Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168470.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_7, whole genome shotgun sequence
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: 26282861
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 74000 characters in sequence are not A, C, G, or T
File 129 of 133
Found at i:25206978 original size:36 final size:38
Alignment explanation
Indices: 25206903--25206978 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
25206893 ATTAGGATCA
* *
25206903 ATTTTTTTATTATTACTATAATATAGTATACTATTATT
1 ATTTTTTTATTATTAATATAATATAGTATACTATAATT
*
25206941 ATTTTTATTATTA-TAATATAATATA-T-TATTATAATT
1 ATTTTT-TTATTATTAATATAATATAGTATACTATAATT
25206977 AT
1 AT
25206979 GGCATATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
36 10 0.29
37 1 0.03
38 17 0.50
39 6 0.18
ACGTcount: A:0.38, C:0.03, G:0.01, T:0.58
Consensus pattern (38 bp):
ATTTTTTTATTATTAATATAATATAGTATACTATAATT
Found at i:25206992 original size:5 final size:5
Alignment explanation
Indices: 25206982--25207007 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
25206972 TAATTATGGC
25206982 ATATT ATATT ATATT ATATT ATATT A
1 ATATT ATATT ATATT ATATT ATATT A
25207008 CTAGTCTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATATT
Found at i:25207952 original size:29 final size:27
Alignment explanation
Indices: 25207914--25207977 Score: 69
Period size: 29 Copynumber: 2.3 Consensus size: 27
25207904 TCAGTTTGTT
25207914 TTTATTATTTATTCTATTGA-C-TTTATTA
1 TTTATTA-TT-TT-TATTGAGCATTTATTA
25207942 TTTATTCATTTTTATTGAGCAATTTATTA
1 TTTATT-ATTTTTATTGAGC-ATTTATTA
25207971 TTTATTA
1 TTTATTA
25207978 AAAATTTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
26 6 0.19
27 3 0.09
28 9 0.28
29 14 0.44
ACGTcount: A:0.27, C:0.06, G:0.05, T:0.62
Consensus pattern (27 bp):
TTTATTATTTTTATTGAGCATTTATTA
Found at i:25207955 original size:17 final size:18
Alignment explanation
Indices: 25207912--25207957 Score: 58
Period size: 21 Copynumber: 2.4 Consensus size: 18
25207902 TTTCAGTTTG
25207912 TTTTTATTATTTATTCTA
1 TTTTTATTATTTATTCTA
25207930 TTGACTTTATTATTTATTC-A
1 TT---TTTATTATTTATTCTA
25207950 TTTTTATT
1 TTTTTATT
25207958 GAGCAATTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
17 6 0.24
18 2 0.08
20 3 0.12
21 14 0.56
ACGTcount: A:0.22, C:0.07, G:0.02, T:0.70
Consensus pattern (18 bp):
TTTTTATTATTTATTCTA
Found at i:25208046 original size:17 final size:17
Alignment explanation
Indices: 25208004--25208060 Score: 64
Period size: 18 Copynumber: 3.3 Consensus size: 17
25207994 TTATTTTATT
*
25208004 AAAAAAAGAAAA-AGACA
1 AAAAAAATAAAATA-ACA
25208021 AAAACAAATAAAATAACA
1 AAAA-AAATAAAATAACA
25208039 AAAAAAATATAAATAA-A
1 AAAAAAATA-AAATAACA
25208056 AAAAA
1 AAAAA
25208061 TCTTTACAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
17 15 0.42
18 20 0.56
19 1 0.03
ACGTcount: A:0.82, C:0.05, G:0.04, T:0.09
Consensus pattern (17 bp):
AAAAAAATAAAATAACA
Found at i:25213486 original size:13 final size:13
Alignment explanation
Indices: 25213468--25213493 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25213458 TTTGAAGTTT
25213468 CATACACAACTAA
1 CATACACAACTAA
25213481 CATACACAACTAA
1 CATACACAACTAA
25213494 GAAAAGAGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (13 bp):
CATACACAACTAA
Found at i:25213893 original size:2 final size:2
Alignment explanation
Indices: 25213886--25213913 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25213876 ATTGTTGATA
25213886 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25213914 TCTTTGAACT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25214544 original size:2 final size:2
Alignment explanation
Indices: 25214537--25214568 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
25214527 CTTGACTTAC
25214537 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25214569 CTAAATCACC
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25216561 original size:4 final size:4
Alignment explanation
Indices: 25216554--25216607 Score: 99
Period size: 4 Copynumber: 13.5 Consensus size: 4
25216544 TACTATATAC
*
25216554 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ACGT ATGT
1 ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT ATGT
25216602 ATGT AT
1 ATGT AT
25216608 ATGCAGAGGC
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 48 1.00
ACGTcount: A:0.26, C:0.02, G:0.24, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:25219023 original size:19 final size:20
Alignment explanation
Indices: 25218999--25219039 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
25218989 CCAACTAAAT
*
25218999 AATTAATATAAAAA-GAAAA
1 AATTAATAAAAAAATGAAAA
25219018 AATTAATAAAAAAATGAAAA
1 AATTAATAAAAAAATGAAAA
25219038 AA
1 AA
25219040 ATTTACACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 13 0.65
20 7 0.35
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (20 bp):
AATTAATAAAAAAATGAAAA
Found at i:25220859 original size:14 final size:14
Alignment explanation
Indices: 25220836--25220871 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
25220826 AGAAAAATAA
*
25220836 TAAATGTTAAAATT
1 TAAATTTTAAAATT
*
25220850 TAAATTTTAAACTT
1 TAAATTTTAAAATT
25220864 TAAATTTT
1 TAAATTTT
25220872 TTATATTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (14 bp):
TAAATTTTAAAATT
Found at i:25225064 original size:30 final size:31
Alignment explanation
Indices: 25224995--25225064 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
25224985 ACATTACAGT
* * * *
25224995 AAAATATATTTTATATTTTTTATATCAACAC
1 AAAATATAATATATAATTTTTATATCAAAAC
* *
25225026 AAATTATAATATATAATTTTTGTAT-AAAAC
1 AAAATATAATATATAATTTTTATATCAAAAC
25225056 AAAATATAA
1 AAAATATAA
25225065 ATACATGATA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
30 12 0.38
31 20 0.62
ACGTcount: A:0.50, C:0.06, G:0.01, T:0.43
Consensus pattern (31 bp):
AAAATATAATATATAATTTTTATATCAAAAC
Found at i:25228781 original size:130 final size:130
Alignment explanation
Indices: 25228548--25228804 Score: 478
Period size: 130 Copynumber: 2.0 Consensus size: 130
25228538 GTCTTAAATC
25228548 TCATATCGAATATAAAAGTAAGATCATTGGGATATAAAAAAGTTTACATCATCTCTTCTTTGTGA
1 TCATATCGAATATAAAAGTAAGATCATTGGGATATAAAAAAGTTTACATCATCTCTTCTTTGTGA
* *
25228613 TACACTTTTTGTATGATAAAATCGTGAGATCATGAAATCAGAGCGGACAATACCTCATAAGGGTG
66 TACACTTTTTGTAGGATAAAACCGTGAGATCATGAAATCAGAGCGGACAATACCTCATAAGGGTG
* *
25228678 TCATATCGAATATAAAAGTAAGATCATTGGGATATAAAAAGGTTTACATCATCTCTTTTTTGTGA
1 TCATATCGAATATAAAAGTAAGATCATTGGGATATAAAAAAGTTTACATCATCTCTTCTTTGTGA
25228743 TACACTTTTTGTAGGATAAAACCGTGAGATCATGAAATCAGAGCGGACAATACCTCATAAGG
66 TACACTTTTTGTAGGATAAAACCGTGAGATCATGAAATCAGAGCGGACAATACCTCATAAGG
25228805 ATGTGAATTA
Statistics
Matches: 123, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
130 123 1.00
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (130 bp):
TCATATCGAATATAAAAGTAAGATCATTGGGATATAAAAAAGTTTACATCATCTCTTCTTTGTGA
TACACTTTTTGTAGGATAAAACCGTGAGATCATGAAATCAGAGCGGACAATACCTCATAAGGGTG
Found at i:25236489 original size:2 final size:2
Alignment explanation
Indices: 25236482--25236522 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
25236472 TTTAAGCTTT
25236482 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25236523 TAGTAAATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25237085 original size:2 final size:2
Alignment explanation
Indices: 25237078--25237115 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
25237068 CCTTTGTATT
* *
25237078 TA TA TA TA TA TA TA TA TG TA CA TA TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25237116 CATAATAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25243283 original size:12 final size:12
Alignment explanation
Indices: 25243250--25243290 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
25243240 TCGAATTTTA
25243250 TTAATTTAATTT
1 TTAATTTAATTT
* *
25243262 ATCA-TT-ATTT
1 TTAATTTAATTT
25243272 TTAATTTAATTT
1 TTAATTTAATTT
25243284 TTAATTT
1 TTAATTT
25243291 CTTATATATT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
10 6 0.26
11 4 0.17
12 13 0.57
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (12 bp):
TTAATTTAATTT
Found at i:25245546 original size:15 final size:15
Alignment explanation
Indices: 25245502--25245546 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
25245492 AACGCATCAG
25245502 TTTCTTTTAGACCTA
1 TTTCTTTTAGACCTA
* * *
25245517 TCTC-TGTAAACCTA
1 TTTCTTTTAGACCTA
25245531 TTTCTTTTAGACCTA
1 TTTCTTTTAGACCTA
25245546 T
1 T
25245547 ATCACGAGTT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.49
Consensus pattern (15 bp):
TTTCTTTTAGACCTA
Found at i:25249349 original size:25 final size:26
Alignment explanation
Indices: 25249321--25249382 Score: 65
Period size: 25 Copynumber: 2.4 Consensus size: 26
25249311 TTTATGTATT
25249321 TATATCATATATTT-A-ACAAAAATTA
1 TATATCATATATTTCACACAAAAA-TA
* *
25249346 TATATTATACATTTCGACACAAAAATA
1 TATATCATATATTTC-ACACAAAAATA
*
25249373 TAAATCATAT
1 TATATCATAT
25249383 TTTTTTATTT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
25 12 0.41
27 10 0.34
28 7 0.24
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (26 bp):
TATATCATATATTTCACACAAAAATA
Found at i:25255808 original size:64 final size:65
Alignment explanation
Indices: 25255705--25255829 Score: 168
Period size: 64 Copynumber: 1.9 Consensus size: 65
25255695 TAAATTTATG
*
25255705 TAAATATATTAAAATTTTGATTAAAATAATATATCTAAAAAATAAT-AAATTTAAATTTAAAAAT
1 TAAATATAATAAAATTTTGATTAAAATAATATATCTAAAAAATAATCAAATTTAAATTTAAAAAT
* *
25255769 TAAAT-TAATAAAA-TTTGATTCAAAACTAAT-TAATTTAAAAAATATTCAAATTTAAATTTAA
1 TAAATATAATAAAATTTTGATT-AAAA-TAATAT-ATCTAAAAAATAATCAAATTTAAATTTAA
25255830 GATTGAAATT
Statistics
Matches: 54, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
62 7 0.13
63 12 0.22
64 21 0.39
65 14 0.26
ACGTcount: A:0.56, C:0.03, G:0.02, T:0.39
Consensus pattern (65 bp):
TAAATATAATAAAATTTTGATTAAAATAATATATCTAAAAAATAATCAAATTTAAATTTAAAAAT
Found at i:25256371 original size:24 final size:22
Alignment explanation
Indices: 25256342--25256397 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
25256332 TATTAAAAAT
* *
25256342 TTTAAAAAATCATAAAAATTTAAA
1 TTTAAAAAAT-AAAAAAAATT-AA
*
25256366 TTTAAAATATAAAAAAAATTAA
1 TTTAAAAAATAAAAAAAATTAA
25256388 TGTTAAAAAA
1 T-TTAAAAAA
25256398 AATAGCATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 3 0.11
23 15 0.56
24 9 0.33
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (22 bp):
TTTAAAAAATAAAAAAAATTAA
Found at i:25265927 original size:18 final size:19
Alignment explanation
Indices: 25265904--25265945 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 19
25265894 TTATTTTATT
* *
25265904 ATATAAAAATTTA-AAAAA
1 ATATAAAAACTAATAAAAA
25265922 ATATAAAAACTAATAAAAA
1 ATATAAAAACTAATAAAAA
25265941 ATATA
1 ATATA
25265946 TAATTTAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.26
Consensus pattern (19 bp):
ATATAAAAACTAATAAAAA
Found at i:25274831 original size:342 final size:342
Alignment explanation
Indices: 25274206--25274871 Score: 1332
Period size: 342 Copynumber: 1.9 Consensus size: 342
25274196 GTTTGCCCCA
25274206 GATGCCAGAAACTGAAACTAGTTTATGATTGCCCATCGGAGAGTTGCAGAAGAACACATCATGCT
1 GATGCCAGAAACTGAAACTAGTTTATGATTGCCCATCGGAGAGTTGCAGAAGAACACATCATGCT
25274271 GCTCAGTTGTGCAGGGCTTGCATTCTTTGCATTGCACGCTGTATTTGTTGTGGATGCTGTTTTAA
66 GCTCAGTTGTGCAGGGCTTGCATTCTTTGCATTGCACGCTGTATTTGTTGTGGATGCTGTTTTAA
25274336 GGATTGTGATTACGAGGAAACATTTAGTCTAGATTTGCTTTGCTTTAATTGTTGGAAGAAGATCT
131 GGATTGTGATTACGAGGAAACATTTAGTCTAGATTTGCTTTGCTTTAATTGTTGGAAGAAGATCT
25274401 TTAATCATGAAGAGAAGCCAGAAGTAATGGGTGCCTCCTCTTCTGAACACACCGCTTTTCATCAA
196 TTAATCATGAAGAGAAGCCAGAAGTAATGGGTGCCTCCTCTTCTGAACACACCGCTTTTCATCAA
25274466 GAGACGGGGTATCAGCTTTGTTTTTATGGCTAGTATAGAAGAAGTTCTATGCCTTTTGGCTGAGA
261 GAGACGGGGTATCAGCTTTGTTTTTATGGCTAGTATAGAAGAAGTTCTATGCCTTTTGGCTGAGA
25274531 AACTGAAACTAGTTTAT
326 AACTGAAACTAGTTTAT
25274548 GATGCCAGAAACTGAAACTAGTTTATGATTGCCCATCGGAGAGTTGCAGAAGAACACATCATGCT
1 GATGCCAGAAACTGAAACTAGTTTATGATTGCCCATCGGAGAGTTGCAGAAGAACACATCATGCT
25274613 GCTCAGTTGTGCAGGGCTTGCATTCTTTGCATTGCACGCTGTATTTGTTGTGGATGCTGTTTTAA
66 GCTCAGTTGTGCAGGGCTTGCATTCTTTGCATTGCACGCTGTATTTGTTGTGGATGCTGTTTTAA
25274678 GGATTGTGATTACGAGGAAACATTTAGTCTAGATTTGCTTTGCTTTAATTGTTGGAAGAAGATCT
131 GGATTGTGATTACGAGGAAACATTTAGTCTAGATTTGCTTTGCTTTAATTGTTGGAAGAAGATCT
25274743 TTAATCATGAAGAGAAGCCAGAAGTAATGGGTGCCTCCTCTTCTGAACACACCGCTTTTCATCAA
196 TTAATCATGAAGAGAAGCCAGAAGTAATGGGTGCCTCCTCTTCTGAACACACCGCTTTTCATCAA
25274808 GAGACGGGGTATCAGCTTTGTTTTTATGGCTAGTATAGAAGAAGTTCTATGCCTTTTGGCTGAG
261 GAGACGGGGTATCAGCTTTGTTTTTATGGCTAGTATAGAAGAAGTTCTATGCCTTTTGGCTGAG
25274872 GACTGTGGTC
Statistics
Matches: 324, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
342 324 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (342 bp):
GATGCCAGAAACTGAAACTAGTTTATGATTGCCCATCGGAGAGTTGCAGAAGAACACATCATGCT
GCTCAGTTGTGCAGGGCTTGCATTCTTTGCATTGCACGCTGTATTTGTTGTGGATGCTGTTTTAA
GGATTGTGATTACGAGGAAACATTTAGTCTAGATTTGCTTTGCTTTAATTGTTGGAAGAAGATCT
TTAATCATGAAGAGAAGCCAGAAGTAATGGGTGCCTCCTCTTCTGAACACACCGCTTTTCATCAA
GAGACGGGGTATCAGCTTTGTTTTTATGGCTAGTATAGAAGAAGTTCTATGCCTTTTGGCTGAGA
AACTGAAACTAGTTTAT
Found at i:25277077 original size:233 final size:233
Alignment explanation
Indices: 25276670--25277135 Score: 932
Period size: 233 Copynumber: 2.0 Consensus size: 233
25276660 ACTAATATTT
25276670 GTTCCATTTCATTCTGCAGACTTGGTGGCAATTGCAGAAAGAATGGCTACTGTTAAGCATGAGAT
1 GTTCCATTTCATTCTGCAGACTTGGTGGCAATTGCAGAAAGAATGGCTACTGTTAAGCATGAGAT
25276735 ACTGGTTTTATCAAAGGAAGGGAAGAGTTGGCAAGAGTACTTTCTATGCCTAACTCTTATTTGCA
66 ACTGGTTTTATCAAAGGAAGGGAAGAGTTGGCAAGAGTACTTTCTATGCCTAACTCTTATTTGCA
25276800 CTAGTAGCTAAGAATTTCCAGGTTGGTCTACTGGACATGGATATTTGTGGTCCAAGCATTCCAAA
131 CTAGTAGCTAAGAATTTCCAGGTTGGTCTACTGGACATGGATATTTGTGGTCCAAGCATTCCAAA
25276865 AGGCTTGGACTAGAAGGTCAAGACATTCACCAGAGCAA
196 AGGCTTGGACTAGAAGGTCAAGACATTCACCAGAGCAA
25276903 GTTCCATTTCATTCTGCAGACTTGGTGGCAATTGCAGAAAGAATGGCTACTGTTAAGCATGAGAT
1 GTTCCATTTCATTCTGCAGACTTGGTGGCAATTGCAGAAAGAATGGCTACTGTTAAGCATGAGAT
25276968 ACTGGTTTTATCAAAGGAAGGGAAGAGTTGGCAAGAGTACTTTCTATGCCTAACTCTTATTTGCA
66 ACTGGTTTTATCAAAGGAAGGGAAGAGTTGGCAAGAGTACTTTCTATGCCTAACTCTTATTTGCA
25277033 CTAGTAGCTAAGAATTTCCAGGTTGGTCTACTGGACATGGATATTTGTGGTCCAAGCATTCCAAA
131 CTAGTAGCTAAGAATTTCCAGGTTGGTCTACTGGACATGGATATTTGTGGTCCAAGCATTCCAAA
25277098 AGGCTTGGACTAGAAGGTCAAGACATTCACCAGAGCAA
196 AGGCTTGGACTAGAAGGTCAAGACATTCACCAGAGCAA
25277136 CCTTGGCTGC
Statistics
Matches: 233, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
233 233 1.00
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.29
Consensus pattern (233 bp):
GTTCCATTTCATTCTGCAGACTTGGTGGCAATTGCAGAAAGAATGGCTACTGTTAAGCATGAGAT
ACTGGTTTTATCAAAGGAAGGGAAGAGTTGGCAAGAGTACTTTCTATGCCTAACTCTTATTTGCA
CTAGTAGCTAAGAATTTCCAGGTTGGTCTACTGGACATGGATATTTGTGGTCCAAGCATTCCAAA
AGGCTTGGACTAGAAGGTCAAGACATTCACCAGAGCAA
Found at i:25279981 original size:24 final size:24
Alignment explanation
Indices: 25279935--25279981 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
25279925 AATATTAAGA
* *
25279935 TTTTAATTTTATATTTATTAAATT
1 TTTTAATATTATATTTATAAAATT
25279959 TTTTAATATTA-ATTGTATAAAAT
1 TTTTAATATTATATT-TATAAAAT
25279982 AAATTAAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
TTTTAATATTATATTTATAAAATT
Found at i:25286770 original size:21 final size:23
Alignment explanation
Indices: 25286734--25286776 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
25286724 CATAAAAATG
*
25286734 CTCTTACATATTTGGTTTAACAA
1 CTCTTACATATTTGGTTCAACAA
25286757 CTCTTA-AT-TTTGGTTCAACA
1 CTCTTACATATTTGGTTCAACA
25286777 GGCAACATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 11 0.58
22 2 0.11
23 6 0.32
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.44
Consensus pattern (23 bp):
CTCTTACATATTTGGTTCAACAA
Found at i:25303387 original size:28 final size:28
Alignment explanation
Indices: 25303347--25303427 Score: 119
Period size: 27 Copynumber: 2.9 Consensus size: 28
25303337 TTTGGTTAAG
25303347 AATGATTGTTTGAAATCTTACAAGTGCA
1 AATGATTGTTTGAAATCTTACAAGTGCA
* *
25303375 AATGATTGTTTG-AATTTTACAAGGGCA
1 AATGATTGTTTGAAATCTTACAAGTGCA
* *
25303402 AAAGATTGGTTGAAATCTTACAAGTG
1 AATGATTGTTTGAAATCTTACAAGTG
25303428 ATGATTTTGT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
27 23 0.50
28 23 0.50
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.35
Consensus pattern (28 bp):
AATGATTGTTTGAAATCTTACAAGTGCA
Found at i:25308511 original size:29 final size:29
Alignment explanation
Indices: 25308420--25308518 Score: 87
Period size: 29 Copynumber: 3.4 Consensus size: 29
25308410 AGTTTCATAT
*
25308420 TTTTAGGGTTTAGG-GGTTT-GAAGTTTTGA
1 TTTTAGGGTTT-GGAGGTTTAG-GGTTTTGA
* * * *
25308449 TTTTAGGGTTTGAAAGATTTA-GGATTTCA
1 TTTTAGGGTTTG-GAGGTTTAGGGTTTTGA
25308478 TTTTTAGGGTTTGGAGGTTTAGGGTTTTGA
1 -TTTTAGGGTTTGGAGGTTTAGGGTTTTGA
*
25308508 TTTTAAGGTTT
1 TTTTAGGGTTT
25308519 AGTACGTTTT
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
28 1 0.02
29 32 0.58
30 22 0.40
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.49
Consensus pattern (29 bp):
TTTTAGGGTTTGGAGGTTTAGGGTTTTGA
Found at i:25308511 original size:30 final size:30
Alignment explanation
Indices: 25308418--25308511 Score: 88
Period size: 30 Copynumber: 3.2 Consensus size: 30
25308408 CGAGTTTCAT
*
25308418 ATTTTTAGGGTTTAGG-GGTTT-GAAGTTTTG
1 ATTTTTAGGGTTT-GGAGGTTTAG-GGTTTTG
* * * *
25308448 A-TTTTAGGGTTTGAAAGATTTA-GGATTTC
1 ATTTTTAGGGTTTG-GAGGTTTAGGGTTTTG
25308477 ATTTTTAGGGTTTGGAGGTTTAGGGTTTTG
1 ATTTTTAGGGTTTGGAGGTTTAGGGTTTTG
25308507 ATTTT
1 ATTTT
25308512 AAGGTTTAGT
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
28 1 0.02
29 22 0.44
30 27 0.54
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.50
Consensus pattern (30 bp):
ATTTTTAGGGTTTGGAGGTTTAGGGTTTTG
Found at i:25308838 original size:3 final size:3
Alignment explanation
Indices: 25308830--25308880 Score: 50
Period size: 3 Copynumber: 16.3 Consensus size: 3
25308820 TAGAAAATTT
* *
25308830 TTA TTA TTA TTTA TTA TT- TTG TTCA TTA TTG TTA TTA TTA TTAA TTA
1 TTA TTA TTA -TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TT-A TTA
25308877 TTA T
1 TTA T
25308881 AGAACAACAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
2 2 0.05
3 31 0.76
4 8 0.20
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:25310770 original size:18 final size:18
Alignment explanation
Indices: 25310735--25310786 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 18
25310725 TTGATGTAAA
*
25310735 ATTTAAATAAA-T-AAAT
1 ATTTAAACAAATTCAAAT
*
25310751 ATTTTAACAAATTCAAAT
1 ATTTAAACAAATTCAAAT
* *
25310769 ATTTAAATAGATTCAAAT
1 ATTTAAACAAATTCAAAT
25310787 TTGAATGGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
16 9 0.31
17 1 0.03
18 19 0.66
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (18 bp):
ATTTAAACAAATTCAAAT
Found at i:25313598 original size:21 final size:21
Alignment explanation
Indices: 25313574--25313627 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
25313564 GCAAAATTTT
*
25313574 TTTTAATTTTTTTAAATATTA
1 TTTTAATTATTTTAAATATTA
** *
25313595 TTTTTGTTATTTTAAATTTTA
1 TTTTAATTATTTTAAATATTA
25313616 TTATTAA-TATTT
1 TT-TTAATTATTT
25313628 ATGCATGTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
21 24 0.92
22 2 0.08
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.69
Consensus pattern (21 bp):
TTTTAATTATTTTAAATATTA
Found at i:25322370 original size:38 final size:35
Alignment explanation
Indices: 25322256--25322385 Score: 174
Period size: 35 Copynumber: 3.6 Consensus size: 35
25322246 GCATTATTAT
* *
25322256 TTTTAAGAAAAGACATTTGCATTACATG-TACATCT
1 TTTTAAGAAAAGACATTTGCATTTCATGAT-CATCA
*
25322291 TTTTAAGAAAAGACATTTGCATCTCATGATCATCA
1 TTTTAAGAAAAGACATTTGCATTTCATGATCATCA
25322326 TTTTAAGAAAAGACATTTGCATTTCATTTGCATCATCA
1 TTTTAAGAAAAGACATTTGCATTTCA--TG-ATCATCA
25322364 TTTTAAGAGAAA-ACATTTGCAT
1 TTTTAAGA-AAAGACATTTGCAT
25322386 CATAATGGTG
Statistics
Matches: 86, Mismatches: 4, Indels: 7
0.89 0.04 0.07
Matches are distributed among these distances:
35 55 0.64
36 1 0.01
37 2 0.02
38 25 0.29
39 3 0.03
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.37
Consensus pattern (35 bp):
TTTTAAGAAAAGACATTTGCATTTCATGATCATCA
Found at i:25323059 original size:42 final size:42
Alignment explanation
Indices: 25322977--25323062 Score: 127
Period size: 42 Copynumber: 2.0 Consensus size: 42
25322967 CCGAAATCAT
* *
25322977 TTGCACCTTCTCGGTGGTGATATCCAATTGTTAAGATTTGAA
1 TTGCACCTTCTCGGTGGTGATATCCAAGTGTCAAGATTTGAA
* * *
25323019 TTGCATCTTCTCGGTGGTGATATCCAAGTGTCGAGGTTTGAA
1 TTGCACCTTCTCGGTGGTGATATCCAAGTGTCAAGATTTGAA
25323061 TT
1 TT
25323063 ATATTTTTTC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.38
Consensus pattern (42 bp):
TTGCACCTTCTCGGTGGTGATATCCAAGTGTCAAGATTTGAA
Found at i:25323113 original size:183 final size:183
Alignment explanation
Indices: 25322830--25323193 Score: 467
Period size: 183 Copynumber: 2.0 Consensus size: 183
25322820 AGTGTCAATG
* ** *
25322830 TTTGAATTGCATCTTCTTGGTGGTGATATATGAGTGTCAAGATCTGAATTACATTTTTTCTATGG
1 TTTGAATTGCATCTTCTCGGTGGTGATATACAAGTGTCAAGATCTGAATTACATTTTTTCGATGG
* * * * * * ** *
25322895 TGATATCCAAGCATTTAAAAATCATTTACATTTTCTTGATGGTGATATTTGAGTTTTCTTTGATG
66 TCATATCCAAGCATTAAAAAATCATTTACATTTTCTCGATAGTGATATTCGAGTTTCCTTCAAAG
* * * *
25322960 GTGATATCCGAAATCATTTGCACCTTCTCGGTGGTGATATCCAATTGTTAAGA
131 ATGATATCCGAAATCATTTGCACATTCTCGATGGTGATATCCAAGTGTTAAGA
* * * * *
25323013 TTTGAATTGCATCTTCTCGGTGGTGATATCCAAGTGTCGAGGTTTGAATTATATTTTTTCGATGG
1 TTTGAATTGCATCTTCTCGGTGGTGATATACAAGTGTCAAGATCTGAATTACATTTTTTCGATGG
* * *
25323078 TCATATTCGAGCATTAAAAAATCATTTATATTTTCTCGATAGTGATATTCGAGTTTCCTTCAAAG
66 TCATATCCAAGCATTAAAAAATCATTTACATTTTCTCGATAGTGATATTCGAGTTTCCTTCAAAG
* * * *
25323143 ATGATATCTGAAGTCATTTGCATATTCTCGATGGTGATATCCGAGTGTTAA
131 ATGATATCCGAAATCATTTGCACATTCTCGATGGTGATATCCAAGTGTTAA
25323194 AGGTAGATTT
Statistics
Matches: 152, Mismatches: 29, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
183 152 1.00
ACGTcount: A:0.26, C:0.13, G:0.19, T:0.41
Consensus pattern (183 bp):
TTTGAATTGCATCTTCTCGGTGGTGATATACAAGTGTCAAGATCTGAATTACATTTTTTCGATGG
TCATATCCAAGCATTAAAAAATCATTTACATTTTCTCGATAGTGATATTCGAGTTTCCTTCAAAG
ATGATATCCGAAATCATTTGCACATTCTCGATGGTGATATCCAAGTGTTAAGA
Found at i:25323289 original size:99 final size:99
Alignment explanation
Indices: 25323107--25323325 Score: 260
Period size: 99 Copynumber: 2.2 Consensus size: 99
25323097 AATCATTTAT
* * * * *
25323107 ATTTTCTCGATAGTGATATTCGAGTTTCCTTCAAAGATGATATCTGAAGTCATTTGCATATTCTC
1 ATTTTTTCGATGGTGATATTCAAGTTTCCTTCAAAGATGATATCCGAAATCATTTGCATATTCTC
* *
25323172 GATGGTGATATCCGAGTGTTAAAG-GTAGATTTGC
66 GATGGTGATATCCAAGTG-TAAAGAGTAGAATTGC
* * * * *
25323206 ATTTTTTCGATGGTAATATTCAAGTTTCCTTCAGAGGTGATATCCGAAATCATTTGTATCTTCTC
1 ATTTTTTCGATGGTGATATTCAAGTTTCCTTCAAAGATGATATCCGAAATCATTTGCATATTCTC
* * * * *
25323271 GGTGGTGATATCTAAGTGTCAAGATTTGAATTGC
66 GATGGTGATATCCAAGTGTAAAGAGTAGAATTGC
*
25323305 ATTTTTTCGGTGGTGATATTC
1 ATTTTTTCGATGGTGATATTC
25323326 GAGCATTAAA
Statistics
Matches: 100, Mismatches: 19, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
98 4 0.04
99 96 0.96
ACGTcount: A:0.25, C:0.14, G:0.21, T:0.41
Consensus pattern (99 bp):
ATTTTTTCGATGGTGATATTCAAGTTTCCTTCAAAGATGATATCCGAAATCATTTGCATATTCTC
GATGGTGATATCCAAGTGTAAAGAGTAGAATTGC
Found at i:25323646 original size:99 final size:99
Alignment explanation
Indices: 25323491--25323725 Score: 335
Period size: 99 Copynumber: 2.4 Consensus size: 99
25323481 TTAAAAAATC
* * * *
25323491 ATTTACATTTTCTCGATGGTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGCAT
1 ATTTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCAGTGGCGATATCCAAAGTCATTTGCAT
* *
25323556 ATTATCAATGGTGATATCCGAGTGTCAAAGGTTG
66 ATTATCAATGGTGATATCCGAGTATCAAAGCTTG
* *
25323590 ATTTGCATTTTCTCAATGGTGATAATCGAGTTTCCTTCAGTGGCGATATCCAAAGTCATTTGCAT
1 ATTTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCAGTGGCGATATCCAAAGTCATTTGCAT
* * * *
25323655 ATTCTCAGTGGTGATATCCGAGTATTAAAGCTTT
66 ATTATCAATGGTGATATCCGAGTATCAAAGCTTG
* * *
25323689 AATTGTATTTTCTCGATAGTGATATTCGAGTTTCCTT
1 ATTTGCATTTTCTCGATGGTGATATTCGAGTTTCCTT
25323726 TGATGGTGAT
Statistics
Matches: 119, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
99 119 1.00
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40
Consensus pattern (99 bp):
ATTTGCATTTTCTCGATGGTGATATTCGAGTTTCCTTCAGTGGCGATATCCAAAGTCATTTGCAT
ATTATCAATGGTGATATCCGAGTATCAAAGCTTG
Found at i:25323713 original size:390 final size:390
Alignment explanation
Indices: 25322991--25323718 Score: 1005
Period size: 390 Copynumber: 1.9 Consensus size: 390
25322981 ACCTTCTCGG
* * *
25322991 TGGTGATATCCAATTGTTAAGATTTGAATTGCATCTTCTCGGTGGTGATATCCAAGTGTCGAGGT
1 TGGTGATATCCAAGTGTTAAGATTTGAATTACATCTTCTCGGTGGTGATATCCAAGTGTCGAAGT
* * * * *
25323056 TTGAATTATATTTTTTCGATGGTCATATTCGAGCATTAAAAAATCATTTATATTTTCTCGATAGT
66 TTGAATTACATTTTCTCGATCGACATATTCGAGCATTAAAAAATCATTTACATTTTCTCGATAGT
* * *
25323121 GATATTCGAGTTTCCTTCAAAGATGATATCTGAAGTCATTTGCATATTCTCGATGGTGATATCCG
131 GATATTCGAGTTTCCTTCAAAGATGATATCCGAAGTCATTTGCATATTATCAATGGTGATATCCG
* * * * *
25323186 AGTGTTAAAGGTAGATTTGCATTTTTTCGATGGTAATATTCAAGTTTCCTTCAGAGGTGATATCC
196 AGTGTCAAAGGTAGATTTGCATTTTCTCAATGGTAATAATCAAGTTTCCTTCAGAGGCGATATCC
* * * * * * *
25323251 GAAATCATTTGTATCTTCTCGGTGGTGATATCTAAGTGTCAAGATTTGAATTGCATTTTTTCGGT
261 GAAATCATTTGCATATTCTCAGTGGTGATATCCAAGTGTAAAGATTTGAATTGCATTTTCTCGAT
*
25323316 GGTGATATTCGAGCATTAAAAAATTATTTGTATTTTTTCGATGGTGATATTCAAGTTTCCTTCGA
326 AGTGATATTCGAGCATTAAAAAATTATTTGTATTTTTTCGATGGTGATATTCAAGTTTCCTTCGA
* * * * * *
25323381 TGGTGATATCCGAGTGTTAAGGTTTGAATTATATCTTTTTGGTGGTGATATCCGAGTGTCGAAGT
1 TGGTGATATCCAAGTGTTAAGATTTGAATTACATCTTCTCGGTGGTGATATCCAAGTGTCGAAGT
*
25323446 TTGAATTACATTTTCTCGA-CGACA-ATATCTGAGCATTAAAAAATCATTTACATTTTCTCGATG
66 TTGAATTACATTTTCTCGATCGACATAT-TC-GAGCATTAAAAAATCATTTACATTTTCTCGATA
*** *
25323509 GTGATATTCGAGTTTCCTTCGGTGGTGATATCCGAAGTCATTTGCATATTATCAATGGTGATATC
129 GTGATATTCGAGTTTCCTTCAAAGATGATATCCGAAGTCATTTGCATATTATCAATGGTGATATC
* * * *
25323574 CGAGTGTCAAAGGTTGATTTGCATTTTCTCAATGGTGATAATCGAGTTTCCTTCAGTGGCGATAT
194 CGAGTGTCAAAGGTAGATTTGCATTTTCTCAATGGTAATAATCAAGTTTCCTTCAGAGGCGATAT
* * * *
25323639 CC-AAAGTCATTTGCATATTCTCAGTGGTGATATCCGAGTATTAAAGCTTT-AATTGTATTTTCT
259 CCGAAA-TCATTTGCATATTCTCAGTGGTGATATCCAAGT-GTAAAGATTTGAATTGCATTTTCT
25323702 CGATAGTGATATTCGAG
322 CGATAGTGATATTCGAG
25323719 TTTCCTTTGA
Statistics
Matches: 291, Mismatches: 43, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
388 2 0.01
389 8 0.03
390 274 0.94
391 7 0.02
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.40
Consensus pattern (390 bp):
TGGTGATATCCAAGTGTTAAGATTTGAATTACATCTTCTCGGTGGTGATATCCAAGTGTCGAAGT
TTGAATTACATTTTCTCGATCGACATATTCGAGCATTAAAAAATCATTTACATTTTCTCGATAGT
GATATTCGAGTTTCCTTCAAAGATGATATCCGAAGTCATTTGCATATTATCAATGGTGATATCCG
AGTGTCAAAGGTAGATTTGCATTTTCTCAATGGTAATAATCAAGTTTCCTTCAGAGGCGATATCC
GAAATCATTTGCATATTCTCAGTGGTGATATCCAAGTGTAAAGATTTGAATTGCATTTTCTCGAT
AGTGATATTCGAGCATTAAAAAATTATTTGTATTTTTTCGATGGTGATATTCAAGTTTCCTTCGA
Found at i:25324008 original size:49 final size:51
Alignment explanation
Indices: 25323794--25324106 Score: 244
Period size: 50 Copynumber: 6.1 Consensus size: 51
25323784 CCTAGATGAA
* *
25323794 CCTTTTTCAAGA-TAGAATTTTAAAAGTTGTTGAACCTTTGCTAAGATG-AG
1 CCTTTTTCAAGATTAGAATTTTAAAAGTTGTTGAGCCTCTGCTAAGA-GAAG
* * * * * * * *
25323844 CCTTTTTCAAGATGAAAATTTCTTTAATGTTATTGAACCTCTGTTGAAG-GTAG
1 CCTTTTTCAAGATTAGAA-TT-TTAAAAGTTGTTGAGCCTCTGCT-AAGAGAAG
*
25323897 CCTTTTTCAAGA-TAGAATTTTAAAAGTTTTTGAGCCTCTGCTAAGAGAAG
1 CCTTTTTCAAGATTAGAATTTTAAAAGTTGTTGAGCCTCTGCTAAGAGAAG
* * *
25323947 CCTTTTTCAAGATTAGTATTTT-AAAGTTGTTGAGCTTCTGCTTAGAGAAG
1 CCTTTTTCAAGATTAGAATTTTAAAAGTTGTTGAGCCTCTGCTAAGAGAAG
* * * * * * *
25323997 -CTTTTTTAAGATGAAAATTTCTTTAAAGTTATTGAACCTCTACCT-AGAGAAG
1 CCTTTTTCAAGATTAGAA-TT-TTAAAAGTTGTTGAGCCTCT-GCTAAGAGAAG
* * * * * * * *
25324049 CCTTTTTCAAAATAAGAATTTTTAAAGTTGCTGAGTCTATGCTGAGAGGAG
1 CCTTTTTCAAGATTAGAATTTTAAAAGTTGTTGAGCCTCTGCTAAGAGAAG
*
25324100 TCTTTTT
1 CCTTTTT
25324107 TAGATTTTAA
Statistics
Matches: 211, Mismatches: 39, Indels: 25
0.77 0.14 0.09
Matches are distributed among these distances:
49 16 0.08
50 74 0.35
51 42 0.20
52 29 0.14
53 47 0.22
54 3 0.01
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.40
Consensus pattern (51 bp):
CCTTTTTCAAGATTAGAATTTTAAAAGTTGTTGAGCCTCTGCTAAGAGAAG
Found at i:25324051 original size:152 final size:154
Alignment explanation
Indices: 25323794--25324077 Score: 384
Period size: 152 Copynumber: 1.9 Consensus size: 154
25323784 CCTAGATGAA
25323794 CCTTTTTCAAGATAGAATTTTAAAAGTTGTTGAACCTTTGCTAAGATGAGCCTTTTTCAAGATGA
1 CCTTTTTCAAGATAGAATTTTAAAAGTTGTTGAACCTTTGCTAAGATGAGCCTTTTTCAAGATGA
* * * * *
25323859 AAATTTCTTTAATGTTATTGAACCTCTGTTGAAGGTAGCCTTTTTCAAGAT-AGAATTTTAAAAG
66 AAATTTCTTTAAAGTTATTGAACCTCTCTAGAAGGAAGCCTTTTTCAAAATAAGAATTTTAAAAG
25323923 TTTTTGAGCCTCTGCTAAGAGAAG
131 TTTTTGAGCCTCTGCTAAGAGAAG
* * * *
25323947 CCTTTTTCAAGATTAGTATTTT-AAAGTTGTTG-AGCTTCTGCTTAGA-GAAG-CTTTTTTAAGA
1 CCTTTTTCAAGA-TAGAATTTTAAAAGTTGTTGAACCTT-TGCTAAGATG-AGCCTTTTTCAAGA
25324008 TGAAAATTTCTTTAAAGTTATTGAACCTCTACCTAG-A-GAAGCCTTTTTCAAAATAAGAATTTT
63 TGAAAATTTCTTTAAAGTTATTGAACCTCT--CTAGAAGGAAGCCTTTTTCAAAATAAGAATTTT
*
25324071 TAAAGTT
126 AAAAGTT
25324078 GCTGAGTCTA
Statistics
Matches: 115, Mismatches: 10, Indels: 12
0.84 0.07 0.09
Matches are distributed among these distances:
152 59 0.51
153 46 0.40
154 10 0.09
ACGTcount: A:0.31, C:0.13, G:0.16, T:0.40
Consensus pattern (154 bp):
CCTTTTTCAAGATAGAATTTTAAAAGTTGTTGAACCTTTGCTAAGATGAGCCTTTTTCAAGATGA
AAATTTCTTTAAAGTTATTGAACCTCTCTAGAAGGAAGCCTTTTTCAAAATAAGAATTTTAAAAG
TTTTTGAGCCTCTGCTAAGAGAAG
Found at i:25324112 original size:152 final size:154
Alignment explanation
Indices: 25323794--25324106 Score: 379
Period size: 153 Copynumber: 2.0 Consensus size: 154
25323784 CCTAGATGAA
*
25323794 CCTTTTTCAAGA-TAGAATTTTAAAAGTTGTTGAACCTTTGCTAAGATGAGCCTTTTTCAAGATG
1 CCTTTTTCAAGATTAGTATTTTAAAAGTTGTTGAACCTTTGCTAAGATGAGCCTTTTTCAAGATG
* * * * *
25323858 AAAATTTCTTTAATGTTATTGAACCTCTGTTGAAGGTAGCCTTTTTCAAGATAGAATTTTAAAAG
66 AAAATTTCTTTAAAGTTATTGAACCTCTCTAGAAGGAAGCCTTTTTCAAAATAGAATTTTAAAAG
** *
25323923 TTTTTGAGCCTCTGCTAAGAGAAG
131 TTGCTGAGCCTATGCTAAGAGAAG
* * *
25323947 CCTTTTTCAAGATTAGTATTTT-AAAGTTGTTG-AGCTTCTGCTTAGA-GAAG-CTTTTTTAAGA
1 CCTTTTTCAAGATTAGTATTTTAAAAGTTGTTGAACCTT-TGCTAAGATG-AGCCTTTTTCAAGA
25324008 TGAAAATTTCTTTAAAGTTATTGAACCTCTACCTAG-A-GAAGCCTTTTTCAAAATAAGAATTTT
64 TGAAAATTTCTTTAAAGTTATTGAACCTCT--CTAGAAGGAAGCCTTTTTCAAAAT-AGAATTTT
* * * *
25324071 TAAAGTTGCTGAGTCTATGCTGAGAGGAG
126 AAAAGTTGCTGAGCCTATGCTAAGAGAAG
*
25324100 TCTTTTT
1 CCTTTTT
25324107 TAGATTTTAA
Statistics
Matches: 137, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
152 59 0.43
153 68 0.50
154 10 0.07
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.40
Consensus pattern (154 bp):
CCTTTTTCAAGATTAGTATTTTAAAAGTTGTTGAACCTTTGCTAAGATGAGCCTTTTTCAAGATG
AAAATTTCTTTAAAGTTATTGAACCTCTCTAGAAGGAAGCCTTTTTCAAAATAGAATTTTAAAAG
TTGCTGAGCCTATGCTAAGAGAAG
Found at i:25324483 original size:18 final size:17
Alignment explanation
Indices: 25324462--25324510 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 17
25324452 CAAAAAATAA
*
25324462 AAAAACAATACAAAACAT
1 AAAAA-AATAAAAAACAT
*
25324480 AAAAAATATAAAAAATAT
1 AAAAAA-ATAAAAAACAT
25324498 AAAAAAATTAAAA
1 AAAAAAA-TAAAA
25324511 CAAAAAACAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 2 0.07
18 25 0.93
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.16
Consensus pattern (17 bp):
AAAAAAATAAAAAACAT
Found at i:25324485 original size:9 final size:9
Alignment explanation
Indices: 25324461--25324503 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
25324451 ACAAAAAATA
25324461 AAAAAACAAT
1 AAAAAAC-AT
*
25324471 ACAAAACAT
1 AAAAAACAT
*
25324480 AAAAAATAT
1 AAAAAACAT
*
25324489 AAAAAATAT
1 AAAAAACAT
25324498 AAAAAA
1 AAAAAA
25324504 ATTAAAACAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
9 24 0.80
10 6 0.20
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (9 bp):
AAAAAACAT
Found at i:25324509 original size:27 final size:27
Alignment explanation
Indices: 25324453--25324510 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
25324443 TTAATTAAAC
*
25324453 AAAAAATAAAAAAACAATACAAAACAT
1 AAAAAATAAAAAAACAATACAAAAAAT
*
25324480 AAAAAATATAAAAAA-TATA-AAAAAAT
1 AAAAAATA-AAAAAACAATACAAAAAAT
*
25324506 TAAAA
1 AAAAA
25324511 CAAAAAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 10 0.37
27 11 0.41
28 6 0.22
ACGTcount: A:0.79, C:0.05, G:0.00, T:0.16
Consensus pattern (27 bp):
AAAAAATAAAAAAACAATACAAAAAAT
Found at i:25325498 original size:21 final size:22
Alignment explanation
Indices: 25325481--25325535 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
25325471 TGTAAATTTT
*
25325481 TTTTTATTTTTTTAAAATATTA
1 TTTTTATTATTTTAAAATATTA
* *
25325503 TTTTTGTTATTTT-AAATGTTA
1 TTTTTATTATTTTAAAATATTA
* *
25325524 TTATTAATATTT
1 TTTTTATTATTT
25325536 ATGCATGTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
21 16 0.59
22 11 0.41
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (22 bp):
TTTTTATTATTTTAAAATATTA
Found at i:25326106 original size:21 final size:20
Alignment explanation
Indices: 25326077--25326128 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
25326067 AAAATTTTTC
25326077 AAATGAAAATATT-AATAAAA
1 AAAT-AAAATATTAAATAAAA
*
25326097 ATTAATAAAATTTTTAAATAAAA
1 A--AATAAAA-TATTAAATAAAA
25326120 AAATAAAAT
1 AAATAAAAT
25326129 GTGTGCATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 8
0.75 0.03 0.22
Matches are distributed among these distances:
20 2 0.07
21 11 0.41
22 6 0.22
23 8 0.30
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (20 bp):
AAATAAAATATTAAATAAAA
Found at i:25326153 original size:27 final size:27
Alignment explanation
Indices: 25326122--25326176 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
25326112 AAATAAAAAA
25326122 ATAAAATGTGTGCATTAACGTATCATC
1 ATAAAATGTGTGCATTAACGTATCATC
*
25326149 ATAAAATGTGTGCATTAATGTATCATC
1 ATAAAATGTGTGCATTAACGTATCATC
25326176 A
1 A
25326177 CTTGCATTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.35
Consensus pattern (27 bp):
ATAAAATGTGTGCATTAACGTATCATC
Found at i:25327442 original size:19 final size:19
Alignment explanation
Indices: 25327418--25327454 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
25327408 TTTGTGATAA
25327418 AAAATTTTAAAAGAAAATC
1 AAAATTTTAAAAGAAAATC
*
25327437 AAAATTTTAAAAGCAAAT
1 AAAATTTTAAAAGAAAAT
25327455 TTGACTTGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.27
Consensus pattern (19 bp):
AAAATTTTAAAAGAAAATC
Found at i:25328040 original size:19 final size:21
Alignment explanation
Indices: 25328016--25328054 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
25328006 AAAAAATTAT
25328016 TTTTTAATTA-AT-TATTTAA
1 TTTTTAATTATATATATTTAA
*
25328035 TTTTTATTTATATATATTTA
1 TTTTTAATTATATATATTTA
25328055 TATAATGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 2 0.12
21 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTAATTATATATATTTAA
Found at i:25328071 original size:31 final size:31
Alignment explanation
Indices: 25328035--25328105 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
25328025 AATTATTTAA
* * *
25328035 TTTTTATTTATATATATTTATATAATGATAT
1 TTTTTATTTATATATATTTAAAAAATAATAT
** *
25328066 TTTTTAAATATTTATATTTAAAAAATAATAT
1 TTTTTATTTATATATATTTAAAAAATAATAT
*
25328097 TTTATATTT
1 TTTTTATTT
25328106 TAAAAATAAT
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (31 bp):
TTTTTATTTATATATATTTAAAAAATAATAT
Found at i:25328102 original size:21 final size:21
Alignment explanation
Indices: 25328072--25328122 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
25328062 ATATTTTTTA
25328072 AATA-TTTATATTTAAAAAAT
1 AATATTTTATATTTAAAAAAT
*
25328092 AATATTTTATATTTTAAAAAT
1 AATATTTTATATTTAAAAAAT
25328113 AATATTTTAT
1 AATATTTTAT
25328123 TAATTTCGAG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 4 0.14
21 25 0.86
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
AATATTTTATATTTAAAAAAT
Found at i:25330383 original size:41 final size:42
Alignment explanation
Indices: 25330331--25330417 Score: 140
Period size: 41 Copynumber: 2.1 Consensus size: 42
25330321 CAGGGACGTT
*
25330331 GGAAAGAAGAACCCATTGAACCGGAATCAGGTCTTCAACTTA
1 GGAAAGAAGAACCCATTGAACCAGAATCAGGTCTTCAACTTA
* *
25330373 GGAAA-AAGAACCCATTGAACCAGAATCATGTGTTCAACTTA
1 GGAAAGAAGAACCCATTGAACCAGAATCAGGTCTTCAACTTA
25330414 GGAA
1 GGAA
25330418 TCAGGAGGAT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 37 0.88
42 5 0.12
ACGTcount: A:0.40, C:0.20, G:0.21, T:0.20
Consensus pattern (42 bp):
GGAAAGAAGAACCCATTGAACCAGAATCAGGTCTTCAACTTA
Found at i:25339903 original size:26 final size:24
Alignment explanation
Indices: 25339864--25339916 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 24
25339854 ATTTATGAAA
*
25339864 TATTATTTATTTTAATTTAAAAATTT
1 TATTATTTATTTTAA--CAAAAATTT
25339890 TATTATTT-TATTTAACAAAAATTT
1 TATTATTTAT-TTTAACAAAAATTT
25339914 TAT
1 TAT
25339917 ATAATTTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 11 0.44
25 1 0.04
26 13 0.52
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (24 bp):
TATTATTTATTTTAACAAAAATTT
Found at i:25339904 original size:21 final size:23
Alignment explanation
Indices: 25339852--25339904 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
25339842 AATTCATATC
*
25339852 TAATTTATGAAATATTATTTATTT
1 TAATTTA-AAAATATTATTTATTT
*
25339876 TAATTTAAAAATTTTA-TTATTT
1 TAATTTAAAAATATTATTTATTT
25339898 T-ATTTAA
1 TAATTTAA
25339905 CAAAAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
21 6 0.22
22 7 0.26
23 7 0.26
24 7 0.26
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TAATTTAAAAATATTATTTATTT
Found at i:25339909 original size:23 final size:23
Alignment explanation
Indices: 25339852--25339930 Score: 63
Period size: 24 Copynumber: 3.3 Consensus size: 23
25339842 AATTCATATC
** *
25339852 TAATTTATGAAATATTATTTATTT
1 TAATTTAAAAAATTTTA-TTATTT
25339876 TAATTT-AAAAATTTTATTATTT
1 TAATTTAAAAAATTTTATTATTT
25339898 T-ATTTAACAAAAATTTTATATAATTT
1 TAATTT-A-AAAAATTTTAT-T-ATTT
*
25339924 AAATTTA
1 TAATTTA
25339931 TATTTATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
21 4 0.09
22 7 0.16
23 7 0.16
24 17 0.38
25 1 0.02
26 5 0.11
27 4 0.09
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (23 bp):
TAATTTAAAAAATTTTATTATTT
Found at i:25339916 original size:21 final size:20
Alignment explanation
Indices: 25339869--25339926 Score: 53
Period size: 21 Copynumber: 2.8 Consensus size: 20
25339859 TGAAATATTA
**
25339869 TTTATTTTAATTTAAAAATTT
1 TTTATTTT-ATTTAAAAAAAT
25339890 TATTATTTTATTTAACAAAAAT
1 T-TTATTTTATTTAA-AAAAAT
* *
25339912 TTTATATAATTTAAA
1 TTTATTTTATTTAAA
25339927 TTTATATTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 1 0.03
21 18 0.58
22 12 0.39
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTATTTTATTTAAAAAAAT
Found at i:25341348 original size:2 final size:2
Alignment explanation
Indices: 25341341--25341379 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
25341331 AGTCACCCTT
25341341 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25341380 TTGATAAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25341599 original size:23 final size:23
Alignment explanation
Indices: 25341556--25341600 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
25341546 CTCGCGAGTC
* *
25341556 TAATTAAATTTTTATATTTTAAT
1 TAATAAAATTTTTATAATTTAAT
25341579 TAATAAAATATTTTA-AATTTAA
1 TAATAAAAT-TTTTATAATTTAA
25341601 ACTCAAAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TAATAAAATTTTTATAATTTAAT
Found at i:25341764 original size:18 final size:18
Alignment explanation
Indices: 25341727--25341774 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
25341717 AATTTAATCA
*
25341727 AATTTAAATTAAATTCTG
1 AATTTAAATTAAACTCTG
25341745 AATTTCAAATTAAACT-TG
1 AATTT-AAATTAAACTCTG
* *
25341763 AACTTAGATTAA
1 AATTTAAATTAA
25341775 TTACATCTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
17 6 0.23
18 11 0.42
19 9 0.35
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (18 bp):
AATTTAAATTAAACTCTG
Found at i:25344258 original size:6 final size:7
Alignment explanation
Indices: 25344234--25344266 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
25344224 ATTAAGAGTG
25344234 AATTTAA
1 AATTTAA
25344241 AATTTAA
1 AATTTAA
25344248 AATTT-A
1 AATTTAA
25344254 AATTTAA
1 AATTTAA
*
25344261 ATTTTA
1 AATTTA
25344267 TTTTTTATGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
AATTTAA
Found at i:25344390 original size:26 final size:27
Alignment explanation
Indices: 25344345--25344396 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
25344335 TTCAACTTAA
*
25344345 ATAAATATTTAAACAGATTCAAATATT
1 ATAAATATTTAAACAAATTCAAATATT
* *
25344372 ATAAATA-TTAAATAAATTCTAATAT
1 ATAAATATTTAAACAAATTCAAATAT
25344397 CTAAAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 15 0.68
27 7 0.32
ACGTcount: A:0.54, C:0.06, G:0.02, T:0.38
Consensus pattern (27 bp):
ATAAATATTTAAACAAATTCAAATATT
Found at i:25345343 original size:27 final size:27
Alignment explanation
Indices: 25345296--25345347 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
25345286 AATTTATACT
**
25345296 TATAAAATATTTTTTATAAAATAAAAA
1 TATAAAATATTTTAAATAAAATAAAAA
25345323 TATAAAAT-TTTTAAATCAAAATAAA
1 TATAAAATATTTTAAAT-AAAATAAA
25345348 TATTATCTCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 6 0.27
27 16 0.73
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (27 bp):
TATAAAATATTTTAAATAAAATAAAAA
Found at i:25364009 original size:15 final size:15
Alignment explanation
Indices: 25363970--25364023 Score: 56
Period size: 15 Copynumber: 3.5 Consensus size: 15
25363960 ATTTGATAAT
25363970 TTAAAATACAAATATGA
1 TTAAAATA-AAATAT-A
*
25363987 TAAAAATAAAATATA
1 TTAAAATAAAATATA
*
25364002 TTAAAATAACATA-A
1 TTAAAATAAAATATA
25364016 TTTAAAAT
1 -TTAAAAT
25364024 TTTAATAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
14 1 0.03
15 19 0.58
16 6 0.18
17 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.31
Consensus pattern (15 bp):
TTAAAATAAAATATA
Found at i:25364884 original size:14 final size:14
Alignment explanation
Indices: 25364849--25364893 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
25364839 TATTATTAAA
25364849 ATTA-TTTTAAATAT
1 ATTATTTTTAAAT-T
*
25364863 ATGATTTTT-AATT
1 ATTATTTTTAAATT
25364876 ATTATTTTTAAATT
1 ATTATTTTTAAATT
25364890 ATTA
1 ATTA
25364894 AATATAATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 9 0.33
14 14 0.52
15 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
ATTATTTTTAAATT
Found at i:25365939 original size:13 final size:13
Alignment explanation
Indices: 25365917--25365946 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
25365907 CCTCTTTTCA
*
25365917 TAAAATTATTTTT
1 TAAAAATATTTTT
25365930 TAAAAATATTTTT
1 TAAAAATATTTTT
25365943 TAAA
1 TAAA
25365947 TCAAATAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
TAAAAATATTTTT
Found at i:25369283 original size:14 final size:15
Alignment explanation
Indices: 25369264--25369292 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
25369254 TCTTTTTATC
25369264 TTGA-TTAAAAAATT
1 TTGATTTAAAAAATT
25369278 TTGATTTAAAAAATT
1 TTGATTTAAAAAATT
25369293 ATCTTTCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 4 0.29
15 10 0.71
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (15 bp):
TTGATTTAAAAAATT
Found at i:25370247 original size:23 final size:23
Alignment explanation
Indices: 25370216--25370261 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
25370206 TAATATGTAA
25370216 AATGAATCATAGAGTCATTTTCC
1 AATGAATCATAGAGTCATTTTCC
*
25370239 AATGCATCATAGAGTCATTTTCC
1 AATGAATCATAGAGTCATTTTCC
25370262 TATTTTGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (23 bp):
AATGAATCATAGAGTCATTTTCC
Found at i:25374714 original size:25 final size:25
Alignment explanation
Indices: 25374668--25374722 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 25
25374658 GATAATTTTT
*
25374668 AATAATTTATTAATTATATATATTA
1 AATAATTTATAAATTATATATATTA
*
25374693 AATAATTTA-AAATTTTAT-TA-TA
1 AATAATTTATAAATTATATATATTA
*
25374715 TATAATTT
1 AATAATTT
25374723 TTAACTTAAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 9 0.33
23 2 0.07
24 7 0.26
25 9 0.33
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
AATAATTTATAAATTATATATATTA
Found at i:25374838 original size:18 final size:18
Alignment explanation
Indices: 25374817--25374851 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
25374807 TATTATAATA
*
25374817 ATTAATTTTATTTTTATT
1 ATTAATTTTAATTTTATT
*
25374835 ATTATTTTTAATTTTAT
1 ATTAATTTTAATTTTAT
25374852 CAAAATTAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (18 bp):
ATTAATTTTAATTTTATT
Found at i:25374845 original size:24 final size:25
Alignment explanation
Indices: 25374799--25374851 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
25374789 TAAATATATA
25374799 TTATTATTTATTATAATAATTAATT
1 TTATTATTTATTATAATAATTAATT
* **
25374824 TTATT-TTTATTATTATTTTTAATT
1 TTATTATTTATTATAATAATTAATT
25374848 TTAT
1 TTAT
25374852 CAAAATTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 20 0.80
25 5 0.20
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (25 bp):
TTATTATTTATTATAATAATTAATT
Found at i:25374851 original size:12 final size:12
Alignment explanation
Indices: 25374818--25374851 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
25374808 ATTATAATAA
25374818 TTAATTTTATTT
1 TTAATTTTATTT
25374830 TT-ATTATTATTT
1 TTAATT-TTATTT
25374842 TTAATTTTAT
1 TTAATTTTAT
25374852 CAAAATTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
11 3 0.15
12 14 0.70
13 3 0.15
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (12 bp):
TTAATTTTATTT
Found at i:25375276 original size:20 final size:21
Alignment explanation
Indices: 25375251--25375291 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
25375241 ATAATAATTT
25375251 TATATTAAAATTTAT-TTAAA
1 TATATTAAAATTTATATTAAA
*
25375271 TATATTATAATTTATATTAAA
1 TATATTAAAATTTATATTAAA
25375292 ATAATATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TATATTAAAATTTATATTAAA
Found at i:25375299 original size:20 final size:20
Alignment explanation
Indices: 25375259--25375299 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
25375249 TTTATATTAA
*
25375259 AATTTATTTAAATATATTAT
1 AATTTATTTAAATATAATAT
25375279 AATTTATATTAAA-ATAATAT
1 AATTTAT-TTAAATATAATAT
25375299 A
1 A
25375300 TAAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 14 0.74
21 5 0.26
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AATTTATTTAAATATAATAT
Found at i:25378685 original size:2 final size:2
Alignment explanation
Indices: 25378678--25378713 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
25378668 TTTGATTGTT
25378678 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25378714 ATTATATTCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25383136 original size:65 final size:64
Alignment explanation
Indices: 25382918--25383137 Score: 201
Period size: 65 Copynumber: 3.4 Consensus size: 64
25382908 TAATTTCGCT
* *** *
25382918 TATTTACTCAATTAAGGCGTTTATATTAAAAAAAGGGCTTAACTGAAAG-TATTTATCAATTCTT
1 TATTCACTCAATTAAGGCGTTTATATTAAAAAAACACCTTAATTGAAAGCT-TTT-TCAATTCTT
25382982 A
64 A
* * *** * * *
25382983 TATAT-ACTCAATTAAGGCATTTATATTTAACCCACACCTTAGTTGACAGCTTTTTTCCATTTCT
1 TAT-TCACTCAATTAAGGCGTTTATATTAAAAAAACACCTTAATTGAAAGC-TTTTT-CAATTCT
25383047 TA
63 TA
* * * * *
25383049 TATTCACTCAATTACGGTGTTTATATTAAAAAAAATACCATAATTAAAAGCTTTTTCAATTCTTA
1 TATTCACTCAATTAAGGCGTTTATATT-AAAAAAACACCTTAATTGAAAGCTTTTTCAATTCTTA
*
25383114 TATTCTCTCAATTAAGGCGTTTAT
1 TATTCACTCAATTAAGGCGTTTAT
25383138 TTCCAATAAA
Statistics
Matches: 121, Mismatches: 28, Indels: 12
0.75 0.17 0.07
Matches are distributed among these distances:
65 67 0.55
66 39 0.32
67 15 0.12
ACGTcount: A:0.35, C:0.15, G:0.09, T:0.41
Consensus pattern (64 bp):
TATTCACTCAATTAAGGCGTTTATATTAAAAAAACACCTTAATTGAAAGCTTTTTCAATTCTTA
Found at i:25385029 original size:34 final size:35
Alignment explanation
Indices: 25384972--25385049 Score: 90
Period size: 34 Copynumber: 2.3 Consensus size: 35
25384962 AGCAACGTAA
25384972 TTTTTAAAAATAAATTATCGAGAATA-A-AAAATAT
1 TTTTTAAAAATAAATTATCGAGAATACATAAAAT-T
* *
25385006 TTTTTAAAAATTTAATT-TTGAGAATACATAAAATT
1 TTTTTAAAAA-TAAATTATCGAGAATACATAAAATT
*
25385041 TATTTAAAA
1 TTTTTAAAA
25385050 TATATATTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
34 18 0.47
35 15 0.39
36 5 0.13
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (35 bp):
TTTTTAAAAATAAATTATCGAGAATACATAAAATT
Found at i:25385675 original size:19 final size:18
Alignment explanation
Indices: 25385651--25385687 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
25385641 TCGGATATTT
25385651 ATTTTTGAAAAATTTAAAA
1 ATTTTTGAAAAA-TTAAAA
*
25385670 ATTTTTTAAAAATTAAAA
1 ATTTTTGAAAAATTAAAA
25385688 TTTATAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (18 bp):
ATTTTTGAAAAATTAAAA
Found at i:25393602 original size:21 final size:21
Alignment explanation
Indices: 25393562--25393600 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
25393552 AGGGATGATA
*
25393562 TTTTATTAAAATTATATTTAT
1 TTTTAATAAAATTATATTTAT
25393583 TTTTAATAAAATTA-ATTT
1 TTTTAATAAAATTATATTT
25393601 TAAATAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTTAATAAAATTATATTTAT
Found at i:25406400 original size:19 final size:20
Alignment explanation
Indices: 25406376--25406421 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
25406366 TTTGATGCTT
*
25406376 TTTCTTCTTCT-TTTTGAAG
1 TTTCTTCTGCTATTTTGAAG
25406395 TTTCTT-TGCTGATTTTGAAG
1 TTTCTTCTGCT-ATTTTGAAG
25406415 TTT-TTCT
1 TTTCTTCT
25406422 ATGCATTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
18 3 0.13
19 8 0.35
20 12 0.52
ACGTcount: A:0.11, C:0.13, G:0.13, T:0.63
Consensus pattern (20 bp):
TTTCTTCTGCTATTTTGAAG
Found at i:25408370 original size:42 final size:42
Alignment explanation
Indices: 25408311--25408394 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
25408301 TTCGAATGTC
*
25408311 TTGTTAACCTTATCATCAAATCCTTGCGATAAGCTTTCCATA
1 TTGTTAACCTCATCATCAAATCCTTGCGATAAGCTTTCCATA
25408353 TTGTTAACCTCATCATCAAATCCTTGCGATAAGCTTTCCATA
1 TTGTTAACCTCATCATCAAATCCTTGCGATAAGCTTTCCATA
25408395 AGTATGATTA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.29, C:0.25, G:0.10, T:0.37
Consensus pattern (42 bp):
TTGTTAACCTCATCATCAAATCCTTGCGATAAGCTTTCCATA
Found at i:25415951 original size:30 final size:30
Alignment explanation
Indices: 25415917--25415974 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
25415907 TTAATTTTAA
* *
25415917 TTTATTTATAATTATTAAATATAATTTACG
1 TTTATCTATAATTATTAAATACAATTTACG
25415947 TTTATCTATAATTATTAAATACAATTTA
1 TTTATCTATAATTATTAAATACAATTTA
25415975 TAATTACCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.52
Consensus pattern (30 bp):
TTTATCTATAATTATTAAATACAATTTACG
Found at i:25416801 original size:19 final size:20
Alignment explanation
Indices: 25416774--25416818 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
25416764 GGCTGTCGGG
* *
25416774 TTTTT-TAATTTTCATTTT-
1 TTTTTATAATTATAATTTTA
25416792 TTTTTATAATTATAATTTTA
1 TTTTTATAATTATAATTTTA
25416812 TTTTTAT
1 TTTTTAT
25416819 CAATGGAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
18 5 0.22
19 11 0.48
20 7 0.30
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTTATAATTATAATTTTA
Found at i:25417970 original size:12 final size:12
Alignment explanation
Indices: 25417949--25417987 Score: 62
Period size: 12 Copynumber: 3.3 Consensus size: 12
25417939 TTATAAAAAT
*
25417949 TTTAAGTTTAAA
1 TTTAATTTTAAA
25417961 TTTAATTTTAAA
1 TTTAATTTTAAA
25417973 TTT-ATTTTAAA
1 TTTAATTTTAAA
25417984 TTTA
1 TTTA
25417988 GTTAAGTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
11 11 0.44
12 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (12 bp):
TTTAATTTTAAA
Found at i:25417981 original size:11 final size:11
Alignment explanation
Indices: 25417955--25417987 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
25417945 AAATTTTAAG
25417955 TTTAAATTTAAT
1 TTTAAATTT-AT
25417967 TTTAAATTTAT
1 TTTAAATTTAT
25417978 TTTAAATTTA
1 TTTAAATTTA
25417988 GTTAAGTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 12 0.57
12 9 0.43
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTAAATTTAT
Found at i:25418012 original size:41 final size:39
Alignment explanation
Indices: 25417950--25418026 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 39
25417940 TATAAAAATT
* **
25417950 TTAAGTTTAAATTTAATTTTAAATTTATTTTAAATTTAG
1 TTAAGTTTAAATTTAAATTTAAATAAATTTTAAATTTAG
25417989 TTAAGTTTTAAAATTTAAATTTAAATAAATTTTAAATT
1 TTAAG-TTT-AAATTTAAATTTAAATAAATTTTAAATT
25418027 CAAACTTAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
39 5 0.15
40 3 0.09
41 25 0.76
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (39 bp):
TTAAGTTTAAATTTAAATTTAAATAAATTTTAAATTTAG
Found at i:25418021 original size:24 final size:24
Alignment explanation
Indices: 25417978--25418024 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
25417968 TTAAATTTAT
** *
25417978 TTTAAATTTAGTTAAGTTTTAAAA
1 TTTAAATTTAAATAAATTTTAAAA
25418002 TTTAAATTTAAATAAATTTTAAA
1 TTTAAATTTAAATAAATTTTAAA
25418025 TTCAAACTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
TTTAAATTTAAATAAATTTTAAAA
Found at i:25419584 original size:36 final size:39
Alignment explanation
Indices: 25419543--25419621 Score: 92
Period size: 36 Copynumber: 2.1 Consensus size: 39
25419533 TTATTAAAAT
* **
25419543 TTTAAATCATACTATT-T-TTATATTTTTTA-TATCATA
1 TTTAAATCATACTATTATATCATATTTTAAATTATCATA
* *
25419579 TTTAAATTATATTATTATATCATATTTTAAATTATCATA
1 TTTAAATCATACTATTATATCATATTTTAAATTATCATA
25419618 TTTA
1 TTTA
25419622 TAAATCAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
36 14 0.40
37 1 0.03
38 9 0.26
39 11 0.31
ACGTcount: A:0.37, C:0.06, G:0.00, T:0.57
Consensus pattern (39 bp):
TTTAAATCATACTATTATATCATATTTTAAATTATCATA
Found at i:25419601 original size:24 final size:26
Alignment explanation
Indices: 25419560--25419613 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
25419550 CATACTATTT
*
25419560 TTATATTTTTTATATCATA-TTTAAA
1 TTATATTTATTATATCATATTTTAAA
25419585 TTATA-TTATTATATCATATTTTAAA
1 TTATATTTATTATATCATATTTTAAA
25419610 TTAT
1 TTAT
25419614 CATATTTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
24 12 0.44
25 15 0.56
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (26 bp):
TTATATTTATTATATCATATTTTAAA
Found at i:25419616 original size:15 final size:16
Alignment explanation
Indices: 25419596--25419626 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
25419586 TATATTATTA
25419596 TATCATATTT-TAAAT
1 TATCATATTTATAAAT
25419611 TATCATATTTATAAAT
1 TATCATATTTATAAAT
25419627 CAAATTCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (16 bp):
TATCATATTTATAAAT
Found at i:25422753 original size:17 final size:18
Alignment explanation
Indices: 25422731--25422797 Score: 61
Period size: 17 Copynumber: 3.9 Consensus size: 18
25422721 CAGTAAAATT
25422731 TTTAAA-TTTAAATTTAA
1 TTTAAATTTTAAATTTAA
* * *
25422748 TTTAAAATTT--ATTGAGT
1 TTTAAATTTTAAATTTA-A
*
25422765 TTTAAATTTTAAATATAA
1 TTTAAATTTTAAATTTAA
25422783 -TTAAATTTTAAATTT
1 TTTAAATTTTAAATTT
25422798 TAAACTTAAA
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
16 4 0.10
17 29 0.74
18 3 0.08
19 3 0.08
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TTTAAATTTTAAATTTAA
Found at i:25422774 original size:7 final size:7
Alignment explanation
Indices: 25422730--25422810 Score: 53
Period size: 7 Copynumber: 11.4 Consensus size: 7
25422720 ACAGTAAAAT
25422730 TTTTAAA
1 TTTTAAA
25422737 -TTTAAA
1 TTTTAAA
25422743 -TTT-AA
1 TTTTAAA
*
25422748 TTTAAAA
1 TTTTAAA
* *
25422755 TTTATTGAG
1 -TT-TTAAA
25422764 TTTTAAA
1 TTTTAAA
25422771 TTTTAAA
1 TTTTAAA
25422778 TATAATTAAA
1 T-T--TTAAA
25422788 TTTTAAA
1 TTTTAAA
25422795 TTTTAAA
1 TTTTAAA
*
25422802 -CTTAAA
1 TTTTAAA
25422808 TTT
1 TTT
25422811 GATTTGAAAT
Statistics
Matches: 58, Mismatches: 8, Indels: 16
0.71 0.10 0.20
Matches are distributed among these distances:
5 2 0.03
6 16 0.28
7 26 0.45
8 5 0.09
9 3 0.05
10 6 0.10
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.53
Consensus pattern (7 bp):
TTTTAAA
Found at i:25422815 original size:25 final size:24
Alignment explanation
Indices: 25422759--25422820 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 24
25422749 TTAAAATTTA
25422759 TTGAGTTTTAAATTTTAAATATAAT
1 TTGA-TTTTAAATTTTAAATATAAT
**
25422784 TAAATTTTAAATTTTAAACT-TAAAT
1 TTGATTTTAAATTTTAAA-TAT-AAT
*
25422809 TTGATTTGAAAT
1 TTGATTTTAAAT
25422821 AAATGTAAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
24 15 0.50
25 15 0.50
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (24 bp):
TTGATTTTAAATTTTAAATATAAT
Found at i:25424847 original size:401 final size:401
Alignment explanation
Indices: 25424104--25424908 Score: 1466
Period size: 401 Copynumber: 2.0 Consensus size: 401
25424094 TTATTAATTG
* *
25424104 ACTCCTTTGGCCCATTGTACTTGGTTGGAGAGATCATTCTATTTGTCTACCACGTATGAGACAAT
1 ACTCCTTTGGCCCATTGTACTTGGTTGGAGAGATCATTCTATTTGTCTACCACATATAAGACAAT
25424169 GGAGAAACCGCTATGATCCGAAAATTTAAAATCACATTTTACAAAAGTGTAATATCTATTTTTAT
66 GGAGAAACCGCTATGATCCGAAAATTTAAAATCACATTTTACAAAAGTGTAATATCTATTTTTAT
* *
25424234 TAGAAAATATAATTGTATCAGGTGTAGATAAACGAAAATTATTTATAAAATATTGCATTTTTATT
131 TAGAAAACATAATTGTATCAGGCGTAGATAAACGAAAATTATTTATAAAATATTGCATTTTTATT
* *
25424299 TCTTTTTATCTATGAGTTCTAGATGAAGAGGTTCGTGAATTTAGAATAAAATTAACAAAATGATA
196 TCTTCTTATCTATGAGTTCTAGATGAAGAGGTTCGTGAATTTAGAACAAAATTAACAAAATGATA
25424364 ATAAGATTGATTATCACCTATATTTTGTTGACATGGATTATCTCTTGCAAAAATAAAAATTTGAC
261 ATAAGATTGATTATCACCTATATTTTGTTGACATGGATTATCTCTTGCAAAAATAAAAATTTGAC
* * *
25424429 TCGTACCTGTATGGCTTATGCTGTTTGTTCTTTGAAGATTTTTTGCATTAGTTGTACTTGGAAAT
326 TCGTACCTATATGGCTTATGCTGTTTGTTCTTTGAAGATTTTCTGCACTAGTTGTACTTGGAAAT
25424494 CCTGAAAAAGA
391 CCTGAAAAAGA
25424505 ACTCCTTTGGCCCATTGTACTTGGTTGGAGAGATCATTCTATTTGTCTACCACATATAAGACAAT
1 ACTCCTTTGGCCCATTGTACTTGGTTGGAGAGATCATTCTATTTGTCTACCACATATAAGACAAT
* *
25424570 GGAGAAACCGTTATGATCCGAAAATTTAAAATCATATTTTACAAAAGTGTAATATCTATTTTTAT
66 GGAGAAACCGCTATGATCCGAAAATTTAAAATCACATTTTACAAAAGTGTAATATCTATTTTTAT
*
25424635 TAGAAAACATAATTGTATCAGGCGTAGATAAACGAAAATTATTTATAAAATGTTGCATTTTTATT
131 TAGAAAACATAATTGTATCAGGCGTAGATAAACGAAAATTATTTATAAAATATTGCATTTTTATT
25424700 TCTTCTTATCTATGAGTTCTAGATGAAGAGGTTCGTGAATTTAGAACAAAATTAACAAAATGATA
196 TCTTCTTATCTATGAGTTCTAGATGAAGAGGTTCGTGAATTTAGAACAAAATTAACAAAATGATA
* * * *
25424765 ATAAGATTGATTATCACTTATATTTTGTTGAGATGGATTATCTCTTGTAAAAATAAAAATTTGAG
261 ATAAGATTGATTATCACCTATATTTTGTTGACATGGATTATCTCTTGCAAAAATAAAAATTTGAC
25424830 TCGTACCTATATGGCTTATGCTGTTTGTTCTTTGAAGATTTTCTGCACTAGTTGTACTTGGAAAT
326 TCGTACCTATATGGCTTATGCTGTTTGTTCTTTGAAGATTTTCTGCACTAGTTGTACTTGGAAAT
25424895 CCTGAAAAAGA
391 CCTGAAAAAGA
25424906 ACT
1 ACT
25424909 TCTATAAGGA
Statistics
Matches: 388, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
401 388 1.00
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (401 bp):
ACTCCTTTGGCCCATTGTACTTGGTTGGAGAGATCATTCTATTTGTCTACCACATATAAGACAAT
GGAGAAACCGCTATGATCCGAAAATTTAAAATCACATTTTACAAAAGTGTAATATCTATTTTTAT
TAGAAAACATAATTGTATCAGGCGTAGATAAACGAAAATTATTTATAAAATATTGCATTTTTATT
TCTTCTTATCTATGAGTTCTAGATGAAGAGGTTCGTGAATTTAGAACAAAATTAACAAAATGATA
ATAAGATTGATTATCACCTATATTTTGTTGACATGGATTATCTCTTGCAAAAATAAAAATTTGAC
TCGTACCTATATGGCTTATGCTGTTTGTTCTTTGAAGATTTTCTGCACTAGTTGTACTTGGAAAT
CCTGAAAAAGA
Found at i:25428316 original size:15 final size:16
Alignment explanation
Indices: 25428296--25428325 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
25428286 ATATCATTAC
25428296 ATCATATTT-TAAATT
1 ATCATATTTATAAATT
25428311 ATCATATTTATAAAT
1 ATCATATTTATAAAT
25428326 CAAATTCATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.07, G:0.00, T:0.50
Consensus pattern (16 bp):
ATCATATTTATAAATT
Found at i:25443990 original size:14 final size:14
Alignment explanation
Indices: 25443972--25444032 Score: 63
Period size: 14 Copynumber: 4.3 Consensus size: 14
25443962 AGATTTTTTT
25443972 TTTTA-TGAAATAA
1 TTTTAGTGAAATAA
* *
25443985 TATTTAGTGAAACATT
1 T-TTTAGTGAAATA-A
25444001 TTTTA-TGAAATAA
1 TTTTAGTGAAATAA
25444014 CTTTTAGTGAAATAA
1 -TTTTAGTGAAATAA
25444029 TTTT
1 TTTT
25444033 TTATATAAGA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
13 1 0.03
14 19 0.49
15 18 0.46
16 1 0.03
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (14 bp):
TTTTAGTGAAATAA
Found at i:25444005 original size:15 final size:15
Alignment explanation
Indices: 25443970--25444035 Score: 50
Period size: 15 Copynumber: 4.5 Consensus size: 15
25443960 TGAGATTTTT
25443970 TTTTTTA-TGAAATAA
1 TTTTTTAGTGAAA-AA
* *
25443985 -TATTTAGTGAAACA
1 TTTTTTAGTGAAAAA
25443999 TTTTTTA-TGAAATAA
1 TTTTTTAGTGAAA-AA
*
25444014 -CTTTTAGTGAAATAA
1 TTTTTTAGTGAAA-AA
25444029 TTTTTTA
1 TTTTTTA
25444036 TATAAGAGTT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
14 16 0.40
15 19 0.47
16 5 0.12
ACGTcount: A:0.38, C:0.03, G:0.09, T:0.50
Consensus pattern (15 bp):
TTTTTTAGTGAAAAA
Found at i:25444010 original size:29 final size:30
Alignment explanation
Indices: 25443970--25444036 Score: 102
Period size: 29 Copynumber: 2.3 Consensus size: 30
25443960 TGAGATTTTT
*
25443970 TTTTTTATGAAATAA-TATTTAGTGAAA-CA
1 TTTTTTATGAAATAACT-TTTAGTGAAATAA
25443999 TTTTTTATGAAATAACTTTTAGTGAAATAA
1 TTTTTTATGAAATAACTTTTAGTGAAATAA
25444029 TTTTTTAT
1 TTTTTTAT
25444037 ATAAGAGTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
29 25 0.71
30 10 0.29
ACGTcount: A:0.37, C:0.03, G:0.09, T:0.51
Consensus pattern (30 bp):
TTTTTTATGAAATAACTTTTAGTGAAATAA
Found at i:25449131 original size:81 final size:81
Alignment explanation
Indices: 25448996--25449156 Score: 304
Period size: 81 Copynumber: 2.0 Consensus size: 81
25448986 TAAGCTCAAC
25448996 AGAACTATTTTGATTTCTGATGAACTCATATGTCATATGTATGATGATTACAGGTGGACATTTTG
1 AGAACTATTTTGATTTCTGATGAACTCATATGTCATATGTATGATGATTACAGGTGGACATTTTG
25449061 GTTGTCAAACTCTGTT
66 GTTGTCAAACTCTGTT
* *
25449077 AGAACTATTTTGATTTCTTATGAACTCATATGTCATATGTATGATGATTACAGGTTGACATTTTG
1 AGAACTATTTTGATTTCTGATGAACTCATATGTCATATGTATGATGATTACAGGTGGACATTTTG
25449142 GTTGTCAAACTCTGT
66 GTTGTCAAACTCTGT
25449157 CGTGTTGCGA
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
81 78 1.00
ACGTcount: A:0.27, C:0.12, G:0.19, T:0.42
Consensus pattern (81 bp):
AGAACTATTTTGATTTCTGATGAACTCATATGTCATATGTATGATGATTACAGGTGGACATTTTG
GTTGTCAAACTCTGTT
Found at i:25455011 original size:23 final size:22
Alignment explanation
Indices: 25454976--25455041 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 22
25454966 TATAGATAGT
25454976 AAAG-ATT-TATATTTAATTTA
1 AAAGTATTATATATTTAATTTA
*
25454996 AGAGATATTATATATTTTAATTTA
1 AAAG-TATTATATA-TTTAATTTA
* *
25455020 AAAGTTTTATA-ATTTTATTTA
1 AAAGTATTATATATTTAATTTA
25455041 A
1 A
25455042 TAAAAAGTAT
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
20 3 0.08
21 9 0.24
22 4 0.11
23 10 0.26
24 12 0.32
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (22 bp):
AAAGTATTATATATTTAATTTA
Found at i:25455039 original size:21 final size:21
Alignment explanation
Indices: 25454976--25455041 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
25454966 TATAGATAGT
* *
25454976 AAAGATTTAT-ATTTAATTTA
1 AAAGTTTTATAATTTTATTTA
* *
25454996 AGAGATATTATATATTTTAATTTA
1 AAAG-TTTTATA-ATTTT-ATTTA
25455020 AAAGTTTTATAATTTTATTTA
1 AAAGTTTTATAATTTTATTTA
25455041 A
1 A
25455042 TAAAAAGTAT
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
20 3 0.08
21 10 0.28
22 5 0.14
23 10 0.28
24 8 0.22
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (21 bp):
AAAGTTTTATAATTTTATTTA
Found at i:25457528 original size:2 final size:2
Alignment explanation
Indices: 25457521--25457553 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
25457511 TATTGATTCC
*
25457521 AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25457554 CCACGAACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:25460647 original size:26 final size:26
Alignment explanation
Indices: 25460617--25460670 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
25460607 GCTAGGTCCT
25460617 TACTACATCATCAAATCTATTCTAAC
1 TACTACATCATCAAATCTATTCTAAC
25460643 TACTACATCATCAAATCTATTCTAAC
1 TACTACATCATCAAATCTATTCTAAC
25460669 TA
1 TA
25460671 ATAGGAAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.35
Consensus pattern (26 bp):
TACTACATCATCAAATCTATTCTAAC
Found at i:25463055 original size:2 final size:2
Alignment explanation
Indices: 25463048--25463074 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25463038 TGATCCTATT
25463048 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
25463075 TCATAGAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25483445 original size:29 final size:30
Alignment explanation
Indices: 25483351--25483460 Score: 116
Period size: 29 Copynumber: 3.7 Consensus size: 30
25483341 TTGTACTTTT
* * * *
25483351 TTATTTTT-AGGAATTTAGTTCCTATATTA
1 TTATTTTTAAGAAATTTAATCCCTATAATA
** **
25483380 TTATTTAAAAG-AATTTAATCATTATAATA
1 TTATTTTTAAGAAATTTAATCCCTATAATA
25483409 TTATTTTTAAGAAATTTAATCCCTATAATA
1 TTATTTTTAAGAAATTTAATCCCTATAATA
*
25483439 TTATTTTTTAAGGAATTTAATC
1 TTA-TTTTTAAGAAATTTAATC
25483461 TATATTCATT
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
29 28 0.42
30 21 0.32
31 17 0.26
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.50
Consensus pattern (30 bp):
TTATTTTTAAGAAATTTAATCCCTATAATA
Found at i:25483447 original size:31 final size:31
Alignment explanation
Indices: 25483374--25483460 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
25483364 TTTAGTTCCT
* * *
25483374 ATATTATTATTTAAAAGAATTTAATCATTATA
1 ATATTATTTTTTAAGA-AATTTAATCACTATA
*
25483406 ATATTA-TTTTTAAGAAATTTAATCCCTATA
1 ATATTATTTTTTAAGAAATTTAATCACTATA
*
25483436 ATATTATTTTTTAAGGAATTTAATC
1 ATATTATTTTTTAAGAAATTTAATC
25483461 TATATTCATT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
30 19 0.39
31 24 0.49
32 6 0.12
ACGTcount: A:0.41, C:0.06, G:0.05, T:0.48
Consensus pattern (31 bp):
ATATTATTTTTTAAGAAATTTAATCACTATA
Found at i:25483464 original size:29 final size:29
Alignment explanation
Indices: 25483374--25483464 Score: 103
Period size: 30 Copynumber: 3.0 Consensus size: 29
25483364 TTTAGTTCCT
* *
25483374 ATATTATTATTTAAAAGAATTTAATCATTATA
1 ATATTATT-TTTTAAGGAATTTAATC--TATA
*
25483406 ATATTA-TTTTTAAGAAATTTAATCCCTATA
1 ATATTATTTTTTAAGGAATTTAAT--CTATA
25483436 ATATTATTTTTTAAGGAATTTAATCTATA
1 ATATTATTTTTTAAGGAATTTAATCTATA
25483465 TTCATTGTTA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
29 5 0.10
30 23 0.44
31 17 0.33
32 7 0.13
ACGTcount: A:0.42, C:0.05, G:0.04, T:0.48
Consensus pattern (29 bp):
ATATTATTTTTTAAGGAATTTAATCTATA
Found at i:25483531 original size:29 final size:29
Alignment explanation
Indices: 25483498--25483553 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
25483488 AATCCTTAAA
* *
25483498 AAATAATATTATAAGAATTAAATTCTTTT
1 AAATAATACTAAAAGAATTAAATTCTTTT
*
25483527 AAATAATACTAAAATAATTAAATTCTT
1 AAATAATACTAAAAGAATTAAATTCTT
25483554 AAAATTTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (29 bp):
AAATAATACTAAAAGAATTAAATTCTTTT
Found at i:25484975 original size:2 final size:2
Alignment explanation
Indices: 25484968--25484994 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25484958 AATGTGTAAC
25484968 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 A
25484995 CTACAAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25485496 original size:17 final size:18
Alignment explanation
Indices: 25485474--25485510 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
25485464 TAATATTATA
25485474 CTATAG-GCTATGAAATT
1 CTATAGAGCTATGAAATT
25485491 CTATAGTAGCTATGAAATT
1 CTATAG-AGCTATGAAATT
25485510 C
1 C
25485511 AAGGCTTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
19 12 0.67
ACGTcount: A:0.35, C:0.14, G:0.16, T:0.35
Consensus pattern (18 bp):
CTATAGAGCTATGAAATT
Found at i:25486355 original size:29 final size:31
Alignment explanation
Indices: 25486307--25486364 Score: 77
Period size: 29 Copynumber: 1.9 Consensus size: 31
25486297 TGAAATAAAA
*
25486307 ATATAAAATATATTTTTTAT-TTATTAAATTT
1 ATATAAAATATATTTGTTATATT-TTAAATTT
25486338 ATATAAAAT-TA-TTGTTATATTTTAAAT
1 ATATAAAATATATTTGTTATATTTTAAAT
25486365 AATTTTATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 12 0.48
30 4 0.16
31 9 0.36
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (31 bp):
ATATAAAATATATTTGTTATATTTTAAATTT
Found at i:25486361 original size:23 final size:23
Alignment explanation
Indices: 25486335--25486380 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
25486325 ATTTATTAAA
*
25486335 TTTATATAAAATTATTGTTATAT
1 TTTAAATAAAATTATTGTTATAT
** *
25486358 TTTAAATAATTTTATTTTTATAT
1 TTTAAATAAAATTATTGTTATAT
25486381 ATATTTTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (23 bp):
TTTAAATAAAATTATTGTTATAT
Found at i:25486386 original size:17 final size:18
Alignment explanation
Indices: 25486343--25486392 Score: 61
Period size: 17 Copynumber: 2.9 Consensus size: 18
25486333 AATTTATATA
25486343 AAAT-TATTGTTATATTTT
1 AAATATATT-TTATATTTT
25486361 AAATA-ATTTTAT-TTTT
1 AAATATATTTTATATTTT
*
25486377 ATATATATTTTATATT
1 AAATATATTTTATATT
25486393 ATATTCCTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 8 0.29
17 11 0.39
18 9 0.32
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
AAATATATTTTATATTTT
Found at i:25486577 original size:2 final size:2
Alignment explanation
Indices: 25486565--25486595 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
25486555 CAAGGCCTAA
*
25486565 CT CT TT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
25486596 AAAGGAGGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:25489245 original size:40 final size:41
Alignment explanation
Indices: 25489168--25489249 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
25489158 GCCATATCTC
25489168 TTGATTTCTTTTATGCTATTTCCTACTGCACTCATAGTTTT
1 TTGATTTCTTTTATGCTATTTCCTACTGCACTCATAGTTTT
*
25489209 TTGATTTCTTTTATGCTATTT-CTACTTCACTCATAGTTTT
1 TTGATTTCTTTTATGCTATTTCCTACTGCACTCATAGTTTT
25489249 T
1 T
25489250 CATCTTTTCG
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 19 0.47
41 21 0.52
ACGTcount: A:0.17, C:0.18, G:0.09, T:0.56
Consensus pattern (41 bp):
TTGATTTCTTTTATGCTATTTCCTACTGCACTCATAGTTTT
Found at i:25492537 original size:2 final size:2
Alignment explanation
Indices: 25492530--25492555 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25492520 TTTAGCCTCC
25492530 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
25492556 CCTTCCTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25498975 original size:19 final size:18
Alignment explanation
Indices: 25498928--25498975 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 18
25498918 ATAGCTAAGC
25498928 TTTTATATTTTAATAAATA
1 TTTTAT-TTTTAATAAATA
25498947 TTTTATTTTTTAATTAAA-A
1 TTTTA-TTTTTAA-TAAATA
25498966 TTATTATTTT
1 TT-TTATTTT
25498976 ACTCATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTTATTTTTAATAAATA
Found at i:25500465 original size:14 final size:14
Alignment explanation
Indices: 25500446--25500478 Score: 66
Period size: 14 Copynumber: 2.4 Consensus size: 14
25500436 GGGTTAAGGT
25500446 TGCATTGTCTATGG
1 TGCATTGTCTATGG
25500460 TGCATTGTCTATGG
1 TGCATTGTCTATGG
25500474 TGCAT
1 TGCAT
25500479 CTGTTGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.15, C:0.15, G:0.27, T:0.42
Consensus pattern (14 bp):
TGCATTGTCTATGG
Found at i:25509559 original size:15 final size:14
Alignment explanation
Indices: 25509525--25509557 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
25509515 ATGTATATAT
25509525 ATTTTATTAATACA
1 ATTTTATTAATACA
25509539 ATTTTACTTAA-ACA
1 ATTTTA-TTAATACA
25509553 ATTTT
1 ATTTT
25509558 TAAATATAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.78
15 4 0.22
ACGTcount: A:0.39, C:0.09, G:0.00, T:0.52
Consensus pattern (14 bp):
ATTTTATTAATACA
Found at i:25510672 original size:10 final size:10
Alignment explanation
Indices: 25510657--25510726 Score: 63
Period size: 10 Copynumber: 6.9 Consensus size: 10
25510647 ATCTACTATG
25510657 ATATTTATTC
1 ATATTTATTC
25510667 ATATTTATTC
1 ATATTTATTC
* *
25510677 AT-TATATTT
1 ATATTTATTC
*
25510686 ATTTTTATTC
1 ATATTTATTC
25510696 ATATTTATTTTC
1 ATATTTA--TTC
*
25510708 TATATTAATT-
1 -ATATTTATTC
25510718 ATATTTATT
1 ATATTTATT
25510727 TTATCTTTAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
9 15 0.31
10 23 0.47
11 2 0.04
12 3 0.06
13 6 0.12
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (10 bp):
ATATTTATTC
Found at i:25510739 original size:22 final size:23
Alignment explanation
Indices: 25510696--25510744 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
25510686 ATTTTTATTC
*
25510696 ATATTTATTTTCTATATTAATT-
1 ATATTTATTTTATATATTAATTG
*
25510718 ATATTTATTTTATCT-TTAAATTG
1 ATATTTATTTTATATATT-AATTG
25510741 ATAT
1 ATAT
25510745 AAATTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 17 0.74
23 4 0.17
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (23 bp):
ATATTTATTTTATATATTAATTG
Found at i:25512372 original size:147 final size:147
Alignment explanation
Indices: 25512103--25512384 Score: 476
Period size: 147 Copynumber: 1.9 Consensus size: 147
25512093 AATCAATCAG
*
25512103 TATTTAATTTTGTATAAATATCACTATTAGATGAGATATAATACAAATAATTTTTTTATATTACA
1 TATTTAATTTTGTATAAATATCACTATTAGATGAGATATAATACAAATAATTTTTTCATATTACA
* *
25512168 TAGGGATATGTTGATTTACAATAATTTTATTTTTTATTATTTTACATTGCAAATTTTTATTTTTA
66 TAGGGAGATATTGATTTACAATAATTTTATTTTTTATTATTTTACATTGCAAATTTTTATTTTTA
25512233 TATAAAATTTATTGATT
131 TATAAAATTTATTGATT
* *
25512250 TATTTTATTTTGTATAAATATCACTATTAGATGAGATATAATATAAATAATTTTTTCATATTACA
1 TATTTAATTTTGTATAAATATCACTATTAGATGAGATATAATACAAATAATTTTTTCATATTACA
* *
25512315 TAGGTAGATATTGATTTACAATATTTTTATTTTTTATTATTTTACATTG-AAATTTTTTATTTTT
66 TAGGGAGATATTGATTTACAATAATTTTATTTTTTATTATTTTACATTGCAAA-TTTTTATTTTT
*
25512379 TTATAA
130 ATATAA
25512385 TATATATATG
Statistics
Matches: 126, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
146 3 0.02
147 123 0.98
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (147 bp):
TATTTAATTTTGTATAAATATCACTATTAGATGAGATATAATACAAATAATTTTTTCATATTACA
TAGGGAGATATTGATTTACAATAATTTTATTTTTTATTATTTTACATTGCAAATTTTTATTTTTA
TATAAAATTTATTGATT
Done.