Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold414
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: 2018024
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 3 of 13
Found at i:338879 original size:3 final size:3
Alignment explanation
Indices: 338871--338902 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
338861 CGAGTCAACT
338871 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
338903 TCCATTATCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:342297 original size:42 final size:42
Alignment explanation
Indices: 342158--342299 Score: 128
Period size: 42 Copynumber: 3.4 Consensus size: 42
342148 AGGGGATAAG
* * * *
342158 GGTTTACCAGGGACAAAGCCAACAGGTAAACAACGGATG-AA
1 GGTTGACCAAGGACTAAGCCAACAGGTAAACAAAGGATGAAA
* * *
342199 GGTTGACCAAAGACTAAGCTAACAGGTTAACAAAGGATGAGAA
1 GGTTGACCAAGGACTAAGCCAACAGGTAAACAAAGGATGA-AA
* *** * *
342242 -GTTTACTGTGGACTGAA-CCAATAGGTAAACAATGGATGAAA
1 GGTTGACCAAGGACT-AAGCCAACAGGTAAACAAAGGATGAAA
342283 GGTTGACCAAGGACTAA
1 GGTTGACCAAGGACTAA
342300 ACTGACGAGT
Statistics
Matches: 77, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
41 36 0.47
42 37 0.48
43 4 0.05
ACGTcount: A:0.41, C:0.15, G:0.26, T:0.18
Consensus pattern (42 bp):
GGTTGACCAAGGACTAAGCCAACAGGTAAACAAAGGATGAAA
Found at i:342586 original size:84 final size:83
Alignment explanation
Indices: 342017--342651 Score: 422
Period size: 84 Copynumber: 7.6 Consensus size: 83
342007 GAGCCGACAA
* * * * * * *
342017 GTAAACAATGAGATAAAGGTTGACTGGAGACTGAGTTGACAGGTCACCATAGGGGTAATAGGTTT
1 GTAAACAAAG-GATGAAGGTTGACCGGAGACTAAGCTGACAGGTCACCAAAGGGATAA-AGGTTT
* *
342082 ACCGGGGATTAAGCCAATAG
64 ACCGAGGACTAAGCCAATAG
* * * * * *
342102 GTAAACAATGGATGAAGGATTGACCGGGGA-T-A--TAAACAAGTCACCAAGGGGATAAGGGTTT
1 GTAAACAAAGGATGAAGG-TTGACCGGAGACTAAGCT-GACAGGTCACCAAAGGGATAAAGGTTT
* *
342163 ACC-AGGGACAAAGCCAACAG
64 ACCGA-GGACTAAGCCAATAG
* ** * * *
342183 GTAAACAACGGATGAAGGTTGACCAAAGACTAAGCTAACAGGTTAACAAA-GGATGAGAA-GTTT
1 GTAAACAAAGGATGAAGGTTGACCGGAGACTAAGCTGACAGGTCACCAAAGGGAT-A-AAGGTTT
* *
342246 ACTGTGGACTGAA-CCAATAG
64 ACCGAGGACT-AAGCCAATAG
* * * *
342266 GTAAACAATGGATGAAAGGTTGACC-AAGGACTAAACTGAC-GAGTCA-CTAAGAGGATAAAGGT
1 GTAAACAAAGGATG-AAGGTTGACCGGA-GACTAAGCTGACAG-GTCACCAAAG-GGATAAAGGT
* * **
342328 TTACCGAAGACTGAGCTGATAG
62 TTACCGAGGACTAAGCCAATAG
* * * * * *
342350 GTAAACAAAGGATAAAGGTTGACTGGAGATTGAGTTGACAGGTCA--ATAAGGGATGAAGGGTTT
1 GTAAACAAAGGATGAAGGTTGACCGGAGACTAAGCTGACAGGTCACCA-AAGGGAT-AAAGGTTT
* * *
342413 ACCG-GAGATTAAGCCGACAG
64 ACCGAG-GACTAAGCCAATAG
* * * * * * *
342433 TTAAATAAGGGATGAAGGGTTGACCGGGGACTAAGTTGACAAGTCACCATAGGTG-TAAAAGGTT
1 GTAAACAAAGGATGAA-GGTTGACCGGAGACTAAGCTGACAGGTCACCAAAGG-GAT-AAAGGTT
342497 TACCGAGGACTAAGCCAATAG
63 TACCGAGGACTAAGCCAATAG
** * * * *
342518 GTAAACAAAGGATGAAGGTTGATTGAAGACTGAGCTGATAGGTCACCAAAGGGATAAAGGGATTA
1 GTAAACAAAGGATGAAGGTTGACCGGAGACTAAGCTGACAGGTCACCAAAGGGATAAA-GGTTTA
*
342583 CCGAGGACTAAGCTAATAG
65 CCGAGGACTAAGCCAATAG
* *
342602 GTAAACCACAA-GATGAAGGGTTGACCGGGGACTAAG-TCGATAGGTCACCA
1 GTAAA-CA-AAGGATGAA-GGTTGACCGGAGACTAAGCT-GACAGGTCACCA
342652 TAGGTGGGAA
Statistics
Matches: 430, Mismatches: 86, Indels: 67
0.74 0.15 0.11
Matches are distributed among these distances:
80 8 0.02
81 39 0.09
82 25 0.06
83 111 0.26
84 146 0.34
85 71 0.17
86 30 0.07
ACGTcount: A:0.37, C:0.14, G:0.29, T:0.19
Consensus pattern (83 bp):
GTAAACAAAGGATGAAGGTTGACCGGAGACTAAGCTGACAGGTCACCAAAGGGATAAAGGTTTAC
CGAGGACTAAGCCAATAG
Found at i:342621 original size:43 final size:43
Alignment explanation
Indices: 342496--342637 Score: 127
Period size: 43 Copynumber: 3.3 Consensus size: 43
342486 TGTAAAAGGT
*
342496 TTACCGAGGACTAAGCCAATAGGTAAA-CAAAGGATGAAGGTTGA
1 TTACCGAGGACTAAGCTAATAGGTAAACCAAAGGATGAAGG--GA
* * * * *
342540 TT---GAAGACTGAGCTGATAGGT-CACCAAAGGGATAAAGGGA
1 TTACCGAGGACTAAGCTAATAGGTAAACCAAA-GGATGAAGGGA
342580 TTACCGAGGACTAAGCTAATAGGTAAACCACAA-GATGAAGGG-
1 TTACCGAGGACTAAGCTAATAGGTAAACCA-AAGGATGAAGGGA
*
342622 TTGACCGGGGACTAAG
1 TT-ACCGAGGACTAAG
342638 TCGATAGGTC
Statistics
Matches: 78, Mismatches: 12, Indels: 17
0.73 0.11 0.16
Matches are distributed among these distances:
40 5 0.06
41 19 0.24
42 10 0.13
43 36 0.46
44 6 0.08
45 2 0.03
ACGTcount: A:0.38, C:0.15, G:0.30, T:0.18
Consensus pattern (43 bp):
TTACCGAGGACTAAGCTAATAGGTAAACCAAAGGATGAAGGGA
Found at i:343096 original size:85 final size:85
Alignment explanation
Indices: 342847--343184 Score: 423
Period size: 85 Copynumber: 4.0 Consensus size: 85
342837 AAAATCTATT
* * * *
342847 GGGTCTAAGCCGACAGGCAGACAAA-AGATAAAGAAGTCTCTTG-GATCTAAGTCGATGGGTAGA
1 GGGTCTAAGCCGACAGGCAAACAAAGAGATGAAGAAGTCTCTCGAG-TCTAAGTCGACGGGTAGA
* *
342910 CAAAGGATGAAGAAGTCTCTT
65 CAAAAGATGAAGAAGTCTCTC
* * * * * *
342931 GAGTCTAAGTCGACGGGTAGACAAAG-GATGAAGAAGTCTCTCGGGTCTAAGTCGACGGGTAGAC
1 GGGTCTAAGCCGACAGGCAAACAAAGAGATGAAGAAGTCTCTCGAGTCTAAGTCGACGGGTAGAC
*
342995 AAAGGATGAAGAAGTCTCTC
66 AAAAGATGAAGAAGTCTCTC
* * * *
343015 GGGTCTAAGCCTACGGGCAAACAAAGAGATGAAGAAGTCTATCGAGTCTAAG-CTGACGGGCAGA
1 GGGTCTAAGCCGACAGGCAAACAAAGAGATGAAGAAGTCTCTCGAGTCTAAGTC-GACGGGTAGA
* *
343079 CAAAAAATGAAGAAGTCTCTT
65 CAAAAGATGAAGAAGTCTCTC
* * * *
343100 GGGTCTGAGCCGACAGACAAACAAAAAGATGAAGAAGTCTCTCGAGTCTAAGCCGACGGGTAGAC
1 GGGTCTAAGCCGACAGGCAAACAAAGAGATGAAGAAGTCTCTCGAGTCTAAGTCGACGGGTAGAC
343165 AAAAGATGAAGAAGTCTCTC
66 AAAAGATGAAGAAGTCTCTC
343185 AAGTTTGAGG
Statistics
Matches: 221, Mismatches: 28, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
84 95 0.43
85 125 0.57
86 1 0.00
ACGTcount: A:0.36, C:0.17, G:0.29, T:0.18
Consensus pattern (85 bp):
GGGTCTAAGCCGACAGGCAAACAAAGAGATGAAGAAGTCTCTCGAGTCTAAGTCGACGGGTAGAC
AAAAGATGAAGAAGTCTCTC
Found at i:343184 original size:42 final size:42
Alignment explanation
Indices: 342705--343184 Score: 387
Period size: 42 Copynumber: 11.4 Consensus size: 42
342695 GTAAATAAAG
* * * *
342705 GATGAAGAAGTCTTTTCGA-TCTGAGTCGACAGGTAGAC-AAA
1 GATGAAGAAGTC-TCTCGAGTCTAAGCCGACGGGTAGACAAAA
* * * **
342746 GAATGAAGAAGTCT-TCTAAGTCTGAA-CTGACGAGTAGATTAAA
1 G-ATGAAGAAGTCTCTC-GAGTCT-AAGCCGACGGGTAGACAAAA
* * * * * * * *
342789 GATGAAGAAGTCTCCCAAGTCCATGTCGACAGGCAGAC-AAG
1 GATGAAGAAGTCTCTCGAGTCTAAGCCGACGGGTAGACAAAA
* * * * * * * *
342830 GAATAAAAAAATCTATTGGGTCTAAGCCGACAGGCAGACAAAA
1 G-ATGAAGAAGTCTCTCGAGTCTAAGCCGACGGGTAGACAAAA
* * * * *
342873 GATAAAGAAGTCTCTTG-GATCTAAGTCGATGGGTAGACAAAG
1 GATGAAGAAGTCTCTCGAG-TCTAAGCCGACGGGTAGACAAAA
* * *
342915 GATGAAGAAGTCTCTTGAGTCTAAGTCGACGGGTAGACAAAG
1 GATGAAGAAGTCTCTCGAGTCTAAGCCGACGGGTAGACAAAA
* * *
342957 GATGAAGAAGTCTCTCGGGTCTAAGTCGACGGGTAGACAAAG
1 GATGAAGAAGTCTCTCGAGTCTAAGCCGACGGGTAGACAAAA
* * * *
342999 GATGAAGAAGTCTCTCGGGTCTAAGCCTACGGGCAAACAAAGA
1 GATGAAGAAGTCTCTCGAGTCTAAGCCGACGGGTAGACAAA-A
* * *
343042 GATGAAGAAGTCTATCGAGTCTAAGCTGACGGGCAGACAAAA
1 GATGAAGAAGTCTCTCGAGTCTAAGCCGACGGGTAGACAAAA
* * * * * ** *
343084 AATGAAGAAGTCTCTTGGGTCTGAGCCGACAGACAAACAAAAA
1 GATGAAGAAGTCTCTCGAGTCTAAGCCGACGGGTAGAC-AAAA
343127 GATGAAGAAGTCTCTCGAGTCTAAGCCGACGGGTAGACAAAA
1 GATGAAGAAGTCTCTCGAGTCTAAGCCGACGGGTAGACAAAA
343169 GATGAAGAAGTCTCTC
1 GATGAAGAAGTCTCTC
343185 AAGTTTGAGG
Statistics
Matches: 358, Mismatches: 68, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
40 2 0.01
41 8 0.02
42 268 0.75
43 80 0.22
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (42 bp):
GATGAAGAAGTCTCTCGAGTCTAAGCCGACGGGTAGACAAAA
Found at i:343209 original size:127 final size:124
Alignment explanation
Indices: 342706--343184 Score: 431
Period size: 126 Copynumber: 3.8 Consensus size: 124
342696 TAAATAAAGG
* * * * * * **
342706 ATGAAGAAGTCTTTTCGATCTGAGTCGACAGGTAGAC-AAAGAATGAAGAAGTCTTCTAAGTCTG
1 ATGAAGAAGTCTCTTGGGTCTAAGCCGACAGGCAGACAAAAG-ATGAAGAAGTC-TCTCGGTCT-
* * ** * * * * * **
342770 AA-CTGACGAGTAGATTAAAGATGAAGAAGTCTCCCAAGTCCATGTCGACAGGCAGACAAGGA
63 AAGCCGACGGGTAGACAAAAGATGAAGAAGTCTCTCGAGTCTA-GGCGACGGGCAGACAAAAA
* * * * * *
342832 ATAAAAAAATCTATTGGGTCTAAGCCGACAGGCAGACAAAAGATAAAGAAGTCTCTTGGATCTAA
1 ATGAAGAAGTCTCTTGGGTCTAAGCCGACAGGCAGACAAAAGATGAAGAAGTCTCTCGG-TCTAA
* * * * * * **
342897 GTCGATGGGTAGACAAAGGATGAAGAAGTCTCTTGAGTCTAAGTCGACGGGTAGACAAAGG
65 GCCGACGGGTAGACAAAAGATGAAGAAGTCTCTCGAGTCT-AGGCGACGGGCAGACAAAAA
* * * * *
342958 ATGAAGAAGTCTCTCGGGTCTAAGTCGACGGGTAGACAAAGGATGAAGAAGTCTCTCGGGTCTAA
1 ATGAAGAAGTCTCTTGGGTCTAAGCCGACAGGCAGACAAAAGATGAAGAAGTCTCTC-GGTCTAA
* * * * *
343023 GCCTACGGGCAAACAAAGAGATGAAGAAGTCTATCGAGTCTAAGCTGACGGGCAGACAAAAA
65 GCCGACGGGTAGACAAA-AGATGAAGAAGTCTCTCGAGTCTAGGC-GACGGGCAGACAAAAA
* * *
343085 ATGAAGAAGTCTCTTGGGTCTGAGCCGACAGACAAACAAAAAGATGAAGAAGTCTCTCGAGTCTA
1 ATGAAGAAGTCTCTTGGGTCTAAGCCGACAGGCAGAC-AAAAGATGAAGAAGTCTCTCG-GTCTA
343150 AGCCGACGGGTAGACAAAAGATGAAGAAGTCTCTC
64 AGCCGACGGGTAGACAAAAGATGAAGAAGTCTCTC
343185 AAGTTTGAGG
Statistics
Matches: 281, Mismatches: 63, Indels: 17
0.78 0.17 0.05
Matches are distributed among these distances:
125 6 0.02
126 149 0.53
127 87 0.31
128 39 0.14
ACGTcount: A:0.37, C:0.17, G:0.27, T:0.19
Consensus pattern (124 bp):
ATGAAGAAGTCTCTTGGGTCTAAGCCGACAGGCAGACAAAAGATGAAGAAGTCTCTCGGTCTAAG
CCGACGGGTAGACAAAAGATGAAGAAGTCTCTCGAGTCTAGGCGACGGGCAGACAAAAA
Found at i:344258 original size:89 final size:88
Alignment explanation
Indices: 344154--344358 Score: 232
Period size: 89 Copynumber: 2.3 Consensus size: 88
344144 TAAATGCACA
* * * *
344154 TGAAATGATGTAAATGCAAGCATCAATAAAATGGAAAATGCATAT-GAGATGATGCAAATATCAA
1 TGAAATGATGCAAATGCAAGCATCAATAAAAGGGAAAATGCATATGGA-ATAATCCAAATA-CAA
* * *
344218 ACATCATCTAAAGTGCAGATGTATG
64 ACATCATCTAAAATGCAGATGCAAG
* * * * * * *
344243 TGAAATAATGCAAATGCAAACATCAACATAAGGGCAAATGCATATGGAATAATCCAAATACCAAT
1 TGAAATGATGCAAATGCAAGCATCAATAAAAGGGAAAATGCATATGGAATAATCCAAATACAAAC
* *
344308 GTTATCTAAAATGCAGATGCAAG
66 ATCATCTAAAATGCAGATGCAAG
*
344331 TGAAACGATGCAAATGCAAGCATCAATA
1 TGAAATGATGCAAATGCAAGCATCAATA
344359 GGAAGACAAA
Statistics
Matches: 95, Mismatches: 20, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
88 45 0.47
89 48 0.51
90 2 0.02
ACGTcount: A:0.46, C:0.14, G:0.18, T:0.22
Consensus pattern (88 bp):
TGAAATGATGCAAATGCAAGCATCAATAAAAGGGAAAATGCATATGGAATAATCCAAATACAAAC
ATCATCTAAAATGCAGATGCAAG
Found at i:344294 original size:44 final size:44
Alignment explanation
Indices: 344145--344301 Score: 127
Period size: 44 Copynumber: 3.5 Consensus size: 44
344135 CTAATGGTGT
* * * * * * * *
344145 AAATGCACATGAAATGATGTAAATGCAAGCATCAATAAAATGGA
1 AAATGCATATGAAATAATGCAAATGCAAACATCAACATAAGGGC
* * * * *
344189 AAATGCATATGAGATGATGCAAATATCAAACATCATC-TAAAGTGC
1 AAATGCATATGAAATAATGCAAAT-GCAAACATCAACAT-AAGGGC
* * *
344234 AGATGTATGTGAAATAATGCAAATGCAAACATCAACATAAGGGC
1 AAATGCATATGAAATAATGCAAATGCAAACATCAACATAAGGGC
* *
344278 AAATGCATATGGAATAATCCAAAT
1 AAATGCATATGAAATAATGCAAAT
344302 ACCAATGTTA
Statistics
Matches: 86, Mismatches: 24, Indels: 6
0.74 0.21 0.05
Matches are distributed among these distances:
44 55 0.64
45 31 0.36
ACGTcount: A:0.47, C:0.13, G:0.17, T:0.22
Consensus pattern (44 bp):
AAATGCATATGAAATAATGCAAATGCAAACATCAACATAAGGGC
Found at i:344389 original size:88 final size:88
Alignment explanation
Indices: 344154--344404 Score: 238
Period size: 88 Copynumber: 2.8 Consensus size: 88
344144 TAAATGCACA
* * *
344154 TGAAATGATGTAAATGCAAGCATCAATAAAATGGA-AAATGCATATGAGATGATGCAAATATCAA
1 TGAAATGATGCAAATGCAAGCATCAATAAAA-GGACAAATGCATATGAAAAGATGCAAATA-CAA
** * * * *
344218 ACATCATCTAAAGTGCAGATGTATG
64 ATGTAATCTAAAATGCAGATGCAAG
* * * * * * * *
344243 TGAAATAATGCAAATGCAAACATCAACATAAGGGCAAATGCATATGGAATA-ATCCAAATACCAA
1 TGAAATGATGCAAATGCAAGCATCAATAAAAGGACAAATGCATAT-GAAAAGATGCAAATACAAA
*
344307 TGTTATCTAAAATGCAGATGCAAG
65 TGTAATCTAAAATGCAGATGCAAG
* * * * *
344331 TGAAACGATGCAAATGCAAGCATCAATAGGAA-GACAAAAGCATATGAAAAGATGCAAATGCTAA
1 TGAAATGATGCAAATGCAAGCATCAATA-AAAGGACAAATGCATATGAAAAGATGCAAATACAAA
344395 TGTAATCTAA
65 TGTAATCTAA
344405 TCCCAATTTA
Statistics
Matches: 129, Mismatches: 29, Indels: 9
0.77 0.17 0.05
Matches are distributed among these distances:
87 4 0.03
88 77 0.60
89 46 0.36
90 2 0.02
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.22
Consensus pattern (88 bp):
TGAAATGATGCAAATGCAAGCATCAATAAAAGGACAAATGCATATGAAAAGATGCAAATACAAAT
GTAATCTAAAATGCAGATGCAAG
Found at i:345503 original size:11 final size:10
Alignment explanation
Indices: 345477--345589 Score: 59
Period size: 10 Copynumber: 10.6 Consensus size: 10
345467 TTTCCTCATC
345477 TTTTTTCTTT
1 TTTTTTCTTT
345487 CATTTTTCTCTTTT
1 --TTTTT-TC-TTT
345501 TTTTTGTACTTT
1 TTTTT-T-CTTT
*
345513 CTTTTTCATTT
1 TTTTTTC-TTT
*
345524 GATTTTTCTTT
1 -TTTTTTCTTT
*
345535 CTTTTTCTTT
1 TTTTTTCTTT
345545 TTTTTT-TCTT
1 TTTTTTCT-TT
* *
345555 TTTCTTCTTG
1 TTTTTTCTTT
*
345565 TTTTGT-TTT
1 TTTTTTCTTT
* *
345574 TTTTTTGTTG
1 TTTTTTCTTT
345584 TTTTTT
1 TTTTTT
345590 ATATAGAGAA
Statistics
Matches: 81, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
9 8 0.10
10 35 0.43
11 8 0.10
12 24 0.30
13 3 0.04
14 3 0.04
ACGTcount: A:0.04, C:0.12, G:0.05, T:0.80
Consensus pattern (10 bp):
TTTTTTCTTT
Found at i:345552 original size:17 final size:17
Alignment explanation
Indices: 345526--345579 Score: 65
Period size: 17 Copynumber: 3.2 Consensus size: 17
345516 TTTCATTTGA
*
345526 TTTTTCTTTCTTTTTCT
1 TTTTTTTTTCTTTTTCT
345543 TTTTTTTTTCTTTTTCT
1 TTTTTTTTTCTTTTTCT
* * *
345560 TCTTGTTTTGTTTTT-T
1 TTTTTTTTTCTTTTTCT
345576 TTTT
1 TTTT
345580 GTTGTTTTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 4 0.12
17 28 0.88
ACGTcount: A:0.00, C:0.11, G:0.04, T:0.85
Consensus pattern (17 bp):
TTTTTTTTTCTTTTTCT
Found at i:345574 original size:6 final size:6
Alignment explanation
Indices: 345475--345560 Score: 56
Period size: 6 Copynumber: 14.7 Consensus size: 6
345465 TATTTCCTCA
* * * *
345475 TCTTTT T-TCTT TCATTTT TCTCTTT T-TTTT TGTACTT TCTTTT TCATTT
1 TCTTTT TCTTTT TC-TTTT TCT-TTT TCTTTT TCT-TTT TCTTTT TCTTTT
**
345524 GATTTT TC--TT TCTTTT TCTTTT T-TTTT TCTTTT TCTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTT
345561 CTTGTTTTGT
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
4 4 0.07
5 13 0.21
6 31 0.51
7 13 0.21
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.78
Consensus pattern (6 bp):
TCTTTT
Found at i:345575 original size:45 final size:48
Alignment explanation
Indices: 345477--345575 Score: 123
Period size: 45 Copynumber: 2.1 Consensus size: 48
345467 TTTCCTCATC
* *
345477 TTTTTTCTTTCATTTTTCTCTTTTTTTTTGTACTTTCTTTTTCATTTG
1 TTTTTTCTTTCATTTTTCTCTTTTTTTTTCTACTTTCTTCTTCATTTG
* * **
345525 ATTTTTCTTTC-TTTTTCT-TTTTTTTTTCT-TTTTCTTCTTGTTTTG
1 TTTTTTCTTTCATTTTTCTCTTTTTTTTTCTACTTTCTTCTTCATTTG
345570 TTTTTT
1 TTTTTT
345576 TTTTGTTGTT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
45 17 0.39
46 10 0.23
47 7 0.16
48 10 0.23
ACGTcount: A:0.04, C:0.13, G:0.04, T:0.79
Consensus pattern (48 bp):
TTTTTTCTTTCATTTTTCTCTTTTTTTTTCTACTTTCTTCTTCATTTG
Found at i:345579 original size:39 final size:39
Alignment explanation
Indices: 345478--345589 Score: 92
Period size: 39 Copynumber: 2.9 Consensus size: 39
345468 TTCCTCATCT
* **
345478 TTTTTC-TTTCATTTTTCTCTT-TTTTT-TTG-TACTTTC
1 TTTTTCATTTGATTTTTCT-TTCTTTTTCTTGTTTTTTTC
*
345514 TTTTTCATTTGATTTTTCTTTCTTTTTCTTTTTTTTTTC
1 TTTTTCATTTGATTTTTCTTTCTTTTTCTTGTTTTTTTC
* * *
345553 TTTTTCTTCTTG-TTTTGT-TTTTTTTTTGTTGTTTTTT
1 TTTTTCAT-TTGATTTT-TCTTTCTTTTTCTTGTTTTTT
345590 ATATAGAGAA
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
36 8 0.13
37 16 0.26
38 2 0.03
39 32 0.52
40 4 0.06
ACGTcount: A:0.04, C:0.12, G:0.05, T:0.79
Consensus pattern (39 bp):
TTTTTCATTTGATTTTTCTTTCTTTTTCTTGTTTTTTTC
Found at i:353134 original size:8 final size:8
Alignment explanation
Indices: 353121--353216 Score: 79
Period size: 8 Copynumber: 11.6 Consensus size: 8
353111 TTTTAATTTG
353121 ATTTTTTT
1 ATTTTTTT
353129 ATTTTTTTT
1 A-TTTTTTT
353138 ATTTTTTT
1 ATTTTTTT
* *
353146 A--TCTTG
1 ATTTTTTT
353152 ATTTTTTT
1 ATTTTTTT
*
353160 ATTTTTTC
1 ATTTTTTT
*
353168 ATTGATTTTG
1 ATT--TTTTT
353178 ATTTTTTT
1 ATTTTTTT
353186 ATTTTTTT
1 ATTTTTTT
*
353194 CATTTTATT
1 -ATTTTTTT
*
353203 ATTATTTTA
1 ATT-TTTTT
353212 ATTTT
1 ATTTT
353217 ATATCAAAAA
Statistics
Matches: 71, Mismatches: 10, Indels: 14
0.75 0.11 0.15
Matches are distributed among these distances:
6 4 0.06
8 39 0.55
9 21 0.30
10 7 0.10
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (8 bp):
ATTTTTTT
Found at i:353141 original size:17 final size:17
Alignment explanation
Indices: 353121--353216 Score: 75
Period size: 17 Copynumber: 5.3 Consensus size: 17
353111 TTTTAATTTG
353121 ATTTTTTTATTTTTTTT
1 ATTTTTTTATTTTTTTT
353138 ATTTTTTTATCTTGATTTTTTT
1 ATTTTTTTA---T--TTTTTTT
* * *
353160 ATTTTTTCATTGATTTTG
1 ATTTTTTTATT-TTTTTT
*
353178 ATTTTTTTATTTTTTTC
1 ATTTTTTTATTTTTTTT
* * *
353195 ATTTTATTATTATTTTA
1 ATTTTTTTATTTTTTTT
353212 ATTTT
1 ATTTT
353217 ATATCAAAAA
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
17 33 0.52
18 14 0.22
19 1 0.02
20 1 0.02
22 15 0.23
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.77
Consensus pattern (17 bp):
ATTTTTTTATTTTTTTT
Found at i:353143 original size:31 final size:31
Alignment explanation
Indices: 353107--353166 Score: 104
Period size: 31 Copynumber: 1.9 Consensus size: 31
353097 GTGTTTTCAC
353107 ATTTTTTTAAT-TTGATTTTTTTATTTTTTTT
1 ATTTTTTT-ATCTTGATTTTTTTATTTTTTTT
353138 ATTTTTTTATCTTGATTTTTTTATTTTTT
1 ATTTTTTTATCTTGATTTTTTTATTTTTT
353167 CATTGATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 2 0.07
31 26 0.93
ACGTcount: A:0.15, C:0.02, G:0.03, T:0.80
Consensus pattern (31 bp):
ATTTTTTTATCTTGATTTTTTTATTTTTTTT
Found at i:353161 original size:14 final size:13
Alignment explanation
Indices: 353107--353189 Score: 53
Period size: 14 Copynumber: 5.9 Consensus size: 13
353097 GTGTTTTCAC
353107 ATTTTTTTAATTTG
1 ATTTTTTT-ATTTG
*
353121 ATTTTTTTATTTTTTTT
1 ATTTTTTTA----TTTG
353138 ATTTTTTTATCTTG
1 ATTTTTTTAT-TTG
353152 ATTTTTTTATTT-
1 ATTTTTTTATTTG
* *
353164 -TTTCATTGATTTTG
1 ATTT-TTTTA-TTTG
353178 ATTTTTTTATTT
1 ATTTTTTTATTT
353190 TTTTCATTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 19
0.68 0.08 0.24
Matches are distributed among these distances:
11 3 0.06
12 3 0.06
13 10 0.19
14 23 0.43
15 3 0.06
17 12 0.22
ACGTcount: A:0.16, C:0.02, G:0.05, T:0.77
Consensus pattern (13 bp):
ATTTTTTTATTTG
Found at i:353172 original size:20 final size:21
Alignment explanation
Indices: 353131--353176 Score: 67
Period size: 22 Copynumber: 2.2 Consensus size: 21
353121 ATTTTTTTAT
*
353131 TTTTTTTATTTTTTTATCTTGA
1 TTTTTTTATTTTTTCA-CTTGA
353153 TTTTTTTATTTTTTCA-TTGA
1 TTTTTTTATTTTTTCACTTGA
353173 TTTT
1 TTTT
353177 GATTTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 8 0.35
22 15 0.65
ACGTcount: A:0.13, C:0.04, G:0.04, T:0.78
Consensus pattern (21 bp):
TTTTTTTATTTTTTCACTTGA
Found at i:355498 original size:14 final size:12
Alignment explanation
Indices: 355447--355526 Score: 51
Period size: 12 Copynumber: 6.7 Consensus size: 12
355437 AGGCTACCCC
355447 TTTTTTC-TTC-
1 TTTTTTCTTTCT
* *
355457 TTTTTT-TATGT
1 TTTTTTCTTTCT
*
355468 TTTTTACTTTCT
1 TTTTTTCTTTCT
355480 TTTTTTCTTTCT
1 TTTTTTCTTTCT
355492 CTCTTTTTCTTTCCT
1 -T-TTTTTCTTT-CT
* *
355507 TCCTTTT-TTCCT
1 T-TTTTTCTTTCT
355519 TTTTTTCT
1 TTTTTTCT
355527 CCCTTCCTCC
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
10 7 0.13
11 9 0.17
12 18 0.33
13 3 0.06
14 15 0.28
15 2 0.04
ACGTcount: A:0.03, C:0.20, G:0.01, T:0.76
Consensus pattern (12 bp):
TTTTTTCTTTCT
Found at i:355514 original size:15 final size:14
Alignment explanation
Indices: 355468--355504 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
355458 TTTTTTATGT
355468 TTTTTACTTTCT-T-
1 TTTTT-CTTTCTCTC
355481 TTTTTCTTTCTCTC
1 TTTTTCTTTCTCTC
355495 TTTTTCTTTC
1 TTTTTCTTTC
355505 CTTCCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 6 0.27
13 6 0.27
14 10 0.45
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.76
Consensus pattern (14 bp):
TTTTTCTTTCTCTC
Found at i:361540 original size:20 final size:19
Alignment explanation
Indices: 361513--361588 Score: 98
Period size: 20 Copynumber: 3.8 Consensus size: 19
361503 AAAAAGATAG
361513 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
361532 GAGTGTATCGATACATTCATA
1 -AATGTATCGATACATTGA-A
*
361553 CATGTATCGATACATTGAAA
1 AATGTATCGATACATTG-AA
361573 AATGTATCGATACATT
1 AATGTATCGATACATT
361589 TAGGTAAAAA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 46 0.96
21 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.16, T:0.33
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:361558 original size:71 final size:72
Alignment explanation
Indices: 361391--361567 Score: 214
Period size: 71 Copynumber: 2.5 Consensus size: 72
361381 TTTTAACTAG
* *
361391 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAAGACATAATGTATCGATATA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAAGACAGAATGTATCGATACA
361456 GTCATAC
66 GTCATAC
* * * * *
361463 ATGTATCGATTCATTGAAAAATGTATTGATACATCTTGG-TAAAAAGATAGAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAAGACAGAATGTATCGATACA
* * *
361527 TTGA-AG
66 GTCATAC
* * *
361533 AGTGTATCGATACATTCATACATGTATCGATACAT
1 A-TGTATCGATACATTGAAAAATGTATCGATACAT
361568 TGAAAAATGT
Statistics
Matches: 89, Mismatches: 15, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
70 2 0.02
71 51 0.57
72 36 0.40
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (72 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAAGACAGAATGTATCGATACA
GTCATAC
Found at i:362442 original size:28 final size:29
Alignment explanation
Indices: 362351--363205 Score: 663
Period size: 28 Copynumber: 29.2 Consensus size: 29
362341 TTAGAGGGGT
*
362351 TGCCACTGACTTGTGTGGGCTTTAGAGAAA-GT
1 TGCCACTGAC-T-TGTGGGCTTT-GA-AAAGGA
**
362383 TGCCACCAACTTGTGTGGGCTTT-AAAAGGA
1 TGCCACTGAC-T-TGTGGGCTTTGAAAAGGA
** *
362413 TGCCACTGACTTGTGGATTTTGAGAA-GA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
* * *
362441 TGCCTCTAACTTGTGGGCTCTGAAAA-GA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
* * *
362469 TGCTACCGACTTGTGGCCTTTGAAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
* *
362498 TGCCATTGACTTGTGGACTTT-AAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
* *
362526 TGCCACTGACTTGTGGGCTTTG-AATGGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
*
362554 TGCCACTGACTTGTGGGCTCTGAAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
*
362583 TGCCACTGACTTGTGGGCTTTG-AAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
* * *
362611 TGCCACTAATTTGTGGGCTTGGAAAA-GA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
* *
362639 TGTCATTGACTTGTGGGCTTTGAAAA-GA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
*
362667 TGCCACCGACTTGTGGGCTTTGAAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
* * * *
362696 TGCCATTGACTTCTGGACTTTG-AAAGAA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
*
362724 TGCCACTGACTTGTGGGCTTTG-AAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
*
362752 TGCCACTGATTTGTGGGCTTTGAAAA-GA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
** * **
362780 TGCCACCAACTTATGGATTTTGAAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
* ** *
362809 TGCCACCGACTTGT-GGAATTG-AAAGCA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
*
362836 TGCCACTGACTTGTGGGCTTTG-AAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
* *
362864 TGCCACTGACTTGTGTGCTTTG-AAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
* * * *
362892 TGCCACTGATTTGTGAGCTTTGAAATGGGT
1 TGCCACTGACTTGTGGGCTTTGAAA-AGGA
* *
362922 TGCCACCGACTTGTGTGGGCTTTGAAATAGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA-AGGA
* *
362954 TGCCACTGACTTGTGTGGGCTTTGAAATGGTT
1 TGCCACTGAC-T-TGTGGGCTTTGAAAAGG-A
* * * *
362986 TGCCACTAACTTGTATGGGCTTTCAAATGAGT
1 TGCCACTGACTTG--TGGGCTTTGAAAAG-GA
* ** *
363018 TGCCA-TCATCTTGTGTGAGCTTTG-AACTGC
1 TGCCACTGA-CTTGTG-G-GCTTTGAAAAGGA
* * *
363048 TGCCACTAACTTGTGGGCTTTGAAATGGGT
1 TGCCACTGACTTGTGGGCTTTGAAA-AGGA
* * * *
363078 TACCACCGACTTATGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA-AGGA
* * *
363110 TGCCACTGACTTGTGTGGGCTTTCAAATGAGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAAAG-GA
*
363142 TGCCACCGACTTGTGTGGGCTTTGAAATA--A
1 TGCCACTGAC-T-TGTGGGCTTTGAAA-AGGA
* *
363172 TGCCACTAACTTGTGGGC-TTAAAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGGA
363200 TGCCAC
1 TGCCAC
363206 AAAGTTATGG
Statistics
Matches: 682, Mismatches: 111, Indels: 64
0.80 0.13 0.07
Matches are distributed among these distances:
26 1 0.00
27 23 0.03
28 324 0.48
29 97 0.14
30 52 0.08
31 13 0.02
32 171 0.25
33 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (29 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGGA
Found at i:362508 original size:85 final size:86
Alignment explanation
Indices: 362364--363205 Score: 643
Period size: 85 Copynumber: 9.6 Consensus size: 86
362354 CACTGACTTG
* **
362364 TGTGGGCTTTAGAGAAAGTTGCCACCAACTTGTGTGGGCTTT-AAAAGGATGCCACTGACTTGTG
1 TGTGGGCTTT-GA-AAAGATGCCACTGAC-T-TGTGGGCTTTGAAAAGGATGCCACTGACTTGTG
** * *
362428 GATTTTGAGAA-GATGCCTCTAACT
62 GGCTTTGAAAAGGATGCCACTAACT
* * * * * *
362452 TGTGGGCTCTGAAAAGATGCTACCGACTTGTGGCCTTTGAAAAGGATGCCATTGACTTGTGGACT
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCT
*
362517 TT-AAAAGGATGCCACTGACT
66 TTGAAAAGGATGCCACTAACT
** * *
362537 TGTGGGCTTTGAATGGGTGCCACTGACTTGTGGGCTCTGAAAAGGATGCCACTGACTTGTGGGCT
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCT
* *
362602 TTG-AAAGGGTGCCACTAATT
66 TTGAAAAGGATGCCACTAACT
* * * *
362622 TGTGGGCTTGGAAAAGATGTCATTGACTTGTGGGCTTTGAAAA-GATGCCACCGACTTGTGGGCT
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCT
* *
362686 TTGAAAAGGATGCCATTGACT
66 TTGAAAAGGATGCCACTAACT
* * * *
362707 TCTGGACTTTG-AAAGAATGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTGATTTGTGGGC
1 TGTGGGCTTTGAAAAG-ATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGC
*
362770 TTTGAAAA-GATGCCACCAACT
65 TTTGAAAAGGATGCCACTAACT
* ** * ** *
362791 TATGGATTTTGAAAAGGATGCCACCGACTTGT-GGAATTG-AAAGCATGCCACTGACTTGTGGGC
1 TGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGC
* *
362854 TTTG-AAAGGGTGCCACTGACT
65 TTTGAAAAGGATGCCACTAACT
* * * * * * * *
362875 TGTGTGCTTTGAAAGGGTGCCACTGATTTGTGAGCTTTGAAATGGGTTGCCACCGACTTGTGTGG
1 TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAA-AGGATGCCACTGAC-T-TGTGG
* *
362940 GCTTTGAAATAGGTTGCCACTGACTT
63 GCTTTGAAA-AGGATGCCACTAAC-T
* * * * * * *
362966 GTGTGGGCTTTGAAATGGTTTGCCACTAACTTGTATGGGCTTTCAAATGAGTTGCCA-TCATCTT
1 -TGTGGGCTTTGAAA-AG-ATGCCACTGACTTG--TGGGCTTTGAAAAG-GATGCCACTGA-CTT
** *
363030 GTGTGAGCTTTG-AACTGCTGCCACTAACT
59 GTG-G-GCTTTGAAAAGGATGCCACTAACT
* * * * * *
363059 TGTGGGCTTTGAAATGGGTTACCACCGACTTATGTGGGCTTTGAAATGGGTTGCCACTGACTTGT
1 TGTGGGCTTTGAAA--AGATGCCACTGAC-T-TGTGGGCTTTGAAA-AGGATGCCACTGAC-T-T
* * * **
363124 GTGGGCTTTCAAATGAGTTGCCACCGACTT
59 GTGGGCTTTGAAAAG-GATGCCACTAAC-T
* *
363154 GTGTGGGCTTTGAAATA-ATGCCACTAACTTGTGGGC-TTAAAAAGGATGCCAC
1 -TGTGGGCTTTGAAA-AGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCAC
363206 AAAGTTATGG
Statistics
Matches: 609, Mismatches: 108, Indels: 72
0.77 0.14 0.09
Matches are distributed among these distances:
83 16 0.03
84 115 0.19
85 231 0.38
86 23 0.04
87 3 0.00
88 20 0.03
89 2 0.00
90 21 0.03
91 6 0.01
92 66 0.11
93 14 0.02
94 47 0.08
95 7 0.01
96 38 0.06
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (86 bp):
TGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTGACTTGTGGGCT
TTGAAAAGGATGCCACTAACT
Found at i:362609 original size:113 final size:113
Alignment explanation
Indices: 362396--363826 Score: 662
Period size: 113 Copynumber: 12.6 Consensus size: 113
362386 CACCAACTTG
** * * * *
362396 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGATTTTGAGAAGATGCCTCTAACTTGTGGGCTC
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
* * *
362461 TGAAAA-GATGCTACCGACTTGTGGCCTTTGAAAAGGATGCCATTGACT
66 TGAAAAGGATGCCACCGACTTGTGGGCTTTG-AAAGGATGCCACTGACT
* ** * *
362509 TGTGGACTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAATGGGTGCCACTGACTTGTGGGCTC
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
* * * *
362574 TGAAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAATT
66 TGAAAAGGATGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * *
362622 TGTGGGCTTGGAAAA-GATGTCATTGACTTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCT
1 TGTGGGCTT-TAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCT
** * * *
362686 TTGAAAAGGATGCCATTGACTTCTGGACTTTGAAAGAATGCCACTGACT
65 TTGAAAAGGATGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * ** * **
362735 TGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGATGCCACCAACTTATGGATTT
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
** *
362800 TGAAAAGGATGCCACCGACTTGT-GGAATTGAAAGCATGCCACTGACT
66 TGAAAAGGATGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * * *
362847 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGTGCTTTGAAAGGGTGCCACTGATTTGTGAGCTT
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
* * *
362912 TGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACTGACTT
66 TGAAA-AGGATGCCACCGAC-T-TGTGGGCTTTG-AA-AGGATGCCACTGAC-T
* * * * * *
362966 GTGTGGGCTTTGAAATGGTTTGCCACTAACTTGTATGGGCTTTCAAATGAGTTGCCA-TCATCTT
1 -TGTGGGCTTT-AAAAGG-ATGCCACTGACTTG--TGGGCTTTGAAA--AGATGCCACTGA-CTT
** * ** * * *
363030 GTGTGAGCTTTG-AACTGCTGCCACTAACTTGTGGGCTTTGAAATGGGTTACCACCGACTT
58 GTG-G-GCTTTGAAAAGGATGCCACCGACTTGTGGGCTTTGAAA--GGATGCCACTGAC-T
* * * * *
363090 ATGTGGGCTTTGAAATGGGTTGCCACTGACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTG
1 -TGTGGGCTTT-AAA-AGGATGCCACTGAC-T-TGTGGGCTTTGAAA--AGATGCCACTGAC-T-
** ** ** *
363155 TGTGGGCTTTGAAATA--ATGCCACTAACTTGTGGGCTTAAAAAGGATGCCACAAAGT
57 TGTGGGCTTTGAAA-AGGATGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * * * * *
363211 TATGGAC-TTAAAAGGGTACCA-TGAAGTTGTGGAC-TT-AAAAGAGTGCTAC-GAAGTTGTGGA
1 TGTGGGCTTTAAAAGGATGCCACTG-ACTTGTGGGCTTTGAAAAGA-TGCCACTG-ACTTGTGGG
** * ** * * * * * * *
363271 C-TT-AAAAAAATGCTATGGAGTTGTCGACTTTAAAAGAATGCCACGGAGT
63 CTTTGAAAAGGATGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * * ** * * * *
363320 TGTGGACTTGAAACGGATGCCACGGGGTTGTGGAC-TT-AAAAGAGTCCCA-TGGAGTTGTGGAC
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGA-TGCCACT-GACTTGTGGGC
* * ** * * * *
363382 -TT-AAAAGGATGCCACAGAGTTGTGAAC-TTAAAAGGGTGCCACGGAGT
64 TTTGAAAAGGATGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * * * * * * * *
363429 GGTGGACTTTAAAAGGGTGCC-CGGAGTTGTGGACTTT-AAAGGGTGTCACAGAGTTGTGGACTT
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
* * * * * * * * *
363492 T-AAAAGAACGCCACGGAGTTATGGAC-TTGAAACAGATGCCACGGAGT
66 TGAAAAGGATGCCACCGACTTGTGGGCTTTGAAA-GGATGCCACTGACT
* * * * * * * **
363539 TGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGAC-TT-AAAAGGATGCCACAGAGTTGTGAAC-
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAA-GATGCCACTGACTTGTGGGCT
* * * * * * * *
363600 TTAAAAAGG-TGCCACGGAGTTGTAGACTTT-AAAGGGTGCCACGGAGT
65 TTGAAAAGGATGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * * * * * *
363647 TGTGGACTTT-AAAGGGTGCCACAGAGTTGTGGAC-TTAAAAAGATGCCACGGAGTTGTAGACTT
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
* ** * * * * * * *
363710 TAAAAAGG-TGCCATGGAGTTGAGGACTTTAAAAGGATACCACGGAGT
66 TGAAAAGGATGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACT
* * * * * * *
363757 TGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTTGAAAAGAAATGCCACTGAATCGTGGAC
1 TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAG--ATGCCACTGACTTGTGGGC
363821 TTTGAA
64 TTTGAA
363827 GAGGTCACAG
Statistics
Matches: 1079, Mismatches: 184, Indels: 110
0.79 0.13 0.08
Matches are distributed among these distances:
107 1 0.00
108 90 0.08
109 178 0.16
110 166 0.15
111 13 0.01
112 88 0.08
113 273 0.25
114 28 0.03
115 9 0.01
116 8 0.01
117 9 0.01
118 15 0.01
119 3 0.00
120 15 0.01
121 5 0.00
122 21 0.02
123 2 0.00
124 110 0.10
125 11 0.01
126 26 0.02
127 2 0.00
128 6 0.01
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.28
Consensus pattern (113 bp):
TGTGGGCTTTAAAAGGATGCCACTGACTTGTGGGCTTTGAAAAGATGCCACTGACTTGTGGGCTT
TGAAAAGGATGCCACCGACTTGTGGGCTTTGAAAGGATGCCACTGACT
Found at i:363089 original size:124 final size:124
Alignment explanation
Indices: 362847--363191 Score: 393
Period size: 124 Copynumber: 2.8 Consensus size: 124
362837 GCCACTGACT
* * * * *
362847 TGTGGGCTTTGAAA-GGG-TGCCACTGACTTG--TGTGCTTTGAAA-G-GGTGCCACTGA-TT-T
1 TGTGGGCTTTGAAATGGGTTGCCACTAACTTGTATGGGCTTTCAAATGAGTTGCCACCGACTTGT
** ** * * *
362904 GTGAGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATAGGTTGCCACTGACTTG
66 GTGAGCTTTGAAAT--AATGCCACTAAC-T-TGTGGGCTTTGAAATAGGTTACCACCGACTTA
* *
362967 TGTGGGCTTTGAAATGGTTTGCCACTAACTTGTATGGGCTTTCAAATGAGTTGCCATC-ATCTTG
1 TGTGGGCTTTGAAATGGGTTGCCACTAACTTGTATGGGCTTTCAAATGAGTTGCCACCGA-CTTG
* ** *
363031 TGTGAGCTTTGAACTGCTGCCACTAACTTGTGGGCTTTGAAATGGGTTACCACCGACTTA
65 TGTGAGCTTTGAAATAATGCCACTAACTTGTGGGCTTTGAAATAGGTTACCACCGACTTA
* *
363091 TGTGGGCTTTGAAATGGGTTGCCACTGACTTGTGTGGGCTTTCAAATGAGTTGCCACCGACTTGT
1 TGTGGGCTTTGAAATGGGTTGCCACTAACTTGTATGGGCTTTCAAATGAGTTGCCACCGACTTGT
*
363156 GTGGGCTTTGAAATAATGCCACTAACTTGTGGGCTT
66 GTGAGCTTTGAAATAATGCCACTAACTTGTGGGCTT
363192 AAAAAGGATG
Statistics
Matches: 192, Mismatches: 23, Indels: 16
0.83 0.10 0.07
Matches are distributed among these distances:
120 14 0.07
121 2 0.01
122 12 0.06
124 129 0.67
125 4 0.02
126 15 0.08
127 2 0.01
128 14 0.07
ACGTcount: A:0.19, C:0.18, G:0.29, T:0.34
Consensus pattern (124 bp):
TGTGGGCTTTGAAATGGGTTGCCACTAACTTGTATGGGCTTTCAAATGAGTTGCCACCGACTTGT
GTGAGCTTTGAAATAATGCCACTAACTTGTGGGCTTTGAAATAGGTTACCACCGACTTA
Found at i:363237 original size:27 final size:27
Alignment explanation
Indices: 363202--363792 Score: 292
Period size: 27 Copynumber: 21.7 Consensus size: 27
363192 AAAAAGGATG
* * *
363202 CCACAAAGTTATGGACTTAAAAGGGTA
1 CCACGAAGTTGTGGACTTAAAAGAGTA
* *
363229 CCATGAAGTTGTGGACTTAAAAGAGTG
1 CCACGAAGTTGTGGACTTAAAAGAGTA
* * * *
363256 CTACGAAGTTGTGGACTTAAAAAAATG
1 CCACGAAGTTGTGGACTTAAAAGAGTA
* * * * * *
363283 CTATGGAGTTGTCGACTTTAAAAGAATG
1 CCACGAAGTTGTGGAC-TTAAAAGAGTA
* * *
363311 CCACGGAGTTGTGGACTTGAAACG-GATG
1 CCACGAAGTTGTGGACTT-AAAAGAG-TA
** *
363339 CCACGGGGTTGTGGACTTAAAAGAGTC
1 CCACGAAGTTGTGGACTTAAAAGAGTA
* * *
363366 CCATGGAGTTGTGGACTTAAAAG-GATG
1 CCACGAAGTTGTGGACTTAAAAGAG-TA
* * *
363393 CCAC-AGAGTTGTGAACTTAAAAGGGTG
1 CCACGA-AGTTGTGGACTTAAAAGAGTA
* * * *
363420 CCACGGAGTGGTGGACTTTAAAAGGGTG
1 CCACGAAGTTGTGGAC-TTAAAAGAGTA
* * * *
363448 CC-CGGAGTTGTGGACTTTAAAGGGTG
1 CCACGAAGTTGTGGACTTAAAAGAGTA
* ***
363474 TCAC-AGAGTTGTGGACTTTAAAAGAACG
1 CCACGA-AGTTGTGGAC-TTAAAAGAGTA
* * *
363502 CCACGGAGTTATGGACTTGAAACAGA-TG
1 CCACGAAGTTGTGGACTT-AAA-AGAGTA
* * *
363530 CCACGGAGTTGTGGACTTAAAAGGGTG
1 CCACGAAGTTGTGGACTTAAAAGAGTA
* *
363557 CCACGGAGTTGTGGACTTAAAAG-GATG
1 CCACGAAGTTGTGGACTTAAAAGAG-TA
* *
363584 CCAC-AGAGTTGTGAACTTAAAA-AGGTG
1 CCACGA-AGTTGTGGACTTAAAAGA-GTA
* * * * *
363611 CCACGGAGTTGTAGACTTTAAAGGGTG
1 CCACGAAGTTGTGGACTTAAAAGAGTA
* * * *
363638 CCACGGAGTTGTGGACTTTAAAGGGTG
1 CCACGAAGTTGTGGACTTAAAAGAGTA
*
363665 CCAC-AGAGTTGTGGACTTAAAA-AGATG
1 CCACGA-AGTTGTGGACTTAAAAGAG-TA
* * *
363692 CCACGGAGTTGTAGACTTTAAAA-AGGTG
1 CCACGAAGTTGTGGAC-TTAAAAGA-GTA
* * *
363720 CCATGGAGTTGAGGACTTTAAAAG-GATA
1 CCACGAAGTTGTGGAC-TTAAAAGAG-TA
* *
363748 CCACGGAGTTGTGGACTTAAAAG-GATG
1 CCACGAAGTTGTGGACTTAAAAGAG-TA
*
363775 CCACGGAGTTGTGGACTT
1 CCACGAAGTTGTGGACTT
363793 TGAAAAGAAA
Statistics
Matches: 471, Mismatches: 64, Indels: 58
0.79 0.11 0.10
Matches are distributed among these distances:
26 16 0.03
27 305 0.65
28 146 0.31
29 4 0.01
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (27 bp):
CCACGAAGTTGTGGACTTAAAAGAGTA
Found at i:363519 original size:191 final size:189
Alignment explanation
Indices: 363182--363792 Score: 780
Period size: 191 Copynumber: 3.2 Consensus size: 189
363172 TGCCACTAAC
* * * * * * *
363182 TTGTGGGCTTAAAAAGGATGCCACAAAGTTATGGACTTAAAAGGGTACCATGAAGTTGTGGAC-T
1 TTGTGGACTT-AAAAGGATGCCACAGAGTTGTGAACTTAAAAGGGTGCCACGGAGTTGTGGACTT
* * * * *** ** *
363246 TAAAAGAGTGCTACGAAGTTGTGGACTTAAAAAAATGCTATGGAGTTGTCGACTTTAAAAGAATG
65 TAAAAGGGTGC-CCGGAGTTGTGGACTTTAAAGGGTGC-ACAGAGTTGTGGACTTTAAAAGAATG
* * *
363311 CCACGGAGTTGTGGACTTGAAACGGATGCCACGGGGTTGTGGACTTAAAAGAGTCCCATGGAG
128 CCACGGAGTTGTGGACTTGAAACGGATGCCACGGAGTTGTGGACTTAAAAG-GTACCACGGAG
*
363374 TTGTGGACTTAAAAGGATGCCACAGAGTTGTGAACTTAAAAGGGTGCCACGGAGTGGTGGACTTT
1 TTGTGGACTTAAAAGGATGCCACAGAGTTGTGAACTTAAAAGGGTGCCACGGAGTTGTGGACTTT
*
363439 AAAAGGGTGCCCGGAGTTGTGGACTTTAAAGGGTGTCACAGAGTTGTGGACTTTAAAAGAACGCC
66 AAAAGGGTGCCCGGAGTTGTGGACTTTAAAGGGTG-CACAGAGTTGTGGACTTTAAAAGAATGCC
* * *
363504 ACGGAGTTATGGACTTGAAACAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
130 ACGGAGTTGTGGACTTGAAACGGATGCCACGGAGTTGTGGACTTAAAA-GGTACCACGGAG
* *
363565 TTGTGGACTTAAAAGGATGCCACAGAGTTGTGAACTTAAAAAGGTGCCACGGAGTTGTAGACTTT
1 TTGTGGACTTAAAAGGATGCCACAGAGTTGTGAACTTAAAAGGGTGCCACGGAGTTGTGGACTTT
*
363630 -AAAGGGTGCCACGGAGTTGTGGACTTTAAAGGGTGCCACAGAGTTGTGGACTTAAAAAG-ATGC
66 AAAAGGGTGCC-CGGAGTTGTGGACTTTAAAGGGTG-CACAGAGTTGTGGACTTTAAAAGAATGC
* * * * *
363693 CACGGAGTTGTAGACTTTAAAAAGG-TGCCATGGAGTTGAGGACTTTAAAAGGATACCACGGAG
129 CACGGAGTTGTGGAC-TTGAAACGGATGCCACGGAGTTGTGGAC-TTAAAAGG-TACCACGGAG
* *
363756 TTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTT
1 TTGTGGACTTAAAAGGATGCCACAGAGTTGTGAACTT
363793 TGAAAAGAAA
Statistics
Matches: 372, Mismatches: 40, Indels: 15
0.87 0.09 0.04
Matches are distributed among these distances:
190 44 0.12
191 306 0.82
192 22 0.06
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.24
Consensus pattern (189 bp):
TTGTGGACTTAAAAGGATGCCACAGAGTTGTGAACTTAAAAGGGTGCCACGGAGTTGTGGACTTT
AAAAGGGTGCCCGGAGTTGTGGACTTTAAAGGGTGCACAGAGTTGTGGACTTTAAAAGAATGCCA
CGGAGTTGTGGACTTGAAACGGATGCCACGGAGTTGTGGACTTAAAAGGTACCACGGAG
Found at i:363570 original size:218 final size:215
Alignment explanation
Indices: 363213--363792 Score: 715
Period size: 218 Copynumber: 2.7 Consensus size: 215
363203 CACAAAGTTA
* * * * *
363213 TGGAC-TTAAAAGGGTACCATGAAGTTGTGGACTTAAAAGAGTGCTACGAAGTTGTGGACTTAAA
1 TGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGC-ACG-AGTTGTGGACTTTAA
* * * *
363277 AAAATGCTATGGAGTTGTCGACTTTAAAAGAATGCCACGGAGTTGTGGACTTGAAACGGATGCCA
64 AAAATGCCATGGAGTTATGGACTTTAAAAG-ATGCCACGGAGTTGTGGACTT-AAAAGGATGCCA
* ** *
363342 CGGGGTTGTGGACTTAAAA-GAGTCCCATGGAGTTGTGGACTT-AAAAGGATGCCACAGAGTTGT
127 CGGAGTTGTGGACTTAAAAGGA-TCCCACAGAGTTGTGAACTTAAAAAGG-TGCCACAGAGTTGT
363405 -GAACTTAAAAGGGTGCCACGGAGTGG
190 AG-ACTTAAAAGGGTGCCACGGAGTGG
*
363431 TGGACTTTAAAAGGGTGCC-CGGAGTTGTGGACTTTAAAGGGTGTCACAGAGTTGTGGACTTTAA
1 TGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTG-CAC-GAGTTGTGGACTTTAA
* * * *
363495 AAGAACGCCACGGAGTTATGGACTTGAAACAGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCA
64 AA-AATGCCATGGAGTTATGGACTTTAAA-AGATGCCACGGAGTTGTGGACTTAAAAGGATGCCA
* *
363560 CGGAGTTGTGGACTTAAAAGGATGCCACAGAGTTGTGAACTTAAAAAGGTGCCACGGAGTTGTAG
127 CGGAGTTGTGGACTTAAAAGGATCCCACAGAGTTGTGAACTTAAAAAGGTGCCACAGAGTTGTAG
* *
363625 ACTTTAAAGGGTGCCACGGAGTTG
192 ACTTAAAAGGGTGCCACGGAGTGG
* * * *
363649 TGGACTTT-AAAGGGTGCCACAGAGTTGTGGACTTAAAAAGATGCCACGGAGTTGTAGACTTTAA
1 TGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTG-CAC-GAGTTGTGGACTTTAA
* *
363713 AAAGGTGCCATGGAGTTGA-GGACTTTAAAAGGATACCACGGAGTTGTGGACTTAAAAGGATGCC
64 AAA-ATGCCATGGAGTT-ATGGACTTTAAAA-GATGCCACGGAGTTGTGGACTTAAAAGGATGCC
363777 ACGGAGTTGTGGACTT
126 ACGGAGTTGTGGACTT
363793 TGAAAAGAAA
Statistics
Matches: 315, Mismatches: 35, Indels: 24
0.84 0.09 0.06
Matches are distributed among these distances:
217 12 0.04
218 236 0.75
219 65 0.21
220 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.31, T:0.24
Consensus pattern (215 bp):
TGGACTTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCACGAGTTGTGGACTTTAAAA
AATGCCATGGAGTTATGGACTTTAAAAGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGA
GTTGTGGACTTAAAAGGATCCCACAGAGTTGTGAACTTAAAAAGGTGCCACAGAGTTGTAGACTT
AAAAGGGTGCCACGGAGTGG
Found at i:372263 original size:20 final size:20
Alignment explanation
Indices: 372194--372270 Score: 64
Period size: 20 Copynumber: 3.8 Consensus size: 20
372184 GGGAAAAAAA
372194 GAAAGAATGTATCGATACATT
1 GAAA-AATGTATCGATACATT
* * * *
372215 GAAGATTGCATCGATACAGT
1 GAAAAATGTATCGATACATT
* * * *
372235 CATACATGTTTCGATACATT
1 GAAAAATGTATCGATACATT
*
372255 GAAAAATGTATTGATA
1 GAAAAATGTATCGATA
372271 TATCAGGTTA
Statistics
Matches: 39, Mismatches: 17, Indels: 1
0.68 0.30 0.02
Matches are distributed among these distances:
20 36 0.92
21 3 0.08
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (20 bp):
GAAAAATGTATCGATACATT
Found at i:372319 original size:91 final size:92
Alignment explanation
Indices: 372148--372323 Score: 255
Period size: 91 Copynumber: 1.9 Consensus size: 92
372138 GTTTAACTAT
*
372148 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGAAAAAAAGAAAGAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGAAAAAAAGAAAGAATGTATCGATACA
* *
372213 TTGAAGATTGCATCGATACAGTCATAC
66 TTGAAAAATGCATCGATACAGTCATAC
* * * ** *
372240 ATGTTTCGATACATTGAAAAATGTATTGATATATC-AGGTTAAAAAGATAGAATGTATCGATACA
1 ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGAAAAAAAGAAAGAATGTATCGATACA
*
372304 TTGAAAAATGTATCGATACA
66 TTGAAAAATGCATCGATACA
372324 TCTCGGTAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
91 42 0.57
92 32 0.43
ACGTcount: A:0.43, C:0.11, G:0.18, T:0.29
Consensus pattern (92 bp):
ATGTATCGATACATTGAAAAATGTATCGATACATCTAGGAAAAAAAGAAAGAATGTATCGATACA
TTGAAAAATGCATCGATACAGTCATAC
Found at i:373090 original size:28 final size:28
Alignment explanation
Indices: 372999--373882 Score: 653
Period size: 28 Copynumber: 30.2 Consensus size: 28
372989 TTAGAAGGGT
* *
372999 TGCCACTGACTTGTGTGGGCTTTAGAGAAAGT
1 TGCCACTGAC-T-TGTGGGCTTT-GA-AAGGA
* *
373031 TGCCACCGACTTGTGTGGGCTTTAAAAGGA
1 TGCCACTGAC-T-TGTGGGCTTTGAAAGGA
**
373061 TGCCACTGACTTGTGGATTTTGAGAA-GA
1 TGCCACTGACTTGTGGGCTTTGA-AAGGA
* * **
373089 TGCCTCTAACTTGTGGGCTTTGAAAAAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
373117 TGCCACCGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
373145 CGCCACTGACTTGTGGGCTTTGAAAAGGA
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
* * *
373174 TGCCATTGACTTGTGGGATTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
373202 TGCCATTGACTTGTGAGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * *
373230 TGCCACTGATTTGTGGGCTTGGAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* **
373258 TGCCATTGACTTGTGGGCTTTGAAAAAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
373286 TGCCACCGACTTGTGGGCTTTGTAAAGGA
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
* * *
373315 TGCCACTGACTTCTGGACTTTGAAAGAA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* *
373343 TGCCACTGACTTGTGGGCTTTGAATGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
373371 TTCCATTGATTTATGGGCTTTAGAAA-GA
1 TGCCACTGACTTGTGGGCTTT-GAAAGGA
**
373399 TGCCACCAACTTGTGGGCTTTGAAAAGGA
1 TGCCACTGACTTGTGGGCTTTG-AAAGGA
* *
373428 TGCCACCGACTTGTGGACTTTGAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
373456 TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
*
373484 TGCCACTGACTTGTGGGCTTTGAAAGGG
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
* * * *
373512 TGCCACTAATTTGTGAGCTTTGAAATAGGT
1 TGCCACTGACTTGTGGGCTTTG-AA-AGGA
** *
373542 TGCCACCAACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
** *
373574 TGCCACCAACTTGTGTGGGCTTTGAAATAGGT
1 TGCCACTGAC-T-TGTGGGCTTTG-AA-AGGA
* * * *
373606 TGCCACTAACTTGTATGGGCTTTCAAATAAGT
1 TGCCACTGACTTG--TGGGCTTT-GAA-AGGA
* **
373638 TGCCACCGACTTATGTGGGCTTTGAACTGA
1 TGCCACTGAC-T-TGTGGGCTTTGAAAGGA
*
373668 TGCCACTGAGTTGTGGGCTTTGAAATGGGTTA
1 TGCCACTGACTTGTGGGCTTTGAAA--GG--A
* *
373700 TG--ACCGACTTGTGTGGGCTTTGAAATGGGT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA--GGA
* * *
373730 TGCCACCGACTTGTGTGGACTTTCAAATGAGT
1 TGCCACTGACTTGTG-GG-CTTTGAAA-G-GA
* **
373762 TGCCACCGACTTGTGTGGGCTTTGAAATAA
1 TGCCACTGAC-T-TGTGGGCTTTGAAAGGA
* ** *
373792 TGCCACTGACTTGTGGGCATAAAAAGAGG
1 TGCCACTGACTTGTGGGCTTTGAAAG-GA
* * * *
373821 TGCCATTGACTTATGGACTTT-AGAAGGG
1 TGCCACTGACTTGTGGGCTTTGA-AAGGA
**
373849 TGCCACTGACTTGTGGGCTTAAAAAGGA
1 TGCCACTGACTTGTGGGCTTTGAAAGGA
373877 TGCCAC
1 TGCCAC
373883 GAAGTTATGG
Statistics
Matches: 702, Mismatches: 114, Indels: 76
0.79 0.13 0.09
Matches are distributed among these distances:
27 3 0.00
28 366 0.52
29 99 0.14
30 55 0.08
31 12 0.02
32 154 0.22
33 6 0.01
34 7 0.01
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.30
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGA
Found at i:373175 original size:113 final size:113
Alignment explanation
Indices: 372999--374072 Score: 623
Period size: 113 Copynumber: 9.3 Consensus size: 113
372989 TTAGAAGGGT
* * *
372999 TGCCACTGACTTGTGTGGGCTTTAGAGAAAGTTGCCACCGACTTGTGTGGGCTTT-AAAAGGATG
1 TGCCACTGAC-T-TGTGGGCTTT-GA-AAGGGTGCCACTGAC-T-TGTGGGCTTTGAAAAGGATG
* * * * *
373063 CCACTGACTTGTGGATTTTGAGAA-GATGCCTCTAACTTGTGGGCTTTGAAAAAA
60 CCACTGACTTGTGGACTTTGA-AAGGATGCCACTGACTTGTGGACTTTGAAAGAA
* * *
373117 TGCCACCGACTTGTGGGCTTTGAAAGGGCGCCACTGACTTGTGGGCTTTGAAAAGGATGCCATTG
1 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTG
* * **
373182 ACTTGTGGGA-TTTGAAAGGGTGCCATTGACTTGT-GAGCTTTGAAAGGG
66 ACTTGT-GGACTTTGAAAGGATGCCACTGACTTGTGGA-CTTTGAAAGAA
* * * * * * *
373230 TGCCACTGATTTGTGGGCTTGGAAAAGATGCCATTGACTTGTGGGCTTTGAAAA-AATGCCACCG
1 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTG
* *
373294 ACTTGTGGGCTTTGTAAAGGATGCCACTGACTTCTGGACTTTGAAAGAA
66 ACTTGTGGACTTTG-AAAGGATGCCACTGACTTGTGGACTTTGAAAGAA
* * * * * *
373343 TGCCACTGACTTGTGGGCTTTGAATGGGTTCCATTGATTTATGGGCTTT-AGAAA-GATGCCACC
1 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGA-AAAGGATGCCACT
* * * *
373406 AACTTGTGGGCTTTGAAAAGGATGCCACCGACTTGTGGACTTTGAAAGGA
65 GACTTGTGGACTTTG-AAAGGATGCCACTGACTTGTGGACTTTGAAAGAA
* *
373456 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTG-AAAGGGTGCCACTA
1 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTG
* * ** * **
373520 ATTTGT-GAGCTTTGAAATAGGTTGCCACCAACTTGTGTGGGCTTTGAAATGGGT
66 ACTTGTGGA-CTTTG-AA-AGGATGCCACTGAC-T-TGTGGACTTTGAAA--GAA
** * * * * *
373574 TGCCACCAACTTGTGTGGGCTTTGAAATAGGTTGCCACTAACTTGTATGGGCTTTCAAATAAGTT
1 TGCCACTGAC-T-TGTGGGCTTTG-AA-AGGGTGCCACTGACTTG--TGGGCTTTGAAA-AGGAT
* * ** * * *
373639 GCCACCGACTTATGTGGGCTTTGAACTGATGCCACTGAGTTGTGGGCTTTGAAATGGGTTA
59 GCCACTGAC-T-TGTGGACTTTGAAAGGATGCCACTGACTTGTGGACTTTGAAA---G-AA
* * * * *
373700 TG--ACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGACTTTCAAATGAGTT
1 TGCCACTGAC-T-TGTGGGCTTTGAAA-GGG-TGCCACTGACTTGTG-GG-CTTTGAAAAG-GAT
* * ** * * ** *
373763 GCCACCGACTTGTGTGGGCTTTGAAATAATGCCACTGACTTGTGGGCATAAAAAGAGG
59 GCCACTGAC-T-TGTGGACTTTGAAAGGATGCCACTGACTTGTGGACTTTGAAAGA-A
* * * *
373821 TGCCATTGACTTATGGACTTT-AGAAGGGTGCCACTGACTTGTGGGC-TTAAAAAGGATGCCAC-
1 TGCCACTGACTTGTGGGCTTTGA-AAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACT
* * * * * *
373883 GAAGTTATGGAC-TTAAAAGGATGCCA-TGGAGTTGTGGAC-TTAAAAGAG
65 G-ACTTGTGGACTTTGAAAGGATGCCACT-GACTTGTGGACTTTGAAAGAA
* ** * * * * *
373931 TGCCAC-GAAGTTGTGAAC-TTAAAAGAGTGCCAC-GAAGTTGTGGAC-TT-AAAAGGGTGCCA-
1 TGCCACTG-ACTTGTGGGCTTTGAAAGGGTGCCACTG-ACTTGTGGGCTTTGAAAAGGATGCCAC
* * * * * * *
373990 TGGAGTTGTGGACTTTAAAAGAACGCCACGGAGTTGTGGAC-TTGAAACAGA
64 T-GACTTGTGGACTTTGAAAGGATGCCACTGACTTGTGGACTTTGAAAGA-A
* * ** *
374041 TGCCACGGAGTTGTGAAC-TTAAAAGGGTGCCA
1 TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCA
374073 TGGAGTTATG
Statistics
Matches: 782, Mismatches: 125, Indels: 106
0.77 0.12 0.10
Matches are distributed among these distances:
108 21 0.03
109 53 0.07
110 43 0.05
111 11 0.01
112 55 0.07
113 286 0.37
114 30 0.04
115 11 0.01
116 29 0.04
117 2 0.00
118 21 0.03
119 15 0.02
120 15 0.02
121 15 0.02
122 19 0.02
123 10 0.01
124 110 0.14
125 5 0.01
126 19 0.02
127 3 0.00
128 8 0.01
129 1 0.00
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (113 bp):
TGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAAGGATGCCACTG
ACTTGTGGACTTTGAAAGGATGCCACTGACTTGTGGACTTTGAAAGAA
Found at i:373298 original size:141 final size:140
Alignment explanation
Indices: 373012--373882 Score: 649
Period size: 141 Copynumber: 6.0 Consensus size: 140
373002 CACTGACTTG
* * * * * *
373012 TGTGGGCTTTAGAGAAAGTTGCCACCGACTTGTGTGGGCTTTAAAAGGATGCCACTGACTTGTGG
1 TGTGGGCTTT-GA-AAGGATGCCACTGAC-T-TGTGGGATTTGAAAGGGTGCCACTGACTTGTGG
** * * * * *
373077 ATTTTGAGAA-GATGCCTCTAACTTGTGGGCTTTGAAAAAATGCCACCGACTTGTGGGCTTTGAA
62 GCTTTGA-AAGGGTGCCACTGATTTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAA
* ** *
373141 AGGGCGCCACTGACT
126 AAGATGCCACCGACT
* * *
373156 TGTGGGCTTTGAAAAGGATGCCATTGACTTGTGGGATTTGAAAGGGTGCCATTGACTTGTGAGCT
1 TGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGATTTGAAAGGGTGCCACTGACTTGTGGGCT
* ** *
373221 TTGAAAGGGTGCCACTGATTTGTGGGCTTGGAAAAGATGCCATTGACTTGTGGGCTTTGAAAAAA
65 TTGAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAAAGA
373286 TGCCACCGACT
130 TGCCACCGACT
* **
373297 TGTGGGCTTTGTAAAGGATGCCACTGACTTCT-GGACTTTGAAAGAATGCCACTGACTTGTGGGC
1 TGTGGGCTTTG-AAAGGATGCCACTGACTTGTGGGA-TTTGAAAGGGTGCCACTGACTTGTGGGC
* * * * *
373361 TTTGAATGGGTTCCATTGATTTATGGGCTTT-AGAAAGATGCCACCAACTTGTGGGCTTTGAAAA
64 TTTGAAAGGGTGCCACTGATTTGTGGGCTTTGA-AAAGATGCCACCGACTTGTGGGCTTTGAAAA
373425 GGATGCCACCGACT
128 -GATGCCACCGACT
* *
373439 TGTGGACTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTT
1 TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGATTTGAAAGGGTGCCACTGACTTGTGGGCTT
* * * *
373504 TGAAAGGGTGCCACTAATTTGTGAGCTTTGAAATAGGTTGCCACCAACTTGTGTGGGCTTTGAAA
66 TGAAAGGGTGCCACTGATTTGTGGGCTTTGAAA-A-GATGCCACCGAC-T-TGTGGGCTTTGAAA
* * *
373569 TGGGTTGCCACCAACTT
127 --AGATGCCACCGAC-T
* * * * * * *
373586 GTGTGGGCTTTGAAATAGGTTGCCACTAACTTGTATGGGCTTTCAAATAAGTTGCCACCGACTTA
1 -TGTGGGCTTTG-AA-AGGATGCCACTGACTTG--TGGGATTT-GAA-AGGGTGCCACTGAC-T-
** * * *
373651 TGTGGGCTTTGAACTGATGCCACTGAGTTGTGGGCTTTGAAATGGGTTATG--ACCGACTTGTGT
57 TGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTTGAAA--AG--ATGCCACCGAC-T-TGT
* *
373714 GGGCTTTGAAATGGGTTGCCACCGACT
116 GGGCTTTGAAA--AGATGCCACCGACT
* * * * ***
373741 TGTGTGGACTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATAATGCCACTGACTTGT
1 TGTG-GG-CTTTGAAA-G-GATGCCACTGAC-T-TGTGGGATTTGAAAGGGTGCCACTGACTTGT
* ** * * * * * * *
373806 GGGCATAAAAAGAGGTGCCATTGACTTATGGACTTT-AGAAGGGTGCCACTGACTTGTGGGC-TT
60 GGGCTTTGAAAG-GGTGCCACTGATTTGTGGGCTTTGA-AAAGATGCCACCGACTTGTGGGCTTT
*
373869 AAAAAGGATGCCAC
123 GAAAA-GATGCCAC
373883 GAAGTTATGG
Statistics
Matches: 594, Mismatches: 96, Indels: 71
0.78 0.13 0.09
Matches are distributed among these distances:
140 6 0.01
141 268 0.45
142 27 0.05
143 23 0.04
144 12 0.02
145 14 0.02
146 10 0.02
147 8 0.01
148 15 0.03
149 11 0.02
150 16 0.03
151 7 0.01
152 19 0.03
153 23 0.04
154 26 0.04
155 9 0.02
156 95 0.16
157 1 0.00
158 4 0.01
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.30
Consensus pattern (140 bp):
TGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGATTTGAAAGGGTGCCACTGACTTGTGGGCTT
TGAAAGGGTGCCACTGATTTGTGGGCTTTGAAAAGATGCCACCGACTTGTGGGCTTTGAAAAGAT
GCCACCGACT
Found at i:373687 original size:124 final size:124
Alignment explanation
Indices: 373555--373809 Score: 384
Period size: 124 Copynumber: 2.1 Consensus size: 124
373545 CACCAACTTG
* *
373555 TGTGGGCTTTGAAATGGGTTGCCACCAACTTGTGTGGGCTTTGAAATAGGTTGCCACTAACTTGT
1 TGTGGGCTTTGAAATGGGTTACCACCAACTTGTGTGGGCTTTGAAATAGGTTGCCACCAACTTGT
* * * *
373620 ATGGGCTTTCAAATAAGTTGCCACCGACTTATGTGGGCTTTGAACTGATGCCACTGAGT
66 ATGGACTTTCAAATAAGTTGCCACCGACTTATGTGGGCTTTGAAATAATGCCACTGACT
** * * *
373679 TGTGGGCTTTGAAATGGGTTATGACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
1 TGTGGGCTTTGAAATGGGTTACCACCAACTTGTGTGGGCTTTGAAATAGGTTGCCACCAACTTGT
* * *
373744 GTGGACTTTCAAATGAGTTGCCACCGACTTGTGTGGGCTTTGAAATAATGCCACTGACT
66 ATGGACTTTCAAATAAGTTGCCACCGACTTATGTGGGCTTTGAAATAATGCCACTGACT
373803 TGTGGGC
1 TGTGGGC
373810 ATAAAAAGAG
Statistics
Matches: 117, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
124 117 1.00
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (124 bp):
TGTGGGCTTTGAAATGGGTTACCACCAACTTGTGTGGGCTTTGAAATAGGTTGCCACCAACTTGT
ATGGACTTTCAAATAAGTTGCCACCGACTTATGTGGGCTTTGAAATAATGCCACTGACT
Found at i:373908 original size:27 final size:27
Alignment explanation
Indices: 373834--374224 Score: 374
Period size: 27 Copynumber: 14.3 Consensus size: 27
373824 CATTGACTTA
* * * *
373834 TGGACTTTAGAAGGGTGCCACTGACTTG
1 TGGAC-TTAAAAGGATGCCACGGAGTTG
* * *
373862 TGGGCTTAAAAAGGATGCCACGAAGTTA
1 TGGACTT-AAAAGGATGCCACGGAGTTG
*
373890 TGGACTTAAAAGGATGCCATGGAGTTG
1 TGGACTTAAAAGGATGCCACGGAGTTG
*
373917 TGGACTTAAAA-GAGTGCCACGAAGTTG
1 TGGACTTAAAAGGA-TGCCACGGAGTTG
* *
373944 TGAACTTAAAA-GAGTGCCACGAAGTTG
1 TGGACTTAAAAGGA-TGCCACGGAGTTG
* *
373971 TGGACTTAAAAGGGTGCCATGGAGTTG
1 TGGACTTAAAAGGATGCCACGGAGTTG
* *
373998 TGGACTTTAAAAGAACGCCACGGAGTTG
1 TGGAC-TTAAAAGGATGCCACGGAGTTG
374026 TGGACTTGAAACA-GATGCCACGGAGTTG
1 TGGACTT-AAA-AGGATGCCACGGAGTTG
* * * *
374054 TGAACTTAAAAGGGTGCCATGGAGTTA
1 TGGACTTAAAAGGATGCCACGGAGTTG
* * *
374081 TGGACTAAAAAGGATGCCACAGAATTG
1 TGGACTTAAAAGGATGCCACGGAGTTG
* * * *
374108 TGAACTTAAAAGGGTGCCATGGAGTAG
1 TGGACTTAAAAGGATGCCACGGAGTTG
* * *
374135 TGAACTTTAAAAGGGTACCACGGAGTTG
1 TGGAC-TTAAAAGGATGCCACGGAGTTG
* * *
374163 TGGACTTTAAAAGTATACCACAGAGTTG
1 TGGAC-TTAAAAGGATGCCACGGAGTTG
* *
374191 TGGACTTAAAAGAATGCCATGGAGTTG
1 TGGACTTAAAAGGATGCCACGGAGTTG
374218 TGGACTT
1 TGGACTT
374225 TGAAAAGAAA
Statistics
Matches: 302, Mismatches: 53, Indels: 17
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.01
27 180 0.60
28 118 0.39
29 1 0.00
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (27 bp):
TGGACTTAAAAGGATGCCACGGAGTTG
Found at i:373951 original size:54 final size:54
Alignment explanation
Indices: 373834--374224 Score: 358
Period size: 55 Copynumber: 7.1 Consensus size: 54
373824 CATTGACTTA
* * * * * * *
373834 TGGACTTTAGAAGGGTGCCACTGACTTGTGGGCTTAAAA-AGGATGCCACGAAGTTA
1 TGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGA-G-TGCCACGGAGTTG
* *
373890 TGGACTTAAAAGGATGCCATGGAGTTGTGGACTTAAAAGAGTGCCACGAAGTTG
1 TGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTG
* * * *
373944 TGAACTTAAAA-GAGTGCCACGAAGTTGTGGACTTAAAAGGGTGCCATGGAGTTG
1 TGGACTTAAAAGGA-TGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTG
* *
373998 TGGACTTTAAAAGAACGCCACGGAGTTGTGGACTTGAAACAGA-TGCCACGGAGTTG
1 TGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTT-AAA-AGAGTGCCACGGAGTTG
* * * * * * *
374054 TGAACTTAAAAGGGTGCCATGGAGTTATGGACTAAAAAG-GATGCCACAGAATTG
1 TGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGAG-TGCCACGGAGTTG
* * * * * * *
374108 TGAACTTAAAAGGGTGCCATGGAGTAGTGAACTTTAAAAGGGTACCACGGAGTTG
1 TGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGAGTGCCACGGAGTTG
* * * * *
374163 TGGACTTTAAAAGTATACCACAGAGTTGTGGACTTAAAAGAATGCCATGGAGTTG
1 TGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTG
374218 TGGACTT
1 TGGACTT
374225 TGAAAAGAAA
Statistics
Matches: 277, Mismatches: 47, Indels: 24
0.80 0.14 0.07
Matches are distributed among these distances:
53 4 0.01
54 106 0.38
55 118 0.43
56 47 0.17
57 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.30, T:0.24
Consensus pattern (54 bp):
TGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGAGTGCCACGGAGTTG
Found at i:374008 original size:137 final size:136
Alignment explanation
Indices: 373834--374254 Score: 472
Period size: 137 Copynumber: 3.1 Consensus size: 136
373824 CATTGACTTA
* * * * * *
373834 TGGACTTTAGAAGGGTGCCACT-GACTTGTGGGCTTAAAAAGGATGCCACGAAGTTATGGACTTA
1 TGGAC-TTAAAAGGGTGCCA-TGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTA
* * * *
373898 AAAGGATGCCATGGAGTTGTGGACTTAAAAGAGTGCCACGAAGTTGTGAACTTAAAA-GAGTGCC
64 AAAGGATGCCACGGAGTTGTGGACTTAAAAGAGTGCCATGGAGTTGTGGACTTAAAAGGA-TGCC
373962 AC-GAAGTTG
128 ACAGAA-TTG
* *
373971 TGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGAACGCCACGGAGTTGTGGACTTGAA
1 TGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTT-AA
* * * *
374036 ACA-GATGCCACGGAGTTGTGAACTTAAAAGGGTGCCATGGAGTTATGGACTAAAAAGGATGCCA
65 A-AGGATGCCACGGAGTTGTGGACTTAAAAGAGTGCCATGGAGTTGTGGACTTAAAAGGATGCCA
374100 CAGAATTG
129 CAGAATTG
* * * * *
374108 TGAACTTAAAAGGGTGCCATGGAGTAGTGAACTTTAAAAGGGTACCACGGAGTTGTGGACTTTAA
1 TGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGAC-TTAA
* * * * * *
374173 AAGTATACCACAGAGTTGTGGACTTAAAAGAATGCCATGGAGTTGTGGACTTTGAAAAGAAATAC
65 AAGGATGCCACGGAGTTGTGGACTTAAAAGAGTGCCATGGAGTTGTGGAC-TT-AAAAG-GATGC
*
374238 CACTGAATTG
127 CACAGAATTG
374248 TGGACTT
1 TGGACTT
374255 TGAAGAGGCC
Statistics
Matches: 239, Mismatches: 35, Indels: 17
0.82 0.12 0.06
Matches are distributed among these distances:
135 1 0.00
136 48 0.20
137 158 0.66
138 9 0.04
139 5 0.02
140 18 0.08
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (136 bp):
TGGACTTAAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGGATGCCACGGAGTTGTGGACTTAAA
AGGATGCCACGGAGTTGTGGACTTAAAAGAGTGCCATGGAGTTGTGGACTTAAAAGGATGCCACA
GAATTG
Found at i:374111 original size:164 final size:163
Alignment explanation
Indices: 373813--374224 Score: 488
Period size: 164 Copynumber: 2.5 Consensus size: 163
373803 TGTGGGCATA
* * * * ** * * *
373813 AAAAGAGGTGCCATTGACTTATGGACTTTAGAAGGGTGCCACTGACTTGTGGGCTTAAAAAGGAT
1 AAAAG-GGTGCCATGGAGTTGTGGACTTTAAAAGAATGCCACAGAGTTGTGGACTT-AAAA-GAT
* * * *
373878 GCCACGAAGTTATGGACTTAAAAGGATGCCATGGAGTTGTGGACTTAAAAGAGTGCCACGAAGTT
63 GCCACGGAGTTGTGGACTTAAAAGGATGCCATGGAGTTATGGACTAAAAAGAGTGCCACGAAGTT
* *
373943 GTGAACTTAAAAGAGTGCCACGAAGTTGTGGAC-TT
128 GTGAACTTAAAAGAGTGCCACGAAGTAGTGAACTTT
* *
373978 AAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGAACGCCACGGAGTTGTGGACTTGAAACAGATG
1 AAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGAATGCCACAGAGTTGTGGACTT-AAA-AGATG
* *
374043 CCACGGAGTTGTGAACTTAAAAGGGTGCCATGGAGTTATGGACTAAAAAG-GATGCCACAGAA-T
64 CCACGGAGTTGTGGACTTAAAAGGATGCCATGGAGTTATGGACTAAAAAGAG-TGCCAC-GAAGT
* * *
374106 TGTGAACTTAAAAGGGTGCCATGGAGTAGTGAACTTT
127 TGTGAACTTAAAAGAGTGCCACGAAGTAGTGAACTTT
* * * *
374143 AAAAGGGTACCACGGAGTTGTGGACTTTAAAAGTATACCACAGAGTTGTGGACTTAAAAGAATGC
1 AAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGAATGCCACAGAGTTGTGGACTTAAAAG-ATGC
*
374208 CATGGAGTTGTGGACTT
65 CACGGAGTTGTGGACTT
374225 TGAAAAGAAA
Statistics
Matches: 212, Mismatches: 30, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
163 3 0.01
164 149 0.70
165 60 0.28
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.24
Consensus pattern (163 bp):
AAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGAATGCCACAGAGTTGTGGACTTAAAAGATGCC
ACGGAGTTGTGGACTTAAAAGGATGCCATGGAGTTATGGACTAAAAAGAGTGCCACGAAGTTGTG
AACTTAAAAGAGTGCCACGAAGTAGTGAACTTT
Found at i:374267 original size:83 final size:83
Alignment explanation
Indices: 373895--374268 Score: 244
Period size: 83 Copynumber: 4.5 Consensus size: 83
373885 AGTTATGGAC
* * * *
373895 TTAAAAGGATGCCATGGAGTTGTGGAC-TTAAAAG-AGTGCCAC-GAAGTTGTGAACTTAAAAGA
1 TTAAAAGAATACCACGGAATTGTGGACTTTAAAAGTAG-GCCACAGAA-TTGTGAACTTAAAAGA
* * * * *
373957 GTGCCACGAAGTTGTGGAC-
64 ATGCCATGGAGTAGTGAACT
** * * * * * * * *
373976 TTAAAAGGGTGCCATGGAGTTGTGGACTTTAAAAGAACGCCACGGAGTTGTGGACTTGAAACAG-
1 TTAAAAGAATACCACGGAATTGTGGACTTTAAAAGTAGGCCACAGAATTGTGAACTT-AAA-AGA
* *
374040 ATGCCACGGAGTTGTGAAC-
64 ATGCCATGGAGTAGTGAACT
** * * * * * * * **
374059 TTAAAAGGGTGCCATGGAGTTATGGAC-TAAAAAGGATGCCACAGAATTGTGAACTTAAAAGGGT
1 TTAAAAGAATACCACGGAATTGTGGACTTTAAAAGTAGGCCACAGAATTGTGAACTTAAAAGAAT
374123 GCCATGGAGTAGTGAACT
66 GCCATGGAGTAGTGAACT
** * ** * *
374141 TTAAAAGGGTACCACGGAGTTGTGGACTTTAAAAGTATACCACAGAGTTGTGGACTTAAAAGAAT
1 TTAAAAGAATACCACGGAATTGTGGACTTTAAAAGTAGGCCACAGAATTGTGAACTTAAAAGAAT
* *
374206 GCCATGGAGTTGTGGACT
66 GCCATGGAGTAGTGAACT
* *
374224 TTGAAAAGAAATACCACTGAATTGTGGACTTT-GAAG-AGGCCACAG
1 TT-AAAAG-AATACCACGGAATTGTGGACTTTAAAAGTAGGCCACAG
374269 TACTGGGGAG
Statistics
Matches: 247, Mismatches: 36, Indels: 18
0.82 0.12 0.06
Matches are distributed among these distances:
80 2 0.01
81 45 0.18
82 68 0.28
83 103 0.42
84 10 0.04
85 19 0.08
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (83 bp):
TTAAAAGAATACCACGGAATTGTGGACTTTAAAAGTAGGCCACAGAATTGTGAACTTAAAAGAAT
GCCATGGAGTAGTGAACT
Found at i:378550 original size:20 final size:19
Alignment explanation
Indices: 378527--378732 Score: 133
Period size: 20 Copynumber: 9.8 Consensus size: 19
378517 AAAAAGACAG
378527 AATGTATCGATACATTAAA
1 AATGTATCGATACATTAAA
* *
378546 GAATGTATCGATACAATCATA
1 -AATGTATCGATAC-ATTAAA
* *
378567 CATGTATCGATACATTGAAG
1 AATGTATCGATACATT-AAA
* *
378587 AATGTATCGATACAATCATA
1 AATGTATCGATAC-ATTAAA
*
378607 CATGTATCGATACATTGAAA
1 AATGTATCGATACATT-AAA
378627 AATGTATCGATACATGTAGGTAAAA
1 AATGTATCGATACA--T---T-AAA
*
378652 AGATAGAATATATCGATACATTGAAG
1 A-AT-G----TATCGATACATT-AAA
* *
378678 AATGTATGGATACATTCATA
1 AATGTATCGATACATT-AAA
*
378698 CATGTATCGATACATTGAAA
1 AATGTATCGATACATT-AAA
378718 AATGTATCGATACAT
1 AATGTATCGATACAT
378733 CTGGGTAAAA
Statistics
Matches: 145, Mismatches: 26, Indels: 30
0.72 0.13 0.15
Matches are distributed among these distances:
19 4 0.03
20 108 0.74
21 6 0.04
22 1 0.01
24 1 0.01
25 7 0.05
26 6 0.04
27 1 0.01
29 1 0.01
31 10 0.07
ACGTcount: A:0.42, C:0.12, G:0.16, T:0.30
Consensus pattern (19 bp):
AATGTATCGATACATTAAA
Found at i:378588 original size:40 final size:40
Alignment explanation
Indices: 378528--378640 Score: 208
Period size: 40 Copynumber: 2.8 Consensus size: 40
378518 AAAAGACAGA
*
378528 ATGTATCGATACATTAAAGAATGTATCGATACAATCATAC
1 ATGTATCGATACATTGAAGAATGTATCGATACAATCATAC
378568 ATGTATCGATACATTGAAGAATGTATCGATACAATCATAC
1 ATGTATCGATACATTGAAGAATGTATCGATACAATCATAC
*
378608 ATGTATCGATACATTGAAAAATGTATCGATACA
1 ATGTATCGATACATTGAAGAATGTATCGATACA
378641 TGTAGGTAAA
Statistics
Matches: 71, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 71 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (40 bp):
ATGTATCGATACATTGAAGAATGTATCGATACAATCATAC
Found at i:378680 original size:91 final size:91
Alignment explanation
Indices: 378571--378743 Score: 310
Period size: 91 Copynumber: 1.9 Consensus size: 91
378561 ATCATACATG
378571 TATCGATACATTGAAGAATGTATCGATACAATCATACATGTATCGATACATTGAAAAATGTATCG
1 TATCGATACATTGAAGAATGTATCGATACAATCATACATGTATCGATACATTGAAAAATGTATCG
*
378636 ATACATGTAGGTAAAAAGATAGAATA
66 ATACATCTAGGTAAAAAGATAGAATA
* *
378662 TATCGATACATTGAAGAATGTATGGATACATTCATACATGTATCGATACATTGAAAAATGTATCG
1 TATCGATACATTGAAGAATGTATCGATACAATCATACATGTATCGATACATTGAAAAATGTATCG
*
378727 ATACATCTGGGTAAAAA
66 ATACATCTAGGTAAAAA
378744 TGTGACTTTT
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
91 78 1.00
ACGTcount: A:0.42, C:0.12, G:0.17, T:0.29
Consensus pattern (91 bp):
TATCGATACATTGAAGAATGTATCGATACAATCATACATGTATCGATACATTGAAAAATGTATCG
ATACATCTAGGTAAAAAGATAGAATA
Found at i:378714 original size:131 final size:132
Alignment explanation
Indices: 378479--378731 Score: 418
Period size: 131 Copynumber: 1.9 Consensus size: 132
378469 TAACTAGATA
* *
378479 TATCGATATATTGAAAAATGTATCGATACATCTAGGAAAAAAAGACAGAATGTATCGATACATTA
1 TATCGATACATTGAAAAATGTATCGATACATCTAGGAAAAAAAGACAGAATATATCGATACATTA
*
378544 AAGAATGTATCGATACAATCATACATGTATCGATACATTGAAGAATGTATCGATACAATCATACA
66 AAGAATGTATCGATACAATCATACATGTATCGATACATTGAAAAATGTATCGATACAATCATACA
378609 TG
131 TG
* * * *
378611 TATCGATACATTGAAAAATGTATCGATACATGTAGG-TAAAAAGATAGAATATATCGATACATTG
1 TATCGATACATTGAAAAATGTATCGATACATCTAGGAAAAAAAGACAGAATATATCGATACATTA
* *
378675 AAGAATGTATGGATACATTCATACATGTATCGATACATTGAAAAATGTATCGATACA
66 AAGAATGTATCGATACAATCATACATGTATCGATACATTGAAAAATGTATCGATACA
378732 TCTGGGTAAA
Statistics
Matches: 112, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
131 78 0.70
132 34 0.30
ACGTcount: A:0.43, C:0.12, G:0.16, T:0.29
Consensus pattern (132 bp):
TATCGATACATTGAAAAATGTATCGATACATCTAGGAAAAAAAGACAGAATATATCGATACATTA
AAGAATGTATCGATACAATCATACATGTATCGATACATTGAAAAATGTATCGATACAATCATACA
TG
Found at i:381252 original size:13 final size:12
Alignment explanation
Indices: 381203--381253 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
381193 ACCTTCACTG
381203 TTTCAAATTGAA
1 TTTCAAATTGAA
*
381215 TTTCAACATTTACTA
1 TTTCAA-ATTGA--A
381230 TTTCAAATTGAA
1 TTTCAAATTGAA
381242 TTTCAAAATTGA
1 TTTC-AAATTGA
381254 CGGCACAGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 11 0.33
13 11 0.33
14 4 0.12
15 7 0.21
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (12 bp):
TTTCAAATTGAA
Found at i:385989 original size:13 final size:12
Alignment explanation
Indices: 385940--385990 Score: 57
Period size: 12 Copynumber: 3.9 Consensus size: 12
385930 ACCTTCACTG
385940 TTTCAAATTGAA
1 TTTCAAATTGAA
*
385952 TTTCAACATTTACTA
1 TTTCAA-ATTGA--A
385967 TTTCAAATTGAA
1 TTTCAAATTGAA
385979 TTTCAAAATTGA
1 TTTC-AAATTGA
385991 CGGCACAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
12 11 0.33
13 11 0.33
14 4 0.12
15 7 0.21
ACGTcount: A:0.39, C:0.12, G:0.06, T:0.43
Consensus pattern (12 bp):
TTTCAAATTGAA
Found at i:392940 original size:3 final size:3
Alignment explanation
Indices: 392932--392964 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
392922 AATTCTTTTA
392932 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
392965 TTTGATTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:393580 original size:12 final size:12
Alignment explanation
Indices: 393565--393604 Score: 66
Period size: 12 Copynumber: 3.5 Consensus size: 12
393555 GTTTTTATTA
393565 TTATTATTATAT
1 TTATTATTATAT
393577 TTATTATTATAT
1 TTATTATTATAT
393589 TTATT-TTA-AT
1 TTATTATTATAT
393599 TTATTA
1 TTATTA
393605 AATTTAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 17 0.63
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTATTATTATAT
Found at i:393624 original size:14 final size:14
Alignment explanation
Indices: 393586--393624 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
393576 TTTATTATTA
393586 TATTTATTTTAATT
1 TATTTATTTTAATT
* *
393600 TATTAAATTTAATT
1 TATTTATTTTAATT
*
393614 TTTTTATTTTA
1 TATTTATTTTA
393625 TTGACACATA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (14 bp):
TATTTATTTTAATT
Found at i:393699 original size:21 final size:23
Alignment explanation
Indices: 393675--393730 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
393665 TTACTAAAAT
*
393675 TAAATATAAT-TTAAAATT-TAA
1 TAAAAATAATATTAAAATTATAA
*
393696 TAAAAATAATCATTAAATTTATAA
1 TAAAAATAAT-ATTAAAATTATAA
393720 TAAAAATAATA
1 TAAAAATAATA
393731 GTTATCCGAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
21 9 0.30
23 8 0.27
24 13 0.43
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TAAAAATAATATTAAAATTATAA
Found at i:393725 original size:24 final size:23
Alignment explanation
Indices: 393685--393729 Score: 72
Period size: 24 Copynumber: 1.9 Consensus size: 23
393675 TAAATATAAT
393685 TTAAAATTTAATAAAAATAATCA
1 TTAAAATTTAATAAAAATAATCA
*
393708 TTAAATTTATAATAAAAATAAT
1 TTAAAATT-TAATAAAAATAAT
393730 AGTTATCCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 7 0.35
24 13 0.65
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
TTAAAATTTAATAAAAATAATCA
Found at i:393848 original size:29 final size:29
Alignment explanation
Indices: 393812--393874 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
393802 ATCATTTGTT
*
393812 AAAA-TTTAAAAATTAAT-TTAATATTTAA
1 AAAATTTTAAAAATAAATATTAA-ATTTAA
*
393840 AAAATTTTAAATATAAATATTAAATTTAA
1 AAAATTTTAAAAATAAATATTAAATTTAA
393869 AAAATT
1 AAAATT
393875 AATTAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
28 4 0.13
29 23 0.74
30 4 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AAAATTTTAAAAATAAATATTAAATTTAA
Found at i:393889 original size:31 final size:30
Alignment explanation
Indices: 393829--393889 Score: 88
Period size: 29 Copynumber: 2.0 Consensus size: 30
393819 AAAAATTAAT
*
393829 TTAATATTTAAAAAATTTTAAATATAAATA
1 TTAATATTTAAAAAATTTTAAATAAAAATA
393859 TTAA-ATTTAAAAAATTAATTAAATAAAAATA
1 TTAATATTTAAAAAATT--TTAAATAAAAATA
393890 AAAAAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
29 12 0.43
30 4 0.14
31 12 0.43
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (30 bp):
TTAATATTTAAAAAATTTTAAATAAAAATA
Found at i:406909 original size:28 final size:28
Alignment explanation
Indices: 406828--406909 Score: 96
Period size: 28 Copynumber: 2.9 Consensus size: 28
406818 TTTTGGAGAT
*
406828 AATAACGAGGTTGGAGTGTTCCCTCG--GA
1 AATAACGAGGTTGGAGT-AT-CCTCGATGA
* * *
406856 AGTAACGGGGTTGGAGTATCCCCGATGA
1 AATAACGAGGTTGGAGTATCCTCGATGA
406884 AATAACGAGGTTGGAGTATCCTCGAT
1 AATAACGAGGTTGGAGTATCCTCGAT
406910 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
26 4 0.09
27 1 0.02
28 40 0.89
ACGTcount: A:0.27, C:0.17, G:0.32, T:0.24
Consensus pattern (28 bp):
AATAACGAGGTTGGAGTATCCTCGATGA
Found at i:407054 original size:51 final size:51
Alignment explanation
Indices: 406892--407062 Score: 189
Period size: 51 Copynumber: 3.3 Consensus size: 51
406882 GAAATAACGA
* * *
406892 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTA-TTTTGAAAATAAAATCGG
** * * * * *
406944 AATTGGAGTATCCCCGATTAAAGGAGAAATTGGTGTTGTGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT--ATGAAAAATTGGTATTTTGAAAATAAAATCGG
* * * *
406997 GGTTGGAGTATCCCCGATTATGAAAAATCGATATTTTAAAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
407048 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
407063 TCAGAAATAA
Statistics
Matches: 96, Mismatches: 21, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
51 38 0.40
52 16 0.17
53 32 0.33
54 10 0.10
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTGGTATTTTGAAAATAAAATCGG
Found at i:407108 original size:27 final size:28
Alignment explanation
Indices: 407045--407116 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
407035 AAAATAAAGT
407045 CGGGGTTGGAGTATCCCCTCAGAAATAA
1 CGGGGTTGGAGTATCCCCTCAGAAATAA
* *
407073 CGGGGTTGGAGTATCCCC-GATG-ATTAA
1 CGGGGTTGGAGTATCCCCTCA-GAAATAA
*
407100 CGGGGTTGGAGTGTCCC
1 CGGGGTTGGAGTATCCC
407117 GATTGTGAAG
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 21 0.52
28 19 0.47
ACGTcount: A:0.21, C:0.21, G:0.35, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCTCAGAAATAA
Found at i:409582 original size:13 final size:13
Alignment explanation
Indices: 409564--409590 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
409554 AAAATTTCCA
409564 AATGTATCGATAC
1 AATGTATCGATAC
409577 AATGTATCGATAC
1 AATGTATCGATAC
409590 A
1 A
409591 CAGAAAAATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:409654 original size:19 final size:18
Alignment explanation
Indices: 409630--409697 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
409620 CAGTAGCTAA
409630 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
409649 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
409664 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
409681 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
409698 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:409670 original size:13 final size:13
Alignment explanation
Indices: 409652--409676 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
409642 ACAATACTTA
409652 TGTATCGATACAT
1 TGTATCGATACAT
409665 TGTATCGATACA
1 TGTATCGATACA
409677 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:409674 original size:32 final size:32
Alignment explanation
Indices: 409633--409695 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
409623 TAGCTAATTA
*
409633 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
409665 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
409696 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:409776 original size:21 final size:21
Alignment explanation
Indices: 409752--409808 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
409742 CATTTGTAGG
409752 ATGTATCGATACATTCCACAA
1 ATGTATCGATACATTCCACAA
*
409773 ATGTATCGATACATTCTACAA
1 ATGTATCGATACATTCCACAA
*
409794 ATGTATTGATACATT
1 ATGTATCGATACATT
409809 TGGAATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.37, C:0.18, G:0.11, T:0.35
Consensus pattern (21 bp):
ATGTATCGATACATTCCACAA
Found at i:409846 original size:15 final size:14
Alignment explanation
Indices: 409829--409856 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
409819 TTTTCTTTTT
409829 TTTTTTTTTTCAAA
1 TTTTTTTTTTCAAA
409843 TTTTTTTTTTCAAA
1 TTTTTTTTTTCAAA
409857 CACTTTATCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTTTTTTTCAAA
Found at i:414549 original size:5 final size:5
Alignment explanation
Indices: 414541--414578 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
414531 AAAAAAAGAG
414541 ACAAA ACAAA ACAAA ACAAA AC-AA AC-AA AC-AA ACAAA A
1 ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA ACAAA A
414579 AATTTTAAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 12 0.38
5 20 0.62
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (5 bp):
ACAAA
Found at i:416035 original size:29 final size:29
Alignment explanation
Indices: 415996--416206 Score: 182
Period size: 29 Copynumber: 7.3 Consensus size: 29
415986 TCACCCTTCA
* * *
415996 AAAGCCCACAAGTCAATGGCATCTTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTC
* *
416025 AAAGCCCACAAGTCAATGGCA-AC-TTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTC
* *
416052 AAAAGCCCACAAGTCGGTGGCACCCCTTTC
1 -AAAGCCCACAAGTCAGTGGCACCCTTTTC
* *
416082 AAAGCCCATAAGTCAGTGGTACCCTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTC
* * **
416111 AAAGCCCATAAGTCAGCGGCA-TGTTTTC
1 AAAGCCCACAAGTCAGTGGCACCCTTTTC
* *
416139 AAAAGCCCACAAGTCAGTGGCAACC-TTTA
1 -AAAGCCCACAAGTCAGTGGCACCCTTTTC
* **
416168 AAAGCACACAAGTTGGT-GCAACCC-TTTC
1 AAAGCCCACAAGTCAGTGGC-ACCCTTTTC
416196 AAAAGCCCACA
1 -AAAGCCCACA
416207 TAAGTTGGTG
Statistics
Matches: 151, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
27 6 0.04
28 44 0.29
29 97 0.64
30 4 0.03
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (29 bp):
AAAGCCCACAAGTCAGTGGCACCCTTTTC
Found at i:416061 original size:57 final size:57
Alignment explanation
Indices: 415992--416206 Score: 204
Period size: 57 Copynumber: 3.8 Consensus size: 57
415982 TTCCTCACCC
* * *
415992 TTCAAAAGCCCACAAGTCAATGGCATCTTTTTCAAAGCCCACAAGTCAATGGCAACT
1 TTCAAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCAACT
* * * * * *
416049 TTCAAAAGCCCACAAGTCGGTGGCACCCCTTTCAAAGCCCATAAGTCAGTGGTACCCTT
1 TTCAAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCA-AC-T
* * *
416108 TTC-AAAGCCCATAAGTCAGCGGCAT-GTTTTCAAAAGCCCACAAGTCAGTGGCAACCT
1 TTCAAAAGCCCACAAGTCAGTGGCATCCTTTTC-AAAGCCCACAAGTCAGTGGCAA-CT
* ** * *
416165 TT-AAAAGCACACAAGTTGGT-GCAACCCTTTCAAAAGCCCACA
1 TTCAAAAGCCCACAAGTCAGTGGCATCCTTTTC-AAAGCCCACA
416207 TAAGTTGGTG
Statistics
Matches: 126, Mismatches: 26, Indels: 12
0.77 0.16 0.07
Matches are distributed among these distances:
56 3 0.02
57 80 0.63
58 39 0.31
59 4 0.03
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (57 bp):
TTCAAAAGCCCACAAGTCAGTGGCATCCTTTTCAAAGCCCACAAGTCAGTGGCAACT
Found at i:416144 original size:115 final size:115
Alignment explanation
Indices: 415996--416204 Score: 298
Period size: 115 Copynumber: 1.8 Consensus size: 115
415986 TCACCCTTCA
* * *
415996 AAAGCCCACAAGTCAATGGCATCTTTTTCAAAGCCCACAAGTCAATGGCAA-CTTTCAAAAGCCC
1 AAAGCCCACAAGTCAACGGCATCGTTTTCAAAGCCCACAAGTCAATGGCAACCTTT-AAAAGCAC
*
416060 ACAAGTCGGTGGCACCCCTTTC-AAAGCCCATAAGTCAGTGGTACCCTTTTC
65 ACAAGTCGGT-GCAACCCTTTCAAAAGCCCATAAGTCAGTGGTACCCTTTTC
* * *
416111 AAAGCCCATAAGTCAGCGGCAT-GTTTTCAAAAGCCCACAAGTCAGTGGCAACCTTTAAAAGCAC
1 AAAGCCCACAAGTCAACGGCATCGTTTTC-AAAGCCCACAAGTCAATGGCAACCTTTAAAAGCAC
*
416175 ACAAGTTGGTGCAACCCTTTCAAAAGCCCA
65 ACAAGTCGGTGCAACCCTTTCAAAAGCCCA
416205 CATAAGTTGG
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
114 15 0.18
115 64 0.77
116 4 0.05
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (115 bp):
AAAGCCCACAAGTCAACGGCATCGTTTTCAAAGCCCACAAGTCAATGGCAACCTTTAAAAGCACA
CAAGTCGGTGCAACCCTTTCAAAAGCCCATAAGTCAGTGGTACCCTTTTC
Found at i:416192 original size:86 final size:86
Alignment explanation
Indices: 416020--416206 Score: 216
Period size: 86 Copynumber: 2.2 Consensus size: 86
416010 AATGGCATCT
* * * *
416020 TTTTCAAAGCCCACAAGTCAATGGCAACTTTCAAAAGCCCACAAGTCGGTGGCACCCCTTTCAAA
1 TTTTCAAAGCCCACAAGTCAACGGCAACTTTCAAAAGCCCACAAGTCAGTGGCACACCTTTAAAA
* * **
416085 GCCCATAAGTCAGTGGTACCC
66 GCACACAAGTCAGTGCAACCC
* * **
416106 TTTTCAAAGCCCATAAGTCAGCGGCATGTTTTCAAAAGCCCACAAGTCAGTGGCA-ACCTTTAAA
1 TTTTCAAAGCCCACAAGTCAACGGCA-ACTTTCAAAAGCCCACAAGTCAGTGGCACACCTTTAAA
**
416170 AGCACACAAGTTGGTGCAACCC
65 AGCACACAAGTCAGTGCAACCC
416192 -TTTCAAAAGCCCACA
1 TTTTC-AAAGCCCACA
416207 TAAGTTGGTG
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
85 4 0.05
86 55 0.65
87 25 0.30
ACGTcount: A:0.32, C:0.29, G:0.17, T:0.21
Consensus pattern (86 bp):
TTTTCAAAGCCCACAAGTCAACGGCAACTTTCAAAAGCCCACAAGTCAGTGGCACACCTTTAAAA
GCACACAAGTCAGTGCAACCC
Found at i:416280 original size:43 final size:43
Alignment explanation
Indices: 416226--416683 Score: 393
Period size: 43 Copynumber: 10.1 Consensus size: 43
416216 GGCATCTTCT
* *
416226 TTTAAGTCCAATATCGCTAGCCTTGAATCAGTATATTGGCACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* *
416269 TTTAAGTCCAATGTCGCT-GCTTTGAATCAGCATATTGGCACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* * * **
416311 TTTAAGTCCAATGTCGTTGGCTTTGAATCAGCGCATTGGCATCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCA----C--C
* *
416360 TTTAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* **
416403 TTTAAGTCCAATGTCG-TCGGCCTTGAATCAGCGCATTGGCATCTTCATC
1 TTTAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTGGCA----C--C
*
416452 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* * *
416495 TTTAAGTCCAATGTC-TTCGGCCTTGAATCAGCACATTGGCATCTTCATC
1 TTTAAGTCCAATATCGCT-GGCCTTGAATCAGCATATTGGCA----C--C
*
416544 TTTACA-TCCAATATCGCTGGCCTTGAATCAGCATATTAGCACC
1 TTTA-AGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
* * * * *
416587 TTTAAGTCCAATGTCACCGGCCTTGAATCAGCACATTGGTATCTTCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG------CACC
* * * *
416636 TTTAAGTCCGATATCGTTAGCCTTGAATCAGCATATTGGCATC
1 TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
416679 TTTAA
1 TTTAA
416684 CATTCCTAAG
Statistics
Matches: 341, Mismatches: 43, Indels: 62
0.76 0.10 0.14
Matches are distributed among these distances:
42 42 0.12
43 150 0.44
45 3 0.01
47 3 0.01
49 140 0.41
50 3 0.01
ACGTcount: A:0.25, C:0.24, G:0.17, T:0.33
Consensus pattern (43 bp):
TTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
Found at i:416386 original size:49 final size:49
Alignment explanation
Indices: 416310--416680 Score: 361
Period size: 49 Copynumber: 7.9 Consensus size: 49
416300 ATATTGGCAC
* * * *
416310 CTTTAAGTCCAATGTCGTTGGCTTTGAATCAGCGCATTGGCATCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT
* * *
416359 CTTTAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCA----C--
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT
* *
416402 CTTTAAGTCCAATGTCG-TCGGCCTTGAATCAGCGCATTGGCATCTTCAT
1 CTTTAAGTCCAATATCGCT-GGCCTTGAATCAGCACATTGGCATCTTCAT
* *
416451 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGG-----T-AC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT
* *
416494 CTTTAAGTCCAATGTC-TTCGGCCTTGAATCAGCACATTGGCATCTTCAT
1 CTTTAAGTCCAATATCGCT-GGCCTTGAATCAGCACATTGGCATCTTCAT
* *
416543 CTTTACA-TCCAATATCGCTGGCCTTGAATCAGCATATTAGCA----C--
1 CTTTA-AGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT
* * * *
416586 CTTTAAGTCCAATGTCACCGGCCTTGAATCAGCACATTGGTATCTTCAT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT
* * * *
416635 CTTTAAGTCCGATATCGTTAGCCTTGAATCAGCATATTGGCATCTT
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTT
416681 TAACATTCCT
Statistics
Matches: 260, Mismatches: 38, Indels: 48
0.75 0.11 0.14
Matches are distributed among these distances:
42 3 0.01
43 105 0.40
44 1 0.00
45 2 0.01
47 2 0.01
48 1 0.00
49 143 0.55
50 3 0.01
ACGTcount: A:0.24, C:0.25, G:0.17, T:0.33
Consensus pattern (49 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCACATTGGCATCTTCAT
Found at i:416429 original size:92 final size:92
Alignment explanation
Indices: 416268--416683 Score: 647
Period size: 92 Copynumber: 4.5 Consensus size: 92
416258 ATATTGGCAC
* * *
416268 CTTTAAGTCCAATGTCGCT-GCTTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGTTGGC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGTCGGC
* *
416332 TTTGAATCAGCGCATTGGCATCTTCAT
66 CTTGAATCAGCACATTGGCATCTTCAT
* *
416359 CTTTAAGTCCAATATCACTGGCCTTGAATCAACATATTGGCACCTTTAAGTCCAATGTCGTCGGC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGTCGGC
*
416424 CTTGAATCAGCGCATTGGCATCTTCAT
66 CTTGAATCAGCACATTGGCATCTTCAT
* *
416451 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGTACCTTTAAGTCCAATGTCTTCGGC
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGTCGGC
416516 CTTGAATCAGCACATTGGCATCTTCAT
66 CTTGAATCAGCACATTGGCATCTTCAT
* **
416543 CTTTACA-TCCAATATCGCTGGCCTTGAATCAGCATATTAGCACCTTTAAGTCCAATGTCACCGG
1 CTTTA-AGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGTCGG
*
416607 CCTTGAATCAGCACATTGGTATCTTCAT
65 CCTTGAATCAGCACATTGGCATCTTCAT
* * * *
416635 CTTTAAGTCCGATATCGTTAGCCTTGAATCAGCATATTGGCATCTTTAA
1 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAA
416684 CATTCCTAAG
Statistics
Matches: 301, Mismatches: 21, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
91 18 0.06
92 282 0.94
93 1 0.00
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (92 bp):
CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAAGTCCAATGTCGTCGGC
CTTGAATCAGCACATTGGCATCTTCAT
Found at i:423639 original size:6 final size:6
Alignment explanation
Indices: 423604--423687 Score: 77
Period size: 6 Copynumber: 14.0 Consensus size: 6
423594 GTTTCTCTTC
* *
423604 TTTT-T TTTTCT TTTT-T TTTTCCAT TCTTCT TTTTCT TTTTCG TTTTCT
1 TTTTCT TTTTCT TTTTCT TTTT-C-T TTTTCT TTTTCT TTTTCT TTTTCT
*
423652 TTTTC- TTTTCT TTCTT-T CTTTCT TCTTTCT TTTTCT
1 TTTTCT TTTTCT TT-TTCT TTTTCT T-TTTCT TTTTCT
423688 CCTTCCCCCC
Statistics
Matches: 65, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
5 16 0.25
6 36 0.55
7 9 0.14
8 4 0.06
ACGTcount: A:0.01, C:0.19, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTCT
Found at i:423655 original size:32 final size:31
Alignment explanation
Indices: 423599--423686 Score: 94
Period size: 32 Copynumber: 2.9 Consensus size: 31
423589 TGGAAGTTTC
*
423599 TCTTC-TTTT-TTTTTCTTTTTTTTTTCCAT
1 TCTTCTTTTTCTTTTTCTTTTCTTTTTCCAT
**
423628 TCTTCTTTTTCTTTTTCGTTTTCTTTTTCTTT
1 TCTTCTTTTTCTTTTTC-TTTTCTTTTTCCAT
*
423660 TCTT-TCTTTCTTTCTTC-TTTCTTTTTC
1 TCTTCTTTTTCTTT-TTCTTTTCTTTTTC
423687 TCCTTCCCCC
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
29 5 0.10
30 14 0.27
31 14 0.27
32 18 0.35
ACGTcount: A:0.01, C:0.20, G:0.01, T:0.77
Consensus pattern (31 bp):
TCTTCTTTTTCTTTTTCTTTTCTTTTTCCAT
Found at i:423669 original size:19 final size:19
Alignment explanation
Indices: 423610--423683 Score: 66
Period size: 19 Copynumber: 3.9 Consensus size: 19
423600 CTTCTTTTTT
* *
423610 TTTCTTTTTTTTTTCCATTC
1 TTTCTTTTTCTTTT-CTTTC
*
423630 -TTCTTTTTCTTTT-TCGT-
1 TTTCTTTTTCTTTTCT-TTC
423647 TTTCTTTTTCTTTTCTTTC
1 TTTCTTTTTCTTTTCTTTC
423666 TTTCTTTCTTC-TTTCTTT
1 TTTCTTT-TTCTTTTCTTT
423684 TTCTCCTTCC
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
18 15 0.33
19 27 0.60
20 3 0.07
ACGTcount: A:0.01, C:0.20, G:0.01, T:0.77
Consensus pattern (19 bp):
TTTCTTTTTCTTTTCTTTC
Found at i:425804 original size:11 final size:11
Alignment explanation
Indices: 425788--425924 Score: 106
Period size: 11 Copynumber: 12.5 Consensus size: 11
425778 ATTATAATTT
*
425788 TAAATATGATA
1 TAAATATAATA
*
425799 TAAATATATTA
1 TAAATATAATA
425810 TAAAATATAATA
1 T-AAATATAATA
*
425822 TAAATAATAATT
1 TAAAT-ATAATA
*
425834 TAAATATAATT
1 TAAATATAATA
425845 TAAATTAATAATAA
1 TAAA-T-ATAAT-A
425859 TAAATATAATA
1 TAAATATAATA
425870 TAAATATAAT-
1 TAAATATAATA
* *
425880 TTAATA-CATA
1 TAAATATAATA
*
425890 TAATTAT-AT-
1 TAAATATAATA
425899 TAAA-ATGAATA
1 TAAATAT-AATA
*
425910 TAAAAATAAT-
1 TAAATATAATA
425920 TAAAT
1 TAAAT
425925 TATTAAAATA
Statistics
Matches: 104, Mismatches: 11, Indels: 23
0.75 0.08 0.17
Matches are distributed among these distances:
8 2 0.02
9 5 0.05
10 17 0.16
11 42 0.40
12 28 0.27
13 6 0.06
14 4 0.04
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (11 bp):
TAAATATAATA
Found at i:425806 original size:23 final size:23
Alignment explanation
Indices: 425780--425881 Score: 109
Period size: 23 Copynumber: 4.3 Consensus size: 23
425770 TTAAATATAT
*
425780 TATAATTTTAAATATGATATAAA
1 TATAATTTTAAATATAATATAAA
*
425803 TAT-ATTATAAAATATAATATAAA
1 TATAATT-TTAAATATAATATAAA
*
425826 TAATAA-TTTAAATATAATTTAAA
1 T-ATAATTTTAAATATAATATAAA
**
425849 TTAATAATAATAAATATAATATAAA
1 -T-ATAATTTTAAATATAATATAAA
425874 TATAATTT
1 TATAATTT
425882 AATACATATA
Statistics
Matches: 65, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
22 3 0.05
23 37 0.57
24 10 0.15
25 15 0.23
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (23 bp):
TATAATTTTAAATATAATATAAA
Found at i:425817 original size:12 final size:12
Alignment explanation
Indices: 425789--425923 Score: 79
Period size: 12 Copynumber: 11.2 Consensus size: 12
425779 TTATAATTTT
*
425789 AAATATGATAT-
1 AAATATAATATA
*
425800 AAATATATTATA
1 AAATATAATATA
425812 AAATATAATAT-
1 AAATATAATATA
*
425823 AAATAATAAT-TT
1 AAAT-ATAATATA
*
425835 AAATATAATTTA
1 AAATATAATATA
*
425847 AATTAATAATA-A
1 AAAT-ATAATATA
425859 TAAATATAATAT-
1 -AAATATAATATA
*
425871 AAATATAATTTA
1 AAATATAATATA
425883 ATACATATAATTATA
1 A-A-ATATAA-TATA
425898 TTAAA-ATGAATATA
1 --AAATAT-AATATA
425912 AAA-ATAAT-TA
1 AAATATAATATA
425922 AA
1 AA
425924 TTATTAAAAT
Statistics
Matches: 101, Mismatches: 9, Indels: 29
0.73 0.06 0.21
Matches are distributed among these distances:
10 4 0.04
11 32 0.32
12 36 0.36
13 9 0.09
14 12 0.12
15 6 0.06
16 1 0.01
17 1 0.01
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (12 bp):
AAATATAATATA
Found at i:425867 original size:6 final size:6
Alignment explanation
Indices: 425796--425878 Score: 52
Period size: 6 Copynumber: 14.0 Consensus size: 6
425786 TTTAAATATG
* *
425796 ATATAA ATAT-A TTATAA A-ATATA ATATAA ATA-ATA ATTTAA ATAT-A
1 ATATAA ATATAA ATATAA ATATA-A ATATAA ATATA-A ATATAA ATATAA
*
425842 ATTTAA AT-TAATA ATAATAA ATAT-A ATATAA ATATAA
1 ATATAA ATAT-A-A AT-ATAA ATATAA ATATAA ATATAA
425879 TTTAATACAT
Statistics
Matches: 61, Mismatches: 5, Indels: 22
0.69 0.06 0.25
Matches are distributed among these distances:
5 18 0.30
6 31 0.51
7 10 0.16
8 1 0.02
9 1 0.02
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (6 bp):
ATATAA
Found at i:425867 original size:25 final size:25
Alignment explanation
Indices: 425788--425934 Score: 98
Period size: 23 Copynumber: 6.1 Consensus size: 25
425778 ATTATAATTT
* *
425788 TAAATATGATATAAA-T-AT-ATTA
1 TAAATATAATATAAATTAATAATAA
*
425810 TAAAATATAATATAAA-TAATAAT-T
1 T-AAATATAATATAAATTAATAATAA
*
425834 TAAATATAATTTAAATTAATAATAA
1 TAAATATAATATAAATTAATAATAA
*
425859 TAAATATAATATAAATATAAT-TTAA
1 TAAATATAATATAAAT-TAATAATAA
* *
425884 TACATATAAT-TATATTAA-AATGAATA
1 TAAATATAATATAAATTAATAAT--A-A
* *
425910 TAAAAATAAT-TAAATTATTAA-AA
1 TAAATATAATATAAATTAATAATAA
425933 TA
1 TA
425935 TTAAAATTTA
Statistics
Matches: 101, Mismatches: 13, Indels: 21
0.75 0.10 0.16
Matches are distributed among these distances:
22 1 0.01
23 34 0.34
24 15 0.15
25 30 0.30
26 19 0.19
27 2 0.02
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (25 bp):
TAAATATAATATAAATTAATAATAA
Found at i:425924 original size:20 final size:19
Alignment explanation
Indices: 425796--425924 Score: 80
Period size: 20 Copynumber: 6.9 Consensus size: 19
425786 TTTAAATATG
425796 ATATAAATAT-ATTATAA-A
1 ATATAAATATAATTA-AATA
*
425814 ATAT-AATATAAAT-AATA
1 ATATAAATATAATTAAATA
*
425831 ATTTAAATATAATTTAAATTA
1 ATATAAATATAA-TTAAA-TA
425852 ATA-ATAATA-AA-T--ATA
1 ATATA-AATATAATTAAATA
*
425867 ATATAAATATAATTTAATA
1 ATATAAATATAATTAAATA
*
425886 CATATAATTAT-ATTAAAATGA
1 -ATATAAATATAATT-AAAT-A
*
425907 ATATAAAAATAATTAAAT
1 ATATAAATATAATTAAAT
425925 TATTAAAATA
Statistics
Matches: 87, Mismatches: 8, Indels: 30
0.70 0.06 0.24
Matches are distributed among these distances:
15 9 0.10
16 6 0.07
17 10 0.11
18 14 0.16
19 7 0.08
20 29 0.33
21 12 0.14
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.39
Consensus pattern (19 bp):
ATATAAATATAATTAAATA
Found at i:426335 original size:6 final size:6
Alignment explanation
Indices: 426324--426384 Score: 51
Period size: 6 Copynumber: 10.3 Consensus size: 6
426314 TGGGCGTATT
426324 ATTTAA ATTTAA A-TT-- ATTTAA ATTT-A ATTTATTA ATTTTAAA ATTT-A
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTA--A A-TTT-AA ATTTAA
426371 ATTTAA ATTTAA AT
1 ATTTAA ATTTAA AT
426385 AAATTATTTG
Statistics
Matches: 46, Mismatches: 0, Indels: 18
0.72 0.00 0.28
Matches are distributed among these distances:
3 1 0.02
4 2 0.04
5 12 0.26
6 20 0.43
7 3 0.07
8 4 0.09
9 3 0.07
10 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
ATTTAA
Found at i:426348 original size:21 final size:19
Alignment explanation
Indices: 426324--426380 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 19
426314 TGGGCGTATT
*
426324 ATTTAAATTTAAATTATTTAA
1 ATTT-AATTTAAATT-TTAAA
426345 ATTTAATTTATTAATTTTAAA
1 ATTTAATTTA--AATTTTAAA
426366 ATTTAATTTAAATTT
1 ATTTAATTTAAATTT
426381 AAATAAATTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
19 5 0.15
20 6 0.18
21 18 0.55
22 4 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
ATTTAATTTAAATTTTAAA
Found at i:426358 original size:14 final size:15
Alignment explanation
Indices: 426321--426384 Score: 76
Period size: 15 Copynumber: 4.1 Consensus size: 15
426311 ATTTGGGCGT
426321 ATTATTTAAATTTAA
1 ATTATTTAAATTTAA
426336 ATTATTTAAATTTAA
1 ATTATTTAAATTTAA
* *
426351 TTTA-TTAATTTTAAA
1 ATTATTTAAATTT-AA
426366 ATTTAATTTAAATTTAA
1 A-TT-ATTTAAATTTAA
426383 AT
1 AT
426385 AAATTATTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
14 7 0.17
15 20 0.49
16 3 0.07
17 4 0.10
18 7 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
ATTATTTAAATTTAA
Found at i:426388 original size:21 final size:21
Alignment explanation
Indices: 426324--426389 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
426314 TGGGCGTATT
*
426324 ATTTAAATTTAAA-TTATTTAA
1 ATTT-AATTTAAATTTATATAA
426345 ATTTAATTTATTAATTT-TA-AA
1 ATTTAATTTA--AATTTATATAA
*
426366 ATTTAATTTAAATTTAAATAA
1 ATTTAATTTAAATTTATATAA
426387 ATT
1 ATT
426390 ATTTGATTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
19 5 0.13
20 7 0.18
21 21 0.55
22 3 0.08
23 2 0.05
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTAATTTAAATTTATATAA
Found at i:430022 original size:2 final size:2
Alignment explanation
Indices: 430015--430049 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
430005 TTAAAGATAA
430015 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
430050 GTTGTGCAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:430022 original size:22 final size:23
Alignment explanation
Indices: 429981--430023 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
429971 ATATGTATTT
*
429981 TTTAAAGAATAAGTAAATATAAA
1 TTTAAAGAATAAATAAATATAAA
*
430004 TTTAAAG-ATAAATATATATA
1 TTTAAAGAATAAATAAATATA
430024 TATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (23 bp):
TTTAAAGAATAAATAAATATAAA
Found at i:430767 original size:24 final size:24
Alignment explanation
Indices: 430717--430767 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
430707 TGTATATATT
*
430717 AAATTTAATAAATAAAATATAAAA
1 AAATTTAATAAATAAAATAGAAAA
* *
430741 AAATTTACTAAACTAAAA-AGAATA
1 AAATTTAATAAA-TAAAATAGAAAA
430765 AAA
1 AAA
430768 CACATAGCGT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 18 0.78
25 5 0.22
ACGTcount: A:0.69, C:0.04, G:0.02, T:0.25
Consensus pattern (24 bp):
AAATTTAATAAATAAAATAGAAAA
Found at i:436794 original size:59 final size:59
Alignment explanation
Indices: 436702--436840 Score: 230
Period size: 59 Copynumber: 2.4 Consensus size: 59
436692 TAATAAAAGA
* *
436702 AGTTTGTTGATCATGAAAACATGTTGACAGTTTCATTAATCTAGTTGCTATTGTTTAAG
1 AGTTTGTTGATCATGGAAACATGTTAACAGTTTCATTAATCTAGTTGCTATTGTTTAAG
*
436761 AGTTTGTTGATCATGGAAACATGTTAACAGTTTCATTAATCTAGTTGCTATTGTTTAGG
1 AGTTTGTTGATCATGGAAACATGTTAACAGTTTCATTAATCTAGTTGCTATTGTTTAAG
436820 AG--T-TTGATCATGGAAACATGT
1 AGTTTGTTGATCATGGAAACATGT
436841 GTCATGTAGT
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
56 18 0.23
57 1 0.01
59 58 0.75
ACGTcount: A:0.29, C:0.10, G:0.20, T:0.41
Consensus pattern (59 bp):
AGTTTGTTGATCATGGAAACATGTTAACAGTTTCATTAATCTAGTTGCTATTGTTTAAG
Found at i:438330 original size:15 final size:16
Alignment explanation
Indices: 438299--438331 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
438289 TAAATACCTG
*
438299 AATTTGAAAAAATTCA
1 AATTTGAAAAAAGTCA
438315 AATTTG-AAAAAGTCA
1 AATTTGAAAAAAGTCA
438330 AA
1 AA
438332 ACCGAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.58, C:0.06, G:0.09, T:0.27
Consensus pattern (16 bp):
AATTTGAAAAAAGTCA
Found at i:438610 original size:23 final size:23
Alignment explanation
Indices: 438584--438627 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
438574 TATGAAAAAA
*
438584 TATTTATAAT-TATTATACAATTT
1 TATTAATAATGTATTAT-CAATTT
438607 TATTAATAATGTATTATCAAT
1 TATTAATAATGTATTATCAAT
438628 AAAAGTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (23 bp):
TATTAATAATGTATTATCAATTT
Found at i:439385 original size:2 final size:2
Alignment explanation
Indices: 439380--439438 Score: 82
Period size: 2 Copynumber: 29.5 Consensus size: 2
439370 AGTGTGTGTG
* *
439380 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
439422 TA TT TA TA TA TG TA TA T
1 TA TA TA TA TA TA TA TA T
439439 GAGTTTAGTT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (2 bp):
TA
Found at i:442172 original size:26 final size:27
Alignment explanation
Indices: 442133--442186 Score: 67
Period size: 26 Copynumber: 2.0 Consensus size: 27
442123 AACAAAATGA
* *
442133 TTAAGATTTCAATA-ATTTTAAAATATT
1 TTAAAATTTCAATATA-TTTAAAAAATT
442160 TTAAAATTT-AATATATTTAAAAAATT
1 TTAAAATTTCAATATATTTAAAAAATT
442186 T
1 T
442187 GAGATCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 15 0.62
27 9 0.38
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (27 bp):
TTAAAATTTCAATATATTTAAAAAATT
Found at i:442182 original size:17 final size:17
Alignment explanation
Indices: 442149--442182 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
442139 TTTCAATAAT
*
442149 TTTAAAATATTTTAAAA
1 TTTAAAATATTTAAAAA
*
442166 TTTAATATATTTAAAAA
1 TTTAAAATATTTAAAAA
442183 ATTTGAGATC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTTAAAATATTTAAAAA
Found at i:443279 original size:19 final size:18
Alignment explanation
Indices: 443255--443295 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 18
443245 CTTTTTCTTG
*
443255 TATTTTTTACATTATATTT
1 TATTTTTTAAATTAT-TTT
443274 TATTTTTTAAATTATTTT
1 TATTTTTTAAATTATTTT
443292 TATT
1 TATT
443296 CAATTTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (18 bp):
TATTTTTTAAATTATTTT
Found at i:445242 original size:2 final size:2
Alignment explanation
Indices: 445230--445264 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
445220 GTTTTCATAA
*
445230 AT AT CT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
445265 ATAAGAATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:449032 original size:6 final size:6
Alignment explanation
Indices: 449023--449053 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
449013 AATAATATTC
*
449023 AAAAGA AAAAGA AAAGGA AAAAGA AAAAGA A
1 AAAAGA AAAAGA AAAAGA AAAAGA AAAAGA A
449054 TTAAAGACGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:450103 original size:22 final size:21
Alignment explanation
Indices: 450087--450140 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 21
450077 ATTATGATTA
450087 AAATTTTATATATTTATATAT
1 AAATTTTATATATTTATATAT
*
450108 AAATTTTAATATATTTTTATAAT
1 AAATTTT-ATATATTTATAT-AT
450131 AATATTTTAT
1 AA-ATTTTAT
450141 TTAAATTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 7 0.24
22 11 0.38
23 6 0.21
24 5 0.17
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
AAATTTTATATATTTATATAT
Found at i:450126 original size:24 final size:24
Alignment explanation
Indices: 450093--450139 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
450083 ATTAAAATTT
450093 TATATATTTATATATAA-ATTTTAA
1 TATATATTTATA-ATAATATTTTAA
*
450117 TATATTTTTATAATAATATTTTA
1 TATATATTTATAATAATATTTTA
450140 TTTAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TATATATTTATAATAATATTTTAA
Found at i:450165 original size:15 final size:15
Alignment explanation
Indices: 450119--450165 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 15
450109 AATTTTAATA
* *
450119 TATTTT-TATAATAA
1 TATTTTATATTATAT
*
450133 TATTTTAT-TTAAAT
1 TATTTTATATTATAT
450147 TATTTTATATTATAT
1 TATTTTATATTATAT
450162 TATT
1 TATT
450166 ATCACATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
14 17 0.63
15 10 0.37
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
TATTTTATATTATAT
Found at i:450770 original size:70 final size:77
Alignment explanation
Indices: 450688--450834 Score: 191
Period size: 77 Copynumber: 2.0 Consensus size: 77
450678 CAAATTAAAA
* * * * *
450688 AAATTTAATTAAA-TTAAAAA-AT-TCTTTTCA-AATT-ACATATTAATTATT-A-TTTTTTATA
1 AAATTTAATTAAATTTAAAAATATATATATTAATAATTAAAATATTAATTATTGAGTTTTTTAAA
*
450746 AAATAAGAAATT
66 AAATAAAAAATT
450758 AAATTTAATTAAATTTAAAAATATATATATTAATAATTAAAATATTAATTATTGAGTTTTTTAAA
1 AAATTTAATTAAATTTAAAAATATATATATTAATAATTAAAATATTAATTATTGAGTTTTTTAAA
450823 AAATAAAAAATT
66 AAATAAAAAATT
450835 TTAAATAAAA
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
70 13 0.20
71 7 0.11
72 2 0.03
73 5 0.08
74 4 0.06
75 13 0.20
76 1 0.02
77 19 0.30
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (77 bp):
AAATTTAATTAAATTTAAAAATATATATATTAATAATTAAAATATTAATTATTGAGTTTTTTAAA
AAATAAAAAATT
Found at i:450848 original size:16 final size:17
Alignment explanation
Indices: 450816--450848 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
450806 TTATTGAGTT
450816 TTTTAAAAAATAAAAAA
1 TTTTAAAAAATAAAAAA
450833 TTTTAAATAAA-AAAAA
1 TTTTAAA-AAATAAAAA
450849 GGCTATGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 12 0.80
18 3 0.20
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TTTTAAAAAATAAAAAA
Found at i:451347 original size:72 final size:70
Alignment explanation
Indices: 451154--451347 Score: 194
Period size: 72 Copynumber: 2.7 Consensus size: 70
451144 TAATAATATT
* * ** *
451154 ATTTATTTATATTTGTAAAAGTTTAAATTTATTTTTT-ATTTGATTATGTGGGTTTGAATTTTTA
1 ATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTTAATTTGATTA--TAAGTTTAAATTTTTA
451218 AGGAACA
64 AGGAACA
* * * *
451225 ATTTATTTTGATTTGTAGAAATTTAAATGTATTTTTTTAAGTATGA-TATAAGTTTAAATTTTTT
1 ATTTATTTTTATTTGTAAAAATTTAAATTTA-TTTTTTAA-TTTGATTATAAGTTTAAA-TTTTT
* ***
451289 ATGGCGTA
63 AAGGAACA
*
451297 ATTTATTTTTATTTATAAAAATTTAAGATTTATTTTTTAATTTGATTATAA
1 ATTTATTTTTATTTGTAAAAATTTAA-ATTTATTTTTTAATTTGATTATAA
451348 AACCTAAAAT
Statistics
Matches: 99, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
71 37 0.37
72 51 0.52
73 7 0.07
74 4 0.04
ACGTcount: A:0.33, C:0.01, G:0.11, T:0.55
Consensus pattern (70 bp):
ATTTATTTTTATTTGTAAAAATTTAAATTTATTTTTTAATTTGATTATAAGTTTAAATTTTTAAG
GAACA
Found at i:452707 original size:39 final size:38
Alignment explanation
Indices: 452643--452753 Score: 114
Period size: 39 Copynumber: 2.9 Consensus size: 38
452633 AATTTTAATA
* * *
452643 AAAAATTTATATATTAATCACATCTTTTAGATTCCAAT
1 AAAAATTTATATATTACTAATATCTTTTAGATTCCAAT
* * * *
452681 AAATAATCTATATATTACTAATATCTTTCAAAATCCAAT
1 AAA-AATTTATATATTACTAATATCTTTTAGATTCCAAT
* * *
452720 AAAAATTTCATGTATTACTTATATATTTTAGATT
1 AAAAATTT-ATATATTACTAATATCTTTTAGATT
452754 TTCCGTCAAC
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
38 7 0.12
39 50 0.88
ACGTcount: A:0.42, C:0.12, G:0.03, T:0.43
Consensus pattern (38 bp):
AAAAATTTATATATTACTAATATCTTTTAGATTCCAAT
Found at i:453036 original size:26 final size:26
Alignment explanation
Indices: 453006--453070 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
452996 ACACATATGT
* *
453006 AAAAAAACATTTTGAGAAATGTTTTC
1 AAAAAAACATATTGAGAAATGTTTTA
*
453032 TAAAAAACATATTGAGAAATGTTTTA
1 AAAAAAACATATTGAGAAATGTTTTA
453058 AAAAAAACATATT
1 AAAAAAACATATT
453071 TTATTATTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 35 1.00
ACGTcount: A:0.52, C:0.06, G:0.09, T:0.32
Consensus pattern (26 bp):
AAAAAAACATATTGAGAAATGTTTTA
Found at i:453084 original size:20 final size:20
Alignment explanation
Indices: 453059--453107 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
453049 AATGTTTTAA
453059 AAAAAACATATT-TTATTATT
1 AAAAAA-ATATTATTATTATT
*
453079 AAAAAATTATTATTATTATAAT
1 AAAAAAATATTATTATTAT--T
453101 AAAAAAA
1 AAAAAAA
453108 CCTAAATAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 4 0.17
20 13 0.54
22 7 0.29
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAAAATATTATTATTATT
Found at i:454528 original size:88 final size:91
Alignment explanation
Indices: 454340--454536 Score: 224
Period size: 88 Copynumber: 2.2 Consensus size: 91
454330 ACACATCTAG
* * * *
454340 TTATAATATTTAATAAAATATATTAAAAATATGTATTGTATAAAAACAAAATTACTAAAAATAGA
1 TTATAATATTTAATAAAATATATTAAAAATATATATTATATAAAAACAAAATCAATAAAAATAGA
* * * *
454405 AAACATTTTATATTTATTTAATTACA
66 AAACATTTTAAAGTTATTCAATTAAA
* * * *
454431 TTATAATATTTGATAAAATATA-TAAAAATCTATATTATATACAAA-AAAA-CAATTAAAATAG-
1 TTATAATATTTAATAAAATATATTAAAAATATATATTATATAAAAACAAAATCAATAAAAATAGA
*
454492 AAA-ATTTTAAAAGTTATTCACTTTAAA
66 AAACATTTT-AAAGTTATTCA-ATTAAA
454519 TTATAATATTTAATAAAA
1 TTATAATATTTAATAAAA
454537 CATACATTAT
Statistics
Matches: 90, Mismatches: 14, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
86 5 0.06
87 11 0.12
88 30 0.33
89 4 0.04
90 19 0.21
91 21 0.23
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.39
Consensus pattern (91 bp):
TTATAATATTTAATAAAATATATTAAAAATATATATTATATAAAAACAAAATCAATAAAAATAGA
AAACATTTTAAAGTTATTCAATTAAA
Found at i:455678 original size:19 final size:19
Alignment explanation
Indices: 455654--455692 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
455644 ACTAAGTAAG
*
455654 ATTGTTGCTAGGTAGCATT
1 ATTGTTGCTAAGTAGCATT
455673 ATTGTTGCTAAGTAGCATT
1 ATTGTTGCTAAGTAGCATT
455692 A
1 A
455693 CTGCTAGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (19 bp):
ATTGTTGCTAAGTAGCATT
Found at i:455921 original size:32 final size:33
Alignment explanation
Indices: 455885--455957 Score: 98
Period size: 32 Copynumber: 2.3 Consensus size: 33
455875 ATGATGTTGC
*
455885 TAGGTAGCGTC-ACCGC-TAAGTAATGATGCCAT
1 TAGGTAGCGACTACC-CTTAAGTAATGATGCCAT
*
455917 TAGGTAGC-ACTACCCTTAGGTAATGATGCCAT
1 TAGGTAGCGACTACCCTTAAGTAATGATGCCAT
455949 TAGGTAGCG
1 TAGGTAGCG
455958 CTATCACTAG
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
31 2 0.06
32 34 0.94
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (33 bp):
TAGGTAGCGACTACCCTTAAGTAATGATGCCAT
Found at i:455951 original size:16 final size:16
Alignment explanation
Indices: 455904--455954 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
455894 TCACCGCTAA
455904 GTAATGATGCCATTAG
1 GTAATGATGCCATTAG
* *
455920 GT-A-GCACTACCCTTAG
1 GTAATG-A-TGCCATTAG
455936 GTAATGATGCCATTAG
1 GTAATGATGCCATTAG
455952 GTA
1 GTA
455955 GCGCTATCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
14 1 0.04
15 2 0.07
16 21 0.78
17 2 0.07
18 1 0.04
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (16 bp):
GTAATGATGCCATTAG
Found at i:455969 original size:32 final size:32
Alignment explanation
Indices: 455904--455994 Score: 114
Period size: 32 Copynumber: 2.8 Consensus size: 32
455894 TCACCGCTAA
* *
455904 GTAATGATGCCATTAGGTAGCACTACCCTTAG
1 GTAATGATGCCATTAGGTAGCGCTACACTTAG
455936 GTAATGATGCCATTAGGTAGCGCTATCAC-TAG
1 GTAATGATGCCATTAGGTAGCGCTA-CACTTAG
* *
455968 GTAATGATAACC-TTAAGTAGCGCTACA
1 GTAATGAT-GCCATTAGGTAGCGCTACA
455995 ATTGAGTAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
31 2 0.04
32 47 0.89
33 4 0.08
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (32 bp):
GTAATGATGCCATTAGGTAGCGCTACACTTAG
Found at i:456815 original size:20 final size:20
Alignment explanation
Indices: 456790--456830 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
456780 AGAAAGAAAA
*
456790 TGTATCAATACATTTTTTAT
1 TGTATCAATACATTTCTTAT
456810 TGTATCAATACATTTCTTAT
1 TGTATCAATACATTTCTTAT
456830 T
1 T
456831 ATGTCGATAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.12, G:0.05, T:0.54
Consensus pattern (20 bp):
TGTATCAATACATTTCTTAT
Found at i:456840 original size:20 final size:20
Alignment explanation
Indices: 456792--456842 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
456782 AAAGAAAATG
* *
456792 TATCAATACATTTTTTATTG
1 TATCAATACATTTCTTATTA
456812 TATCAATACATTTCTTATTA
1 TATCAATACATTTCTTATTA
* *
456832 TGTCGATACAT
1 TATCAATACAT
456843 CCTGATTTGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.31, C:0.14, G:0.06, T:0.49
Consensus pattern (20 bp):
TATCAATACATTTCTTATTA
Found at i:456867 original size:49 final size:50
Alignment explanation
Indices: 456810--456944 Score: 157
Period size: 49 Copynumber: 2.7 Consensus size: 50
456800 CATTTTTTAT
* *
456810 TGTATCAATACATTTCTTATTATGTCGATACATCCTGA-TTTGATCCAAA
1 TGTATCAATACATTTCTTATTATATCGATACATCCTGATTTTGACCCAAA
* * * *
456859 TGTATCAATACATTTTTTATTATATCCATATATTCTGAGTTTTTGACCCAAA
1 TGTATCAATACATTTCTTATTATATCGATACATCCTGA--TTTTGACCCAAA
* *
456911 TGTATCGATACA-TTCTTCAATATATCGATACATC
1 TGTATCAATACATTTCTT-ATTATATCGATACATC
456945 TAGTTAAATT
Statistics
Matches: 70, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
49 33 0.47
51 4 0.06
52 33 0.47
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (50 bp):
TGTATCAATACATTTCTTATTATATCGATACATCCTGATTTTGACCCAAA
Found at i:461513 original size:67 final size:67
Alignment explanation
Indices: 461359--461540 Score: 193
Period size: 67 Copynumber: 2.7 Consensus size: 67
461349 AGTAGTAGAG
** * **
461359 AGTGATGAAAGTGGCACATGAAACCACAATGGTCAACTTATCTTTTGAGAGAACTTGTGAATGAG
1 AGTGATGAAAGTGGCACATGTGACCACAACGGTCAACTTATCAATTGAGAGAACTTGTGAATGAG
*
461424 AG
66 AA
* * ** * * *
461426 AGTAATGGAAGTGGTGCATGTGACCACAACGGTCGACTTTTCAATTGAGAGAACTTGTTAATGAG
1 AGTGATGAAAGTGGCACATGTGACCACAACGGTCAACTTATCAATTGAGAGAACTTGTGAATGAG
461491 AA
66 AA
* * * * * *
461493 AGTGACGAAAATGGCACATGTGCCCACAATGGTTAACTTATCTATTGA
1 AGTGATGAAAGTGGCACATGTGACCACAACGGTCAACTTATCAATTGA
461541 AAGTACTTAT
Statistics
Matches: 90, Mismatches: 25, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
67 90 1.00
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (67 bp):
AGTGATGAAAGTGGCACATGTGACCACAACGGTCAACTTATCAATTGAGAGAACTTGTGAATGAG
AA
Found at i:463697 original size:27 final size:28
Alignment explanation
Indices: 463633--463707 Score: 116
Period size: 28 Copynumber: 2.7 Consensus size: 28
463623 TTTTTTTGTT
*
463633 TTGATATTTCTTGTTGATTTCATTTCCC
1 TTGATATTTCTTGTTGATTTCACTTCCC
463661 TTGATATTTCTTGTTGATTTCACTT-CC
1 TTGATATTTCTTGTTGATTTCACTTCCC
* *
463688 TTGATTTTTCTTATTGATTT
1 TTGATATTTCTTGTTGATTT
463708 TATTAATCAA
Statistics
Matches: 44, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
27 20 0.45
28 24 0.55
ACGTcount: A:0.15, C:0.15, G:0.11, T:0.60
Consensus pattern (28 bp):
TTGATATTTCTTGTTGATTTCACTTCCC
Found at i:470818 original size:28 final size:28
Alignment explanation
Indices: 470760--470818 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
470750 ATTTTTTTAA
* * *
470760 AAAAATATTTTTATAATTATAATTAAGT
1 AAAAATATTTTTATAATTAAAATAAAAT
470788 AAAAATATTTTTA-AATTAAAAATAAAAT
1 AAAAATATTTTTATAATT-AAAATAAAAT
470816 AAA
1 AAA
470819 TTTAAACTTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 4 0.15
28 23 0.85
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (28 bp):
AAAAATATTTTTATAATTAAAATAAAAT
Found at i:480881 original size:2 final size:2
Alignment explanation
Indices: 480874--480910 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
480864 ATCCATTATT
480874 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
480911 CCAAAAAAGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:481715 original size:14 final size:13
Alignment explanation
Indices: 481698--481737 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
481688 AGGAAAAGAG
* *
481698 AAAAACAAAAACA
1 AAAAAGAAAAAAA
481711 AAAAAGAAACAAAA
1 AAAAAGAAA-AAAA
481725 AAAAAGAAAAAAA
1 AAAAAGAAAAAAA
481738 CAAAGGAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 12 0.50
14 12 0.50
ACGTcount: A:0.88, C:0.07, G:0.05, T:0.00
Consensus pattern (13 bp):
AAAAAGAAAAAAA
Found at i:481715 original size:21 final size:21
Alignment explanation
Indices: 481691--481736 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
481681 AAATCAAAGG
*
481691 AAAAGAGAA-AAACAAAAACAA
1 AAAAGA-AACAAAAAAAAACAA
*
481712 AAAAGAAACAAAAAAAAAGAA
1 AAAAGAAACAAAAAAAAACAA
481733 AAAA
1 AAAA
481737 ACAAAGGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.85, C:0.07, G:0.09, T:0.00
Consensus pattern (21 bp):
AAAAGAAACAAAAAAAAACAA
Done.