Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11
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: 47972186
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2603476 characters in sequence are not A, C, G, or T
File 75 of 145
Found at i:25474559 original size:20 final size:19
Alignment explanation
Indices: 25474508--25474560 Score: 52
Period size: 20 Copynumber: 2.7 Consensus size: 19
25474498 TTTTATTTTT
* *
25474508 TATTTATTTATCTTTAAAA
1 TATTTATATATTTTTAAAA
*
25474527 TTTATTATATATTTTTGAAAA
1 TAT-TTATATATTTTT-AAAA
*
25474548 TATTTATGTATTT
1 TATTTATATATTT
25474561 ATATATATTA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.07
20 19 0.70
21 6 0.22
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.60
Consensus pattern (19 bp):
TATTTATATATTTTTAAAA
Found at i:25474922 original size:6 final size:6
Alignment explanation
Indices: 25474911--25474946 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
25474901 ACTAGAATTG
* *
25474911 GTAAAA GTAAAA GTAAAA GTAGAA GTAAAA GCAAAA
1 GTAAAA GTAAAA GTAAAA GTAAAA GTAAAA GTAAAA
25474947 ATTCACTTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.64, C:0.03, G:0.19, T:0.14
Consensus pattern (6 bp):
GTAAAA
Found at i:25476056 original size:31 final size:30
Alignment explanation
Indices: 25476021--25476110 Score: 75
Period size: 31 Copynumber: 3.1 Consensus size: 30
25476011 TTATCATATA
25476021 AAAGTCTAATATTTATAAAAATATTCAAATG
1 AAAGTCTAATATTT-TAAAAATATTCAAATG
* ** **
25476052 AAAGTCTGACCTTTT-AAAATGGTCAAA-G
1 AAAGTCTAATATTTTAAAAATATTCAAATG
25476080 ---GTCTAATATTTTTAAAAATATTCAAAT-
1 AAAGTCTAATA-TTTTAAAAATATTCAAATG
25476107 AAAG
1 AAAG
25476111 AGCAAATCTT
Statistics
Matches: 43, Mismatches: 10, Indels: 13
0.65 0.15 0.20
Matches are distributed among these distances:
25 5 0.12
26 4 0.09
27 10 0.23
28 1 0.02
29 10 0.23
30 2 0.05
31 11 0.26
ACGTcount: A:0.47, C:0.09, G:0.10, T:0.34
Consensus pattern (30 bp):
AAAGTCTAATATTTTAAAAATATTCAAATG
Found at i:25478412 original size:177 final size:176
Alignment explanation
Indices: 25478146--25478577 Score: 454
Period size: 177 Copynumber: 2.4 Consensus size: 176
25478136 AATTAGAGAA
* * * *
25478146 ATTAAATCTCAAATTCGAGTGGAATATAGGGATCAACACTGAAATTTAATCATTCTTATATAATC
1 ATTAAATCTCAAATTCGAGTGAAATATAGGGATCAAAACTAAAATTTAACCATTCTTATATAATC
*** *
25478211 TTAAAAAAATATTTGGATTAGAACTGAAATTTAGCCATTATTTTCTCATGTCAAAAGAAAAGAAA
66 TTAAAAAAATAGAGGGATTAGAACTGAAATTTAACCATTATTTTCTCATGTCAAAAGAAAAG-AA
* * * *
25478276 AAAAGAATAATCAGGTGTCTAAATTATGTCAAAATAAAAGTATAGAG
130 AAAAGAACAAGCAGATGTCTAAATTATGTAAAAATAAAAGTATAGAG
* * *
25478323 ATTAAATTTCAAATTTGAGTGAAATATA-GGACTCAAAACTAAAATTTAACCGTTCTTATATAAT
1 ATTAAATCTCAAATTCGAGTGAAATATAGGGA-TCAAAACTAAAATTTAACCATTCTTATATAAT
* * ** * *
25478387 CTTGAGAAGGTAGAGGGGTTAGAACTGAAATTTAACCATTATTTTTTCATGTCAAAAGAAAAGAA
65 CTTAAAAAAATAGAGGGATTAGAACTGAAATTTAACCATTATTTTCTCATGTCAAAAGAAAAGAA
** ** * *
25478452 AAAAGAACGGGCAGATGTCTAAATTATGTAAAAATTGAAGTGTAGAA
130 AAAAGAACAAGCAGATGTCTAAATTATGTAAAAATAAAAGTATAGAG
* * * * ** ** ** * * * *
25478499 ACTGAATATAAAATTTAAGCAAAATATAATGATTAAAATTGAAATTTAATCATTCTTATATAAT-
1 ATTAAATCTCAAATTCGAGTGAAATATAGGGATCAAAACTAAAATTTAACCATTCTTATATAATC
25478563 TATAAAAAAATAGAG
66 T-TAAAAAAATAGAG
25478578 ACTTAATATT
Statistics
Matches: 208, Mismatches: 44, Indels: 7
0.80 0.17 0.03
Matches are distributed among these distances:
175 1 0.00
176 99 0.48
177 108 0.52
ACGTcount: A:0.46, C:0.09, G:0.14, T:0.31
Consensus pattern (176 bp):
ATTAAATCTCAAATTCGAGTGAAATATAGGGATCAAAACTAAAATTTAACCATTCTTATATAATC
TTAAAAAAATAGAGGGATTAGAACTGAAATTTAACCATTATTTTCTCATGTCAAAAGAAAAGAAA
AAAGAACAAGCAGATGTCTAAATTATGTAAAAATAAAAGTATAGAG
Found at i:25479644 original size:22 final size:22
Alignment explanation
Indices: 25479619--25479687 Score: 102
Period size: 22 Copynumber: 3.1 Consensus size: 22
25479609 ACAAATCCTA
*
25479619 TCTCAATTTCATTCAAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
**
25479641 TCTCAAAGTCCTTCAAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
*
25479663 TCTCAATTTCCTTCCAAAATTC
1 TCTCAATTTCCTTCAAAAATTC
25479685 TCT
1 TCT
25479688 TAAACTCTCG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 41 1.00
ACGTcount: A:0.32, C:0.28, G:0.01, T:0.39
Consensus pattern (22 bp):
TCTCAATTTCCTTCAAAAATTC
Found at i:25479722 original size:52 final size:51
Alignment explanation
Indices: 25479640--25479745 Score: 140
Period size: 52 Copynumber: 2.1 Consensus size: 51
25479630 TTCAAAAATT
* * * *
25479640 CTCTCAAAGTCCTTCAAAAATTCTCTCAATTTCCTTCCAAAATTCTCTTAAA
1 CTCTCAAAGTCCTTCAAAAATCCTCACAATTTCCTTCAAAAAATCTC-TAAA
* * *
25479692 CTCTCGAATTCCTTCCAAAATCCTCACAATTTCCTTCAAAAAATCTCTAAA
1 CTCTCAAAGTCCTTCAAAAATCCTCACAATTTCCTTCAAAAAATCTCTAAA
25479743 CTC
1 CTC
25479746 CATATTAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 7 0.15
52 40 0.85
ACGTcount: A:0.33, C:0.31, G:0.02, T:0.34
Consensus pattern (51 bp):
CTCTCAAAGTCCTTCAAAAATCCTCACAATTTCCTTCAAAAAATCTCTAAA
Found at i:25483527 original size:29 final size:29
Alignment explanation
Indices: 25483475--25483568 Score: 147
Period size: 28 Copynumber: 3.3 Consensus size: 29
25483465 ATATTATTTG
25483475 ATTTAATTAT-AAACCCTAACCCTAACCTA
1 ATTTAATTATAAAACCCTAA-CCTAACCTA
*
25483504 ATTCAATTATAAAACCCTAACCTAACCTA
1 ATTTAATTATAAAACCCTAACCTAACCTA
*
25483533 ATTTAATTA-AAAACCCTAACCTAACATA
1 ATTTAATTATAAAACCCTAACCTAACCTA
25483561 ATTTAATT
1 ATTTAATT
25483569 TAATTATAAA
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
28 26 0.43
29 26 0.43
30 9 0.15
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (29 bp):
ATTTAATTATAAAACCCTAACCTAACCTA
Found at i:25483585 original size:28 final size:28
Alignment explanation
Indices: 25483475--25483568 Score: 127
Period size: 29 Copynumber: 3.3 Consensus size: 28
25483465 ATATTATTTG
*
25483475 ATTTAATTATAAACCCTAACCCTAACCTA
1 ATTTAATTATAAAACCTAA-CCTAACCTA
*
25483504 ATTCAATTATAAAACCCTAACCTAACCTA
1 ATTTAATTATAAAA-CCTAACCTAACCTA
*
25483533 ATTTAATTA-AAAACCCTAACCTAACATA
1 ATTTAATTATAAAA-CCTAACCTAACCTA
25483561 ATTTAATT
1 ATTTAATT
25483569 TAATTATAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
28 26 0.43
29 29 0.48
30 5 0.08
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (28 bp):
ATTTAATTATAAAACCTAACCTAACCTA
Found at i:25483729 original size:51 final size:51
Alignment explanation
Indices: 25483646--25483916 Score: 517
Period size: 51 Copynumber: 5.3 Consensus size: 51
25483636 AACGTCAACT
25483646 CGAAATAATTTTTTTCGAG-ACTCCTAAACCCTAAAAAAGCCTGCACCCTAAA
1 CGAAATAATTTTTTTCG-GCAC-CCTAAACCCTAAAAAAGCCTGCACCCTAAA
25483698 CGAAATAATTTTTTTCGGCACCCTAAACCCTAAAAAAGCCTGCACCCTAAA
1 CGAAATAATTTTTTTCGGCACCCTAAACCCTAAAAAAGCCTGCACCCTAAA
25483749 CGAAATAATTTTTTTCGGCACCCTAAACCCTAAAAAAGCCTGCACCCTAAA
1 CGAAATAATTTTTTTCGGCACCCTAAACCCTAAAAAAGCCTGCACCCTAAA
25483800 CGAAATAATTTTTTTCGGCACCCTAAACCCTAAAAAAGCCTGCACCCTAAA
1 CGAAATAATTTTTTTCGGCACCCTAAACCCTAAAAAAGCCTGCACCCTAAA
25483851 CGAAATAATTTTTTTCGGCACCCTAAACCCTAAAAAAGCCTGCACCCTAAA
1 CGAAATAATTTTTTTCGGCACCCTAAACCCTAAAAAAGCCTGCACCCTAAA
25483902 CGAAATAATTTTTTT
1 CGAAATAATTTTTTT
25483917 GCCTATTTCG
Statistics
Matches: 218, Mismatches: 0, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
51 199 0.91
52 19 0.09
ACGTcount: A:0.37, C:0.28, G:0.10, T:0.25
Consensus pattern (51 bp):
CGAAATAATTTTTTTCGGCACCCTAAACCCTAAAAAAGCCTGCACCCTAAA
Found at i:25486267 original size:49 final size:49
Alignment explanation
Indices: 25486207--25486308 Score: 134
Period size: 49 Copynumber: 2.1 Consensus size: 49
25486197 CATACAAGCA
* * *
25486207 TGTGCGGTTACACGGGAAATTCAAGTAAGCCGTGTGAGGC-ACATGGGCG
1 TGTGCGATTACACGGAAAATTCAAGTAAGCCGTGTG-GGCAACACGGGCG
* * *
25486256 TGTGCGATTACATGGAAAATTCATGTAGGCCGTGTGGGCAACACGGGCG
1 TGTGCGATTACACGGAAAATTCAAGTAAGCCGTGTGGGCAACACGGGCG
25486305 TGTG
1 TGTG
25486309 ACCCATATTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
48 3 0.07
49 43 0.93
ACGTcount: A:0.24, C:0.18, G:0.36, T:0.23
Consensus pattern (49 bp):
TGTGCGATTACACGGAAAATTCAAGTAAGCCGTGTGGGCAACACGGGCG
Found at i:25490134 original size:52 final size:50
Alignment explanation
Indices: 25490019--25490136 Score: 148
Period size: 50 Copynumber: 2.3 Consensus size: 50
25490009 TAATAAAGTT
*
25490019 ATGCATTATGTAACTTCCATGCTAGTTAAGTATGCATCATAAATAATGAC
1 ATGCATTATGTAACTCCCATGCTAGTTAAGTATGCATCATAAATAATGAC
* * *
25490069 ATGCATTATGTAACTCCCATGTTAGTTTAAGTCTGCATCATTAAATTAA-GTC
1 ATGCATTATGTAACTCCCATGCTAG-TTAAGTATGCATCA-TAAA-TAATGAC
* *
25490121 TTGCATTAAGTAACTC
1 ATGCATTATGTAACTC
25490137 ATTTGTTCAT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
50 23 0.39
51 13 0.22
52 20 0.34
53 3 0.05
ACGTcount: A:0.33, C:0.17, G:0.14, T:0.36
Consensus pattern (50 bp):
ATGCATTATGTAACTCCCATGCTAGTTAAGTATGCATCATAAATAATGAC
Found at i:25490481 original size:14 final size:14
Alignment explanation
Indices: 25490458--25490490 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
25490448 TCATTTTAAT
25490458 GTGT-TTATTGCAG
1 GTGTCTTATTGCAG
25490471 GTGTCTTATTGCAG
1 GTGTCTTATTGCAG
25490485 GTGTCT
1 GTGTCT
25490491 CTTCAGCTTA
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:0.12, C:0.12, G:0.30, T:0.45
Consensus pattern (14 bp):
GTGTCTTATTGCAG
Found at i:25493244 original size:22 final size:22
Alignment explanation
Indices: 25493180--25493272 Score: 87
Period size: 22 Copynumber: 4.1 Consensus size: 22
25493170 TATGCACTAT
*
25493180 TAAACAGAGAGCACTAAAGTGC
1 TAAACAGAGAGCACTAATGTGC
* * *
25493202 TATACAGGGAGCACAAATGTGC
1 TAAACAGAGAGCACTAATGTGC
* *
25493224 TAAACCGAGAGCACTAGTGTGC
1 TAAACAGAGAGCACTAATGTGC
* * *
25493246 AAAAATCGGAGAGCACTAACGTGC
1 -TAAA-CAGAGAGCACTAATGTGC
25493270 TAA
1 TAA
25493273 TAACCAGAGA
Statistics
Matches: 55, Mismatches: 14, Indels: 3
0.76 0.19 0.04
Matches are distributed among these distances:
22 35 0.64
23 5 0.09
24 15 0.27
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.16
Consensus pattern (22 bp):
TAAACAGAGAGCACTAATGTGC
Found at i:25496094 original size:18 final size:18
Alignment explanation
Indices: 25496071--25496107 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
25496061 TGTATGTTTC
*
25496071 TAAAAATGGAAATGGAAA
1 TAAAAATGAAAATGGAAA
25496089 TAAAAATGAAAATGGAAA
1 TAAAAATGAAAATGGAAA
25496107 T
1 T
25496108 GATTCATTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.62, C:0.00, G:0.19, T:0.19
Consensus pattern (18 bp):
TAAAAATGAAAATGGAAA
Found at i:25496299 original size:26 final size:26
Alignment explanation
Indices: 25496256--25496314 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
25496246 TATTTTCTCG
*
25496256 AAATTTTACCATGGGTAAAATCGTTA
1 AAATTTTACCATGGGTAAAATCGTCA
* *
25496282 AAATTTTATCA-GGAGTAAAATTGTCA
1 AAATTTTACCATGG-GTAAAATCGTCA
25496308 AAATTTT
1 AAATTTT
25496315 GTTGGGGGTA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 2 0.07
26 27 0.93
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (26 bp):
AAATTTTACCATGGGTAAAATCGTCA
Found at i:25496325 original size:26 final size:26
Alignment explanation
Indices: 25496256--25496328 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
25496246 TATTTTCTCG
* * *
25496256 AAATTTTACCATGGGTAAAATCGTTA
1 AAATTTTATCAGGGGTAAAATCGTCA
* *
25496282 AAATTTTATCAGGAGTAAAATTGTCA
1 AAATTTTATCAGGGGTAAAATCGTCA
* **
25496308 AAATTTTGTTGGGGGTAAAAT
1 AAATTTTATCAGGGGTAAAAT
25496329 AGGGAGGAGA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.38, C:0.07, G:0.19, T:0.36
Consensus pattern (26 bp):
AAATTTTATCAGGGGTAAAATCGTCA
Found at i:25497186 original size:15 final size:17
Alignment explanation
Indices: 25497151--25497183 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
25497141 ATAACAAACC
25497151 ATAAAAATTCATTAAAA
1 ATAAAAATTCATTAAAA
25497168 ATAAAAATT-ATTAAAA
1 ATAAAAATTCATTAAAA
25497184 TAACAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAAAAATTCATTAAAA
Found at i:25497571 original size:38 final size:37
Alignment explanation
Indices: 25497529--25497605 Score: 86
Period size: 37 Copynumber: 2.1 Consensus size: 37
25497519 GTTATTGAAT
25497529 ATTTTCGTAGATTTAT-TT-AATTTTTATGATTTTTAATA
1 ATTTTC-TAG-TTTATCTTCAATTTTTAT-ATTTTTAATA
* * *
25497567 ATTTTCTAGTTTTTCTTCATTTTTTATATTTTTTATA
1 ATTTTCTAGTTTATCTTCAATTTTTATATTTTTAATA
25497604 AT
1 AT
25497606 ATTCCTATAG
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
36 4 0.12
37 16 0.47
38 14 0.41
ACGTcount: A:0.25, C:0.05, G:0.05, T:0.65
Consensus pattern (37 bp):
ATTTTCTAGTTTATCTTCAATTTTTATATTTTTAATA
Found at i:25497580 original size:19 final size:19
Alignment explanation
Indices: 25497502--25497580 Score: 58
Period size: 19 Copynumber: 4.2 Consensus size: 19
25497492 AATTTTAATG
*
25497502 TTTTTAATATTTTTCTAGT
1 TTTTTAATAATTTTCTAGT
* *
25497521 TATTGAAT-ATTTTCGTAGAT
1 TTTTTAATAATTTTC-TAG-T
* *
25497541 TTATT--TAATTTT-TATGA
1 TTTTTAATAATTTTCTA-GT
25497558 TTTTTAATAATTTTCTAGT
1 TTTTTAATAATTTTCTAGT
25497577 TTTT
1 TTTT
25497581 CTTCATTTTT
Statistics
Matches: 44, Mismatches: 9, Indels: 14
0.66 0.13 0.21
Matches are distributed among these distances:
17 6 0.14
18 7 0.16
19 26 0.59
20 5 0.11
ACGTcount: A:0.25, C:0.04, G:0.08, T:0.63
Consensus pattern (19 bp):
TTTTTAATAATTTTCTAGT
Found at i:25498567 original size:11 final size:11
Alignment explanation
Indices: 25498545--25498584 Score: 64
Period size: 11 Copynumber: 3.6 Consensus size: 11
25498535 AACTAATCCT
25498545 CTCTCAAATTTC
1 CTCTC-AATTTC
25498557 CTCTCAATTTC
1 CTCTCAATTTC
25498568 CTCTCAATTTC
1 CTCTCAATTTC
25498579 CT-TCAA
1 CTCTCAA
25498585 AAATTCTCTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
10 4 0.14
11 19 0.68
12 5 0.18
ACGTcount: A:0.23, C:0.35, G:0.00, T:0.42
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:25498606 original size:11 final size:11
Alignment explanation
Indices: 25498590--25498629 Score: 62
Period size: 11 Copynumber: 3.6 Consensus size: 11
25498580 TTCAAAAATT
25498590 CTCTTAAGTTA
1 CTCTTAAGTTA
*
25498601 CTCTTAAGTTC
1 CTCTTAAGTTA
*
25498612 CTCTTAAGTTT
1 CTCTTAAGTTA
25498623 CTCTTAA
1 CTCTTAA
25498630 CTCCCTTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.47
Consensus pattern (11 bp):
CTCTTAAGTTA
Found at i:25498674 original size:12 final size:12
Alignment explanation
Indices: 25498642--25498678 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
25498632 CCCTTTTTTT
*
25498642 AAATAATTTTAA
1 AAATATTTTTAA
25498654 AAATATTTTTAA
1 AAATATTTTTAA
*
25498666 AAATTTTTTTAA
1 AAATATTTTTAA
25498678 A
1 A
25498679 TCGTAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
AAATATTTTTAA
Found at i:25500223 original size:28 final size:25
Alignment explanation
Indices: 25500194--25500245 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
25500184 TATTTTGATA
25500194 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAAT
25500219 TTATTTGATGTAATAAAATAGAAAT
1 TTATTTGATGTAATAAAATAGAAAT
25500244 TT
1 TT
25500246 TTTATATTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (25 bp):
TTATTTGATGTAATAAAATAGAAAT
Found at i:25500348 original size:45 final size:45
Alignment explanation
Indices: 25500280--25500723 Score: 358
Period size: 45 Copynumber: 10.0 Consensus size: 45
25500270 AACCATTAAT
* *
25500280 ACCCTTAAA-TTAAAAACCATAACCTAATTTAATTAAAAATCTTAA
1 ACCC-TAAACTTAAAAACCCTAACCTAATTTAATTAAAAATCCTAA
* *
25500325 ACCCTAAACTTAAAAATCCTAACCTAA-TTAACTTAAAAACCCT-A
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAA-TTAAAAATCCTAA
*
25500369 A-CCTAATTAAATTAAAAACCCTAACCTAATTTAATT-AAAATCCTAA
1 ACCCT-A--AACTTAAAAACCCTAACCTAATTTAATTAAAAATCCTAA
*
25500415 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAATCTTAA
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAATCCTAA
*** *
25500460 ACCCTAAACTTAAAAACCCTAACC-CCCTTAACTTAAAAACCCT-A
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAA-TTAAAAATCCTAA
* * **
25500504 A-CCTATTTAACTTAAAAACTCTAACCTAATTAAATCT-CTAA-CCT-A
1 ACCCTA---AACTTAAAAACCCTAACCTAATTTAAT-TAAAAATCCTAA
* *
25500549 A--TTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAATCTTAA
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAATCCTAA
*** *
25500591 ACCCTAAACTTAAAAACCCTAACC-CCCTTAACTTAAAAACCCT-A
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAA-TTAAAAATCCTAA
* * **
25500635 A-CCTATTTAACTTAAAAACTCTAACCTAATTAAATCT-CTAA-CCT-A
1 ACCCTA---AACTTAAAAACCCTAACCTAATTTAAT-TAAAAATCCTAA
* *
25500680 A--TTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAACCCTAA
1 ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAATCCTAA
25500722 AC
1 AC
25500724 TAAATTAATA
Statistics
Matches: 323, Mismatches: 45, Indels: 64
0.75 0.10 0.15
Matches are distributed among these distances:
39 2 0.01
40 48 0.15
41 9 0.03
42 4 0.01
43 11 0.03
44 58 0.18
45 112 0.35
46 64 0.20
47 15 0.05
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.28
Consensus pattern (45 bp):
ACCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAATCCTAA
Found at i:25500371 original size:68 final size:65
Alignment explanation
Indices: 25500284--25500715 Score: 449
Period size: 68 Copynumber: 6.5 Consensus size: 65
25500274 ATTAATACCC
* *
25500284 TTAAATTAAAAACCATAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAATCCTAACC
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAATCTT-AA-CCT-AACTTAAAAATCCTAACC
25500349 TAA
63 TAA
* * * *
25500352 TTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAATTAAAATCCTAAAC
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAATCTTAACCTAACTT-A--AAAATCCT-AA-
25500417 CCT-A
61 CCTAA
*
25500421 --AACTTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAATCTT-AA-CCT-AACTTAAAAATCCTAACC
***
25500484 CCC
63 TAA
25500487 TTAACTTAAAAACCCTAACCT-ATTTAACTTAAAAA-CTCTAACCTAA-TT--AAATCTCTAACC
1 TTAACTTAAAAACCCTAACCTAATTTAA-TTAAAAATCT-TAACCTAACTTAAAAATC-CTAACC
25500547 TAA
63 TAA
* *
25500550 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAATCTT-AA-CCT-AACTTAAAAATCCTAACC
***
25500615 CCC
63 TAA
25500618 TTAACTTAAAAACCCTAACCT-ATTTAACTTAAAAA-CTCTAACCTAA-TT--AAATCTCTAACC
1 TTAACTTAAAAACCCTAACCTAATTTAA-TTAAAAATCT-TAACCTAACTTAAAAATC-CTAACC
25500678 TAA
63 TAA
*
25500681 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAA
1 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAA
25500716 CCCTAAACTA
Statistics
Matches: 310, Mismatches: 28, Indels: 57
0.78 0.07 0.14
Matches are distributed among these distances:
62 8 0.03
63 67 0.22
64 20 0.06
65 13 0.04
66 14 0.05
67 65 0.21
68 105 0.34
69 11 0.04
70 7 0.02
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (65 bp):
TTAACTTAAAAACCCTAACCTAATTTAATTAAAAATCTTAACCTAACTTAAAAATCCTAACCTAA
Found at i:25500374 original size:28 final size:23
Alignment explanation
Indices: 25500284--25500731 Score: 316
Period size: 23 Copynumber: 20.2 Consensus size: 23
25500274 ATTAATACCC
*
25500284 TTAAATTAAAAACCATAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* * *
25500307 TTTAATTAAAAATCTTAAACCCT-A
1 TTAAATTAAAAACCCT-AA-CCTAA
* *
25500331 --AACTTAAAAATCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
25500352 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
25500375 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
25500398 TTTAATT-AAAATCCTAAACCCT-A
1 TTAAATTAAAAACCCT-AA-CCTAA
*
25500421 --AACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* * *
25500442 TTTAATTAAAAATCTTAAACCCT-A
1 TTAAATTAAAAACCCT-AA-CCTAA
* ***
25500466 --AACTTAAAAACCCTAACCCCC
1 TTAAATTAAAAACCCTAACCTAA
* *
25500487 TTAACTTAAAAACCCTAACCTAT
1 TTAAATTAAAAACCCTAACCTAA
* *
25500510 TTAACTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
25500533 TTAAA-T-----CTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
25500550 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* * *
25500573 TTTAATTAAAAATCTTAAACCCT-A
1 TTAAATTAAAAACCCT-AA-CCTAA
* ***
25500597 --AACTTAAAAACCCTAACCCCC
1 TTAAATTAAAAACCCTAACCTAA
* *
25500618 TTAACTTAAAAACCCTAACCTAT
1 TTAAATTAAAAACCCTAACCTAA
* *
25500641 TTAACTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
25500664 TTAAA-T-----CTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
25500681 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
25500704 TTTAATTAAAAACCCTAAACTAAA
1 TTAAATTAAAAACCCTAACCT-AA
25500728 TTAA
1 TTAA
25500732 TAATTTTACT
Statistics
Matches: 342, Mismatches: 49, Indels: 67
0.75 0.11 0.15
Matches are distributed among these distances:
17 32 0.09
18 2 0.01
20 10 0.03
21 13 0.04
22 47 0.14
23 212 0.62
24 17 0.05
25 9 0.03
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (23 bp):
TTAAATTAAAAACCCTAACCTAA
Found at i:25500474 original size:112 final size:108
Alignment explanation
Indices: 25500354--25500561 Score: 276
Period size: 112 Copynumber: 1.9 Consensus size: 108
25500344 TAACCTAATT
* *
25500354 AACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAA-TTAAAATC-CTAAAC
1 AACTTAAAAACCCTAACCCAATTAAATTAAAAACCCTAACCT-ATTTAACTTAAAAACTCT-AA-
*
25500417 CCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTA
63 CCT-AA-TT-AAAACCCTAACCTAATTAAATTAAAAATCTTAAACCCTA
** *
25500466 AACTTAAAAACCCTAACCCCCTTAACTTAAAAACCCTAACCTATTTAACTTAAAAACTCTAACCT
1 AACTTAAAAACCCTAACCCAATTAAATTAAAAACCCTAACCTATTTAACTTAAAAACTCTAACCT
* *
25500531 AATTAAATCTCTAACCTAATTAAATTAAAAA
66 AATTAAAACCCTAACCTAATTAAATTAAAAA
25500562 CCCTAACCTA
Statistics
Matches: 86, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
108 24 0.28
109 2 0.02
110 2 0.02
111 9 0.10
112 47 0.55
113 2 0.02
ACGTcount: A:0.48, C:0.24, G:0.00, T:0.28
Consensus pattern (108 bp):
AACTTAAAAACCCTAACCCAATTAAATTAAAAACCCTAACCTATTTAACTTAAAAACTCTAACCT
AATTAAAACCCTAACCTAATTAAATTAAAAATCTTAAACCCTA
Found at i:25500544 original size:17 final size:17
Alignment explanation
Indices: 25500522--25500555 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
25500512 AACTTAAAAA
25500522 CTCTAACCTAATTAAAT
1 CTCTAACCTAATTAAAT
25500539 CTCTAACCTAATTAAAT
1 CTCTAACCTAATTAAAT
25500556 TAAAAACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (17 bp):
CTCTAACCTAATTAAAT
Found at i:25500675 original size:17 final size:17
Alignment explanation
Indices: 25500653--25500686 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
25500643 AACTTAAAAA
25500653 CTCTAACCTAATTAAAT
1 CTCTAACCTAATTAAAT
25500670 CTCTAACCTAATTAAAT
1 CTCTAACCTAATTAAAT
25500687 TAAAAACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.00, T:0.35
Consensus pattern (17 bp):
CTCTAACCTAATTAAAT
Found at i:25500679 original size:40 final size:41
Alignment explanation
Indices: 25500357--25500705 Score: 186
Period size: 40 Copynumber: 8.0 Consensus size: 41
25500347 CCTAATTAAC
* * *
25500357 TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAA
1 TTAAAATCTCTAACCTAATTAACTTAAAAACCCTAACC-----TAA
25500403 TTAAAATC-CTAAACCCT-A--AACTTAAAAACCCTAACCTAATTTAA
1 TTAAAATCTCT-AA-CCTAATTAACTTAAAAACCCTAACC-----TAA
25500447 TTAAAAATCT-TAAACCCT-A--AACTTAAAAACCCTAACCCCCTTAA
1 TT-AAAATCTCT-AA-CCTAATTAACTTAAAAACCCTAA---CC-TAA
* * * *
25500491 CTTAAAAACCCTAACCTATTTAACTTAAAAACTCTAACCTAA
1 -TTAAAATCTCTAACCTAATTAACTTAAAAACCCTAACCTAA
*
25500533 TT-AAATCTCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAA
1 TTAAAATCTCTAACCTAATTAACTTAAAAACCCTAACC-----TAA
25500578 TTAAAAATCT-TAAACCCT-A--AACTTAAAAACCCTAACCCCCTTAA
1 TT-AAAATCTCT-AA-CCTAATTAACTTAAAAACCCTAA---CC-TAA
* * * *
25500622 CTTAAAAACCCTAACCTATTTAACTTAAAAACTCTAACCTAA
1 -TTAAAATCTCTAACCTAATTAACTTAAAAACCCTAACCTAA
*
25500664 TT-AAATCTCTAACCTAATTAAATTAAAAACCCTAACCTAA
1 TTAAAATCTCTAACCTAATTAACTTAAAAACCCTAACCTAA
25500704 TT
1 TT
25500706 TAATTAAAAA
Statistics
Matches: 253, Mismatches: 21, Indels: 64
0.75 0.06 0.19
Matches are distributed among these distances:
40 65 0.26
41 4 0.02
42 6 0.02
43 10 0.04
44 49 0.19
45 59 0.23
46 41 0.16
47 12 0.05
48 7 0.03
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (41 bp):
TTAAAATCTCTAACCTAATTAACTTAAAAACCCTAACCTAA
Found at i:25500723 original size:131 final size:131
Alignment explanation
Indices: 25500284--25500715 Score: 704
Period size: 131 Copynumber: 3.3 Consensus size: 131
25500274 ATTAATACCC
* *
25500284 TTAAATTAAAAACCATAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAATCCTAACC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
*** * * * * **
25500349 TAATTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAATTTAAT-TAAAATCCT
66 CCCTTAACTTAAAAACCCTAACCTATTTAACTTAAAAACTCTAACCTAATTAAATCTCTAA-CCT
25500413 AAA
130 -AA
*
25500416 CCCTAAACTTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTA
1 --TTAAA-TTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTA
25500481 ACCCCCTTAACTTAAAAACCCTAACCTATTTAACTTAAAAACTCTAACCTAATTAAATCTCTAAC
63 ACCCCCTTAACTTAAAAACCCTAACCTATTTAACTTAAAAACTCTAACCTAATTAAATCTCTAAC
25500546 CTAA
128 CTAA
25500550 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
25500615 CCCTTAACTTAAAAACCCTAACCTATTTAACTTAAAAACTCTAACCTAATTAAATCTCTAACCTA
66 CCCTTAACTTAAAAACCCTAACCTATTTAACTTAAAAACTCTAACCTAATTAAATCTCTAACCTA
25500680 A
131 A
25500681 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAA
1 TTAAATTAAAAACCCTAACCTAATTTAATTAAAAA
25500716 CCCTAAACTA
Statistics
Matches: 283, Mismatches: 13, Indels: 7
0.93 0.04 0.02
Matches are distributed among these distances:
131 161 0.57
132 4 0.01
134 6 0.02
135 109 0.39
136 3 0.01
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.29
Consensus pattern (131 bp):
TTAAATTAAAAACCCTAACCTAATTTAATTAAAAATCTTAAACCCTAAACTTAAAAACCCTAACC
CCCTTAACTTAAAAACCCTAACCTATTTAACTTAAAAACTCTAACCTAATTAAATCTCTAACCTA
A
Found at i:25502871 original size:55 final size:55
Alignment explanation
Indices: 25502795--25502906 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
25502785 TCAAAAATAG
25502795 GAAATGCCTCCTTATCTCGAAGTAACAAGATGTCACACCCAGTAAGTTAGGACCC
1 GAAATGCCTCCTTATCTCGAAGTAACAAGATGTCACACCCAGTAAGTTAGGACCC
* *
25502850 GAAATGTCTTCTTATCTCGAAGTAACAAGATGTCACACCCAGTAAGTTAGGACCC
1 GAAATGCCTCCTTATCTCGAAGTAACAAGATGTCACACCCAGTAAGTTAGGACCC
25502905 GA
1 GA
25502907 CATCTCATAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.33, C:0.25, G:0.19, T:0.23
Consensus pattern (55 bp):
GAAATGCCTCCTTATCTCGAAGTAACAAGATGTCACACCCAGTAAGTTAGGACCC
Found at i:25505271 original size:40 final size:40
Alignment explanation
Indices: 25505225--25505540 Score: 356
Period size: 40 Copynumber: 7.8 Consensus size: 40
25505215 CTATCTATAG
*
25505225 TCTGCTCCGCTACTGCTTAGGGAGATAAGACTTGAGGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGA
* * *
25505265 TCTGCTCCATTACTGCTTAGAGAGATAAGATCTGTG-GTTCTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-GA
*
25505307 TCTACTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGA
*
25505347 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-GA
* * *
25505389 TCTGTTCCACTACTACTTAGGAAGATAAGACTTGAGGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGA
*
25505429 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTG-GTTCTG-
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA-CT-TGAG-GC-GA
* *
25505471 TCTGCTCCAATACTGCTTAGGGAGATAAAACTTGAGGCGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGA
* *
25505511 TCTGCTCCACTACTACTTAGGAAGATAAGA
1 TCTGCTCCACTACTGCTTAGGGAGATAAGA
25505541 TCTATTTTTT
Statistics
Matches: 233, Mismatches: 25, Indels: 36
0.79 0.09 0.12
Matches are distributed among these distances:
39 3 0.01
40 118 0.51
41 18 0.08
42 91 0.39
43 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (40 bp):
TCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGA
Found at i:25505372 original size:82 final size:82
Alignment explanation
Indices: 25505224--25505543 Score: 541
Period size: 82 Copynumber: 3.9 Consensus size: 82
25505214 GCTATCTATA
* * *
25505224 GTCTGCTCCGCTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCATTACTGCTTAGAGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAG
25505289 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
*
25505306 GTCTACTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAG
25505371 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
* * *
25505388 GTCTGTTCCACTACTACTTAGGAAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAG
25505453 ATAAGATCTGTGGTTCT
66 ATAAGATCTGTGGTTCT
* * * *
25505470 GTCTGCTCCAATACTGCTTAGGGAGATAAAACTTGAGGCGATCTGCTCCACTACTACTTAGGAAG
1 GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAG
25505535 ATAAGATCT
66 ATAAGATCT
25505544 ATTTTTTTCG
Statistics
Matches: 223, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 223 1.00
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (82 bp):
GTCTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGATCTGCTCCACTACTGCTTAGGGAG
ATAAGATCTGTGGTTCT
Found at i:25506321 original size:108 final size:108
Alignment explanation
Indices: 25506119--25506321 Score: 268
Period size: 108 Copynumber: 1.9 Consensus size: 108
25506109 GAAAAATGCT
* * *
25506119 TGAAATAGATTATCAAAATAGACAAGATGAAATTTTATCGAGAGTAAAGCTCGAAATAAACAAAT
1 TGAAAAAGATTATCAAAATAGACAAGATGAAATTTTATCGAGAGCAAACCTCGAAATAAACAAAT
*
25506184 CAATCAAGATAGCAAATTTTGTTGAGATACGAGATGAATAAGA
66 CAATCAAGATAGCAAATTTTGTAGAGATACGAGATGAATAAGA
* * * * *
25506227 TGAAAAAGATTATCACAATGGATAAGATGGAAATTTGT-T-GAGAGCGAACCTCTAAATAAACAA
1 TGAAAAAGATTATCAAAATAGACAAGAT-GAAATTT-TATCGAGAGCAAACCTCGAAATAAACAA
*
25506290 ATTAATCAAGATAGCAAATTTTGCTAG-GATAC
64 ATCAATCAAGATAGCAAATTTTG-TAGAGATAC
25506322 AAAATGAGAA
Statistics
Matches: 82, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
108 71 0.87
109 10 0.12
110 1 0.01
ACGTcount: A:0.46, C:0.10, G:0.18, T:0.26
Consensus pattern (108 bp):
TGAAAAAGATTATCAAAATAGACAAGATGAAATTTTATCGAGAGCAAACCTCGAAATAAACAAAT
CAATCAAGATAGCAAATTTTGTAGAGATACGAGATGAATAAGA
Found at i:25517841 original size:19 final size:18
Alignment explanation
Indices: 25517819--25517865 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 18
25517809 ATAGGTGACG
*
25517819 TAAATAAAAATAATAATAA
1 TAAATAAAAACAA-AATAA
*
25517838 TAAATAAATAACAAAATCA
1 TAAATAAA-AACAAAATAA
25517857 TAAATAAAA
1 TAAATAAAA
25517866 CTGCTTGGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 1 0.04
19 20 0.80
20 4 0.16
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAATAAAAACAAAATAA
Found at i:25520499 original size:123 final size:123
Alignment explanation
Indices: 25520280--25520504 Score: 423
Period size: 123 Copynumber: 1.8 Consensus size: 123
25520270 CCCAAACTTG
*
25520280 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTGTTCTGAAATAGCATCCTGC
1 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTGTTCTGAAATAGCATCCTGC
*
25520345 TAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAAAAACAATATTTCTTCCATGAC
66 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAAAAACAATATTTCTTCCATGAC
25520403 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTGTTCTGAAATAGCATCCTGC
1 CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTGTTCTGAAATAGCATCCTGC
*
25520468 TAGAAGCGATTTTATACTATTTGATTAGAAACGTCAA
66 TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAA
25520505 CTCGAAATTA
Statistics
Matches: 99, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
123 99 1.00
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (123 bp):
CTACTATAGCAAAAGCGCGTCCACGAGGGCGCGATTTTACAAATTGTTCTGAAATAGCATCCTGC
TAGAAGCGATTTTATACTATTTGATCAGAAACGTCAAAAACAATATTTCTTCCATGAC
Found at i:25522498 original size:17 final size:18
Alignment explanation
Indices: 25522476--25522509 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
25522466 TTAAAAATTT
25522476 TAATTTTCAT-TATTTTC
1 TAATTTTCATATATTTTC
25522493 TAATTTTCATATATTTT
1 TAATTTTCATATATTTT
25522510 TTGTTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (18 bp):
TAATTTTCATATATTTTC
Found at i:25543403 original size:4 final size:4
Alignment explanation
Indices: 25543394--25543424 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
25543384 TTTTACTTGA
25543394 TATT TATT TATT TATT TATT TATT TATT TAT
1 TATT TATT TATT TATT TATT TATT TATT TAT
25543425 GTGTCCATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (4 bp):
TATT
Found at i:25546904 original size:3 final size:3
Alignment explanation
Indices: 25546896--25546960 Score: 51
Period size: 3 Copynumber: 21.7 Consensus size: 3
25546886 ATAATCAAAT
* * * *
25546896 ATA ATA ATA ATA ATA ACA ATA ATAA ATA TTG ATA A-A AAA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA
** *
25546941 GCA ATA ATA ATA AAA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
25546961 TAAGTGATTA
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (3 bp):
ATA
Found at i:25552288 original size:21 final size:22
Alignment explanation
Indices: 25552262--25552305 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
25552252 TATTGTTTTT
*
25552262 TGTTG-TTTGTTGTAATTTTGA
1 TGTTGTTTTGCTGTAATTTTGA
*
25552283 TGTTGTTTTGCTGTCATTTTGA
1 TGTTGTTTTGCTGTAATTTTGA
25552305 T
1 T
25552306 ATTATATTGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.11, C:0.05, G:0.23, T:0.61
Consensus pattern (22 bp):
TGTTGTTTTGCTGTAATTTTGA
Found at i:25553320 original size:22 final size:22
Alignment explanation
Indices: 25553292--25553344 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
25553282 AATTCAACTT
*
25553292 TTTTTTATAAATTATATACTAC
1 TTTTTTATAAATGATATACTAC
* * *
25553314 TTTTTTATCAATGCTTTACTAC
1 TTTTTTATAAATGATATACTAC
25553336 TATTTTTAT
1 T-TTTTTAT
25553345 TCATTGTGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
22 19 0.73
23 7 0.27
ACGTcount: A:0.28, C:0.11, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTTTATAAATGATATACTAC
Found at i:25554419 original size:15 final size:16
Alignment explanation
Indices: 25554401--25554437 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
25554391 CAATATATAA
25554401 ATATAA-AATGATGTT
1 ATATAACAATGATGTT
25554416 ATATGAACAATGATGTT
1 ATAT-AACAATGATGTT
25554433 A-ATAA
1 ATATAA
25554438 TGTATAAGGA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
15 6 0.30
16 4 0.20
17 10 0.50
ACGTcount: A:0.49, C:0.03, G:0.14, T:0.35
Consensus pattern (16 bp):
ATATAACAATGATGTT
Found at i:25559849 original size:31 final size:31
Alignment explanation
Indices: 25559812--25559872 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
25559802 ATTTGGTTAT
*
25559812 TAAATTATTCAAAAGTTTTTATTTAAGTCAC
1 TAAATTATTCAAAAGCTTTTATTTAAGTCAC
* *
25559843 TAAATTATTCATAAGCTTTTATTTATGTCA
1 TAAATTATTCAAAAGCTTTTATTTAAGTCA
25559873 TTGGGTTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.10, G:0.07, T:0.48
Consensus pattern (31 bp):
TAAATTATTCAAAAGCTTTTATTTAAGTCAC
Found at i:25560952 original size:6 final size:6
Alignment explanation
Indices: 25560941--25560985 Score: 72
Period size: 6 Copynumber: 7.5 Consensus size: 6
25560931 AACATAATTC
* *
25560941 AAAATG AAAATG AAAATG AAAATC AAAATG AAAATC AAAATG AAA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAA
25560986 GGTGCTTAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.69, C:0.04, G:0.11, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:25560958 original size:12 final size:12
Alignment explanation
Indices: 25560939--25560985 Score: 85
Period size: 12 Copynumber: 3.9 Consensus size: 12
25560929 ACAACATAAT
25560939 TCAAAATGAAAA
1 TCAAAATGAAAA
*
25560951 TGAAAATGAAAA
1 TCAAAATGAAAA
25560963 TCAAAATGAAAA
1 TCAAAATGAAAA
25560975 TCAAAATGAAA
1 TCAAAATGAAA
25560986 GGTGCTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 33 1.00
ACGTcount: A:0.66, C:0.06, G:0.11, T:0.17
Consensus pattern (12 bp):
TCAAAATGAAAA
Found at i:25561256 original size:73 final size:73
Alignment explanation
Indices: 25561159--25561339 Score: 211
Period size: 73 Copynumber: 2.5 Consensus size: 73
25561149 AAAGTAAAAG
* * * *
25561159 AATAAATAAGTGAA-TAAATAGATAAAACAAATGTAAACAATATTAAATTTAAGCATTTGAAAAA
1 AATAAATAAAT-AAGTAAATAGATAAAATAAATATAAACAATATTAAATTTAAACATTTGAAAAA
25561223 TAAAAGAAT
65 TAAAAGAAT
** ** * * * *
25561232 AATAAATAAATAAGTAAATAGATAACGTAAATATTCATAATATTAAATTTAAATATTTTAAAAGT
1 AATAAATAAATAAGTAAATAGATAAAATAAATATAAACAATATTAAATTTAAACATTTGAAAAAT
25561297 AAAAGAAT
66 AAAAGAAT
* * *
25561305 GATAAATAAATGAGTAAATAAATAAAATAAATATA
1 AATAAATAAATAAGTAAATAGATAAAATAAATATA
25561340 TAGTATTAAA
Statistics
Matches: 89, Mismatches: 18, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
72 2 0.02
73 87 0.98
ACGTcount: A:0.60, C:0.03, G:0.08, T:0.29
Consensus pattern (73 bp):
AATAAATAAATAAGTAAATAGATAAAATAAATATAAACAATATTAAATTTAAACATTTGAAAAAT
AAAAGAAT
Found at i:25568988 original size:19 final size:20
Alignment explanation
Indices: 25568959--25569010 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
25568949 TCTTTTGGTA
* *
25568959 AAATTTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
25568978 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
25568998 AAATG-AATGCAAA
1 AAATGTAATGCAAA
25569011 AAGAGGATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:25569397 original size:73 final size:73
Alignment explanation
Indices: 25569293--25569484 Score: 230
Period size: 73 Copynumber: 2.7 Consensus size: 73
25569283 AAATTTCTTT
* * *
25569293 AAAAGTAAAAG---AATAAATAAGTGAA-TAAATAGATAAAACAAATGTAAACAATATTAAATTT
1 AAAAGTAAAAGAATAATAAATAAAT-AAGTAAATAGATAAAATAAATATAAACAATATTAAATTT
*
25569354 AAGCATTTG
65 AAACATTTG
* ** *
25569363 AAAAGTAAAAGAATAATAAATAAATAAGTAAATAGATAAAGTAAATATTCATAATATTAAATTTA
1 AAAAGTAAAAGAATAATAAATAAATAAGTAAATAGATAAAATAAATATAAACAATATTAAATTTA
* *
25569428 AATATTTT
66 AACATTTG
* * *
25569436 AAAAGTAAAAGAATGATAAATAAATGAGTAAATAAATAAAATAAATATA
1 AAAAGTAAAAGAATAATAAATAAATAAGTAAATAGATAAAATAAATATA
25569485 TAGCATTAAA
Statistics
Matches: 103, Mismatches: 15, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
70 11 0.11
72 2 0.02
73 90 0.87
ACGTcount: A:0.61, C:0.02, G:0.09, T:0.28
Consensus pattern (73 bp):
AAAAGTAAAAGAATAATAAATAAATAAGTAAATAGATAAAATAAATATAAACAATATTAAATTTA
AACATTTG
Found at i:25574513 original size:19 final size:20
Alignment explanation
Indices: 25574484--25574535 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 20
25574474 TCTTTTGGTA
* *
25574484 AAATTTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
25574503 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
25574523 AAATG-AATGCAAA
1 AAATGTAATGCAAA
25574536 AAGAGGATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
19 21 0.75
20 7 0.25
ACGTcount: A:0.46, C:0.10, G:0.17, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:25574922 original size:73 final size:73
Alignment explanation
Indices: 25574818--25575009 Score: 221
Period size: 73 Copynumber: 2.7 Consensus size: 73
25574808 AAATTTCTTT
* * * *
25574818 AAAAGTAAAAG---AATAAATAAGTGAA-TAAATAGATAAAACAAATGTAAACAATATTAAATTT
1 AAAAGTAAAAGAATAATAAATAAAT-AAGTAAATAGATAAAATAAATATAAACAATATGAAATTT
25574879 AAGCATTTG
65 AAGCATTTG
* ** *
25574888 AAAAGTAAAAGAATAATAAATAAATAAGTAAATAGATAAAGTAAATATTCATAATATGAAATTTA
1 AAAAGTAAAAGAATAATAAATAAATAAGTAAATAGATAAAATAAATATAAACAATATGAAATTTA
** *
25574953 ATTATTTT
66 AGCATTTG
* * *
25574961 AAAAGTAAAAGAATGATAAATAAATGAGTAAATAAATAAAATAAATATA
1 AAAAGTAAAAGAATAATAAATAAATAAGTAAATAGATAAAATAAATATA
25575010 TAGTATTAAA
Statistics
Matches: 102, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
70 11 0.11
72 2 0.02
73 89 0.87
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.28
Consensus pattern (73 bp):
AAAAGTAAAAGAATAATAAATAAATAAGTAAATAGATAAAATAAATATAAACAATATGAAATTTA
AGCATTTG
Found at i:25576909 original size:89 final size:89
Alignment explanation
Indices: 25576698--25577872 Score: 685
Period size: 89 Copynumber: 13.0 Consensus size: 89
25576688 GAATTTGTCG
* * * ** * ** * * * *
25576698 CTTCAATCTACTCTACTGGAACTTTGGGGAGATAAGATTAGTATATTCAATCTGCTCTACTGCAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTCCTCCACTGCAA
* *
25576763 CTTCATGGAGATAAGATTAGC-AA
66 CTTCAGGGAGATAAGATTTGCTAA
* * * * *
25576786 CTTC-ATCCTGCTCCACTGCATCTTCAGGGAGATAAGGTTTATAGCTTTAATTTCCTCTACTGCA
1 CTTCAAT-CTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTCCTCCACTGCA
* *
25576850 ACTTCAGAGAGATAAGATTTGCTAT
65 ACTTCAGGGAGATAAGATTTGCTAA
* * * ** * *
25576875 CTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTGGATTTGCC-CCACTACA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCT-CCTCCACTGCA
* * *
25576939 ACTTCAAGGAGATCCGATTGTAATTTG-TAGC
65 ACTTCAGGGAGAT---A-AG--ATTTGCTA-A
* * * * * * **
25576970 CTT-AATTTGTTCCACTGCAACTTTAGGGAAATAAGATTTGCTATCTTTAGTCTGTTCCACTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTCCTCCACTGCA
* *
25577034 ACTTCAGGGAGATAAGACTCG-TAA
65 ACTTCAGGGAGATAAGATTTGCTAA
* * ** * **
25577058 ATTCAATCTGCCCCACTGCAACTTCAAGGGGATCCGATTTGTAATTTGTAGCCTTAATCTATTCC
1 CTTCAATCTGCTCCACTGCAACTTC-A-GGGA---GATAAG--ATTTGTAGCTTTAATCTCCTCC
* * * *
25577123 ACTGCAACTTCAAGGAAATAAGGTTCT-CTAT
59 ACTGCAACTTCAGGGAGATAAGATT-TGCTAA
* * * ** *
25577154 CTTCAGTCTGCTCCACTGCAACTTTAGGG-GTATAAGACTTGTAAATTCAATCTGCC-CCACTGC
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAG-ATAAGATTTGTAGCTTTAATCT-CCTCCACTGC
** *
25577217 AACTTTTGGGAGATAAGACTTG-TAA
64 AACTTCAGGGAGATAAGATTTGCTAA
* * * * * * * *
25577242 CTTCAACCTGC-CCTACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAATTTGCTCTACTGTA
1 CTTCAATCTGCTCC-ACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTCCTCCACTGCA
* *
25577306 ACTTCAGAGAGATAAGATTTGCTAT
65 ACTTCAGGGAGATAAGATTTGCTAA
* * * * * *
25577331 CTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAATCTGCC-CCACTACA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCT-CCTCCACTGCA
* * *
25577395 ACTTCAAGGAGATCCGATTGTAATTTG-TAGC
65 ACTTCAGGGAGAT---A-AG--ATTTGCTA-A
* ** * * * * * * ** **
25577426 CTT-AATTTTTTCTACTGCAACTTTAGGGAAACAAGATTTGCTATCTTTAGTCTGTTCCACAACA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG-TAGCTTTAATCTCCTCCACTGCA
* *
25577490 ACTTCAGGGAGATAAGACTCG-TAA
65 ACTTCAGGGAGATAAGATTTGCTAA
* * * ** * ** *
25577514 CTTCAATCTTCCCCACTACAACTTCAAGGGGATCCGATTTGTAATTTGTAGCCTTAATCTATTCT
1 CTTCAATCTGCTCCACTGCAACTTC-A-GGGA---GATAAG--ATTTGTAGCTTTAATCTCCTCC
* * *
25577579 ACTGCAACTTCAGGGAAATAAGATTCGCTAT
59 ACTGCAACTTCAGGGAGATAAGATTTGCTAA
* * * * * *
25577610 CTTCAGTCTGCTCCACTGCAACTTCAGGGGGATTAGACTTGTAACTTCAATCTGCC-CCACTGCA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCT-CCTCCACTGCA
** *
25577674 ACTTTTGGGAGATAAGACTTG-TAA
65 ACTTCAGGGAGATAAGATTTGCTAA
* * * * * * *
25577698 CTTCAACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACTGCAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTCCTCCACTGCAA
*
25577763 CTTCAGGGAGATAAGATTTGCTAT
66 CTTCAGGGAGATAAGATTTGCTAA
* * * * * * * *
25577787 CTTTAGTCTGCTCCACTACAACTTCAGGGAGATCTA-ATTTGTGGCTTTAATCTGCTTCACTGTA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGAT-AAGATTTGTAGCTTTAATCTCCTCCACTGCA
25577851 ACTTCAGGGAGATAAGATTTGC
65 ACTTCAGGGAGATAAGATTTGC
25577873 CACGATGACT
Statistics
Matches: 818, Mismatches: 215, Indels: 107
0.72 0.19 0.09
Matches are distributed among these distances:
87 6 0.01
88 202 0.25
89 303 0.37
90 10 0.01
91 18 0.02
92 4 0.00
93 2 0.00
94 74 0.09
95 143 0.17
96 56 0.07
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (89 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTTAATCTCCTCCACTGCAA
CTTCAGGGAGATAAGATTTGCTAA
Found at i:25577169 original size:140 final size:139
Alignment explanation
Indices: 25576844--25577221 Score: 546
Period size: 140 Copynumber: 2.7 Consensus size: 139
25576834 AATTTCCTCT
*
25576844 ACTGCAACTTC-AGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
1 ACTGCAACTTCAAG-GAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGAT
** ** * *
25576908 AAGACTTGTATCTTGGATTTGCCCCACTACAACTTCAAGGAGATCCGATTGTAATTTGTAGCCTT
65 AAGACTTGTAAATTCAATCTGCCCCACTGCAACTTCAAGGAGATCCGATTGTAATTTGTAGCCTT
* *
25576973 AATTTGTTCC
130 AATCTATTCC
* * * *
25576983 ACTGCAACTTTAGGGAAATAAGATTTGCTATCTTTAGTCTGTTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAAGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
* *
25577048 AGACTCGTAAATTCAATCTGCCCCACTGCAACTTCAAGGGGATCCGATTTGTAATTTGTAGCCTT
66 AGACTTGTAAATTCAATCTGCCCCACTGCAACTTCAAGGAGATCCGA-TTGTAATTTGTAGCCTT
25577113 AATCTATTCC
130 AATCTATTCC
* *
25577123 ACTGCAACTTCAAGGAAATAAGGTTCT-CTATCTTCAGTCTGCTCCACTGCAACTTTAGGG-GTA
1 ACTGCAACTTCAAGGAAATAAGATT-TGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG-A
25577186 TAAGACTTGTAAATTCAATCTGCCCCACTGCAACTT
64 TAAGACTTGTAAATTCAATCTGCCCCACTGCAACTT
25577222 TTGGGAGATA
Statistics
Matches: 213, Mismatches: 22, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
139 98 0.46
140 114 0.54
141 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (139 bp):
ACTGCAACTTCAAGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
AGACTTGTAAATTCAATCTGCCCCACTGCAACTTCAAGGAGATCCGATTGTAATTTGTAGCCTTA
ATCTATTCC
Found at i:25577196 original size:96 final size:95
Alignment explanation
Indices: 25577024--25577197 Score: 208
Period size: 96 Copynumber: 1.8 Consensus size: 95
25577014 CTTTAGTCTG
* *
25577024 TTCCACTGCAACTTCAGGGAGATAAGACTCGTAAATTCAATCTGCCCCACTGCAACTTCAAGGGG
1 TTCCACTGCAACTTCAAGGAAATAAGACTCGTAAATTCAATCTGCCCCACTGCAACTTCAAGGGG
** *
25577089 ATCCGATTTGTAATTTGTAGCCTTAATCTA
66 ATAAGACTTGTAATTTGTAGCCTTAATCTA
* ** * * *
25577119 TTCCACTGCAACTTCAAGGAAATAAGGTTCTC-TATCTTCAGTCTGCTCCACTGCAACTT-TAGG
1 TTCCACTGCAACTTCAAGGAAATAA-G-ACTCGTAAATTCAATCTGCCCCACTGCAACTTCAAGG
25577182 GGTATAAGACTTGTAA
64 GG-ATAAGACTTGTAA
25577198 ATTCAATCTG
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
95 28 0.43
96 34 0.52
97 3 0.05
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (95 bp):
TTCCACTGCAACTTCAAGGAAATAAGACTCGTAAATTCAATCTGCCCCACTGCAACTTCAAGGGG
ATAAGACTTGTAATTTGTAGCCTTAATCTA
Found at i:25577492 original size:139 final size:140
Alignment explanation
Indices: 25577204--25577677 Score: 595
Period size: 139 Copynumber: 3.4 Consensus size: 140
25577194 GTAAATTCAA
* ** * * **
25577204 TCTGCCCCACTGCAACTTTTGGGAGATAAGACTTGTAACTTCAACCTGCCCTACTGTAACTTC-A
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCCCCACTACAACTTCAA
** * * * ** * * *
25577268 GG-GA---GATAAG--GTTTATAGCTTTAATTTGCTCTACTGTAACTTCAGAGAGATAAGATTTG
66 GGAGATCCGATTTGTAATTTGTAGCCTTAATTTATTCTACTGCAACTTCAGGGAAATAAGATTTG
25577327 CTATCTTTAG
131 CTATCTTTAG
*
25577337 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTATCTTCAATCTGCCCCACTACAACTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCCCCACTACAACTTCAA
* * *
25577402 GGAGATCCGA-TTGTAATTTGTAGCCTTAATTTTTTCTACTGCAACTTTAGGGAAACAAGATTTG
66 GGAGATCCGATTTGTAATTTGTAGCCTTAATTTATTCTACTGCAACTTCAGGGAAATAAGATTTG
25577466 CTATCTTTAG
131 CTATCTTTAG
* ** * *
25577476 TCTGTTCCACAACAACTTCAGGGAGATAAGACTCGTAACTTCAATCTTCCCCACTACAACTTCAA
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCCCCACTACAACTTCAA
* * *
25577541 GGGGATCCGATTTGTAATTTGTAGCCTTAATCTATTCTACTGCAACTTCAGGGAAATAAGATTCG
66 GGAGATCCGATTTGTAATTTGTAGCCTTAATTTATTCTACTGCAACTTCAGGGAAATAAGATTTG
*
25577606 CTATCTTCAG
131 CTATCTTTAG
* * *
25577616 TCTGCTCCACTGCAACTTCAGGGGGATTAGACTTGTAACTTCAATCTGCCCCACTGCAACTT
1 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCCCCACTACAACTT
25577678 TTGGGAGATA
Statistics
Matches: 292, Mismatches: 41, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
133 55 0.19
134 3 0.01
135 2 0.01
137 1 0.00
138 2 0.01
139 117 0.40
140 112 0.38
ACGTcount: A:0.27, C:0.23, G:0.17, T:0.32
Consensus pattern (140 bp):
TCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAATCTGCCCCACTACAACTTCAA
GGAGATCCGATTTGTAATTTGTAGCCTTAATTTATTCTACTGCAACTTCAGGGAAATAAGATTTG
CTATCTTTAG
Found at i:25577696 original size:140 final size:139
Alignment explanation
Indices: 25577168--25577697 Score: 581
Period size: 140 Copynumber: 3.8 Consensus size: 139
25577158 AGTCTGCTCC
* ** * ** * * **
25577168 ACTGCAACTTTAGGGGTATAAGACTTG-TAAATTCAATCTGCCCCACTGCAACTTTTGGGAGATA
1 ACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * ** * *
25577232 AGACTTGTAACTTCAACCTGCCCTACTGTAACTTCAGGGAGATAAG---G---TTTATAGCTTTA
66 AGACTTGTAACTTCAATCTGCCCCACTACAACTTCAGGGAGATAAGATTGTAATTTGTAGCCTTA
**
25577291 ATTTGCTCT
131 ATTTATTCT
* * * *
25577300 ACTGTAACTTCAGAGAGATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * **
25577365 AGACTTGTATCTTCAATCTGCCCCACTACAACTTCAAGGAGATCCGATTGTAATTTGTAGCCTTA
66 AGACTTGTAACTTCAATCTGCCCCACTACAACTTCAGGGAGATAAGATTGTAATTTGTAGCCTTA
*
25577430 ATTTTTTCT
131 ATTTATTCT
* * * * **
25577439 ACTGCAACTTTAGGGAAACAAGATTTGCTATCTTTAGTCTGTTCCACAACAACTTCAGGGAGATA
1 ACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
* * **
25577504 AGACTCGTAACTTCAATCTTCCCCACTACAACTTCAAGGG-GATCCGATTTGTAATTTGTAGCCT
66 AGACTTGTAACTTCAATCTGCCCCACTACAACTTC-AGGGAGATAAGA-TTGTAATTTGTAGCCT
*
25577568 TAATCTATTCT
129 TAATTTATTCT
* * *
25577579 ACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGGGATT
1 ACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
* **
25577644 AGACTTGTAACTTCAATCTGCCCCACTGCAACTTTTGGGAGATAAGACTTGTAA
66 AGACTTGTAACTTCAATCTGCCCCACTACAACTTCAGGGAGATAAGA-TTGTAA
25577698 CTTCAACCTG
Statistics
Matches: 332, Mismatches: 56, Indels: 12
0.83 0.14 0.03
Matches are distributed among these distances:
132 21 0.06
133 68 0.20
136 1 0.00
139 116 0.35
140 126 0.38
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (139 bp):
ACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATA
AGACTTGTAACTTCAATCTGCCCCACTACAACTTCAGGGAGATAAGATTGTAATTTGTAGCCTTA
ATTTATTCT
Found at i:25577856 original size:456 final size:456
Alignment explanation
Indices: 25576723--25577819 Score: 1804
Period size: 456 Copynumber: 2.4 Consensus size: 456
25576713 CTGGAACTTT
* * * * * *
25576723 GGGGAGATAAGA-TTAGTATATTCAATCTGCTCTACTGCATCTTCAT-GGAGATAAGA-TTAGCA
1 GGGG-GATAAGACTT-GTAAATTCAATCTGCCCCACTGCAACTT-TTGGGAGATAAGACTT-GTA
* * * * *
25576785 ACTTCATCCTGCTCCACTGCATCTTCAGGGAGATAAGGTTTATAGCTTTAATTTCCTCTACTGCA
62 ACTTCAACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAATTTACTCTACTGCA
*
25576850 ACTTCAGAGAGATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT
127 ACTTCAGAGAGATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTT
** *
25576915 GTATCTTGGATTTGCCCCACTACAACTTCAAGGAGATCCGATTGTAATTTGTAGCCTTAATTTGT
192 GTATCTTCAATCTGCCCCACTACAACTTCAAGGAGATCCGATTGTAATTTGTAGCCTTAATTTGT
* **
25576980 TCCACTGCAACTTTAGGGAAATAAGATTTGCTATCTTTAGTCTGTTCCACTGCAACTTCAGGGAG
257 TCCACTGCAACTTTAGGGAAACAAGATTTGCTATCTTTAGTCTGTTCCACAACAACTTCAGGGAG
*
25577045 ATAAGACTCGTAAATTCAATCTGCCCCACTGCAACTTCAAGGGGATCCGATTTGTAATTTGTAGC
322 ATAAGACTCGTAAATTCAATCTGCCCCACTACAACTTCAAGGGGATCCGATTTGTAATTTGTAGC
* *
25577110 CTTAATCTATTCCACTGCAACTTCAAGGAAATAAGGTTCTCTATCTTCAGTCTGCTCCACTGCAA
387 CTTAATCTATTCCACTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAA
*
25577175 CTTTA
452 CTTCA
*
25577180 GGGGTATAAGACTTGTAAATTCAATCTGCCCCACTGCAACTTTTGGGAGATAAGACTTGTAACTT
1 GGGGGATAAGACTTGTAAATTCAATCTGCCCCACTGCAACTTTTGGGAGATAAGACTTGTAACTT
* * *
25577245 CAACCTGCCCTACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAATTTGCTCTACTGTAACTT
66 CAACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAATTTACTCTACTGCAACTT
25577310 CAGAGAGATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAT
131 CAGAGAGATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAT
* *
25577375 CTTCAATCTGCCCCACTACAACTTCAAGGAGATCCGATTGTAATTTGTAGCCTTAATTTTTTCTA
196 CTTCAATCTGCCCCACTACAACTTCAAGGAGATCCGATTGTAATTTGTAGCCTTAATTTGTTCCA
25577440 CTGCAACTTTAGGGAAACAAGATTTGCTATCTTTAGTCTGTTCCACAACAACTTCAGGGAGATAA
261 CTGCAACTTTAGGGAAACAAGATTTGCTATCTTTAGTCTGTTCCACAACAACTTCAGGGAGATAA
* *
25577505 GACTCGTAACTTCAATCTTCCCCACTACAACTTCAAGGGGATCCGATTTGTAATTTGTAGCCTTA
326 GACTCGTAAATTCAATCTGCCCCACTACAACTTCAAGGGGATCCGATTTGTAATTTGTAGCCTTA
* *
25577570 ATCTATTCTACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTC
391 ATCTATTCCACTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTC
25577635 A
456 A
* *
25577636 GGGGGATTAGACTTGTAACTTCAATCTGCCCCACTGCAACTTTTGGGAGATAAGACTTGTAACTT
1 GGGGGATAAGACTTGTAAATTCAATCTGCCCCACTGCAACTTTTGGGAGATAAGACTTGTAACTT
*
25577701 CAACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAATCTACTCTACTGCAACTT
66 CAACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAATTTACTCTACTGCAACTT
* *
25577766 CAGGGAGATAAGATTTGCTATCTTTAGTCTGCTCCACTACAACTTCAGGGAGAT
131 CAGAGAGATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGAT
25577820 CTAATTTGTG
Statistics
Matches: 597, Mismatches: 40, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
455 1 0.00
456 588 0.98
457 8 0.01
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (456 bp):
GGGGGATAAGACTTGTAAATTCAATCTGCCCCACTGCAACTTTTGGGAGATAAGACTTGTAACTT
CAACCTGCCCCACTGTAACTTCAGGGAGATAAGGTTTATAGCTTTAATTTACTCTACTGCAACTT
CAGAGAGATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAT
CTTCAATCTGCCCCACTACAACTTCAAGGAGATCCGATTGTAATTTGTAGCCTTAATTTGTTCCA
CTGCAACTTTAGGGAAACAAGATTTGCTATCTTTAGTCTGTTCCACAACAACTTCAGGGAGATAA
GACTCGTAAATTCAATCTGCCCCACTACAACTTCAAGGGGATCCGATTTGTAATTTGTAGCCTTA
ATCTATTCCACTGCAACTTCAAGGAAATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTC
A
Found at i:25577871 original size:44 final size:44
Alignment explanation
Indices: 25576690--25577871 Score: 680
Period size: 44 Copynumber: 26.1 Consensus size: 44
25576680 GAGGTATAGA
* * * * * **
25576690 ATTTGTCGCTTCAATCTACTCTACTGGAACTTTGGGGAGATAAG
1 ATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* ** * * * *
25576734 ATTAGTATATTCAATCTGCTCTACTGCATCTTCATGGAGATAAG
1 ATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
25576778 ATTAGCAAC-TTCATCCTGCTCCACTGCATCTTCAGGGAGATAAG
1 ATTTGTAGCTTTAAT-CTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * *
25576822 GTTTATAGCTTTAATTTCCTCTACTGCAACTTCAGAGAGATAAG
1 ATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * *
25576866 ATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
1 ATTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * ** * * * * *
25576911 ACTTGTATCTTGGATTTGCCCCACTACAACTTCAAGGAGATCCGATTG
1 ATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT---A-AG
* * * * *
25576959 TAATTTGTAGCCTTAATTTGTTCCACTGCAACTTTAGGGAAATAAG
1 --ATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * *
25577005 ATTTGCTATCTTTAGTCTGTTCCACTGCAACTTCAGGGAGATAAG
1 ATTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * ** * * **
25577050 ACTCGTAAATTCAATCTGCCCCACTGCAACTTCAAGGGGATCCGATTTG
1 ATTTGTAGCTTTAATCTGCTCCACTGCAACTTC-A-GGGA---GATAAG
* ** * *
25577099 TAATTTGTAGCCTTAATCTATTCCACTGCAACTTCAAGGAAATAAG
1 --ATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * *
25577145 GTTCTCTATCTTCAGTCTGCTCCACTGCAACTTTAGGG-GTATAAG
1 ATT-TGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAG-ATAAG
* ** * * **
25577190 ACTTGTAAATTCAATCTGCCCCACTGCAACTTTTGGGAGATAAG
1 ATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * *
25577234 ACTTGTAACTTCAACCTGC-CCTACTGTAACTTCAGGGAGATAAG
1 ATTTGTAGCTTTAATCTGCTCC-ACTGCAACTTCAGGGAGATAAG
* * * * * *
25577278 GTTTATAGCTTTAATTTGCTCTACTGTAACTTCAGAGAGATAAG
1 ATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* *
25577322 ATTTGCTATCTTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAG
1 ATTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * * *
25577367 ACTTGTATCTTCAATCTGCCCCACTACAACTTCAAGGAGATCCGATTG
1 ATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT---A-AG
* * ** * * * *
25577415 TAATTTGTAGCCTTAATTTTTTCTACTGCAACTTTAGGGAAACAAG
1 --ATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * **
25577461 ATTTGCTATCTTTAGTCTGTTCCACAACAACTTCAGGGAGATAAG
1 ATTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * * * **
25577506 ACTCGTAACTTCAATCTTCCCCACTACAACTTCAAGGGGATCCGATTTG
1 ATTTGTAGCTTTAATCTGCTCCACTGCAACTTC-A-GGGA---GATAAG
* ** * *
25577555 TAATTTGTAGCCTTAATCTATTCTACTGCAACTTCAGGGAAATAAG
1 --ATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * *
25577601 ATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGGGATTAG
1 ATTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * **
25577646 ACTTGTAACTTCAATCTGCCCCACTGCAACTTTTGGGAGATAAG
1 ATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * * * *
25577690 ACTTGTAACTTCAACCTGCCCCACTGTAACTTCAGGGAGATAAG
1 ATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * *
25577734 GTTTATAGCTTTAATCTACTCTACTGCAACTTCAGGGAGATAAG
1 ATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
* * * *
25577778 ATTTGCTATCTTTAGTCTGCTCCACTACAACTTCAGGGAGATCTA-
1 ATTTG-TAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGAT-AAG
* * *
25577823 ATTTGTGGCTTTAATCTGCTTCACTGTAACTTCAGGGAGATAAG
1 ATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
25577867 ATTTG
1 ATTTG
25577872 CCACGATGAC
Statistics
Matches: 863, Mismatches: 234, Indels: 82
0.73 0.20 0.07
Matches are distributed among these distances:
43 6 0.01
44 466 0.54
45 247 0.29
46 17 0.02
47 4 0.00
48 2 0.00
49 15 0.02
50 59 0.07
51 47 0.05
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (44 bp):
ATTTGTAGCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAG
Found at i:25586977 original size:155 final size:156
Alignment explanation
Indices: 25586684--25586996 Score: 619
Period size: 155 Copynumber: 2.0 Consensus size: 156
25586674 ATAATTTTTA
25586684 AAGGATTAAATTGAATTTTTATAATTTTAGGGGTGGCCAAAGTGCAATTTTACCTTTATTAATTT
1 AAGGATTAAATTGAATTTTTATAATTTTAGGGGTGGCCAAAGTGCAATTTTACCTTTATTAATTT
25586749 AAAATTTTAAAAAATTTAGAGGCCTAAATGACAATTTTTCATTTTAAGGGGGCCGGGCCCATGCC
66 AAAATTTTAAAAAATTTAGAGGCCTAAATGACAATTTTTCATTTTAAGGGGGCCGGGCCCATGCC
25586814 AGCCCCCCTAGAATCGCCTCTGGTCT
131 AGCCCCCCTAGAATCGCCTCTGGTCT
25586840 AAGGATTAAA-TGAATTTTTATAATTTTAGGGGTGGCCAAAGTGCAATTTTACCTTTATTAATTT
1 AAGGATTAAATTGAATTTTTATAATTTTAGGGGTGGCCAAAGTGCAATTTTACCTTTATTAATTT
25586904 AAAATTTTAAAAAATTTAGAGGCCTAAATGACAATTTTTCATTTTAAGGGGGCCGGGCCCATGCC
66 AAAATTTTAAAAAATTTAGAGGCCTAAATGACAATTTTTCATTTTAAGGGGGCCGGGCCCATGCC
25586969 AGCCCCCCTAGAATCGCCTCTGGTCT
131 AGCCCCCCTAGAATCGCCTCTGGTCT
25586995 AA
1 AA
25586997 CGAGTGTCCA
Statistics
Matches: 157, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
155 147 0.94
156 10 0.06
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.34
Consensus pattern (156 bp):
AAGGATTAAATTGAATTTTTATAATTTTAGGGGTGGCCAAAGTGCAATTTTACCTTTATTAATTT
AAAATTTTAAAAAATTTAGAGGCCTAAATGACAATTTTTCATTTTAAGGGGGCCGGGCCCATGCC
AGCCCCCCTAGAATCGCCTCTGGTCT
Found at i:25591813 original size:65 final size:65
Alignment explanation
Indices: 25591688--25591813 Score: 175
Period size: 65 Copynumber: 1.9 Consensus size: 65
25591678 AAGTCAGTAG
** * * *
25591688 GTTCACACGGCCTAGTACACGGGCGTGTGGCTTGGCCGTGTGTCACAAGTCAGTATGCTCAAATT
1 GTTCACACGGCCTAACACACGGGCGTGTGGCTTGGCCATGTGACACAAGTCAGTAAGCTCAAATT
25591753 GTTCACACGGCCTAACACACGGGCGTGTGGCTTGGCCATGTGAC-CTAAGTCAG-AGAGCTCA
1 GTTCACACGGCCTAACACACGGGCGTGTGGCTTGGCCATGTGACAC-AAGTCAGTA-AGCTCA
25591814 CAAGTTTAGA
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
64 2 0.04
65 52 0.96
ACGTcount: A:0.21, C:0.26, G:0.29, T:0.23
Consensus pattern (65 bp):
GTTCACACGGCCTAACACACGGGCGTGTGGCTTGGCCATGTGACACAAGTCAGTAAGCTCAAATT
Found at i:25592342 original size:15 final size:15
Alignment explanation
Indices: 25592322--25592350 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
25592312 ACAATATTAT
25592322 GTGAAAATTGTTGTA
1 GTGAAAATTGTTGTA
25592337 GTGAAAATTGTTGT
1 GTGAAAATTGTTGT
25592351 GAATTTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.00, G:0.28, T:0.41
Consensus pattern (15 bp):
GTGAAAATTGTTGTA
Found at i:25592766 original size:39 final size:39
Alignment explanation
Indices: 25592681--25592767 Score: 97
Period size: 39 Copynumber: 2.2 Consensus size: 39
25592671 CAGATCCTTA
* *
25592681 GGTAATATAACGAGATCTAGCATTTTATGCGGATCCTCC
1 GGTAATATAACGAGATCTAACATTTTATGCGAATCCTCC
* * *
25592720 GGCAATATAACGAGAT-TCAACATTTGT-TGCGAATTCTCG
1 GGTAATATAACGAGATCT-AACATTT-TATGCGAATCCTCC
25592759 GGTAATATA
1 GGTAATATA
25592768 TGATATAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.03
39 38 0.95
40 1 0.03
ACGTcount: A:0.31, C:0.17, G:0.21, T:0.31
Consensus pattern (39 bp):
GGTAATATAACGAGATCTAACATTTTATGCGAATCCTCC
Found at i:25595235 original size:10 final size:10
Alignment explanation
Indices: 25595222--25595359 Score: 79
Period size: 10 Copynumber: 14.3 Consensus size: 10
25595212 GAAAGAGAGG
25595222 GAAAGAAGAA
1 GAAAGAAGAA
25595232 GAAAG-A-AA
1 GAAAGAAGAA
*
25595240 GAAAGAAAAA
1 GAAAGAAGAA
25595250 GAAAGAA-AA
1 GAAAGAAGAA
*
25595259 GGAAATG-AGAG
1 -GAAA-GAAGAA
25595270 GAAAG-A-AA
1 GAAAGAAGAA
25595278 GAAA-AAGAA
1 GAAAGAAGAA
25595287 GGAAAGAA-AA
1 -GAAAGAAGAA
25595297 GGAAAGGAGAAGAA
1 -G-AA--AGAAGAA
25595311 GAAA-AAGAA
1 GAAAGAAGAA
25595320 GGAAAGAA-AA
1 -GAAAGAAGAA
25595330 GGAAAGAAG-A
1 -GAAAGAAGAA
25595340 GAAA-AA-AA
1 GAAAGAAGAA
25595348 -AAAGAAGAA
1 GAAAGAAGAA
25595357 GAA
1 GAA
25595360 GAGGGGAGAA
Statistics
Matches: 106, Mismatches: 2, Indels: 40
0.72 0.01 0.27
Matches are distributed among these distances:
7 3 0.03
8 18 0.17
9 19 0.18
10 49 0.46
11 8 0.08
12 2 0.02
13 5 0.05
14 2 0.02
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (10 bp):
GAAAGAAGAA
Found at i:25595263 original size:38 final size:38
Alignment explanation
Indices: 25595211--25595359 Score: 145
Period size: 38 Copynumber: 4.1 Consensus size: 38
25595201 TGGGGGGAAG
* *
25595211 AGAAAGAGAGGGAAAGAAGAAGAAAGAAAGAAAGAAAA
1 AGAAAGAAAAGGAAAGAAGAAGAAAGAAAGAAAGAAAA
*
25595249 AGAAAGAAAAGGAAATG-AGAGGAAAGAAAGAAA-AAGAA
1 AGAAAGAAAAGGAAA-GAAGAAGAAAGAAAGAAAGAA-AA
* *
25595287 GGAAAGAAAAGGAAAGGAGAAG-AAG-AA-AAAG--AA
1 AGAAAGAAAAGGAAAGAAGAAGAAAGAAAGAAAGAAAA
* * *
25595320 GGAAAGAAAAGGAAAGAAG-AGAAA-AAAAAAAGAAGA
1 AGAAAGAAAAGGAAAGAAGAAGAAAGAAAGAAAGAAAA
25595356 AGAA
1 AGAA
25595360 GAGGGGAGAA
Statistics
Matches: 94, Mismatches: 8, Indels: 20
0.77 0.07 0.16
Matches are distributed among these distances:
32 2 0.02
33 24 0.26
34 4 0.04
35 3 0.03
36 6 0.06
37 6 0.06
38 48 0.51
39 1 0.01
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (38 bp):
AGAAAGAAAAGGAAAGAAGAAGAAAGAAAGAAAGAAAA
Found at i:25595318 original size:33 final size:33
Alignment explanation
Indices: 25595207--25595354 Score: 137
Period size: 33 Copynumber: 4.5 Consensus size: 33
25595197 TGGGTGGGGG
* *
25595207 GAAG-AGAAAGAGAGGGAAAGAAGAA-GAAA-GA
1 GAAGAAGAAAAAGAAGGAAAGAA-AAGGAAAGGA
* * * *
25595238 -AAGAAAGAAAAAGAAAGAAAAGGAAATGAGAGGA
1 GAAG-AAGAAAAAG-AAGGAAAGAAAAGGAAAGGA
25595272 -AAGAAAGAAAAAGAAGGAAAGAAAAGGAAAGGA
1 GAAG-AAGAAAAAGAAGGAAAGAAAAGGAAAGGA
25595305 GAAGAAGAAAAAGAAGGAAAGAAAAGGAAAGAAGA
1 GAAGAAGAAAAAGAAGGAAAGAAAAGGAAAG--GA
*
25595340 GAA-AAAAAAAAGAAG
1 GAAGAAGAAAAAGAAG
25595355 AAGAAGAGGG
Statistics
Matches: 99, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
30 3 0.03
32 9 0.09
33 53 0.54
34 29 0.29
35 5 0.05
ACGTcount: A:0.68, C:0.00, G:0.31, T:0.01
Consensus pattern (33 bp):
GAAGAAGAAAAAGAAGGAAAGAAAAGGAAAGGA
Found at i:25595353 original size:43 final size:43
Alignment explanation
Indices: 25595271--25595390 Score: 106
Period size: 43 Copynumber: 2.9 Consensus size: 43
25595261 AAATGAGAGG
* * * ** *
25595271 AAAGAAAGAAA-AAGAAGGAAAGAAAAGGAAAGGAGAAGAAGAA
1 AAAGAAGGAAAGAA-AAGGAAAGAAGAGAAAAAAAAAAGAAGAA
25595314 AAAGAAGGAAAGAAAAGGAAAGAAGAGAAAAAAAAAAGAAGAA
1 AAAGAAGGAAAGAAAAGGAAAGAAGAGAAAAAAAAAAGAAGAA
* **
25595357 GAAG-AGGGGAG-AAAGGAAA-AAGA-AAGAAAAAAAA
1 AAAGAAGGAAAGAAAAGGAAAGAAGAGAA-AAAAAAAA
25595391 TGTAATTTTT
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
39 2 0.03
40 12 0.18
41 8 0.12
42 5 0.08
43 37 0.56
44 2 0.03
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (43 bp):
AAAGAAGGAAAGAAAAGGAAAGAAGAGAAAAAAAAAAGAAGAA
Found at i:25595385 original size:10 final size:10
Alignment explanation
Indices: 25595222--25595387 Score: 67
Period size: 10 Copynumber: 16.0 Consensus size: 10
25595212 GAAAGAGAGG
*
25595222 GAAAGAAGAA
1 GAAAGAAAAA
25595232 GAAAG--AAA
1 GAAAGAAAAA
25595240 GAAAGAAAAA
1 GAAAGAAAAA
*
25595250 GAAAGAAAAG
1 GAAAGAAAAA
25595260 GAAATGAGAGGAAA
1 GAAA-GA-A--AAA
25595274 GAAAGAAAAA
1 GAAAGAAAAA
*
25595284 GAAGGAAAGAA
1 GAAAGAAA-AA
* *
25595295 -AAGGAAAGGA
1 GAAAGAAA-AA
25595305 GAAGAAGAAAAA
1 G-A-AAGAAAAA
*
25595317 GAAGGAAAGAA
1 GAAAGAAA-AA
*
25595328 -AAGGAAAGAA
1 GAAAGAAA-AA
25595338 GAGAA-AAAAA
1 GA-AAGAAAAA
*
25595348 -AAAGAAGAA
1 GAAAGAAAAA
***
25595357 G-AAGAGGGGA
1 GAAAGA-AAAA
25595367 GAAAGGAAAAA
1 GAAA-GAAAAA
25595378 GAAAGAAAAA
1 GAAAGAAAAA
25595388 AAATGTAATT
Statistics
Matches: 123, Mismatches: 15, Indels: 36
0.71 0.09 0.21
Matches are distributed among these distances:
8 9 0.07
9 9 0.07
10 66 0.54
11 18 0.15
12 8 0.07
13 7 0.06
14 6 0.05
ACGTcount: A:0.69, C:0.00, G:0.30, T:0.01
Consensus pattern (10 bp):
GAAAGAAAAA
Found at i:25595925 original size:157 final size:152
Alignment explanation
Indices: 25595721--25596174 Score: 450
Period size: 160 Copynumber: 2.9 Consensus size: 152
25595711 ATGATATATT
*
25595721 TAATAAATTTCAAACATAATGCAACTGAAATAA-GTAAAATTATAAAATTAGAAATTATGATATT
1 TAATAAATTTCAAAAATAATGC-ACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATT
*
25595785 TTTTAAAGTAATAAGATGCGAAGAAAAAAATACGAAGAAATGGCCGGAGTAAGAGTGTTTTACTA
65 TTTTAAAGTAATAAAATGCG-AGAAAAAAATACGAAGAAATGGCCGGAGTAAGAGTGTTTTACTA
*
25595850 AATTTTTTAAAAATTCAAAAATAATTAA
129 AATTTTTTAAAAAAT--AAAATAA--AA
* * * * * *
25595878 TACA-AATATTTCAAAAAT-ATGTACTGAAATAATATAAAATAATAAAATACAAAAATAAT-ATT
1 TA-ATAA-ATTTCAAAAATAATGCACTGAAATAATGTAAAATTATAAAAT-TAGAAATTATGA-T
* * * * * * * * * *
25595940 TTTTTATTGAAAGTAATAAAATTCGGGAAAATAATATG-AGCAAAGGGCAGGAATAAGGGTTTTT
62 ATTTT-TT-AAAGTAATAAAATGCGAGAAAAAAATACGAAG-AAATGGCCGGAGTAAGAG-TGTT
* * *
25596004 TTGACACTAAATTAATTTAAAAAATACACTAAAA
123 TT---ACTAAATT-TTTTAAAAAATAAAATAAAA
* *
25596038 TAATAAATTTCAAACATAATGCACTTAAATAATGTAAAATTATAAAATTAGAAATTATGATATTT
1 TAATAAATTTCAAAAATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTT
* * *
25596103 TTTAAAATAATAAAACGCGGAGAAAAAAATACGAAGAAATGGCCGAAGTAAGAGTGTTTTACTAA
66 TTTAAAGTAATAAAATGC-GAGAAAAAAATACGAAGAAATGGCCGGAGTAAGAGTGTTTTACTAA
*
25596168 CTTTTTT
130 ATTTTTT
25596175 TTCAACATGC
Statistics
Matches: 234, Mismatches: 45, Indels: 40
0.73 0.14 0.13
Matches are distributed among these distances:
153 3 0.01
154 7 0.03
156 10 0.04
157 38 0.16
158 51 0.22
159 51 0.22
160 52 0.22
162 5 0.02
163 8 0.03
164 9 0.04
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (152 bp):
TAATAAATTTCAAAAATAATGCACTGAAATAATGTAAAATTATAAAATTAGAAATTATGATATTT
TTTAAAGTAATAAAATGCGAGAAAAAAATACGAAGAAATGGCCGGAGTAAGAGTGTTTTACTAAA
TTTTTTAAAAAATAAAATAAAA
Found at i:25598910 original size:27 final size:27
Alignment explanation
Indices: 25598870--25598935 Score: 96
Period size: 27 Copynumber: 2.4 Consensus size: 27
25598860 TAACACGAGT
*
25598870 GGTGCCGCCCATGGGAATGGCACCATC
1 GGTGCCGCCTATGGGAATGGCACCATC
* * *
25598897 GGTGCTGCCTATGGGAATGGCACCTTT
1 GGTGCCGCCTATGGGAATGGCACCATC
25598924 GGTGCCGCCTAT
1 GGTGCCGCCTAT
25598936 CAGTCTCTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.15, C:0.29, G:0.33, T:0.23
Consensus pattern (27 bp):
GGTGCCGCCTATGGGAATGGCACCATC
Found at i:25601666 original size:145 final size:148
Alignment explanation
Indices: 25601488--25601786 Score: 561
Period size: 145 Copynumber: 2.0 Consensus size: 148
25601478 CAAGCATTAA
25601488 TTAATTCAAATATATCATCCACTATTTCGATTAAAATGATGAAGTAATTTAAAAAAAAACACAAA
1 TTAATTCAAATATATCATCCACTATTTCGATTAAAATGATGAAGTAATTTAAAAAAAAACACAAA
25601553 ATCACTTTTCTAAAACAAAATATATATAT-TTATAGCTGGTATAAATATTTTTAAGAAAAATTCG
66 ATCACTTTTCTAAAACAAAATATATATATATT-TAGCTGGTATAAATATTTTTAAGAAAAATTCG
25601617 CCCTCAACATTTTAA-TTT
130 CCCTCAACATTTTAATTTT
25601635 TTAATTC-AA-ATATCATCCACTATTTCGATTAAAATGATGAAGTAATTTAAAAAAAAACACAAA
1 TTAATTCAAATATATCATCCACTATTTCGATTAAAATGATGAAGTAATTTAAAAAAAAACACAAA
25601698 ATCACTTTTCTAAAACAAAATATATATATATTTAGCTGGTATAAATATTTTTAAGAAAAATTCGC
66 ATCACTTTTCTAAAACAAAATATATATATATTTAGCTGGTATAAATATTTTTAAGAAAAATTCGC
25601763 CCTCAACATTTTAATTTT
131 CCTCAACATTTTAATTTT
25601781 TTAATT
1 TTAATT
25601787 ATGAGTATAA
Statistics
Matches: 150, Mismatches: 0, Indels: 5
0.97 0.00 0.03
Matches are distributed among these distances:
145 130 0.87
146 13 0.09
147 7 0.05
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (148 bp):
TTAATTCAAATATATCATCCACTATTTCGATTAAAATGATGAAGTAATTTAAAAAAAAACACAAA
ATCACTTTTCTAAAACAAAATATATATATATTTAGCTGGTATAAATATTTTTAAGAAAAATTCGC
CCTCAACATTTTAATTTT
Found at i:25604088 original size:862 final size:862
Alignment explanation
Indices: 25602425--25604148 Score: 3448
Period size: 862 Copynumber: 2.0 Consensus size: 862
25602415 TTTAAAAATT
25602425 GACGTGGCGTATGAGAATAAACATTAGCAAAGTTAACGAACGTTAAATTTTCTATTCATTTTGGA
1 GACGTGGCGTATGAGAATAAACATTAGCAAAGTTAACGAACGTTAAATTTTCTATTCATTTTGGA
25602490 GTGATTTGACAAACTAAACAAGTTTAAGGGCTAAAAGAGGTGAAAAATTAAATGGAACAAAAAAT
66 GTGATTTGACAAACTAAACAAGTTTAAGGGCTAAAAGAGGTGAAAAATTAAATGGAACAAAAAAT
25602555 AATTTCTTTTGTAAAGTTAGAGGATCGAATAAAACATTATGCTTATTTTAAATTTATTAAATATA
131 AATTTCTTTTGTAAAGTTAGAGGATCGAATAAAACATTATGCTTATTTTAAATTTATTAAATATA
25602620 TTATCAAATGATAAATTTGTTTATGAGAATCTTAAAAAAAAATTGTTTATGAAAATAATTATGTA
196 TTATCAAATGATAAATTTGTTTATGAGAATCTTAAAAAAAAATTGTTTATGAAAATAATTATGTA
25602685 GTTTGCATCAATCAACATTTTCAAAACTCATTTAATTTCGTAGAAAAAATATGGGTCCATGTAGT
261 GTTTGCATCAATCAACATTTTCAAAACTCATTTAATTTCGTAGAAAAAATATGGGTCCATGTAGT
25602750 ATTTTATATCATAGAATAATGGATTGACCAGTTCATTAATTTTGTTTAAAGAAAACAACTGGAGT
326 ATTTTATATCATAGAATAATGGATTGACCAGTTCATTAATTTTGTTTAAAGAAAACAACTGGAGT
25602815 TTTCATTATCATGATGTTGTTATCTATATTGCATAGACAAAAGATATAATTGAAGATAGTCTTGG
391 TTTCATTATCATGATGTTGTTATCTATATTGCATAGACAAAAGATATAATTGAAGATAGTCTTGG
25602880 GTGAAGAGCATAAAAACTTTGTTATTTGCATATTAGAAGTAATTAATGATACAAAACCAATTAAT
456 GTGAAGAGCATAAAAACTTTGTTATTTGCATATTAGAAGTAATTAATGATACAAAACCAATTAAT
25602945 TCTTTCATACTAGATTAGATTTACATATGTAATTCATGTTTATTAATTGAAATATATTGTATTTA
521 TCTTTCATACTAGATTAGATTTACATATGTAATTCATGTTTATTAATTGAAATATATTGTATTTA
25603010 TTTAAAAGTTTTAAGGTAAACTATTAACGTGATTATAAAATTAAAAAAATAATTTTAATTTATTT
586 TTTAAAAGTTTTAAGGTAAACTATTAACGTGATTATAAAATTAAAAAAATAATTTTAATTTATTT
25603075 TCAAAACATGTAACCTGAACAATAATACATATATTATTATCAAAAAAGAAATCTATGAATCCAAC
651 TCAAAACATGTAACCTGAACAATAATACATATATTATTATCAAAAAAGAAATCTATGAATCCAAC
25603140 AATGCAAGGTTGGAATATAGATAATGTAAAAAGAATTTAACGTTAAAAAACCTTCATTCTCTCCC
716 AATGCAAGGTTGGAATATAGATAATGTAAAAAGAATTTAACGTTAAAAAACCTTCATTCTCTCCC
25603205 TGCAATTTTTAAAAGTATTAATACAATATTTTATTGTTTGCATTCAGGGTAAACTATAAAAATAG
781 TGCAATTTTTAAAAGTATTAATACAATATTTTATTGTTTGCATTCAGGGTAAACTATAAAAATAG
25603270 TTCAGATTATATTTTAA
846 TTCAGATTATATTTTAA
25603287 GACGTGGCGTATGAGAATAAACATTAGCAAAGTTAACGAACGTTAAATTTTCTATTCATTTTGGA
1 GACGTGGCGTATGAGAATAAACATTAGCAAAGTTAACGAACGTTAAATTTTCTATTCATTTTGGA
25603352 GTGATTTGACAAACTAAACAAGTTTAAGGGCTAAAAGAGGTGAAAAATTAAATGGAACAAAAAAT
66 GTGATTTGACAAACTAAACAAGTTTAAGGGCTAAAAGAGGTGAAAAATTAAATGGAACAAAAAAT
25603417 AATTTCTTTTGTAAAGTTAGAGGATCGAATAAAACATTATGCTTATTTTAAATTTATTAAATATA
131 AATTTCTTTTGTAAAGTTAGAGGATCGAATAAAACATTATGCTTATTTTAAATTTATTAAATATA
25603482 TTATCAAATGATAAATTTGTTTATGAGAATCTTAAAAAAAAATTGTTTATGAAAATAATTATGTA
196 TTATCAAATGATAAATTTGTTTATGAGAATCTTAAAAAAAAATTGTTTATGAAAATAATTATGTA
25603547 GTTTGCATCAATCAACATTTTCAAAACTCATTTAATTTCGTAGAAAAAATATGGGTCCATGTAGT
261 GTTTGCATCAATCAACATTTTCAAAACTCATTTAATTTCGTAGAAAAAATATGGGTCCATGTAGT
25603612 ATTTTATATCATAGAATAATGGATTGACCAGTTCATTAATTTTGTTTAAAGAAAACAACTGGAGT
326 ATTTTATATCATAGAATAATGGATTGACCAGTTCATTAATTTTGTTTAAAGAAAACAACTGGAGT
25603677 TTTCATTATCATGATGTTGTTATCTATATTGCATAGACAAAAGATATAATTGAAGATAGTCTTGG
391 TTTCATTATCATGATGTTGTTATCTATATTGCATAGACAAAAGATATAATTGAAGATAGTCTTGG
25603742 GTGAAGAGCATAAAAACTTTGTTATTTGCATATTAGAAGTAATTAATGATACAAAACCAATTAAT
456 GTGAAGAGCATAAAAACTTTGTTATTTGCATATTAGAAGTAATTAATGATACAAAACCAATTAAT
25603807 TCTTTCATACTAGATTAGATTTACATATGTAATTCATGTTTATTAATTGAAATATATTGTATTTA
521 TCTTTCATACTAGATTAGATTTACATATGTAATTCATGTTTATTAATTGAAATATATTGTATTTA
25603872 TTTAAAAGTTTTAAGGTAAACTATTAACGTGATTATAAAATTAAAAAAATAATTTTAATTTATTT
586 TTTAAAAGTTTTAAGGTAAACTATTAACGTGATTATAAAATTAAAAAAATAATTTTAATTTATTT
25603937 TCAAAACATGTAACCTGAACAATAATACATATATTATTATCAAAAAAGAAATCTATGAATCCAAC
651 TCAAAACATGTAACCTGAACAATAATACATATATTATTATCAAAAAAGAAATCTATGAATCCAAC
25604002 AATGCAAGGTTGGAATATAGATAATGTAAAAAGAATTTAACGTTAAAAAACCTTCATTCTCTCCC
716 AATGCAAGGTTGGAATATAGATAATGTAAAAAGAATTTAACGTTAAAAAACCTTCATTCTCTCCC
25604067 TGCAATTTTTAAAAGTATTAATACAATATTTTATTGTTTGCATTCAGGGTAAACTATAAAAATAG
781 TGCAATTTTTAAAAGTATTAATACAATATTTTATTGTTTGCATTCAGGGTAAACTATAAAAATAG
25604132 TTCAGATTATATTTTAA
846 TTCAGATTATATTTTAA
25604149 TTACTTATGT
Statistics
Matches: 862, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
862 862 1.00
ACGTcount: A:0.41, C:0.09, G:0.13, T:0.36
Consensus pattern (862 bp):
GACGTGGCGTATGAGAATAAACATTAGCAAAGTTAACGAACGTTAAATTTTCTATTCATTTTGGA
GTGATTTGACAAACTAAACAAGTTTAAGGGCTAAAAGAGGTGAAAAATTAAATGGAACAAAAAAT
AATTTCTTTTGTAAAGTTAGAGGATCGAATAAAACATTATGCTTATTTTAAATTTATTAAATATA
TTATCAAATGATAAATTTGTTTATGAGAATCTTAAAAAAAAATTGTTTATGAAAATAATTATGTA
GTTTGCATCAATCAACATTTTCAAAACTCATTTAATTTCGTAGAAAAAATATGGGTCCATGTAGT
ATTTTATATCATAGAATAATGGATTGACCAGTTCATTAATTTTGTTTAAAGAAAACAACTGGAGT
TTTCATTATCATGATGTTGTTATCTATATTGCATAGACAAAAGATATAATTGAAGATAGTCTTGG
GTGAAGAGCATAAAAACTTTGTTATTTGCATATTAGAAGTAATTAATGATACAAAACCAATTAAT
TCTTTCATACTAGATTAGATTTACATATGTAATTCATGTTTATTAATTGAAATATATTGTATTTA
TTTAAAAGTTTTAAGGTAAACTATTAACGTGATTATAAAATTAAAAAAATAATTTTAATTTATTT
TCAAAACATGTAACCTGAACAATAATACATATATTATTATCAAAAAAGAAATCTATGAATCCAAC
AATGCAAGGTTGGAATATAGATAATGTAAAAAGAATTTAACGTTAAAAAACCTTCATTCTCTCCC
TGCAATTTTTAAAAGTATTAATACAATATTTTATTGTTTGCATTCAGGGTAAACTATAAAAATAG
TTCAGATTATATTTTAA
Found at i:25620135 original size:22 final size:22
Alignment explanation
Indices: 25620110--25620161 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
25620100 GGACATGCCA
*
25620110 CCACTGATTTACAGATAAACTG
1 CCACTGATTTACAGATAAACCG
* **
25620132 CCACTAATTTATGGATAAACCG
1 CCACTGATTTACAGATAAACCG
25620154 CCACTGAT
1 CCACTGAT
25620162 AATGCTGATA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.35, C:0.25, G:0.13, T:0.27
Consensus pattern (22 bp):
CCACTGATTTACAGATAAACCG
Found at i:25624869 original size:24 final size:19
Alignment explanation
Indices: 25624801--25624873 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
25624791 AATCTTCAAG
* * *
25624801 GATATGCAATTTTAGACAT
1 GATATGTAATCTTAGATAT
25624820 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
25624839 GATATGTAATCTTAGATAT
1 GATATGTAATCTTAGATAT
* *
25624858 GATATGCAATGTTAGA
1 GATATGTAATCTTAGA
25624874 AGATATGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 49 1.00
ACGTcount: A:0.37, C:0.07, G:0.18, T:0.38
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:25625123 original size:23 final size:23
Alignment explanation
Indices: 25625079--25625123 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
25625069 TCTTATTTTG
* *
25625079 TTGATTTGTGTATAATTTATTTA
1 TTGATTTGTATATAATTGATTTA
**
25625102 TTGATTTGTATATTGTTGATTT
1 TTGATTTGTATATAATTGATTT
25625124 CAAATATCTT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.16, T:0.62
Consensus pattern (23 bp):
TTGATTTGTATATAATTGATTTA
Found at i:25626595 original size:13 final size:13
Alignment explanation
Indices: 25626577--25626604 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
25626567 ATTCCTCGTA
25626577 CGTAACTGACTCC
1 CGTAACTGACTCC
25626590 CGTAACTGACTCC
1 CGTAACTGACTCC
25626603 CG
1 CG
25626605 GATTCGTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.21, C:0.39, G:0.18, T:0.21
Consensus pattern (13 bp):
CGTAACTGACTCC
Found at i:25630550 original size:14 final size:15
Alignment explanation
Indices: 25630524--25630556 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
25630514 TCCCAAGCTG
25630524 GGAAGGACCTTATGT
1 GGAAGGACCTTATGT
*
25630539 GGAAGG-CCTTATTT
1 GGAAGGACCTTATGT
25630553 GGAA
1 GGAA
25630557 AGGCGTCGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.12, G:0.33, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATGT
Found at i:25632022 original size:88 final size:88
Alignment explanation
Indices: 25631873--25632547 Score: 1001
Period size: 88 Copynumber: 7.7 Consensus size: 88
25631863 AAGATAACAT
* * *
25631873 ATCTTGCCTTCCTGCACCGATAGCGAAGAAGATCGAAGACACCAACCTTGCCTCCCTGGGTTGTA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
* *
25631938 GCGGAGCAGGGTAAAAATAGCAG
66 GTGGAGCAGGTTAAAAATAGCAG
* * *
25631961 ATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACTAGCCTTGCCTCCCTGGGTTGCA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
25632026 GTGGAGCAGGTTAAAAATAGCAG
66 GTGGAGCAGGTTAAAAATAGCAG
* *
25632049 ATCTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
*
25632114 GTAGAGCAGGTTAAAAATTA-CAG
66 GTGGAGCAGGTTAAAAA-TAGCAG
*
25632137 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGTCTCCCTGGGTTGTA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
** *
25632202 GCAGAGCAGGTTAAAAATAACAG
66 GTGGAGCAGGTTAAAAATAGCAG
* * *
25632225 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAACCTTGCTTCCTTGGGTTGTA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
* *
25632290 GCGGAACAGGTTAAAAATAGCAG
66 GTGGAGCAGGTTAAAAATAGCAG
* *
25632313 ATCTTGCCTTCCTGCACAGACAACGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
*
25632378 GTGGAGCAGGTTAAAAATAACAG
66 GTGGAGCAGGTTAAAAATAGCAG
* * * *
25632401 ATCTTGCCTTCTTGCACCGACAACGAAGCAGATTGAAGACACCAGCCTTGCCTCCCTGGGTTGCA
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
* *
25632466 GTGAAGTAGGTTAAAAATAGCAG
66 GTGGAGCAGGTTAAAAATAGCAG
* * * * * * **
25632489 ATCTTGCCTTTCTGCACTGACAGCGAAGCATATCGATGACCCCAACCTTATCTCCCTGG
1 ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGG
25632548 ACAGCAGTGG
Statistics
Matches: 538, Mismatches: 47, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
87 2 0.00
88 534 0.99
89 2 0.00
ACGTcount: A:0.28, C:0.27, G:0.24, T:0.21
Consensus pattern (88 bp):
ATCTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGTA
GTGGAGCAGGTTAAAAATAGCAG
Found at i:25632279 original size:43 final size:44
Alignment explanation
Indices: 25631875--25632280 Score: 128
Period size: 44 Copynumber: 9.2 Consensus size: 44
25631865 GATAACATAT
* *
25631875 CTTGCCTTCCTGCACCGATAGCGAAGAAGATCGAAGACACCAAC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAAC
* **** * * * * * * * *
25631919 CTTGCCTCCCTGGGTTG-TAGCGGAGCAGGGT-AAAAATAGCAGAT
1 CTTGCCTTCCTGCACCGACAGCGAAGCA-GATCGAAGACACCA-AC
* * *
25631963 CTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACTAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAAC
* **** * * * ** * * * *
25632007 CTTGCCTCCCTGGGTTG-CAGTGGAGCAGGTTAAAAATAGCAGAT
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCA-AC
* *
25632051 CTTGCCTTCCTGCACCAACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAAC
* **** * * ** * * *
25632095 CTTGCCTCCCTGGGTTG-CAG-TAGAGCAGGTTAAAAATTA-CAGAT
1 CTTGCCTTCCTGCACCGACAGCGA-AGCAGATCGAAGA-CACCA-AC
*
25632139 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAGC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAAC
* * **** * * ** * * * *
25632183 CTTGTCTCCCTGGGTTG-TAGC-AGAGCAGGTTAAAAATAACAGAT
1 CTTGCCTTCCTGCACCGACAGCGA-AGCAGATCGAAGACACCA-AC
25632227 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAAC
1 CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAAC
25632271 CTTG-CTTCCT
1 CTTGCCTTCCT
25632281 TGGGTTGTAG
Statistics
Matches: 228, Mismatches: 118, Indels: 33
0.60 0.31 0.09
Matches are distributed among these distances:
42 2 0.01
43 64 0.28
44 102 0.45
45 58 0.25
46 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.24, T:0.20
Consensus pattern (44 bp):
CTTGCCTTCCTGCACCGACAGCGAAGCAGATCGAAGACACCAAC
Found at i:25632586 original size:44 final size:44
Alignment explanation
Indices: 25632537--25632656 Score: 181
Period size: 44 Copynumber: 2.7 Consensus size: 44
25632527 ACCCCAACCT
25632537 TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGT-AAGTCC
1 TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAA-TCC
*
25632581 TATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAATCC
1 TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAATCC
* *
25632625 TATCTCCCT-GAGCAACAGTGGAGTAGGTTGAA
1 TATCTCCCTGGA-CAGCAGTGGAATAGGTTGAA
25632657 AATAACAGAT
Statistics
Matches: 70, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
43 1 0.01
44 67 0.96
45 2 0.03
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.28
Consensus pattern (44 bp):
TATCTCCCTGGACAGCAGTGGAATAGGTTGAAGATTGTGAATCC
Found at i:25632778 original size:50 final size:50
Alignment explanation
Indices: 25632710--25632827 Score: 128
Period size: 50 Copynumber: 2.4 Consensus size: 50
25632700 AAGACATCAG
* * * * * *
25632710 TCTTATCGCCTTGACGTTGCAATGGAAAAGATTGAAGCTACAACGGCGAA
1 TCTTATCTCCCTGGCGTTGCAACGGAAAAGATTGAAGCCACAACGACGAA
* * * ** *
25632760 TCTTATTTCCCTGGCGTTGTAGCGGAGCAGATTGAAGCCACGACGACGAA
1 TCTTATCTCCCTGGCGTTGCAACGGAAAAGATTGAAGCCACAACGACGAA
25632810 TCTTATCTCCCTGGCGTT
1 TCTTATCTCCCTGGCGTT
25632828 AAGGCTTGGA
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 55 1.00
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.27
Consensus pattern (50 bp):
TCTTATCTCCCTGGCGTTGCAACGGAAAAGATTGAAGCCACAACGACGAA
Found at i:25633075 original size:44 final size:44
Alignment explanation
Indices: 25633020--25633233 Score: 140
Period size: 44 Copynumber: 4.9 Consensus size: 44
25633010 GAAGATGGCG
*
25633020 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* * *
25633064 AATCCTATCTCCCTGAAGTCGCAGTGGAGCAG-TCT-AAG-TAAGC
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGAT-TAAAGCCAA-T
* * * * *
25633107 AAACCTTATC-CTCCTAAAGTTGTAGT-GATGCAGACTGAAGATGGCGAAT
1 AATCC-TATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TTAA-A--GCCAAT
* * * *
25633156 --T-TTATCTCCATGAAGTTACAGTGAAGC-GATTAAAGCCAAT
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
* **
25633196 AATCCTATCTCACTGAAGTTGCAGTGGAGTGGATTAAA
1 AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA
25633234 ATCATAAATC
Statistics
Matches: 126, Mismatches: 26, Indels: 36
0.67 0.14 0.19
Matches are distributed among these distances:
40 5 0.04
42 4 0.03
43 34 0.27
44 59 0.47
45 16 0.13
46 4 0.03
47 1 0.01
49 1 0.01
50 2 0.02
ACGTcount: A:0.32, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
AATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAT
Found at i:25633403 original size:45 final size:45
Alignment explanation
Indices: 25633280--25633442 Score: 186
Period size: 45 Copynumber: 3.6 Consensus size: 45
25633270 GATCGCATCG
* * *
25633280 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACACAAGAAAGCG
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
*
25633325 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAATCA
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
* * * *
25633370 AGTCTTATCCCCCTAAAATTGCAGTGG-GCCAGACTAAATAAA-CA
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAG-CAGACTCAAGAAAGCA
* ** **
25633414 AATCCCATCTCCCTAAAGTTTTAGTGGAG
1 AGTCTTATCTCCCTAAAGTTGCAGTGGAG
25633443 TGGATTAGAA
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
44 23 0.23
45 78 0.77
ACGTcount: A:0.33, C:0.23, G:0.20, T:0.24
Consensus pattern (45 bp):
AGTCTTATCTCCCTAAAGTTGCAGTGGAGCAGACTCAAGAAAGCA
Found at i:25638889 original size:15 final size:15
Alignment explanation
Indices: 25638865--25638903 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
25638855 GCGAGCTCTG
*
25638865 ATACCAATAAATGTA
1 ATACCCATAAATGTA
25638880 ATACCCATAAATGTA
1 ATACCCATAAATGTA
25638895 ATACCCATA
1 ATACCCATA
25638904 CCCAGTCCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.49, C:0.21, G:0.05, T:0.26
Consensus pattern (15 bp):
ATACCCATAAATGTA
Found at i:25641973 original size:17 final size:18
Alignment explanation
Indices: 25641937--25641976 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
25641927 TATACATTAG
25641937 TTTTCCATGTTCACTTTA
1 TTTTCCATGTTCACTTTA
* *
25641955 TTTTGCATGTTTA-TTTA
1 TTTTCCATGTTCACTTTA
25641972 TTTTC
1 TTTTC
25641977 TTGTAAAACC
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.15, C:0.15, G:0.07, T:0.62
Consensus pattern (18 bp):
TTTTCCATGTTCACTTTA
Found at i:25644968 original size:5 final size:5
Alignment explanation
Indices: 25644936--25644966 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
25644926 TATGAATTAG
*
25644936 ATTGA ATTGA ATTGA ATTGA ATTGA AATGA A
1 ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA A
25644967 ATAAATGCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (5 bp):
ATTGA
Found at i:25646042 original size:27 final size:27
Alignment explanation
Indices: 25645999--25646111 Score: 145
Period size: 27 Copynumber: 4.1 Consensus size: 27
25645989 GATTATATCG
* *
25645999 CATTATTTGTTATTCGGCACTTTTACTA
1 CATTATTT-TTATTCGGTAGTTTTACTA
*
25646027 CATTATTTTTATTCGGTAGTTTTACTG
1 CATTATTTTTATTCGGTAGTTTTACTA
* * *
25646054 CATTATTGTTATTCAGTAGTTTTACTG
1 CATTATTTTTATTCGGTAGTTTTACTA
*
25646081 CATTATTTTTTATTAGGTAGTTTTACTA
1 CATTA-TTTTTATTCGGTAGTTTTACTA
25646109 CAT
1 CAT
25646112 CAAGTTATGC
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
27 46 0.61
28 29 0.39
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.53
Consensus pattern (27 bp):
CATTATTTTTATTCGGTAGTTTTACTA
Found at i:25646085 original size:54 final size:56
Alignment explanation
Indices: 25645998--25646107 Score: 161
Period size: 55 Copynumber: 2.0 Consensus size: 56
25645988 CGATTATATC
* *
25645998 GCATTATTTGTTATTCGGCACTTTTACTACATTA-TTTTTATTCGGTAGTTTTACT
1 GCATTATTTGTTATTCAGCACTTTTACTACATTATTTTTTATTAGGTAGTTTTACT
* * *
25646053 GCATTA-TTGTTATTCAGTAGTTTTACTGCATTATTTTTTATTAGGTAGTTTTACT
1 GCATTATTTGTTATTCAGCACTTTTACTACATTATTTTTTATTAGGTAGTTTTACT
25646108 ACATCAAGTT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
54 23 0.47
55 26 0.53
ACGTcount: A:0.21, C:0.12, G:0.14, T:0.54
Consensus pattern (56 bp):
GCATTATTTGTTATTCAGCACTTTTACTACATTATTTTTTATTAGGTAGTTTTACT
Found at i:25646254 original size:5 final size:5
Alignment explanation
Indices: 25646244--25646277 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
25646234 TTATGCTACA
*
25646244 TATTG TATTG TATTG TATTG TATTG TACTG TATT
1 TATTG TATTG TATTG TATTG TATTG TATTG TATT
25646278 AAATGGTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.21, C:0.03, G:0.18, T:0.59
Consensus pattern (5 bp):
TATTG
Found at i:25646831 original size:258 final size:259
Alignment explanation
Indices: 25646365--25646883 Score: 808
Period size: 258 Copynumber: 2.0 Consensus size: 259
25646355 AATTACTATG
* *
25646365 TAATGATATGAAATTCCAATGATGGGTCTGTGTTCTTCTGTTAATGCTAATATGCTTCACTATTT
1 TAATGATATGAAATTCCAATGATGGGTCTGTGTTCTTCTGTTAATGCTAATATGCTTAACTATAT
* * *
25646430 TTTCTATTTATGGGTGCTTAAATAATTGTTTGACTCATACTGAGATTTCATAAGCTCACCCCAAT
66 TTTCTATTTATGGGTGCTTAAATAAATGTTCGACTCACACTGAGATTTCATAAGCTCACCCCAAT
* * *
25646495 AGTGTTTAACTTTTCAGGTAAACCTTGAAACTAAAACCGGACTCGGAATACGGAGAATTACCCTG
131 AGTGTTTAACTTTTCAGGTAAACCTCGAAACTAAAACCAGACTCGGAATACGGAGAATCACCCTG
*
25646560 GACTTCAGACTATTTTTAA-AAGTATTAATCAATCTCTATTGGTTTTGGTTTATAATTTTTAAT
196 GACCTCAGACTATTTTTAATAAGTATTAATCAATCTCTATTGGTTTTGGTTTATAATTTTTAAT
* * *
25646623 TAATGATATGAAATTCCAATGATGGGTTTGTGTTCTTTTGTTAATGGTAATATGCTTAACTATAT
1 TAATGATATGAAATTCCAATGATGGGTCTGTGTTCTTCTGTTAATGCTAATATGCTTAACTATAT
* * *
25646688 TTTCTATTTATGGGTGTTTAAATAAATGTTCGACTCACACTGAGCTTTCATAAGCTCACCCCCAT
66 TTTCTATTTATGGGTGCTTAAATAAATGTTCGACTCACACTGAGATTTCATAAGCTCACCCCAAT
*** *
25646753 AGTGTTTAACTTTTCAGGTAAACCTCGAAACTAGGGCCAGACTC-GACATACGGAGAATCACCTT
131 AGTGTTTAACTTTTCAGGTAAACCTCGAAACTAAAACCAGACTCGGA-ATACGGAGAATCACCCT
* * * *
25646817 TGACCTCGGACTATTTTTAATAAGTATTAATTAGTCTCTATTGGTTTTGGTTTATAATTTTTAAT
195 GGACCTCAGACTATTTTTAATAAGTATTAATCAATCTCTATTGGTTTTGGTTTATAATTTTTAAT
25646882 TA
1 TA
25646884 TTTATGGTTT
Statistics
Matches: 236, Mismatches: 23, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
257 2 0.01
258 190 0.81
259 44 0.19
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (259 bp):
TAATGATATGAAATTCCAATGATGGGTCTGTGTTCTTCTGTTAATGCTAATATGCTTAACTATAT
TTTCTATTTATGGGTGCTTAAATAAATGTTCGACTCACACTGAGATTTCATAAGCTCACCCCAAT
AGTGTTTAACTTTTCAGGTAAACCTCGAAACTAAAACCAGACTCGGAATACGGAGAATCACCCTG
GACCTCAGACTATTTTTAATAAGTATTAATCAATCTCTATTGGTTTTGGTTTATAATTTTTAAT
Found at i:25650292 original size:11 final size:11
Alignment explanation
Indices: 25650276--25650305 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
25650266 TTAAATAGGT
*
25650276 AATTAAAACCG
1 AATTAAAACCA
25650287 AATTAAAACCA
1 AATTAAAACCA
25650298 AATTAAAA
1 AATTAAAA
25650306 TATCATTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.63, C:0.13, G:0.03, T:0.20
Consensus pattern (11 bp):
AATTAAAACCA
Found at i:25651180 original size:25 final size:25
Alignment explanation
Indices: 25651142--25651200 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 25
25651132 CAACTCGAGA
** *
25651142 GAGCTTACTGATATTCAGCTCGCAT
1 GAGCTTACCAATATTCAGCTCACAT
** *
25651167 GAGCTTACCAATATTTGGCTCATAT
1 GAGCTTACCAATATTCAGCTCACAT
25651192 GAGCTTACC
1 GAGCTTACC
25651201 GTTTACAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (25 bp):
GAGCTTACCAATATTCAGCTCACAT
Found at i:25651244 original size:25 final size:24
Alignment explanation
Indices: 25651184--25651248 Score: 76
Period size: 25 Copynumber: 2.7 Consensus size: 24
25651174 CCAATATTTG
* * * *
25651184 GCTCATATGAGCTTACCGTTTACA
1 GCTCGTATGAGCATACCGTTCAAA
*
25651208 GCTCGTAAGAGCATACCGATTCAAA
1 GCTCGTATGAGCATACCG-TTCAAA
25651233 GCTCGTATGAGCATAC
1 GCTCGTATGAGCATAC
25651249 ATGTACAGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 15 0.44
25 19 0.56
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (24 bp):
GCTCGTATGAGCATACCGTTCAAA
Found at i:25658656 original size:16 final size:16
Alignment explanation
Indices: 25658635--25658666 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
25658625 AAGGGGATGA
25658635 AACTTGATGGACAATT
1 AACTTGATGGACAATT
25658651 AACTTGATGGACAATT
1 AACTTGATGGACAATT
25658667 CCAATGGATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (16 bp):
AACTTGATGGACAATT
Found at i:25662507 original size:28 final size:26
Alignment explanation
Indices: 25662462--25662514 Score: 63
Period size: 28 Copynumber: 2.0 Consensus size: 26
25662452 TATGACGTGA
*
25662462 ATTTAATGTATGATTTTTATTAATATAT
1 ATTTAATGTATGAATTTT-TT-ATATAT
25662490 ATTTAATAGT-TGAATTTTTTATATA
1 ATTTAAT-GTATGAATTTTTTATATA
25662515 AAATATGTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 2 0.09
28 14 0.61
29 2 0.09
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.57
Consensus pattern (26 bp):
ATTTAATGTATGAATTTTTTATATAT
Found at i:25667536 original size:22 final size:23
Alignment explanation
Indices: 25667503--25667561 Score: 77
Period size: 24 Copynumber: 2.6 Consensus size: 23
25667493 AGAATGATAC
*
25667503 ATGA-AAACTTAAAATAAT-TAT
1 ATGATAAATTTAAAATAATATAT
25667524 ATGATAAATTTAAAATAATAATAT
1 ATGATAAATTTAAAATAAT-ATAT
*
25667548 GTGATAAATTTAAA
1 ATGATAAATTTAAA
25667562 CAACATTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 4 0.12
22 13 0.39
24 16 0.48
ACGTcount: A:0.56, C:0.02, G:0.07, T:0.36
Consensus pattern (23 bp):
ATGATAAATTTAAAATAATATAT
Found at i:25668418 original size:6 final size:6
Alignment explanation
Indices: 25668407--25668438 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
25668397 TTCATAAAAC
25668407 AAAATA AAAATA AAAAT- AAAAT- AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAA
25668439 ACGACGAGTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:25668439 original size:17 final size:17
Alignment explanation
Indices: 25668402--25668438 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
25668392 ACAGATTCAT
25668402 AAAACAAAATAAAAATA
1 AAAACAAAATAAAAATA
*
25668419 AAAATAAAAT-AAAATA
1 AAAACAAAATAAAAATA
25668435 AAAA
1 AAAA
25668439 ACGACGAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.84, C:0.03, G:0.00, T:0.14
Consensus pattern (17 bp):
AAAACAAAATAAAAATA
Found at i:25672991 original size:52 final size:53
Alignment explanation
Indices: 25672929--25673072 Score: 166
Period size: 52 Copynumber: 2.7 Consensus size: 53
25672919 TTATTGTAAA
* * *
25672929 TATGTAAACTAATTATAGTAAATGTATATTAAGTAATTATGATTAA-TTATAT
1 TATGTAAACTAATTATGGTAAATATATATTAAGTAATTATGATGAATTTATAT
* * * * *
25672981 TATGTGAACTAATTATGGTTAATATATATTAATTGATTATGGTGAATTTATAT
1 TATGTAAACTAATTATGGTAAATATATATTAAGTAATTATGATGAATTTATAT
* * *
25673034 TA-GATAAACTAATTATGGTAAATCTGTATCAAGTAATTA
1 TATG-TAAACTAATTATGGTAAATATATATTAAGTAATTA
25673073 ACTGTTTACT
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
52 39 0.52
53 36 0.48
ACGTcount: A:0.41, C:0.03, G:0.12, T:0.43
Consensus pattern (53 bp):
TATGTAAACTAATTATGGTAAATATATATTAAGTAATTATGATGAATTTATAT
Found at i:25677093 original size:3 final size:3
Alignment explanation
Indices: 25677085--25677127 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
25677075 TTAAGAAAAG
25677085 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
25677128 TTATTGTTAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:25682977 original size:28 final size:28
Alignment explanation
Indices: 25682918--25683076 Score: 133
Period size: 28 Copynumber: 5.7 Consensus size: 28
25682908 AAAAACGCCA
** * * * *
25682918 AAAAAGGAAGCCTTCATGGCGATCTCTT
1 AAAAAGGAAGCCTTTGTGGTGATTTATG
*
25682946 AAAAAGGAAGCCTTTGTGGTGGTTTATG
1 AAAAAGGAAGCCTTTGTGGTGATTTATG
*
25682974 AAAAAGGAAGCCTTTGTGGAGATTTATG
1 AAAAAGGAAGCCTTTGTGGTGATTTATG
* * * ** *
25683002 AATATGGAAGCCTTTATGGCAATCTATG
1 AAAAAGGAAGCCTTTGTGGTGATTTATG
* * *
25683030 AAAAAGGAAGCATTTGTGGTAATCTATG
1 AAAAAGGAAGCCTTTGTGGTGATTTATG
*
25683058 --AAGGGAATGCCTTTGTGGT
1 AAAAAGGAA-GCCTTTGTGGT
25683077 ACACTTTAAA
Statistics
Matches: 108, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
26 6 0.06
27 10 0.09
28 92 0.85
ACGTcount: A:0.32, C:0.11, G:0.27, T:0.30
Consensus pattern (28 bp):
AAAAAGGAAGCCTTTGTGGTGATTTATG
Found at i:25702932 original size:16 final size:16
Alignment explanation
Indices: 25702911--25702943 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
25702901 TTCGCTGTAT
25702911 TGGAATAAAGGCGTAA
1 TGGAATAAAGGCGTAA
*
25702927 TGGAATAGAGGCGTAA
1 TGGAATAAAGGCGTAA
25702943 T
1 T
25702944 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGAATAAAGGCGTAA
Found at i:25706843 original size:16 final size:16
Alignment explanation
Indices: 25706822--25706852 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
25706812 TACCAAATAC
25706822 TTGTTTTTTAATCAAG
1 TTGTTTTTTAATCAAG
25706838 TTGTTTTTTAATCAA
1 TTGTTTTTTAATCAA
25706853 TCATAATAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.06, G:0.10, T:0.58
Consensus pattern (16 bp):
TTGTTTTTTAATCAAG
Found at i:25706851 original size:47 final size:49
Alignment explanation
Indices: 25706797--25706893 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 49
25706787 AAAATAGAAC
* *
25706797 TTTAATCAATAAT-GTTAC-CAAATACTTGTTTTTTAATCAAGTTGTTT
1 TTTAATCAATAATAATAACACAAATACTTGTTTTTTAATCAAGTTGTTT
* * *
25706844 TTTAATCAATCATAATAACAATAAATATTTGTTTTTTAATCAAGTTGTTT
1 TTTAATCAATAATAATAAC-ACAAATACTTGTTTTTTAATCAAGTTGTTT
25706894 ACTTGATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
47 12 0.29
48 3 0.07
50 27 0.64
ACGTcount: A:0.35, C:0.09, G:0.07, T:0.48
Consensus pattern (49 bp):
TTTAATCAATAATAATAACACAAATACTTGTTTTTTAATCAAGTTGTTT
Found at i:25715166 original size:16 final size:16
Alignment explanation
Indices: 25715145--25715176 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
25715135 GTTTTGTTGT
*
25715145 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
25715161 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
25715177 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:25715467 original size:51 final size:51
Alignment explanation
Indices: 25715404--25715594 Score: 210
Period size: 51 Copynumber: 3.8 Consensus size: 51
25715394 TCGGTTCCCA
* * *
25715404 TAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
* * *
25715455 TAGTAGCCTGCACATAGTACTACACACGTGATCGA--AGCTATCCGGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACACG
* * * * * *
25715506 TAGTAGCCTGCACATTGTACTACACATGCGACCTATCA-T-TCTGGTTCATG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTACACG
*
25715556 TAGTAGCCTACACATAGTACTACACACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
25715595 TTCACTTTCA
Statistics
Matches: 115, Mismatches: 19, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
49 4 0.03
50 38 0.33
51 70 0.61
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACG
Found at i:25715583 original size:101 final size:102
Alignment explanation
Indices: 25715402--25715586 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
25715392 TATCGGTTCC
* *
25715402 CATAGTAGCATGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCATGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
25715467 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
* * * * * *
25715504 CATAGTAGCCTGCACATTGTACTACACATGCGACCTATCA-T-TCTGGTTCATGTAGTAGCCTAC
1 CATAGTAGCATGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTAC
25715567 ACATAGTACTACACACGTGA
65 ACATAGTACTACACACGTGA
25715587 CCATCACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
101 37 0.50
102 33 0.45
103 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (102 bp):
CATAGTAGCATGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTACA
CATAGTACTACACACGTGATCGAAGCTATCCGGTACG
Found at i:25729506 original size:19 final size:19
Alignment explanation
Indices: 25729482--25729519 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
25729472 TAACCTCGAA
25729482 TCGATCTAGACTGTGAGGT
1 TCGATCTAGACTGTGAGGT
25729501 TCGATCTAGACTGTGAGGT
1 TCGATCTAGACTGTGAGGT
25729520 CGAGAGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.16, G:0.32, T:0.32
Consensus pattern (19 bp):
TCGATCTAGACTGTGAGGT
Found at i:25731526 original size:397 final size:397
Alignment explanation
Indices: 25730793--25731589 Score: 1434
Period size: 397 Copynumber: 2.0 Consensus size: 397
25730783 TGGTCTACGG
* *
25730793 TTTCACAAGATGATTTCATGAAAATTTCGTTTGAAAATTTTGACGTTTGGGCACTCAATTTAGTC
1 TTTCACAAGATGATTTAATGAAAATTTCGTTCGAAAATTTTGACGTTTGGGCACTCAATTTAGTC
*
25730858 AAAAGGACTAAATTGTAAAAAGTATAAAAGTTGAGTTCTATATGTTAGAGGTGTCCAATTGTTAT
66 AAAAGGACTAAATTGTAAAAAGTATAAAAGTTGAGTTCCATATGTTAGAGGTGTCCAATTGTTAT
25730923 GAAATTTTAAATTGGAGGTCTTTATATGGTAATTAGACCATTGGTTAAGTTGGTGGACAAAAATG
131 GAAATTTTAAATTGGAGGTCTTTATATGGTAATTAGACCATTGGTTAAGTTGGTGGACAAAAATG
* *
25730988 GGTATGGTTGGGCATGTTTCCAAAGTTTTTCATTAAGGGCATTTTGGTCATTTAGTTATTAAAAT
196 GGTATGGTTGGGCATGTTTCCAAAGTTTTCCATTAAGAGCATTTTGGTCATTTAGTTATTAAAAT
* * *
25731053 GATTTAAAAACAAAATTAAAAGCCAATTTTTTGCCATATTCAACCCCTAGTACGAAAGTTGCATT
261 GAATTAAAAACAAAATTAAAAGCCAATTTTTTGCCATATTCAACCCCTAGGACGAAAGTTGCATG
* *
25731118 AATAAACCATGGATAAGGTTTTTTAAGCTTCCAAGCTCGATTATAATTCCATTCTATCCCCGTTT
326 AATAAACCATGGATAAGGTTTTTCAAGCTTCCAAGCTCAATTATAATTCCATTCTATCCCCGTTT
25731183 TTAATGA
391 TTAATGA
*
25731190 TTTCACAAGATGATTTAATGAAAATTTTGTTCGAAAATTTTGACGTTTGGGCACTCAATTTAGTC
1 TTTCACAAGATGATTTAATGAAAATTTCGTTCGAAAATTTTGACGTTTGGGCACTCAATTTAGTC
*
25731255 AAAAGGACTAAATTGTAAAAAGTATAAAAGTTGAGTTCCATATTTTAGAGGTGTCCAATTGTTAT
66 AAAAGGACTAAATTGTAAAAAGTATAAAAGTTGAGTTCCATATGTTAGAGGTGTCCAATTGTTAT
25731320 GAAATTTTAAATTGGAGGTCTTTATATGGTAATTAGACCATTGGTTAAGTTGGTGGACAAAAATG
131 GAAATTTTAAATTGGAGGTCTTTATATGGTAATTAGACCATTGGTTAAGTTGGTGGACAAAAATG
*
25731385 GGTATGGTTGGGCATGTTTCCAAAGTTTTCCATTAAGAGTATTTTGGTCATTTAGTTATTAAAAT
196 GGTATGGTTGGGCATGTTTCCAAAGTTTTCCATTAAGAGCATTTTGGTCATTTAGTTATTAAAAT
25731450 GAATTAAAAACAAAATTAAAAGCCAA-TTTTTGTCCATATTCAACCCCTAGGACGAAAGTTGCAT
261 GAATTAAAAACAAAATTAAAAGCCAATTTTTTG-CCATATTCAACCCCTAGGACGAAAGTTGCAT
* * *
25731514 GGATAAACCATGGATAAGGTTTTTCAAGCTTCCAAGCTCAATTGTAATTCCGTTCTATCCCCGTT
325 GAATAAACCATGGATAAGGTTTTTCAAGCTTCCAAGCTCAATTATAATTCCATTCTATCCCCGTT
25731579 TTTAATGA
390 TTTAATGA
25731587 TTT
1 TTT
25731590 TTACATTTTT
Statistics
Matches: 383, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
396 6 0.02
397 377 0.98
ACGTcount: A:0.33, C:0.12, G:0.18, T:0.37
Consensus pattern (397 bp):
TTTCACAAGATGATTTAATGAAAATTTCGTTCGAAAATTTTGACGTTTGGGCACTCAATTTAGTC
AAAAGGACTAAATTGTAAAAAGTATAAAAGTTGAGTTCCATATGTTAGAGGTGTCCAATTGTTAT
GAAATTTTAAATTGGAGGTCTTTATATGGTAATTAGACCATTGGTTAAGTTGGTGGACAAAAATG
GGTATGGTTGGGCATGTTTCCAAAGTTTTCCATTAAGAGCATTTTGGTCATTTAGTTATTAAAAT
GAATTAAAAACAAAATTAAAAGCCAATTTTTTGCCATATTCAACCCCTAGGACGAAAGTTGCATG
AATAAACCATGGATAAGGTTTTTCAAGCTTCCAAGCTCAATTATAATTCCATTCTATCCCCGTTT
TTAATGA
Found at i:25732270 original size:51 final size:51
Alignment explanation
Indices: 25732157--25732331 Score: 160
Period size: 51 Copynumber: 3.5 Consensus size: 51
25732147 TCACGTGTTG
* * * * * *
25732157 AGTACTATGTGCAGGCTACTACGTGTATCGGA-A-TGATAGGTCGCATGTGT
1 AGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATA-ATCACATGTGT
* *
25732207 AGTATTATGTGCAGGCTACTATGCGTACCGGATAGT-TTCAATCACGA-GTGT
1 AGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAAT-AATCAC-ATGTGT
* * * * **
25732258 AGTACTATGTGCAGGCTACTACGTGTATCGGATGGTAATGGTCACATGTGT
1 AGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATAATCACATGTGT
*
25732309 AGTACTATGTGCAGGATACTATG
1 AGTACTATGTGCAGGCTACTATG
25732332 TGAAGTGAAC
Statistics
Matches: 102, Mismatches: 17, Indels: 11
0.78 0.13 0.08
Matches are distributed among these distances:
50 29 0.28
51 69 0.68
52 4 0.04
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (51 bp):
AGTACTATGTGCAGGCTACTATGCGTACCGGATAGTAATAATCACATGTGT
Found at i:25737962 original size:101 final size:102
Alignment explanation
Indices: 25737835--25738019 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
25737825 AATGTGATGG
* *
25737835 TCACGTGTGGAGTACTATGTGCAGGCTACTACGTGTACCGGAATGAT-A-GGTCGCATGTGTAGT
1 TCACGTGTGGAATACTATGTGCAGGCTACTACGTGTACCGG-ATGATAATGGTCACATGTGTAGT
*
25737898 ACTATGTGCAGGCTACTATGCGTACCGGAGAGTTTCGA
65 ACTATGTGCAGGATACTATGCGTACCGGAGAGTTTCGA
* * * * *
25737936 TCACGTGTGTAATATTATGTGCAGGCTACTACGTGTATCGGATGGTAATTGTCACATGTGTAGTA
1 TCACGTGTGGAATACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
25738001 CTATGTGCAGGATACTATG
66 CTATGTGCAGGATACTATG
25738020 TGAAGCGAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
100 4 0.05
101 38 0.51
102 32 0.43
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.31
Consensus pattern (102 bp):
TCACGTGTGGAATACTATGTGCAGGCTACTACGTGTACCGGATGATAATGGTCACATGTGTAGTA
CTATGTGCAGGATACTATGCGTACCGGAGAGTTTCGA
Found at i:25737996 original size:51 final size:50
Alignment explanation
Indices: 25737834--25738017 Score: 194
Period size: 51 Copynumber: 3.6 Consensus size: 50
25737824 GAATGTGATG
* * * *
25737834 GTCACGTGTGGAGTACTATGTGCAGGCTACTACGTGTACCGGAATGATA-G
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGG-ATGGTATT
* * *
25737884 GTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGA-GAGT-TT
1 GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATG-GTATT
* * * *
25737933 CGATCACGTGTGTAATATTATGTGCAGGCTACTACGTGTATCGGATGGTAATT
1 -G-TCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGT-ATT
*
25737986 GTCACATGTGTAGTACTATGTGCAGGATACTA
1 GTCACATGTGTAGTACTATGTGCAGGCTACTA
25738018 TGTGAAGCGA
Statistics
Matches: 109, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
48 1 0.01
49 2 0.02
50 38 0.35
51 64 0.59
52 2 0.02
53 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (50 bp):
GTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACCGGATGGTATT
Found at i:25739787 original size:24 final size:23
Alignment explanation
Indices: 25739743--25739845 Score: 86
Period size: 24 Copynumber: 4.5 Consensus size: 23
25739733 AATGATGAAT
* *
25739743 TTAAAATAATAATA-TTGATAAA
1 TTAAAATAATAATACATAATAAA
*
25739765 TTATAAATAATAATGCATAATAAA
1 TTA-AAATAATAATACATAATAAA
* *
25739789 TCTAAGATAATAATATATAATAAA
1 T-TAAAATAATAATACATAATAAA
* *
25739813 TT-AAACAATATTA-ATAATAAAA
1 TTAAAATAATAATACATAAT-AAA
*
25739835 CTAAAATAATA
1 TTAAAATAATA
25739846 TTAAGTTTAA
Statistics
Matches: 65, Mismatches: 11, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
21 5 0.08
22 15 0.23
23 18 0.28
24 25 0.38
25 2 0.03
ACGTcount: A:0.60, C:0.04, G:0.03, T:0.33
Consensus pattern (23 bp):
TTAAAATAATAATACATAATAAA
Found at i:25740151 original size:17 final size:17
Alignment explanation
Indices: 25740118--25740151 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
25740108 AAATAAAATG
**
25740118 GGAGATAAAATTTAAAA
1 GGAGATAAAATACAAAA
25740135 GGAGATAAAATACAAAA
1 GGAGATAAAATACAAAA
25740152 AAAGGATCGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.62, C:0.03, G:0.18, T:0.18
Consensus pattern (17 bp):
GGAGATAAAATACAAAA
Found at i:25746181 original size:6 final size:6
Alignment explanation
Indices: 25746158--25746195 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
25746148 TTATTGAACA
*
25746158 TAAAAT TAGAAT TGAAAAT TAAAAT TAAAAT TAAAAT T
1 TAAAAT TAAAAT T-AAAAT TAAAAT TAAAAT TAAAAT T
25746196 CCTTTTAGGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 24 0.83
7 5 0.17
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (6 bp):
TAAAAT
Found at i:25746182 original size:19 final size:18
Alignment explanation
Indices: 25746158--25746195 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
25746148 TTATTGAACA
*
25746158 TAAAATTAGAATTGAAAAT
1 TAAAATTAAAATT-AAAAT
25746177 TAAAATTAAAATTAAAAT
1 TAAAATTAAAATTAAAAT
25746195 T
1 T
25746196 CCTTTTAGGC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
TAAAATTAAAATTAAAAT
Found at i:25752387 original size:181 final size:182
Alignment explanation
Indices: 25752083--25752436 Score: 629
Period size: 181 Copynumber: 2.0 Consensus size: 182
25752073 CTGCAACTTT
** *
25752083 TAATTCAATTCATTCCTTATCATGTTTAACAATGTCTTGGAAAAATTCTACGGCAACTCAACCAT
1 TAATTCAATTCATTCCTTATCATGTTTAACAATGTCTAAGAAAAATTCCACGGCAACTCAACCAT
25752148 TTATGAACTTGGAATCTAAATCATAAGCTCTTTCGAGATATTAGATTTGTCACTTAG-AAAAAAT
66 TTATGAACTTGGAATCTAAATCATAAGCTCTTTCGAGATATTAGATTTGTCACTTAGAAAAAAAT
* *
25752212 GTGCATATTTCTATGTCACTGTTTAACTAAGGATTCCTTAAAAAAATGTTCA
131 ATGCATATTTCTATGTCACTATTTAACTAAGGATTCCTTAAAAAAATGTTCA
*
25752264 TAATTCAATTCATTCCTTATCATGTTTAACAATGTCTAAGAAAAATTCCATGGCAACTCAACCAT
1 TAATTCAATTCATTCCTTATCATGTTTAACAATGTCTAAGAAAAATTCCACGGCAACTCAACCAT
*
25752329 TTATGAACTTGGAATCTAAATCATAAGCTCTTTCGAGATCTTAGATTTGTCACTTAGAAAAAAAT
66 TTATGAACTTGGAATCTAAATCATAAGCTCTTTCGAGATATTAGATTTGTCACTTAGAAAAAAAT
*
25752394 ATGCATATTTCTATTTCACTATTTAACTAAGGATTCCTTAAAA
131 ATGCATATTTCTATGTCACTATTTAACTAAGGATTCCTTAAAA
25752437 TTTATGCAAA
Statistics
Matches: 164, Mismatches: 8, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
181 117 0.71
182 47 0.29
ACGTcount: A:0.36, C:0.17, G:0.11, T:0.36
Consensus pattern (182 bp):
TAATTCAATTCATTCCTTATCATGTTTAACAATGTCTAAGAAAAATTCCACGGCAACTCAACCAT
TTATGAACTTGGAATCTAAATCATAAGCTCTTTCGAGATATTAGATTTGTCACTTAGAAAAAAAT
ATGCATATTTCTATGTCACTATTTAACTAAGGATTCCTTAAAAAAATGTTCA
Found at i:25756248 original size:27 final size:27
Alignment explanation
Indices: 25756218--25756332 Score: 142
Period size: 27 Copynumber: 4.3 Consensus size: 27
25756208 TATAACAGTT
*
25756218 ATTTTACCC-TACGGGGGTATTTCGATA
1 ATTTTACCCAT-CGAGGGTATTTCGATA
* * * *
25756245 ATTTTATCCATCGAAGGTATTTTGGTA
1 ATTTTACCCATCGAGGGTATTTCGATA
25756272 ATTTTACCCATCGAGGGTATTTCGATA
1 ATTTTACCCATCGAGGGTATTTCGATA
* * *
25756299 ATTTTACCCTTCGGGGGTATTTCCATA
1 ATTTTACCCATCGAGGGTATTTCGATA
25756326 ATTTTAC
1 ATTTTAC
25756333 AACCTTTTCG
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
27 74 0.99
28 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.18, T:0.41
Consensus pattern (27 bp):
ATTTTACCCATCGAGGGTATTTCGATA
Found at i:25757758 original size:25 final size:25
Alignment explanation
Indices: 25757721--25757774 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
25757711 TGAACCTCTA
25757721 ACCTCCTTACCACACCTGTGACGCC
1 ACCTCCTTACCACACCTGTGACGCC
* * *
25757746 ACCTCCTTGCCACACTTGTGTCGCC
1 ACCTCCTTACCACACCTGTGACGCC
25757771 ACCT
1 ACCT
25757775 TGCCACTACA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.17, C:0.46, G:0.13, T:0.24
Consensus pattern (25 bp):
ACCTCCTTACCACACCTGTGACGCC
Found at i:25760645 original size:92 final size:90
Alignment explanation
Indices: 25760352--25760658 Score: 296
Period size: 92 Copynumber: 3.3 Consensus size: 90
25760342 GTAACCATCC
* * * *
25760352 GATAACACGTTAGTTTGCTCATAAGAGTTATTCCAACTAATAACATGTTAGATTG-ACATAGT-A
1 GATAACACG-TCGATTGCTCATAAGAGCTATTCCAACTGATAACATG-TAGA-TGCACATAGTGA
*
25760415 CAAAGATTGTAGGCTAAATATTCTCCCTT
63 -AAAGCTTGTAGGCTAAATATTCTCCCTT
* * * * * * * * *
25760444 GATGACACGCCAAATTGCTCATAACATCTATTCCAAATGATAACACGATAGATACACATAGTGTA
1 GATAACACGTC-GATTGCTCATAAGAGCTATTCCAACTGATAACATG-TAGATGCACATAGTGAA
**
25760509 AAGCCCGTAGGCTAAATATTCTCTCC-T
64 AAGCTTGTAGGCTAAATATTCTC-CCTT
* * * * *
25760536 AATAACACGCTAGATTGCTAATAAGAGCTATTCCAACCGATAACATGTCAGATGCACATGGTGAA
1 GATAACACG-TCGATTGCTCATAAGAGCTATTCCAACTGATAACATGT-AGATGCACATAGTGAA
*
25760601 AAGCTTATAGGCTAAATATTCTCCCTT
64 AAGCTTGTAGGCTAAATATTCTCCCTT
*
25760628 GATAACATGTCGTATTGCTCATAAGAGCTAT
1 GATAACACGTCG-ATTGCTCATAAGAGCTAT
25760659 AACACGCCAG
Statistics
Matches: 169, Mismatches: 38, Indels: 16
0.76 0.17 0.07
Matches are distributed among these distances:
91 6 0.04
92 161 0.95
93 2 0.01
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (90 bp):
GATAACACGTCGATTGCTCATAAGAGCTATTCCAACTGATAACATGTAGATGCACATAGTGAAAA
GCTTGTAGGCTAAATATTCTCCCTT
Found at i:25760790 original size:19 final size:19
Alignment explanation
Indices: 25760766--25760804 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
25760756 TAAACACAAA
25760766 ACTAAAAAAAAGAAAAATT
1 ACTAAAAAAAAGAAAAATT
* * *
25760785 ACTAAATAAATGGAAAATT
1 ACTAAAAAAAAGAAAAATT
25760804 A
1 A
25760805 AAATAAAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.67, C:0.05, G:0.08, T:0.21
Consensus pattern (19 bp):
ACTAAAAAAAAGAAAAATT
Done.