Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 107 of 221
Found at i:32875450 original size:12 final size:12
Alignment explanation
Indices: 32875433--32875459 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32875423 ATTAACCCTC
32875433 GATTATATTCTA
1 GATTATATTCTA
32875445 GATTATATTCTA
1 GATTATATTCTA
32875457 GAT
1 GAT
32875460 CCAAATCAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.33, C:0.07, G:0.11, T:0.48
Consensus pattern (12 bp):
GATTATATTCTA
Found at i:32884246 original size:18 final size:18
Alignment explanation
Indices: 32884225--32884261 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
32884215 TGAATTGTCG
*
32884225 AATTCGAATAACTCAAAT
1 AATTCGAATAAATCAAAT
32884243 AATTCGAATAAATCAAAT
1 AATTCGAATAAATCAAAT
32884261 A
1 A
32884262 TCAAACTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.54, C:0.14, G:0.05, T:0.27
Consensus pattern (18 bp):
AATTCGAATAAATCAAAT
Found at i:32890222 original size:12 final size:12
Alignment explanation
Indices: 32890205--32890254 Score: 63
Period size: 11 Copynumber: 4.4 Consensus size: 12
32890195 AACTAATCCT
32890205 CTCTCAAATTTC
1 CTCTCAAATTTC
32890217 CTCTC-AATTTC
1 CTCTCAAATTTC
32890228 CTCTCAAA-TTC
1 CTCTCAAATTTC
32890239 CT-TCAAAATTT-
1 CTCTC-AAATTTC
32890250 CTCTC
1 CTCTC
32890255 CAATCCATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
10 2 0.06
11 21 0.62
12 11 0.32
ACGTcount: A:0.24, C:0.34, G:0.00, T:0.42
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:32890248 original size:23 final size:22
Alignment explanation
Indices: 32890204--32890254 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
32890194 AAACTAATCC
32890204 TCTCTCAAATTTCCTCTCAATT
1 TCTCTCAAATTTCCTCTCAATT
32890226 TCCTCTCAAA-TTCCT-TCAAAATT
1 T-CTCTCAAATTTCCTCTC--AATT
32890249 TCTCTC
1 TCTCTC
32890255 CAATCCATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
21 2 0.08
22 11 0.42
23 13 0.50
ACGTcount: A:0.24, C:0.33, G:0.00, T:0.43
Consensus pattern (22 bp):
TCTCTCAAATTTCCTCTCAATT
Found at i:32890311 original size:51 final size:51
Alignment explanation
Indices: 32890220--32890317 Score: 126
Period size: 51 Copynumber: 1.9 Consensus size: 51
32890210 AAATTTCCTC
*
32890220 TCAATTTCCTCTCAAATTCCTTCAAAATTTCTCTCCAATCCATATTTAATT
1 TCAATTTCCTCTCAAATTCCTTCAAAATTTCTCTCAAATCCATATTTAATT
* * * * *
32890271 TCAATTTGCTCTCAAGTT-CTTCTTAAATTTCTCTTAAATCCCTATTT
1 TCAATTTCCTCTCAAATTCCTTC-AAAATTTCTCTCAAATCCATATTT
32890318 TTAAATAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
50 4 0.10
51 36 0.90
ACGTcount: A:0.27, C:0.26, G:0.02, T:0.46
Consensus pattern (51 bp):
TCAATTTCCTCTCAAATTCCTTCAAAATTTCTCTCAAATCCATATTTAATT
Found at i:32892452 original size:21 final size:21
Alignment explanation
Indices: 32892427--32892475 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
32892417 AGATAACGTA
* * *
32892427 CCGGAAGAACCAGAATCTCCG
1 CCGGAAGAACAACAATCGCCG
* *
32892448 TCGGAGGAACAACAATCGCCG
1 CCGGAAGAACAACAATCGCCG
32892469 CCGGAAG
1 CCGGAAG
32892476 CTAGAGAAAG
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.33, C:0.31, G:0.29, T:0.08
Consensus pattern (21 bp):
CCGGAAGAACAACAATCGCCG
Found at i:32896229 original size:125 final size:125
Alignment explanation
Indices: 32895825--32896247 Score: 600
Period size: 125 Copynumber: 3.4 Consensus size: 125
32895815 CAAACATGCT
* * * * *
32895825 ACTGTAGCAAAAGTGTGTCCACGTGGGCGCGATTTCACAAATTTTTCTCATAAAGCATCCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTA
*
32895890 GAAGCGATTTTATACTATTTGCTCAGAAACATCAACTCGAAATTATTTCTTCCAGGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* *
32895950 ACTGTAGCAAAAACGCGTCCACGAGGGCGCGATTTTAA-AAATTCTTCTCA-AATAGCATCCTGC
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGA-TTTAACAAATTCTTCTCATAA-AGCATCCTGG
* * * * * * *
32896013 TTGAAGTGTTTTTTTATACTATTTGCTTAGAAACGTCAACTCGAAATAATTT-TTTCAGGACCT
64 TAGAAGCG--ATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* * * *
32896076 ACTGTAGCAAAAGCGCGTTCATGTGGGCGCGATTTAACAAATTCTTCTCATAAAGCATTCTGGTA
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTA
32896141 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
66 GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
* *
32896201 ACTGTAGCAAAAGCGCGTCCAGGAGGGCGCGATTTCACAAATTCTTC
1 ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTAACAAATTCTTC
32896248 GCATCCTCGT
Statistics
Matches: 259, Mismatches: 32, Indels: 14
0.85 0.10 0.05
Matches are distributed among these distances:
124 41 0.16
125 111 0.43
126 67 0.26
127 40 0.15
ACGTcount: A:0.30, C:0.21, G:0.18, T:0.30
Consensus pattern (125 bp):
ACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTAACAAATTCTTCTCATAAAGCATCCTGGTA
GAAGCGATTTTATACTATTTGCTCAGAAACGTCAACTCGAAATTATTTCTTCCAGGACCA
Found at i:32896883 original size:20 final size:21
Alignment explanation
Indices: 32896853--32896919 Score: 84
Period size: 20 Copynumber: 3.2 Consensus size: 21
32896843 AAAATTACGA
32896853 AAAAAGATTCAAAATAATTT-T
1 AAAAAG-TTCAAAATAATTTAT
*
32896874 CAAAAGTTCAAAAT-ATTTAT
1 AAAAAGTTCAAAATAATTTAT
* *
32896894 AAAAATTTCAAAAAAATTTAT
1 AAAAAGTTCAAAATAATTTAT
32896915 AAAAA
1 AAAAA
32896920 ATCTAAAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
19 4 0.10
20 20 0.50
21 16 0.40
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAAAGTTCAAAATAATTTAT
Found at i:32896913 original size:21 final size:21
Alignment explanation
Indices: 32896853--32896919 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
32896843 AAAATTACGA
*
32896853 AAAAAGATTCAAAATAATTT-T
1 AAAAAG-TTCAAAAAAATTTAT
* *
32896874 CAAAAGTTC-AAAATATTTAT
1 AAAAAGTTCAAAAAAATTTAT
*
32896894 AAAAATTTCAAAAAAATTTAT
1 AAAAAGTTCAAAAAAATTTAT
32896915 AAAAA
1 AAAAA
32896920 ATCTAAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
19 7 0.18
20 11 0.29
21 20 0.53
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (21 bp):
AAAAAGTTCAAAAAAATTTAT
Found at i:32896927 original size:20 final size:21
Alignment explanation
Indices: 32896883--32896937 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
32896873 TCAAAAGTTC
* *
32896883 AAAATATTTATAAAAATTTCA
1 AAAAAATTTATAAAAATATCA
32896904 AAAAAATTTATAAAAA-ATC-
1 AAAAAATTTATAAAAATATCA
*
32896923 TAAAAATTATATAAA
1 AAAAAATT-TATAAA
32896938 GAAAGTTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 7 0.23
20 8 0.27
21 15 0.50
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAAATTTATAAAAATATCA
Found at i:32901411 original size:62 final size:62
Alignment explanation
Indices: 32901335--32901460 Score: 180
Period size: 62 Copynumber: 2.0 Consensus size: 62
32901325 GAGCAATACT
* * * *
32901335 TTCCTAGAATCTACTGGTATTAATATATGGTTCTTATGTCTAAATAGTATATCTTCGAGTTC
1 TTCCTAGAATCTACTAGTATTAATATATGATTCTTACGTCTAAATAGTAGATCTTCGAGTTC
* * * *
32901397 TTCCTAGAATCTACTATTATTGATATATGATTCTTCCGTCTAAATTGTAGATCTTCGAGTTC
1 TTCCTAGAATCTACTAGTATTAATATATGATTCTTACGTCTAAATAGTAGATCTTCGAGTTC
32901459 TT
1 TT
32901461 TTTAAAATAG
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
62 56 1.00
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.44
Consensus pattern (62 bp):
TTCCTAGAATCTACTAGTATTAATATATGATTCTTACGTCTAAATAGTAGATCTTCGAGTTC
Found at i:32902208 original size:30 final size:31
Alignment explanation
Indices: 32902172--32902235 Score: 103
Period size: 30 Copynumber: 2.1 Consensus size: 31
32902162 CTCAAATCCA
32902172 TTTTTTAAAATAATTATAA-TTTTTTAATAT
1 TTTTTTAAAATAATTATAATTTTTTTAATAT
* *
32902202 TTTTTTAAAATAATTTTAATTTTTTTTATAT
1 TTTTTTAAAATAATTATAATTTTTTTAATAT
32902233 TTT
1 TTT
32902236 CATCAATGGC
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
30 18 0.58
31 13 0.42
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTTTTAAAATAATTATAATTTTTTTAATAT
Found at i:32903976 original size:18 final size:18
Alignment explanation
Indices: 32903955--32903989 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
32903945 AGGTATGTTT
* *
32903955 CCTAGCCCTTATATGTAC
1 CCTAACCCTTACATGTAC
32903973 CCTAACCCTTACATGTA
1 CCTAACCCTTACATGTA
32903990 TCCTTTTCCG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (18 bp):
CCTAACCCTTACATGTAC
Found at i:32904281 original size:24 final size:24
Alignment explanation
Indices: 32904248--32904303 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
32904238 ATGCCGAACT
*
32904248 GGAAGAACCACAACCACCACCGGA
1 GGAAGAACCACAACCACCACCAGA
* * *
32904272 GGAAGGACCACAATCAGCACCAGA
1 GGAAGAACCACAACCACCACCAGA
32904296 GGAAGAAC
1 GGAAGAAC
32904304 AACCGCCGCC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.43, C:0.30, G:0.25, T:0.02
Consensus pattern (24 bp):
GGAAGAACCACAACCACCACCAGA
Found at i:32904580 original size:57 final size:57
Alignment explanation
Indices: 32904509--32905028 Score: 778
Period size: 57 Copynumber: 9.1 Consensus size: 57
32904499 AAATAAAAAC
* * * *
32904509 CCTAATTTAATTAAAAACCTTAAACCTAACCTAAATTAACTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAATTAAAAACCCTAAATCTAA
* *
32904566 CCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAATTAAAAACCCTAAATCTAA
* *
32904623 CCTAAATTAATTAAAAACTCTAATTTAACCTAAATTAATTAAAAACCCTAAATCTAA
1 CCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAATCTAA
* * *
32904680 CCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCTTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAATCTAA
*
32904737 CCTAAATTAATTTAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAATCTAA
1 CCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAATCTAA
* * *
32904794 CCTAAATTAACTAAAAGCCCTAATCTAACCTAAATTAATTAAAAACCCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAATCTAA
* *
32904851 CCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAAGCTAA
1 CCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAATCTAA
* *
32904908 CCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAATTAAAAA-CCTAAACCTAA
1 CCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAATCTAA
* * * *
32904964 CCTAAATTAATTTAAAATCCTAAACCTAACCTAAATTAATTTAAAACCCT-AATCTAA
1 CCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAATTAAAAACCCTAAATCTAA
32905021 CCTAAATT
1 CCTAAATT
32905029 TTTTTGGCTT
Statistics
Matches: 432, Mismatches: 28, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
56 53 0.12
57 376 0.87
58 3 0.01
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (57 bp):
CCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAATCTAA
Found at i:32904685 original size:11 final size:10
Alignment explanation
Indices: 32904535--32904973 Score: 116
Period size: 9 Copynumber: 46.3 Consensus size: 10
32904525 ACCTTAAACC
32904535 TAACCTAAAT
1 TAACCTAAAT
32904545 TAA-CTAAA-
1 TAACCTAAAT
32904553 -AACCCT-AAT
1 TAA-CCTAAAT
32904562 CTAACCTAAAT
1 -TAACCTAAAT
*
32904573 TAA-TTAAA-
1 TAACCTAAAT
*
32904581 -AACCCTAAACC
1 TAA-CCTAAA-T
32904592 TAACCTAAAT
1 TAACCTAAAT
32904602 TAA-CTAAA-
1 TAACCTAAAT
32904610 -AACCCT-AAT
1 TAA-CCTAAAT
32904619 CTAACCTAAAT
1 -TAACCTAAAT
*
32904630 TAA-TTAAA-
1 TAACCTAAAT
*
32904638 -AACTCTAATT
1 TAAC-CTAAAT
32904648 TAACCTAAAT
1 TAACCTAAAT
*
32904658 TAA-TTAAA-
1 TAACCTAAAT
32904666 -AACCCTAAAT
1 TAA-CCTAAAT
32904676 CTAACCTAAAT
1 -TAACCTAAAT
32904687 TAA-CTAAA-
1 TAACCTAAAT
32904695 -AACCCT-AAT
1 TAA-CCTAAAT
32904704 CTAACCTAAAT
1 -TAACCTAAAT
*
32904715 TAA-TTAAA-
1 TAACCTAAAT
*
32904723 -AACCTTAAACC
1 TAACC-TAAA-T
32904734 TAACCTAAAT
1 TAACCTAAAT
**
32904744 TAATTTAAA-
1 TAACCTAAAT
*
32904753 -ACCCT-AAT
1 TAACCTAAAT
32904761 CTAACCTAAAT
1 -TAACCTAAAT
*
32904772 TAA-TTAAA-
1 TAACCTAAAT
32904780 -AACCCTAAAT
1 TAA-CCTAAAT
32904790 CTAACCTAAAT
1 -TAACCTAAAT
32904801 TAA-CTAAA-
1 TAACCTAAAT
*
32904809 -AGCCCT-AAT
1 TA-ACCTAAAT
32904818 CTAACCTAAAT
1 -TAACCTAAAT
*
32904829 TAA-TTAAA-
1 TAACCTAAAT
*
32904837 -AACCCTAAACC
1 TAA-CCTAAA-T
32904848 TAACCTAAAT
1 TAACCTAAAT
32904858 TAA-CTAAA-
1 TAACCTAAAT
32904866 -AACCCT-AAT
1 TAA-CCTAAAT
32904875 CTAACCTAAAT
1 -TAACCTAAAT
*
32904886 TAA-TTAAA-
1 TAACCTAAAT
*
32904894 -AACCCTAAAGC
1 TAA-CCTAAA-T
32904905 TAACCTAAAT
1 TAACCTAAAT
32904915 TAA-CTAAA-
1 TAACCTAAAT
32904923 -AACCCT-AAT
1 TAA-CCTAAAT
32904932 CTAACCTAAAT
1 -TAACCTAAAT
*
32904943 TAA-TTAAA-
1 TAACCTAAAT
*
32904951 -AACCTAAACC
1 TAACCTAAA-T
32904961 TAACCTAAAT
1 TAACCTAAAT
32904971 TAA
1 TAA
32904974 TTTAAAATCC
Statistics
Matches: 320, Mismatches: 31, Indels: 156
0.63 0.06 0.31
Matches are distributed among these distances:
7 29 0.09
8 18 0.06
9 101 0.32
10 79 0.25
11 79 0.25
12 14 0.04
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (10 bp):
TAACCTAAAT
Found at i:32904765 original size:142 final size:142
Alignment explanation
Indices: 32904509--32905028 Score: 769
Period size: 142 Copynumber: 3.7 Consensus size: 142
32904499 AAATAAAAAC
* * *
32904509 CCTAATTTAATTAAAAACCTTAAACCTAACCTAAATTAACTAAAAACCCT-AATCTAACCTAAAT
1 CCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAAT
*
32904573 TAATTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAATCTAACCTAAATTAATTAAA
66 TAATTAAAAACCCT-AACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAA
* *
32904638 AACTCTAATTTAA
130 AACCCTAATCTAA
* *
32904651 CCTAAATTAATTAAAAACCCTAAATCTAACCTAAATTAACTAAAAACCCT-AATCTAACCTAAAT
1 CCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAAT
* *
32904715 TAATTAAAAACCTTAAACCTAACCTAAATTAATTTAAAACCCTAATCTAACCTAAATTAATTAAA
66 TAATTAAAAACCCT-AACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAA
32904780 AACCCTAAATCTAA
130 AACCCT-AATCTAA
* * * *
32904794 CCTAAATTAACTAAAAGCCCT-AATCTAACCTAAATTAATTAAAAACCCTAAACCTAACCTAAAT
1 CCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAAT
* * * *
32904858 TAACTAAAAACCCTAATCTAACCTAAATTAATTAAAAACCCTAAAGCTAACCTAAATTAACTAAA
66 TAATTAAAAACCCTAACCTAACCTAAATTAATTAAAAACCCT-AATCTAACCTAAATTAATTAAA
32904923 AACCCTAATCTAA
130 AACCCTAATCTAA
* * *
32904936 CCTAAATTAATTAAAAA-CCTAAACCTAACCTAAATTAATTTAAAATCCTAAACCTAACCTAAAT
1 CCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAAT
* *
32905000 TAATTTAAAACCCTAATCTAACCTAAATT
66 TAATTAAAAACCCTAACCTAACCTAAATT
32905029 TTTTTGGCTT
Statistics
Matches: 349, Mismatches: 25, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
141 3 0.01
142 270 0.77
143 76 0.22
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.28
Consensus pattern (142 bp):
CCTAAATTAATTAAAAACCCTAAACCTAACCTAAATTAACTAAAAACCCTAAACCTAACCTAAAT
TAATTAAAAACCCTAACCTAACCTAAATTAATTAAAAACCCTAATCTAACCTAAATTAATTAAAA
ACCCTAATCTAA
Found at i:32905002 original size:24 final size:26
Alignment explanation
Indices: 32904516--32905025 Score: 291
Period size: 28 Copynumber: 18.0 Consensus size: 26
32904506 AACCCTAATT
32904516 TAATTAAAAACCTTAAACCTAACCTAAA
1 TAATTAAAAACC-TAAACCTAACCT-AA
* *
32904544 TTAACTAAAAACCCT-AATCTAACCTAAA
1 -TAATTAAAAA-CCTAAACCTAACCT-AA
32904572 TTAATTAAAAACCCTAAACCTAACCTAAA
1 -TAATTAAAAA-CCTAAACCTAACCT-AA
* *
32904601 TTAACTAAAAACCCT-AATCTAACCTAAA
1 -TAATTAAAAA-CCTAAACCTAACCT-AA
**
32904629 TTAATTAAAAACTCT-AATTTAACCTAAA
1 -TAATTAAAAAC-CTAAACCTAACCT-AA
*
32904657 TTAATTAAAAACCCTAAATCTAACCTAAA
1 -TAATTAAAAA-CCTAAACCTAACCT-AA
* *
32904686 TTAACTAAAAACCCT-AATCTAACCTAAA
1 -TAATTAAAAA-CCTAAACCTAACCT-AA
32904714 TTAATTAAAAACCTTAAACCTAACCTAAA
1 -TAATTAAAAACC-TAAACCTAACCT-AA
* *
32904743 TTAATTTAAAACCCT-AATCTAACCTAAA
1 -TAA-TTAAAAACCTAAACCTAACCT-AA
*
32904771 TTAATTAAAAACCCTAAATCTAACCTAAA
1 -TAATTAAAAA-CCTAAACCTAACCT-AA
* * *
32904800 TTAACTAAAAGCCCT-AATCTAACCTAAA
1 -TAATTAAAA-ACCTAAACCTAACCT-AA
32904828 TTAATTAAAAACCCTAAACCTAACCTAAA
1 -TAATTAAAAA-CCTAAACCTAACCT-AA
* *
32904857 TTAACTAAAAACCCT-AATCTAACCTAAA
1 -TAATTAAAAA-CCTAAACCTAACCT-AA
*
32904885 TTAATTAAAAACCCTAAAGCTAACCTAAA
1 -TAATTAAAAA-CCTAAACCTAACCT-AA
* *
32904914 TTAACTAAAAACCCT-AATCTAACCTAAA
1 -TAATTAAAAA-CCTAAACCTAACCT-AA
32904942 TTAATTAAAAACCTAAACCTAACCTAAA
1 -TAATTAAAAACCTAAACCTAACCT-AA
*
32904970 TTAATTTAAAATCCTAAACCTAACCTAAA
1 -TAA-TTAAAAACCTAAACCTAACCT-AA
* *
32904999 TTAATTTAAAACCCT-AATCTAACCTAA
1 -TAA-TTAAAAACCTAAACCTAACCTAA
32905026 ATTTTTTTGG
Statistics
Matches: 434, Mismatches: 31, Indels: 34
0.87 0.06 0.07
Matches are distributed among these distances:
27 14 0.03
28 216 0.50
29 194 0.45
30 10 0.02
ACGTcount: A:0.50, C:0.22, G:0.00, T:0.27
Consensus pattern (26 bp):
TAATTAAAAACCTAAACCTAACCTAA
Found at i:32905055 original size:10 final size:10
Alignment explanation
Indices: 32905040--32905064 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
32905030 TTTTGGCTTA
32905040 ATAATTTTAC
1 ATAATTTTAC
32905050 ATAATTTTAC
1 ATAATTTTAC
32905060 ATAAT
1 ATAAT
32905065 GTTAGATCTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (10 bp):
ATAATTTTAC
Found at i:32910548 original size:51 final size:51
Alignment explanation
Indices: 32910472--32910667 Score: 259
Period size: 51 Copynumber: 3.8 Consensus size: 51
32910462 TTATTGCTTA
* *
32910472 GCCCTTGCGGTTGAGCCCCCGGTGTGGTAGCATAGATCCCACCGTGAAACT
1 GCCCTAGCGGTTGAGCCCCCGGTGTGGAAGCATAGATCCCACCGTGAAACT
* *
32910523 GCCCTTGCGGTTGAGCCCCCGGTGTGGAAGCATAGATCCCACCGCGAAACT
1 GCCCTAGCGGTTGAGCCCCCGGTGTGGAAGCATAGATCCCACCGTGAAACT
* * * *
32910574 GCCCTAGTGGTTGAGTCCCCGGTGTGGAAGCATAGATCCCACCATGAAATT
1 GCCCTAGCGGTTGAGCCCCCGGTGTGGAAGCATAGATCCCACCGTGAAACT
* * * * *
32910625 GGCCTAGTGGTTGAGTCCCCGGAGTGAAAGCAT-GAATCCCACC
1 GCCCTAGCGGTTGAGCCCCCGGTGTGGAAGCATAG-ATCCCACC
32910668 CAGAAACCGC
Statistics
Matches: 133, Mismatches: 11, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
50 1 0.01
51 132 0.99
ACGTcount: A:0.21, C:0.30, G:0.29, T:0.20
Consensus pattern (51 bp):
GCCCTAGCGGTTGAGCCCCCGGTGTGGAAGCATAGATCCCACCGTGAAACT
Found at i:32915485 original size:30 final size:30
Alignment explanation
Indices: 32915446--32915502 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
32915436 TTTTATAAAT
32915446 AATTAATATTT-AT-TACTTAAAAATATTTAA
1 AATTAATATTTCATATA-TT-AAAATATTTAA
*
32915476 AATTTATATTTCATATATTAAAATATT
1 AATTAATATTTCATATATTAAAATATT
32915503 AACAAGTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
30 18 0.75
31 4 0.17
32 2 0.08
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (30 bp):
AATTAATATTTCATATATTAAAATATTTAA
Found at i:32916128 original size:8 final size:8
Alignment explanation
Indices: 32916116--32916155 Score: 57
Period size: 8 Copynumber: 5.2 Consensus size: 8
32916106 TTTTAAAAAT
32916116 AATTTTTA
1 AATTTTTA
*
32916124 TATTTTTA
1 AATTTTTA
32916132 AA-TTTTA
1 AATTTTTA
32916139 AA-TTTTA
1 AATTTTTA
32916146 AATTTTTA
1 AATTTTTA
32916154 AA
1 AA
32916156 AATTAATTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 14 0.48
8 15 0.52
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
AATTTTTA
Found at i:32916137 original size:28 final size:29
Alignment explanation
Indices: 32916084--32916140 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 29
32916074 TATACTTTTT
*
32916084 AATAATTTTAATGATTTTTAATTTTTAAA
1 AATAATTTTAATGATTTTTAAATTTTAAA
*
32916113 AATAATTTTTAT-ATTTTTAAATTTTAAA
1 AATAATTTTAATGATTTTTAAATTTTAAA
32916141 TTTTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 15 0.58
29 11 0.42
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (29 bp):
AATAATTTTAATGATTTTTAAATTTTAAA
Found at i:32916143 original size:15 final size:15
Alignment explanation
Indices: 32916116--32916155 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
32916106 TTTTAAAAAT
*
32916116 AATTTTTATATTTTTA
1 AATTTTTA-AATTTTA
32916132 AA-TTTTAAATTTTA
1 AATTTTTAAATTTTA
32916146 AATTTTTAAA
1 AATTTTTAAA
32916156 AATTAATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 8 0.36
15 12 0.55
16 2 0.09
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
AATTTTTAAATTTTA
Found at i:32916161 original size:22 final size:22
Alignment explanation
Indices: 32916097--32916161 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
32916087 AATTTTAATG
*
32916097 ATTTTTAATTTTTAAAAA-TAA
1 ATTTTAAATTTTTAAAAATTAA
* * **
32916118 TTTTTATATTTTTAAATTTTAA
1 ATTTTAAATTTTTAAAAATTAA
32916140 ATTTTAAATTTTTAAAAATTAA
1 ATTTTAAATTTTTAAAAATTAA
32916162 TTAAATGCTG
Statistics
Matches: 34, Mismatches: 9, Indels: 1
0.77 0.20 0.02
Matches are distributed among these distances:
21 13 0.38
22 21 0.62
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
ATTTTAAATTTTTAAAAATTAA
Found at i:32916751 original size:19 final size:20
Alignment explanation
Indices: 32916723--32916761 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
32916713 TAATATATAT
*
32916723 AAATACATAA-ATATTTTAA
1 AAATACATAATAAATTTTAA
*
32916742 AAATATATAATAAATTTTAA
1 AAATACATAATAAATTTTAA
32916762 TTTTATATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AAATACATAATAAATTTTAA
Found at i:32916891 original size:26 final size:25
Alignment explanation
Indices: 32916850--32916909 Score: 68
Period size: 26 Copynumber: 2.4 Consensus size: 25
32916840 AACAATTTTC
*
32916850 CCCTT-CCCCCACCCTTGTCATTGT
1 CCCTTCCCCCCACCCTTGTCACTGT
* *
32916874 CCCTTCCCTCCCATCCTTGTCCCTGT
1 CCCTTCCC-CCCACCCTTGTCACTGT
32916900 CCCTCTCCCC
1 CCCT-TCCCC
32916910 TACTGTCTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
24 5 0.17
25 2 0.07
26 19 0.63
27 4 0.13
ACGTcount: A:0.05, C:0.57, G:0.07, T:0.32
Consensus pattern (25 bp):
CCCTTCCCCCCACCCTTGTCACTGT
Found at i:32916931 original size:22 final size:22
Alignment explanation
Indices: 32916899--32916950 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
32916889 CTTGTCCCTG
*
32916899 TCCCTCTCCCCTACTGTCTCATC
1 TCCCTCTCCCCGACTGTCTC-TC
*
32916922 TCCCTC-CCCCGATTGTCTCTC
1 TCCCTCTCCCCGACTGTCTCTC
32916943 TCCCTCTC
1 TCCCTCTC
32916951 TGCTGGTCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
21 8 0.31
22 12 0.46
23 6 0.23
ACGTcount: A:0.06, C:0.54, G:0.06, T:0.35
Consensus pattern (22 bp):
TCCCTCTCCCCGACTGTCTCTC
Found at i:32919551 original size:15 final size:17
Alignment explanation
Indices: 32919525--32919567 Score: 54
Period size: 15 Copynumber: 2.6 Consensus size: 17
32919515 ATCAAGGCCC
*
32919525 AGAAAGAAGCAG-AGAA
1 AGAAAGAGGCAGAAGAA
32919541 A-AAAGAGGCAGAAGAA
1 AGAAAGAGGCAGAAGAA
*
32919557 AGAAAAAGGCA
1 AGAAAGAGGCA
32919568 AAAAGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 9 0.39
16 6 0.26
17 8 0.35
ACGTcount: A:0.63, C:0.07, G:0.30, T:0.00
Consensus pattern (17 bp):
AGAAAGAGGCAGAAGAA
Found at i:32923653 original size:7 final size:7
Alignment explanation
Indices: 32923641--32923665 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
32923631 AGTCGATTGA
32923641 TATTTAG
1 TATTTAG
32923648 TATTTAG
1 TATTTAG
32923655 TATTTAG
1 TATTTAG
32923662 TATT
1 TATT
32923666 ATGTATATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:32924843 original size:30 final size:25
Alignment explanation
Indices: 32924783--32924830 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
32924773 TATTTTGATA
32924783 TTATTTGATGTAATAAAATAAAAGT
1 TTATTTGATGTAATAAAATAAAAGT
32924808 TTATTTGATGTAATAAAATAAAA
1 TTATTTGATGTAATAAAATAAAA
32924831 AAATTAGTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAAAAGT
Found at i:32924877 original size:25 final size:25
Alignment explanation
Indices: 32924849--32924896 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
32924839 TATTTTGATA
*
32924849 TTATTTGATGTATTAAAATAGAAGT
1 TTATTTGATGTAATAAAATAGAAGT
32924874 TTATTTGATGTAATAAAATAGAA
1 TTATTTGATGTAATAAAATAGAA
32924897 ATTTTTGAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.44, C:0.00, G:0.15, T:0.42
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAGT
Found at i:32924913 original size:9 final size:9
Alignment explanation
Indices: 32924899--32924935 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
32924889 AAATAGAAAT
32924899 TTTTGAATA
1 TTTTGAATA
32924908 TTTTGAATA
1 TTTTGAATA
32924917 TTTTGAATA
1 TTTTGAATA
32924926 TTTTG-ATA
1 TTTTGAATA
32924934 TT
1 TT
32924936 ATTTGAGAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
8 5 0.18
9 23 0.82
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.59
Consensus pattern (9 bp):
TTTTGAATA
Found at i:32924922 original size:66 final size:67
Alignment explanation
Indices: 32924761--32924918 Score: 228
Period size: 66 Copynumber: 2.3 Consensus size: 67
32924751 TTATTTGTAC
32924761 AAATATTTTGAATATTTTGATATTATTTGATGTAATAAAATAAAAGTTTATTTGATGTAATAAAA
1 AAAT-TTTTGAATATTTTGATATTATTTGATGTAATAAAATAAAAGTTTATTTGATGTAATAAAA
32924826 TAA
65 TAA
** * * * *
32924829 AAAAATTAG-TTATTTTGATATTATTTGATGTATTAAAATAGAAGTTTATTTGATGTAATAAAAT
1 AAATTTTTGAATATTTTGATATTATTTGATGTAATAAAATAAAAGTTTATTTGATGTAATAAAAT
*
32924893 AG
66 AA
32924895 AAATTTTTGAATATTTTGAATATT
1 AAATTTTTGAATATTTTG-ATATT
32924919 TTGAATATTT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
66 59 0.77
67 10 0.13
68 8 0.10
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (67 bp):
AAATTTTTGAATATTTTGATATTATTTGATGTAATAAAATAAAAGTTTATTTGATGTAATAAAAT
AA
Found at i:32924997 original size:23 final size:23
Alignment explanation
Indices: 32924966--32926033 Score: 1091
Period size: 23 Copynumber: 47.7 Consensus size: 23
32924956 ATTAATACCC
* *
32924966 TTAACTTAAAAACACTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
32924989 TTAAATT-AAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
**
32925011 TTAAATTAAAAACCCT-ACC-CC
1 TTAAATTAAAAACCCTAACCTAA
*
32925032 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
32925055 TTAAATTAAAAACCCTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
*
32925077 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
** *
32925100 TTAACCTAAAAACCTTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
32925123 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
32925146 TTTAATTAAAAACCCTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
** *
32925168 TTATCTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
32925191 TTTAATTAAAAACCCTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
* *
32925213 TTAACTTTAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
32925236 TTAAATT-AAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
32925258 TTAAATTAAAAACCCTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
* *
32925280 TTAACTTTAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
32925303 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
32925326 TTAAATT-AAAACTCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
* *
32925346 TTAACTTTAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
32925369 TTAAATTAAAAACCCTAATCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
32925392 TTAAATTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
32925415 TTTAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
32925438 TTAAATTAAAAATCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
*
32925459 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
32925482 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
32925505 TTAACTT-AAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
32925527 TTATATTAAAAACCTTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
32925550 TTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
*
32925571 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
32925594 TTAACTTAAAAACCTTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
32925617 TTAAATTAAAAACACTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
32925640 TTTAATTAAAAACCCTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
* *
32925662 TTAACTTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
* *
32925683 TTAACTTAAAAACCCTAACTTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
32925706 TTTAATT-AAAACCCTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
* *
32925727 TTAACTTTAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
32925750 TTAACTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
32925773 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
32925796 -TAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
32925818 TTAAACTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
32925841 TTAAATTAAAAACCCTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
* * * *
32925863 CTAACTTAAAAACTCTAAACTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
32925886 TTTAATTAAAAAACCTAAACCCT-A
1 TTAAATTAAAAACCCT-AA-CCTAA
* *
32925910 --AACTTAAAAACCCTAACC-CA
1 TTAAATTAAAAACCCTAACCTAA
* **
32925930 TT-ACTTAAAAACCCTAACC-CC
1 TTAAATTAAAAACCCTAACCTAA
* *
32925951 TTAACTTAAAAACCCTAAACC--C
1 TTAAATTAAAAACCCT-AACCTAA
* * *
32925973 TTGACTTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
* * *
32925994 TTAACTTTAAAACCCTAAACTAA
1 TTAAATTAAAAACCCTAACCTAA
*
32926017 TTTAATTAAAAACCCTA
1 TTAAATTAAAAACCCTA
32926034 CACTAAATTA
Statistics
Matches: 884, Mismatches: 117, Indels: 88
0.81 0.11 0.08
Matches are distributed among these distances:
20 9 0.01
21 159 0.18
22 238 0.27
23 449 0.51
24 27 0.03
25 2 0.00
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (23 bp):
TTAAATTAAAAACCCTAACCTAA
Found at i:32925093 original size:45 final size:44
Alignment explanation
Indices: 32924996--32925992 Score: 897
Period size: 45 Copynumber: 22.3 Consensus size: 44
32924986 TAATTAAATT
*
32924996 AAAACCCTAACCTAATTAAATTAAAAACCCTACCCCTTAACTTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTTAACTTA
32925040 AAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTTAACTTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCT-AACCCTTAACTTA
** * * *
32925085 AAAACCCTAACCTAATTAACCTAAAAACCTTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAACC--CTTAACTTA
* *
32925131 AAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTATCTTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCT-AACCCTTAACTTA
* * *
32925176 AAAACTCTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTT
1 AAAACCCTAACCTAATTAAATTAAAAACCCT-AACCCTTAACTTA
* *
32925221 AAAACCCTAACCTAATTAAATT-AAAACCCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAACC--CTTAACTTA
* * * * *
32925266 AAAACCCTAAACC--CTTAACTTTAAAACCCTAACCTAATTAAATTA
1 AAAACCCT-AACCTAATTAAATTAAAAACCCTAACC--CTTAACTTA
* *
32925311 AAAACCCTAACCTAATTAAATT-AAAACTCTAACCCTTAACTTT
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTTAACTTA
** *
32925354 AAAACCCTAACCTAATTAAATTAAAAACCCTAATCTAATTAAATTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAA-C-CCTTAACTTA
* * * *
32925400 AAAACTCTAACCTAATTTAATTAAAAACCCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAACC--CTTAACTTA
* * * * *
32925446 AAAATCCTAACC--CTTAACTTAAAAACCCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAACC--CTTAACTTA
* *
32925490 AAAACCCTAACCTAATTAACTT-AAAACCCTAACCTAATTATA-TTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAACC--CTTA-ACTTA
*
32925535 AAAACCTTAACCTAATTAAATTAAAAACCCTAACCCTTAACTTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTTAACTTA
* * * *
32925579 AAAACCCTAACCTAATTAACTTAAAAACCTTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAACC--CTTAACTTA
* *
32925625 AAAACACTAACCTAATTTAATTAAAAACCCTAAACCCTTAACTTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCT-AACCCTTAACTTA
* * *
32925670 AAAACCCTAACC--CTTAACTTAAAAACCCTAA--CTTAATTTAA
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTTAACTT-A
* * * *
32925711 TTAAAACCCTAAACC--CTTAACTTTAAAACCCTAACCTAATTAACTTA
1 --AAAACCCT-AACCTAATTAAATTAAAAACCCTAACC--CTTAACTTA
*
32925758 AAAACTCTAACCTAATTAAATTAAAAACCCTAA-CCTAATAACTTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAACCCT--TAACTTA
* * *
32925803 AAAACCCTAACCTAATTAAACTAAAAACCCTAACCTAATTAAATTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCTAACC--CTTAACTTA
** * * **
32925849 AAAACCCTAAACC--CCTAACTTAAAAACTCTAAACTAATTTAA-TTA
1 AAAACCCT-AACCTAATTAAATTAAAAACCCT-AAC--CCTTAACTTA
* *
32925894 AAAAACCTAAACCCT-A--AACTTAAAAACCCTAACCCATT-ACTTA
1 AAAACCCT-AA-CCTAATTAAATTAAAAACCCTAACCC-TTAACTTA
** * *
32925937 AAAACCCTAACC-CCTTAACTTAAAAACCCTAAACCCTTGACTTA
1 AAAACCCTAACCTAATTAAATTAAAAACCCT-AACCCTTAACTTA
32925981 AAAACCCTAACC
1 AAAACCCTAACC
32925993 CTTAACTTTA
Statistics
Matches: 813, Mismatches: 89, Indels: 102
0.81 0.09 0.10
Matches are distributed among these distances:
40 7 0.01
41 3 0.00
42 5 0.01
43 84 0.10
44 191 0.23
45 309 0.38
46 194 0.24
47 13 0.02
48 7 0.01
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (44 bp):
AAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTTAACTTA
Found at i:32925281 original size:112 final size:112
Alignment explanation
Indices: 32924966--32926033 Score: 1007
Period size: 112 Copynumber: 9.5 Consensus size: 112
32924956 ATTAATACCC
* * *
32924966 TTAACTTAAAAACACTAACCTAATTAAATT-AAAACCCTAACCTAATTAAATTAAAAACCCT-AC
1 TTAA-TTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCT-ATTAACTTAAAAACCCTAAC
** * * *
32925029 C-CCTTAACTTAAAAACCCT-AACCTAATTAAATTAAAAACCCTAAACC---C
63 CTAATTAAATTAAAAACCCTAAACC--ATTAACTTAAAAACCCT-AACCTAAT
* * *
32925077 TTAACTTAAAAACCCTAACCTAATTAACCTAAAAACCTTAACCTAATTAAATTAAAAACCCTAAC
1 TTAA-TTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCT-ATTAACTTAAAAACCCTAAC
* * * *
32925142 CTAATTTAATTAAAAACCCTAAACCCTTATCTTAAAAACTCTAACCTAAT
63 CTAATTAAATTAAAAACCCTAAACCATTAACTTAAAAACCCTAACCTAAT
* * *
32925192 TTAATTAAAAACCCTAAACC-CTTAACTTTAAAACCCTAACCTAATTAAATT-AAAACCCTAACC
1 TTAATTAAAAACCCT-AACCAATTAACTTAAAAACCCTAACCT-ATTAACTTAAAAACCCTAACC
* *
32925255 TAATTAAATTAAAAACCCTAAACCCTTAACTTTAAAACCCTAACCTAAT
64 TAATTAAATTAAAAACCCTAAACCATTAACTTAAAAACCCTAACCTAAT
* * * * *
32925304 TAAATTAAAAACCCTAACCTAATTAAATT-AAAACTCTAACC-CTTAACTTTAAAACCCTAACCT
1 TTAATTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTATTAACTTAAAAACCCTAACCT
* * * *
32925367 AATTAAATTAAAAACCCTAATCTAATTAAATTAAAAACTCTAACCTAAT
65 AATTAAATTAAAAACCCTAAAC-CATTAACTTAAAAACCCTAACCTAAT
* * *
32925416 TTAATTAAAAACCCTAACCTAATTAAATTAAAAATCCTAACC-CTTAACTTAAAAACCCTAACCT
1 TTAATTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTATTAACTTAAAAACCCTAACCT
32925480 AATTAAATTAAAAACCCT-AACCTAATTAACTT-AAAACCCTAACCTAA-
65 AATTAAATTAAAAACCCTAAACC--ATTAACTTAAAAACCCTAACCTAAT
* * *
32925527 TTATATTAAAAACCTTAACCTAATTAAATTAAAAACCCTAACC-CTTAACTTAAAAACCCTAACC
1 TTA-ATTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTATTAACTTAAAAACCCTAACC
* * * *
32925591 TAATTAACTTAAAAA-CCTTAACCTAATTAAATTAAAAACACTAACCTAAT
64 TAATTAAATTAAAAACCCTAAACC--ATTAACTTAAAAACCCTAACCTAAT
* * *
32925641 TTAATTAAAAACCCTAAACC-CTTAACTTAAAAACCCTAACC-CTTAACTTAAAAACCCTAACTT
1 TTAATTAAAAACCCT-AACCAATTAACTTAAAAACCCTAACCTATTAACTTAAAAACCCTAACCT
* * *
32925704 AATTTAATT-AAAACCCTAAACCCTTAACTTTAAAACCCTAACCTAA-
65 AATTAAATTAAAAACCCTAAACCATTAACTTAAAAACCCTAACCTAAT
* * *
32925750 TTAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCTAACCTAATAACTTAAAAACCCTAACC
1 TTAA-TTAAAAACCCTAACC-AATTAACTTAAAAACCCTAACCTATTAACTTAAAAACCCTAACC
* * *
32925815 TAATTAAACTAAAAACCCT-AACCTAATTAAATTAAAAACCCTAAACC---C
64 TAATTAAATTAAAAACCCTAAACC--ATTAACTTAAAAACCCT-AACCTAAT
* * * *
32925863 CTAACTTAAAAACTCTAAACTAATTTAA-TTAAAAAACCTAAACCCTA--AACTTAAAAACCCTA
1 TTAA-TTAAAAACCCT-AACCAA-TTAACTTAAAAACCCT-AA-CCTATTAACTTAAAAACCCTA
* * * * *
32925925 ACC-CATT-ACTTAAAAACCCTAACCCCTTAACTTAAAAACCCTAAACC--CT
61 ACCTAATTAAATTAAAAACCCTAAACCATTAACTTAAAAACCCT-AACCTAAT
* * * * *
32925974 TGACTTAAAAACCCTAACC-CTTAACTTTAAAACCCTAAACTAATTTAA-TTAAAAACCCTA
1 TTAATTAAAAACCCTAACCAATTAACTTAAAAACCCTAACCT-A-TTAACTTAAAAACCCTA
32926034 CACTAAATTA
Statistics
Matches: 829, Mismatches: 87, Indels: 84
0.83 0.09 0.08
Matches are distributed among these distances:
106 2 0.00
107 7 0.01
108 9 0.01
109 23 0.03
110 68 0.08
111 106 0.13
112 356 0.43
113 183 0.22
114 55 0.07
115 20 0.02
ACGTcount: A:0.48, C:0.25, G:0.00, T:0.27
Consensus pattern (112 bp):
TTAATTAAAAACCCTAACCAATTAACTTAAAAACCCTAACCTATTAACTTAAAAACCCTAACCTA
ATTAAATTAAAAACCCTAAACCATTAACTTAAAAACCCTAACCTAAT
Found at i:32926164 original size:54 final size:54
Alignment explanation
Indices: 32926100--32926396 Score: 179
Period size: 54 Copynumber: 5.2 Consensus size: 54
32926090 TTGGTACTAA
32926100 CAATTAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTAT
1 CAATTAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTAT
* * * * ** * ** * *
32926154 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAAT-ATT-TTGACTGGTACTAA
1 CAATTAATAATTTTATA-T-A-AT-TTGATA-ATTT-TACTAATCATTAAT-AC-AAT-TTAT
32926215 CAATTAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTAT
1 CAATTAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTAT
* * * * ** ** * ** * *
32926269 CAATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTA-ACTGGTACTAA
1 CAATTAATAATTTTATA-T-A-AT-TTGATA-ATTT-TACTAATCATTAATAC-AAT-TTAT
*
32926330 CAATTAATAATTTTATATAATTTGA-AATTTTTACTAACCATTAATACAATTTAT
1 CAATTAATAATTTTATATAATTTGATAA-TTTTACTAATCATTAATACAATTTAT
32926384 CAATTAATAATTT
1 CAATTAATAATTT
32926397 CACAAACTTA
Statistics
Matches: 173, Mismatches: 49, Indels: 42
0.66 0.19 0.16
Matches are distributed among these distances:
54 49 0.28
55 15 0.09
56 17 0.10
57 11 0.06
58 13 0.08
59 17 0.10
60 15 0.09
61 36 0.21
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (54 bp):
CAATTAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTAT
Found at i:32926229 original size:61 final size:60
Alignment explanation
Indices: 32926039--32926344 Score: 194
Period size: 54 Copynumber: 5.2 Consensus size: 60
32926029 CCCTACACTA
* * *
32926039 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCTTGGTACTAAC
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAAT-ATTTTAC-TGGTACTAAC
* * * * ** * ** * *
32926101 AATTAATAATTTTATA-T-A-AT-TTGATA-ATTT-TACTAATCATTAATAC-AAT-TTATC
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAAT-ATT-TTACTGGTACTAAC
32926155 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAAC
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATATTTT-ACTGGTACTAAC
* * * * ** * ** * *
32926216 AATTAATAATTTTATA-T-A-AT-TTGATA-ATTT-TACTAATCATTAATAC-AAT-TTATC
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAAT-ATT-TTACTGGTACTAAC
*
32926270 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTAACTGGTACTAAC
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATATTTT-ACTGGTACTAAC
32926331 AATTAATAATTTTA
1 AATTAATAATTTTA
32926345 TATAATTTGA
Statistics
Matches: 174, Mismatches: 49, Indels: 43
0.65 0.18 0.16
Matches are distributed among these distances:
54 36 0.21
55 8 0.05
56 17 0.10
57 15 0.09
58 16 0.09
59 20 0.11
60 12 0.07
61 36 0.21
62 14 0.08
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (60 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATATTTTACTGGTACTAAC
Found at i:32926247 original size:115 final size:115
Alignment explanation
Indices: 32926039--32926396 Score: 637
Period size: 115 Copynumber: 3.1 Consensus size: 115
32926029 CCCTACACTA
* **
32926039 AATTAATAATTTTACTTTCACATAATGTTAGATTTGGAAAAATGTTTTTTCTTGGTACTAACAAT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTAAC-TGGTACTAACAAT
32926104 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
65 TAATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
* *
32926155 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTAACTGGTACTAACAATT
32926220 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
32926270 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTAACTGGTACTAACAATT
1 AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTAACTGGTACTAACAATT
*
32926335 AATAATTTTATATAATTTGA-AATTTTTACTAACCATTAATACAATTTATC
66 AATAATTTTATATAATTTGATAA-TTTTACTAATCATTAATACAATTTATC
32926385 AATTAATAATTT
1 AATTAATAATTT
32926397 CACAAACTTA
Statistics
Matches: 234, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
114 2 0.01
115 185 0.79
116 47 0.20
ACGTcount: A:0.40, C:0.09, G:0.07, T:0.44
Consensus pattern (115 bp):
AATTAATAATTTTACATTCACATAATGTTAGATTTGGAAAAATGTTTTAACTGGTACTAACAATT
AATAATTTTATATAATTTGATAATTTTACTAATCATTAATACAATTTATC
Found at i:32935173 original size:9 final size:9
Alignment explanation
Indices: 32935159--32935219 Score: 95
Period size: 9 Copynumber: 6.8 Consensus size: 9
32935149 TTTGGTTAAA
32935159 AATTACCCG
1 AATTACCCG
32935168 AATTACCCG
1 AATTACCCG
32935177 AATTACCCG
1 AATTACCCG
*
32935186 AATTAACCG
1 AATTACCCG
*
32935195 AATTAACCG
1 AATTACCCG
*
32935204 AATTAACCG
1 AATTACCCG
32935213 AATTACC
1 AATTACC
32935220 GAAAAATACC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 50 1.00
ACGTcount: A:0.39, C:0.28, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:32936307 original size:54 final size:54
Alignment explanation
Indices: 32936219--32936323 Score: 138
Period size: 54 Copynumber: 1.9 Consensus size: 54
32936209 TGGGACACAC
* *
32936219 GGCCGTGTCTCAGCCTGTATAACTCACTGACTTGAGACACACAATCGTGTCGTA
1 GGCCATGTCTCAGCCTGTATAACTCACTGACTTGAGACACACAACCGTGTCGTA
* * * * * *
32936273 GGCCATGTGTCAGGCTGTGTAACTCTCTGACTTGATACACACGACCGTGTC
1 GGCCATGTCTCAGCCTGTATAACTCACTGACTTGAGACACACAACCGTGTC
32936324 ACAGACCGTG
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 43 1.00
ACGTcount: A:0.22, C:0.28, G:0.24, T:0.27
Consensus pattern (54 bp):
GGCCATGTCTCAGCCTGTATAACTCACTGACTTGAGACACACAACCGTGTCGTA
Found at i:32958681 original size:33 final size:33
Alignment explanation
Indices: 32958639--32958704 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
32958629 AGCTCCAAGG
32958639 CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
1 CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
32958672 CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
1 CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
32958705 TCTTGAAGAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.12, C:0.27, G:0.18, T:0.42
Consensus pattern (33 bp):
CCCTTAGATTGACATGTTTCGCCTTGTTCTGCT
Found at i:32960239 original size:18 final size:18
Alignment explanation
Indices: 32960216--32960275 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
32960206 ATGTAATTCT
32960216 AATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
* * **
32960234 AATGTAA-AC-AATTTTCT
1 AATGTAATTCTAA-TATAG
*
32960251 TATGTAATTCTAATATAG
1 AATGTAATTCTAATATAG
32960269 AATGTAA
1 AATGTAA
32960276 CTTGTTTTAA
Statistics
Matches: 29, Mismatches: 10, Indels: 6
0.64 0.22 0.13
Matches are distributed among these distances:
16 2 0.07
17 9 0.31
18 16 0.55
19 2 0.07
ACGTcount: A:0.43, C:0.07, G:0.10, T:0.40
Consensus pattern (18 bp):
AATGTAATTCTAATATAG
Found at i:32960739 original size:120 final size:120
Alignment explanation
Indices: 32960603--32961345 Score: 1432
Period size: 120 Copynumber: 6.2 Consensus size: 120
32960593 TTTTCAAGTT
32960603 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
32960668 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
* *
32960723 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCAAATATTATGATTTTAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
32960788 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
32960843 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
32960908 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
32960963 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
32961028 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
*
32961083 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
32961148 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
32961203 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
32961268 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
32961323 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
32961346 TAAATATGAT
Statistics
Matches: 613, Mismatches: 10, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
120 613 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
Found at i:32960842 original size:18 final size:17
Alignment explanation
Indices: 32960814--32960848 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32960804 ATTATTAAGA
*
32960814 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
32960831 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
32960849 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:32960962 original size:18 final size:17
Alignment explanation
Indices: 32960934--32960968 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32960924 ATTATTAAGA
*
32960934 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
32960951 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
32960969 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:32961082 original size:18 final size:17
Alignment explanation
Indices: 32961054--32961088 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32961044 ATTATTAAGA
*
32961054 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
32961071 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
32961089 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:32961322 original size:18 final size:17
Alignment explanation
Indices: 32961294--32961328 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
32961284 ATTATTAAGA
*
32961294 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
32961311 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
32961329 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:32961585 original size:16 final size:16
Alignment explanation
Indices: 32961564--32961632 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
32961554 GATTAGCTAT
32961564 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
32961580 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
32961597 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
32961613 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
32961629 TACA
1 TACA
32961633 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:32961606 original size:33 final size:32
Alignment explanation
Indices: 32961564--32961632 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
32961554 GATTAGCTAT
32961564 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
32961597 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
32961629 TACA
1 TACA
32961633 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:32964517 original size:23 final size:23
Alignment explanation
Indices: 32964491--32964609 Score: 157
Period size: 23 Copynumber: 5.2 Consensus size: 23
32964481 AGTGCCACAT
32964491 TGATATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
*
32964514 TGATATGTAGCCGTAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
* * *
32964537 TGAAATATAGCCGAAGCTACCAT
1 TGATATGTAGCCGAAGCTACCAC
** * *
32964560 TGATATGTAGTTGTAGCTACAAC
1 TGATATGTAGCCGAAGCTACCAC
*
32964583 TGAAATGTAGCCGAAGCTACCAC
1 TGATATGTAGCCGAAGCTACCAC
32964606 TGAT
1 TGAT
32964610 CAATAACACT
Statistics
Matches: 78, Mismatches: 18, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
23 78 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (23 bp):
TGATATGTAGCCGAAGCTACCAC
Found at i:32964565 original size:46 final size:46
Alignment explanation
Indices: 32964498--32964609 Score: 179
Period size: 46 Copynumber: 2.4 Consensus size: 46
32964488 CATTGATATG
*
32964498 TAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACCACTGAAATA
1 TAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACAACTGAAATA
* ** *
32964544 TAGCCGAAGCTACCATTGATATGTAGTTGTAGCTACAACTGAAATG
1 TAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACAACTGAAATA
32964590 TAGCCGAAGCTACCACTGAT
1 TAGCCGAAGCTACCACTGAT
32964610 CAATAACACT
Statistics
Matches: 60, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 60 1.00
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.24
Consensus pattern (46 bp):
TAGCCGAAGCTACCACTGATATGTAGCCGTAGCTACAACTGAAATA
Found at i:32971492 original size:18 final size:19
Alignment explanation
Indices: 32971443--32971493 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
32971433 CATTTGTTTG
32971443 TATAAATTATAATTGTATAAT
1 TATAAA-TAT-ATTGTATAAT
* * *
32971464 TTTAAAAATATTG-ATTAT
1 TATAAATATATTGTATAAT
32971482 TATAAATATATT
1 TATAAATATATT
32971494 AGTAAGAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 14 0.56
19 4 0.16
20 2 0.08
21 5 0.20
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (19 bp):
TATAAATATATTGTATAAT
Found at i:32978481 original size:42 final size:42
Alignment explanation
Indices: 32978432--32978555 Score: 135
Period size: 42 Copynumber: 3.0 Consensus size: 42
32978422 ATGCTATCAT
*
32978432 GTATCGATACCAATAG-CCC-AGCTATAGTCTTACACGAATCTC
1 GTATCGATACCAAT-GTCCCAAAC-ATAGTCTTACACGAATCTC
* *
32978474 GTATCGATGCCAATGTCCCAAACATGGTCTTACACGAATCTC
1 GTATCGATACCAATGTCCCAAACATAGTCTTACACGAATCTC
* ** * * *
32978516 ATATCGATGTCAATGTCCTAGACATGGTCTTACACGAATC
1 GTATCGATACCAATGTCCCAAACATAGTCTTACACGAATC
32978556 ACATCTTAGT
Statistics
Matches: 73, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
41 1 0.01
42 70 0.96
43 2 0.03
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (42 bp):
GTATCGATACCAATGTCCCAAACATAGTCTTACACGAATCTC
Found at i:32980930 original size:24 final size:24
Alignment explanation
Indices: 32980903--32980956 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
32980893 AGGATCAATA
*
32980903 GGAGGTACAGCTAGAGGTGCCTCC
1 GGAGGTACAACTAGAGGTGCCTCC
** * *
32980927 GGAGGTGTAACTGGATGTGCCTCC
1 GGAGGTACAACTAGAGGTGCCTCC
32980951 GGAGGT
1 GGAGGT
32980957 GATACCAGAG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.19, C:0.20, G:0.41, T:0.20
Consensus pattern (24 bp):
GGAGGTACAACTAGAGGTGCCTCC
Found at i:32983349 original size:33 final size:33
Alignment explanation
Indices: 32983287--32983349 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
32983277 TTTCATGATC
* *
32983287 CATTTCAATTCAATTCCATTTTCATATCATTTT
1 CATTTCAATTCAATTCCATGTTCAAATCATTTT
*
32983320 CATTTCAATTTC-ATTTCATGTTCAAATCAT
1 CATTTCAA-TTCAATTCCATGTTCAAATCAT
32983350 ATATCCCCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
33 23 0.88
34 3 0.12
ACGTcount: A:0.29, C:0.21, G:0.02, T:0.49
Consensus pattern (33 bp):
CATTTCAATTCAATTCCATGTTCAAATCATTTT
Found at i:32983609 original size:61 final size:61
Alignment explanation
Indices: 32983544--32983690 Score: 285
Period size: 61 Copynumber: 2.4 Consensus size: 61
32983534 CATCCAAAAC
32983544 TCATAAAAATAAAATAAAATAAATATAACTAGTCTTAGTAAACTAAATATTCTAAAGCTAT
1 TCATAAAAATAAAATAAAATAAATATAACTAGTCTTAGTAAACTAAATATTCTAAAGCTAT
32983605 TCATAAAAATAAAATAAAATAAATATAACTAGTCTTAGTAAACTAAATATTCTAAAGCTAT
1 TCATAAAAATAAAATAAAATAAATATAACTAGTCTTAGTAAACTAAATATTCTAAAGCTAT
32983666 TCATAAAAATAAAATAAAATGAAAT
1 TCATAAAAATAAAATAAAAT-AAAT
32983691 GAAATAAGAT
Statistics
Matches: 85, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
61 81 0.95
62 4 0.05
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (61 bp):
TCATAAAAATAAAATAAAATAAATATAACTAGTCTTAGTAAACTAAATATTCTAAAGCTAT
Found at i:32983619 original size:28 final size:28
Alignment explanation
Indices: 32983588--32983681 Score: 66
Period size: 28 Copynumber: 3.2 Consensus size: 28
32983578 TTAGTAAACT
32983588 AAATATTCTAAAGCTATTCATAAAAATA
1 AAATATTCTAAAGCTATTCATAAAAATA
** * * *
32983616 AAATAAAATAAATATAA-CTAGTCTTAGTAAACTA
1 AAAT---AT-TCTA-AAGCTATTCATA--AAAATA
32983650 -AATATTCTAAAGCTATTCATAAAAATA
1 AAATATTCTAAAGCTATTCATAAAAATA
32983677 AAATA
1 AAATA
32983682 AAATGAAATG
Statistics
Matches: 47, Mismatches: 10, Indels: 18
0.63 0.13 0.24
Matches are distributed among these distances:
27 5 0.11
28 10 0.21
29 9 0.19
30 2 0.04
31 2 0.04
32 9 0.19
33 5 0.11
34 5 0.11
ACGTcount: A:0.55, C:0.10, G:0.04, T:0.31
Consensus pattern (28 bp):
AAATATTCTAAAGCTATTCATAAAAATA
Found at i:32984516 original size:18 final size:18
Alignment explanation
Indices: 32984493--32984529 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
32984483 ATTATATATT
*
32984493 ATAATATTAATTATTAAA
1 ATAATATTAATTAATAAA
*
32984511 ATAATATTATTTAATAAA
1 ATAATATTAATTAATAAA
32984529 A
1 A
32984530 AAGGTAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
ATAATATTAATTAATAAA
Found at i:32986082 original size:16 final size:17
Alignment explanation
Indices: 32986061--32986103 Score: 54
Period size: 16 Copynumber: 2.5 Consensus size: 17
32986051 GCTTAATTAA
32986061 TAAATAA-AGAATA-ACC
1 TAAATAATA-AATATACC
32986077 TAAATAATAAATATACC
1 TAAATAATAAATATACC
32986094 TAAATGAATA
1 TAAAT-AATA
32986104 GGATGAGGCG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 11 0.46
17 9 0.38
18 4 0.17
ACGTcount: A:0.60, C:0.09, G:0.05, T:0.26
Consensus pattern (17 bp):
TAAATAATAAATATACC
Found at i:32987108 original size:21 final size:21
Alignment explanation
Indices: 32987079--32987182 Score: 117
Period size: 21 Copynumber: 5.0 Consensus size: 21
32987069 TTTTAGTTTT
*
32987079 TGTTTAGCTCTTTCGAGCTTC
1 TGTTCAGCTCTTTCGAGCTTC
*
32987100 TGTTCAGCTCTTACGAGCTTC
1 TGTTCAGCTCTTTCGAGCTTC
* *
32987121 TGTTCAACTCTTAT-GAGTTTC
1 TGTTCAGCTCTT-TCGAGCTTC
*
32987142 TGTTGAGCTCTTAT-GAGCTTC
1 TGTTCAGCTCTT-TCGAGCTTC
32987163 TGTTCAG--CTTTCGAGCTTC
1 TGTTCAGCTCTTTCGAGCTTC
32987182 T
1 T
32987183 ATTGGCATGT
Statistics
Matches: 72, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
18 1 0.01
19 11 0.15
21 60 0.83
ACGTcount: A:0.13, C:0.23, G:0.19, T:0.44
Consensus pattern (21 bp):
TGTTCAGCTCTTTCGAGCTTC
Found at i:33006709 original size:19 final size:20
Alignment explanation
Indices: 33006660--33006714 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 20
33006650 TTTTCTTAAT
*
33006660 AATAATTCTAAAAA-AAGTAA
1 AATAATT-TAAAAATAAATAA
*
33006680 AAGAATATTAAAAATAAAT-A
1 AATAAT-TTAAAAATAAATAA
33006700 AATAATTTAAAAATA
1 AATAATTTAAAAATA
33006715 TATTAATTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
19 9 0.30
20 17 0.57
21 4 0.13
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (20 bp):
AATAATTTAAAAATAAATAA
Found at i:33007580 original size:31 final size:31
Alignment explanation
Indices: 33007542--33007669 Score: 104
Period size: 31 Copynumber: 4.2 Consensus size: 31
33007532 AACTACACCA
*
33007542 TTAGTCACTAAACTATGT-GTAAGTTTTCATT
1 TTAGTCACTAAACTAT-TAGAAAGTTTTCATT
* * ** * *
33007573 TTGGTCACTTAACTA--A-AAAAATTACAAT
1 TTAGTCACTAAACTATTAGAAAGTTTTCATT
* *
33007601 TTGGTCACTAAACTATTCGAAAGTTTTCATT
1 TTAGTCACTAAACTATTAGAAAGTTTTCATT
* *
33007632 TAAGTCACTAAACTATTTAG-AAGTTTTTATT
1 TTAGTCACTAAACTA-TTAGAAAGTTTTCATT
33007663 TTAGTCA
1 TTAGTCA
33007670 TTAGATTGTT
Statistics
Matches: 74, Mismatches: 18, Indels: 10
0.73 0.18 0.10
Matches are distributed among these distances:
28 21 0.28
31 50 0.68
32 3 0.04
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.41
Consensus pattern (31 bp):
TTAGTCACTAAACTATTAGAAAGTTTTCATT
Found at i:33008792 original size:18 final size:18
Alignment explanation
Indices: 33008736--33008792 Score: 62
Period size: 17 Copynumber: 3.0 Consensus size: 18
33008726 GTGAATGATG
*
33008736 ATGAGAGAAAAACAAAGAG
1 ATGAGAGAAAAACAAAG-T
33008755 ATAGATGAAGAAAAAC-AAGT
1 AT-GA-G-AGAAAAACAAAGT
33008775 ATGAGAGAAAAACAAAGT
1 ATGAGAGAAAAACAAAGT
33008793 GAAGGAAAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 4 0.12
20 4 0.12
21 4 0.12
22 8 0.24
ACGTcount: A:0.61, C:0.05, G:0.23, T:0.11
Consensus pattern (18 bp):
ATGAGAGAAAAACAAAGT
Found at i:33010312 original size:165 final size:165
Alignment explanation
Indices: 33010040--33010369 Score: 633
Period size: 165 Copynumber: 2.0 Consensus size: 165
33010030 TACCATTAAG
33010040 GAATGATTCAATATACGAACTTACTTGAACTCATAACAACTTCTAACACGATTAGACCACTATTC
1 GAATGATTCAATATACGAACTTACTTGAACTCATAACAACTTCTAACACGATTAGACCACTATTC
33010105 CGCTACTTTGACTTTTTCGTGATTTGTGTCCGTTCGAGTTGTTTCTTGATCTAGATAAATAATTT
66 CGCTACTTTGACTTTTTCGTGATTTGTGTCCGTTCGAGTTGTTTCTTGATCTAGATAAATAATTT
* *
33010170 TATTCAATTAAACTCATTCCAGCATTTAAAATAAT
131 TATTCAACTAAACTCATTCCAGCATATAAAATAAT
*
33010205 GAATGATTCAATATACGAACTTACTTTAACTCATAACAACTTCTAACACGATTAGACCACTATTC
1 GAATGATTCAATATACGAACTTACTTGAACTCATAACAACTTCTAACACGATTAGACCACTATTC
33010270 CGCTACTTTGACTTTTTCGTGATTTGTGTCCGTTCGAGTTGTTTCTTGATCTAGATAAATAATTT
66 CGCTACTTTGACTTTTTCGTGATTTGTGTCCGTTCGAGTTGTTTCTTGATCTAGATAAATAATTT
33010335 TATTCAACTAAACTCATTCCAGCATATAAAATAAT
131 TATTCAACTAAACTCATTCCAGCATATAAAATAAT
33010370 CAATTTAACT
Statistics
Matches: 162, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
165 162 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (165 bp):
GAATGATTCAATATACGAACTTACTTGAACTCATAACAACTTCTAACACGATTAGACCACTATTC
CGCTACTTTGACTTTTTCGTGATTTGTGTCCGTTCGAGTTGTTTCTTGATCTAGATAAATAATTT
TATTCAACTAAACTCATTCCAGCATATAAAATAAT
Found at i:33012365 original size:19 final size:20
Alignment explanation
Indices: 33012341--33012378 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33012331 CACTTATCTA
33012341 ACTTTA-AGACAATTTAAAC
1 ACTTTAGAGACAATTTAAAC
*
33012360 ACTTTAGAGAGAATTTAAA
1 ACTTTAGAGACAATTTAAA
33012379 ATCATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.47, C:0.11, G:0.11, T:0.32
Consensus pattern (20 bp):
ACTTTAGAGACAATTTAAAC
Found at i:33012534 original size:22 final size:22
Alignment explanation
Indices: 33012480--33012522 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
33012470 GGACTTGGGA
33012480 CAGTTGCTG-TGTCACAAGTCCT
1 CAGTTG-TGTTGTCACAAGTCCT
33012502 CAGTTGTGTTGTCACAAGTCC
1 CAGTTGTGTTGTCACAAGTCC
33012523 CTGTTATTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.19, C:0.26, G:0.23, T:0.33
Consensus pattern (22 bp):
CAGTTGTGTTGTCACAAGTCCT
Found at i:33013078 original size:28 final size:28
Alignment explanation
Indices: 33013047--33013103 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
33013037 AAAATAAAGA
33013047 ATAAAAATTTTTTTATATAAAATCTTAG
1 ATAAAAATTTTTTTATATAAAATCTTAG
33013075 ATAAAAATTTTTTTATATAAAATCTTAG
1 ATAAAAATTTTTTTATATAAAATCTTAG
33013103 A
1 A
33013104 GAATAGATCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.46
Consensus pattern (28 bp):
ATAAAAATTTTTTTATATAAAATCTTAG
Found at i:33014070 original size:11 final size:11
Alignment explanation
Indices: 33014054--33014086 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
33014044 TATGTTATTT
33014054 TATAATAAAAA
1 TATAATAAAAA
33014065 TATAATAAATAA
1 TATAATAAA-AA
33014077 -ATAATAAAAA
1 TATAATAAAAA
33014087 GTAAGTGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.10
11 17 0.81
12 2 0.10
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
TATAATAAAAA
Found at i:33017497 original size:26 final size:26
Alignment explanation
Indices: 33017446--33017528 Score: 80
Period size: 26 Copynumber: 3.2 Consensus size: 26
33017436 TCCATATTTT
* * *
33017446 AAATAAAAATATAAAAATTATGAAAA
1 AAATAAAAAAATAAAAAATATAAAAA
33017472 AAATAAAAAAATAAAAAA-ATAAAAA
1 AAATAAAAAAATAAAAAATATAAAAA
* *
33017497 AAATCCTAAAAAAT-AAAAATAAAAATAA
1 AAAT--AAAAAAATAAAAAATATAAA-AA
33017525 AAAT
1 AAAT
33017529 GATTTAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
25 10 0.21
26 21 0.44
27 11 0.23
28 6 0.12
ACGTcount: A:0.78, C:0.02, G:0.01, T:0.18
Consensus pattern (26 bp):
AAATAAAAAAATAAAAAATATAAAAA
Found at i:33017498 original size:19 final size:19
Alignment explanation
Indices: 33017476--33017527 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
33017466 TGAAAAAAAT
33017476 AAAAAAATAAAAAAATAAA
1 AAAAAAATAAAAAAATAAA
**
33017495 AAAAATCCT-AAAAAATAAA
1 AAAAA-AATAAAAAAATAAA
33017514 AATAAAAATAAAAA
1 AA-AAAAATAAAAA
33017528 TGATTTAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.83, C:0.04, G:0.00, T:0.13
Consensus pattern (19 bp):
AAAAAAATAAAAAAATAAA
Found at i:33017515 original size:8 final size:8
Alignment explanation
Indices: 33017446--33017498 Score: 70
Period size: 8 Copynumber: 6.4 Consensus size: 8
33017436 TCCATATTTT
33017446 AAATAAAA
1 AAATAAAA
*
33017454 ATATAAAA
1 AAATAAAA
*
33017462 ATTATGAAAA
1 A-AAT-AAAA
33017472 AAATAAAA
1 AAATAAAA
33017480 AAATAAAA
1 AAATAAAA
33017488 AAATAAAA
1 AAATAAAA
33017496 AAA
1 AAA
33017499 ATCCTAAAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
8 31 0.76
9 5 0.12
10 5 0.12
ACGTcount: A:0.81, C:0.00, G:0.02, T:0.17
Consensus pattern (8 bp):
AAATAAAA
Found at i:33017526 original size:5 final size:6
Alignment explanation
Indices: 33017470--33017528 Score: 52
Period size: 6 Copynumber: 10.0 Consensus size: 6
33017460 AAATTATGAA
* **
33017470 AAAAAT AAAAA- AATAA- AAAAAT AAAAA- AAATCCT AAAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAA-AAT -AAAAAT AAAAAT
33017517 AAAAAT AAAAAT
1 AAAAAT AAAAAT
33017529 GATTTAAAAA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
5 11 0.26
6 28 0.65
7 1 0.02
8 3 0.07
ACGTcount: A:0.81, C:0.03, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:33017796 original size:17 final size:18
Alignment explanation
Indices: 33017776--33017821 Score: 62
Period size: 17 Copynumber: 2.7 Consensus size: 18
33017766 TAAAGCAAAT
33017776 AAATTACTAAAA-ATTA-A
1 AAATTA-TAAAATATTATA
33017793 AAATTA-AAAATATTATA
1 AAATTATAAAATATTATA
33017810 AAATTATAAAAT
1 AAATTATAAAAT
33017822 CGATTCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
15 4 0.15
16 4 0.15
17 13 0.50
18 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTATAAAATATTATA
Found at i:33018593 original size:36 final size:36
Alignment explanation
Indices: 33018527--33018598 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
33018517 TGAACTTTGA
* **
33018527 ATTTTTTTAAATATTTTTAATATCATTTTTATTTTT
1 ATTTTTTTAAAAATTTAAAATATCATTTTTATTTTT
*
33018563 ATTTTTTTAAAAATTTAAAAT-TTATATTTTATTTTT
1 ATTTTTTTAAAAATTTAAAATATCAT-TTTTATTTTT
33018599 CAAAAAATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
35 3 0.10
36 28 0.90
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (36 bp):
ATTTTTTTAAAAATTTAAAATATCATTTTTATTTTT
Found at i:33018615 original size:29 final size:29
Alignment explanation
Indices: 33018545--33018615 Score: 72
Period size: 30 Copynumber: 2.4 Consensus size: 29
33018535 AAATATTTTT
* **
33018545 AATATCATTTTTATTTTTATTTTTTTAAA
1 AATATAATTTTTATTTTTATTTTTCAAAA
* **
33018574 AATTTAAAATTTATATTTTATTTTTCAAAA
1 AATATAATTTTTAT-TTTTATTTTTCAAAA
33018604 AATAT-ATTTTTA
1 AATATAATTTTTA
33018616 ATTACTTTGT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
29 15 0.47
30 17 0.53
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (29 bp):
AATATAATTTTTATTTTTATTTTTCAAAA
Found at i:33039568 original size:16 final size:17
Alignment explanation
Indices: 33039540--33039587 Score: 64
Period size: 16 Copynumber: 2.9 Consensus size: 17
33039530 AAAGTGATTG
33039540 AAAAAAGTACAAAAAAA-
1 AAAAAA-TACAAAAAAAT
*
33039557 AGAAAATACAAAAAAAT
1 AAAAAATACAAAAAAAT
33039574 AAAAAATA-AAAAAA
1 AAAAAATACAAAAAA
33039588 TTATTATGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 16 0.57
17 12 0.43
ACGTcount: A:0.83, C:0.04, G:0.04, T:0.08
Consensus pattern (17 bp):
AAAAAATACAAAAAAAT
Found at i:33053333 original size:15 final size:15
Alignment explanation
Indices: 33053308--33053343 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
33053298 AAATTAACAA
33053308 TAATATTAATATAAAT
1 TAAT-TTAATATAAAT
*
33053324 TAATTTAATATAATT
1 TAATTTAATATAAAT
33053339 TAATT
1 TAATT
33053344 ATAGAACGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTTAATATAAAT
Found at i:33053498 original size:8 final size:9
Alignment explanation
Indices: 33053471--33053500 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
33053461 AAAGCTGTAA
33053471 AAAATTAAT
1 AAAATTAAT
33053480 AAAATTAAT
1 AAAATTAAT
33053489 AAAA-TAAT
1 AAAATTAAT
33053497 AAAA
1 AAAA
33053501 ATAGAAATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (9 bp):
AAAATTAAT
Found at i:33053544 original size:20 final size:19
Alignment explanation
Indices: 33053512--33053549 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
33053502 TAGAAATTAC
33053512 AAAAAAATATAAAAATATG
1 AAAAAAATATAAAAATATG
*
33053531 AAAAAATATTTAAAAATAT
1 AAAAAA-ATATAAAAATAT
33053550 AGAACCTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (19 bp):
AAAAAAATATAAAAATATG
Found at i:33058567 original size:40 final size:40
Alignment explanation
Indices: 33058481--33058569 Score: 101
Period size: 40 Copynumber: 2.2 Consensus size: 40
33058471 TACTCTCACA
*
33058481 AGAA-GGTATCGTGAAAGGGTACTCATGGGAAGGTACTAT
1 AGAAGGGTACCGTGAAAGGGTACTCATGGGAAGGTACTAT
* * * * *
33058520 TGGAGGGTACCGTGGAAGGGTACTCGTGGGAGGGTA-TCAT
1 AGAAGGGTACCGTGAAAGGGTACTCATGGGAAGGTACT-AT
33058560 AGAAGGGTAC
1 AGAAGGGTAC
33058570 TTGCAAAAGG
Statistics
Matches: 40, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.08
40 37 0.93
ACGTcount: A:0.28, C:0.11, G:0.39, T:0.21
Consensus pattern (40 bp):
AGAAGGGTACCGTGAAAGGGTACTCATGGGAAGGTACTAT
Found at i:33058625 original size:14 final size:14
Alignment explanation
Indices: 33058536--33058627 Score: 50
Period size: 14 Copynumber: 6.6 Consensus size: 14
33058526 GTACCGTGGA
**
33058536 AGGGTACTCGTGGG
1 AGGGTACTCGTAAG
*
33058550 AGGGTA-TCAT-AG
1 AGGGTACTCGTAAG
* * *
33058562 AAGGGTACTTGCAAA
1 -AGGGTACTCGTAAG
33058577 AGGGTACTCTCGTAAG
1 AGGGTA--CTCGTAAG
33058593 AGGGTAGCAT-G-AA-
1 AGGGTA-C-TCGTAAG
33058606 AGGGTACTCGTAAG
1 AGGGTACTCGTAAG
33058620 AGGGTACT
1 AGGGTACT
33058628 GTGTATTGAT
Statistics
Matches: 59, Mismatches: 10, Indels: 18
0.68 0.11 0.21
Matches are distributed among these distances:
11 1 0.02
12 3 0.05
13 17 0.29
14 23 0.39
15 3 0.05
16 12 0.20
ACGTcount: A:0.29, C:0.13, G:0.36, T:0.22
Consensus pattern (14 bp):
AGGGTACTCGTAAG
Found at i:33059947 original size:56 final size:55
Alignment explanation
Indices: 33059851--33059957 Score: 142
Period size: 56 Copynumber: 1.9 Consensus size: 55
33059841 CTTCTTTCGT
* *
33059851 GTCCACAACTCGTCTTTTCCCGCATCCACAACTCACCATCCCCTTGTCCGCCTGAC
1 GTCCACAACTCGCCTTTTCCCACATCCACAACTCACCAT-CCCTTGTCCGCCTGAC
* * ***
33059907 GTCCACAACTCGCCTTTTCCCACGTCCACGACTTGTCATCCCTTGTCCGCC
1 GTCCACAACTCGCCTTTTCCCACATCCACAACTCACCATCCCTTGTCCGCC
33059958 GGATGGCTAC
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
55 12 0.27
56 32 0.73
ACGTcount: A:0.16, C:0.46, G:0.12, T:0.26
Consensus pattern (55 bp):
GTCCACAACTCGCCTTTTCCCACATCCACAACTCACCATCCCTTGTCCGCCTGAC
Found at i:33066324 original size:7 final size:8
Alignment explanation
Indices: 33066281--33066327 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
33066271 TTTAATATGA
33066281 TAAAATAAT
1 TAAAAT-AT
*
33066290 TTAAATA-
1 TAAAATAT
33066297 TAATAATAT
1 TAA-AATAT
33066306 TAAAATAT
1 TAAAATAT
33066314 TAAAA-AT
1 TAAAATAT
33066321 TAAAATA
1 TAAAATA
33066328 AATATAAATA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
7 9 0.27
8 16 0.48
9 8 0.24
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (8 bp):
TAAAATAT
Found at i:33069795 original size:21 final size:21
Alignment explanation
Indices: 33069769--33069809 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
33069759 ATCTGCTCAA
* *
33069769 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
33069790 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
33069810 TTGTTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:33090998 original size:3 final size:3
Alignment explanation
Indices: 33090990--33091023 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
33090980 CTACTTCTTA
33090990 ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT ATT
33091024 TTAATACTCT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:33091012 original size:16 final size:16
Alignment explanation
Indices: 33090991--33091024 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
33090981 TACTTCTTAA
33090991 TTATTATTATTATTAT
1 TTATTATTATTATTAT
33091007 TTATTATTATTATTAT
1 TTATTATTATTATTAT
33091023 TT
1 TT
33091025 TAATACTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTATTATTATTAT
Found at i:33095237 original size:3 final size:3
Alignment explanation
Indices: 33095229--33095270 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
33095219 TTCATAAACA
33095229 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
33095271 TAGAATAAAG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:33096726 original size:3 final size:3
Alignment explanation
Indices: 33096718--33096748 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
33096708 ATTCAAGCTC
33096718 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
33096749 TGCACGTAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:33100972 original size:7 final size:7
Alignment explanation
Indices: 33100960--33100986 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
33100950 ATTTGGGACT
33100960 ACAAAAA
1 ACAAAAA
33100967 ACAAAAA
1 ACAAAAA
33100974 ACAAAAA
1 ACAAAAA
33100981 ACAAAA
1 ACAAAA
33100987 CAAAAGCAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (7 bp):
ACAAAAA
Found at i:33102090 original size:43 final size:43
Alignment explanation
Indices: 33101963--33102123 Score: 216
Period size: 43 Copynumber: 3.8 Consensus size: 43
33101953 GCGCCGCAAA
** ** * *
33101963 AAACGCCGCTAAAGGTCATGGTCTTTAGCGACGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCGAC
* * *
33102006 AAACGTCACTAAAGACCATTACC-TTAGCGGCGCTTTTCCGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCGAC
*
33102048 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTATCCGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCGAC
*
33102091 AAACGCCGCTAAAGACCATGACCTTTAACGGCG
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCG
33102124 TTTGTAGCGG
Statistics
Matches: 103, Mismatches: 14, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
42 37 0.36
43 66 0.64
ACGTcount: A:0.28, C:0.31, G:0.20, T:0.21
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCGAC
Found at i:33102532 original size:21 final size:21
Alignment explanation
Indices: 33102508--33102547 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
33102498 GTTCATCGTA
33102508 CTTGCTGCAGCCTCTGCTTCC
1 CTTGCTGCAGCCTCTGCTTCC
33102529 CTTGCTGCAGCCTCTGCTT
1 CTTGCTGCAGCCTCTGCTT
33102548 TAAGCTGCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.40, G:0.20, T:0.35
Consensus pattern (21 bp):
CTTGCTGCAGCCTCTGCTTCC
Found at i:33102631 original size:66 final size:66
Alignment explanation
Indices: 33102556--33102685 Score: 181
Period size: 66 Copynumber: 2.0 Consensus size: 66
33102546 TTTAAGCTGC
* * * *
33102556 AGCTGGAGTTCTTCATA-CTTTCATTGAACCTCAGCTTCTCTCGCTGCTGCATATGCTTTAAGTT
1 AGCTAGAGTTCTTCATATCTTT-ATTGAACATCAGCTTCTCTCGATGCTGCATACGCTTTAAGTT
33102620 TT
65 TT
* * *
33102622 AGCTAGAGTTCTTCATATCTTTTTTGAACATCAGCTTCTCTCGATGCTGCCTCCGCTTTAAGTT
1 AGCTAGAGTTCTTCATATCTTTATTGAACATCAGCTTCTCTCGATGCTGCATACGCTTTAAGTT
33102686 GTGTAATTTG
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
66 52 0.93
67 4 0.07
ACGTcount: A:0.18, C:0.25, G:0.16, T:0.41
Consensus pattern (66 bp):
AGCTAGAGTTCTTCATATCTTTATTGAACATCAGCTTCTCTCGATGCTGCATACGCTTTAAGTTT
T
Found at i:33108019 original size:9 final size:9
Alignment explanation
Indices: 33108002--33108289 Score: 112
Period size: 9 Copynumber: 33.7 Consensus size: 9
33107992 AATTTATGTA
*
33108002 TTATATAAG
1 TTATGTAAG
33108011 TTATGTAAG
1 TTATGTAAG
*
33108020 TTACGT-A-
1 TTATGTAAG
33108027 TTATGTAAG
1 TTATGTAAG
*
33108036 CTATGTAAG
1 TTATGTAAG
**
33108045 -T-TGTATT
1 TTATGTAAG
*
33108052 TTATGTTAG
1 TTATGTAAG
* *
33108061 CTAT-TTA-
1 TTATGTAAG
33108068 TTATGTAAG
1 TTATGTAAG
*
33108077 TTGTGT-A-
1 TTATGTAAG
33108084 TTATGTAAG
1 TTATGTAAG
*
33108093 CTATGT-A-
1 TTATGTAAG
*
33108100 TTATGTTAG
1 TTATGTAAG
**
33108109 TTATGTCTG
1 TTATGTAAG
33108118 TTATGT-A-
1 TTATGTAAG
*
33108125 TTATGTATG
1 TTATGTAAG
*
33108134 TCATGTAAG
1 TTATGTAAG
*
33108143 TTGTGT-AG
1 TTATGTAAG
*
33108151 -AATGTAAG
1 TTATGTAAG
*
33108159 CTATGTAAG
1 TTATGTAAG
*
33108168 TTATGTGAG
1 TTATGTAAG
*
33108177 TTATATATAAG
1 -T-TATGTAAG
* *
33108188 TTATCTTAATAA
1 TTAT-GT-A-AG
*
33108200 TTATATAAG
1 TTATGTAAG
*
33108209 CTATGT-A-
1 TTATGTAAG
*
33108216 TTATGTTAG
1 TTATGTAAG
**
33108225 TTATGCCAG
1 TTATGTAAG
33108234 TTATGT-A-
1 TTATGTAAG
*
33108241 TTATGTATG
1 TTATGTAAG
33108250 TTATGTAAG
1 TTATGTAAG
*
33108259 TTGTGT-AG
1 TTATGTAAG
*
33108267 -AATGTAAG
1 TTATGTAAG
*
33108275 CTATGTAAG
1 TTATGTAAG
33108284 TTATGT
1 TTATGT
33108290 TAGAAATTTT
Statistics
Matches: 206, Mismatches: 48, Indels: 50
0.68 0.16 0.16
Matches are distributed among these distances:
7 45 0.22
8 24 0.12
9 120 0.58
10 4 0.02
11 8 0.04
12 5 0.02
ACGTcount: A:0.30, C:0.04, G:0.20, T:0.47
Consensus pattern (9 bp):
TTATGTAAG
Found at i:33108074 original size:32 final size:32
Alignment explanation
Indices: 33108037--33108184 Score: 111
Period size: 32 Copynumber: 4.5 Consensus size: 32
33108027 TTATGTAAGC
* * *
33108037 TATGTAAGTTGTATTTTATGTTAGCTATTTAT
1 TATGTAAGTTGTATATTATGTAAGCTATGTAT
*
33108069 TATGTAAGTTGTGTATTATGTAAGCTATGTAT
1 TATGTAAGTTGTATATTATGTAAGCTATGTAT
* * * *
33108101 TATGTTAGTTATGTCTGTTATGT-A-TTATGTAT
1 TATGTAAG-T-TGTATATTATGTAAGCTATGTAT
* **
33108133 GTCATGTAAGTTGTGTAGAATGTAAGCTATGTAAGT
1 -T-ATGTAAGTTGTATATTATGTAAGCTATGT-A-T
* *
33108169 TATGTGAGTTATATAT
1 TATGTAAGTTGTATAT
33108185 AAGTTATCTT
Statistics
Matches: 90, Mismatches: 18, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
32 50 0.56
33 5 0.06
34 32 0.36
35 2 0.02
36 1 0.01
ACGTcount: A:0.27, C:0.03, G:0.21, T:0.49
Consensus pattern (32 bp):
TATGTAAGTTGTATATTATGTAAGCTATGTAT
Found at i:33108112 original size:25 final size:25
Alignment explanation
Indices: 33107995--33108173 Score: 116
Period size: 25 Copynumber: 7.2 Consensus size: 25
33107985 GCCTGGAAAT
* *
33107995 TTATGTATTATATAAGTTATGTAAG
1 TTATGTATTATGTTAGTTATGTAAG
* * *
33108020 TTACGTATTATGTAAGCTATGTAAG
1 TTATGTATTATGTTAGTTATGTAAG
* * * * *
33108045 TTGTATTTTATGTTAGCTAT-TTA-
1 TTATGTATTATGTTAGTTATGTAAG
*
33108068 TTATGTAAGT-TGTGTA-TTATGTAAG
1 TTATGT-ATTATGT-TAGTTATGTAAG
* **
33108093 CTATGTATTATGTTAGTTATGTCTG
1 TTATGTATTATGTTAGTTATGTAAG
*
33108118 TTATGTATTATG-TATGTCATGTAAG
1 TTATGTATTATGTTA-GTTATGTAAG
* ** * *
33108143 TTGTGTAGAATGTAAGCTATGTAAG
1 TTATGTATTATGTTAGTTATGTAAG
33108168 TTATGT
1 TTATGT
33108174 GAGTTATATA
Statistics
Matches: 116, Mismatches: 30, Indels: 16
0.72 0.19 0.10
Matches are distributed among these distances:
23 10 0.09
24 13 0.11
25 92 0.79
26 1 0.01
ACGTcount: A:0.28, C:0.04, G:0.20, T:0.48
Consensus pattern (25 bp):
TTATGTATTATGTTAGTTATGTAAG
Found at i:33108114 original size:16 final size:16
Alignment explanation
Indices: 33108011--33108105 Score: 78
Period size: 16 Copynumber: 6.4 Consensus size: 16
33108001 ATTATATAAG
* *
33108011 TTATGTAAGTTACGTA
1 TTATGTAAGCTATGTA
33108027 TTATGTAAGCTATGTA
1 TTATGTAAGCTATGTA
*
33108043 --A-GT-TG-TAT-T-
1 TTATGTAAGCTATGTA
* *
33108052 TTATGTTAGCTATTTA
1 TTATGTAAGCTATGTA
* *
33108068 TTATGTAAGTTGTGTA
1 TTATGTAAGCTATGTA
33108084 TTATGTAAGCTATGTA
1 TTATGTAAGCTATGTA
33108100 TTATGT
1 TTATGT
33108106 TAGTTATGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
10 1 0.02
11 4 0.06
12 3 0.05
13 3 0.05
14 4 0.06
15 1 0.02
16 46 0.74
ACGTcount: A:0.27, C:0.04, G:0.19, T:0.49
Consensus pattern (16 bp):
TTATGTAAGCTATGTA
Found at i:33108260 original size:25 final size:25
Alignment explanation
Indices: 33108200--33108289 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
33108190 ATCTTAATAA
* *
33108200 TTATATAAGCTATGTATTATGT-TAG
1 TTATGTAAGTTATGTATTATGTAT-G
**
33108225 TTATGCCAGTTATGTATTATGTATG
1 TTATGTAAGTTATGTATTATGTATG
* ** *
33108250 TTATGTAAGTTGTGTAGAATGTAAG
1 TTATGTAAGTTATGTATTATGTATG
*
33108275 CTATGTAAGTTATGT
1 TTATGTAAGTTATGT
33108290 TAGAAATTTT
Statistics
Matches: 52, Mismatches: 12, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
25 51 0.98
26 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.21, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTATGTATG
Found at i:33108326 original size:20 final size:20
Alignment explanation
Indices: 33108298--33108408 Score: 106
Period size: 20 Copynumber: 5.8 Consensus size: 20
33108288 GTTAGAAATT
*
33108298 TTATATTAATATTATATAAG
1 TTATCTTAATATTATATAAG
33108318 TTATCTTAATAATTATATAAG
1 TTATCTTAAT-ATTATATAAG
* *
33108339 TTAT-GT-A-ATTAGA-AA-
1 TTATCTTAATATTATATAAG
* * *
33108354 TTTTCATAATACTATATAAG
1 TTATCTTAATATTATATAAG
*
33108374 TAATCTTAATATTATATAAG
1 TTATCTTAATATTATATAAG
*
33108394 TTATCTTAATTTTAT
1 TTATCTTAATATTAT
33108409 GTAATTAGAA
Statistics
Matches: 72, Mismatches: 13, Indels: 12
0.74 0.13 0.12
Matches are distributed among these distances:
15 3 0.04
16 3 0.04
17 6 0.08
18 4 0.06
19 3 0.04
20 39 0.54
21 14 0.19
ACGTcount: A:0.41, C:0.05, G:0.05, T:0.49
Consensus pattern (20 bp):
TTATCTTAATATTATATAAG
Found at i:33108404 original size:56 final size:58
Alignment explanation
Indices: 33108289--33108397 Score: 170
Period size: 56 Copynumber: 1.9 Consensus size: 58
33108279 GTAAGTTATG
* * *
33108289 TTAGAAATTTTATATTAATATTATATAAGTTATCTTAATAATTATATAAGTTATGTAA
1 TTAGAAATTTTACATTAATACTATATAAGTAATCTTAATAATTATATAAGTTATGTAA
33108347 TTAGAAATTTT-CA-TAATACTATATAAGTAATCTTAAT-ATTATATAAGTTAT
1 TTAGAAATTTTACATTAATACTATATAAGTAATCTTAATAATTATATAAGTTAT
33108398 CTTAATTTTA
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
55 14 0.29
56 22 0.46
57 1 0.02
58 11 0.23
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (58 bp):
TTAGAAATTTTACATTAATACTATATAAGTAATCTTAATAATTATATAAGTTATGTAA
Found at i:33111241 original size:15 final size:15
Alignment explanation
Indices: 33111214--33111278 Score: 55
Period size: 14 Copynumber: 4.4 Consensus size: 15
33111204 ACCCTTGACA
33111214 CCCTAAA-CACTAAAT
1 CCCTAAATC-CTAAAT
* *
33111229 CCCTAACTCCT-AAC
1 CCCTAAATCCTAAAT
*
33111243 CCCTAAATCCCAAA-
1 CCCTAAATCCTAAAT
*
33111257 CCCCAAATCCCTAAAT
1 CCCTAAAT-CCTAAAT
33111273 CCCTAA
1 CCCTAA
33111279 CACCTAACCC
Statistics
Matches: 39, Mismatches: 7, Indels: 7
0.74 0.13 0.13
Matches are distributed among these distances:
14 18 0.46
15 15 0.38
16 6 0.15
ACGTcount: A:0.38, C:0.43, G:0.00, T:0.18
Consensus pattern (15 bp):
CCCTAAATCCTAAAT
Found at i:33111248 original size:22 final size:22
Alignment explanation
Indices: 33111223--33111293 Score: 88
Period size: 22 Copynumber: 3.2 Consensus size: 22
33111213 ACCCTAAACA
*
33111223 CTAAATCCCTAACTCCTAACCC
1 CTAAATCCCTAACACCTAACCC
* * * *
33111245 CTAAATCCCAAACCCCAAATCC
1 CTAAATCCCTAACACCTAACCC
33111267 CTAAATCCCTAACACCTAACCC
1 CTAAATCCCTAACACCTAACCC
*
33111289 TTAAA
1 CTAAA
33111294 CCAATAAACC
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.38, C:0.42, G:0.00, T:0.20
Consensus pattern (22 bp):
CTAAATCCCTAACACCTAACCC
Found at i:33111862 original size:41 final size:41
Alignment explanation
Indices: 33111798--33111953 Score: 242
Period size: 41 Copynumber: 3.8 Consensus size: 41
33111788 AAATGTTTTT
* *
33111798 GCGGCGTTTCTTCAAAAGCGCCGCTAAAGGCCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA
* *
33111839 GCGGTGCTTCTTTAAAAACGCCGCTAAAGGCCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA
*
33111880 GCGGCGCTTCGTCAAAAACGCCGCTAAAGGCCCGAGCATTA
1 GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA
*
33111921 GTGGCGCTTCTTCAAAAACGCCAG-TAAAGGCCC
1 GCGGCGCTTCTTCAAAAACGCC-GCTAAAGGCCC
33111954 CCAAAACTCA
Statistics
Matches: 105, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
41 104 0.99
42 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.19
Consensus pattern (41 bp):
GCGGCGCTTCTTCAAAAACGCCGCTAAAGGCCCGAGCATTA
Found at i:33112037 original size:39 final size:38
Alignment explanation
Indices: 33111989--33112063 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 38
33111979 GGGCTTAGGC
33111989 TTTTTGCGGCGCTTTCCAAAAAACGCCGCTAATGCTTA
1 TTTTTGCGGCGCTTTCCAAAAAACGCCGCTAATGCTTA
* * * *
33112027 TTTTTAGCGGCGTTTTCCAACAATCGCTGCTAATGCT
1 TTTTT-GCGGCGCTTTCCAAAAAACGCCGCTAATGCT
33112064 CAACCTTTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
38 5 0.16
39 27 0.84
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (38 bp):
TTTTTGCGGCGCTTTCCAAAAAACGCCGCTAATGCTTA
Found at i:33112454 original size:22 final size:22
Alignment explanation
Indices: 33112429--33112470 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
33112419 TATATTCATC
33112429 TCACAAAAGAATTTGAAAATGA
1 TCACAAAAGAATTTGAAAATGA
* **
33112451 TCACCAAAGTTTTTGAAAAT
1 TCACAAAAGAATTTGAAAAT
33112471 AAATTATTAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.12, G:0.12, T:0.29
Consensus pattern (22 bp):
TCACAAAAGAATTTGAAAATGA
Found at i:33113373 original size:23 final size:22
Alignment explanation
Indices: 33113333--33113375 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
33113323 TATAAGCATA
* *
33113333 TTGTTTAGCCAATGGAGTTGGT
1 TTGTTTACCCAATCGAGTTGGT
33113355 TTGTTTGACCCAATCGAGTTG
1 TTGTTT-ACCCAATCGAGTTG
33113376 TATTTGGTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.19, C:0.14, G:0.28, T:0.40
Consensus pattern (22 bp):
TTGTTTACCCAATCGAGTTGGT
Found at i:33117129 original size:20 final size:19
Alignment explanation
Indices: 33117083--33117129 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
33117073 TTTAAAGAAG
33117083 TTTGAATTTTTATAAATAT
1 TTTGAATTTTTATAAATAT
*
33117102 TTTAAATTTTTA-AAATTTAT
1 TTTGAATTTTTATAAA--TAT
33117122 TTTGAATT
1 TTTGAATT
33117130 ATTTTGTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 3 0.12
19 11 0.46
20 10 0.42
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTGAATTTTTATAAATAT
Found at i:33120953 original size:18 final size:18
Alignment explanation
Indices: 33120922--33120972 Score: 66
Period size: 18 Copynumber: 2.8 Consensus size: 18
33120912 TAAATGATAT
*
33120922 TTTTATTAAATAATAATG
1 TTTTATTAAATAATAATA
* *
33120940 TTTTAATAAGTAATAATA
1 TTTTATTAAATAATAATA
*
33120958 TTTTATTAATTAATA
1 TTTTATTAAATAATA
33120973 TTATAACACA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (18 bp):
TTTTATTAAATAATAATA
Found at i:33126360 original size:38 final size:38
Alignment explanation
Indices: 33126301--33126405 Score: 156
Period size: 38 Copynumber: 2.8 Consensus size: 38
33126291 AATTGGTACG
* **
33126301 TAAAGTGCATCTTGACGCACAAAGCGCATACTGGCACA
1 TAAAGTACATCTTGAAACACAAAGCGCATACTGGCACA
*
33126339 TGAAGTACATCTTGAAACACAAAGCGCATACTGGCACA
1 TAAAGTACATCTTGAAACACAAAGCGCATACTGGCACA
* *
33126377 TAAATTACATCTTGAAACACAAAGTGCAT
1 TAAAGTACATCTTGAAACACAAAGCGCAT
33126406 CTTAACACAA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.39, C:0.23, G:0.17, T:0.21
Consensus pattern (38 bp):
TAAAGTACATCTTGAAACACAAAGCGCATACTGGCACA
Found at i:33126408 original size:19 final size:19
Alignment explanation
Indices: 33126341--33126425 Score: 77
Period size: 19 Copynumber: 4.6 Consensus size: 19
33126331 CTGGCACATG
*
33126341 AAGTACATCTTGAAACACA
1 AAGTGCATCTTGAAACACA
* ** *
33126360 AAGCGCATAC-TGGCACATA
1 AAGTGCAT-CTTGAAACACA
* *
33126379 AATTACATCTTGAAACACA
1 AAGTGCATCTTGAAACACA
33126398 AAGTGCATCTT--AACACA
1 AAGTGCATCTTGAAACACA
33126415 AAGTGCATCTT
1 AAGTGCATCTT
33126426 AGCGCATGAA
Statistics
Matches: 51, Mismatches: 13, Indels: 6
0.73 0.19 0.09
Matches are distributed among these distances:
17 17 0.33
18 1 0.02
19 32 0.63
20 1 0.02
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.24
Consensus pattern (19 bp):
AAGTGCATCTTGAAACACA
Found at i:33126414 original size:17 final size:17
Alignment explanation
Indices: 33126392--33126426 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
33126382 TACATCTTGA
33126392 AACACAAAGTGCATCTT
1 AACACAAAGTGCATCTT
33126409 AACACAAAGTGCATCTT
1 AACACAAAGTGCATCTT
33126426 A
1 A
33126427 GCGCATGAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.43, C:0.23, G:0.11, T:0.23
Consensus pattern (17 bp):
AACACAAAGTGCATCTT
Found at i:33126495 original size:58 final size:57
Alignment explanation
Indices: 33126410--33126557 Score: 170
Period size: 58 Copynumber: 2.6 Consensus size: 57
33126400 GTGCATCTTA
* * * * * * *
33126410 ACACAAAGTGCATCTTAGCGCATGAAGCGCATATCTGGCACATGAACTGTATCTTAAC
1 ACACAAAGTGCATCTTGGAGCA-GAAGCGCATATATGGCAAACGAACTGCATCCTAAC
* *
33126468 ACACAAAGTGCATCTTGGAGCACGAAGCGCATATATGGCAAACGAAGTGCATCCTAGC
1 ACACAAAGTGCATCTTGGAGCA-GAAGCGCATATATGGCAAACGAACTGCATCCTAAC
* * *
33126526 ACACGAGGTGCATCTTGGAGCATAAGCGCATA
1 ACACAAAGTGCATCTTGGAGCAGAAGCGCATA
33126558 ATCCCATACA
Statistics
Matches: 77, Mismatches: 13, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
57 9 0.12
58 68 0.88
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.20
Consensus pattern (57 bp):
ACACAAAGTGCATCTTGGAGCAGAAGCGCATATATGGCAAACGAACTGCATCCTAAC
Found at i:33127952 original size:11 final size:11
Alignment explanation
Indices: 33127908--33127967 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
33127898 CTAAAAAATT
33127908 AAATTAAATTAA
1 AAATT-AATTAA
*
33127920 AAATCAA-TAA
1 AAATTAATTAA
**
33127930 AAATATTTTTAA
1 AAAT-TAATTAA
33127942 AAATTAATTAA
1 AAATTAATTAA
33127953 AAATTAA--AA
1 AAATTAATTAA
33127962 AAATTA
1 AAATTA
33127968 TAAACTAACA
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
9 8 0.20
10 7 0.17
11 14 0.35
12 11 0.28
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATTAATTAA
Found at i:33129011 original size:17 final size:17
Alignment explanation
Indices: 33128971--33129021 Score: 59
Period size: 17 Copynumber: 3.0 Consensus size: 17
33128961 TGGTGAAGGT
* *
33128971 ATGAAGAGAAGATTAAAA
1 ATGAAAAGAA-ATAAAAA
*
33128989 AGGAAAAGAAATAAAAA
1 ATGAAAAGAAATAAAAA
33129006 ATGAAAAGAAA-AAAAA
1 ATGAAAAGAAATAAAAA
33129022 TTAACGAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
16 5 0.17
17 16 0.55
18 8 0.28
ACGTcount: A:0.73, C:0.00, G:0.18, T:0.10
Consensus pattern (17 bp):
ATGAAAAGAAATAAAAA
Found at i:33129129 original size:21 final size:22
Alignment explanation
Indices: 33129095--33129143 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
33129085 AGTTTATAAT
33129095 TTTTTATTTAATTT-TAAAAATA
1 TTTTTATTTAATTTAT-AAAATA
* *
33129117 TTTTTA-TTGATTTATAATATA
1 TTTTTATTTAATTTATAAAATA
33129138 TTTTTA
1 TTTTTA
33129144 GATTATGACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (22 bp):
TTTTTATTTAATTTATAAAATA
Found at i:33130520 original size:30 final size:31
Alignment explanation
Indices: 33130466--33130533 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
33130456 TAGCTTAAAT
* *
33130466 TTTTAT-AATTTTAAAAGGATTAAATCAAAA
1 TTTTATCATTTTTAAAAGGACTAAATCAAAA
* *
33130496 TTTTATCATTTTTAAAAGG-CTAAATTATAA
1 TTTTATCATTTTTAAAAGGACTAAATCAAAA
33130526 -TTTATCAT
1 TTTTATCAT
33130534 ATACTATTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.24
30 14 0.42
31 11 0.33
ACGTcount: A:0.43, C:0.06, G:0.06, T:0.46
Consensus pattern (31 bp):
TTTTATCATTTTTAAAAGGACTAAATCAAAA
Found at i:33130928 original size:17 final size:17
Alignment explanation
Indices: 33130901--33130940 Score: 71
Period size: 17 Copynumber: 2.3 Consensus size: 17
33130891 TGACTTTTTG
33130901 AGAGAAGAGATGAAAGAA
1 AGAG-AGAGATGAAAGAA
33130919 AGAGAGAGATGAAAGAA
1 AGAGAGAGATGAAAGAA
33130936 AGAGA
1 AGAGA
33130941 TGGTCTCAAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.60, C:0.00, G:0.35, T:0.05
Consensus pattern (17 bp):
AGAGAGAGATGAAAGAA
Found at i:33133260 original size:20 final size:20
Alignment explanation
Indices: 33133232--33133286 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
33133222 AAAAACTACC
**
33133232 AAAATAATTCAAAATAAATTT
1 AAAA-AATTCAAAATAAATAG
* *
33133253 CAAAAATTCAAAATATATAG
1 AAAAAATTCAAAATAAATAG
33133273 AAAAAATTCAAAAT
1 AAAAAATTCAAAAT
33133287 TTATATTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
20 26 0.90
21 3 0.10
ACGTcount: A:0.64, C:0.07, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAAATTCAAAATAAATAG
Found at i:33133291 original size:20 final size:20
Alignment explanation
Indices: 33133254--33133291 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
33133244 AATAAATTTC
33133254 AAAAATTCAAAATATATAGA
1 AAAAATTCAAAATATATAGA
*
33133274 AAAAATTCAAAATTTATA
1 AAAAATTCAAAATATATA
33133292 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.29
Consensus pattern (20 bp):
AAAAATTCAAAATATATAGA
Done.