Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 107 of 313
Found at i:35109813 original size:24 final size:24
Alignment explanation
Indices: 35109766--35109813 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
35109756 TCCAAGCTAT
*
35109766 AACAGGAAACTCATAAGAGTTTAA
1 AACAGGAAACTCATAAGAGCTTAA
* **
35109790 AACAGGAAGCTCATGTGAGCTTAA
1 AACAGGAAACTCATAAGAGCTTAA
35109814 TAGGTAACTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.44, C:0.15, G:0.21, T:0.21
Consensus pattern (24 bp):
AACAGGAAACTCATAAGAGCTTAA
Found at i:35111548 original size:11 final size:11
Alignment explanation
Indices: 35111532--35111570 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
35111522 TTTTCTCATT
35111532 TTGAATTTTTG
1 TTGAATTTTTG
35111543 TTGAATTTTTG
1 TTGAATTTTTG
**
35111554 TCAAATTATTTG
1 TTGAATT-TTTG
35111566 TTGAA
1 TTGAA
35111571 AATTATGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
11 16 0.70
12 7 0.30
ACGTcount: A:0.26, C:0.03, G:0.15, T:0.56
Consensus pattern (11 bp):
TTGAATTTTTG
Found at i:35113729 original size:19 final size:18
Alignment explanation
Indices: 35113705--35113740 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
35113695 ATTGTATTTT
35113705 TATCAATACCATCTTTTGA
1 TATCAATACCAT-TTTTGA
35113724 TATCAATACCATTTTTG
1 TATCAATACCATTTTTG
35113741 TATTTTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.31, C:0.19, G:0.06, T:0.44
Consensus pattern (18 bp):
TATCAATACCATTTTTGA
Found at i:35116264 original size:2 final size:2
Alignment explanation
Indices: 35116257--35116281 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35116247 TTAACATCTA
35116257 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 A
35116282 ACTTCTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35126711 original size:23 final size:23
Alignment explanation
Indices: 35126681--35126809 Score: 90
Period size: 23 Copynumber: 5.7 Consensus size: 23
35126671 CCACAGTTCG
*
35126681 TATGAGCTTACCGTTTTAGCTCT
1 TATGAGCTTACCGTTTCAGCTCT
*
35126704 TATGAGCTTACC-ATTCAGCT-T
1 TATGAGCTTACCGTTTCAGCTCT
* *
35126725 TTTAGAGCTTACTGTTTCAG-TCCT
1 TAT-GAGCTTACCGTTTCAGCT-CT
* *
35126749 TAGGGGCTTACCGTTTCAGCTC-
1 TATGAGCTTACCGTTTCAGCTCT
* *
35126771 AACGGAGCTTACCGTTT-AGCTC-
1 TA-TGAGCTTACCGTTTCAGCTCT
* *
35126793 AATTGAGCTTACTGTTT
1 TA-TGAGCTTACCGTTT
35126810 ATCGGCTCAA
Statistics
Matches: 86, Mismatches: 14, Indels: 13
0.76 0.12 0.12
Matches are distributed among these distances:
21 3 0.03
22 35 0.41
23 45 0.52
24 3 0.03
ACGTcount: A:0.19, C:0.22, G:0.19, T:0.39
Consensus pattern (23 bp):
TATGAGCTTACCGTTTCAGCTCT
Found at i:35126794 original size:22 final size:22
Alignment explanation
Indices: 35126754--35126810 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
35126744 GTCCTTAGGG
35126754 GCTTACCGTTTCAGCTCAACGGA
1 GCTTACCGTTT-AGCTCAACGGA
**
35126777 GCTTACCGTTTAGCTCAATTGA
1 GCTTACCGTTTAGCTCAACGGA
*
35126799 GCTTACTGTTTA
1 GCTTACCGTTTA
35126811 TCGGCTCAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
22 20 0.65
23 11 0.35
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.35
Consensus pattern (22 bp):
GCTTACCGTTTAGCTCAACGGA
Found at i:35139533 original size:23 final size:23
Alignment explanation
Indices: 35139503--35139589 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
35139493 GCTTTATCGA
* *
35139503 TCAGGCACTTTATGTGTCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
35139526 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
35139547 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
35139569 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
35139590 ACTGATCAGG
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 35 0.64
22 2 0.04
23 18 0.33
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:35140747 original size:34 final size:34
Alignment explanation
Indices: 35140700--35140782 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 34
35140690 GATATGAAAT
* * *
35140700 ATGAAGTACATGTTACATGAATAATATACTTTAC
1 ATGAATTATATGTTACATGAATAATAAACTTTAC
* * *
35140734 ATGAATTATATGTTACATGGATTATAAATTTTAC
1 ATGAATTATATGTTACATGAATAATAAACTTTAC
*
35140768 ATGGATTATATGTTA
1 ATGAATTATATGTTA
35140783 TAAGAGTACA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 42 1.00
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.41
Consensus pattern (34 bp):
ATGAATTATATGTTACATGAATAATAAACTTTAC
Found at i:35140749 original size:16 final size:16
Alignment explanation
Indices: 35140709--35140782 Score: 69
Period size: 18 Copynumber: 4.4 Consensus size: 16
35140699 TATGAAGTAC
35140709 ATGTTACATGAATAATAT
1 ATGTTACATGAAT--TAT
35140727 ACT-TTACATGAATTAT
1 A-TGTTACATGAATTAT
*
35140743 ATGTTACATGGATTAT
1 ATGTTACATGAATTAT
* *
35140759 AAATTTTACATGGATTAT
1 --ATGTTACATGAATTAT
35140777 ATGTTA
1 ATGTTA
35140783 TAAGAGTACA
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
15 1 0.02
16 21 0.43
18 26 0.53
19 1 0.02
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (16 bp):
ATGTTACATGAATTAT
Found at i:35145678 original size:287 final size:284
Alignment explanation
Indices: 35145144--35145720 Score: 825
Period size: 287 Copynumber: 2.0 Consensus size: 284
35145134 ATGTCCTCCA
* *
35145144 CCATATTGGCTTTGGAAGTTATGGCATCTTACTTCTTTTTGAGAGGTTTACAATTCTTAATGTAG
1 CCATATTGGCTTTGGAAGTTATGGCATATTACTTCTTTTTGAGAGGTTTACAATCCTTAATGTAG
* ** * * *
35145209 TGTCTTCTCTATTGCAATTATAGTTATTGCGAGATTTTTTCTTCTTATCTTGTCTGTCGTTAGTC
66 TGTCTTCTCTATTGCAATTATAGTAATTGAAAGATTTTTTCTTCTTATCTTATATGTCATTAGTC
* * *
35145274 TCGAATGTGGCCTTTTACTTACTATTTTGAGAGTTCTTGGACTCGCTCACATGGTTCACTTTAAA
131 TCAAATGTGGCCTTTTACTTACTATTTTGAAAGTTCTTGGACTAGCTCACATGGTTCACTTTAAA
* **
35145339 ATTTTGGGGAAGATATACAACATCACACTTCTGAATTTCTTCTTTAATACACAAATGGCTAAGTA
196 ATTTTGGGGAAGATATACAACATCACACGTCTGAATTTCTTCTTTAATACACAAATACCTAAGTA
*
35145404 TTTTCT-TCACAGTGAAGTCTTCTG
261 TTTTCTCT-ACAGTGAAGTCCTCTG
* * ** *
35145428 CCATATTGGCTTTGGAATTTGTGGCATATTGTTTCTTTTTTAGAGGTTTACAATCCTTAATGTAG
1 CCATATTGGCTTTGGAAGTTATGGCATATTACTTCTTTTTGAGAGGTTTACAATCCTTAATGTAG
* * * *
35145493 TGTCATTTTTTTTATTGCAATTATAGTAATTGAAAGATTTTTTCTTCTTGTCTTATATGTCATTG
66 TGTC---TTCTCTATTGCAATTATAGTAATTGAAAGATTTTTTCTTCTTATCTTATATGTCATTA
* * *
35145558 GTCTCAAATGTGGCTTTTTGCTTACTATTTTGAAAGTTCTTGGACTAGCTCATATGGTTCACTTT
128 GTCTCAAATGTGGCCTTTTACTTACTATTTTGAAAGTTCTTGGACTAGCTCACATGGTTCACTTT
* * *
35145623 AAAATTTTGGGGAAGATATACTACATCACACGTCTGAGTTTCTT-TTTCTATACACAAATACCTA
193 AAAATTTTGGGGAAGATATACAACATCACACGTCTGAATTTCTTCTTT-AATACACAAATACCTA
35145687 AGTATTTTCTCTACAGTGAAGTCCTCTG
257 AGTATTTTCTCTACAGTGAAGTCCTCTG
35145715 CCATAT
1 CCATAT
35145721 GCAAAAGTTT
Statistics
Matches: 258, Mismatches: 30, Indels: 7
0.87 0.10 0.02
Matches are distributed among these distances:
284 62 0.24
286 3 0.01
287 192 0.74
288 1 0.00
ACGTcount: A:0.24, C:0.16, G:0.16, T:0.44
Consensus pattern (284 bp):
CCATATTGGCTTTGGAAGTTATGGCATATTACTTCTTTTTGAGAGGTTTACAATCCTTAATGTAG
TGTCTTCTCTATTGCAATTATAGTAATTGAAAGATTTTTTCTTCTTATCTTATATGTCATTAGTC
TCAAATGTGGCCTTTTACTTACTATTTTGAAAGTTCTTGGACTAGCTCACATGGTTCACTTTAAA
ATTTTGGGGAAGATATACAACATCACACGTCTGAATTTCTTCTTTAATACACAAATACCTAAGTA
TTTTCTCTACAGTGAAGTCCTCTG
Found at i:35148297 original size:24 final size:21
Alignment explanation
Indices: 35148269--35148312 Score: 61
Period size: 24 Copynumber: 2.0 Consensus size: 21
35148259 TTTATCAAGA
35148269 TAAATATTAGATTAAAATTAATAT
1 TAAATATT--ATTAAAA-TAATAT
35148293 TAAATATTATTAAAATAATA
1 TAAATATTATTAAAATAATA
35148313 AATTATTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 7 0.35
24 8 0.40
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (21 bp):
TAAATATTATTAAAATAATAT
Found at i:35148382 original size:11 final size:11
Alignment explanation
Indices: 35148368--35148443 Score: 61
Period size: 11 Copynumber: 6.8 Consensus size: 11
35148358 GATAATTATT
35148368 TTAATATTAAA
1 TTAATATTAAA
35148379 TTAATA--AAA
1 TTAATATTAAA
*
35148388 -TATTATTAAGA
1 TTAATATTAA-A
35148399 -TAAGTATTAAA
1 TTAA-TATTAAA
35148410 TTAATATTAATA
1 TTAATATTAA-A
35148422 TTAAACTATTAAA
1 TT-AA-TATTAAA
*
35148435 ATAATATTA
1 TTAATATTA
35148444 TTTTTGGAAT
Statistics
Matches: 54, Mismatches: 3, Indels: 16
0.74 0.04 0.22
Matches are distributed among these distances:
8 4 0.07
9 3 0.06
10 2 0.04
11 21 0.39
12 14 0.26
13 4 0.07
14 6 0.11
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (11 bp):
TTAATATTAAA
Found at i:35151564 original size:11 final size:11
Alignment explanation
Indices: 35151550--35151601 Score: 63
Period size: 11 Copynumber: 4.9 Consensus size: 11
35151540 TCTTTCAATA
35151550 TTCTCTCAAAT
1 TTCTCTCAAAT
*
35151561 TTCTCTGAAA-
1 TTCTCTCAAAT
35151571 -TCTCTCAAAT
1 TTCTCTCAAAT
*
35151581 TTCTCTTAAAT
1 TTCTCTCAAAT
*
35151592 TCCTCTCAAA
1 TTCTCTCAAA
35151602 ACTCTCATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
9 8 0.24
11 26 0.76
ACGTcount: A:0.29, C:0.27, G:0.02, T:0.42
Consensus pattern (11 bp):
TTCTCTCAAAT
Found at i:35151576 original size:20 final size:21
Alignment explanation
Indices: 35151549--35151601 Score: 81
Period size: 20 Copynumber: 2.5 Consensus size: 21
35151539 ATCTTTCAAT
35151549 ATTCTCTCAAATTTCTCTGAA
1 ATTCTCTCAAATTTCTCTGAA
*
35151570 A-TCTCTCAAATTTCTCTTAA
1 ATTCTCTCAAATTTCTCTGAA
35151590 ATTCCTCTCAAA
1 ATT-CTCTCAAA
35151602 ACTCTCATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 19 0.66
21 2 0.07
22 8 0.28
ACGTcount: A:0.30, C:0.26, G:0.02, T:0.42
Consensus pattern (21 bp):
ATTCTCTCAAATTTCTCTGAA
Found at i:35151585 original size:31 final size:31
Alignment explanation
Indices: 35151550--35151608 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
35151540 TCTTTCAATA
* * *
35151550 TTCTCTCAAATTTCTCTGAAATCTCTCAAAT
1 TTCTCTCAAATTCCTCTCAAAACTCTCAAAT
*
35151581 TTCTCTTAAATTCCTCTCAAAACTCTCA
1 TTCTCTCAAATTCCTCTCAAAACTCTCA
35151609 TTAATTGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.29, C:0.29, G:0.02, T:0.41
Consensus pattern (31 bp):
TTCTCTCAAATTCCTCTCAAAACTCTCAAAT
Found at i:35151657 original size:16 final size:15
Alignment explanation
Indices: 35151628--35151658 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
35151618 TCAAAAAAGC
*
35151628 TCTAATTTTATTTTT
1 TCTAAATTTATTTTT
35151643 TCTAAATTTATTTTT
1 TCTAAATTTATTTTT
35151658 T
1 T
35151659 AAAATAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.23, C:0.06, G:0.00, T:0.71
Consensus pattern (15 bp):
TCTAAATTTATTTTT
Found at i:35153423 original size:18 final size:18
Alignment explanation
Indices: 35153396--35153438 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
35153386 TGCCAGGTAC
*
35153396 GTATCCTAGCCCTTTTAT
1 GTATCCTAGCCCTTATAT
*
35153414 GTATCGTAGCCCTTATAT
1 GTATCCTAGCCCTTATAT
*
35153432 GTTTCCT
1 GTATCCT
35153439 TTTTCTAGTC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.16, C:0.26, G:0.14, T:0.44
Consensus pattern (18 bp):
GTATCCTAGCCCTTATAT
Found at i:35154033 original size:116 final size:116
Alignment explanation
Indices: 35153828--35154324 Score: 850
Period size: 116 Copynumber: 4.3 Consensus size: 116
35153818 TTGTACAAAT
35153828 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGT
1 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGT
*
35153893 AATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAGGGCAAC
66 AATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAAC
35153944 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGT
1 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGT
* * *
35154009 AATTTACTTTTATATTTTTTATAAAATTGAAATTATTTTAAATAGGGCAAC
66 AATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAAC
* *
35154060 ATTTTGAATATTTTTATATTATTTCAGGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGC
1 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGT
*
35154125 AATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGTAAC
66 AATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAAC
* * * *
35154176 ATTTTGAATATTTTTATATTATTTCATGTGATAATATAAAAGGTTGTTTTAAATAAAGTAATTAT
1 ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGT
* ** *
35154241 AATTTACTTTTATATTTTTAATAAAATGAAAATTATTTTAAATAAAACAAT
66 AATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAAC
35154292 ATTTTGAAATATTTTTATATTATTTCATGTAAT
1 ATTTTG-AATATTTTTATATTATTTCATGTAAT
35154325 AAAATATAAA
Statistics
Matches: 360, Mismatches: 20, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
116 335 0.93
117 25 0.07
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.48
Consensus pattern (116 bp):
ATTTTGAATATTTTTATATTATTTCATGTAATTAGATAAAAGGTTGTTTTAAATAAAGTAATTGT
AATTTACTTTTATATTTTTAATAAAATGGAAATTATTTTAAATAAGGCAAC
Found at i:35157505 original size:126 final size:125
Alignment explanation
Indices: 35157343--35157636 Score: 430
Period size: 126 Copynumber: 2.3 Consensus size: 125
35157333 GCCCAAGTTA
* * * *
35157343 TTTCAGAGACCACTGTAGCAAAAGAGCGTCAACGTGGGAGTTTC-TTCTAGTAATTTTGCTGAAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTC-AGTAATTTTGCTGAAA
* *
35157407 ATGCATCCTGCTTAAAGCGTTTTT-ACCACTATTTGCACAGACACGTCTTCTCAAAATTATTT
65 ATGCATCCTGCTTAAAGCGTTTTTGA-CACTATTTACACAGACACGTCTTCTCAAAATTA-AT
* * *
35157469 TTTTAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTACTTTTGCTGACAA
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTAATTTTGCTGAAAA
* * *
35157534 TGCATCCTGCTTGAAGCGTTTTTGACACTATTTACGCAGACACGTCTTCTCAAATTTAAT
66 TGCATCCTGCTTAAAGCGTTTTTGACACTATTTACACAGACACGTCTTCTCAAAATTAAT
*
35157594 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTAGAAGCTT
1 TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTT
35157637 TTTTAAATTA
Statistics
Matches: 152, Mismatches: 14, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
125 42 0.28
126 106 0.70
127 4 0.03
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (125 bp):
TTTCAGAGACTACTGTAGCAAAAGAGCGTCCACGTGGAAGCTTCTTTCAGTAATTTTGCTGAAAA
TGCATCCTGCTTAAAGCGTTTTTGACACTATTTACACAGACACGTCTTCTCAAAATTAAT
Found at i:35157862 original size:93 final size:98
Alignment explanation
Indices: 35157716--35157910 Score: 242
Period size: 93 Copynumber: 2.0 Consensus size: 98
35157706 TAAATACCCT
* * * **
35157716 AAAACCCTAAACTCTAAAATCCTAATCTAATTTTTTTAAAATTTATAATTAATTTACTCAAGTAA
1 AAAACCATAAACACTAAAATCCTAATCTAATTTTTTTAAAATTTATAATTAATTTAATCAACAAA
* *
35157781 CCCT-A-CCTAATTTATTTGA-TTTTTTCCTTA
66 CACTAACCCTAATTTATTTAATTTTTTTCCTTA
*
35157811 AAAACCATAAACACT-AAA-CCATAATCTAA-TTTTTTAAAA-TTAGTAATTAATTTAATTAACA
1 AAAACCATAAACACTAAAATCC-TAATCTAATTTTTTTAAAATTTA-TAATTAATTTAATCAACA
35157872 AACACTAAACCCTAATTTATTTAATTTTTTTCCTTA
64 AACACT-AACCCTAATTTATTTAATTTTTTTCCTTA
35157908 AAA
1 AAA
35157911 CTCTAAAATT
Statistics
Matches: 86, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
92 3 0.03
93 31 0.36
94 11 0.13
95 14 0.16
96 13 0.15
97 14 0.16
ACGTcount: A:0.42, C:0.16, G:0.02, T:0.41
Consensus pattern (98 bp):
AAAACCATAAACACTAAAATCCTAATCTAATTTTTTTAAAATTTATAATTAATTTAATCAACAAA
CACTAACCCTAATTTATTTAATTTTTTTCCTTA
Found at i:35163516 original size:54 final size:54
Alignment explanation
Indices: 35163457--35163566 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
35163447 AAGATAAATT
35163457 TAATTATTTTTTGAATGGTAAAATGATATTTTAAGTCAAATTGGCTCCTTTTAA
1 TAATTATTTTTTGAATGGTAAAATGATATTTTAAGTCAAATTGGCTCCTTTTAA
*
35163511 TAATTATTTTTTGAATGGTAAAATGATATTTTAAGTCAAATTGGCTCGTTTTAA
1 TAATTATTTTTTGAATGGTAAAATGATATTTTAAGTCAAATTGGCTCCTTTTAA
35163565 TA
1 TA
35163567 TATATATATA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.34, C:0.06, G:0.14, T:0.46
Consensus pattern (54 bp):
TAATTATTTTTTGAATGGTAAAATGATATTTTAAGTCAAATTGGCTCCTTTTAA
Found at i:35166463 original size:20 final size:20
Alignment explanation
Indices: 35166440--35166477 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
35166430 TTTATTAATA
*
35166440 AATACTTTAAATTTTTAAAG
1 AATAATTTAAATTTTTAAAG
*
35166460 AATAATTTAATTTTTTAA
1 AATAATTTAAATTTTTAA
35166478 TATATATATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
AATAATTTAAATTTTTAAAG
Found at i:35166518 original size:18 final size:19
Alignment explanation
Indices: 35166495--35166530 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
35166485 ATTTTGAAGC
*
35166495 TTTAAAC-ATTATTAAAAA
1 TTTAAACAAATATTAAAAA
35166513 TTTAAACAAATATTAAAA
1 TTTAAACAAATATTAAAA
35166531 GTAAAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (19 bp):
TTTAAACAAATATTAAAAA
Found at i:35168914 original size:22 final size:22
Alignment explanation
Indices: 35168863--35168903 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
35168853 AAAATGAAAT
35168863 AAAAGAAACAAAAGCATAAAAC
1 AAAAGAAACAAAAGCATAAAAC
35168885 AAAAGAAAC-AAAGC-TAAAA
1 AAAAGAAACAAAAGCATAAAA
35168904 AGAAACAGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 5 0.26
21 5 0.26
22 9 0.47
ACGTcount: A:0.73, C:0.12, G:0.10, T:0.05
Consensus pattern (22 bp):
AAAAGAAACAAAAGCATAAAAC
Found at i:35169348 original size:17 final size:18
Alignment explanation
Indices: 35169326--35169361 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
35169316 TAAATAAGTT
35169326 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
35169343 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
35169361 A
1 A
35169362 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:35170553 original size:17 final size:17
Alignment explanation
Indices: 35170531--35170572 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
35170521 AACTAATGAA
35170531 ATGGTATGAAAATTTAC
1 ATGGTATGAAAATTTAC
*
35170548 ATGGTAGGAAAATTTAC
1 ATGGTATGAAAATTTAC
*
35170565 ATGATATG
1 ATGGTATG
35170573 CATGGTATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.33
Consensus pattern (17 bp):
ATGGTATGAAAATTTAC
Found at i:35175248 original size:38 final size:38
Alignment explanation
Indices: 35175174--35175277 Score: 140
Period size: 38 Copynumber: 2.8 Consensus size: 38
35175164 CACCGGTAAG
* *
35175174 AAGCCTGCTAGGCACTAA-CCTGAATAACACTGGCACT
1 AAGCCTGCTAGGCACAAAGCCTGAATAACACTAGCACT
* *
35175211 AAGCATGCTAGGCACAAAGCCTGAATATCACTAGCACT
1 AAGCCTGCTAGGCACAAAGCCTGAATAACACTAGCACT
*
35175249 AAGCCTAG-TAGGCACAAAGCTTGAATAAC
1 AAGCCT-GCTAGGCACAAAGCCTGAATAAC
35175278 GATATAACTC
Statistics
Matches: 58, Mismatches: 7, Indels: 3
0.85 0.10 0.04
Matches are distributed among these distances:
37 16 0.28
38 41 0.71
39 1 0.02
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (38 bp):
AAGCCTGCTAGGCACAAAGCCTGAATAACACTAGCACT
Found at i:35178046 original size:70 final size:71
Alignment explanation
Indices: 35177964--35178129 Score: 289
Period size: 71 Copynumber: 2.4 Consensus size: 71
35177954 ATTTGTCTTG
35177964 AAATCTAACAAA-TAACACCAATTTAGTCCCTTTATTATAAATTAGTCTTGTTTTTTCATGTCTA
1 AAATCTAACAAAGTAACACCAATTTAGTCCCTTTATTATAAATTAGTCTTGTTTTTTCATGTCTA
*
35178028 AGCTTA
66 AACTTA
* *
35178034 AAATCTAACAAATTAACACCAATTTAGTCCTTTTATTATAAATTAGTCTTGTTTTTTCATGTCTA
1 AAATCTAACAAAGTAACACCAATTTAGTCCCTTTATTATAAATTAGTCTTGTTTTTTCATGTCTA
35178099 AACTTA
66 AACTTA
*
35178105 AAATCTAACAAAGTAACACTAATTT
1 AAATCTAACAAAGTAACACCAATTT
35178130 CATAAAGCAT
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
70 12 0.13
71 79 0.87
ACGTcount: A:0.37, C:0.16, G:0.06, T:0.40
Consensus pattern (71 bp):
AAATCTAACAAAGTAACACCAATTTAGTCCCTTTATTATAAATTAGTCTTGTTTTTTCATGTCTA
AACTTA
Found at i:35179872 original size:27 final size:27
Alignment explanation
Indices: 35179813--35179874 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
35179803 GGGATCCTGT
35179813 TAGCCTTTGTGGCATACACTGAATGAA
1 TAGCCTTTGTGGCATACACTGAATGAA
* * *
35179840 TCGCCTTTGTGGCATACTCTGTAT-ATA
1 TAGCCTTTGTGGCATACACTGAATGA-A
35179867 TAGCCTTT
1 TAGCCTTT
35179875 ATGGTGTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.37
Consensus pattern (27 bp):
TAGCCTTTGTGGCATACACTGAATGAA
Found at i:35181695 original size:21 final size:22
Alignment explanation
Indices: 35181669--35181727 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
35181659 GTTTTAAGAA
*
35181669 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
35181690 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
35181712 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
35181728 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:35181742 original size:26 final size:24
Alignment explanation
Indices: 35181698--35181747 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
35181688 ATTTGTTTTA
*
35181698 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
35181722 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
35181748 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:35187474 original size:32 final size:32
Alignment explanation
Indices: 35187438--35187550 Score: 226
Period size: 32 Copynumber: 3.5 Consensus size: 32
35187428 TTGATAATGG
35187438 TAATGGATGATGGGCATTAGCATTTTAATAGT
1 TAATGGATGATGGGCATTAGCATTTTAATAGT
35187470 TAATGGATGATGGGCATTAGCATTTTAATAGT
1 TAATGGATGATGGGCATTAGCATTTTAATAGT
35187502 TAATGGATGATGGGCATTAGCATTTTAATAGT
1 TAATGGATGATGGGCATTAGCATTTTAATAGT
35187534 TAATGGATGATGGGCAT
1 TAATGGATGATGGGCAT
35187551 GGTAAGATTA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 81 1.00
ACGTcount: A:0.31, C:0.06, G:0.27, T:0.36
Consensus pattern (32 bp):
TAATGGATGATGGGCATTAGCATTTTAATAGT
Found at i:35189300 original size:26 final size:26
Alignment explanation
Indices: 35189271--35189323 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
35189261 TTTACAGTTT
35189271 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
35189297 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
35189323 T
1 T
35189324 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:35190394 original size:3 final size:3
Alignment explanation
Indices: 35190386--35190414 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
35190376 TAATACACTT
35190386 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
35190415 TTTATTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:35191443 original size:28 final size:28
Alignment explanation
Indices: 35191411--35191470 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
35191401 CAGTAATTAT
* * * *
35191411 TTATAAAAAAAATTTATTATATAGAGAA
1 TTATAAAAAAAATTAATAATATAAAAAA
35191439 TTATAAAAAAAATTAATAATATAAAAAA
1 TTATAAAAAAAATTAATAATATAAAAAA
35191467 TTAT
1 TTAT
35191471 GAATTATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (28 bp):
TTATAAAAAAAATTAATAATATAAAAAA
Found at i:35191975 original size:21 final size:20
Alignment explanation
Indices: 35191930--35191975 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
35191920 AACCACGATC
35191930 CAAAATAAAAAAAAAACATT
1 CAAAATAAAAAAAAAACATT
* * *
35191950 GAAAATAGAAACAAAACTATT
1 CAAAATAAAAAAAAAAC-ATT
35191971 CAAAA
1 CAAAA
35191976 ATTTCAATCT
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.70, C:0.11, G:0.04, T:0.15
Consensus pattern (20 bp):
CAAAATAAAAAAAAAACATT
Found at i:35209666 original size:501 final size:501
Alignment explanation
Indices: 35208724--35209728 Score: 1929
Period size: 501 Copynumber: 2.0 Consensus size: 501
35208714 TAACCCCGAA
35208724 GAAAAATAAAAATGAGGTGAATAATGTGGGCAATAGGTATTTCAGATCGGTCACTGTAAGCCAGC
1 GAAAAATAAAAATGAGGTGAATAATGTGGGCAATAGGTATTTCAGATCGGTCACTGTAAGCCAGC
* *
35208789 CGAGGGCCATGACCACCAACTATCAAGGAACCTCAAGGCAAGACTCCAACTCGAGACCAAATATA
66 CGAGGGCCATGACCACCAACTATCAAGGAACCTAAAGGCAAGACTCCAACTCGAGACCAAATACA
35208854 GAAAAACTCAAGTTCACACCCATCCTGATGACGTATAAAGAACTGTATCAGAATTTTTTTGATAC
131 GAAAAACTCAAGTTCACACCCATCCTGATGACGTATAAAGAACTGTATCAGAATTTTTTTGATAC
35208919 GCATGTGGTGTCCCAAATCTACTCGGAACCCGTGCAACCTCCATTCCCAAAATGGTATGATGTGA
196 GCATGTGGTGTCCCAAATCTACTCGGAACCCGTGCAACCTCCATTCCCAAAATGGTATGATGTGA
* * *
35208984 ATACCCATGTGAGTATTACGCAGGAGTAACGGGGCACTCAATCGAAAACTGCATTATGTTTAAAA
261 ATACCCATGTGAGTATCACGCAGGAGTAACGGGACACTCAATCGAAAACTGCATTATATTTAAAA
35209049 AGTTGATCGAAAGGCTCATTAAAGTGGGAATCATGAAGTTTGACGATTAATCAGAACCTAACCGC
326 AGTTGATCGAAAGGCTCATTAAAGTGGGAATCATGAAGTTTGACGATTAATCAGAACCTAACCGC
35209114 CTCGATGAGACAGTAAATGTGATAACTGAAGGGGATGGCAAGAGAGTTGCAATCCCTTGAAAAAG
391 CTCGATGAGACAGTAAATGTGATAACTGAAGGGGATGGCAAGAGAGTTGCAATCCCTTGAAAAAG
35209179 AAGCCTGGAGGAAATATCGAGCAATCTGGACCTTGACGACGTATCC
456 AAGCCTGGAGGAAATATCGAGCAATCTGGACCTTGACGACGTATCC
35209225 GAAAAATAAAAATGAGGTGAATAATGTGGGCAATAGGTATTTCAGATCGGTCACTGTAAGCCAGC
1 GAAAAATAAAAATGAGGTGAATAATGTGGGCAATAGGTATTTCAGATCGGTCACTGTAAGCCAGC
35209290 CGAGGGCCATGACCACCAACTATCAAGGAACCTAAAGGCAAGACTCCAACTCGAGACCAAATACA
66 CGAGGGCCATGACCACCAACTATCAAGGAACCTAAAGGCAAGACTCCAACTCGAGACCAAATACA
* *
35209355 GAAAAACTCAAGTTTACACCCATCCTGATGACGTATAAAGAACTGTATCAGAATTTTTTTGATGC
131 GAAAAACTCAAGTTCACACCCATCCTGATGACGTATAAAGAACTGTATCAGAATTTTTTTGATAC
*
35209420 GCATGTGGTGTCCCAATTCTACTCGGAACCCGTGCAACCTCCATTCCCAAAATGGTATGATGTGA
196 GCATGTGGTGTCCCAAATCTACTCGGAACCCGTGCAACCTCCATTCCCAAAATGGTATGATGTGA
*
35209485 ATACCCATGTGAGTATCACGCAGGAGTAACGGGACACTCAATCGAAAACTGTATTATATTTAAAA
261 ATACCCATGTGAGTATCACGCAGGAGTAACGGGACACTCAATCGAAAACTGCATTATATTTAAAA
35209550 AGTTGATCGAAAGGCTCATTAAAGTGGGAATCATGAAGTTTGACGATTAATCAGAACCTAACCGC
326 AGTTGATCGAAAGGCTCATTAAAGTGGGAATCATGAAGTTTGACGATTAATCAGAACCTAACCGC
35209615 CTCGATGAGACAGTAAATGTGATAACTGAAGGGGATGGCAAGAGAGTTGCAATCCCTTGAAAAAG
391 CTCGATGAGACAGTAAATGTGATAACTGAAGGGGATGGCAAGAGAGTTGCAATCCCTTGAAAAAG
35209680 AAGCCTGGAGGAAATATCGAGCAATCTGGACCTTGACGACGTATCC
456 AAGCCTGGAGGAAATATCGAGCAATCTGGACCTTGACGACGTATCC
35209726 GAA
1 GAA
35209729 GAAAAAACCG
Statistics
Matches: 495, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
501 495 1.00
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.22
Consensus pattern (501 bp):
GAAAAATAAAAATGAGGTGAATAATGTGGGCAATAGGTATTTCAGATCGGTCACTGTAAGCCAGC
CGAGGGCCATGACCACCAACTATCAAGGAACCTAAAGGCAAGACTCCAACTCGAGACCAAATACA
GAAAAACTCAAGTTCACACCCATCCTGATGACGTATAAAGAACTGTATCAGAATTTTTTTGATAC
GCATGTGGTGTCCCAAATCTACTCGGAACCCGTGCAACCTCCATTCCCAAAATGGTATGATGTGA
ATACCCATGTGAGTATCACGCAGGAGTAACGGGACACTCAATCGAAAACTGCATTATATTTAAAA
AGTTGATCGAAAGGCTCATTAAAGTGGGAATCATGAAGTTTGACGATTAATCAGAACCTAACCGC
CTCGATGAGACAGTAAATGTGATAACTGAAGGGGATGGCAAGAGAGTTGCAATCCCTTGAAAAAG
AAGCCTGGAGGAAATATCGAGCAATCTGGACCTTGACGACGTATCC
Found at i:35210110 original size:81 final size:79
Alignment explanation
Indices: 35209952--35210112 Score: 182
Period size: 80 Copynumber: 2.0 Consensus size: 79
35209942 TCATTTTGAG
* * * * *
35209952 CAAATATTCTTTTATTTCATTCATAATCATACTATACAGACAATTATTCTTAGATTCTTTTGTTC
1 CAAATATTCTTTTATTTCATTCATAACCATACCATACAAACAACTATTCTTAGATTCTTTTATTC
**
35210017 TTTGGGCTTTCTTT
66 TTTGGAATTTCTTT
* * *
35210031 CAAATATTCTTTTATTCTTCATTCATGACCATACCATA-AAATAACTATTCTTCGATT-TATTTA
1 CAAATATTCTTTTA-T-TTCATTCATAACCATACCATACAAACAACTATTCTTAGATTCT-TTTA
35210094 TTCTTTGGAATATTCTTT
63 TTCTTTGGAAT-TTCTTT
35210112 C
1 C
35210113 GTACCTACAA
Statistics
Matches: 68, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
79 15 0.22
80 28 0.41
81 25 0.37
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.49
Consensus pattern (79 bp):
CAAATATTCTTTTATTTCATTCATAACCATACCATACAAACAACTATTCTTAGATTCTTTTATTC
TTTGGAATTTCTTT
Found at i:35210982 original size:17 final size:17
Alignment explanation
Indices: 35210960--35210992 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35210950 TACTTCGTAT
35210960 AATAAAAAAGAAAAAAG
1 AATAAAAAAGAAAAAAG
*
35210977 AATAAAAAGGAAAAAA
1 AATAAAAAAGAAAAAA
35210993 AAGGAGAGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.06
Consensus pattern (17 bp):
AATAAAAAAGAAAAAAG
Found at i:35212494 original size:45 final size:45
Alignment explanation
Indices: 35212445--35212765 Score: 122
Period size: 45 Copynumber: 7.3 Consensus size: 45
35212435 AATATTGTAG
*
35212445 ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGGCAGCAA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACAGCAA
* * * * * ** * *
35212490 ATCTTGTCTCTCTAAATTTACAGTGGAGCAGATTTAAGCCA-C-C
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACAGCAA
* * * * * ** *
35212533 ATCCTATCTCCCT-AAGTAGTAGTGGAGA-AG-GCTGAAGATTGCAG
1 ATCTTGTCTCCCTGAAGTTGCAGTGGA-ACAGATC-GAAGACAGCAA
* * * *
35212577 ATCTTGTCTCTCTGAAGTTGCAGTGGAACAGATTGAAGACGGCGA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACAGCAA
* *** * * ** * *
35212622 ATCTTATCTCCCT-AACCAGTAGTGGAGCAGATTTAAGCCATC--
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACAGCAA
* * * * * ** * * ** * *
35212664 ATCCTATCTCTCT-AAGTAGTAGTGGAGTAG-GCTAAGGATTGTAG
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAA-GACAGCAA
* *
35212708 ATCTTGTCTCCCTGAAGTTACAGTGGAACAGATCGAAGACGGCAA
1 ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACAGCAA
35212753 ATCTTGTCTCCCT
1 ATCTTGTCTCCCT
35212766 AACCAGTAGT
Statistics
Matches: 192, Mismatches: 72, Indels: 24
0.67 0.25 0.08
Matches are distributed among these distances:
41 3 0.02
42 40 0.21
43 11 0.06
44 42 0.22
45 93 0.48
46 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (45 bp):
ATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACAGCAA
Found at i:35212685 original size:42 final size:43
Alignment explanation
Indices: 35212511--35212690 Score: 116
Period size: 42 Copynumber: 4.2 Consensus size: 43
35212501 CTAAATTTAC
* *
35212511 AGTGGAGCAGATTTAAGCCA-CCATCCTATCTCCCTAAGTAGT
1 AGTGGAGCAGATTGAAGCCATCAATCCTATCTCCCTAAGTAGT
* ** * * * * *
35212553 AGTGGAGAAGGCTGAAG--ATTGCAGATCTTGTCTCTCTGAAGTTGC
1 AGTGGAGCAGATTGAAGCCA-T-CA-ATCCTATCTCCCT-AAGTAGT
* * ** * **
35212598 AGTGGAACAGATTGAAGACGGCGAATCTTATCTCCCTAACCAGT
1 AGTGGAGCAGATTGAAGCCATC-AATCCTATCTCCCTAAGTAGT
* *
35212642 AGTGGAGCAGATTTAAGCCATC-ATCCTATCTCTCTAAGTAGT
1 AGTGGAGCAGATTGAAGCCATCAATCCTATCTCCCTAAGTAGT
35212684 AGTGGAG
1 AGTGGAG
35212691 TAGGCTAAGG
Statistics
Matches: 99, Mismatches: 31, Indels: 16
0.68 0.21 0.11
Matches are distributed among these distances:
40 1 0.01
42 36 0.36
43 1 0.01
44 30 0.30
45 30 0.30
46 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (43 bp):
AGTGGAGCAGATTGAAGCCATCAATCCTATCTCCCTAAGTAGT
Found at i:35212696 original size:131 final size:131
Alignment explanation
Indices: 35212312--35212876 Score: 832
Period size: 131 Copynumber: 4.3 Consensus size: 131
35212302 GTGAATTTAC
* * * *
35212312 AGATCTTGTCTCCCTGAAGTTGCAGTGGAATAGGTCGAAGACGACAGATCTTGTCTCCCTAACCA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCAAATCTTGTCTCCCTAACCA
*
35212377 GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGG-TGAAATATT
66 GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTG-AAGATT
35212441 GT
130 GT
* * *
35212443 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGGCAGCAAATCTTGTCTCTCTAA--A
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCAAATCTTGTCTCCCTAACCA
* * *
35212506 TTTACAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGTAGTAGTGGAGAAGGCTGAAGA
66 -GT--AGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGA
*
35212571 TTGC
128 TTGT
* * * *
35212575 AGATCTTGTCTCTCTGAAGTTGCAGTGGAACAGATTGAAGACGGCGAATCTTATCTCCCTAACCA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCAAATCTTGTCTCCCTAACCA
* * *
35212640 GTAGTGGAGCAGATTTAAGCCATCATCCTATCTCTCTAAGTAGTAGTGGAGTAGGCT-AAGGATT
66 GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAA-GATT
35212704 GT
130 GT
*
35212706 AGATCTTGTCTCCCTGAAGTTACAGTGGAACAGATCGAAGACGGCAAATCTTGTCTCCCTAACCA
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCAAATCTTGTCTCCCTAACCA
* * *
35212771 GTAGTGGAGCAAATTTAAGCCACCATCTTATCTCCCTAAGCAGTAGTGGAGTAGGCTAAAGATTG
66 GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
35212836 T
131 T
**
35212837 AGATCTTGTCTCCCTGAAGTTGCAGTGGAGTAGATCGAAG
1 AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAG
35212877 CCACTGACCT
Statistics
Matches: 389, Mismatches: 37, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
129 1 0.00
130 3 0.01
131 267 0.69
132 114 0.29
133 3 0.01
134 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.27
Consensus pattern (131 bp):
AGATCTTGTCTCCCTGAAGTTGCAGTGGAACAGATCGAAGACGGCAAATCTTGTCTCCCTAACCA
GTAGTGGAGCAGATTTAAGCCACCATCCTATCTCCCTAAGCAGTAGTGGAGTAGGCTGAAGATTG
T
Found at i:35212893 original size:44 final size:44
Alignment explanation
Indices: 35212845--35213212 Score: 140
Period size: 44 Copynumber: 8.2 Consensus size: 44
35212835 GTAGATCTTG
* *
35212845 TCTCCCTGAAGTTGCAGTGGAGTAGATCGAAGCCAC-TGACCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACAAG-CCTTA
* * * ** *
35212889 TCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACAAGCCTTA
* *
35212933 TCTCCCTGAAGTTGCAGTGGAGCAGACTCATGATAG-C-GAA-TCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGA-TC--GA-AGCCACAAGCCTTA
* * ** * * *
35212978 TCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCC-TA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCA-CAAGCCTTA
* * * * * * * *
35213022 TAC-CTCTGAAGTTGCAGCAGG-TCGGATCAAATCTACCATGACGAATCTTA
1 T-CTCCCTGAAGTTGCAG-TGGAGCAGATCGAAGCCA-CA--A-G--CCTTA
* * *
35213072 TCACCCTGAAGTTGCAGTGGAGCAGATCGAACCCATTAA-CCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCA-CAAGCCTTA
* * * *** **
35213116 TCTCCCTAAAGTTGTAGTGGAGCAGATTGAATATAGCAAATCTTA
1 TCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCA-CAAGCCTTA
* * * * * * *
35213161 TCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGCAACAAACCTTG
1 TCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACAAGCCTTA
*
35213205 TCCCCCTG
1 TCTCCCTG
35213213 GAATCACAGT
Statistics
Matches: 242, Mismatches: 62, Indels: 40
0.70 0.18 0.12
Matches are distributed among these distances:
41 2 0.01
42 1 0.00
44 136 0.56
45 65 0.27
46 3 0.01
47 2 0.01
48 3 0.01
49 4 0.02
50 26 0.11
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (44 bp):
TCTCCCTGAAGTTGCAGTGGAGCAGATCGAAGCCACAAGCCTTA
Found at i:35212990 original size:45 final size:44
Alignment explanation
Indices: 35212840--35213003 Score: 145
Period size: 44 Copynumber: 3.7 Consensus size: 44
35212830 AGATTGTAGA
* * ** *
35212840 TCTTGTCTCCCTGAAGTTGCAGTGGAGTAGA-TCGAAGCCAC-TG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTC-AAGATACAAG
* * ** * *
35212883 ACCTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAG
1 -TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGATACAAG
*
35212928 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCATGATAGCGAA-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGATA-C-AAG
* *
35212973 TCTTATCTCTCTGAAGTTGCAGTAGAGCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
35213004 TTAAAGCTAT
Statistics
Matches: 98, Mismatches: 18, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
44 64 0.65
45 32 0.33
46 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.28
Consensus pattern (44 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGATACAAG
Found at i:35212992 original size:89 final size:89
Alignment explanation
Indices: 35212885--35213193 Score: 254
Period size: 89 Copynumber: 3.4 Consensus size: 89
35212875 AGCCACTGAC
* * * * *
35212885 CTTATCTCCCTAAAGTTGCAGTGGAGCAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCTATAA-TCTTATCTCCCTGAAGTTGCAG
35212950 TGGAGCAGACT-CATGATAGCGAAT
65 TGGAGCAGACTACATGATAGCGAAT
* * * *
35212974 CTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCTATAAATCCTATAC-CTCTGAAGTTGCA
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCTAT-AATCTTAT-CTCCCTGAAGTT---
* *
35213038 GCAGGTCGGATCAAATCTACCATG--A-CGAAT
61 GCA-GT-GGAGCAGA-CTA-CATGATAGCGAAT
* * * * * * * *
35213068 CTTATCACCCTGAAGTTGCAGTGGAGCAGATCGAACCCATTAACCTTATCTCCCTAAAGTTGTAG
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCTA-TAATCTTATCTCCCTGAAGTTGCAG
* *
35213133 TGGAGCAGATTGA-AT-ATAGCAAAT
65 TGGAGCAGACT-ACATGATAGCGAAT
* *
35213157 CTTATCTCTCTGAAGTTGCAGTAGAGTAGATTGAAGC
1 CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGC
35213194 AACAAACCTT
Statistics
Matches: 171, Mismatches: 33, Indels: 32
0.72 0.14 0.14
Matches are distributed among these distances:
87 2 0.01
88 2 0.01
89 89 0.52
90 5 0.03
91 2 0.01
92 3 0.02
93 3 0.02
94 57 0.33
95 4 0.02
97 4 0.02
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (89 bp):
CTTATCTCCCTGAAGTTGCAGTAGAGCAGATTGAAGCTATAATCTTATCTCCCTGAAGTTGCAGT
GGAGCAGACTACATGATAGCGAAT
Found at i:35215084 original size:27 final size:25
Alignment explanation
Indices: 35215032--35215099 Score: 70
Period size: 27 Copynumber: 2.8 Consensus size: 25
35215022 TTTTAACTTG
35215032 TTATATAAC--ATTTT-AAATTAAC
1 TTATATAACTTATTTTAAAATTAAC
**
35215054 TTATATATTACTTATTTTAAAATTATT
1 TTATATA--ACTTATTTTAAAATTAAC
*
35215081 TTATATACCTTATTTTAAA
1 TTATATAACTTATTTTAAA
35215100 CCCATTTTAC
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 7 0.18
24 2 0.05
25 11 0.29
26 5 0.13
27 13 0.34
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (25 bp):
TTATATAACTTATTTTAAAATTAAC
Found at i:35216597 original size:64 final size:65
Alignment explanation
Indices: 35216524--35216644 Score: 174
Period size: 65 Copynumber: 1.9 Consensus size: 65
35216514 TAATCATAAA
* *
35216524 AATTTATATAATAATTAAACG-AGATTT-TTTCTAATGACAAAGTTGAAACACTAAAAATTATAG
1 AATTTATATAAGAATTAAACGAAGATTTGATTC-AATGACAAAGTTGAAACACTAAAAATTATAG
35216587 G
65 G
* * *
35216588 AATTTATATAAGAATTAAATGAAGATTTGATTCAATGATAAAGTTGAAACTCTAAAA
1 AATTTATATAAGAATTAAACGAAGATTTGATTCAATGACAAAGTTGAAACACTAAAA
35216645 TTCATAGTAG
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
64 19 0.38
65 28 0.56
66 3 0.06
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.34
Consensus pattern (65 bp):
AATTTATATAAGAATTAAACGAAGATTTGATTCAATGACAAAGTTGAAACACTAAAAATTATAGG
Found at i:35216633 original size:65 final size:64
Alignment explanation
Indices: 35216482--35216650 Score: 187
Period size: 64 Copynumber: 2.6 Consensus size: 64
35216472 ATTTTCTAAC
* * * * *
35216482 ATTTAGTTCAAATGATAAAGTTAAAACTCTGATAATCATAAAAATTTATATAATAATTAAACGAG
1 ATTTA-TTCTAATGATAAAGTTGAAACTCTAAAAATCATAAAAATTTATATAAGAATTAAACGAG
* * * * ** *
35216547 ATTTTTTCTAATGACAAAGTTGAAACACTAAAAATTATAGGAATTTATATAAGAATTAAATGAAG
1 ATTTATTCTAATGATAAAGTTGAAACTCTAAAAATCATAAAAATTTATATAAGAATTAAACG-AG
*
35216612 ATTTGATTC-AATGATAAAGTTGAAACTCTAAAATTCATA
1 ATTT-ATTCTAATGATAAAGTTGAAACTCTAAAAATCATA
35216651 GTAGTTTAGA
Statistics
Matches: 85, Mismatches: 17, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
64 46 0.54
65 36 0.42
66 3 0.04
ACGTcount: A:0.47, C:0.08, G:0.11, T:0.34
Consensus pattern (64 bp):
ATTTATTCTAATGATAAAGTTGAAACTCTAAAAATCATAAAAATTTATATAAGAATTAAACGAG
Found at i:35222152 original size:31 final size:31
Alignment explanation
Indices: 35222117--35222180 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 31
35222107 TTAAACGGGA
*
35222117 TTTACAAAATTACAATATTAAAATATAATAT
1 TTTACAAAATTAAAATATTAAAATATAATAT
*** * *
35222148 TTTACGCTATTAAAATATTAATATATATTAT
1 TTTACAAAATTAAAATATTAAAATATAATAT
35222179 TT
1 TT
35222181 ACTTATTATC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.47, C:0.06, G:0.02, T:0.45
Consensus pattern (31 bp):
TTTACAAAATTAAAATATTAAAATATAATAT
Found at i:35224850 original size:18 final size:17
Alignment explanation
Indices: 35224794--35224850 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
35224784 GATTTTTATA
*
35224794 AAATTGAAAGCTAAAACT
1 AAATTAAAAGCTAAAA-T
* * *
35224812 AACTTAAAAACTAAATTT
1 AAATTAAAAGCTAAA-AT
35224830 AAATTAAAAGCTTAAAAT
1 AAATTAAAAGC-TAAAAT
35224848 AAA
1 AAA
35224851 GAAAACAATA
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
18 26 0.87
19 4 0.13
ACGTcount: A:0.60, C:0.09, G:0.05, T:0.26
Consensus pattern (17 bp):
AAATTAAAAGCTAAAAT
Found at i:35245970 original size:83 final size:83
Alignment explanation
Indices: 35245831--35245996 Score: 296
Period size: 83 Copynumber: 2.0 Consensus size: 83
35245821 ATATAAGCGA
*
35245831 CTGTCTTTGAACAACAAAGCGATATGTCCTAACTTATTGGATGTAGCATTTTGTCATTTCAAGAT
1 CTGTCTTGGAACAACAAAGCGATATGTCCTAACTTATTGGATGTAGCATTTTGTCATTTCAAGAT
35245896 AGGAATTTCTAAAAAAGG
66 AGGAATTTCTAAAAAAGG
* * *
35245914 CTGTCTTGGAACAGCAAAGCTATATGTTCTAACTTATTGGATGTAGCATTTTGTCATTTCAAGAT
1 CTGTCTTGGAACAACAAAGCGATATGTCCTAACTTATTGGATGTAGCATTTTGTCATTTCAAGAT
35245979 AGGAATTTCTAAAAAAGG
66 AGGAATTTCTAAAAAAGG
35245997 TTAACTTAGT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
83 79 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (83 bp):
CTGTCTTGGAACAACAAAGCGATATGTCCTAACTTATTGGATGTAGCATTTTGTCATTTCAAGAT
AGGAATTTCTAAAAAAGG
Found at i:35246163 original size:82 final size:82
Alignment explanation
Indices: 35246026--35246188 Score: 308
Period size: 82 Copynumber: 2.0 Consensus size: 82
35246016 TTGATACGAG
* *
35246026 TGGACCCAAATTTTCAAGGAATCAAAGTATTTTAAAGAGGATTACATCTTAAAATTTTTTAAATT
1 TGGACCCAAATTTTCAAAGAATCAAAATATTTTAAAGAGGATTACATCTTAAAATTTTTTAAATT
35246091 TCCGACCTTAAAGACAA
66 TCCGACCTTAAAGACAA
35246108 TGGACCCAAATTTTCAAAGAATCAAAATATTTTAAAGAGGATTACATCTTAAAATTTTTTAAATT
1 TGGACCCAAATTTTCAAAGAATCAAAATATTTTAAAGAGGATTACATCTTAAAATTTTTTAAATT
35246173 TCCGACCTTAAAGACA
66 TCCGACCTTAAAGACA
35246189 TTTGATAATT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
82 79 1.00
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (82 bp):
TGGACCCAAATTTTCAAAGAATCAAAATATTTTAAAGAGGATTACATCTTAAAATTTTTTAAATT
TCCGACCTTAAAGACAA
Found at i:35256488 original size:10 final size:10
Alignment explanation
Indices: 35256461--35256507 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
35256451 GAGATGTTTC
35256461 AAAAAAAAAG
1 AAAAAAAAAG
35256471 AGAGAAAAAAAG
1 A-A-AAAAAAAG
*
35256483 AAAAAAAAAT
1 AAAAAAAAAG
35256493 AAAAAATAAA-
1 AAAAAA-AAAG
35256503 AAAAA
1 AAAAA
35256508 TGGGGAGGCC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
10 19 0.58
11 5 0.15
12 9 0.27
ACGTcount: A:0.87, C:0.00, G:0.09, T:0.04
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:35257909 original size:119 final size:119
Alignment explanation
Indices: 35257344--35257907 Score: 984
Period size: 119 Copynumber: 4.7 Consensus size: 119
35257334 AGACAATTAC
*
35257344 ACTGAAGCAGATCCAAGATGATTTGGTATTCTTTTGTTTACAAGGAACAAATCGAGGACATAGCA
1 ACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCA
* *
35257409 GATTTGACTCTCATACATTCTCAGATATAGCAGATCTAACCTTCAGATGTTTAT
66 GATTTGACTCTCAGACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTAT
* * *
35257463 ACTGAAGCAGATCCAAGATTATTTGGTGTTCTTGTGTTTACAAGGAACAAATCGAGGACATAACA
1 ACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCA
*
35257528 GATTTGACTCTCAGACATTCTCAGATATAGCAGATCTAACCTTCAGATGTTTAT
66 GATTTGACTCTCAGACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTAT
35257582 ACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCA
1 ACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCA
35257647 GATTTGACTCTCAGACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTAT
66 GATTTGACTCTCAGACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTAT
* *
35257701 ACTGAAGCAAATCCAAGATGATTTGGTGTTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCA
1 ACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCA
* * *
35257766 GATTTGACTCTCAAACGTTCTCAAATATAGCAGATCTAGCCTTCAGATGTTTAT
66 GATTTGACTCTCAGACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTAT
* *
35257820 ACTGAAGCAGATCCAAGATGATCTGGTATTCTTGTGTTTACAAGAAACAAATCGAGGACATAGCA
1 ACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCA
* *
35257885 GATTAGACTCTCAGATGTTCTCA
66 GATTTGACTCTCAGACGTTCTCA
35257908 AACAAACTTA
Statistics
Matches: 424, Mismatches: 21, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
119 424 1.00
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Consensus pattern (119 bp):
ACTGAAGCAGATCCAAGATGATTTGGTATTCTTGTGTTTACAAGGAACAAATCGAGGACATAGCA
GATTTGACTCTCAGACGTTCTCAGATATAGCAGATCTAACCTTCAGATGTTTAT
Found at i:35257952 original size:73 final size:73
Alignment explanation
Indices: 35257865--35258009 Score: 272
Period size: 73 Copynumber: 2.0 Consensus size: 73
35257855 GTTTACAAGA
*
35257865 AACAAATCGAGGACATAGCAGATTAGACTCTCAGATGTTCTCAAACAAACTTAAGATGATTTGGC
1 AACAAATCGAGGACATAGCAGATTAGACTCTCAGATGTTCTCAAACAAACTCAAGATGATTTGGC
35257930 ATTCTTGG
66 ATTCTTGG
*
35257938 AACAAATCGAGGACATAGCAGATTGGACTCTCAGATGTTCTCAAACAAACTCAAGATGATTTGGC
1 AACAAATCGAGGACATAGCAGATTAGACTCTCAGATGTTCTCAAACAAACTCAAGATGATTTGGC
35258003 ATTCTTG
66 ATTCTTG
35258010 TGTTTACAAG
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
73 70 1.00
ACGTcount: A:0.35, C:0.19, G:0.19, T:0.27
Consensus pattern (73 bp):
AACAAATCGAGGACATAGCAGATTAGACTCTCAGATGTTCTCAAACAAACTCAAGATGATTTGGC
ATTCTTGG
Found at i:35258040 original size:83 final size:83
Alignment explanation
Indices: 35257938--35258132 Score: 227
Period size: 83 Copynumber: 2.3 Consensus size: 83
35257928 GCATTCTTGG
35257938 AACAAATCGAGGACATAGCAGA-TTGGACTCTC-AGATGTTCTCAAACAAA-CTCAAGATGATTT
1 AACAAATCGAGGACATAGCAGATTTGG-CTCTCAAG-TGTTCTCAAACAAACCT-AAGATGATTT
*
35258000 GGCATTCTTGTGTTTACAAGA
63 GGCATCCTTGTGTTTACAAGA
** * *
35258021 AACAAATCGAGGATGTAGCAGATTTGGCTCTCAAGTGTTCTCAAACAGACCTAAGATGGTTTGGC
1 AACAAATCGAGGACATAGCAGATTTGGCTCTCAAGTGTTCTCAAACAAACCTAAGATGATTTGGC
* * *
35258086 ATCCTTGTGCTTATAAGG
66 ATCCTTGTGTTTACAAGA
* * *
35258104 AGCAAATC-AGAGACGTAGCTGATTTGGCT
1 AACAAATCGAG-GACATAGCAGATTTGGCT
35258133 TTCACGTGCT
Statistics
Matches: 97, Mismatches: 11, Indels: 8
0.84 0.09 0.07
Matches are distributed among these distances:
82 2 0.02
83 87 0.90
84 8 0.08
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.28
Consensus pattern (83 bp):
AACAAATCGAGGACATAGCAGATTTGGCTCTCAAGTGTTCTCAAACAAACCTAAGATGATTTGGC
ATCCTTGTGTTTACAAGA
Found at i:35259824 original size:21 final size:20
Alignment explanation
Indices: 35259788--35259826 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
35259778 TTGTTTTATC
35259788 TTTAATTTTGATTTTTATGT
1 TTTAATTTTGATTTTTATGT
35259808 TTTACATTTT-ATATTTTAT
1 TTTA-ATTTTGAT-TTTTAT
35259827 AATATTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.23, C:0.03, G:0.05, T:0.69
Consensus pattern (20 bp):
TTTAATTTTGATTTTTATGT
Found at i:35273694 original size:18 final size:18
Alignment explanation
Indices: 35273669--35273703 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
35273659 CTTAGATATT
35273669 GTTTGGTGGTC-GTGGTG
1 GTTTGGTGGTCGGTGGTG
35273686 GTTTCGGTGGTCGGTGGT
1 GTTT-GGTGGTCGGTGGT
35273704 CCTTTAGACC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.00, C:0.09, G:0.51, T:0.40
Consensus pattern (18 bp):
GTTTGGTGGTCGGTGGTG
Found at i:35283566 original size:23 final size:25
Alignment explanation
Indices: 35283536--35283583 Score: 73
Period size: 23 Copynumber: 2.0 Consensus size: 25
35283526 AAGGAAAGGT
*
35283536 AGATGAGAA-AGGAAACAA-TAGAG
1 AGATGAGAAGAGAAAACAATTAGAG
35283559 AGATGAGAAGAGAAAACAATTAGAG
1 AGATGAGAAGAGAAAACAATTAGAG
35283584 TATAATCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 9 0.41
24 8 0.36
25 5 0.23
ACGTcount: A:0.56, C:0.04, G:0.29, T:0.10
Consensus pattern (25 bp):
AGATGAGAAGAGAAAACAATTAGAG
Found at i:35285423 original size:205 final size:205
Alignment explanation
Indices: 35285071--35285460 Score: 717
Period size: 205 Copynumber: 1.9 Consensus size: 205
35285061 GAATTTATTT
* *
35285071 ATATATTAGACTTGAGTAGAATTAGTAAATTTGACATATAAGTTTTAAAATGGATTGAATTGTAA
1 ATATATTAGACTTGAGTAGAATTAGTAAATTTGACACATAAGTTTTAAAATGGAATGAATTGTAA
35285136 GTTTGTATAAATATTGGCTATATTGAAATGGTATAGGGTCTAAATACGAATATGTATTGATTATA
66 GTTTGTATAAATATTGGCTATATTGAAATGGTATAGGGTCTAAATACGAATATGTATTGATTATA
*
35285201 CGACTTGTAAATGAAAATTGTGATCTTGTATAGGATATGATTGAATTGTGGATAATTACAGAGAT
131 CGACTTGTAAATGAAAATTGTGATATTGTATAGGATATGATTGAATTGTGGATAATTACAGAGAT
35285266 TGGTGATGAC
196 TGGTGATGAC
* **
35285276 ATATATTAGACTTTAGTAGAATTAGTAAATTTGACACATTGGTTTTAAAATGGAATGAATTGTAA
1 ATATATTAGACTTGAGTAGAATTAGTAAATTTGACACATAAGTTTTAAAATGGAATGAATTGTAA
*
35285341 GTTTGTATAAATATTGGCTATATTGAAATGGTATAGGGTGTAAATACGAATATGTATTGATTATA
66 GTTTGTATAAATATTGGCTATATTGAAATGGTATAGGGTCTAAATACGAATATGTATTGATTATA
35285406 CGACTTGTAAATGAAAATTGTGATATTGTATAGGATATGATTGAATTGTGGATAA
131 CGACTTGTAAATGAAAATTGTGATATTGTATAGGATATGATTGAATTGTGGATAA
35285461 CACATTTATT
Statistics
Matches: 178, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
205 178 1.00
ACGTcount: A:0.37, C:0.04, G:0.21, T:0.38
Consensus pattern (205 bp):
ATATATTAGACTTGAGTAGAATTAGTAAATTTGACACATAAGTTTTAAAATGGAATGAATTGTAA
GTTTGTATAAATATTGGCTATATTGAAATGGTATAGGGTCTAAATACGAATATGTATTGATTATA
CGACTTGTAAATGAAAATTGTGATATTGTATAGGATATGATTGAATTGTGGATAATTACAGAGAT
TGGTGATGAC
Found at i:35298943 original size:127 final size:127
Alignment explanation
Indices: 35298711--35298958 Score: 397
Period size: 127 Copynumber: 2.0 Consensus size: 127
35298701 GGTGAACCCC
* *
35298711 TTTTTTGATAGAATCATCGATGTTTCATCAAACGTAAAATCTCTACTAACGATGATCTTACTCAT
1 TTTTTTGACAAAATCATCGATGTTTCATCAAACGTAAAATCTCTACTAACGATGATCTTACTCAT
* *
35298776 TTCTAGGCACCATAACTTATAATCTTTTATCCCAACAGCAAAACCCAGAAAAATACGAACCT
66 TTCTAGGCACCATAACTTATAACCTTTTATCCCAACAGCAAAACCCAAAAAAATACGAACCT
* * * *
35298838 TTTTTTGACAAAATCATCGATGTTTCATCAAACGTAACATCTCTATTGACGATGATCTTACTCGT
1 TTTTTTGACAAAATCATCGATGTTTCATCAAACGTAAAATCTCTACTAACGATGATCTTACTCAT
* **
35298903 TTCTAGGCACCATAACTTATAGCCTTTTATCCCAGTAGCAAAACCCAAAAAAATAC
66 TTCTAGGCACCATAACTTATAACCTTTTATCCCAACAGCAAAACCCAAAAAAATAC
35298959 ACTTCACAAC
Statistics
Matches: 110, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
127 110 1.00
ACGTcount: A:0.35, C:0.23, G:0.10, T:0.32
Consensus pattern (127 bp):
TTTTTTGACAAAATCATCGATGTTTCATCAAACGTAAAATCTCTACTAACGATGATCTTACTCAT
TTCTAGGCACCATAACTTATAACCTTTTATCCCAACAGCAAAACCCAAAAAAATACGAACCT
Found at i:35301452 original size:25 final size:25
Alignment explanation
Indices: 35301419--35301472 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
35301409 TCATCCTCAT
*
35301419 TTTTCCCTTAGCAAAATTTTGACAA
1 TTTTACCTTAGCAAAATTTTGACAA
* * * *
35301444 TTTTACCTTGGTAAATTTTTGACCA
1 TTTTACCTTAGCAAAATTTTGACAA
35301469 TTTT
1 TTTT
35301473 GCCCCTAGTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.17, G:0.09, T:0.48
Consensus pattern (25 bp):
TTTTACCTTAGCAAAATTTTGACAA
Found at i:35301653 original size:6 final size:6
Alignment explanation
Indices: 35301637--35301677 Score: 64
Period size: 6 Copynumber: 6.8 Consensus size: 6
35301627 GCAAATGGAT
* *
35301637 CATTTC TATTTT CATTTC CATTTC CATTTC CATTTC CATTT
1 CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
35301678 TTGGAAATCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.56
Consensus pattern (6 bp):
CATTTC
Found at i:35307934 original size:86 final size:89
Alignment explanation
Indices: 35307824--35308045 Score: 283
Period size: 89 Copynumber: 2.5 Consensus size: 89
35307814 TAAGGATGTT
* *
35307824 AAAAG-CTATCAAACTTTTTAAAAAAAAGTAATTAAACCC-TA-TTTTTTTTGCACTCACTTGAG
1 AAAAGACTATCAAACTTTTTAAAAAAAAGTAATTAAACCCTTACTTTTTTTTCCACTCAATTGAG
35307886 TACTTGAACTTTCAAAATGCAT-A
66 TACTTGAACTTTCAAAATGCATCA
* * * *
35307909 AAAAGACTCTCAAACTTCTTCAAAAAAAGTAATTAAACCCTTACCTTTTTTTTCCACTCAATTGG
1 AAAAGACTATCAAACTTTTTAAAAAAAAGTAATTAAACCCTTA-CTTTTTTTTCCACTCAATTGA
*
35307974 GTACTTGAGCTTTCAAAATGCATCA
65 GTACTTGAACTTTCAAAATGCATCA
* * * * * *
35307999 AAAAGACTTTCAAAATTTTTTAAAAAAA-CAATTAAGCCCCTACTTTT
1 AAAAGACTATCAAACTTTTTAAAAAAAAGTAATTAAACCCTTACTTTT
35308046 ATTAAAAATT
Statistics
Matches: 118, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
85 5 0.04
86 31 0.26
87 2 0.02
88 5 0.04
89 50 0.42
90 25 0.21
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.34
Consensus pattern (89 bp):
AAAAGACTATCAAACTTTTTAAAAAAAAGTAATTAAACCCTTACTTTTTTTTCCACTCAATTGAG
TACTTGAACTTTCAAAATGCATCA
Found at i:35310084 original size:11 final size:12
Alignment explanation
Indices: 35310069--35310097 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
35310059 ATCATTAAAA
35310069 AATAAACGAGTC
1 AATAAACGAGTC
35310081 -ATAAACGAGTC
1 AATAAACGAGTC
35310092 AATAAA
1 AATAAA
35310098 TGAGCTTATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.55, C:0.14, G:0.14, T:0.17
Consensus pattern (12 bp):
AATAAACGAGTC
Found at i:35312124 original size:40 final size:39
Alignment explanation
Indices: 35312065--35312195 Score: 158
Period size: 41 Copynumber: 3.3 Consensus size: 39
35312055 ACACACCAGT
*
35312065 TTGGCACCCAGTGCCTCATCAGATAATTCCAAGTAGTAAA
1 TTGGCACCCAGTGTCTCATCAGATAA-TCCAAGTAGTAAA
* * *
35312105 TTGACACCCAATGTCTCATCAAATAAATCCGAAGTAGTAAA
1 TTGGCACCCAGTGTCTCATCAGAT-AATCC-AAGTAGTAAA
* * *
35312146 TTGGCACCCTGTGTCTCATCAGTTAAACCAA--AGTAAA
1 TTGGCACCCAGTGTCTCATCAGATAATCCAAGTAGTAAA
35312183 TTGGCACCCAGTG
1 TTGGCACCCAGTG
35312196 CCTTATTGAC
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
37 18 0.23
39 2 0.03
40 27 0.35
41 31 0.40
ACGTcount: A:0.34, C:0.24, G:0.17, T:0.25
Consensus pattern (39 bp):
TTGGCACCCAGTGTCTCATCAGATAATCCAAGTAGTAAA
Found at i:35313679 original size:27 final size:27
Alignment explanation
Indices: 35313649--35313717 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 27
35313639 ACAAAAGCAC
* *
35313649 TCTTTTCAGAGTTTGCCATAAAGATTA
1 TCTTTTCAGAGTTCGACATAAAGATTA
** *
35313676 TCTTTTTTGGAGTTCGACATAAAGGTTA
1 TC-TTTTCAGAGTTCGACATAAAGATTA
35313704 T-TCTTTCAGAGTTC
1 TCT-TTTCAGAGTTC
35313718 TCCACAAAAG
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
26 1 0.03
27 11 0.33
28 21 0.64
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.43
Consensus pattern (27 bp):
TCTTTTCAGAGTTCGACATAAAGATTA
Found at i:35316464 original size:48 final size:48
Alignment explanation
Indices: 35316408--35316524 Score: 189
Period size: 48 Copynumber: 2.4 Consensus size: 48
35316398 AGGGAATACA
** *
35316408 TTGATTTGGCTTCAGGCCATGATATTGGCACTTTGGGTGCGAGTTACT
1 TTGATTTGGCTTCAGGCCATGATATTGGCACTTCAGGTGAGAGTTACT
* *
35316456 TTGATTTGGCTTCAAGCCATAATATTGGCACTTCAGGTGAGAGTTACT
1 TTGATTTGGCTTCAGGCCATGATATTGGCACTTCAGGTGAGAGTTACT
35316504 TTGATTTGGCTTCAGGCCATG
1 TTGATTTGGCTTCAGGCCATG
35316525 TGATCGCGTG
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.20, C:0.17, G:0.26, T:0.37
Consensus pattern (48 bp):
TTGATTTGGCTTCAGGCCATGATATTGGCACTTCAGGTGAGAGTTACT
Found at i:35323167 original size:15 final size:15
Alignment explanation
Indices: 35323110--35323189 Score: 67
Period size: 15 Copynumber: 5.4 Consensus size: 15
35323100 CAAAGATAAC
*
35323110 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
*
35323124 AAAAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
35323139 GAGAAA-CCTGGAATA
1 AAGAAATCC-AGAATA
35323154 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
35323169 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
35323184 AAGAAA
1 AAGAAA
35323190 CCCAAGATAC
Statistics
Matches: 51, Mismatches: 10, Indels: 9
0.73 0.14 0.13
Matches are distributed among these distances:
14 10 0.20
15 38 0.75
16 3 0.06
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:35323198 original size:15 final size:15
Alignment explanation
Indices: 35323121--35323198 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
35323111 AGAAAACCGA
*
35323121 ATAAAAAAATCCAAG
1 ATAAAGAAATCCAAG
* **
35323136 ATAGAGAAA-CCTGG
1 ATAAAGAAATCCAAG
35323150 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
35323165 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
35323181 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
35323196 ATA
1 ATA
35323199 CGATACTATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 3 0.06
15 43 0.88
16 3 0.06
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:35326601 original size:29 final size:29
Alignment explanation
Indices: 35326566--35326639 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
35326556 GTTGTGAGAT
*
35326566 TGGCACTAAGTGTGC-AGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGA-G-TTGAAAGTACA
*
35326595 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
35326624 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
35326640 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 5 0.12
29 35 0.85
30 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:35327040 original size:40 final size:38
Alignment explanation
Indices: 35326995--35327099 Score: 120
Period size: 39 Copynumber: 2.6 Consensus size: 38
35326985 AAGTGACCTT
*
35326995 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGG-CTAAG-TCCGAAGGCATTGGTGCGAGATACTAA
* * *
35327035 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 ATCC-GGCTAAGTCCGAAGGCATTGGTGCGAGATACTAA
35327074 ATCCAGGCTAAGTCCCGAAGAGCATT
1 ATCC-GGCTAAGT-CCGAAG-GCATT
35327100 CATGCTAGTG
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
39 34 0.62
40 14 0.25
41 7 0.13
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.22
Consensus pattern (38 bp):
ATCCGGCTAAGTCCGAAGGCATTGGTGCGAGATACTAA
Found at i:35327057 original size:39 final size:39
Alignment explanation
Indices: 35326956--35327139 Score: 146
Period size: 40 Copynumber: 4.6 Consensus size: 39
35326946 TCGAATGATG
* *
35326956 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCTTA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-A-CTAA
*
35326996 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAA
* *
35327035 TTCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACT-AA
* ** * *
35327075 TCCAGGCTAAGTCCCGAAGAGCATTCATGCTAG-TGA-TGTA
1 TCCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGAT-ACT-AA
35327115 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
35327140 CATGCTAGTG
Statistics
Matches: 122, Mismatches: 13, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
39 35 0.29
40 65 0.53
41 21 0.17
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAA
Found at i:35327123 original size:40 final size:40
Alignment explanation
Indices: 35327074--35327230 Score: 233
Period size: 40 Copynumber: 3.9 Consensus size: 40
35327064 GAGTTACTAA
*
35327074 ATCCAGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
35327114 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * * * *
35327154 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
* * *
35327194 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
35327231 CGTGTATTCA
Statistics
Matches: 106, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 106 1.00
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
Found at i:35327758 original size:200 final size:200
Alignment explanation
Indices: 35327415--35327816 Score: 777
Period size: 200 Copynumber: 2.0 Consensus size: 200
35327405 AGCACTATGT
35327415 ATGTGAATAATTAGAGGCACTGTGTGTGTGCGAATTCCTTTAACCGAGCACTATGAGTGCGAGAT
1 ATGTGAATAATTAGAGGCACTGTGTGTGTGCGAATTCCTTTAACCGAGCACTATGAGTGCGAGAT
35327480 CGGTCAGTGGGCACTAAGTGTGTGAAGTGGAATTCATGTAAGACCTCGTTTGGGACGAAGGCATT
66 CGGTCAGTGGGCACTAAGTGTGTGAAGTGGAATTCATGTAAGACCTCGTTTGGGACGAAGGCATT
*
35327545 GATTTGAGATAGTGTGTAAGACCATGTCTGGGACATGGCATCGACTCGATATGTGAGAATATGTA
131 GATTTGAGATAGTGTGTAAGACCATGTCTGGGACATGGCATCGACTCAATATGTGAGAATATGTA
35327610 AGACC
196 AGACC
35327615 ATGTGAATAATTAGAGGCACTGTGTGTGTGCGAATTCCTTTAACCGAGCACTATGAGTGCGAGAT
1 ATGTGAATAATTAGAGGCACTGTGTGTGTGCGAATTCCTTTAACCGAGCACTATGAGTGCGAGAT
*
35327680 CGGTCAGTGGGCACTAAGTGTGTGAAGTGGAATTCCTGTAAGACCTCGTTTGGGACGAAGGCATT
66 CGGTCAGTGGGCACTAAGTGTGTGAAGTGGAATTCATGTAAGACCTCGTTTGGGACGAAGGCATT
*
35327745 GATTTGAGATAGTGTGTAAGACCATGTCTGGGACATGGCATCGGCTCAATATGTGAGAATATGTA
131 GATTTGAGATAGTGTGTAAGACCATGTCTGGGACATGGCATCGACTCAATATGTGAGAATATGTA
35327810 AGACC
196 AGACC
35327815 AT
1 AT
35327817 ATCTAGGATA
Statistics
Matches: 199, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
200 199 1.00
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.28
Consensus pattern (200 bp):
ATGTGAATAATTAGAGGCACTGTGTGTGTGCGAATTCCTTTAACCGAGCACTATGAGTGCGAGAT
CGGTCAGTGGGCACTAAGTGTGTGAAGTGGAATTCATGTAAGACCTCGTTTGGGACGAAGGCATT
GATTTGAGATAGTGTGTAAGACCATGTCTGGGACATGGCATCGACTCAATATGTGAGAATATGTA
AGACC
Found at i:35330929 original size:47 final size:47
Alignment explanation
Indices: 35330870--35331463 Score: 1005
Period size: 47 Copynumber: 12.9 Consensus size: 47
35330860 TAGTATGGTG
* *
35330870 TAATGGCCGATGTGATGAATATGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
35330917 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
35330964 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
35331011 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
35331058 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
35331105 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
*
35331152 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
*
35331199 CAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
35331246 TAATGGCCGATGTGATGAATGTGAAA--G------TGTG-T---GCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
35331281 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
35331328 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
*
35331375 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
* * * * * *
35331422 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATA
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATA
35331464 AGTCCCGAAG
Statistics
Matches: 521, Mismatches: 14, Indels: 24
0.93 0.03 0.04
Matches are distributed among these distances:
35 29 0.06
37 1 0.00
38 1 0.00
39 4 0.01
43 4 0.01
44 1 0.00
45 1 0.00
47 480 0.92
ACGTcount: A:0.30, C:0.09, G:0.32, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
Found at i:35331283 original size:35 final size:35
Alignment explanation
Indices: 35331243--35331310 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
35331233 ATGTGATAGG
35331243 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTGT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTGT
35331278 GCCTAATGGCCGATGTGATGAATGTGAAAGTGT
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGT
35331311 ATATATGTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.26, C:0.12, G:0.34, T:0.28
Consensus pattern (35 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTGT
Found at i:35331299 original size:82 final size:84
Alignment explanation
Indices: 35331195--35331451 Score: 347
Period size: 82 Copynumber: 3.0 Consensus size: 84
35331185 TATGTGATAA
*
35331195 GGCCCAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTG
35331260 ATGAATGTGAAAGTGTG-T
66 ATGAATGTGAAAGTGTGAT
35331278 -GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTG
1 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTG
35331342 ATGAATGTGAAAGTGTATATATGTGAT
66 ATGAATGTGAAA--G------TGTGAT
* * * * *
35331369 AGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGCGATAGGGCCGAGTGGCCAACG
1 --GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATG
*
35331434 TGATGGATGTGAAAGTGT
64 TGATGAATGTGAAAGTGT
35331452 ATAAATGTGA
Statistics
Matches: 155, Mismatches: 7, Indels: 21
0.85 0.04 0.11
Matches are distributed among these distances:
82 75 0.48
84 1 0.01
86 3 0.02
90 4 0.03
91 1 0.01
92 1 0.01
94 70 0.45
ACGTcount: A:0.28, C:0.11, G:0.33, T:0.28
Consensus pattern (84 bp):
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATGGCCGATGTG
ATGAATGTGAAAGTGTGAT
Found at i:35331640 original size:37 final size:37
Alignment explanation
Indices: 35331584--35331662 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
35331574 CCGAGCTCTA
* * *
35331584 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
* *
35331621 AAGACCCGATAACTTCGTGTGGAGATTATGTCTGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
35331658 AAGAC
1 AAGAC
35331663 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.18, G:0.32, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:35332943 original size:23 final size:23
Alignment explanation
Indices: 35332913--35332958 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
35332903 TCAGCGGGGC
*
35332913 AATCATATGGGAATTATAGGAAG
1 AATCATATGGGAATTATAAGAAG
35332936 AATCATATGGGAATTATAAGAAG
1 AATCATATGGGAATTATAAGAAG
35332959 CAAAATGTGG
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:0.46, C:0.04, G:0.24, T:0.26
Consensus pattern (23 bp):
AATCATATGGGAATTATAAGAAG
Found at i:35335817 original size:46 final size:46
Alignment explanation
Indices: 35335767--35335942 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
35335757 TGGTTGAGCA
*
35335767 TCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGTGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* * *
35335813 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGT-AACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA-T--G
* *
35335858 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
* *
35335906 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
35335943 GCGGGTTACA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATG
Found at i:35335923 original size:93 final size:93
Alignment explanation
Indices: 35335764--35335934 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
35335754 GGATGGTTGA
* * * *
35335764 GCATCCGAACTCGTTGATTTGAGTCCGAGTTCACTTATGGATGTGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35335829 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
35335857 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
35335922 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
35335935 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:35339215 original size:14 final size:14
Alignment explanation
Indices: 35339192--35339224 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
35339182 TGCCTGAAGC
35339192 AATT-AAAAAGAAA
1 AATTAAAAAAGAAA
35339205 AATTAAAAAAGAAA
1 AATTAAAAAAGAAA
35339219 AATTAA
1 AATTAA
35339225 GCTAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 4 0.21
14 15 0.79
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (14 bp):
AATTAAAAAAGAAA
Found at i:35341422 original size:23 final size:23
Alignment explanation
Indices: 35341390--35341449 Score: 111
Period size: 23 Copynumber: 2.6 Consensus size: 23
35341380 CATGCCCACC
*
35341390 AACCCTACACACCAACTCCGTCT
1 AACCCAACACACCAACTCCGTCT
35341413 AACCCAACACACCAACTCCGTCT
1 AACCCAACACACCAACTCCGTCT
35341436 AACCCAACACACCA
1 AACCCAACACACCA
35341450 TGTGGGGATA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.48, G:0.03, T:0.12
Consensus pattern (23 bp):
AACCCAACACACCAACTCCGTCT
Found at i:35341498 original size:40 final size:40
Alignment explanation
Indices: 35341452--35341527 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
35341442 ACACACCATG
*
35341452 TGGGGATAAAATCGACCCA-CCTATCCCTGCACACCAAATT
1 TGGGGATAAAATCGACCCATCCAAT-CCTGCACACCAAATT
*
35341492 TGGGGATAAAATTGACCCATCCAATCCTGCACACCA
1 TGGGGATAAAATCGACCCATCCAATCCTGCACACCA
35341528 TAAAGTACTG
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
40 29 0.88
41 4 0.12
ACGTcount: A:0.33, C:0.32, G:0.16, T:0.20
Consensus pattern (40 bp):
TGGGGATAAAATCGACCCATCCAATCCTGCACACCAAATT
Found at i:35343718 original size:17 final size:17
Alignment explanation
Indices: 35343698--35343730 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35343688 TAGAATTGAG
35343698 TTGAGAAAATAATTTAA
1 TTGAGAAAATAATTTAA
*
35343715 TTGAGAAATTAATTTA
1 TTGAGAAAATAATTTA
35343731 GTTAATTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.12, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATAATTTAA
Found at i:35343737 original size:9 final size:9
Alignment explanation
Indices: 35343721--35343755 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
35343711 TTAATTGAGA
35343721 AATTAATTT
1 AATTAATTT
*
35343730 AGTTAATTT
1 AATTAATTT
*
35343739 AATTAATTA
1 AATTAATTT
35343748 AATTAATT
1 AATTAATT
35343756 GAGTAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (9 bp):
AATTAATTT
Found at i:35343762 original size:13 final size:13
Alignment explanation
Indices: 35343711--35343763 Score: 54
Period size: 13 Copynumber: 4.1 Consensus size: 13
35343701 AGAAAATAAT
35343711 TTAATTGAG-AAA
1 TTAATTGAGTAAA
* *
35343723 TTAATTTAGTTAAT
1 TTAATTGAG-TAAA
* *
35343737 TTAATTAATTAAA
1 TTAATTGAGTAAA
35343750 TTAATTGAGTAAA
1 TTAATTGAGTAAA
35343763 T
1 T
35343764 AAATAATATT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
12 8 0.25
13 15 0.47
14 9 0.28
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (13 bp):
TTAATTGAGTAAA
Found at i:35347046 original size:27 final size:27
Alignment explanation
Indices: 35346956--35347034 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
35346946 AGCTCAGTTT
* * * *
35346956 GTAAAATTACCAAAATACCCTTGTAGA
1 GTAAAATGACCATAATACCCCTGTACA
* *
35346983 GTAAAATGACCGTAATGCCCCTGTACA
1 GTAAAATGACCATAATACCCCTGTACA
35347010 GTAAAATGACCATAATACCCCTGTA
1 GTAAAATGACCATAATACCCCTGTA
35347035 TGTTAGAATG
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.39, C:0.23, G:0.14, T:0.24
Consensus pattern (27 bp):
GTAAAATGACCATAATACCCCTGTACA
Found at i:35347325 original size:22 final size:22
Alignment explanation
Indices: 35347294--35347337 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
35347284 ACCTTTAGTA
*
35347294 GTCCTGTCTACAGCGTTGAGCC
1 GTCCTATCTACAGCGTTGAGCC
* *
35347316 GTCCTATCTACGGGGTTGAGCC
1 GTCCTATCTACAGCGTTGAGCC
35347338 ACCCTGTTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.14, C:0.30, G:0.30, T:0.27
Consensus pattern (22 bp):
GTCCTATCTACAGCGTTGAGCC
Found at i:35347521 original size:17 final size:18
Alignment explanation
Indices: 35347499--35347532 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35347489 CACATTGAAG
35347499 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
35347516 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
35347533 CTTCTTTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:35348828 original size:28 final size:28
Alignment explanation
Indices: 35348786--35348888 Score: 143
Period size: 28 Copynumber: 3.7 Consensus size: 28
35348776 TGGCCCCTTT
*
35348786 AGGCCCAATCTCATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
*
35348814 AGGCCCAACCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCATATGGCCCATC
* * * *
35348842 AGACCCAATCACTTTCATTTGGCCCGTC
1 AGGCCCAATCACATTCATATGGCCCATC
*
35348870 AGGCCCAATCATATTCATA
1 AGGCCCAATCACATTCATA
35348889 GTCATGCAAT
Statistics
Matches: 64, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (28 bp):
AGGCCCAATCACATTCATATGGCCCATC
Found at i:35349142 original size:15 final size:16
Alignment explanation
Indices: 35349101--35349154 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
35349091 TGTAGCCAAA
35349101 ATTTTGGCTTTTCGGT
1 ATTTTGGCTTTTCGGT
35349117 ATTTTGGCTTTTCGG-
1 ATTTTGGCTTTTCGGT
*
35349132 A-TTTGGACTTTTCAGT
1 ATTTTGG-CTTTTCGGT
35349148 ATTTTGG
1 ATTTTGG
35349155 GATTTACAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
14 5 0.15
15 8 0.24
16 16 0.47
17 5 0.15
ACGTcount: A:0.11, C:0.11, G:0.24, T:0.54
Consensus pattern (16 bp):
ATTTTGGCTTTTCGGT
Found at i:35353949 original size:22 final size:22
Alignment explanation
Indices: 35353924--35353998 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
35353914 TATATATATG
35353924 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * *
35353946 TGTGATGAATG-TGAACAT-GCATATA
1 TGTGAT-AAGGCCG-A-ATGGC-CA-A
35353971 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
35353993 TGTGAT
1 TGTGAT
35353999 GAATGTGAGC
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 14 0.35
23 9 0.22
24 9 0.22
25 8 0.20
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:35353988 original size:47 final size:47
Alignment explanation
Indices: 35353871--35354189 Score: 431
Period size: 47 Copynumber: 6.6 Consensus size: 47
35353861 CTATATTCAN
* **
35353871 TGTGATAAGGCCGAATGGCCAATGTGATGAACGTGAACCTGTATATATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-C---ATGCATATA
35353922 TGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
1 --TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
* *
35353971 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
* *
35354018 TGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
* *
35354065 TGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
** *
35354112 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACCCGTATATATATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA--C--ATGCATATA
*
35354163 TGTGATAAGGCCGAATGGCTAATGTGA
1 TGTGATAAGGCCGAATGGCCAATGTGA
35354190 AATATATGTG
Statistics
Matches: 247, Mismatches: 15, Indels: 10
0.91 0.06 0.04
Matches are distributed among these distances:
47 170 0.69
49 8 0.03
51 32 0.13
52 1 0.00
53 36 0.15
ACGTcount: A:0.32, C:0.13, G:0.29, T:0.26
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATA
Found at i:35354047 original size:25 final size:25
Alignment explanation
Indices: 35353972--35354094 Score: 68
Period size: 23 Copynumber: 5.2 Consensus size: 25
35353962 ATGCATATAT
35353972 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* * * *
35353997 ATGA-ATGTG-AGCAT-G-CATATGT-
1 GTGATAAG-GCCGAATGGCCA-ATGTG
35354019 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
* ** *
35354044 GTGAATATGAAC--AT-G-CATATAT-
1 GTG-ATAAGGCCGAATGGCCA-ATGTG
35354066 GTGATAAGGCCGAATGGCCAATGTG
1 GTGATAAGGCCGAATGGCCAATGTG
35354091 GTGA
1 GTGA
35354095 ATATGAACAT
Statistics
Matches: 68, Mismatches: 16, Indels: 28
0.61 0.14 0.25
Matches are distributed among these distances:
21 5 0.07
22 11 0.16
23 16 0.24
24 16 0.24
25 15 0.22
26 5 0.07
ACGTcount: A:0.31, C:0.13, G:0.32, T:0.24
Consensus pattern (25 bp):
GTGATAAGGCCGAATGGCCAATGTG
Found at i:35354403 original size:48 final size:48
Alignment explanation
Indices: 35354157--35354386 Score: 379
Period size: 48 Copynumber: 4.8 Consensus size: 48
35354147 AACCCGTATA
*
35354157 TATATGTGTGATAAGGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTG-G-TAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
35354207 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
35354255 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
* * * * *
35354303 TATATGTGGTAAAGCCGAATGGCTAATGTGAAGTCTGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
*
35354351 TATATGTGGTAAAGCCGAATGGCTAATGTGAGATAT
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
35354387 GTATGAGATG
Statistics
Matches: 171, Mismatches: 9, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
48 162 0.95
49 1 0.01
50 8 0.05
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.33
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGTGATATG
Found at i:35354686 original size:37 final size:37
Alignment explanation
Indices: 35354541--35354685 Score: 245
Period size: 37 Copynumber: 3.9 Consensus size: 37
35354531 GGAAATATAT
35354541 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
35354578 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
35354615 TCCGGGTAAGACCCGATGACTACGTGTGGGGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
35354652 TCCGGGTAAGACCCGATAACTTCATGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
35354686 TCGTCTGAGC
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 102 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:35357275 original size:17 final size:18
Alignment explanation
Indices: 35357253--35357286 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35357243 CACATTGAAG
35357253 TGTTTT-ATCGAAAACCT
1 TGTTTTCATCGAAAACCT
*
35357270 TGTTTTCATTGAAAACC
1 TGTTTTCATCGAAAACC
35357287 CTTTATAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (18 bp):
TGTTTTCATCGAAAACCT
Found at i:35361621 original size:47 final size:47
Alignment explanation
Indices: 35361543--35361945 Score: 682
Period size: 47 Copynumber: 8.6 Consensus size: 47
35361533 CCCTTCGGGA
* * * * *
35361543 CTTATCACA-ATTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
35361590 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35361637 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35361684 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35361731 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35361778 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
35361825 CTTATCACATATATACACTTTCACATTCATCACATCGGCCGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35361872 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
35361919 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
35361946 TATTCAAATA
Statistics
Matches: 342, Mismatches: 13, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
47 341 1.00
48 1 0.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:35362479 original size:22 final size:22
Alignment explanation
Indices: 35362454--35362507 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
35362444 ATTTACGGCC
* *
35362454 TTTAGCTGTCCTGTCTATGGTG
1 TTTAGCTGTCCTGTATACGGTG
35362476 TTTAG-TAGTCCTGTATACGGTG
1 TTTAGCT-GTCCTGTATACGGTG
*
35362498 TTGAGCTGTC
1 TTTAGCTGTC
35362508 TTGTTGACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 1 0.04
22 25 0.93
23 1 0.04
ACGTcount: A:0.13, C:0.17, G:0.28, T:0.43
Consensus pattern (22 bp):
TTTAGCTGTCCTGTATACGGTG
Found at i:35370497 original size:27 final size:27
Alignment explanation
Indices: 35370457--35370568 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 27
35370447 AGGAAGCGTC
*
35370457 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
35370484 CTGGTGGCTCTGCCACATATT-TCTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
35370511 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * * *
35370539 CTGGTGACTCTGTCGC-ATTATCTGTT
1 CTGGTGGCTCTGCCACAATTATCTGAT
35370565 CTGG
1 CTGG
35370569 CAGCCATGCT
Statistics
Matches: 74, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
26 8 0.11
27 49 0.66
28 17 0.23
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:35370563 original size:54 final size:54
Alignment explanation
Indices: 35370457--35370568 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
35370447 AGGAAGCGTC
* *
35370457 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATTTCTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
* * * *
35370511 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTGTCGCAT-TATCTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTT
35370565 CTGG
1 CTGG
35370569 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.14, C:0.24, G:0.24, T:0.38
Consensus pattern (54 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTT
Found at i:35374093 original size:15 final size:16
Alignment explanation
Indices: 35374059--35374090 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
35374049 GTTACATTAG
35374059 CCAACTAAGTGACTCT
1 CCAACTAAGTGACTCT
35374075 CCAACTAA-TGAC-CT
1 CCAACTAAGTGACTCT
35374089 CC
1 CC
35374091 CAAGACACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 4 0.25
16 8 0.50
ACGTcount: A:0.31, C:0.38, G:0.09, T:0.22
Consensus pattern (16 bp):
CCAACTAAGTGACTCT
Found at i:35381685 original size:49 final size:49
Alignment explanation
Indices: 35381631--35381853 Score: 179
Period size: 49 Copynumber: 4.6 Consensus size: 49
35381621 ACATCAAATT
* * *
35381631 CGATGCCATGTCCCAGACAGGTCTTGCACTTACTTTCATATATCAAGCC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGGC
* ** * * ** *
35381680 CGATGCCGTGTCCCAGACAGGTCTTACACTGGCTCTCATCTA-CCGGTGT
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAG-GC
* * *
35381729 CGATGCCATGTCCTAGACAGGTCTTACACTAACTTGT-ATATCTCGAGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTT-TCATATATCAAGGC
** ** * **
35381778 CGATG-CATGTCCCAGACATATCTTACACTGGCTCTCATA-AT-GTGGC
1 CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGGC
* *
35381824 CGATG-CATGTCTCAGACATGTCTTACACTA
1 CGATGCCATGTCCCAGACAGGTCTTACACTA
35381854 GCACACAAAT
Statistics
Matches: 139, Mismatches: 31, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
46 31 0.22
47 2 0.01
48 28 0.20
49 75 0.54
50 3 0.02
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (49 bp):
CGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGGC
Found at i:35381781 original size:98 final size:97
Alignment explanation
Indices: 35381630--35381815 Score: 266
Period size: 98 Copynumber: 1.9 Consensus size: 97
35381620 CACATCAAAT
* * *
35381630 TCGATGCCATGTCCCAGACAGGTCTTGCACTTACTTTCATATATCAAGCCCGATGCCGTGTCCCA
1 TCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGCCCGATG-CATGTCCCA
*
35381695 GACAGGTCTTACACTGGCTCTCATCTACCGGTG
65 GACAGATCTTACACTGGCTCTCATCTACCGGTG
* * * *
35381728 TCGATGCCATGTCCTAGACAGGTCTTACACTAACTTGT-ATATCTCGAGGCCGATGCATGTCCCA
1 TCGATGCCATGTCCCAGACAGGTCTTACACTAACTT-TCATATATCAAGCCCGATGCATGTCCCA
*
35381792 GACATATCTTACACTGGCTCTCAT
65 GACAGATCTTACACTGGCTCTCAT
35381816 AATGTGGCCG
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
97 30 0.38
98 47 0.60
99 1 0.01
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.28
Consensus pattern (97 bp):
TCGATGCCATGTCCCAGACAGGTCTTACACTAACTTTCATATATCAAGCCCGATGCATGTCCCAG
ACAGATCTTACACTGGCTCTCATCTACCGGTG
Found at i:35383323 original size:30 final size:30
Alignment explanation
Indices: 35383289--35383368 Score: 133
Period size: 30 Copynumber: 2.7 Consensus size: 30
35383279 ATTTACTGAA
*
35383289 ATGTGGAAGCCTTTGTGGTTTTTCTCAAAT
1 ATGTGGAAGCCTTTATGGTTTTTCTCAAAT
* *
35383319 ATGTGGAAGCCTTTATGGCTTTTCTCAGAT
1 ATGTGGAAGCCTTTATGGTTTTTCTCAAAT
35383349 ATGTGGAAGCCTTTATGGTT
1 ATGTGGAAGCCTTTATGGTT
35383369 ATTTTCAGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (30 bp):
ATGTGGAAGCCTTTATGGTTTTTCTCAAAT
Found at i:35383389 original size:30 final size:30
Alignment explanation
Indices: 35383292--35383389 Score: 108
Period size: 30 Copynumber: 3.3 Consensus size: 30
35383282 TACTGAAATG
* * * *
35383292 TGGAAGCCTTTGTGGTTTTTCTCAAATATG
1 TGGAAGCCTTTATGGCTTTTCTCAGATATA
*
35383322 TGGAAGCCTTTATGGCTTTTCTCAGATATG
1 TGGAAGCCTTTATGGCTTTTCTCAGATATA
* *
35383352 TGGAAGCCTTTATGG-TTATTTTCAGTTATA
1 TGGAAGCCTTTATGGCTT-TTCTCAGATATA
*
35383382 TGTAAGCC
1 TGGAAGCC
35383390 CTAGTGGCAA
Statistics
Matches: 60, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
29 2 0.03
30 58 0.97
ACGTcount: A:0.21, C:0.14, G:0.22, T:0.42
Consensus pattern (30 bp):
TGGAAGCCTTTATGGCTTTTCTCAGATATA
Found at i:35383418 original size:29 final size:29
Alignment explanation
Indices: 35383376--35383485 Score: 94
Period size: 29 Copynumber: 3.8 Consensus size: 29
35383366 GTTATTTTCA
* *
35383376 GTTATATGTAAGCCCTAGTGGCAAAACCT
1 GTTATATGTGAGCCTTAGTGGCAAAACCT
* * * **
35383405 GTTATGTGTGAGCCTTTGTGGCTATTCTCT
1 GTTATATGTGAGCCTTAGTGGCAAAAC-CT
* **
35383435 GTTATATGTGAGCCTTGGTGGTGAAACCT
1 GTTATATGTGAGCCTTAGTGGCAAAACCT
* * *
35383464 ATTATGTGTGAGCCTTTGTGGC
1 GTTATATGTGAGCCTTAGTGGC
35383486 TATTCTCTAT
Statistics
Matches: 63, Mismatches: 17, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
29 40 0.63
30 23 0.37
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.37
Consensus pattern (29 bp):
GTTATATGTGAGCCTTAGTGGCAAAACCT
Found at i:35383439 original size:30 final size:30
Alignment explanation
Indices: 35383406--35383629 Score: 145
Period size: 30 Copynumber: 7.5 Consensus size: 30
35383396 GCAAAACCTG
* *
35383406 TTATGTGTGAGCCTTTGTGGCTATTCTCTG
1 TTATATGTGAGCCTTTGTGGCTATTCTCTA
* **
35383436 TTATATGTGAGCCTTGGTGG-TGAAAC-CTA
1 TTATATGTGAGCCTTTGTGGCT-ATTCTCTA
*
35383465 TTATGTGTGAGCCTTTGTGGCTATTCTCTA
1 TTATATGTGAGCCTTTGTGGCTATTCTCTA
* * ** * ** *
35383495 TAATATGTGAGCCTTTTTTACAAAAC-CTT
1 TTATATGTGAGCCTTTGTGGCTATTCTCTA
*
35383524 TTATATGTGGAAGCCTTTTTGGCTATTCTCTA
1 TTATATGT-G-AGCCTTTGTGGCTATTCTCTA
* * * * *
35383556 TTACATGTGAGCCCTAGTGG-TGAAAT-T-TG
1 TTATATGTGAGCCTTTGTGGCT--ATTCTCTA
* ** *
35383585 TTATGTGCAAGCCTTTGTGGTTATTCTCTA
1 TTATATGTGAGCCTTTGTGGCTATTCTCTA
35383615 TTATATGTGAGCCTT
1 TTATATGTGAGCCTT
35383630 ATTAATGGAT
Statistics
Matches: 141, Mismatches: 42, Indels: 22
0.69 0.20 0.11
Matches are distributed among these distances:
28 2 0.01
29 49 0.35
30 66 0.47
31 15 0.11
32 9 0.06
ACGTcount: A:0.20, C:0.16, G:0.22, T:0.43
Consensus pattern (30 bp):
TTATATGTGAGCCTTTGTGGCTATTCTCTA
Found at i:35383439 original size:59 final size:59
Alignment explanation
Indices: 35383377--35383627 Score: 268
Period size: 59 Copynumber: 4.2 Consensus size: 59
35383367 TTATTTTCAG
* *
35383377 TTATATGTAAGCCCTAGTGGCAAAACCTGTTATGTGTGAGCCTTTGTGGCTATTCTCTG
1 TTATATGTGAGCCCTAGTGGCAAAACCTGTTATGTGTGAGCCTTTGTGGCTATTCTCTA
* * ** *
35383436 TTATATGTGAGCCTTGGTGGTGAAACCTATTATGTGTGAGCCTTTGTGGCTATTCTCTA
1 TTATATGTGAGCCCTAGTGGCAAAACCTGTTATGTGTGAGCCTTTGTGGCTATTCTCTA
* * ** ** * * *
35383495 TAATATGTGAGCCTTTTTTACAAAACCTTTTATATGTGGAAGCCTTTTTGGCTATTCTCTA
1 TTATATGTGAGCCCTAGTGGCAAAACCTGTTATGTGT-G-AGCCTTTGTGGCTATTCTCTA
* ** ** ** *
35383556 TTACATGTGAGCCCTAGTGGTGAAATTTGTTATGTGCAAGCCTTTGTGGTTATTCTCTA
1 TTATATGTGAGCCCTAGTGGCAAAACCTGTTATGTGTGAGCCTTTGTGGCTATTCTCTA
35383615 TTATATGTGAGCC
1 TTATATGTGAGCC
35383628 TTATTAATGG
Statistics
Matches: 155, Mismatches: 35, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
59 111 0.72
60 1 0.01
61 43 0.28
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (59 bp):
TTATATGTGAGCCCTAGTGGCAAAACCTGTTATGTGTGAGCCTTTGTGGCTATTCTCTA
Found at i:35383564 original size:120 final size:118
Alignment explanation
Indices: 35383397--35383629 Score: 322
Period size: 120 Copynumber: 2.0 Consensus size: 118
35383387 GCCCTAGTGG
* * * * *
35383397 CAAAACCTGTTATGTGTGAGCCTTTGTGGCTATTCTCTGTTATATGTGAGCCTTGGTGGTGAAAC
1 CAAAACCTGTTATATGTGAGCCTTTGTGGCTATTCTCTATTACATGTGAGCCCTAGTGGTGAAAC
**
35383462 CTATTATGTGTGAGCCTTTGTGGCTATTCTCTATAATATGTGAGCCTTTTTTA
66 CTATTATGTGCAAGCCTTTGTGGCTATTCTCTATAATATGTGAGCCTTTTTTA
* *
35383515 CAAAACCTTTTATATGTGGAAGCCTTTTTGGCTATTCTCTATTACATGTGAGCCCTAGTGGTGAA
1 CAAAACCTGTTATATGT-G-AGCCTTTGTGGCTATTCTCTATTACATGTGAGCCCTAGTGGTGAA
** * * *
35383580 ATTTGTTATGTGCAAGCCTTTGTGGTTATTCTCTATTATATGTGAGCCTT
64 ACCTATTATGTGCAAGCCTTTGTGGCTATTCTCTATAATATGTGAGCCTT
35383630 ATTAATGGAT
Statistics
Matches: 99, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
118 15 0.15
119 1 0.01
120 83 0.84
ACGTcount: A:0.21, C:0.16, G:0.21, T:0.42
Consensus pattern (118 bp):
CAAAACCTGTTATATGTGAGCCTTTGTGGCTATTCTCTATTACATGTGAGCCCTAGTGGTGAAAC
CTATTATGTGCAAGCCTTTGTGGCTATTCTCTATAATATGTGAGCCTTTTTTA
Found at i:35383851 original size:30 final size:29
Alignment explanation
Indices: 35383816--35383886 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 29
35383806 TTGGATGCCC
* * *
35383816 TTGTGGCTATCTAATGATGTATGGAATTCT
1 TTGTGGCTATCTAAGGATGAATGG-ATACT
*
35383846 TTGTGGCTATCTAAGGATGAATGGGTACT
1 TTGTGGCTATCTAAGGATGAATGGATACT
35383875 TTCGTGGCTATC
1 TT-GTGGCTATC
35383887 CAAGTCAAGT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
29 5 0.14
30 31 0.86
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.39
Consensus pattern (29 bp):
TTGTGGCTATCTAAGGATGAATGGATACT
Found at i:35406144 original size:35 final size:35
Alignment explanation
Indices: 35406091--35406161 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
35406081 ATTAAGGGTG
* * *
35406091 TTTGTAATATTAAGGGATTTAGCCTGGACTTGTAA
1 TTTGTAATAGTAACGGATTTAGCCTGGACTGGTAA
*
35406126 TTTGTCATAGTAACGGATTTAGCCTGGACTGGTAA
1 TTTGTAATAGTAACGGATTTAGCCTGGACTGGTAA
35406161 T
1 T
35406162 CCCGACATCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.27, C:0.11, G:0.24, T:0.38
Consensus pattern (35 bp):
TTTGTAATAGTAACGGATTTAGCCTGGACTGGTAA
Found at i:35407634 original size:47 final size:47
Alignment explanation
Indices: 35407569--35407914 Score: 311
Period size: 47 Copynumber: 7.4 Consensus size: 47
35407559 ATCCATAAGT
35407569 GAACTCGGACTCAACTCAACAAGCTCAGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACAAGCTCAGATGCCTAGTTACATCTCTC
* * * * * ***
35407616 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCATAAGT-
1 GAACTCGGACTCAACTCAACAAGCTC--AGATGC-CTAGTTACATCTCTC
35407662 GAACTCGGACTCAACTCAACAAGCTCAGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACAAGCTCAGATGCCTAGTTACATCTCTC
* * * * * ***
35407709 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCATAAGT-
1 GAACTCGGACTCAACTCAACAAGCTC--AGATGC-CTAGTTACATCTCTC
35407755 GAACTCGGACTCAACTCAACAAGCTCAGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACAAGCTCAGATGCCTAGTTACATCTCTC
* * * * * ***
35407802 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--TCCATAAGT-
1 GAACTCGGACTCAACTCAACAAGCTC--AGATGC-CTAGTTACATCTCTC
35407848 GAACTCGGACTCAACTCAACAAGCTCAGATGCCTAGTTACATCTCTC
1 GAACTCGGACTCAACTCAACAAGCTCAGATGCCTAGTTACATCTCTC
35407895 GAACTCGGACTCAACTCAAC
1 GAACTCGGACTCAACTCAAC
35407915 GAGTTCGGAC
Statistics
Matches: 230, Mismatches: 48, Indels: 42
0.72 0.15 0.13
Matches are distributed among these distances:
43 3 0.01
44 15 0.07
46 87 0.38
47 107 0.47
49 15 0.07
50 3 0.01
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACAAGCTCAGATGCCTAGTTACATCTCTC
Found at i:35407973 original size:93 final size:93
Alignment explanation
Indices: 35407527--35407960 Score: 841
Period size: 93 Copynumber: 4.7 Consensus size: 93
35407517 ATAAGTGAAT
* * *
35407527 TCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAACAAG
1 TCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACAAG
35407592 CTCAGATGCCTAGTTACATCTCTCGAAC
66 CTCAGATGCCTAGTTACATCTCTCGAAC
35407620 TCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACAAG
1 TCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACAAG
35407685 CTCAGATGCCTAGTTACATCTCTCGAAC
66 CTCAGATGCCTAGTTACATCTCTCGAAC
35407713 TCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACAAG
1 TCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACAAG
35407778 CTCAGATGCCTAGTTACATCTCTCGAAC
66 CTCAGATGCCTAGTTACATCTCTCGAAC
35407806 TCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACAAG
1 TCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACAAG
35407871 CTCAGATGCCTAGTTACATCTCTCGAAC
66 CTCAGATGCCTAGTTACATCTCTCGAAC
35407899 TCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 TCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
35407961 GAGTTCGGAT
Statistics
Matches: 338, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 338 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (93 bp):
TCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAACAAG
CTCAGATGCCTAGTTACATCTCTCGAAC
Found at i:35407988 original size:46 final size:45
Alignment explanation
Indices: 35407515--35407975 Score: 320
Period size: 46 Copynumber: 10.0 Consensus size: 45
35407505 TGTAACCCGC
* * ** * *
35407515 CCATAAGTGAATTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGAATGCCCAT
* * * *
35407561 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCAG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCCA--T
* *** * *
35407607 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCCCAT
* * * *
35407654 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCAG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCCA--T
* *** * *
35407700 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCCCAT
* * * *
35407747 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCAG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCCA--T
* *** * *
35407793 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCCCAT
* * * *
35407840 CCATAAGTGAACTCGGACTCAACTCAACAAGCTCAG-ATGCCTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCCA--T
* *** * *
35407886 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCCCAT
35407933 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGCCCA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCCA
35407976 AATATCCTAG
Statistics
Matches: 312, Mismatches: 83, Indels: 42
0.71 0.19 0.10
Matches are distributed among these distances:
44 20 0.06
45 1 0.00
46 155 0.50
47 120 0.38
49 16 0.05
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAATGCCCAT
Found at i:35411169 original size:39 final size:40
Alignment explanation
Indices: 35411124--35411295 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
35411114 GCTCCTCGTT
* * *
35411124 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
35411164 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
35411203 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
35411243 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
35411283 CAAATGCCTTCGG
1 CAAATGCCTTCGG
35411296 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:35411224 original size:40 final size:39
Alignment explanation
Indices: 35411126--35411348 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
35411116 TCCTCGTTCA
* * * *
35411126 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
35411165 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
35411204 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
35411244 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
35411284 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
35411325 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
35411349 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:35411308 original size:80 final size:79
Alignment explanation
Indices: 35411124--35411348 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
35411114 GCTCCTCGTT
* * * * *
35411124 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
35411188 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
35411203 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
35411268 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
35411283 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
35411347 GA
63 GA
35411349 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Done.