* *
24910825 GTTTAAGGGTCAAAATGTAATTTTGG
64 GTTTAGGGGTCAAAATGTAATTTTGA
** * * * * * *
24910851 GTAAGTTTAAGGGTTAAAATATGATTTTGGGAAAGTTTA-TAGGTTAAAATATGATTTTGGAAAA
1 AAAAGTTTAAGGGTTAAAATGTAATTTTAGAAAAGTTTAGTA--TCAAAATATAATTTTGGAAAA
* *
24910915 GTTTAGGGGTCAAAATGTGATTTCGA
64 GTTTAGGGGTCAAAATGTAATTTTGA
* *
24910941 AAAAGTTT-GGGGTTAAAATGTGATTTT
1 AAAAGTTTAAGGGTTAAAATGTAATTTT
24910968 TAAAGAAAAT
Statistics
Matches: 240, Mismatches: 50, Indels: 18
0.78 0.16 0.06
Matches are distributed among these distances:
88 2 0.01
89 56 0.23
90 109 0.45
91 2 0.01
92 60 0.25
93 11 0.05
ACGTcount: A:0.36, C:0.02, G:0.25, T:0.36
Consensus pattern (89 bp):
AAAAGTTTAAGGGTTAAAATGTAATTTTAGAAAAGTTTAGTATCAAAATATAATTTTGGAAAAGT
TTAGGGGTCAAAATGTAATTTTGA
Found at i:24916852 original size:41 final size:41
Alignment explanation
Indices: 24916673--24916880 Score: 222
Period size: 41 Copynumber: 5.1 Consensus size: 41
24916663 GTATAAATGA
*
24916673 AAGACTCATGTCTCAGGATGAGCATGAGATTATATTAAAGG
1 AAGACTCATGACTCAGGATGAGCATGAGATTATATTAAAGG
* ** * *
24916714 AAGACTCCTGACTCAAAATGAGCGTGAGATTATATTAAAAG
1 AAGACTCATGACTCAGGATGAGCATGAGATTATATTAAAGG
* ** * * *
24916755 AAGACTCACGACTCAAAATAAGCATGAGATTAAATTAATGG
1 AAGACTCATGACTCAGGATGAGCATGAGATTATATTAAAGG
* * *
24916796 AAGACTTATGTCTCGGGATGAGCATGAGATTATATTAAAGG
1 AAGACTCATGACTCAGGATGAGCATGAGATTATATTAAAGG
* * *
24916837 AAGACTCATGACTC-GGGTAGAGCATAAGATTGT-TTAAGAGG
1 AAGACTCATGACTCAGGAT-GAGCATGAGATTATATTAA-AGG
24916878 AAG
1 AAG
24916881 GTCTACGACT
Statistics
Matches: 138, Mismatches: 27, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
40 7 0.05
41 131 0.95
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.25
Consensus pattern (41 bp):
AAGACTCATGACTCAGGATGAGCATGAGATTATATTAAAGG
Found at i:24921993 original size:82 final size:82
Alignment explanation
Indices: 24921758--24922013 Score: 336
Period size: 82 Copynumber: 3.1 Consensus size: 82
24921748 ACTTTAAGTA
** ****
24921758 TAAATGGAAGACTCATGTCTTAGGATGAGCATGAGATTATATTAAAGGAAGACTCGTGACTCAAA
1 TAAA-GGAAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGGAAGACTCGTGACTTGGG
*
24921823 ATGAGCATGAGATTAAAT
65 ATGAGCATGAGATTATAT
* * * *
24921841 TAAAGGAAGACTCATGTCTCGGGATGAGCATGGGATTATATTAAAGGAAGACTCATGTCTCGGGA
1 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGGAAGACTCGTGACTTGGGA
24921906 TGAGCATGAGATTATAT
66 TGAGCATGAGATTATAT
* *
24921923 TAAAGGAAGACTCATGTCTCGGGATAAGCATGAGATTATATTAAAGGAAGACTTGTGACTTGGG-
1 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGGAAGACTCGTGACTTGGGA
* *
24921987 TAGAGCATAAGATTGT-T
66 T-GAGCATGAGATTATAT
24922004 TAAGAGGAAG
1 TAA-AGGAAG
24922014 GTCTACGACT
Statistics
Matches: 154, Mismatches: 17, Indels: 5
0.88 0.10 0.03
Matches are distributed among these distances:
81 5 0.03
82 145 0.94
83 4 0.03
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.27
Consensus pattern (82 bp):
TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGGAAGACTCGTGACTTGGGA
TGAGCATGAGATTATAT
Found at i:24922000 original size:41 final size:41
Alignment explanation
Indices: 24921758--24921975 Score: 337
Period size: 41 Copynumber: 5.3 Consensus size: 41
24921748 ACTTTAAGTA
**
24921758 TAAATGGAAGACTCATGTCTTAGGATGAGCATGAGATTATAT
1 TAAA-GGAAGACTCATGTCTCGGGATGAGCATGAGATTATAT
* * *** *
24921800 TAAAGGAAGACTCGTGACTCAAAATGAGCATGAGATTAAAT
1 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATAT
*
24921841 TAAAGGAAGACTCATGTCTCGGGATGAGCATGGGATTATAT
1 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATAT
24921882 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATAT
1 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATAT
*
24921923 TAAAGGAAGACTCATGTCTCGGGATAAGCATGAGATTATAT
1 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATAT
24921964 TAAAGGAAGACT
1 TAAAGGAAGACT
24921976 TGTGACTTGG
Statistics
Matches: 161, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 157 0.98
42 4 0.02
ACGTcount: A:0.37, C:0.11, G:0.25, T:0.26
Consensus pattern (41 bp):
TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATAT
Found at i:24922012 original size:123 final size:123
Alignment explanation
Indices: 24921758--24922013 Score: 327
Period size: 123 Copynumber: 2.1 Consensus size: 123
24921748 ACTTTAAGTA
* *
24921758 TAAATGGAAGACTCATGTCTTAGGATGAGCATGAGATTATATTAAAGGAAGACTCGTGACTCAAA
1 TAAA-GGAAGACTCATGTCTCAGGATGAGCATGAGATTATATTAAAGGAAGACTCATGACTCAAA
* * **
24921823 ATGAGCATGAGATTAAATTAAAGGAAGACTCATGTCTCGGGATGAGCATGGGATTATAT
65 ATAAGCATGAGATTAAATTAAAGGAAGACTCATGACTCGGGATGAGCATAAGATTATAT
* * ***
24921882 TAAAGGAAGACTCATGTCTCGGGATGAGCATGAGATTATATTAAAGGAAGACTCATGTCTCGGGA
1 TAAAGGAAGACTCATGTCTCAGGATGAGCATGAGATTATATTAAAGGAAGACTCATGACTCAAAA
* ** * *
24921947 TAAGCATGAGATTATATTAAAGGAAGACTTGTGACTTGGG-TAGAGCATAAGATTGT-T
66 TAAGCATGAGATTAAATTAAAGGAAGACTCATGACTCGGGAT-GAGCATAAGATTATAT
24922004 TAAGAGGAAG
1 TAA-AGGAAG
24922014 GTCTACGACT
Statistics
Matches: 114, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
122 5 0.04
123 105 0.92
124 4 0.04
ACGTcount: A:0.36, C:0.11, G:0.27, T:0.27
Consensus pattern (123 bp):
TAAAGGAAGACTCATGTCTCAGGATGAGCATGAGATTATATTAAAGGAAGACTCATGACTCAAAA
TAAGCATGAGATTAAATTAAAGGAAGACTCATGACTCGGGATGAGCATAAGATTATAT
Found at i:24927093 original size:52 final size:52
Alignment explanation
Indices: 24927007--24927355 Score: 545
Period size: 52 Copynumber: 6.7 Consensus size: 52
24926997 ATTTCATTTC
* * * *
24927007 ATTCATATACTCACGATGACACATAGCCACCGGACCTCATAATCTGTATAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
* * **
24927059 ATTCATATACTCACGATGACATATAGACATCGGACCTCATAATCTTTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
* *
24927111 ATTCATATACTCACGATGATACATAGTCATCAGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
*
24927163 ATTCATATACTCATGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
*
24927215 ATTCATATACTCATGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
* ** *
24927267 ATTCATATACTCACAATGACACATAGTCATCGGACCTCATAATTAGTAAAGA
1 ATTCATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
*
24927319 ATTCATATACTCACGATGACACATAGTCATTGGACCT
1 ATTCATATACTCACGATGACACATAGTCATCGGACCT
24927356 TTTTCATTTA
Statistics
Matches: 276, Mismatches: 21, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 276 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.27
Consensus pattern (52 bp):
ATTCATATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGG
Found at i:24932510 original size:50 final size:50
Alignment explanation
Indices: 24932406--24932527 Score: 131
Period size: 50 Copynumber: 2.4 Consensus size: 50
24932396 ATAGAACAAT
* *
24932406 GAATCTTATAC-CTCTAAAGCTATAGAGGAACAGATTGAAGTAGCAATGGC
1 GAATCTCATACAC-CTAAAGCTGTAGAGGAACAGATTGAAGTAGCAATGGC
* ** * *
24932456 GAATCTCATTCACCTAAAGCTGTAGAGGGGCAGATTGAAGTCGCAA-GGAT
1 GAATCTCATACACCTAAAGCTGTAGAGGAACAGATTGAAGTAGCAATGG-C
* *
24932506 GAATCTTATACTCCTAAAGCTG
1 GAATCTCATACACCTAAAGCTG
24932528 AAATGGAGCG
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
49 2 0.03
50 57 0.95
51 1 0.02
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (50 bp):
GAATCTCATACACCTAAAGCTGTAGAGGAACAGATTGAAGTAGCAATGGC
Found at i:24934638 original size:157 final size:158
Alignment explanation
Indices: 24934316--24934801 Score: 584
Period size: 157 Copynumber: 3.1 Consensus size: 158
24934306 ACAGTTACAA
* * * *
24934316 CTCGTATGAGCATTACAGGTTATATGGGTGTTGGTCTTGGATGTTCTACCGATGGCTGAGGTCCT
1 CTCGTGTGAGCATTACAGGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCCT
* * * * *
24934381 GGATTGGTTGCGGATTCTCCACAGTTCGTGTGACCAGCGTCGCGTAGCCTAACCTCTCGACCCAT
66 GCATTGGTTGCGGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACCCAT
* * * * *
24934446 AGCTCTTGTGAGTAGACCCATTTCAAAA
131 AGCTCATGTGAGCAGACCTATTTCACAG
* * *
24934474 CTTGTGTGAGCATTACAGGTTTTAT-GGTGCTGGTCTTATATGTCCTACCGATGGCTGAGGTCCT
1 CTCGTGTGAGCATTACAGGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCCT
* * * *
24934538 GCATTGGTTGTGGATTCTCCATAGCTCGTGTGAGCAGTATCGCGTAACCTAACATCTCGACCCAT
66 GCATTGGTTGCGGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACCCAT
* *
24934603 AACTCATGTCAGCAGACCTATTTCACAG
131 AGCTCATGTGAGCAGACCTATTTCACAG
* * * * *
24934631 CTCGTGTGAGCATTACAGGTTATATGGGTGCTGATATTAGATTTCCTATCGATGGTTGAGGT-CT
1 CTCGTGTGAGCATTACAGGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCCT
** * * **
24934695 GACATTTATTGCGGATTCTCCACAGCCCGTGTGAGCAGCATCGTGTAGCCCCACATCTCG-CCTC
66 G-CATTGGTTGCGGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACC-C
* **
24934759 ACAGCTTGTGTGAGCAGA-CTCATTTCACAG
129 ATAGCTCATGTGAGCAGACCT-ATTTCACAG
24934789 CTCGTGTGAGCAT
1 CTCGTGTGAGCAT
24934802 ATATGGTTAC
Statistics
Matches: 278, Mismatches: 46, Indels: 8
0.84 0.14 0.02
Matches are distributed among these distances:
157 142 0.51
158 136 0.49
ACGTcount: A:0.20, C:0.24, G:0.25, T:0.31
Consensus pattern (158 bp):
CTCGTGTGAGCATTACAGGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCCT
GCATTGGTTGCGGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACCCAT
AGCTCATGTGAGCAGACCTATTTCACAG
Found at i:24940635 original size:158 final size:158
Alignment explanation
Indices: 24940341--24940827 Score: 735
Period size: 158 Copynumber: 3.1 Consensus size: 158
24940331 ACAGTTACAA
* * *
24940341 CTCGTATGAGCATTACAAGTTATATGGGTGCTAGTCTT-GTATGTTCTACCGATGGCTGAGGTCC
1 CTCGTGTGAGCATTACAAGTTATATGGGTGCTGGTCTTAG-ATGTCCTACCGATGGCTGAGGTCC
* *
24940405 TGCATTGGTTGCAGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACCTCTCGACCCA
65 TGCATTGGTTGCGGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACCCA
24940470 CAGCTCGTGTGAGCAGACCCATTTCACAG
130 CAGCTCGTGTGAGCAGACCCATTTCACAG
* *
24940499 CTTGTGTGAGCATTACAGGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCCT
1 CTCGTGTGAGCATTACAAGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCCT
* * *
24940564 GCATTGGTTGCGGACTCTCCACAGCTCGTTTGAGCAGCATCGCGTAGCCTAACATCTTGACCCAC
66 GCATTGGTTGCGGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACCCA-
24940629 CA-CTCGTGTGAGCAGACCCATTTCACAG
130 CAGCTCGTGTGAGCAGACCCATTTCACAG
* * *
24940657 CTCGTGTGAGCATTACAAGTTATATGGGTGCTGGTCTTAGATTTCCTACCGATGGTTGAGGTCCA
1 CTCGTGTGAGCATTACAAGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCCT
* ** * * * **
24940722 ACATTTATTGCGGATTCTCCAAAGATCGTGTGAGCAGCATCGTGTAGCCCCACATCTCGACCCAC
66 GCATTGGTTGCGGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACCCAC
* *
24940787 AGCTTGTGTGAGTAGACCCATTTCACAG
131 AGCTCGTGTGAGCAGACCCATTTCACAG
24940815 CTCGTGTGAGCAT
1 CTCGTGTGAGCAT
24940828 ATATGGTTAC
Statistics
Matches: 298, Mismatches: 28, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
157 2 0.01
158 293 0.98
159 3 0.01
ACGTcount: A:0.21, C:0.26, G:0.25, T:0.28
Consensus pattern (158 bp):
CTCGTGTGAGCATTACAAGTTATATGGGTGCTGGTCTTAGATGTCCTACCGATGGCTGAGGTCCT
GCATTGGTTGCGGATTCTCCACAGCTCGTGTGAGCAGCATCGCGTAGCCTAACATCTCGACCCAC
AGCTCGTGTGAGCAGACCCATTTCACAG
Found at i:24940860 original size:38 final size:38
Alignment explanation
Indices: 24940809--24940903 Score: 181
Period size: 38 Copynumber: 2.5 Consensus size: 38
24940799 TAGACCCATT
*
24940809 TCACAGCTCGTGTGAGCATATATGGTTACATGTTACAG
1 TCACAGCTTGTGTGAGCATATATGGTTACATGTTACAG
24940847 TCACAGCTTGTGTGAGCATATATGGTTACATGTTACAG
1 TCACAGCTTGTGTGAGCATATATGGTTACATGTTACAG
24940885 TCACAGCTTGTGTGAGCAT
1 TCACAGCTTGTGTGAGCAT
24940904 TTTCCTGAGT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 56 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (38 bp):
TCACAGCTTGTGTGAGCATATATGGTTACATGTTACAG
Found at i:24941192 original size:13 final size:13
Alignment explanation
Indices: 24941125--24941192 Score: 54
Period size: 13 Copynumber: 5.3 Consensus size: 13
24941115 ACATGTATAA
24941125 ATGAAATGG-TAT
1 ATGAAATGGTTAT
*
24941137 ATGAAATGATTAT
1 ATGAAATGGTTAT
*
24941150 A-AAATATGGTTAT
1 ATGAA-ATGGTTAT
*
24941163 AATG-AATGATT-T
1 -ATGAAATGGTTAT
24941175 CATGAAATGGTTAT
1 -ATGAAATGGTTAT
24941189 ATGA
1 ATGA
24941193 GTATATAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 11
0.70 0.11 0.18
Matches are distributed among these distances:
12 14 0.33
13 26 0.60
14 3 0.07
ACGTcount: A:0.43, C:0.01, G:0.19, T:0.37
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:24944041 original size:31 final size:30
Alignment explanation
Indices: 24943936--24944060 Score: 128
Period size: 30 Copynumber: 4.2 Consensus size: 30
24943926 GCTTTATTTT
* * **
24943936 AAAATT-T-TTTTGACCCCTAAACTGTTTA
1 AAAATTATGTTTTGACCCCCAAACTATCCA
*
24943964 AAAATTATGTTTTGACCACCAAACTATCCA
1 AAAATTATGTTTTGACCCCCAAACTATCCA
*
24943994 AAAATCATGTTTTGACCCCCAAACTATCCA
1 AAAATTATGTTTTGACCCCCAAACTATCCA
* *** *
24944024 AAAAGTTATTTTTTGACCCATGAACTTTCCA
1 AAAA-TTATGTTTTGACCCCCAAACTATCCA
24944055 AAAATT
1 AAAATT
24944061 CAAATTTGAC
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
28 6 0.07
29 1 0.01
30 50 0.62
31 24 0.30
ACGTcount: A:0.37, C:0.22, G:0.07, T:0.34
Consensus pattern (30 bp):
AAAATTATGTTTTGACCCCCAAACTATCCA
Found at i:24944071 original size:30 final size:30
Alignment explanation
Indices: 24944035--24944162 Score: 132
Period size: 30 Copynumber: 4.3 Consensus size: 30
24944025 AAAGTTATTT
*
24944035 TTTGACCCATGAACTTTCCAAAAATTCAAA
1 TTTGACCCATGAACTTTCCAAAAATTTAAA
* *
24944065 TTTGACCCTTGAACTTTCCAAAAATTTGAA
1 TTTGACCCATGAACTTTCCAAAAATTTAAA
* * * **
24944095 TTTGACCCCA-AAATTTTCCAAAAGTTTTTA
1 TTTGA-CCCATGAACTTTCCAAAAATTTAAA
* * *
24944125 TTTTACCCTTGAAGTTTCCAAAAATTTAAA
1 TTTGACCCATGAACTTTCCAAAAATTTAAA
*
24944155 TTTAACCC
1 TTTGACCC
24944163 GATTTTAATG
Statistics
Matches: 79, Mismatches: 17, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
29 3 0.04
30 73 0.92
31 3 0.04
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (30 bp):
TTTGACCCATGAACTTTCCAAAAATTTAAA
Found at i:24955560 original size:12 final size:12
Alignment explanation
Indices: 24955543--24955579 Score: 74
Period size: 12 Copynumber: 3.1 Consensus size: 12
24955533 TGTTATCATG
24955543 ATGAATGCTATT
1 ATGAATGCTATT
24955555 ATGAATGCTATT
1 ATGAATGCTATT
24955567 ATGAATGCTATT
1 ATGAATGCTATT
24955579 A
1 A
24955580 ATTCTTTAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.41
Consensus pattern (12 bp):
ATGAATGCTATT
Found at i:24956542 original size:13 final size:13
Alignment explanation
Indices: 24956526--24956589 Score: 53
Period size: 13 Copynumber: 4.9 Consensus size: 13
24956516 TTTAGCATTG
*
24956526 CTTTTGAAAAGTG
1 CTTTTGAAAAGTA
*
24956539 CTTTTAAAAAGT-
1 CTTTTGAAAAGTA
*
24956551 -TTGGTGGAAAAGTA
1 CTT--TTGAAAAGTA
24956565 CTTTT-AAGAAGTA
1 CTTTTGAA-AAGTA
24956578 CTTTTGAAAAGT
1 CTTTTGAAAAGT
24956590 TTGGTTTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
11 2 0.05
12 2 0.05
13 33 0.80
14 2 0.05
15 2 0.05
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (13 bp):
CTTTTGAAAAGTA
Found at i:24956586 original size:26 final size:25
Alignment explanation
Indices: 24956526--24956589 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 25
24956516 TTTAGCATTG
*
24956526 CTTTTGAAAAGTGCTTTTAAAAAGT
1 CTTTTGAAAAGTACTTTTAAAAAGT
* *
24956551 -TTGGTGGAAAAGTACTTTTAAGAAGT
1 CTT--TTGAAAAGTACTTTTAAAAAGT
24956577 ACTTTTGAAAAGT
1 -CTTTTGAAAAGT
24956590 TTGGTTTAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
24 2 0.06
26 27 0.87
28 2 0.06
ACGTcount: A:0.36, C:0.06, G:0.20, T:0.38
Consensus pattern (25 bp):
CTTTTGAAAAGTACTTTTAAAAAGT
Found at i:24960081 original size:18 final size:18
Alignment explanation
Indices: 24960028--24960083 Score: 51
Period size: 18 Copynumber: 3.1 Consensus size: 18
24960018 GCAAACTGAA
* * *
24960028 GAAGAAAAAGATCCTGAA
1 GAAGAAGAAGATCTTGAG
* *
24960046 GAAGAGGAGGAT-TCTGAG
1 GAAGAAGAAGATCT-TGAG
24960064 GAAGAAGAAGATCTTGAG
1 GAAGAAGAAGATCTTGAG
24960082 GA
1 GA
24960084 TGATTGATAG
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
18 28 0.97
19 1 0.03
ACGTcount: A:0.45, C:0.07, G:0.34, T:0.14
Consensus pattern (18 bp):
GAAGAAGAAGATCTTGAG
Found at i:24971777 original size:11 final size:11
Alignment explanation
Indices: 24971763--24971790 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
24971753 CATCTTGGAG
24971763 AAATCTTTGAT
1 AAATCTTTGAT
24971774 AAATCTTTGAT
1 AAATCTTTGAT
24971785 AAATCT
1 AAATCT
24971791 CCTATAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.39, C:0.11, G:0.07, T:0.43
Consensus pattern (11 bp):
AAATCTTTGAT
Found at i:24986101 original size:17 final size:18
Alignment explanation
Indices: 24986066--24986104 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
24986056 TACATCCAAA
24986066 TAAAACTCTAAAGTATTC
1 TAAAACTCTAAAGTATTC
*
24986084 TAAAACTCT-AATTATTC
1 TAAAACTCTAAAGTATTC
24986101 TAAA
1 TAAA
24986105 CAAGAAGTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (18 bp):
TAAAACTCTAAAGTATTC
Found at i:24986163 original size:18 final size:19
Alignment explanation
Indices: 24986141--24986183 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 19
24986131 TTTTGTTGAA
*
24986141 ATAAAAATCCTAAATAACT
1 ATAAAAATACTAAATAACT
*
24986160 -T-AAAATACTTAATAACT
1 ATAAAAATACTAAATAACT
24986177 ATAAAAA
1 ATAAAAA
24986184 ATTCGTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
17 14 0.70
18 2 0.10
19 4 0.20
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (19 bp):
ATAAAAATACTAAATAACT
Found at i:24989037 original size:18 final size:18
Alignment explanation
Indices: 24989014--24989049 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
24989004 TTAATTTTTT
24989014 AAACTTT-TAAAAAATTAA
1 AAACTTTAT-AAAAATTAA
24989032 AAACTTTATAAAAATTAA
1 AAACTTTATAAAAATTAA
24989050 TTTAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (18 bp):
AAACTTTATAAAAATTAA
Found at i:24992238 original size:13 final size:13
Alignment explanation
Indices: 24992220--24992244 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24992210 AGAAGGGCTA
24992220 AATTATGTTATGC
1 AATTATGTTATGC
24992233 AATTATGTTATG
1 AATTATGTTATG
24992245 AAATGTACCA
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:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (13 bp):
AATTATGTTATGC
Found at i:24995327 original size:42 final size:42
Alignment explanation
Indices: 24995280--24995359 Score: 142
Period size: 42 Copynumber: 1.9 Consensus size: 42
24995270 AGGAGAAATC
* *
24995280 TAGCTCAAAGAAAGGATTTCAAAATTCTAATAATTTCTAAAA
1 TAGCTCAAAGAAACGAATTCAAAATTCTAATAATTTCTAAAA
24995322 TAGCTCAAAGAAACGAATTCAAAATTCTAATAATTTCT
1 TAGCTCAAAGAAACGAATTCAAAATTCTAATAATTTCT
24995360 GGTTTTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (42 bp):
TAGCTCAAAGAAACGAATTCAAAATTCTAATAATTTCTAAAA
Found at i:24995709 original size:97 final size:98
Alignment explanation
Indices: 24995518--24995699 Score: 294
Period size: 97 Copynumber: 1.9 Consensus size: 98
24995508 ATTGGGATTG
* * *
24995518 GTTTTCTTTTTTCTTTTTCGATTTAGTACTTAATTTTTCTCATTAGCAAGGAAGGGATATTATCA
1 GTTTTCTTTTGTCGTTTTCAATTTAGTACTTAATTTTTCTCATTAGCAAGGAAGGGATATTATCA
24995583 AACTCAATACTTCTCAATATTAATGTATTCGGA
66 AACTCAATACTTCTCAATATTAATGTATTCGGA
* **
24995616 GTTTT-TTTTGTCGTTTTCAATTTAGTACTTAATTTTTCTCATTAGTAAGGAAGGGATATTATTG
1 GTTTTCTTTTGTCGTTTTCAATTTAGTACTTAATTTTTCTCATTAGCAAGGAAGGGATATTATCA
*
24995680 AACTCTATACTTCTCAATAT
66 AACTCAATACTTCTCAATAT
24995700 GTCAGTATTC
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
97 72 0.94
98 5 0.06
ACGTcount: A:0.27, C:0.13, G:0.13, T:0.47
Consensus pattern (98 bp):
GTTTTCTTTTGTCGTTTTCAATTTAGTACTTAATTTTTCTCATTAGCAAGGAAGGGATATTATCA
AACTCAATACTTCTCAATATTAATGTATTCGGA
Found at i:24996550 original size:24 final size:24
Alignment explanation
Indices: 24996517--24996562 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
24996507 GTAAACAAAA
24996517 TGAAGCTGGAAGCCGAAATGATGT
1 TGAAGCTGGAAGCCGAAATGATGT
* *
24996541 TGAAGTTGGAAGCTGAAATGAT
1 TGAAGCTGGAAGCCGAAATGAT
24996563 ATAGCCATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.35, C:0.09, G:0.33, T:0.24
Consensus pattern (24 bp):
TGAAGCTGGAAGCCGAAATGATGT
Found at i:24998399 original size:13 final size:12
Alignment explanation
Indices: 24998377--24998406 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
24998367 AACTGATCTC
24998377 AATTTCT-TTTT
1 AATTTCTCTTTT
24998388 AATTTCTCTTTT
1 AATTTCTCTTTT
24998400 AATTTCT
1 AATTTCT
24998407 AATTCTCTCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.20, C:0.13, G:0.00, T:0.67
Consensus pattern (12 bp):
AATTTCTCTTTT
Found at i:25000525 original size:9 final size:9
Alignment explanation
Indices: 25000511--25000540 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
25000501 ACTAGGACGC
25000511 GAAGAAGGA
1 GAAGAAGGA
*
25000520 GAAGAAAGA
1 GAAGAAGGA
25000529 GAAGAAGGA
1 GAAGAAGGA
25000538 GAA
1 GAA
25000541 CAACAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (9 bp):
GAAGAAGGA
Found at i:25007845 original size:41 final size:41
Alignment explanation
Indices: 25007765--25007900 Score: 220
Period size: 41 Copynumber: 3.3 Consensus size: 41
25007755 GAATTTTATT
*
25007765 TTAACAAGAATTCTAGTCA-CCAATTTTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
* *
25007805 TTAACAAGAATTCTAGTCACCCAATTCTAATAATCCCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
25007846 TTAACAAGAATTCTTGTCACCCAATTCTAACAATCTCCACC
1 TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
*
25007887 TTGACAAGAATTCT
1 TTAACAAGAATTCT
25007901 CTACAGACAA
Statistics
Matches: 88, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 19 0.22
41 69 0.78
ACGTcount: A:0.36, C:0.29, G:0.06, T:0.29
Consensus pattern (41 bp):
TTAACAAGAATTCTAGTCACCCAATTCTAACAATCTCCACC
Found at i:25015770 original size:21 final size:21
Alignment explanation
Indices: 25015745--25015791 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
25015735 TTCTCCTTCC
* *
25015745 TCCTTGTGTTTCTTATTTTTA
1 TCCTTGTGCTTCCTATTTTTA
*
25015766 TCCTTGTGCTTCCTCTTTTTA
1 TCCTTGTGCTTCCTATTTTTA
25015787 TCCTT
1 TCCTT
25015792 CGAACCAATC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.06, C:0.23, G:0.09, T:0.62
Consensus pattern (21 bp):
TCCTTGTGCTTCCTATTTTTA
Found at i:25051937 original size:13 final size:13
Alignment explanation
Indices: 25051919--25051954 Score: 72
Period size: 13 Copynumber: 2.8 Consensus size: 13
25051909 GCAATAGTAG
25051919 GCTTTTCCAATAA
1 GCTTTTCCAATAA
25051932 GCTTTTCCAATAA
1 GCTTTTCCAATAA
25051945 GCTTTTCCAA
1 GCTTTTCCAA
25051955 CATTTGATCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.28, C:0.25, G:0.08, T:0.39
Consensus pattern (13 bp):
GCTTTTCCAATAA
Found at i:25077065 original size:213 final size:213
Alignment explanation
Indices: 25076698--25077125 Score: 743
Period size: 213 Copynumber: 2.0 Consensus size: 213
25076688 CTTTTACATC
* *
25076698 AGCTTCAATATCACAATTGAAGTCTCCTGCACTCTTCAAACTCGAAAATCTCAATTTCCATCCCT
1 AGCTTCAATATCACAATTGAAGTCTCCTACACTCTTCAAACTCAAAAATCTCAATTTCCATCCCT
* * *
25076763 ACAAAATAGATAGAAAGATGAGTTATGATTATTCAAAGCTTTTCTAATAGAGAATTATATGTTAA
66 ACAAAATAAATAGAAAGATGAGTTATGATTATTCAAAGCTTTTCTAATAGAGAATTAGATATTAA
*
25076828 TGAGCATAACAACTAGATTACATCCTGGAATAGAGGTTTAATGGCATGAACCATTTGCCATAGTC
131 TGAGCATAACAACTAGAATACATCCTGGAATAGAGGTTTAATGGCATGAACCATTTGCCATAGTC
25076893 TTTCCCTCTATTAATCAA
196 TTTCCCTCTATTAATCAA
25076911 AGCTTCAACT-TCACAATTGAAGTCTCCTACACTCTTCAAACTCAAAAATCTCAATTTCCATCCC
1 AGCTTCAA-TATCACAATTGAAGTCTCCTACACTCTTCAAACTCAAAAATCTCAATTTCCATCCC
* *
25076975 TACAAAATAAATAGAAAGATGAGTTATGATTATTCAGAG-TTTTCCTAATAGAGAATTCGATATT
65 TACAAAATAAATAGAAAGATGAGTTATGATTATTCAAAGCTTTT-CTAATAGAGAATTAGATATT
25077039 AATGAGCATAACAACTAGAATACATCCTGGAATAGAGGTTTAATGGCATGAACCATTTGCCATAG
129 AATGAGCATAACAACTAGAATACATCCTGGAATAGAGGTTTAATGGCATGAACCATTTGCCATAG
*
25077104 TCTTTCCCTCTCTTAATCAA
194 TCTTTCCCTCTATTAATCAA
25077124 AG
1 AG
25077126 AGATGAGGTT
Statistics
Matches: 204, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
212 4 0.02
213 199 0.98
214 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (213 bp):
AGCTTCAATATCACAATTGAAGTCTCCTACACTCTTCAAACTCAAAAATCTCAATTTCCATCCCT
ACAAAATAAATAGAAAGATGAGTTATGATTATTCAAAGCTTTTCTAATAGAGAATTAGATATTAA
TGAGCATAACAACTAGAATACATCCTGGAATAGAGGTTTAATGGCATGAACCATTTGCCATAGTC
TTTCCCTCTATTAATCAA
Found at i:25080531 original size:19 final size:18
Alignment explanation
Indices: 25080504--25080542 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
25080494 TATTTAAATC
25080504 AATTTATTATTTATATTA
1 AATTTATTATTTATATTA
*
25080522 AATTTGATTATTTGTATTA
1 AATTT-ATTATTTATATTA
25080541 AA
1 AA
25080543 AATCTGAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 5 0.26
19 14 0.74
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (18 bp):
AATTTATTATTTATATTA
Found at i:25088277 original size:37 final size:37
Alignment explanation
Indices: 25088227--25088314 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
25088217 TTGATTCACC
25088227 GGCACAAAGCCCGAAAACACCGACACAAAGCCTACTA
1 GGCACAAAGCCCGAAAACACCGACACAAAGCCTACTA
* * * * *
25088264 GGCACATAGCCCGAATACATCGGCATAAAGCCTACTA
1 GGCACAAAGCCCGAAAACACCGACACAAAGCCTACTA
25088301 GGCACAAAGCCCGA
1 GGCACAAAGCCCGA
25088315 TTATTTAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 45 1.00
ACGTcount: A:0.39, C:0.33, G:0.19, T:0.09
Consensus pattern (37 bp):
GGCACAAAGCCCGAAAACACCGACACAAAGCCTACTA
Found at i:25088309 original size:16 final size:16
Alignment explanation
Indices: 25088250--25088311 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
25088240 AAAACACCGA
25088250 CACAAAGCCTACTAGG
1 CACAAAGCCTACTAGG
* *
25088266 CACATAGCCCGAATACATCGG
1 CACAAAG-CC---TAC-TAGG
*
25088287 CATAAAGCCTACTAGG
1 CACAAAGCCTACTAGG
25088303 CACAAAGCC
1 CACAAAGCC
25088312 CGATTATTTA
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
16 17 0.49
17 5 0.14
20 5 0.14
21 8 0.23
ACGTcount: A:0.37, C:0.32, G:0.18, T:0.13
Consensus pattern (16 bp):
CACAAAGCCTACTAGG
Found at i:25093417 original size:17 final size:17
Alignment explanation
Indices: 25093391--25093426 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
25093381 TATAAATGGC
25093391 TTTATATTTA-ATTAAA
1 TTTATATTTATATTAAA
25093407 TTTATTATTTATATTAAA
1 TTTA-TATTTATATTAAA
25093425 TT
1 TT
25093427 CGATTATTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.22
17 6 0.33
18 8 0.44
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTATATTTATATTAAA
Found at i:25093432 original size:19 final size:18
Alignment explanation
Indices: 25093395--25093443 Score: 57
Period size: 18 Copynumber: 2.7 Consensus size: 18
25093385 AATGGCTTTA
*
25093395 TATTTA-ATTAAATTTAT
1 TATTTATATTAAATTGAT
25093412 TATTTATATTAAATTCGAT
1 TATTTATATTAAATT-GAT
25093431 TA-TTACTATTAAA
1 TATTTA-TATTAAA
25093444 AATCTAAATC
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 6 0.21
18 11 0.39
19 11 0.39
ACGTcount: A:0.41, C:0.04, G:0.02, T:0.53
Consensus pattern (18 bp):
TATTTATATTAAATTGAT
Found at i:25098378 original size:22 final size:23
Alignment explanation
Indices: 25098336--25098382 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
25098326 TACAAATTGC
25098336 TTTATATTTAAATCAATTTATTA
1 TTTATATTTAAATCAATTTATTA
25098359 TTTATA-TTAAATTCAA-TTATTA
1 TTTATATTTAAA-TCAATTTATTA
25098381 TT
1 TT
25098383 ATTAAAAAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 13 0.57
23 10 0.43
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
TTTATATTTAAATCAATTTATTA
Found at i:25104949 original size:38 final size:38
Alignment explanation
Indices: 25104891--25105068 Score: 205
Period size: 38 Copynumber: 4.7 Consensus size: 38
25104881 GAAGCCTGCT
* *
25104891 AGCCCGATAAACACCGACATAGAGCCTACTAGGCACAA
1 AGCCCGATAAACACCGACATAAAGCCTACTGGGCACAA
* **
25104929 AGCCCGATAAATACTAACATAAAGCCTACTGGGCACAA
1 AGCCCGATAAACACCGACATAAAGCCTACTGGGCACAA
* *
25104967 AGCCCGATAAACACCGACATAAAACCTACTGGGCACTA
1 AGCCCGATAAACACCGACATAAAGCCTACTGGGCACAA
* * * *
25105005 AGCCCGATTAACACC-AGCACAAAGCCTATTAGGCACAA
1 AGCCCGATAAACACCGA-CATAAAGCCTACTGGGCACAA
* * * *
25105043 AACTCGATAGACACCGACATTAAGCC
1 AGCCCGATAAACACCGACATAAAGCC
25105069 CGATTAACAT
Statistics
Matches: 116, Mismatches: 22, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
37 1 0.01
38 114 0.98
39 1 0.01
ACGTcount: A:0.40, C:0.30, G:0.16, T:0.13
Consensus pattern (38 bp):
AGCCCGATAAACACCGACATAAAGCCTACTGGGCACAA
Found at i:25105120 original size:58 final size:59
Alignment explanation
Indices: 25105003--25105125 Score: 131
Period size: 58 Copynumber: 2.1 Consensus size: 59
25104993 TACTGGGCAC
* *
25105003 TAAGCCCGATTAACACCAGCACAAAGCCTATTAGGCACAAAACTCGATAGACACCGACAT
1 TAAGCCCGATTAACACCA-CACAAAGCCTACTAGGCACAAAACTCGATAAACACCGACAT
** * * ** * *
25105063 TAAGCCCGATTAACATTA-ACACAGCCTACTAGGCAGAAATTTTGATAAACACTGACAT
1 TAAGCCCGATTAACACCACACAAAGCCTACTAGGCACAAAACTCGATAAACACCGACAT
*
25105121 AAAGC
1 TAAGC
25105126 TGCTAGGCTC
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
58 36 0.69
60 16 0.31
ACGTcount: A:0.41, C:0.26, G:0.15, T:0.19
Consensus pattern (59 bp):
TAAGCCCGATTAACACCACACAAAGCCTACTAGGCACAAAACTCGATAAACACCGACAT
Found at i:25107592 original size:23 final size:22
Alignment explanation
Indices: 25107562--25107609 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 22
25107552 TTATATTTAA
25107562 AACTCTTATAAATACCGTGCTAT
1 AACTCTTATAAATACCGTGC-AT
25107585 AACTCTTATAAATACCGTGCAT
1 AACTCTTATAAATACCGTGCAT
25107607 AAC
1 AAC
25107610 GCTTTCAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 5 0.20
23 20 0.80
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (22 bp):
AACTCTTATAAATACCGTGCAT
Found at i:25111895 original size:23 final size:23
Alignment explanation
Indices: 25111848--25111952 Score: 140
Period size: 23 Copynumber: 4.5 Consensus size: 23
25111838 ACATTATTCG
* *
25111848 TGAACGTGTTCAATTATATGTTCA
1 TGAACATGTTCGATTA-ATGTTCA
25111872 TGAACATGTTCGATTAATGTTCA
1 TGAACATGTTCGATTAATGTTCA
* *
25111895 TGAATATGTTCGATTAATGTTCG
1 TGAACATGTTCGATTAATGTTCA
*
25111918 TGAACATGTTCGATTAA-GTTAAA
1 TGAACATGTTCGATTAATGTT-CA
25111941 TGAACATGTTCG
1 TGAACATGTTCG
25111953 TGAACATTAA
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
22 3 0.04
23 56 0.77
24 14 0.19
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.39
Consensus pattern (23 bp):
TGAACATGTTCGATTAATGTTCA
Found at i:25111962 original size:23 final size:23
Alignment explanation
Indices: 25111918--25111963 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
25111908 TTAATGTTCG
* *
25111918 TGAACATGTTCGATTAAGTTAAA
1 TGAACATGTTCGATGAAATTAAA
25111941 TGAACATGTTCG-TGAACATTAAA
1 TGAACATGTTCGATGAA-ATTAAA
25111964 CAAACGAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (23 bp):
TGAACATGTTCGATGAAATTAAA
Found at i:25113270 original size:94 final size:94
Alignment explanation
Indices: 25113165--25113336 Score: 290
Period size: 94 Copynumber: 1.8 Consensus size: 94
25113155 AGATAAAAGG
* *
25113165 GGATTTGATATATTCCTTATCAAGTAAGGAAATAGAATTTAATTATTATTTAAAAGAGTATTAGA
1 GGATTTGATATATTCCTTATCAAATAAGGAAATAAAATTTAATTATTATTTAAAAGAGTATTAGA
*
25113230 TAAATAATAATTAAAATTCAAAATCAAAA
66 TAAAAAATAATTAAAATTCAAAATCAAAA
* * *
25113259 GGATTTGATATATTCCTTCTCAAATTAGGAAATAAAATTTAATTATTATTTAAAAGAGTTTTAGA
1 GGATTTGATATATTCCTTATCAAATAAGGAAATAAAATTTAATTATTATTTAAAAGAGTATTAGA
25113324 TAAAAAATAATTA
66 TAAAAAATAATTA
25113337 TATTGTTATT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
94 72 1.00
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.37
Consensus pattern (94 bp):
GGATTTGATATATTCCTTATCAAATAAGGAAATAAAATTTAATTATTATTTAAAAGAGTATTAGA
TAAAAAATAATTAAAATTCAAAATCAAAA
Found at i:25113412 original size:26 final size:26
Alignment explanation
Indices: 25113337--25113413 Score: 66
Period size: 26 Copynumber: 3.0 Consensus size: 26
25113327 AAAATAATTA
* * *
25113337 TATTGTTATTTAAAAGAATTTTTGAT
1 TATTATTATTTAAAAGAGTTTTTAAT
* * * * *
25113363 AAATATTAATTAAAACAAG-ATTTAAT
1 TATTATTATTTAAAA-GAGTTTTTAAT
25113389 TATTATTATTTAAAAGAGTTTTTAA
1 TATTATTATTTAAAAGAGTTTTTAA
25113414 AATTCAAGAT
Statistics
Matches: 36, Mismatches: 13, Indels: 4
0.68 0.25 0.08
Matches are distributed among these distances:
25 2 0.06
26 33 0.92
27 1 0.03
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.47
Consensus pattern (26 bp):
TATTATTATTTAAAAGAGTTTTTAAT
Found at i:25116170 original size:30 final size:30
Alignment explanation
Indices: 25116136--25116196 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
25116126 ATGGCCTCTG
25116136 CCTGACTCGCATCAGGTGGTGGCAAGTCTT
1 CCTGACTCGCATCAGGTGGTGGCAAGTCTT
*
25116166 CCTGACTCGTATCAGGTGGTGGCAAGTCTT
1 CCTGACTCGCATCAGGTGGTGGCAAGTCTT
25116196 C
1 C
25116197 AACATTTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.16, C:0.26, G:0.30, T:0.28
Consensus pattern (30 bp):
CCTGACTCGCATCAGGTGGTGGCAAGTCTT
Found at i:25127212 original size:24 final size:24
Alignment explanation
Indices: 25127166--25127213 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
25127156 GTTTTATTGT
*
25127166 AATTTTATTTCTATAGAAGAAGAA
1 AATTTTATTTCTATAGAACAAGAA
*
25127190 AATTTTATTT-TAATATAACAAGAA
1 AATTTTATTTCT-ATAGAACAAGAA
25127214 GACATTGTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (24 bp):
AATTTTATTTCTATAGAACAAGAA
Found at i:25140045 original size:13 final size:14
Alignment explanation
Indices: 25140027--25140058 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
25140017 GAAAAAGGGG
25140027 AGGAAAAGGA-AGA
1 AGGAAAAGGAGAGA
25140040 AGGAAAAGGAGAGA
1 AGGAAAAGGAGAGA
25140054 AGGAA
1 AGGAA
25140059 GAAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (14 bp):
AGGAAAAGGAGAGA
Found at i:25140056 original size:21 final size:21
Alignment explanation
Indices: 25139999--25140061 Score: 63
Period size: 24 Copynumber: 2.8 Consensus size: 21
25139989 TGTGGGTATT
*
25139999 AAGGAAGAGAAAGAAGAAGAAA
1 AAGG-AGAGAAGGAAGAAGAAA
* *
25140021 AAGGGGAGGAAAAGGAAGAAGGAA
1 AA--GGA-GAGAAGGAAGAAGAAA
25140045 AAGGAGAGAAGGAAGAA
1 AAGGAGAGAAGGAAGAA
25140062 ATTTTTTCGT
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
21 11 0.32
22 5 0.15
23 1 0.03
24 17 0.50
ACGTcount: A:0.60, C:0.00, G:0.40, T:0.00
Consensus pattern (21 bp):
AAGGAGAGAAGGAAGAAGAAA
Found at i:25140494 original size:17 final size:17
Alignment explanation
Indices: 25140472--25140512 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
25140462 TTGTAATTGC
25140472 ATTGTCATCACATTTTA
1 ATTGTCATCACATTTTA
* *
25140489 ATTGTCCTTACATTTTA
1 ATTGTCATCACATTTTA
*
25140506 TTTGTCA
1 ATTGTCA
25140513 ACGCATTTCC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.24, C:0.17, G:0.07, T:0.51
Consensus pattern (17 bp):
ATTGTCATCACATTTTA
Found at i:25156469 original size:34 final size:34
Alignment explanation
Indices: 25156424--25156489 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
25156414 CTACAGTATA
*
25156424 ATTGTCCCTACAT-TATTAATGTCATTGCATTTTT
1 ATTGTCCCTACATCTA-TAATATCATTGCATTTTT
* *
25156458 ATTGTCGCTACATCTATATTATCATTGCATTT
1 ATTGTCCCTACATCTATAATATCATTGCATTT
25156490 CCATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 26 0.93
35 2 0.07
ACGTcount: A:0.24, C:0.18, G:0.09, T:0.48
Consensus pattern (34 bp):
ATTGTCCCTACATCTATAATATCATTGCATTTTT
Found at i:25158095 original size:19 final size:20
Alignment explanation
Indices: 25158048--25158095 Score: 50
Period size: 19 Copynumber: 2.5 Consensus size: 20
25158038 TTGATAATTC
25158048 TTAA-TATTA-AATTATAAA
1 TTAATTATTATAATTATAAA
*
25158066 TTAAATT-TTATAATT-TATA
1 TT-AATTATTATAATTATAAA
25158085 TTAATTATTAT
1 TTAATTATTAT
25158096 CAAAAGTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 6 0.24
19 14 0.56
20 5 0.20
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
TTAATTATTATAATTATAAA
Found at i:25159690 original size:18 final size:18
Alignment explanation
Indices: 25159667--25159710 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
25159657 AAAAGAAGAA
25159667 GAAGAAGAAGAGGATCCT
1 GAAGAAGAAGAGGATCCT
25159685 GAAGAAGAAGAGGATCCT
1 GAAGAAGAAGAGGATCCT
*
25159703 GAGGAAGA
1 GAAGAAGA
25159711 GCCTGTGGAG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.45, C:0.09, G:0.36, T:0.09
Consensus pattern (18 bp):
GAAGAAGAAGAGGATCCT
Found at i:25167171 original size:30 final size:30
Alignment explanation
Indices: 25167135--25167197 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
25167125 CCTATTTCAC
*
25167135 TCTTTATTTTATAACTTACATTGTAATGTG
1 TCTTTATTTTATAACTTACACTGTAATGTG
25167165 TCTTTATTTTATAACTTACACTGTAATGTG
1 TCTTTATTTTATAACTTACACTGTAATGTG
25167195 TCT
1 TCT
25167198 ACCTACCCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.25, C:0.13, G:0.10, T:0.52
Consensus pattern (30 bp):
TCTTTATTTTATAACTTACACTGTAATGTG
Found at i:25178008 original size:25 final size:24
Alignment explanation
Indices: 25177980--25178033 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
25177970 TTAGTCTAGC
25177980 CAAAAT-AAGAAAAATAGAG-AAAAA
1 CAAAATGAA-AAAAAT-GAGTAAAAA
25178004 TCAAAATGAAAAAAATGAGTAAAAA
1 -CAAAATGAAAAAAATGAGTAAAAA
25178029 CAAAA
1 CAAAA
25178034 GAAGCATGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.30
25 17 0.63
26 2 0.07
ACGTcount: A:0.72, C:0.06, G:0.11, T:0.11
Consensus pattern (24 bp):
CAAAATGAAAAAAATGAGTAAAAA
Found at i:25178027 original size:24 final size:25
Alignment explanation
Indices: 25177980--25178033 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
25177970 TTAGTCTAGC
*
25177980 CAAAATAAGAAAAATAGAGAAAAAT
1 CAAAATAAGAAAAATAGAGAAAAAA
*
25178005 CAAAATGAA-AAAAAT-GAGTAAAAA
1 CAAAAT-AAGAAAAATAGAGAAAAAA
25178029 CAAAA
1 CAAAA
25178034 GAAGCATGAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
24 12 0.46
25 12 0.46
26 2 0.08
ACGTcount: A:0.72, C:0.06, G:0.11, T:0.11
Consensus pattern (25 bp):
CAAAATAAGAAAAATAGAGAAAAAA
Found at i:25191858 original size:13 final size:15
Alignment explanation
Indices: 25191842--25191875 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
25191832 AAAGGGGAAG
25191842 AGAAAAAG-A-AAAA
1 AGAAAAAGAAGAAAA
25191855 AGAAAAAGAAGAAAA
1 AGAAAAAGAAGAAAA
25191870 AGAAAA
1 AGAAAA
25191876 GGAGAGGTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.42
14 1 0.05
15 10 0.53
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (15 bp):
AGAAAAAGAAGAAAA
Found at i:25192510 original size:112 final size:110
Alignment explanation
Indices: 25192185--25192498 Score: 344
Period size: 112 Copynumber: 2.8 Consensus size: 110
25192175 ATAGGTCATT
** * * * * *
25192185 TTAATCCTTTTCATTCGTATGAGCTTTGCCTACAATAAAAGTCAATTTTTTCCACCTTACAACTT
1 TTAA-CCTTTTCATTCACACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACAT
** * * *
25192250 GGTTCAAGTATTTTTGCATCGAAATAACGTATAGTGGACCAATGATTC
65 -GTTCAAACATTTTTGCATTGAAATAAAGT-TAGTGGACTAATGATTC
** * *
25192298 TTAACCTTTTCATTCGTACGAGCTTTGCCTCCAAT-GAATTGCTATTTTATCCACCTTACAATCA
1 TTAACCTTTTCATTCACACGAGCTTTGCCTCCAATAAAATT-CAATTTTATCCACCTTACAA-CA
* *
25192362 TGTTCAATCATGTTTT-CATTGAAATAACAGTCAGTGGACTAATGATTC
64 TGTTCAAACAT-TTTTGCATTGAAATAA-AGTTAGTGGACTAATGATTC
* * * *
25192410 TTAATCTTTTCATTCACGCGAGCCTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACCCT
1 TTAACCTTTTCATTCACACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAA-CAT
25192475 GTTCAAACATTTTTGCATTGAAAT
65 GTTCAAACATTTTTGCATTGAAAT
25192499 GATGGTTAGT
Statistics
Matches: 172, Mismatches: 23, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
111 7 0.04
112 149 0.87
113 16 0.09
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (110 bp):
TTAACCTTTTCATTCACACGAGCTTTGCCTCCAATAAAATTCAATTTTATCCACCTTACAACATG
TTCAAACATTTTTGCATTGAAATAAAGTTAGTGGACTAATGATTC
Found at i:25193284 original size:147 final size:146
Alignment explanation
Indices: 25192960--25193323 Score: 415
Period size: 147 Copynumber: 2.5 Consensus size: 146
25192950 GGGAAAAGTG
* * * * *
25192960 GAGGCCGTAACGACAAACCCGGTACCATGGAGATTTAATGAGAAAGGTTGAGGCTGCAATAGCGA
1 GAGGCCGTAACGATAAA-CCGGTACCAT-GAAATATAATGGGAAAGGTTGAGGCTGCAATGGCGA
* * * *
25193025 ACCCGGTACCATAGAGATTTGAAGGGAAAGGTTGATGCCACAACGGTAAACCCGGTACCTTAGAA
64 ACCCGGTACCATAGAGATTTGAAGGGAAAAGTTGAGGCCACAACGGCAAACCCGGTACCTTAAAA
25193090 GACGTGATGAGAAAGATT
129 GACGTGATGAGAAAGATT
* ** * * *
25193108 GAGGCCGCAACGACTAATTCAGTACCATGAAATGTAATGGGAAAGGTTGAGGCTGCAATGGTGAA
1 GAGGCCGTAACGA-TAAACCGGTACCATGAAATATAATGGGAAAGGTTGAGGCTGCAATGGCGAA
*** * * *
25193173 CCCGGTACCAT-GAAGATTTGAAGGGAAAAGTTGAGGCTGTAATGGCGAACCCGTTACCTTAAAA
65 CCCGGTACCATAG-AGATTTGAAGGGAAAAGTTGAGGCCACAACGGCAAACCCGGTACCTTAAAA
* *
25193237 GACGTGATGGGAACGATT
129 GACGTGATGAGAAAGATT
* * * * *
25193255 GAGGCCGTAACGGTAAACCTGGTATCATGAAGATATGATGGGAAAGGTTGAGACTGCAACGGCGA
1 GAGGCCGTAACGATAAACC-GGTACCATGAA-ATATAATGGGAAAGGTTGAGGCTGCAATGGCGA
25193320 ACCC
64 ACCC
25193324 AGCACCTTAG
Statistics
Matches: 179, Mismatches: 33, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
146 5 0.03
147 120 0.67
148 52 0.29
149 2 0.01
ACGTcount: A:0.33, C:0.18, G:0.30, T:0.19
Consensus pattern (146 bp):
GAGGCCGTAACGATAAACCGGTACCATGAAATATAATGGGAAAGGTTGAGGCTGCAATGGCGAAC
CCGGTACCATAGAGATTTGAAGGGAAAAGTTGAGGCCACAACGGCAAACCCGGTACCTTAAAAGA
CGTGATGAGAAAGATT
Found at i:25193306 original size:49 final size:49
Alignment explanation
Indices: 25192936--25193344 Score: 230
Period size: 49 Copynumber: 8.3 Consensus size: 49
25192926 ACTAAGGAAA
* * * * * * **
25192936 CATGAAGATATAAAGGGAAAAGTGGAGGCCGTAACGACAAACCCGGTAC
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTAAACCCGGTAC
* * * * * ** **
25192985 CATGGAGATTTAATGAGAAAGGTTGAGGCTGCAATAGCGAACCCGGTAC
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTAAACCCGGTAC
* * * *
25193034 CAT-AGAGATTTGAAGGGAAAGGTTGATGCCACAACGGTAAACCCGGTAC
1 CATGA-AGATGTGATGGGAAAGGTTGAGGCCGCAACGGTAAACCCGGTAC
* * * * * ** *
25193083 CTTAGAAGACGTGATGAGAAAGATTGAGGCCGCAACGACT-AATTCAGTAC
1 CAT-GAAGATGTGATGGGAAAGGTTGAGGCCGCAACG-GTAAACCCGGTAC
* * * *
25193133 CATGAA-ATGTAATGGGAAAGGTTGAGGCTGCAATGGTGAACCCGGTAC
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTAAACCCGGTAC
* * * * * * ** *
25193181 CATGAAGATTTGAAGGGAAAAGTTGAGGCTGTAATGGCGAACCCGTTAC
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTAAACCCGGTAC
* * * * * * * *
25193230 CTTAAAAGACGTGATGGGAACGATTGAGGCCGTAACGGTAAACCTGGTAT
1 CAT-GAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTAAACCCGGTAC
* * * ** * *
25193280 CATGAAGATATGATGGGAAAGGTTGAGACTGCAACGGCGAACCCAGCAC
1 CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTAAACCCGGTAC
*
25193329 CTTAGAAGATGTGATG
1 CAT-GAAGATGTGATG
25193345 TGAGGATTGA
Statistics
Matches: 267, Mismatches: 85, Indels: 15
0.73 0.23 0.04
Matches are distributed among these distances:
47 1 0.00
48 36 0.13
49 150 0.56
50 78 0.29
51 2 0.01
ACGTcount: A:0.34, C:0.17, G:0.30, T:0.19
Consensus pattern (49 bp):
CATGAAGATGTGATGGGAAAGGTTGAGGCCGCAACGGTAAACCCGGTAC
Found at i:25193319 original size:99 final size:99
Alignment explanation
Indices: 25193144--25193323 Score: 234
Period size: 99 Copynumber: 1.8 Consensus size: 99
25193134 ATGAAATGTA
* * * * * *
25193144 ATGGGAAAGGTTGAGGCTGCAATGGTGAACCCGGTACCATGAAGATTTGAAGGGAAAAGTTGAGG
1 ATGGGAAAGATTGAGGCCGCAACGGTAAACCCGGTACCATGAAGATATGAAGGGAAAAGTTGAGA
* *
25193209 CTGTAATGGCGAACCCGTTACCTTAAAAGACGTG
66 CTGCAACGGCGAACCCGTTACCTTAAAAGACGTG
* * * * * *
25193243 ATGGGAACGATTGAGGCCGTAACGGTAAACCTGGTATCATGAAGATATGATGGGAAAGGTTGAGA
1 ATGGGAAAGATTGAGGCCGCAACGGTAAACCCGGTACCATGAAGATATGAAGGGAAAAGTTGAGA
25193308 CTGCAACGGCGAACCC
66 CTGCAACGGCGAACCC
25193324 AGCACCTTAG
Statistics
Matches: 67, Mismatches: 14, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
99 67 1.00
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (99 bp):
ATGGGAAAGATTGAGGCCGCAACGGTAAACCCGGTACCATGAAGATATGAAGGGAAAAGTTGAGA
CTGCAACGGCGAACCCGTTACCTTAAAAGACGTG
Found at i:25193331 original size:99 final size:99
Alignment explanation
Indices: 25193144--25193344 Score: 233
Period size: 99 Copynumber: 2.0 Consensus size: 99
25193134 ATGAAATGTA
* * * * * *
25193144 ATGGGAAAGGTTGAGGCTGCAATGGTGAACCCGGTACCATGAAGATTTGAAGGGAAAAGTTGAGG
1 ATGGGAAAGATTGAGGCCGCAACGGTAAACCCGGTACCATGAAGATATGAAGGGAAAAGTTGAGA
* * *
25193209 CTGTAATGGCGAACCCGTTACCTTAAAAGACGTG
66 CTGCAACGGCGAACCCGTCACCTTAAAAGACGTG
* * * * * *
25193243 ATGGGAACGATTGAGGCCGTAACGGTAAACCTGGTATCATGAAGATATGATGGGAAAGGTTGAGA
1 ATGGGAAAGATTGAGGCCGCAACGGTAAACCCGGTACCATGAAGATATGAAGGGAAAAGTTGAGA
* *
25193308 CTGCAACGGCGAACCCAG-CACCTTAGAAGATGTG
66 CTGCAACGGCGAACCC-GTCACCTTAAAAGACGTG
25193342 ATG
1 ATG
25193345 TGAGGATTGA
Statistics
Matches: 84, Mismatches: 17, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
99 83 0.99
100 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.32, T:0.20
Consensus pattern (99 bp):
ATGGGAAAGATTGAGGCCGCAACGGTAAACCCGGTACCATGAAGATATGAAGGGAAAAGTTGAGA
CTGCAACGGCGAACCCGTCACCTTAAAAGACGTG
Found at i:25193857 original size:78 final size:77
Alignment explanation
Indices: 25193671--25194550 Score: 1008
Period size: 78 Copynumber: 11.3 Consensus size: 77
25193661 CATCACCATC
** * *
25193671 CAATCTCTTACCCCAATCATGGGGAAGATTGAAGCATCCAATCTTTTACCTTAATCAAAAGGCA-
1 CAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCAG
*
25193735 ATTGAAGATACA
66 ATTGAAGACACA
* * *
25193747 CCGATCTCTTACCCTGGTCATGGGGCAAATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCA
1 -CAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCA
25193812 GATTGAAGACACA
65 GATTGAAGACACA
* *
25193825 CAGATCTCTTACCCTGGTCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGTA
1 CA-ATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCA
25193890 GATTGAAGACACA
65 GATTGAAGACACA
** * * *
25193903 CCAATCTCTTACCCCAATCATGGGGCAGATTGAAGAATCCAATCTTTTACCATAATCAAAAGGCA
1 -CAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCA
*
25193968 GATTGAAGATACA
65 GATTGAAGACACA
* * *
25193981 CTGATCTCTTACCCTGGTCATGGGGCAAATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCA
1 C-AATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCA
25194046 GATTGAAGACACA
65 GATTGAAGACACA
* * ** *
25194059 CCGATCTCTTACCCTGGTCATGGGGCAGATTGAAGTGTCCAATCTTTTACCTTAATCAGAAGGTA
1 -CAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCA
25194124 GATTGAAGACACA
65 GATTGAAGACACA
* * * *
25194137 CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCGATCTTTTACCCTAATCAGAGGGCA
1 -CAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCA
25194202 GATTGAAGACATGC-
65 GATTGAAGACA--CA
* * * * * *
25194216 CAATCTCTTACCCTAATCATGGGACAGATAGAAGC-TCCGATCTTTTACCTTGATCAGATGGCAG
1 CAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCAG
25194280 ATTGAAGACACA
66 ATTGAAGACACA
* * * *
25194292 CCAATCTCTTA-CCTCGATTATGGGGCAGATTGAAACAT-CAGATCTTTTACCATAATCAGAGGG
1 -CAATCTCTTACCCT-GATCATGGGGCAGATTGAAGCATCCA-ATCTTTTACCTTAATCAGAAGG
*
25194355 CAAATTGAAGACACA
63 CAGATTGAAGACACA
* * * *
25194370 CTAATCTCTTACCCCGATCATGGGGCAAATTAAAGCATCCAATCTTTTACCCTAATCA-AAGGGC
1 C-AATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAA-GGC
*
25194434 AGATTGAAGAGACA
64 AGATTGAAGACACA
* * * *** *
25194448 TCGA-CT-TTA-CCTCGATCACGGGGCA-AGTTGAAGCCATCCAATCTCTTACCCCGATCATG-G
1 -CAATCTCTTACCCT-GATCATGGGGCAGA-TTGAAG-CATCCAATCTTTTACCTTAATCA-GAA
* *
25194508 GGTAGATTGAAGACGTCA
61 GGCAGATTGAAGAC-ACA
*
25194526 TCCAATCTCTTACACTGATCATGGG
1 --CAATCTCTTACCCTGATCATGGG
25194551 ACAGTTTAAA
Statistics
Matches: 694, Mismatches: 82, Indels: 50
0.84 0.10 0.06
Matches are distributed among these distances:
75 4 0.01
76 22 0.03
77 158 0.23
78 484 0.70
79 10 0.01
80 3 0.00
81 11 0.02
82 2 0.00
ACGTcount: A:0.31, C:0.24, G:0.19, T:0.26
Consensus pattern (77 bp):
CAATCTCTTACCCTGATCATGGGGCAGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGCAG
ATTGAAGACACA
Found at i:25194078 original size:234 final size:234
Alignment explanation
Indices: 25193670--25194497 Score: 1184
Period size: 234 Copynumber: 3.6 Consensus size: 234
25193660 ACATCACCAT
* *
25193670 CCAATCTCTTACCCCAATCATGGGGAAGATTGAAGCATCCAATCTTTTACCTTAATCAAAAGGCA
1 CCAATCTCTTACCCCAATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAAAAGGCA
*
25193735 -ATTGAAGATACACCGATCTCTTACCCTGGTCATGGGGCAAATTGAAGCATCCAATCTTTTACCT
66 GATTGAAGATACACCGATCTCTTACCCTGATCATGGGGCAAATTGAAGCATCCAATCTTTTACCT
*
25193799 TAATCAGAAGGCAGATTGAAGACACACAGATCTCTTACCCTGGTCATGGGGCAGATTGAAGCATC
131 TAATCAGAAGGCAGATTGAAGACACACCGATCTCTTACCCTGGTCATGGGGCAGATTGAAGCATC
25193864 CAATCTTTTACCTTAATCAGAAGGTAGATTGAAGACACA
196 CAATCTTTTACCTTAATCAGAAGGTAGATTGAAGACACA
* *
25193903 CCAATCTCTTACCCCAATCATGGGGCAGATTGAAGAATCCAATCTTTTACCATAATCAAAAGGCA
1 CCAATCTCTTACCCCAATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAAAAGGCA
* *
25193968 GATTGAAGATACACTGATCTCTTACCCTGGTCATGGGGCAAATTGAAGCATCCAATCTTTTACCT
66 GATTGAAGATACACCGATCTCTTACCCTGATCATGGGGCAAATTGAAGCATCCAATCTTTTACCT
**
25194033 TAATCAGAAGGCAGATTGAAGACACACCGATCTCTTACCCTGGTCATGGGGCAGATTGAAGTGTC
131 TAATCAGAAGGCAGATTGAAGACACACCGATCTCTTACCCTGGTCATGGGGCAGATTGAAGCATC
25194098 CAATCTTTTACCTTAATCAGAAGGTAGATTGAAGACACA
196 CAATCTTTTACCTTAATCAGAAGGTAGATTGAAGACACA
* * * *
25194137 CCAATCTCTTACCCCGATCATGGGGCAGATTGAAGCATCCGATCTTTTACCCTAATCAGAGGGCA
1 CCAATCTCTTACCCCAATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAAAAGGCA
* ** * * * * * *
25194202 GATTGAAGACATGCCAATCTCTTACCCTAATCATGGGACAGATAGAAGC-TCCGATCTTTTACCT
66 GATTGAAGATACACCGATCTCTTACCCTGATCATGGGGCAAATTGAAGCATCCAATCTTTTACCT
* * * * * *
25194266 TGATCAGATGGCAGATTGAAGACACACCAATCTCTTA-CCTCGATTATGGGGCAGATTGAAACAT
131 TAATCAGAAGGCAGATTGAAGACACACCGATCTCTTACCCT-GGTCATGGGGCAGATTGAAGCAT
* * * *
25194330 -CAGATCTTTTACCATAATCAGAGGGCAAATTGAAGACACA
195 CCA-ATCTTTTACCTTAATCAGAAGGTAGATTGAAGACACA
* * * * *
25194370 CTAATCTCTTACCCCGATCATGGGGCAAATTAAAGCATCCAATCTTTTACCCTAATCAAAGGGCA
1 CCAATCTCTTACCCCAATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAAAAGGCA
* * * * *
25194435 GATTGAAGAGACATCGA-CT-TTA-CCTCGATCACGGGGCAAGTTGAAGCCATCCAATCTCTTAC
66 GATTGAAGATACACCGATCTCTTACCCT-GATCATGGGGCAAATTGAAG-CATCCAATCTTTTAC
25194497 C
129 C
25194498 CCGATCATGG
Statistics
Matches: 535, Mismatches: 54, Indels: 12
0.89 0.09 0.02
Matches are distributed among these distances:
230 3 0.01
231 17 0.03
232 8 0.01
233 245 0.46
234 262 0.49
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (234 bp):
CCAATCTCTTACCCCAATCATGGGGCAGATTGAAGCATCCAATCTTTTACCCTAATCAAAAGGCA
GATTGAAGATACACCGATCTCTTACCCTGATCATGGGGCAAATTGAAGCATCCAATCTTTTACCT
TAATCAGAAGGCAGATTGAAGACACACCGATCTCTTACCCTGGTCATGGGGCAGATTGAAGCATC
CAATCTTTTACCTTAATCAGAAGGTAGATTGAAGACACA
Found at i:25194281 original size:37 final size:38
Alignment explanation
Indices: 25193696--25194442 Score: 340
Period size: 40 Copynumber: 19.2 Consensus size: 38
25193686 ATCATGGGGA
* * * *
25193696 AGATTGAAGCATCCAATCTTTTACCTTAATCAAAAGGC
1 AGATTGAAGCATCCGATCTTTTACCCTAATCAGATGGC
* ** *
25193734 A-ATTGAAG-ATACACCGATCTCTTACCCTGGTCATG-GGGC
1 AGATTGAAGCAT---CCGATCTTTTACCCTAATCA-GATGGC
* * * *
25193773 AAATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGC
1 AGATTGAAGCATCCGATCTTTTACCCTAATCAGATGGC
* ** *
25193811 AGATTGAAGACA-CACAGATCTCTTACCCTGGTCATG-GGGC
1 AGATTGAAG-CATC-C-GATCTTTTACCCTAATCA-GATGGC
* * * *
25193851 AGATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGT
1 AGATTGAAGCATCCGATCTTTTACCCTAATCAGATGGC
* * * * *
25193889 AGATTGAAGACACACCAATCTCTTACCCCAATCATG-GGGC
1 AGATTGAAG-CA-TCCGATCTTTTACCCTAATCA-GATGGC
* * * * *
25193929 AGATTGAAGAATCCAATCTTTTACCATAATCAAAAGGC
1 AGATTGAAGCATCCGATCTTTTACCCTAATCAGATGGC
* ** *
25193967 AGATTGAAG-ATACACTGATCTCTTACCCTGGTCATG-GGGC
1 AGATTGAAGCAT-C-C-GATCTTTTACCCTAATCA-GATGGC
* * * *
25194007 AAATTGAAGCATCCAATCTTTTACCTTAATCAGAAGGC
1 AGATTGAAGCATCCGATCTTTTACCCTAATCAGATGGC
* * ** *
25194045 AGATTGAAGACACACCGATCTCTTACCCTGGTCATG-GGGC
1 AGATTGAAG-CA-TCCGATCTTTTACCCTAATCA-GATGGC
** * * * *
25194085 AGATTGAAGTGTCCAATCTTTTACCTTAATCAGAAGGT
1 AGATTGAAGCATCCGATCTTTTACCCTAATCAGATGGC
* * * ** *
25194123 AGATTGAAGACACACCAATCTCTTACCCCGATCATG-GGGC
1 AGATTGAAG-CA-TCCGATCTTTTACCCTAATCA-GATGGC
*
25194163 AGATTGAAGCATCCGATCTTTTACCCTAATCAGAGGGC
1 AGATTGAAGCATCCGATCTTTTACCCTAATCAGATGGC
* *
25194201 AGATTGAAGACATGCCAATCTCTTACCCTAATC--ATGGGAC
1 AGATTGAAG-CAT-CCGATCTTTTACCCTAATCAGAT-GG-C
* * *
25194241 AGATAGAAGC-TCCGATCTTTTACCTTGATCAGATGGC
1 AGATTGAAGCATCCGATCTTTTACCCTAATCAGATGGC
* * * * * *
25194278 AGATTGAAGACACACCAATCTCTTA-CCTCGATTATG-GGGC
1 AGATTGAAG-CA-TCCGATCTTTTACCCT-AATCA-GATGGC
* * * *
25194318 AGATTGAAACATCAGATCTTTTACCATAATCAGAGGGC
1 AGATTGAAGCATCCGATCTTTTACCCTAATCAGATGGC
* * * ** *
25194356 AAATTGAAGACA-CACTAATCTCTTACCCCGATCATG-GGGC
1 AGATTGAAG-CATC-C-GATCTTTTACCCTAATCA-GATGGC
* * * * *
25194396 AAATTAAAGCATCCAATCTTTTACCCTAATCAAAGGGC
1 AGATTGAAGCATCCGATCTTTTACCCTAATCAGATGGC
25194434 AGATTGAAG
1 AGATTGAAG
25194443 AGACATCGAC
Statistics
Matches: 535, Mismatches: 124, Indels: 100
0.70 0.16 0.13
Matches are distributed among these distances:
36 2 0.00
37 39 0.07
38 215 0.40
39 53 0.10
40 216 0.40
41 10 0.02
ACGTcount: A:0.32, C:0.23, G:0.19, T:0.26
Consensus pattern (38 bp):
AGATTGAAGCATCCGATCTTTTACCCTAATCAGATGGC
Found at i:25196467 original size:2 final size:2
Alignment explanation
Indices: 25196460--25196484 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25196450 AGTCCTTTAT
25196460 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 T
25196485 TGTTCTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25218570 original size:17 final size:17
Alignment explanation
Indices: 25218545--25218577 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
25218535 ACTAACACTA
*
25218545 AAATGCAATGACAATGG
1 AAATACAATGACAATGG
25218562 AAATACAATGACAATG
1 AAATACAATGACAATG
25218578 TGCACTAACA
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:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (17 bp):
AAATACAATGACAATGG
Found at i:25225018 original size:21 final size:21
Alignment explanation
Indices: 25224994--25225037 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
25224984 GGTTGCACTC
*
25224994 GATTTTGGTGTGGCTACATTT
1 GATTTTGGTGTGGATACATTT
* *
25225015 GATTTTGTTGTGGATGCATTT
1 GATTTTGGTGTGGATACATTT
25225036 GA
1 GA
25225038 GTACGCTGAT
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:0.16, C:0.07, G:0.30, T:0.48
Consensus pattern (21 bp):
GATTTTGGTGTGGATACATTT
Found at i:25264885 original size:19 final size:19
Alignment explanation
Indices: 25264848--25264886 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
25264838 AATTGTTTAG
* *
25264848 AGGAAACATAAACTTTCAA
1 AGGAAAAATAAACTATCAA
*
25264867 AGGAAAAATAACCTATCAA
1 AGGAAAAATAAACTATCAA
25264886 A
1 A
25264887 TAAAGAAACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.15, G:0.10, T:0.18
Consensus pattern (19 bp):
AGGAAAAATAAACTATCAA
Found at i:25267271 original size:17 final size:18
Alignment explanation
Indices: 25267238--25267271 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25267228 CATAAAGACT
*
25267238 TCTAAAAATTTCTCCATG
1 TCTAAAAATTTCACCATG
25267256 TCTAAAAATTT-ACCAT
1 TCTAAAAATTTCACCAT
25267272 CATACAACAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.38, C:0.21, G:0.03, T:0.38
Consensus pattern (18 bp):
TCTAAAAATTTCACCATG
Found at i:25270241 original size:17 final size:17
Alignment explanation
Indices: 25270221--25270274 Score: 63
Period size: 17 Copynumber: 3.2 Consensus size: 17
25270211 TCGCATATCA
25270221 TTACAAATCACATGTCG
1 TTACAAATCACATGTCG
* *
25270238 TTACAAGTCACATGTTG
1 TTACAAATCACATGTCG
* * *
25270255 TTTCAACTCACATATCG
1 TTACAAATCACATGTCG
25270272 TTA
1 TTA
25270275 TAGGTCACGT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.35
Consensus pattern (17 bp):
TTACAAATCACATGTCG
Found at i:25270282 original size:17 final size:17
Alignment explanation
Indices: 25270261--25270317 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 17
25270251 GTTGTTTCAA
25270261 CTCACATATCGTTATAG
1 CTCACATATCGTTATAG
* * *
25270278 GTCACGTATTGTTATAG
1 CTCACATATCGTTATAG
** *
25270295 CTCATTTATCGTTACAG
1 CTCACATATCGTTATAG
25270312 CTCACA
1 CTCACA
25270318 ATGATTGTAA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.26, C:0.23, G:0.14, T:0.37
Consensus pattern (17 bp):
CTCACATATCGTTATAG
Found at i:25272822 original size:52 final size:52
Alignment explanation
Indices: 25272741--25272929 Score: 146
Period size: 52 Copynumber: 3.6 Consensus size: 52
25272731 TATTTTCAAT
* **
25272741 ACAAAACAGTTCATTCATTCGATGTAATGACAACTTGCATATACATTTCATC
1 ACAAAACAGTTCATGCATTCGATACAATGACAACTTGCATATACATTTCATC
* * * * * * * * *
25272793 ACAAAATAGTTCATGCATTCGATACAATGA-TAGTTCACATAAACAATGCTTT
1 ACAAAACAGTTCATGCATTCGATACAATGACAACTT-GCATATACATTTCATC
* * * ** * * * *
25272845 ATAAGACAATTCACACATTCGATACAATGGCAGCTAGCATATGCATTTCATC
1 ACAAAACAGTTCATGCATTCGATACAATGACAACTTGCATATACATTTCATC
* *
25272897 ACAAATATAGTTCATGCATTCGATGCAATGACA
1 ACAAA-ACAGTTCATGCATTCGATACAATGACA
25272930 TACAATACTT
Statistics
Matches: 96, Mismatches: 38, Indels: 5
0.69 0.27 0.04
Matches are distributed among these distances:
51 3 0.03
52 71 0.74
53 22 0.23
ACGTcount: A:0.38, C:0.20, G:0.12, T:0.30
Consensus pattern (52 bp):
ACAAAACAGTTCATGCATTCGATACAATGACAACTTGCATATACATTTCATC
Found at i:25276001 original size:29 final size:29
Alignment explanation
Indices: 25275952--25276053 Score: 132
Period size: 29 Copynumber: 3.5 Consensus size: 29
25275942 ATTATCAGAT
* *
25275952 TCAACCACAAAGGCTCTCATATAACATAA
1 TCAACCACAAAGGCTCACATATAACAAAA
** * *
25275981 TCAGTCACAAAGGCTCACATATAATAGAA
1 TCAACCACAAAGGCTCACATATAACAAAA
* *
25276010 TTAACCACGAAGGCTCACATATAACAAAA
1 TCAACCACAAAGGCTCACATATAACAAAA
25276039 TCAACCACAAAGGCT
1 TCAACCACAAAGGCT
25276054 TCTCTTTTTT
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.45, C:0.25, G:0.11, T:0.19
Consensus pattern (29 bp):
TCAACCACAAAGGCTCACATATAACAAAA
Found at i:25277289 original size:15 final size:15
Alignment explanation
Indices: 25277269--25277304 Score: 56
Period size: 15 Copynumber: 2.4 Consensus size: 15
25277259 ATTTTAATAA
25277269 TTTTATCTT-TTAATT
1 TTTTAT-TTGTTAATT
25277284 TTTTATTTGTTAATT
1 TTTTATTTGTTAATT
25277299 TTTTAT
1 TTTTAT
25277305 ATAACATTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 2 0.10
15 18 0.90
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (15 bp):
TTTTATTTGTTAATT
Found at i:25285463 original size:29 final size:28
Alignment explanation
Indices: 25285426--25285515 Score: 81
Period size: 29 Copynumber: 3.1 Consensus size: 28
25285416 TATTAAAAAT
25285426 TATGAATTTTTTAAAATTGGTCACCCAAC
1 TATGAATTTTTT-AAATTGGTCACCCAAC
* *** * * *
25285455 TATGGATTTGTTCTTTTTTAGTCTCGCAAC
1 TATGAATTT-TT-TAAATTGGTCACCCAAC
25285485 TATGAATTTTTTTAAATTGGTCACCCAAC
1 TATGAA-TTTTTTAAATTGGTCACCCAAC
25285514 TA
1 TA
25285516 ATCAAGATTT
Statistics
Matches: 44, Mismatches: 14, Indels: 6
0.69 0.22 0.09
Matches are distributed among these distances:
29 21 0.48
30 19 0.43
31 4 0.09
ACGTcount: A:0.28, C:0.17, G:0.12, T:0.43
Consensus pattern (28 bp):
TATGAATTTTTTAAATTGGTCACCCAAC
Found at i:25285537 original size:24 final size:24
Alignment explanation
Indices: 25285505--25285553 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
25285495 TTTAAATTGG
25285505 TCACCCAACTAATCAAGATTTTTT
1 TCACCCAACTAATCAAGATTTTTT
25285529 TCACCCAACTAATCAAGATTTTTT
1 TCACCCAACTAATCAAGATTTTTT
25285553 T
1 T
25285554 TTCCATTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.24, G:0.04, T:0.39
Consensus pattern (24 bp):
TCACCCAACTAATCAAGATTTTTT
Found at i:25285725 original size:19 final size:21
Alignment explanation
Indices: 25285698--25285745 Score: 57
Period size: 18 Copynumber: 2.4 Consensus size: 21
25285688 AAATTCAAAG
*
25285698 AAATATAAAAAATAT-ATAA-
1 AAATTTAAAAAATATGATAAT
*
25285717 ATATTT-AAAAATATGATAAT
1 AAATTTAAAAAATATGATAAT
25285737 AAATTTAAA
1 AAATTTAAA
25285746 TTTAATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
18 8 0.35
19 8 0.35
20 5 0.22
21 2 0.09
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AAATTTAAAAAATATGATAAT
Found at i:25285728 original size:18 final size:20
Alignment explanation
Indices: 25285705--25285745 Score: 59
Period size: 18 Copynumber: 2.1 Consensus size: 20
25285695 AAGAAATATA
*
25285705 AAAAATAT-ATAA-ATATTT
1 AAAAATATGATAATAAATTT
25285723 AAAAATATGATAATAAATTT
1 AAAAATATGATAATAAATTT
25285743 AAA
1 AAA
25285746 TTTAATATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
18 8 0.40
19 4 0.20
20 8 0.40
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.34
Consensus pattern (20 bp):
AAAAATATGATAATAAATTT
Found at i:25286481 original size:23 final size:22
Alignment explanation
Indices: 25286446--25286490 Score: 56
Period size: 25 Copynumber: 2.0 Consensus size: 22
25286436 ATAAAAATAT
25286446 AAATTTTATTA-TTATATTTTA
1 AAATTTTATTATTTATATTTTA
25286467 AAATATTTATGTATTTTATATTTT
1 AAAT-TTTAT-TA-TTTATATTTT
25286491 TTTAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.20
22 5 0.25
23 2 0.10
25 9 0.45
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (22 bp):
AAATTTTATTATTTATATTTTA
Found at i:25286485 original size:28 final size:30
Alignment explanation
Indices: 25286451--25286515 Score: 75
Period size: 28 Copynumber: 2.3 Consensus size: 30
25286441 AATATAAATT
*
25286451 TTATTATTA-TATTTT-AAAATATTTATGTA
1 TTATTATTATTATTTTAAAAAT-TTTATATA
*
25286480 TT-TTA-TATTTTTTTAAAAATTTTATATA
1 TTATTATTATTATTTTAAAAATTTTATATA
25286508 TTATTATT
1 TTATTATT
25286516 TCTTGTCAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
27 2 0.07
28 17 0.57
29 10 0.33
30 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (30 bp):
TTATTATTATTATTTTAAAAATTTTATATA
Found at i:25286562 original size:23 final size:22
Alignment explanation
Indices: 25286534--25286593 Score: 70
Period size: 23 Copynumber: 2.8 Consensus size: 22
25286524 ATAATTATTT
25286534 TTTATTTTTATATATTTTTAAAA
1 TTTATTTTTATATATTTTT-AAA
* * *
25286557 TTTATTGTTATAT-TATTTGAA
1 TTTATTTTTATATATTTTTAAA
25286578 TTT-TTTTTATATATTT
1 TTTATTTTTATATATTT
25286594 CTATATATTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
20 8 0.26
21 7 0.23
22 4 0.13
23 12 0.39
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (22 bp):
TTTATTTTTATATATTTTTAAA
Found at i:25292023 original size:16 final size:16
Alignment explanation
Indices: 25292000--25292055 Score: 94
Period size: 16 Copynumber: 3.5 Consensus size: 16
25291990 CGTTTGGTTC
*
25292000 GCTGTAATGGAATAAA
1 GCTGTAATGGAATAGA
*
25292016 GGTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
25292032 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
25292048 GCTGTAAT
1 GCTGTAAT
25292056 CAGTAATTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.38, C:0.05, G:0.30, T:0.27
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:25292294 original size:58 final size:59
Alignment explanation
Indices: 25292225--25292379 Score: 192
Period size: 58 Copynumber: 2.6 Consensus size: 59
25292215 AATTTTAATG
* *
25292225 ATTATTATTAAATATAATTTAATAAAAATATTA-ATTAATTTAATTATA-TTTTAACATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATA-TAATTTAATAATATTTTTAACATA
* *
25292283 ATTATTATTAAATACAATTTAAT-AAAATAATATATAATTTAATAATATTTTTAATATA
1 ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAATATTTTTAACATA
* *
25292341 ATTATTATTAAAATATGAA-TTAGTAAAAATTATAATATA
1 ATTATTATT-AAATAT-AATTTAATAAAAATAAT-ATATA
25292380 TAATATTAGA
Statistics
Matches: 84, Mismatches: 7, Indels: 9
0.84 0.07 0.09
Matches are distributed among these distances:
57 20 0.24
58 41 0.49
59 9 0.11
60 9 0.11
61 5 0.06
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (59 bp):
ATTATTATTAAATATAATTTAATAAAAATAATATATAATTTAATAATATTTTTAACATA
Found at i:25292373 original size:25 final size:24
Alignment explanation
Indices: 25292344--25292394 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
25292334 TAATATAATT
*
25292344 ATTATTAAAATATGA-ATTAGTAAAA
1 ATTA-TAAAATATAATATTAG-AAAA
*
25292369 ATTATAATATATAATATTAGAAAA
1 ATTATAAAATATAATATTAGAAAA
25292393 AT
1 AT
25292395 AATATATAAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 14 0.61
25 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.06, T:0.37
Consensus pattern (24 bp):
ATTATAAAATATAATATTAGAAAA
Found at i:25296927 original size:325 final size:325
Alignment explanation
Indices: 25296337--25297748 Score: 2637
Period size: 325 Copynumber: 4.3 Consensus size: 325
25296327 GTCATCTAAA
* *
25296337 TTTTTATCTCATCAGTTCATGACTTATCCATTCACAATTCTATATACCACAAATTTAATTCATAT
1 TTTTTATCTCATCAGCTCATGACTTATCCATTCACAATTCTATATACCACAAATCTAATTCATAT
* *
25296402 ATGGGTAGATACAAGACATCCATAAGATAACATTAAGCCCTCAAAACCGAACTTGAATCTTATTT
66 ATGGGCAGATACAAGACATCCATAAGATAACATTAAGCCCCCAAAACCGAACTTGAATCTTATTT
* *
25296467 TGATCAAAGGATAAAGACAACGGTAGAGCATATACAGCTTGAACAGATTCCTGTCATTTGAAACA
131 TGATCAAAGGATAAATACAACGGTAGAGCATATACAGCTTGAACAGATTCTTGTCATTTGAAACA
*
25296532 TCATTTTGCCATTCAATTACATTCAGAAATGACACATTTCAATTCATACATAGACCCAATCTAAC
196 TCATTTTGCCATTCAATTACATTCAGAAATGACACATTTCAATTCATACATAGACCCGATCTAAC
25296597 ATCAGAGGAAACACTAAATCAGGAGTTGGGACAGTAAAAGCTAATGACATGCATATAAGTGACAT
261 ATCAGAGGAAACACTAAATCAGGAGTTGGGACAGTAAAAGCTAATGACATGCATATAAGTGACAT
25296662 TTTTTATCTCATCAGCTCATGACTTATCCATTCACAATTCTATATACCACAAATCTAATTCATAT
1 TTTTTATCTCATCAGCTCATGACTTATCCATTCACAATTCTATATACCACAAATCTAATTCATAT
25296727 ATGGGCAGATACAAGACATCCATAAGATAACATTAAGCCCCCAAAACCGAACTTGAATCTTATTT
66 ATGGGCAGATACAAGACATCCATAAGATAACATTAAGCCCCCAAAACCGAACTTGAATCTTATTT
25296792 TGATCAAAGGATAAATACAACGGTAGAGCATATACAGCTTGAACAGATTCTTGTCATTTGAAACA
131 TGATCAAAGGATAAATACAACGGTAGAGCATATACAGCTTGAACAGATTCTTGTCATTTGAAACA
25296857 TCATTTTGCCATTCAATTACATTCAGAAATGACACATTTCAATTCATACATAGACCCGATCTAAC
196 TCATTTTGCCATTCAATTACATTCAGAAATGACACATTTCAATTCATACATAGACCCGATCTAAC
* *
25296922 ATCAGAGGAAACACTAAATCAGTAGTTGGGATAGTAAAAGCTAATGACATGCATATAAGTGACAT
261 ATCAGAGGAAACACTAAATCAGGAGTTGGGACAGTAAAAGCTAATGACATGCATATAAGTGACAT
*
25296987 TTTTTATCTCATCAGCTCATGACTTATGCATTCACAATTCTATATACCACAAATCTAATTCATAT
1 TTTTTATCTCATCAGCTCATGACTTATCCATTCACAATTCTATATACCACAAATCTAATTCATAT
25297052 ATGGGCAGATACAAGACATCCATAAGATAACATTAAGCCCCCAAAACCGAACTTGAATCTTATTT
66 ATGGGCAGATACAAGACATCCATAAGATAACATTAAGCCCCCAAAACCGAACTTGAATCTTATTT
25297117 TGATCAAAGGATAAATACAACGGTAGAGCATATACAGCTTGAACAGATTCTTGTCATTTGAAACA
131 TGATCAAAGGATAAATACAACGGTAGAGCATATACAGCTTGAACAGATTCTTGTCATTTGAAACA
25297182 TCATTTTGCCATTCAATTACATTCAGAAATGACACATTTCAATTCATACATAGACCCGATCTAAC
196 TCATTTTGCCATTCAATTACATTCAGAAATGACACATTTCAATTCATACATAGACCCGATCTAAC
*
25297247 ATC-GAAGGAAACACTAAATCAGGAGTTGGGACAGTAAAAGCTAATGACTTGCATATAAGTGACA
261 ATCAG-AGGAAACACTAAATCAGGAGTTGGGACAGTAAAAGCTAATGACATGCATATAAGTGACA
25297311 T
325 T
* *
25297312 TTTTTATCTCACCAGCTCATGACTTATCCATTCACAATTCTATATACCATAAATCTAATTCATAT
1 TTTTTATCTCATCAGCTCATGACTTATCCATTCACAATTCTATATACCACAAATCTAATTCATAT
* *
25297377 ATGGGCAGATACAAGACATCTATAAGATAAAATTAAGCCCCCAAAACCGAACTTGAATCTTATTT
66 ATGGGCAGATACAAGACATCCATAAGATAACATTAAGCCCCCAAAACCGAACTTGAATCTTATTT
*
25297442 TGATCAAAGGATAAATACAACGGTAGAACATATACAGCTTGAACAGATTCTTGTCATTTGAAACA
131 TGATCAAAGGATAAATACAACGGTAGAGCATATACAGCTTGAACAGATTCTTGTCATTTGAAACA
*
25297507 TCATTTTGCCATTCAATTACATTCAGAAATGACACATTTCAATTCATACATAGACCCGATCCAAC
196 TCATTTTGCCATTCAATTACATTCAGAAATGACACATTTCAATTCATACATAGACCCGATCTAAC
* *
25297572 ATCAAAGGAAACACTAAATCAAGAGTTGGGACAGTAAAAGCTAATGACATGCATATAAGTGACAT
261 ATCAGAGGAAACACTAAATCAGGAGTTGGGACAGTAAAAGCTAATGACATGCATATAAGTGACAT
25297637 TTTTTATCTCATCAGCTCATGACTTATCCATTCACAATTCTATATACCACAAATCTAATTCATAT
1 TTTTTATCTCATCAGCTCATGACTTATCCATTCACAATTCTATATACCACAAATCTAATTCATAT
25297702 ATGGGCAGATACAAGACATCCATAAGATAACATTAAGCCCCCAAAAC
66 ATGGGCAGATACAAGACATCCATAAGATAACATTAAGCCCCCAAAAC
25297749 TAGCTTTCCA
Statistics
Matches: 1058, Mismatches: 27, Indels: 4
0.97 0.02 0.00
Matches are distributed among these distances:
324 1 0.00
325 1057 1.00
ACGTcount: A:0.38, C:0.20, G:0.13, T:0.29
Consensus pattern (325 bp):
TTTTTATCTCATCAGCTCATGACTTATCCATTCACAATTCTATATACCACAAATCTAATTCATAT
ATGGGCAGATACAAGACATCCATAAGATAACATTAAGCCCCCAAAACCGAACTTGAATCTTATTT
TGATCAAAGGATAAATACAACGGTAGAGCATATACAGCTTGAACAGATTCTTGTCATTTGAAACA
TCATTTTGCCATTCAATTACATTCAGAAATGACACATTTCAATTCATACATAGACCCGATCTAAC
ATCAGAGGAAACACTAAATCAGGAGTTGGGACAGTAAAAGCTAATGACATGCATATAAGTGACAT
Found at i:25299549 original size:26 final size:26
Alignment explanation
Indices: 25299510--25299572 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
25299500 ATTTCAATGA
* *
25299510 AATTTTTTATAATATTTT-TGAATTTT
1 AATTTTTT-GAATATTTTATAAATTTT
25299536 GAATTTTTTGAATATTTTATAAATTTT
1 -AATTTTTTGAATATTTTATAAATTTT
25299563 AATTTATTTG
1 AATTT-TTTG
25299573 TCGATGTGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 13 0.41
27 19 0.59
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (26 bp):
AATTTTTTGAATATTTTATAAATTTT
Found at i:25300030 original size:28 final size:29
Alignment explanation
Indices: 25299999--25300061 Score: 78
Period size: 28 Copynumber: 2.2 Consensus size: 29
25299989 TAATTAAACC
*
25299999 TAAAATCTAAAATCTAAAAG-CAA-AACAT
1 TAAAATCTAAAA-CTAAAAGTAAATAACAT
*
25300027 TAAAA-CTAAAAGTAAAAGTAAATAACAT
1 TAAAATCTAAAACTAAAAGTAAATAACAT
25300055 TAAAATC
1 TAAAATC
25300062 AACCAAATTC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 6 0.20
27 8 0.27
28 15 0.50
29 1 0.03
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (29 bp):
TAAAATCTAAAACTAAAAGTAAATAACAT
Found at i:25300445 original size:17 final size:15
Alignment explanation
Indices: 25300420--25300455 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
25300410 CATAACTTTT
25300420 AAAAATAAAAATTAAA
1 AAAAAT-AAAATTAAA
25300436 AAAAAGTAAAATTAAA
1 AAAAA-TAAAATTAAA
25300452 AAAA
1 AAAA
25300456 GAGTGAGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 18 0.95
17 1 0.05
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.17
Consensus pattern (15 bp):
AAAAATAAAATTAAA
Found at i:25300524 original size:15 final size:16
Alignment explanation
Indices: 25300503--25300545 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
25300493 TCAAAATTAA
25300503 AATTTTTTTAATATCT
1 AATTTTTTTAATATCT
* *
25300519 -ATTTTTATAATATTT
1 AATTTTTTTAATATCT
25300534 AAATTTTTTTAA
1 -AATTTTTTTAA
25300546 CTTTTCATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 13 0.59
17 9 0.41
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
AATTTTTTTAATATCT
Found at i:25302536 original size:11 final size:11
Alignment explanation
Indices: 25302520--25302569 Score: 50
Period size: 11 Copynumber: 4.7 Consensus size: 11
25302510 AGGCTTTGGG
25302520 TTGTTTTAAGA
1 TTGTTTTAAGA
* *
25302531 TTGTTTTAGGG
1 TTGTTTTAAGA
**
25302542 TT-TTTT-TTA
1 TTGTTTTAAGA
25302551 TTGTTTTAAGA
1 TTGTTTTAAGA
25302562 TTGTTTTA
1 TTGTTTTA
25302570 GGGTTTTAGG
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
9 2 0.07
10 8 0.27
11 20 0.67
ACGTcount: A:0.18, C:0.00, G:0.18, T:0.64
Consensus pattern (11 bp):
TTGTTTTAAGA
Found at i:25302568 original size:20 final size:20
Alignment explanation
Indices: 25302530--25302568 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
25302520 TTGTTTTAAG
* * *
25302530 ATTGTTTTAGGGTTTTTTTT
1 ATTGTTTTAAGATTGTTTTT
25302550 ATTGTTTTAAGATTGTTTT
1 ATTGTTTTAAGATTGTTTT
25302569 AGGGTTTTAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.18, T:0.67
Consensus pattern (20 bp):
ATTGTTTTAAGATTGTTTTT
Found at i:25311000 original size:16 final size:18
Alignment explanation
Indices: 25310970--25311007 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
25310960 AAAATCTAAA
25310970 TAAAACTCTTAATTAA-C
1 TAAAACTCTTAATTAATC
25310987 TAAAACTC-TAATTAATC
1 TAAAACTCTTAATTAATC
25311004 TAAA
1 TAAA
25311008 CAAAATGTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.50, C:0.16, G:0.00, T:0.34
Consensus pattern (18 bp):
TAAAACTCTTAATTAATC
Found at i:25314446 original size:21 final size:21
Alignment explanation
Indices: 25314412--25314471 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
25314402 AATAGTGCCG
*
25314412 ACTTCTACCGATACAAATGAC
1 ACTTCTACCAATACAAATGAC
* * *
25314433 AGTTCTACTAATACAACTGAC
1 ACTTCTACCAATACAAATGAC
* *
25314454 TCTTCTACCAAAACAAAT
1 ACTTCTACCAATACAAAT
25314472 CTTATTTTTA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.40, C:0.27, G:0.07, T:0.27
Consensus pattern (21 bp):
ACTTCTACCAATACAAATGAC
Found at i:25327006 original size:43 final size:43
Alignment explanation
Indices: 25326955--25327189 Score: 256
Period size: 43 Copynumber: 5.5 Consensus size: 43
25326945 GAAAAACGTG
* * *
25326955 GCTAAAGAACATGGT-TTGTAGCGGCACTTTTCCCATAAATGCC
1 GCTAAAGAACATGGTCTT-TAGCGGCGCTTTTCCCACAAACGCC
* * *
25326998 GTTAAAGAACATGGTCTTTAGCGGTGCTTTTCCCACAAACGCT
1 GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
* * * * * *
25327041 GCTAAAGAATATGGTATTTATCGGTGCTTTTCACTCAAACGCC
1 GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
* *
25327084 GCTAAAGAACATGGTCTTCAGCGGCGCTTTCCCCACAAACGCC
1 GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
** * * * * *
25327127 ATTAAAGAACATGGTCTTTAGCGGCACATTCCCCACAATCGTC
1 GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
*
25327170 ACTAAAGAACATGGTCTTTA
1 GCTAAAGAACATGGTCTTTA
25327190 ACGACATTTT
Statistics
Matches: 162, Mismatches: 29, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
43 160 0.99
44 2 0.01
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (43 bp):
GCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACAAACGCC
Found at i:25327178 original size:129 final size:129
Alignment explanation
Indices: 25326955--25327189 Score: 312
Period size: 129 Copynumber: 1.8 Consensus size: 129
25326945 GAAAAACGTG
* * * * *
25326955 GCTAAAGAACATGGTTTGTAGCGGCACTTTTCCCATAAATGCCGTTAAAGAACATGGTCTTTAGC
1 GCTAAAGAACATGGTTTGCAGCGGCACTTTCCCCACAAACGCCATTAAAGAACATGGTCTTTAGC
** * * * *
25327020 GGTGCTTTTCCCACAAACGCTGCTAAAGAATATGGTATTTATCGGTGCTTTTCACTCAAACGCC
66 GGCACATTCCCCACAAACGCTACTAAAGAACATGGTATTTATCGGTGCTTTTCACTCAAACGCC
*
25327084 GCTAAAGAACATGGTCTT-CAGCGGCGCTTTCCCCACAAACGCCATTAAAGAACATGGTCTTTAG
1 GCTAAAGAACATGGT-TTGCAGCGGCACTTTCCCCACAAACGCCATTAAAGAACATGGTCTTTAG
* *
25327148 CGGCACATTCCCCACAATCG-TCACTAAAGAACATGGTCTTTA
65 CGGCACATTCCCCACAAACGCT-ACTAAAGAACATGGTATTTA
25327190 ACGACATTTT
Statistics
Matches: 90, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
128 1 0.01
129 87 0.97
130 2 0.02
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (129 bp):
GCTAAAGAACATGGTTTGCAGCGGCACTTTCCCCACAAACGCCATTAAAGAACATGGTCTTTAGC
GGCACATTCCCCACAAACGCTACTAAAGAACATGGTATTTATCGGTGCTTTTCACTCAAACGCC
Found at i:25333164 original size:26 final size:26
Alignment explanation
Indices: 25333135--25333232 Score: 88
Period size: 26 Copynumber: 3.5 Consensus size: 26
25333125 TCTTAAGTTA
*
25333135 AATATTTAAATATTTGGGTTGTTGTTAAT
1 AATAATTAAATATTTGGGTTGTT-TT--T
25333164 AATTAACTAATTAAATATTTGGGTTGTTTTT
1 AA-TAA-T--T-AAATATTTGGGTTGTTTTT
* * *
25333195 AGTAATTAAATTTTTGAGTTGTTTTT
1 AATAATTAAATATTTGGGTTGTTTTT
25333221 AATAATTAAATA
1 AATAATTAAATA
25333233 ATACAATAAT
Statistics
Matches: 58, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
26 27 0.47
27 1 0.02
29 3 0.05
30 5 0.09
31 3 0.05
33 3 0.05
34 16 0.28
ACGTcount: A:0.35, C:0.01, G:0.13, T:0.51
Consensus pattern (26 bp):
AATAATTAAATATTTGGGTTGTTTTT
Found at i:25333307 original size:34 final size:34
Alignment explanation
Indices: 25333239--25333307 Score: 95
Period size: 34 Copynumber: 2.0 Consensus size: 34
25333229 AATAATACAA
* * *
25333239 TAATTCAATAATTAAATATTAGAAATGTTTTTAT
1 TAATTAAATAATTAAATATTACAAATGTTCTTAT
25333273 TAATTAAATAATTAAATATTACAAAT-TTCCTTAT
1 TAATTAAATAATTAAATATTACAAATGTT-CTTAT
25333307 T
1 T
25333308 TAGATTATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
33 2 0.06
34 29 0.94
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.46
Consensus pattern (34 bp):
TAATTAAATAATTAAATATTACAAATGTTCTTAT
Found at i:25334627 original size:41 final size:40
Alignment explanation
Indices: 25334582--25334667 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
25334572 TTTTTAGTGG
25334582 CGTTTGGACAGAAAACGTCGCAAAAAGTAAAACAATAGCGA
1 CGTTTGGACA-AAAACGTCGCAAAAAGTAAAACAATAGCGA
*** * * * *
25334623 CGTTTTTCCATAAACGTCGCAAAAGGTAAATCAATAGCGG
1 CGTTTGGACAAAAACGTCGCAAAAAGTAAAACAATAGCGA
25334663 CGTTT
1 CGTTT
25334668 TTCCATAAAC
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 31 0.82
41 7 0.18
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (40 bp):
CGTTTGGACAAAAACGTCGCAAAAAGTAAAACAATAGCGA
Found at i:25334638 original size:40 final size:40
Alignment explanation
Indices: 25334594--25334702 Score: 155
Period size: 40 Copynumber: 2.7 Consensus size: 40
25334584 TTTGGACAGA
*
25334594 AAACGTCGCAAAAAGTAAAACAATAGCGACGTTTTTCCAT
1 AAACGTCGCAAAAGGTAAAACAATAGCGACGTTTTTCCAT
* *
25334634 AAACGTCGCAAAAGGTAAATCAATAGCGGCGTTTTTCCAT
1 AAACGTCGCAAAAGGTAAAACAATAGCGACGTTTTTCCAT
* * **
25334674 AAACGCCACAAAAGGTAAAGTAATAGCGA
1 AAACGTCGCAAAAGGTAAAACAATAGCGA
25334703 GTGTTTATAG
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 61 1.00
ACGTcount: A:0.42, C:0.19, G:0.18, T:0.20
Consensus pattern (40 bp):
AAACGTCGCAAAAGGTAAAACAATAGCGACGTTTTTCCAT
Found at i:25334773 original size:41 final size:41
Alignment explanation
Indices: 25334705--25334954 Score: 263
Period size: 41 Copynumber: 6.1 Consensus size: 41
25334695 AATAGCGAGT
* *
25334705 GTTTAT-AGGAAAAGCATCGCTAAAGGTCAGAGCATTAGCGAC
1 GTTTATGA-GAAAA-CACCGCTAAAGGTCAGAGCATTAGCGGC
*** *
25334747 GTTTATGAGAAAGTGCCACTAAAGGTCAGAGCATTAGCGGC
1 GTTTATGAGAAAACACCGCTAAAGGTCAGAGCATTAGCGGC
* **
25334788 ATTTATGAGAAAGTACCGCTAAAGGTCAGAG-ATTAGCGGC
1 GTTTATGAGAAAACACCGCTAAAGGTCAGAGCATTAGCGGC
* * * * **
25334828 GTTTATAAGAAAACGCCGCTAAAGGTCAGAGTAATAGCAAC
1 GTTTATGAGAAAACACCGCTAAAGGTCAGAGCATTAGCGGC
* * * *
25334869 ATTTATCAAAAAACACTGCTAAAGGTCAGAGCATTAGCGGC
1 GTTTATGAGAAAACACCGCTAAAGGTCAGAGCATTAGCGGC
* *
25334910 GTTTATGAGAAAAACACCGCTAAAGGTTA-AGCAATAGCGGC
1 GTTTATGAG-AAAACACCGCTAAAGGTCAGAGCATTAGCGGC
25334951 GTTT
1 GTTT
25334955 TCCCATAAAC
Statistics
Matches: 173, Mismatches: 32, Indels: 7
0.82 0.15 0.03
Matches are distributed among these distances:
40 35 0.20
41 110 0.64
42 27 0.16
43 1 0.01
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (41 bp):
GTTTATGAGAAAACACCGCTAAAGGTCAGAGCATTAGCGGC
Found at i:25334839 original size:81 final size:82
Alignment explanation
Indices: 25334722--25334947 Score: 276
Period size: 81 Copynumber: 2.8 Consensus size: 82
25334712 GGAAAAGCAT
* ** * **
25334722 CGCTAAAGGTCAGAGCATTAGCGACGTTTATGAGAAAGTGCCACTAAAGGTCAGAGCATTAGCGG
1 CGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAACGCCACTAAAGGTCAGAGCAATAGCAA
* * **
25334787 CATTTATGAGAAAGTAC
66 CATTTATCAAAAAACAC
* * *
25334804 CGCTAAAGGTCAGAG-ATTAGCGGCGTTTATAAGAAAACGCCGCTAAAGGTCAGAGTAATAGCAA
1 CGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAACGCCACTAAAGGTCAGAGCAATAGCAA
25334868 CATTTATCAAAAAACAC
66 CATTTATCAAAAAACAC
* * * *
25334885 TGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAAACACCGCTAAAGGTTA-AGCAATAGC
1 CGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAG-AAAACGCCACTAAAGGTCAGAGCAATAGC
25334948 GGCGTTTTCC
Statistics
Matches: 124, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
81 67 0.54
82 40 0.32
83 17 0.14
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (82 bp):
CGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAACGCCACTAAAGGTCAGAGCAATAGCAA
CATTTATCAAAAAACAC
Found at i:25334874 original size:122 final size:123
Alignment explanation
Indices: 25334684--25334954 Score: 305
Period size: 122 Copynumber: 2.2 Consensus size: 123
25334674 AAACGCCACA
* * * * * * *
25334684 AAAGGTAAAGTAATAGCGAGTGTTTATAGGAAAAGCATCGCTAAAGGTCAGAGCATTAGCGACGT
1 AAAGGTCAAGCAATAGCG-GCGTTTATAAGAAAAGCA-CGCTAAAGGTCAGAGCAATAGCAACAT
* * *** **
25334749 TTATGAGAAAGTGCCACTAAAGGTCAGAGCATTAGCGGCATTTATGAG-AAAGTACCGCT
64 TTATCAAAAAACACCACTAAAGGTCAGAGCATTAGCGGCATTTATGAGAAAAACACCGCT
* *
25334808 AAAGGTCAGAG-ATTAGCGGCGTTTATAAGAAAACGC-CGCTAAAGGTCAGAGTAATAGCAACAT
1 AAAGGTCA-AGCAATAGCGGCGTTTATAAGAAAA-GCACGCTAAAGGTCAGAGCAATAGCAACAT
** *
25334871 TTATCAAAAAACACTGCTAAAGGTCAGAGCATTAGCGGCGTTTATGAGAAAAACACCGCT
64 TTATCAAAAAACACCACTAAAGGTCAGAGCATTAGCGGCATTTATGAGAAAAACACCGCT
*
25334931 AAAGGTTAAGCAATAGCGGCGTTT
1 AAAGGTCAAGCAATAGCGGCGTTT
25334955 TCCCATAAAC
Statistics
Matches: 123, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
122 65 0.53
123 41 0.33
124 15 0.12
125 2 0.02
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (123 bp):
AAAGGTCAAGCAATAGCGGCGTTTATAAGAAAAGCACGCTAAAGGTCAGAGCAATAGCAACATTT
ATCAAAAAACACCACTAAAGGTCAGAGCATTAGCGGCATTTATGAGAAAAACACCGCT
Found at i:25337597 original size:43 final size:43
Alignment explanation
Indices: 25337549--25337648 Score: 173
Period size: 43 Copynumber: 2.3 Consensus size: 43
25337539 TGGAAAAAAA
*
25337549 CATTAGCGGCGTTTTTCCCATAAATGCCGTTAAAGGTAAAGAG
1 CATTAGCGGCGTTTTTCCCATAAATGCCGCTAAAGGTAAAGAG
*
25337592 CATTAGCGGCATTTTTCCCATAAATGCCGCTAAAGGTAAAGAG
1 CATTAGCGGCGTTTTTCCCATAAATGCCGCTAAAGGTAAAGAG
*
25337635 CATTAGCGGGGTTT
1 CATTAGCGGCGTTT
25337649 ATGGGAAAAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 53 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (43 bp):
CATTAGCGGCGTTTTTCCCATAAATGCCGCTAAAGGTAAAGAG
Found at i:25337664 original size:43 final size:43
Alignment explanation
Indices: 25337574--25337707 Score: 132
Period size: 43 Copynumber: 3.2 Consensus size: 43
25337564 TCCCATAAAT
* * * *** * *
25337574 GCCGTTAAAGGTAAAGAGCATTAGCGGCATTTTTCCCATAAAT
1 GCCGCTAAAGGTAAAGAGCATTAGCGGCGTTTATGAGAAAAAC
* *
25337617 GCCGCTAAAGGTAAAGAGCATTAGCGGGGTTTATGGGAAAAAC
1 GCCGCTAAAGGTAAAGAGCATTAGCGGCGTTTATGAGAAAAAC
*
25337660 GCCGCTAAAGGTTAAGTA--A-TAGCGGCGTTTATGAG-AAAAC
1 GCCGCTAAAGGTAAAG-AGCATTAGCGGCGTTTATGAGAAAAAC
25337700 GCCGCTAA
1 GCCGCTAA
25337708 TGATTAAGCA
Statistics
Matches: 78, Mismatches: 12, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
40 13 0.17
41 14 0.18
42 1 0.01
43 49 0.63
44 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.27, T:0.22
Consensus pattern (43 bp):
GCCGCTAAAGGTAAAGAGCATTAGCGGCGTTTATGAGAAAAAC
Found at i:25337715 original size:40 final size:41
Alignment explanation
Indices: 25337633--25337722 Score: 119
Period size: 40 Copynumber: 2.2 Consensus size: 41
25337623 AAAGGTAAAG
* * * *
25337633 AGCATTAGCGGGGTTTATGGGAAAAACGCCGCTAAAGGTTA
1 AGCAATAGCGGCGTTTATGAGAAAAACGCCGCTAAAGATTA
* *
25337674 AGTAATAGCGGCGTTTATGAG-AAAACGCCGCTAATGATTA
1 AGCAATAGCGGCGTTTATGAGAAAAACGCCGCTAAAGATTA
25337714 AGCAATAGC
1 AGCAATAGC
25337723 AGCATTTTCT
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 25 0.60
41 17 0.40
ACGTcount: A:0.34, C:0.16, G:0.28, T:0.22
Consensus pattern (41 bp):
AGCAATAGCGGCGTTTATGAGAAAAACGCCGCTAAAGATTA
Found at i:25340441 original size:24 final size:23
Alignment explanation
Indices: 25340396--25340441 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
25340386 TAAGGGATTG
*
25340396 AACTTTATTTCACTTTTTGTTTC
1 AACTTTATTTCAATTTTTGTTTC
*
25340419 AACTTTATTTAGAATTTTTGTTT
1 AACTTTATTT-CAATTTTTGTTT
25340442 TTTTTGGTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.22, C:0.11, G:0.07, T:0.61
Consensus pattern (23 bp):
AACTTTATTTCAATTTTTGTTTC
Found at i:25340781 original size:43 final size:43
Alignment explanation
Indices: 25340726--25340810 Score: 134
Period size: 43 Copynumber: 2.0 Consensus size: 43
25340716 TTGTTAATGT
* *
25340726 TAGTGGCGTTTGTGGGAAAAATACCGCTAAAGACCATGTTCTA
1 TAGTGGCATTTGTGGGAAAAACACCGCTAAAGACCATGTTCTA
* *
25340769 TAGTGGCATTTGTGTGAAAAACGCCGCTAAAGACCATGTTCT
1 TAGTGGCATTTGTGGGAAAAACACCGCTAAAGACCATGTTCT
25340811 TTAGCGGCGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 38 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (43 bp):
TAGTGGCATTTGTGGGAAAAACACCGCTAAAGACCATGTTCTA
Found at i:25340824 original size:13 final size:13
Alignment explanation
Indices: 25340806--25340834 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
25340796 TAAAGACCAT
25340806 GTTCTTTAGCGGC
1 GTTCTTTAGCGGC
25340819 GTTCTTTAGCGGC
1 GTTCTTTAGCGGC
25340832 GTT
1 GTT
25340835 TGTGGCAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.07, C:0.21, G:0.31, T:0.41
Consensus pattern (13 bp):
GTTCTTTAGCGGC
Found at i:25340888 original size:43 final size:43
Alignment explanation
Indices: 25340821--25340997 Score: 167
Period size: 43 Copynumber: 4.1 Consensus size: 43
25340811 TTAGCGGCGT
* *
25340821 TCTTTAGCGGCGTTTGTG-GCAAAAGCTCCGTTAAAGACCATGG
1 TCTTTAGCGGCGTTTGTGAG-AAAAGCACCGCTAAAGACCATGG
* * * *
25340864 TCTTTAGTGGAGTTTGTGAGAAAAGCACCGCTAGAGACCATGT
1 TCTTTAGCGGCGTTTGTGAGAAAAGCACCGCTAAAGACCATGG
* ** * * *
25340907 TCTTTAACGGCGTTTGTGAGAAAAGCGTCACTAAAGATCATGT
1 TCTTTAGCGGCGTTTGTGAGAAAAGCACCGCTAAAGACCATGG
* * * * * * *
25340950 TATTTAGCGACGTTTGTAAGAGAAGCGCCGCTAAAAACCATGT
1 TCTTTAGCGGCGTTTGTGAGAAAAGCACCGCTAAAGACCATGG
25340993 TCTTT
1 TCTTT
25340998 TACCGCAAAA
Statistics
Matches: 109, Mismatches: 24, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
43 108 0.99
44 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (43 bp):
TCTTTAGCGGCGTTTGTGAGAAAAGCACCGCTAAAGACCATGG
Found at i:25340902 original size:99 final size:99
Alignment explanation
Indices: 25340725--25340920 Score: 261
Period size: 99 Copynumber: 2.0 Consensus size: 99
25340715 TTTGTTAATG
* * * *
25340725 TTAGTGGCGTTTGTGGGAAAAATACCGCTAAAGACCATGTTCTATAGTGGCATTTGTGTGAAAAA
1 TTAGCGGCGTTTGTGGCAAAAATACCGCTAAAGACCATGGTCTATAGTGGCATTTGTGAGAAAAA
* *
25340790 CGCCGCTAAAGACCATGTTCTTTAGCGGCGTTCT
66 CACCGCTAAAGACCATGTTCTTTAACGGCGTTCT
* * *
25340824 TTAGCGGCGTTTGTGGCAAAAGCT-CCGTTAAAGACCATGGTCTTTAGTGG-AGTTTGTGAGAAA
1 TTAGCGGCGTTTGTGGCAAAA-ATACCGCTAAAGACCATGGTCTATAGTGGCA-TTTGTGAGAAA
* *
25340887 AGCACCGCTAGAGACCATGTTCTTTAACGGCGTT
64 AACACCGCTAAAGACCATGTTCTTTAACGGCGTT
25340921 TGTGAGAAAA
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
98 1 0.01
99 82 0.98
100 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.30
Consensus pattern (99 bp):
TTAGCGGCGTTTGTGGCAAAAATACCGCTAAAGACCATGGTCTATAGTGGCATTTGTGAGAAAAA
CACCGCTAAAGACCATGTTCTTTAACGGCGTTCT
Found at i:25340965 original size:86 final size:85
Alignment explanation
Indices: 25340819--25340997 Score: 202
Period size: 86 Copynumber: 2.1 Consensus size: 85
25340809 CTTTAGCGGC
* * * *
25340819 GTTCTTTAGCGGCGTTTGTGGCAAAAGCTCCGTTAAAGACCATGGTCTTTAGTGGAGTTTGTGAG
1 GTTCTTTAACGGCGTTTGTGGCAAAAGCTCCG-TAAAGACCATGGTATTTAGTCGAGTTTGTAAG
* *
25340884 AAAAGCACCGCTAGAGACCAT
65 AAAAGCACCGCTAAAAACCAT
* *
25340905 GTTCTTTAACGGCGTTTGTGAG-AAAAGCGTCAC-TAAAGATCATGTTATTTAG-CGACGTTTGT
1 GTTCTTTAACGGCGTTTGTG-GCAAAAGC-TC-CGTAAAGACCATGGTATTTAGTCGA-GTTTGT
* *
25340967 AAGAGAAGCGCCGCTAAAAACCAT
62 AAGAAAAGCACCGCTAAAAACCAT
25340991 GTTCTTT
1 GTTCTTT
25340998 TACCGCAAAA
Statistics
Matches: 79, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
85 2 0.03
86 73 0.92
87 3 0.04
88 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (85 bp):
GTTCTTTAACGGCGTTTGTGGCAAAAGCTCCGTAAAGACCATGGTATTTAGTCGAGTTTGTAAGA
AAAGCACCGCTAAAAACCAT
Found at i:25342544 original size:49 final size:48
Alignment explanation
Indices: 25342454--25342546 Score: 134
Period size: 49 Copynumber: 1.9 Consensus size: 48
25342444 ACGGGATATA
* *
25342454 GAGAGGGGAGAAAGATTTAGGGATTAGAAATTTGGGATTTGGGGTTTT
1 GAGAGAGGAGAAAGAATTAGGGATTAGAAATTTGGGATTTGGGGTTTT
*
25342502 GAGAGAGGAGAAA-AATTAGGGATTAGAGAAATTTGGGGTTTGGGG
1 GAGAGAGGAGAAAGAATTAGGGATT--AGAAATTTGGGATTTGGGG
25342547 ATACAGGGTT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
47 10 0.25
48 12 0.30
49 18 0.45
ACGTcount: A:0.32, C:0.00, G:0.41, T:0.27
Consensus pattern (48 bp):
GAGAGAGGAGAAAGAATTAGGGATTAGAAATTTGGGATTTGGGGTTTT
Found at i:25342737 original size:43 final size:41
Alignment explanation
Indices: 25342667--25342762 Score: 106
Period size: 41 Copynumber: 2.3 Consensus size: 41
25342657 TGGACCGTGT
*
25342667 CCGGTGTTTTTC-CAAAAACATTATTATTGCTCTATACCTATTA
1 CCGGCGTTTTTCTCAAAAACATTATTATTG-TCTA-ACCT-TTA
* * * *
25342710 -CGGCGTTTTTCTCATAAACATTGTTATTGTTTAATCTTTA
1 CCGGCGTTTTTCTCAAAAACATTATTATTGTCTAACCTTTA
25342750 CCGGCGTTTTTCT
1 CCGGCGTTTTTCT
25342763 TATCAACGCC
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
40 3 0.07
41 15 0.33
42 13 0.28
43 15 0.33
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (41 bp):
CCGGCGTTTTTCTCAAAAACATTATTATTGTCTAACCTTTA
Found at i:25350383 original size:31 final size:30
Alignment explanation
Indices: 25350350--25350448 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 30
25350340 AATGTGCAAT
25350350 TATATATACATGAACTTTAATTTGGTGTAA
1 TATATATACATGAACTTTAATTTGGTGTAA
* * * *
25350380 T-TATACACGTGAATTTCTAATTGTGGT-TCA
1 TATATATACATGAACTT-TAATT-TGGTGTAA
* *
25350410 TATGTATACATGAAACTTTAATTTTGATGTAA
1 TATATATACATG-AACTTTAA-TTTGGTGTAA
25350442 TCATATA
1 T-ATATA
25350449 CATTTAAAGA
Statistics
Matches: 51, Mismatches: 11, Indels: 11
0.70 0.15 0.15
Matches are distributed among these distances:
29 12 0.24
30 9 0.18
31 17 0.33
32 9 0.18
33 4 0.08
ACGTcount: A:0.34, C:0.09, G:0.13, T:0.43
Consensus pattern (30 bp):
TATATATACATGAACTTTAATTTGGTGTAA
Found at i:25350815 original size:41 final size:41
Alignment explanation
Indices: 25350722--25350957 Score: 183
Period size: 41 Copynumber: 5.8 Consensus size: 41
25350712 GTTTATGGGA
* * * * *
25350722 AAACGCCGCTATTGCT-TAACTTTTAGCGACGTCTTT-CCTAT
1 AAACGCCGCTAATGCTCTTACCTTTAGCGGCGT-TTTATC-AT
* * *
25350763 AAATGCTGCTAATGCTCTTATCTTTAGCGGCGTTTTATCAT
1 AAACGCCGCTAATGCTCTTACCTTTAGCGGCGTTTTATCAT
* * *
25350804 AAACGCCGCTAATGCTGTTACCTTTAGCAGCGTTTTCTCAT
1 AAACGCCGCTAATGCTCTTACCTTTAGCGGCGTTTTATCAT
* * * * *
25350845 AAACGCTGCTAATGCTCTGACCTTTAGTGGTGTTTTTTCAT
1 AAACGCCGCTAATGCTCTTACCTTTAGCGGCGTTTTATCAT
* * * * * * *
25350886 AAATGTCGCTAATGCTCTGACTTTTAGCAGAGTTTT-TCCTAC
1 AAACGCCGCTAATGCTCTTACCTTTAGCGGCGTTTTAT-C-AT
* *
25350928 AAACGCCGCTATTGCT-TTACCTTTTGCGGC
1 AAACGCCGCTAATGCTCTTACCTTTAGCGGC
25350958 ATTTATGTAA
Statistics
Matches: 154, Mismatches: 37, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
40 1 0.01
41 126 0.82
42 27 0.18
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (41 bp):
AAACGCCGCTAATGCTCTTACCTTTAGCGGCGTTTTATCAT
Found at i:25350847 original size:82 final size:81
Alignment explanation
Indices: 25350722--25350957 Score: 235
Period size: 82 Copynumber: 2.9 Consensus size: 81
25350712 GTTTATGGGA
* * * *
25350722 AAACGCCGCTATTGCTTAACTTTTAGC-GACGTCTTTCCTATAAATGCTGCTAATGCTCTTATCT
1 AAACGCCGCTAATGCTTAACTTTTAGCAG-CGT-TTTCCTATAAACGCTGCTAATGCTCTGACCT
25350786 TTAGCGGCGTTTTATCAT
64 TTAGCGGCGTTTTATCAT
* *
25350804 AAACGCCGCTAATGCTGTTACCTTTAGCAGCGTTTT-CTCATAAACGCTGCTAATGCTCTGACCT
1 AAACGCCGCTAATGCT-TAACTTTTAGCAGCGTTTTCCT-ATAAACGCTGCTAATGCTCTGACCT
* * *
25350868 TTAGTGGTGTTTTTTCAT
64 TTAGCGGCGTTTTATCAT
* * * * * * * *
25350886 AAATGTCGCTAATGCTCTGACTTTTAGCAGAGTTTTTCCTACAAACGCCGCTATTGCT-TTACCT
1 AAACGCCGCTAATGCT-TAACTTTTAGCAGCG-TTTTCCTATAAACGCTGCTAATGCTCTGACCT
*
25350950 TTTGCGGC
64 TTAGCGGC
25350958 ATTTATGTAA
Statistics
Matches: 127, Mismatches: 22, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
81 2 0.02
82 91 0.72
83 31 0.24
84 3 0.02
ACGTcount: A:0.21, C:0.24, G:0.17, T:0.38
Consensus pattern (81 bp):
AAACGCCGCTAATGCTTAACTTTTAGCAGCGTTTTCCTATAAACGCTGCTAATGCTCTGACCTTT
AGCGGCGTTTTATCAT
Found at i:25351319 original size:72 final size:72
Alignment explanation
Indices: 25351202--25351338 Score: 211
Period size: 72 Copynumber: 1.9 Consensus size: 72
25351192 ACCATGATTA
* * * **
25351202 TTATGATATGGTTGGTATTTGATCCAAAAATCATAGCAAAAAGCTAGGTGCCTAAAACACCTTTT
1 TTATGATATGGTTGGTATTTGACCCAAAAATCATAACAAAAAGCTAAGCACCTAAAACACCTTTT
25351267 CCCAACC
66 CCCAACC
* *
25351274 TTATGGTATGGTTGGTATTTGACCCAAAAATCATAATAAAAAGCTAAGCACCTAAAACACCTTTT
1 TTATGATATGGTTGGTATTTGACCCAAAAATCATAACAAAAAGCTAAGCACCTAAAACACCTTTT
25351339 TCCCTACTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
72 58 1.00
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (72 bp):
TTATGATATGGTTGGTATTTGACCCAAAAATCATAACAAAAAGCTAAGCACCTAAAACACCTTTT
CCCAACC
Found at i:25359909 original size:7 final size:7
Alignment explanation
Indices: 25359897--25359943 Score: 58
Period size: 7 Copynumber: 6.7 Consensus size: 7
25359887 ACCCGACCCA
25359897 TTGACCG
1 TTGACCG
25359904 TTGACCG
1 TTGACCG
*
25359911 TTGACTG
1 TTGACCG
* *
25359918 TTAACCA
1 TTGACCG
25359925 TTGACCG
1 TTGACCG
*
25359932 TTGACCT
1 TTGACCG
25359939 TTGAC
1 TTGAC
25359944 TTTTTCCTAG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
7 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (7 bp):
TTGACCG
Found at i:25359928 original size:14 final size:14
Alignment explanation
Indices: 25359894--25359943 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
25359884 TTGACCCGAC
25359894 CCATTGACCGTTGA
1 CCATTGACCGTTGA
* * *
25359908 CCGTTGACTGTTAA
1 CCATTGACCGTTGA
25359922 CCATTGACCGTTGA
1 CCATTGACCGTTGA
*
25359936 CCTTTGAC
1 CCATTGAC
25359944 TTTTTCCTAG
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.20, C:0.28, G:0.20, T:0.32
Consensus pattern (14 bp):
CCATTGACCGTTGA
Found at i:25360576 original size:6 final size:6
Alignment explanation
Indices: 25360565--25360612 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
25360555 AGCATCTTCA
25360565 TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT TGAG-T TGAGAT
1 TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT TGAGAT
25360612 T
1 T
25360613 AATACTGAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
5 5 0.12
6 36 0.88
ACGTcount: A:0.31, C:0.00, G:0.33, T:0.35
Consensus pattern (6 bp):
TGAGAT
Done.