Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 59 of 290
Found at i:19524582 original size:37 final size:37
Alignment explanation
Indices: 19524538--19524683 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
19524528 GATAGCTTTA
*
19524538 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
19524575 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
19524612 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
19524649 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
19524684 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:19540311 original size:24 final size:24
Alignment explanation
Indices: 19540257--19540311 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
19540247 TAAAATTAAT
*
19540257 AAATATTTTATAATATAAAAGATG
1 AAATATTTTATAATATAAAACATG
* *
19540281 AAGAT-TTTAATAGTAT-AAACATG
1 AA-ATATTTTATAATATAAAACATG
19540304 AAATATTT
1 AAATATTT
19540312 GTTTTAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 2 0.08
23 11 0.42
24 11 0.42
25 2 0.08
ACGTcount: A:0.51, C:0.02, G:0.09, T:0.38
Consensus pattern (24 bp):
AAATATTTTATAATATAAAACATG
Found at i:19540429 original size:28 final size:29
Alignment explanation
Indices: 19540398--19540459 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
19540388 AACTTCAAAG
* *
19540398 TTAAATTTTA-ATTAAATATTAATTATTA
1 TTAAATTCTATATAAAATATTAATTATTA
*
19540426 TTAAA-TCTATATAAAATATTATTTATTA
1 TTAAATTCTATATAAAATATTAATTATTA
*
19540454 TAAAAT
1 TTAAAT
19540460 AATTTTTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 3 0.11
28 25 0.89
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (29 bp):
TTAAATTCTATATAAAATATTAATTATTA
Found at i:19540533 original size:15 final size:14
Alignment explanation
Indices: 19540499--19540539 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
19540489 TAAATTTCAA
*
19540499 AAAAATTATCATAC
1 AAAAATTATAATAC
19540513 AAAAATATATAATAC
1 AAAAAT-TATAATAC
19540528 AAAAATT-TAATA
1 AAAAATTATAATA
19540540 AGTGTCATTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 5 0.20
14 7 0.28
15 13 0.52
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.29
Consensus pattern (14 bp):
AAAAATTATAATAC
Found at i:19545336 original size:12 final size:12
Alignment explanation
Indices: 19545298--19545336 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
19545288 TCTCTCTCAC
*
19545298 CTTCTTCTTCTT
1 CTTCCTCTTCTT
* *
19545310 CTTCCTATTCCT
1 CTTCCTCTTCTT
19545322 CTTCCTCTTCTT
1 CTTCCTCTTCTT
19545334 CTT
1 CTT
19545337 GTAGTGCTAG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.03, C:0.38, G:0.00, T:0.59
Consensus pattern (12 bp):
CTTCCTCTTCTT
Found at i:19564505 original size:18 final size:18
Alignment explanation
Indices: 19564478--19564520 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
19564468 AATATATAAT
*
19564478 TATATTTTAAAAATAAAA
1 TATATATTAAAAATAAAA
*
19564496 TATATATTAAAATTAAAA
1 TATATATTAAAAATAAAA
19564514 TAT-TATT
1 TATATATT
19564521 TTATTTTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TATATATTAAAAATAAAA
Found at i:19565272 original size:24 final size:22
Alignment explanation
Indices: 19565232--19565302 Score: 79
Period size: 24 Copynumber: 3.1 Consensus size: 22
19565222 TTTTTTTTTA
* *
19565232 TTAAAATTTTTGAAATATATAT
1 TTAAAAATTTTAAAATATATAT
*
19565254 TTAAAACATTTTATTAATATATATT
1 TTAAAA-ATTTTA-AAATATATA-T
*
19565279 TTTAAAATTTTAAAATATATAT
1 TTAAAAATTTTAAAATATATAT
19565301 TT
1 TT
19565303 TGAAATTACT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
22 9 0.22
23 12 0.29
24 14 0.34
25 6 0.15
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (22 bp):
TTAAAAATTTTAAAATATATAT
Found at i:19565324 original size:22 final size:22
Alignment explanation
Indices: 19565299--19565351 Score: 65
Period size: 21 Copynumber: 2.4 Consensus size: 22
19565289 TAAAATATAT
19565299 ATTTTGAAATTACT-TTTTTTAA
1 ATTTT-AAATTACTATTTTTTAA
*
19565321 ATTTTAAA-TATTATTTTTTAA
1 ATTTTAAATTACTATTTTTTAA
19565342 ATATTTAAAT
1 AT-TTTAAAT
19565352 ATTTTAAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 3 0.11
21 13 0.48
22 11 0.41
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
ATTTTAAATTACTATTTTTTAA
Found at i:19565337 original size:21 final size:22
Alignment explanation
Indices: 19565313--19565354 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 22
19565303 TGAAATTACT
19565313 TTTTTTAAAT-TTTAAATATTA
1 TTTTTTAAATATTTAAATATTA
19565334 TTTTTTAAATATTTAAATATT
1 TTTTTTAAATATTTAAATATT
19565355 TTAAACTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTTTAAATATTTAAATATTA
Found at i:19565358 original size:17 final size:17
Alignment explanation
Indices: 19565336--19565368 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
19565326 AAATATTATT
19565336 TTTTAAA-TATTTAAATA
1 TTTTAAACT-TTTAAATA
19565353 TTTTAAACTTTTAAAT
1 TTTTAAACTTTTAAAT
19565369 TTGTTATTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 14 0.93
18 1 0.07
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTAAACTTTTAAATA
Found at i:19566742 original size:14 final size:15
Alignment explanation
Indices: 19566723--19566755 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
19566713 ATCTTTAAAA
19566723 ATAATTTAAAA-ATT
1 ATAATTTAAAATATT
19566737 ATAATTTAAAATATT
1 ATAATTTAAAATATT
19566752 ATAA
1 ATAA
19566756 AACAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATAATTTAAAATATT
Found at i:19566843 original size:31 final size:30
Alignment explanation
Indices: 19566730--19566854 Score: 92
Period size: 31 Copynumber: 3.9 Consensus size: 30
19566720 AAAATAATTT
* *
19566730 AAAAATTATAATTTAAAATATTATAAAACAA
1 AAAAATAAT-ATTTAAAATATTATAAAATAA
* *
19566761 ATTAAATAATATTTAAATTATTATAAAACTAA
1 A-AAAATAATATTTAAAATATTATAAAA-TAA
*
19566793 TAACAAATTTAAAAGTTTAAAATATT-TAAATATTAA
1 -AA-AAA--TAATA-TTTAAAATATTATAAA-A-TAA
*
19566829 AAAAATAATATTTAAAAT-TTAAAAAA
1 AAAAATAATATTTAAAATATTATAAAA
19566855 AGTAATTTTA
Statistics
Matches: 75, Mismatches: 10, Indels: 19
0.72 0.10 0.18
Matches are distributed among these distances:
30 3 0.04
31 29 0.39
32 12 0.16
33 4 0.05
34 3 0.04
35 10 0.13
36 14 0.19
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.36
Consensus pattern (30 bp):
AAAAATAATATTTAAAATATTATAAAATAA
Found at i:19566853 original size:23 final size:23
Alignment explanation
Indices: 19566813--19566870 Score: 86
Period size: 22 Copynumber: 2.6 Consensus size: 23
19566803 AAAAGTTTAA
19566813 AATATTT-AAATATTAAAAAAAT
1 AATATTTAAAATATTAAAAAAAT
19566835 AATATTTAAAAT-TTAAAAAAAGT
1 AATATTTAAAATATTAAAAAAA-T
19566858 AAT-TTTAAAATAT
1 AATATTTAAAATAT
19566871 ATATTTTAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
22 24 0.73
23 9 0.27
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (23 bp):
AATATTTAAAATATTAAAAAAAT
Found at i:19566883 original size:22 final size:22
Alignment explanation
Indices: 19566858--19566937 Score: 97
Period size: 24 Copynumber: 3.5 Consensus size: 22
19566848 TAAAAAAAGT
19566858 AATTTTAAAATATATATTTTAA
1 AATTTTAAAATATATATTTTAA
*
19566880 AATTTTAAAATATATATTAATAA
1 AATTTTAAAATATATATT-TTAA
* *
19566903 AATATTTTAAATATATATTTCAAA
1 AAT-TTTAAAATATATATTT-TAA
*
19566927 AATATTAAAAT
1 AATTTTAAAAT
19566938 TAATAATAAT
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
22 18 0.37
23 12 0.24
24 19 0.39
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTTTAAAATATATATTTTAA
Found at i:19566904 original size:37 final size:37
Alignment explanation
Indices: 19566822--19566907 Score: 99
Period size: 36 Copynumber: 2.4 Consensus size: 37
19566812 AAATATTTAA
*
19566822 ATATTAAAAAAATA-ATATTTAAAATTTAAAAAAAGT
1 ATATTAATAAAATATATATTTAAAATTTAAAAAAAGT
* * *
19566858 A-ATT-TTAAAATATATATTTTAAAATTTTAAAATA-T
1 ATATTAATAAAATATATA-TTTAAAATTTAAAAAAAGT
19566893 ATATTAATAAAATAT
1 ATATTAATAAAATAT
19566908 TTTAAATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
34 6 0.15
35 8 0.20
36 19 0.46
37 8 0.20
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (37 bp):
ATATTAATAAAATATATATTTAAAATTTAAAAAAAGT
Found at i:19566913 original size:47 final size:47
Alignment explanation
Indices: 19566859--19566953 Score: 131
Period size: 47 Copynumber: 2.0 Consensus size: 47
19566849 AAAAAAAGTA
* * *
19566859 ATTTTAAAATATATATTT-TAAAATTTTAAAA-TATATATTAATAAAAT
1 ATTTT-AAATATATATTTCAAAAATATTAAAATTA-ATAATAATAAAAT
19566906 ATTTTAAATATATATTTCAAAAATATTAAAATTAATAATAATAAAAT
1 ATTTTAAATATATATTTCAAAAATATTAAAATTAATAATAATAAAAT
19566953 A
1 A
19566954 AATAAATAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
46 12 0.28
47 29 0.67
48 2 0.05
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (47 bp):
ATTTTAAATATATATTTCAAAAATATTAAAATTAATAATAATAAAAT
Found at i:19566987 original size:27 final size:26
Alignment explanation
Indices: 19566957--19567012 Score: 60
Period size: 27 Copynumber: 2.1 Consensus size: 26
19566947 TAAAATAAAT
19566957 AAAT-AAATGAGACAAAAAGACAAAAAA
1 AAATCAAA-GAGACAAAAAG-CAAAAAA
** *
19566984 AAATCAAAGAGTTAAAAAGTAAAAAA
1 AAATCAAAGAGACAAAAAGCAAAAAA
19567010 AAA
1 AAA
19567013 GGTAATCACG
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
26 9 0.36
27 13 0.52
28 3 0.12
ACGTcount: A:0.73, C:0.05, G:0.11, T:0.11
Consensus pattern (26 bp):
AAATCAAAGAGACAAAAAGCAAAAAA
Found at i:19567493 original size:32 final size:33
Alignment explanation
Indices: 19567434--19567499 Score: 82
Period size: 32 Copynumber: 2.0 Consensus size: 33
19567424 AAATGAAAAT
19567434 TGTAAAATTTATAAAAATTAATAAAAAAA-CTA
1 TGTAAAATTTATAAAAATTAATAAAAAAATCTA
* * *
19567466 TGTAAAATTT-TAAAATTTATTTTAAAAAATCTA
1 TGTAAAATTTATAAAAATTA-ATAAAAAAATCTA
19567499 T
1 T
19567500 AAATATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 8 0.28
32 17 0.59
33 4 0.14
ACGTcount: A:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (33 bp):
TGTAAAATTTATAAAAATTAATAAAAAAATCTA
Found at i:19567526 original size:24 final size:22
Alignment explanation
Indices: 19567469--19567527 Score: 55
Period size: 24 Copynumber: 2.5 Consensus size: 22
19567459 AAAACTATGT
* *
19567469 AAAATTTTAAAATTTATTTTAA
1 AAAATATTAAAATATATTTTAA
* *
19567491 AAAATCTATAAATATATATTATTTA
1 AAAATAT-TAAA-ATATATT-TTAA
19567516 AAAATATTAAAA
1 AAAATATTAAAA
19567528 AGTTCTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
22 6 0.20
23 5 0.17
24 10 0.33
25 9 0.30
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
AAAATATTAAAATATATTTTAA
Found at i:19567757 original size:19 final size:20
Alignment explanation
Indices: 19567733--19567775 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
19567723 AAAATTGAAA
19567733 AAAAATATTTTTA-GATTGT
1 AAAAATATTTTTATGATTGT
*
19567752 AAAAATATTTTTATGATTTT
1 AAAAATATTTTTATGATTGT
19567772 AAAA
1 AAAA
19567776 TTTTTCATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 13 0.59
20 9 0.41
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (20 bp):
AAAAATATTTTTATGATTGT
Found at i:19567792 original size:17 final size:19
Alignment explanation
Indices: 19567733--19567792 Score: 63
Period size: 19 Copynumber: 3.3 Consensus size: 19
19567723 AAAATTGAAA
*
19567733 AAAAATATTTTTA-GATTGT
1 AAAAATATTTTCATGATT-T
*
19567752 AAAAATATTTTTATGATTT
1 AAAAATATTTTCATGATTT
*
19567771 TAAAAT-TTTTCAT-ATTT
1 AAAAATATTTTCATGATTT
19567788 AAAAA
1 AAAAA
19567793 GTTACAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 8 0.22
18 6 0.16
19 19 0.51
20 4 0.11
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (19 bp):
AAAAATATTTTCATGATTT
Found at i:19585362 original size:172 final size:171
Alignment explanation
Indices: 19585071--19585413 Score: 560
Period size: 172 Copynumber: 2.0 Consensus size: 171
19585061 CAGACCAAGT
* * * * * * *
19585071 TCAGAAAGAAATATATCAGTCAGAGGTTTCTCGATCAGAAGAGAAAAGAATTTCTTGAGTTGAAA
1 TCAGAAAAAAATATATCAGCCAGAGGTTCCTCGACCAGAAAAGAAAAGAATTTCTTGAGCTAAAA
* *
19585136 CAGGGTAACAAATCAGTATCTGAGTATGAAAGAGAATTTGTTCGATTAAGTAAATATGCTCGAGA
66 CAGGGCAACAAATCAGTATCTGAATATGAAAGAGAATTTGTTCGATTAAGTAAATATGCTCGAGA
19585201 ATGGGTACAGTCAGAAGCTGAAATGTGCAAACGATTCGAAG
131 ATGGGTACAGTCAGAAGCTGAAATGTGCAAACGATTCGAAG
*
19585242 NTCAGAAAAAAATATATCAGCCAGAGGTTCCTTGACCAGAAAAGAAAAGAATTTCTTGAGCTAAA
1 -TCAGAAAAAAATATATCAGCCAGAGGTTCCTCGACCAGAAAAGAAAAGAATTTCTTGAGCTAAA
* * *
19585307 ACAGGGCAATAGATCAGTATCTGAATATGAAAGAGAATTTGTTCGATTGAGTAAATATGCTCGAG
65 ACAGGGCAACAAATCAGTATCTGAATATGAAAGAGAATTTGTTCGATTAAGTAAATATGCTCGAG
19585372 AATGGGTACAGTCAGAAGCTGAAATGTGCAAACGATTCGAAG
130 AATGGGTACAGTCAGAAGCTGAAATGTGCAAACGATTCGAAG
19585414 AAGGGTTGAA
Statistics
Matches: 158, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
172 158 1.00
ACGTcount: A:0.40, C:0.13, G:0.23, T:0.24
Consensus pattern (171 bp):
TCAGAAAAAAATATATCAGCCAGAGGTTCCTCGACCAGAAAAGAAAAGAATTTCTTGAGCTAAAA
CAGGGCAACAAATCAGTATCTGAATATGAAAGAGAATTTGTTCGATTAAGTAAATATGCTCGAGA
ATGGGTACAGTCAGAAGCTGAAATGTGCAAACGATTCGAAG
Found at i:19590674 original size:59 final size:54
Alignment explanation
Indices: 19590601--19590735 Score: 157
Period size: 54 Copynumber: 2.4 Consensus size: 54
19590591 TAGGGTCTGA
* *
19590601 ATTTAGCCTGGACTGGTAATTCAGATCCAA-GCTC-ATTAGAGTAATTATCGTTGCAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGA--CAATACTCTATT--AGT--TTAT-GTTGCAGGGG
* *
19590660 ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATTAGTTTATTTTGCAGGGG
1 ATTTAGCCTGGACTGGTAATCCAGACAATACTCTATTAGTTTATGTTGCAGGGG
19590714 ATTTAGCCTGGACTGGTAATCC
1 ATTTAGCCTGGACTGGTAATCC
19590736 CGCTACAAGG
Statistics
Matches: 70, Mismatches: 4, Indels: 9
0.84 0.05 0.11
Matches are distributed among these distances:
54 31 0.44
55 4 0.06
57 6 0.09
58 3 0.04
59 26 0.37
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.33
Consensus pattern (54 bp):
ATTTAGCCTGGACTGGTAATCCAGACAATACTCTATTAGTTTATGTTGCAGGGG
Found at i:19591087 original size:14 final size:14
Alignment explanation
Indices: 19591064--19591093 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
19591054 TTGAAAATAT
19591064 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
19591078 GTTGATTTGGATTG
1 GTTGAATTGGATTG
19591092 GT
1 GT
19591094 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:19599353 original size:3 final size:3
Alignment explanation
Indices: 19599347--19599375 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
19599337 AAACTATAGG
19599347 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
19599376 ATGCTCATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:19600557 original size:76 final size:76
Alignment explanation
Indices: 19600426--19600578 Score: 272
Period size: 76 Copynumber: 2.0 Consensus size: 76
19600416 GGTAGCTCTT
19600426 TATTAACTTCTTAATCTATTTCTGTTTTGAGAGTATTTCAGAATAATAAATGATTTTATGAGCCG
1 TATTAACTTCTTAATCTATTTCTGTTTTGAGAGTATTTCAGAATAATAAATGATTTTATGAGCCG
19600491 GTTTGTACTCG
66 GTTTGTACTCG
* *
19600502 TATTGACTTCTTAATCTATTTTTGTTTTGAGAGTACTTT-AGAATAATAAATGATTTTATGAGCC
1 TATTAACTTCTTAATCTATTTCTGTTTTGAGAGTA-TTTCAGAATAATAAATGATTTTATGAGCC
19600566 GGTTTGTACTCG
65 GGTTTGTACTCG
19600578 T
1 T
19600579 GTTATCTAAG
Statistics
Matches: 74, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
76 71 0.96
77 3 0.04
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (76 bp):
TATTAACTTCTTAATCTATTTCTGTTTTGAGAGTATTTCAGAATAATAAATGATTTTATGAGCCG
GTTTGTACTCG
Found at i:19611601 original size:44 final size:44
Alignment explanation
Indices: 19611553--19611679 Score: 139
Period size: 44 Copynumber: 2.9 Consensus size: 44
19611543 CCTTGGTAAT
* * *
19611553 TTCAACCTGCCCCACTACATCTTTAGGGAGATGAGGTTTGCGAC
1 TTCAACCTGCTCCACTGCAACTTTAGGGAGATGAGGTTTGCGAC
* * * ** *
19611597 TTCAATCTGCTCCACTGCAACTTCAGGGAGACGAGACTTGCGAT
1 TTCAACCTGCTCCACTGCAACTTTAGGGAGATGAGGTTTGCGAC
* * *
19611641 TTCAACTTGCTCCACTGTAAC-TTAAGGAGATGAGGTTTG
1 TTCAACCTGCTCCACTGCAACTTTAGGGAGATGAGGTTTG
19611680 TTTGGATCTG
Statistics
Matches: 66, Mismatches: 17, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
43 13 0.20
44 53 0.80
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.28
Consensus pattern (44 bp):
TTCAACCTGCTCCACTGCAACTTTAGGGAGATGAGGTTTGCGAC
Found at i:19611967 original size:57 final size:57
Alignment explanation
Indices: 19611879--19611999 Score: 224
Period size: 57 Copynumber: 2.1 Consensus size: 57
19611869 AGGGGATTAA
* *
19611879 GATCTGTAAATTCAACTTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTC
1 GATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTGAAGGCCCTTCGTCTTC
19611936 GATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTGAAGGCCCTTCGTCTTC
1 GATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTGAAGGCCCTTCGTCTTC
19611993 GATCTGT
1 GATCTGT
19612000 TTCCCTACTG
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
57 62 1.00
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (57 bp):
GATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTGAAGGCCCTTCGTCTTC
Found at i:19612044 original size:44 final size:43
Alignment explanation
Indices: 19611936--19612067 Score: 151
Period size: 44 Copynumber: 3.0 Consensus size: 43
19611926 CTTCGTCTTC
*
19611936 GATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTGAA
1 GATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAA
** * * * *
19611979 GGCCCTTCGT--CTTCGATCTGTTTCCCTACTGCTTAGGGGGGTTAA
1 -GATC-T-GTAAATTCAACCTGTTACCCTACTGCTTA-GGGGGTTAA
19612024 GATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAA
1 GATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAA
19612067 G
1 G
19612068 GCTTGGTGGC
Statistics
Matches: 70, Mismatches: 13, Indels: 11
0.74 0.14 0.12
Matches are distributed among these distances:
42 2 0.03
43 11 0.16
44 46 0.66
45 9 0.13
46 2 0.03
ACGTcount: A:0.20, C:0.23, G:0.24, T:0.33
Consensus pattern (43 bp):
GATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAA
Found at i:19612069 original size:145 final size:145
Alignment explanation
Indices: 19611806--19612069 Score: 476
Period size: 145 Copynumber: 1.8 Consensus size: 145
19611796 TGATTTCCAG
*
19611806 CCTGTTACCCTACTGCTTAGGGGGGTTAAGGCCCTTCATCTTCGATCTGTTTCCCTACTGCTTAG
1 CCTGTTACCCTACTGCTTAGGGGGGTGAAGGCCCTTCATCTTCGATCTGTTTCCCTACTGCTTAG
*
19611871 GGGATTAAGATCTGTAAATTCAACTTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTC
66 GGGATTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTC
19611936 GATCTGTAAATTCAA
131 GATCTGTAAATTCAA
*
19611951 CCTGTTACCCTACTGCTTA-GGGGGTGAAGGCCCTTCGTCTTCGATCTGTTTCCCTACTGCTTAG
1 CCTGTTACCCTACTGCTTAGGGGGGTGAAGGCCCTTCATCTTCGATCTGTTTCCCTACTGCTTA-
*
19612015 GGGGGTTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGC
65 GGGGATTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGC
19612070 TTGGTGGCTT
Statistics
Matches: 114, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
144 42 0.37
145 72 0.63
ACGTcount: A:0.19, C:0.24, G:0.23, T:0.33
Consensus pattern (145 bp):
CCTGTTACCCTACTGCTTAGGGGGGTGAAGGCCCTTCATCTTCGATCTGTTTCCCTACTGCTTAG
GGGATTAAGATCTGTAAATTCAACCTGTTACCCTACTGCTTAGGGGGTTAAGGCCCTTCGTCTTC
GATCTGTAAATTCAA
Found at i:19621099 original size:12 final size:12
Alignment explanation
Indices: 19621079--19621113 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
19621069 GGGAAGGAAG
19621079 AAAGAAAAAGAGA
1 AAAGAAAAA-AGA
19621092 AAAGAAAAAAGA
1 AAAGAAAAAAGA
19621104 AAAGAGAAAA
1 AAAGA-AAAA
19621114 TTAAAGGTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 8 0.38
13 13 0.62
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAGAAAAAAGA
Found at i:19628219 original size:45 final size:45
Alignment explanation
Indices: 19628170--19628357 Score: 313
Period size: 45 Copynumber: 4.2 Consensus size: 45
19628160 TCGGCCATGG
* * * *
19628170 TGCTTCCTCAATTTGTTCCTTAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
* *
19628215 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
19628260 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
*
19628305 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
19628350 TGCTTCCT
1 TGCTTCCT
19628358 TAATTTCAGG
Statistics
Matches: 134, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 134 1.00
ACGTcount: A:0.25, C:0.21, G:0.15, T:0.39
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGCCAAA
Found at i:19628721 original size:20 final size:20
Alignment explanation
Indices: 19628696--19628750 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
19628686 ACGAGTTAAA
* *
19628696 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
19628716 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
19628736 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
19628751 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:19629714 original size:6 final size:6
Alignment explanation
Indices: 19629686--19629726 Score: 52
Period size: 6 Copynumber: 7.3 Consensus size: 6
19629676 TATCTCACAC
*
19629686 TCATTT TCTTTT TC--TT TCA-TT TCATTT TCATTT TCATTT TC
1 TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TCATTT TC
19629727 TCGCTCGCGC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
4 4 0.12
5 5 0.16
6 23 0.72
ACGTcount: A:0.12, C:0.20, G:0.00, T:0.68
Consensus pattern (6 bp):
TCATTT
Found at i:19631089 original size:20 final size:20
Alignment explanation
Indices: 19631064--19631118 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
19631054 ACGAGTTAAA
* *
19631064 TTGAGCTTGAATGAGCTGAC
1 TTGAGCTCGAATGAGCTAAC
*
19631084 TTGAGCACGAATGAGCTAAC
1 TTGAGCTCGAATGAGCTAAC
19631104 TTGAGCTCGAATGAG
1 TTGAGCTCGAATGAG
19631119 TTGAACCACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (20 bp):
TTGAGCTCGAATGAGCTAAC
Found at i:19632469 original size:35 final size:35
Alignment explanation
Indices: 19632423--19632492 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
19632413 ACATTAAAGA
*
19632423 TTACGTATTTATATATTGCTACGTTCTCTTCAGAG
1 TTACGTATTTATATATTGCTACATTCTCTTCAGAG
19632458 TTACGTATTTATATATTGCTACATTCTCTTCAGAG
1 TTACGTATTTATATATTGCTACATTCTCTTCAGAG
19632493 AATGGGGCAA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.24, C:0.17, G:0.13, T:0.46
Consensus pattern (35 bp):
TTACGTATTTATATATTGCTACATTCTCTTCAGAG
Found at i:19633517 original size:11 final size:10
Alignment explanation
Indices: 19633483--19633518 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
19633473 CAATTTTTTC
19633483 AAATATTTGA
1 AAATATTTGA
*
19633493 AAATATTAGA
1 AAATATTTGA
19633503 AAATCATTTGA
1 AAAT-ATTTGA
19633514 AAATA
1 AAATA
19633519 ATATATTACA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.33
Consensus pattern (10 bp):
AAATATTTGA
Found at i:19635091 original size:13 final size:13
Alignment explanation
Indices: 19635073--19635098 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
19635063 GCATTCTACC
19635073 TAAGAAATATATT
1 TAAGAAATATATT
19635086 TAAGAAATATATT
1 TAAGAAATATATT
19635099 GAGAAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (13 bp):
TAAGAAATATATT
Found at i:19643687 original size:20 final size:20
Alignment explanation
Indices: 19643659--19643699 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
19643649 TTTCGTTTAG
19643659 CTCACATGAGCTTCAGTTAA
1 CTCACATGAGCTTCAGTTAA
* *
19643679 CTCATATGAGTTTCAGTTAA
1 CTCACATGAGCTTCAGTTAA
19643699 C
1 C
19643700 CCTAATGGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (20 bp):
CTCACATGAGCTTCAGTTAA
Found at i:19643711 original size:20 final size:20
Alignment explanation
Indices: 19643664--19643716 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
19643654 TTTAGCTCAC
* *
19643664 ATGAGCTTCAGTTAACTCAT
1 ATGAGTTTCAGTTAACCCAT
19643684 ATGAGTTTCAGTTAACCC-T
1 ATGAGTTTCAGTTAACCCAT
*
19643703 AATGGGTTTCAGTT
1 -ATGAGTTTCAGTT
19643717 CAACTCTTAC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 1 0.03
20 28 0.97
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.38
Consensus pattern (20 bp):
ATGAGTTTCAGTTAACCCAT
Found at i:19643753 original size:42 final size:43
Alignment explanation
Indices: 19643670--19643786 Score: 127
Period size: 42 Copynumber: 2.8 Consensus size: 43
19643660 TCACATGAGC
* * *
19643670 TTCAGTT-AACTCATATGAGTTTCAG-TTAACCCTAAT-GGGT
1 TTCAGTTCAACTCTTATGAGTTTTAGTTTAACCCTAATAGGTT
* *
19643710 TTCAGTTCAACTCTTACGAGTTTTAGTTTAACCCTACTAGGTT
1 TTCAGTTCAACTCTTATGAGTTTTAGTTTAACCCTAATAGGTT
* *
19643753 TTCA-TTCAGCTCTTATGAG-CTTATGTTTAACCCT
1 TTCAGTTCAACTCTTATGAGTTTTA-GTTTAACCCT
19643787 TAAGGGTTTT
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
40 7 0.11
41 18 0.28
42 33 0.51
43 7 0.11
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.41
Consensus pattern (43 bp):
TTCAGTTCAACTCTTATGAGTTTTAGTTTAACCCTAATAGGTT
Found at i:19643795 original size:42 final size:42
Alignment explanation
Indices: 19643695--19643815 Score: 108
Period size: 42 Copynumber: 2.9 Consensus size: 42
19643685 TGAGTTTCAG
* * *
19643695 TTAACCCTAATGGG-TTTCAGTTCAACTCTTACGAG-TTTTAGT
1 TTAACCCTAA-GGGTTTTCA-TTCAGCTCTTATGAGCTTATAGT
19643737 TTAACCCTACTA-GGTTTTCATTCAGCTCTTATGAGCTTAT-GT
1 TTAACCCTA--AGGGTTTTCATTCAGCTCTTATGAGCTTATAGT
* * *
19643779 TTAACCCTTAAGGGTTTTCGTT-AGCACTTATGTGCTT
1 TTAACCC-TAAGGGTTTTCATTCAGCTCTTATGAGCTT
19643816 CTTTTCAGCC
Statistics
Matches: 67, Mismatches: 6, Indels: 13
0.78 0.07 0.15
Matches are distributed among these distances:
41 14 0.21
42 42 0.63
43 10 0.15
44 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (42 bp):
TTAACCCTAAGGGTTTTCATTCAGCTCTTATGAGCTTATAGT
Found at i:19647608 original size:24 final size:24
Alignment explanation
Indices: 19647581--19647705 Score: 107
Period size: 24 Copynumber: 5.2 Consensus size: 24
19647571 TTACTAGATA
19647581 TGCGGATTTAAGTGGCACTATGTG
1 TGCGGATTTAAGTGGCACTATGTG
* *
19647605 TGCGTATTTGTA-TGGCACTATGTG
1 TGCGGATTT-AAGTGGCACTATGTG
*
19647629 TGCGTATTT--GTTGGCACTATGTG
1 TGCGGATTTAAG-TGGCACTATGTG
* *
19647652 TGC--ATATATGTAAGGCACTATGTG
1 TGCGGATTTAAGT--GGCACTATGTG
* **
19647676 TGCGGAATTATTTGGCACTATGTG
1 TGCGGATTTAAGTGGCACTATGTG
19647700 TGCGGA
1 TGCGGA
19647706 GTTGAATCGT
Statistics
Matches: 86, Mismatches: 6, Indels: 18
0.78 0.05 0.16
Matches are distributed among these distances:
21 3 0.03
22 1 0.01
23 16 0.19
24 60 0.70
25 1 0.01
26 5 0.06
ACGTcount: A:0.20, C:0.13, G:0.30, T:0.37
Consensus pattern (24 bp):
TGCGGATTTAAGTGGCACTATGTG
Found at i:19647669 original size:47 final size:48
Alignment explanation
Indices: 19647593--19647702 Score: 161
Period size: 47 Copynumber: 2.3 Consensus size: 48
19647583 CGGATTTAAG
* * * *
19647593 TGGCACTATGTGTGCGTATTTGTATGGCACTATGTGTGC-GTATT-TGT
1 TGGCACTATGTGTGCATATATGTAAGGCACTATGTGTGCGGAATTAT-T
19647640 TGGCACTATGTGTGCATATATGTAAGGCACTATGTGTGCGGAATTATT
1 TGGCACTATGTGTGCATATATGTAAGGCACTATGTGTGCGGAATTATT
19647688 TGGCACTATGTGTGC
1 TGGCACTATGTGTGC
19647703 GGAGTTGAAT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
47 36 0.63
48 20 0.35
49 1 0.02
ACGTcount: A:0.19, C:0.14, G:0.29, T:0.38
Consensus pattern (48 bp):
TGGCACTATGTGTGCATATATGTAAGGCACTATGTGTGCGGAATTATT
Found at i:19653841 original size:54 final size:54
Alignment explanation
Indices: 19653759--19653889 Score: 262
Period size: 54 Copynumber: 2.4 Consensus size: 54
19653749 TAGGGTCTGA
19653759 ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGG
1 ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGG
19653813 ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGG
1 ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGG
19653867 ATTTAGCCTGGACTGGTAATCCC
1 ATTTAGCCTGGACTGGTAATCCC
19653890 ACTGTAAGAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 77 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (54 bp):
ATTTAGCCTGGACTGGTAATCCCGACAATACTCTATGAGTTTATATTACAGGGG
Found at i:19653974 original size:46 final size:45
Alignment explanation
Indices: 19653922--19654151 Score: 280
Period size: 46 Copynumber: 5.0 Consensus size: 45
19653912 GAGTGTGCTC
* *
19653922 CCTGATAGAAAATGTGTAAGAGCATGGTTGAAAGATACCATGGCAA
1 CCTGACAG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
19653968 CCTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGACA-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
*
19654014 CGTGACATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
1 CCTGACA-GAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * ** *
19654060 CGTGACGGGGAAATGAATAAGACCATGGTTGAATGATACCATGGCAA
1 CCTGAC--AGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
* * * * *
19654107 CATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CCTGACAG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
19654152 TCATGTCGAA
Statistics
Matches: 166, Mismatches: 14, Indels: 8
0.88 0.07 0.04
Matches are distributed among these distances:
45 1 0.01
46 124 0.75
47 41 0.25
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.21
Consensus pattern (45 bp):
CCTGACAGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA
Found at i:19654113 original size:93 final size:92
Alignment explanation
Indices: 19653928--19654151 Score: 306
Period size: 93 Copynumber: 2.4 Consensus size: 92
19653918 GCTCCCTGAT
* * * **
19653928 AGAAAATGTGTAAGAGCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAGACCAT
1 AGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGAGGAAATGAATAAGACCAT
*
19653993 GGTTGAAAGATACCATGGCAACGTGAC
66 GGTTGAAAGATACCATGGCAACATGAC
* *
19654020 ATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACGTGACGGGGAAATGAATAAGACC
1 A-GAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGA-GAGGAAATGAATAAGACC
*
19654084 ATGGTTGAATGATACCATGGCAACATGAC
64 ATGGTTGAAAGATACCATGGCAACATGAC
* * * *
19654113 AGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 AGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
19654152 TCATGTCGAA
Statistics
Matches: 116, Mismatches: 13, Indels: 5
0.87 0.10 0.04
Matches are distributed among these distances:
92 42 0.36
93 74 0.64
ACGTcount: A:0.39, C:0.14, G:0.26, T:0.21
Consensus pattern (92 bp):
AGAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGAGAGGAAATGAATAAGACCAT
GGTTGAAAGATACCATGGCAACATGAC
Found at i:19663406 original size:31 final size:31
Alignment explanation
Indices: 19663361--19663423 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
19663351 CACAGGCGTA
* *
19663361 TTGGTCACATGGCCTGAACCACACGAGCATG
1 TTGGCCACACGGCCTGAACCACACGAGCATG
*
19663392 TTGGCCACACGGCCTGAACCACACGGGCATG
1 TTGGCCACACGGCCTGAACCACACGAGCATG
19663423 T
1 T
19663424 CCGTATAGCA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.24, C:0.32, G:0.27, T:0.17
Consensus pattern (31 bp):
TTGGCCACACGGCCTGAACCACACGAGCATG
Found at i:19666844 original size:39 final size:36
Alignment explanation
Indices: 19666800--19666871 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 36
19666790 AATTAATATT
19666800 TTTTAAAATTTAAAAAATTAAAAAAAATATTAAAAATTA
1 TTTTAAAA-TT-AAAAATTAAAAAAAA-ATTAAAAATTA
**
19666839 TTTTAAAATTAAAAATTATTAAAAAATTAAAAA
1 TTTTAAAATTAAAAATTAAAAAAAAATTAAAAA
19666872 AACAATTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
36 8 0.26
37 13 0.42
38 2 0.06
39 8 0.26
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (36 bp):
TTTTAAAATTAAAAATTAAAAAAAAATTAAAAATTA
Found at i:19666849 original size:18 final size:18
Alignment explanation
Indices: 19666812--19666871 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
19666802 TTAAAATTTA
**
19666812 AAAAATTAAAAAAAATATT
1 AAAAATTATTAAAAA-ATT
**
19666831 AAAAATTATTTTAAAATT
1 AAAAATTATTAAAAAATT
19666849 AAAAATTATTAAAAAATT
1 AAAAATTATTAAAAAATT
19666867 AAAAA
1 AAAAA
19666872 AACAATTTTT
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
18 24 0.69
19 11 0.31
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AAAAATTATTAAAAAATT
Found at i:19666883 original size:40 final size:37
Alignment explanation
Indices: 19666797--19666899 Score: 111
Period size: 40 Copynumber: 2.6 Consensus size: 37
19666787 TTGAATTAAT
*
19666797 ATTTTTTAAAATTTAAAAAATTAAAAAAAATATTAAAA
1 ATTTTTTAAAA-TTAAAAAATTAAAAAAAATATAAAAA
19666835 ATTATTTTAAAATTAAAAATTATTAAAAAATTAA-A-AAAACA
1 ATT-TTTTAAAATTAAAAA--ATTAAAAAA--AATATAAAA-A
19666876 ATTTTTTAAAATTAAAATAATTAA
1 ATTTTTTAAAATTAAAA-AATTAA
19666900 TTAGATAATG
Statistics
Matches: 57, Mismatches: 1, Indels: 13
0.80 0.01 0.18
Matches are distributed among these distances:
38 10 0.18
39 13 0.23
40 26 0.46
41 6 0.11
42 2 0.04
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (37 bp):
ATTTTTTAAAATTAAAAAATTAAAAAAAATATAAAAA
Found at i:19666893 original size:39 final size:38
Alignment explanation
Indices: 19666797--19666899 Score: 113
Period size: 39 Copynumber: 2.6 Consensus size: 38
19666787 TTGAATTAAT
*
19666797 ATTTTTTAAAATTTAAAA-AATTAAAAAAAATATTAAAA
1 ATTTTTTAAAA-TTAAAATAATTAAAAAAAATATAAAAA
*
19666835 ATTATTTTAAAATTAAAAATTATTAAAAAATTAA-A-AAAACA
1 ATT-TTTTAAAATT-AAAATAATTAAAAAA--AATATAAAA-A
19666876 ATTTTTTAAAATTAAAATAATTAA
1 ATTTTTTAAAATTAAAATAATTAA
19666900 TTAGATAATG
Statistics
Matches: 56, Mismatches: 3, Indels: 11
0.80 0.04 0.16
Matches are distributed among these distances:
38 5 0.09
39 22 0.39
40 22 0.39
41 5 0.09
42 2 0.04
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (38 bp):
ATTTTTTAAAATTAAAATAATTAAAAAAAATATAAAAA
Found at i:19682313 original size:16 final size:18
Alignment explanation
Indices: 19682281--19682327 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
19682271 GAATACTGTT
*
19682281 GAGAAAGAGAAATTTTG-G
1 GAGAAAGAG-GATTTTGTG
*
19682299 GAGAAA-AGGATTTTGTT
1 GAGAAAGAGGATTTTGTG
19682316 GAGAAAGAGGAT
1 GAGAAAGAGGAT
19682328 AAAAGAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 6 0.24
17 8 0.32
18 11 0.44
ACGTcount: A:0.43, C:0.00, G:0.34, T:0.23
Consensus pattern (18 bp):
GAGAAAGAGGATTTTGTG
Found at i:19684604 original size:33 final size:33
Alignment explanation
Indices: 19684562--19684685 Score: 230
Period size: 33 Copynumber: 3.8 Consensus size: 33
19684552 TTTCTTCTTG
*
19684562 ACATTCCAGCTACTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
19684595 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
*
19684628 ACATTCCAGCTCCCGTCCAGCAACCAAACACTC
1 ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
19684661 ACATTCCAGCTCCTGTCCAGCAACC
1 ACATTCCAGCTCCTGTCCAGCAACC
19684686 TGAAACAGAG
Statistics
Matches: 88, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 88 1.00
ACGTcount: A:0.30, C:0.43, G:0.10, T:0.18
Consensus pattern (33 bp):
ACATTCCAGCTCCTGTCCAGCAACCAAACACTC
Found at i:19703012 original size:27 final size:27
Alignment explanation
Indices: 19702952--19703013 Score: 70
Period size: 27 Copynumber: 2.3 Consensus size: 27
19702942 TAAATAAAAG
*
19702952 TTAAAATAAATACTCAGCTAAAAATTA
1 TTAAAATAAATACTCAGCTAAAAATAA
* * ** *
19702979 TTTAAATAAATACTCATCTTTATATAA
1 TTAAAATAAATACTCAGCTAAAAATAA
19703006 TTAAAATA
1 TTAAAATA
19703014 TTTATATTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.52, C:0.10, G:0.02, T:0.37
Consensus pattern (27 bp):
TTAAAATAAATACTCAGCTAAAAATAA
Found at i:19705060 original size:23 final size:25
Alignment explanation
Indices: 19705012--19705061 Score: 68
Period size: 23 Copynumber: 2.0 Consensus size: 25
19705002 CAAGAAGTGC
*
19705012 ACAAAGAGCCATTATTCGGGAAGCTT
1 ACAAAGAGCCA-TATTCAGGAAGCTT
19705038 ACAAAGAGCC-TA-TCAGGAAGCTT
1 ACAAAGAGCCATATTCAGGAAGCTT
19705061 A
1 A
19705062 TCCGGACTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 11 0.48
24 2 0.09
26 10 0.43
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (25 bp):
ACAAAGAGCCATATTCAGGAAGCTT
Found at i:19713402 original size:63 final size:64
Alignment explanation
Indices: 19713284--19713405 Score: 149
Period size: 63 Copynumber: 1.9 Consensus size: 64
19713274 GAGCCATATT
* * * * **
19713284 AGGACGCTCACAAAGAGCTGCGTTTGTGTCCGCAATATATGCTGGATCACAACCGATCATATAAC
1 AGGACGCTCACAAAGAGCT-CGTTGGTGTCCGCAACACATACAAGATCACAACCGATCATATAAC
*
19713349 AGGACGCTCACAAAGAGCT-G-TGGTAGTCCGCAACACATACAAGATCACTACCGATCA
1 AGGACGCTCACAAAGAGCTCGTTGGT-GTCCGCAACACATACAAGATCACAACCGATCA
19713406 GGATACTCGC
Statistics
Matches: 49, Mismatches: 7, Indels: 4
0.82 0.12 0.07
Matches are distributed among these distances:
62 3 0.06
63 27 0.55
65 19 0.39
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (64 bp):
AGGACGCTCACAAAGAGCTCGTTGGTGTCCGCAACACATACAAGATCACAACCGATCATATAAC
Found at i:19714722 original size:15 final size:15
Alignment explanation
Indices: 19714702--19714767 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 15
19714692 ATACTACAAA
19714702 ATATTTATTATTAAT
1 ATATTTATTATTAAT
*
19714717 ATATTTATAATTTTAAT
1 ATATTTAT--TATTAAT
19714734 AAATATTTATTATTGAA-
1 --ATATTTATTATT-AAT
19714751 ATATTTA-TATTTAAT
1 ATATTTATTA-TTAAT
19714766 AT
1 AT
19714768 TTTTCAATAA
Statistics
Matches: 42, Mismatches: 2, Indels: 14
0.72 0.03 0.24
Matches are distributed among these distances:
14 4 0.10
15 19 0.45
17 9 0.21
18 2 0.05
19 8 0.19
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:19714743 original size:34 final size:32
Alignment explanation
Indices: 19714700--19714766 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 32
19714690 ATATACTACA
19714700 AAATATTTATTATT-AATATATTTATAATTTTAAT
1 AAATATTTATTATTGAA-ATATTTAT-A-TTTAAT
19714734 AAATATTTATTATTGAAATATTTATATTTAAT
1 AAATATTTATTATTGAAATATTTATATTTAAT
19714766 A
1 A
19714767 TTTTTCAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
32 7 0.22
33 1 0.03
34 22 0.69
35 2 0.06
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (32 bp):
AAATATTTATTATTGAAATATTTATATTTAAT
Found at i:19714753 original size:19 final size:17
Alignment explanation
Indices: 19714700--19714747 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
19714690 ATATACTACA
19714700 AAATATTTATTATTAAT
1 AAATATTTATTATTAAT
*
19714717 --ATATTTATAATTTTAAT
1 AAATATTTAT--TATTAAT
19714734 AAATATTTATTATT
1 AAATATTTATTATT
19714748 GAAATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
15 8 0.32
17 9 0.36
19 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
AAATATTTATTATTAAT
Found at i:19715365 original size:23 final size:23
Alignment explanation
Indices: 19715333--19715377 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
19715323 CCGATTTGCT
* *
19715333 CCCTCCGTTTCTTTTCTTTTCTG
1 CCCTCCGTTTATTTTCTGTTCTG
*
19715356 CCCTCTGTTTATTTTCTGTTCT
1 CCCTCCGTTTATTTTCTGTTCT
19715378 TTTCTTCCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.02, C:0.31, G:0.09, T:0.58
Consensus pattern (23 bp):
CCCTCCGTTTATTTTCTGTTCTG
Found at i:19715433 original size:66 final size:66
Alignment explanation
Indices: 19715340--19715489 Score: 257
Period size: 66 Copynumber: 2.3 Consensus size: 66
19715330 GCTCCCTCCG
19715340 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCT-TCCAATTTGCTCCCTTCGTTT
1 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCTGT-CAATTTGCTCCCTTCGTTT
19715404 CT
65 CT
* * *
19715406 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTTTCTGTCGATTTGCTCCCTTTGTTTC
1 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCTGTCAATTTGCTCCCTTCGTTTC
19715471 T
66 T
19715472 TTTCTTTTCTTTTCTGCC
1 TTTCTTTTCTTTTCTGCC
19715490 GATTTGCCAG
Statistics
Matches: 80, Mismatches: 3, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
66 79 0.99
67 1 0.01
ACGTcount: A:0.03, C:0.26, G:0.08, T:0.63
Consensus pattern (66 bp):
TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCTGTCAATTTGCTCCCTTCGTTTC
T
Found at i:19715487 original size:38 final size:38
Alignment explanation
Indices: 19715356--19715496 Score: 133
Period size: 38 Copynumber: 4.0 Consensus size: 38
19715346 TTCTTTTCTG
* * *
19715356 CCCTCTGTTTATTTTCTGTTCTTTTCTTCCAATTTGCT
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
*
19715394 CCCT-TCGTTTCTTTTCTTTTC-TTT-T--C----TG--
1 CCCTCT-GTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
*
19715422 CCCTCTGTTTATTTTCTTTTCTTTTCTGTCGATTTGCT
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
* *
19715460 CCCTTTGTTTCTTTTCTTTTCTTTTCTGCCGATTTGC
1 CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGC
19715497 CAGTTTCTGC
Statistics
Matches: 85, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
28 18 0.21
29 4 0.05
30 3 0.04
32 1 0.01
34 1 0.01
36 3 0.04
37 4 0.05
38 51 0.60
ACGTcount: A:0.04, C:0.26, G:0.09, T:0.60
Consensus pattern (38 bp):
CCCTCTGTTTATTTTCTTTTCTTTTCTGCCGATTTGCT
Found at i:19715514 original size:66 final size:66
Alignment explanation
Indices: 19715340--19715515 Score: 167
Period size: 66 Copynumber: 2.7 Consensus size: 66
19715330 GCTCCCTCCG
* ** * * * *
19715340 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTGTTCTTTTCT-TCCAATTTGCTCCCTTCGTTT
1 TTTCTTTTCTTTTCTGCCATCTGTCCAGTTTCTGCTCATTTCTGT-CGATTTGCTCCCTTCGTTT
19715404 CT
65 CT
* ** * ** * *
19715406 TTTCTTTTCTTTTCTGCCCTCTGTTTATTTTCTTTTCTTTTCTGTCGATTTGCTCCCTTTGTTTC
1 TTTCTTTTCTTTTCTGCCATCTGTCCAGTTTCTGCTCATTTCTGTCGATTTGCTCCCTTCGTTTC
19715471 T
66 T
* *
19715472 TTTCTTTTCTTTTCTGCCGATTTG-CCAGTTTCTGCTGATTTCTG
1 TTTCTTTTCTTTTCTGCC-ATCTGTCCAGTTTCTGCTCATTTCTG
19715516 AGTTACTGCA
Statistics
Matches: 96, Mismatches: 12, Indels: 4
0.86 0.11 0.04
Matches are distributed among these distances:
66 92 0.96
67 4 0.04
ACGTcount: A:0.05, C:0.25, G:0.10, T:0.60
Consensus pattern (66 bp):
TTTCTTTTCTTTTCTGCCATCTGTCCAGTTTCTGCTCATTTCTGTCGATTTGCTCCCTTCGTTTC
T
Found at i:19715905 original size:42 final size:39
Alignment explanation
Indices: 19715838--19715952 Score: 128
Period size: 42 Copynumber: 2.9 Consensus size: 39
19715828 AATTTTTGGA
*
19715838 TTAGGCTTAAGAATTGATGATTGTTGTTTGTTGATAAGG
1 TTAGGCTTAAGAATTGATGACTGTTGTTTGTTGATAAGG
* * *
19715877 TGCCTTGGCTTAAGAATTGATGACTGTTGTCTGTTG-T-TGG
1 T---TAGGCTTAAGAATTGATGACTGTTGTTTGTTGATAAGG
*
19715917 TTAGGCTTAAGAAATGCAT-ACTGTTGTTTGTTGATA
1 TTAGGCTTAAGAATTG-ATGACTGTTGTTTGTTGATA
19715953 GTGTTGTTTG
Statistics
Matches: 63, Mismatches: 7, Indels: 12
0.77 0.09 0.15
Matches are distributed among these distances:
37 26 0.41
38 3 0.05
39 1 0.02
40 3 0.05
41 1 0.02
42 29 0.46
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.43
Consensus pattern (39 bp):
TTAGGCTTAAGAATTGATGACTGTTGTTTGTTGATAAGG
Found at i:19717426 original size:21 final size:21
Alignment explanation
Indices: 19717402--19717449 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
19717392 CATCTTAAAG
19717402 GCTGCAGAACAGTTTGTCATC
1 GCTGCAGAACAGTTTGTCATC
*
19717423 GCTGCGGAACAGTTTGTCATC
1 GCTGCAGAACAGTTTGTCATC
*
19717444 ACTGCA
1 GCTGCA
19717450 AAGAAGNGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (21 bp):
GCTGCAGAACAGTTTGTCATC
Found at i:19717870 original size:37 final size:40
Alignment explanation
Indices: 19717827--19718121 Score: 152
Period size: 41 Copynumber: 7.5 Consensus size: 40
19717817 TGCTTAATTG
19717827 TTTTATTAAATTATATA-AGAATAT-TAAT-TATTAATAA
1 TTTTATTAAATTATATATAGAATATATAATATATTAATAA
**
19717864 TTTTATTAAATTATATATTTTAAT-TATAATATATTTAATAA
1 TTTTATTAAATTATATA-TAGAATATATAATATA-TTAATAA
* * *** * *
19717905 TAATTATGTTAATT-TATATTTTATAGTATCATATATT-ATGA
1 T-TTTAT-TAAATTATATATAGAATA-TATAATATATTAATAA
* * *
19717946 TTTGAGTAAATTCATATA-AGAATAT-TAAT-TATTAAGAA
1 TTTTATTAAATT-ATATATAGAATATATAATATATTAATAA
**
19717984 TTTTATTAAATTATATATTTTAAT-TATAATATATTTAATAA
1 TTTTATTAAATTATATA-TAGAATATATAATATA-TTAATAA
* * *** * *
19718025 TAATTATGTTAATT-TATATTTTATAGTATCATATATT-ATGA
1 T-TTTAT-TAAATTATATATAGAATA-TATAATATATTAATAA
* * * *
19718066 TTTGAGTAAATTCATATA-AGAATAT-TGAT-TATTAAGAA
1 TTTTATTAAATT-ATATATAGAATATATAATATATTAATAA
19718104 TTTTATTAAATTATATAT
1 TTTTATTAAATTATATAT
19718122 TTTAATTAAA
Statistics
Matches: 194, Mismatches: 39, Indels: 49
0.69 0.14 0.17
Matches are distributed among these distances:
37 35 0.18
38 32 0.16
39 26 0.13
40 14 0.07
41 41 0.21
42 20 0.10
43 26 0.13
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.51
Consensus pattern (40 bp):
TTTTATTAAATTATATATAGAATATATAATATATTAATAA
Found at i:19717896 original size:18 final size:18
Alignment explanation
Indices: 19717850--19717897 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
19717840 TATAAGAATA
*
19717850 TTAATTATTA-ATA-ATT
1 TTAATTATAATATATATT
19717866 TT-ATTA-AATTATATATT
1 TTAATTATAA-TATATATT
19717883 TTAATTATAATATAT
1 TTAATTATAATATAT
19717898 TTAATAATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
14 1 0.04
15 4 0.15
16 5 0.19
17 5 0.19
18 9 0.35
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTAATTATAATATATATT
Found at i:19717902 original size:15 final size:15
Alignment explanation
Indices: 19717867--19717918 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
19717857 TTAATAATTT
*
19717867 TATTAAATTAT-ATA
1 TATTTAATTATAATA
19717881 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
19717895 TATTTAATAATAAT-
1 TATTTAATTATAATA
19717909 TATGTTAATT
1 TAT-TTAATT
19717919 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:19717989 original size:61 final size:61
Alignment explanation
Indices: 19717922--19718109 Score: 192
Period size: 61 Copynumber: 3.1 Consensus size: 61
19717912 GTTAATTTAT
19717922 ATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
1 ATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
* * * * * * * *
19717983 ATTTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAATAATAATTATGTTAATTTA-
1 ATTTTA-TAGTATCATATATTATGATTTGAGTAAAT-TCATATAAGAAT-ATTA-ATT-ATTAAG
*
19718041 T
61 A
*
19718042 ATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGA
1 ATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
19718103 ATTTTAT
1 ATTTTAT
19718110 TAAATTATAT
Statistics
Matches: 96, Mismatches: 19, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 11 0.11
58 8 0.08
59 18 0.19
60 16 0.17
61 25 0.26
62 7 0.07
63 11 0.11
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGA
Found at i:19718016 original size:120 final size:120
Alignment explanation
Indices: 19717833--19718154 Score: 601
Period size: 120 Copynumber: 2.7 Consensus size: 120
19717823 ATTGTTTTAT
*
19717833 TAAATT-ATATAAGAATATTAATTATTAATAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
19717897 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
66 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
19717952 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
19718017 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
66 TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
* *
19718072 TAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATA
1 TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
*
19718137 TTTAATTATAATTATGTT
66 TTTAATAATAATTATGTT
19718155 TAAATATGAT
Statistics
Matches: 198, Mismatches: 4, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
119 6 0.03
120 192 0.97
ACGTcount: A:0.43, C:0.01, G:0.05, T:0.50
Consensus pattern (120 bp):
TAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATA
TTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAG
Found at i:19718022 original size:15 final size:15
Alignment explanation
Indices: 19717987--19718038 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
19717977 TTAAGAATTT
*
19717987 TATTAAATTAT-ATA
1 TATTTAATTATAATA
19718001 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
19718015 TATTTAATAATAAT-
1 TATTTAATTATAATA
19718029 TATGTTAATT
1 TAT-TTAATT
19718039 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:19718131 original size:18 final size:18
Alignment explanation
Indices: 19718103--19718151 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 18
19718093 ATTATTAAGA
19718103 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAATTATAT
19718120 ATTTTAATTAAA--ATAT
1 ATTTTAATTAAATTATAT
19718136 A-TTTAATTATAATTAT
1 ATTTTAATTA-AATTAT
19718152 GTTTAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 8 0.29
16 7 0.25
17 5 0.18
18 8 0.29
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATTTTAATTAAATTATAT
Found at i:19718137 original size:16 final size:16
Alignment explanation
Indices: 19718103--19718157 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
19718093 ATTATTAAGA
19718103 ATTTT-ATTAAATTATAT
1 ATTTTAATTAAA--ATAT
19718120 ATTTTAATTAAAATAT
1 ATTTTAATTAAAATAT
*
19718136 A-TTTAATTATAAT-T
1 ATTTTAATTAAAATAT
19718150 ATGTTTAA
1 AT-TTTAA
19718158 ATATGATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 2 0.06
15 11 0.32
16 10 0.29
17 5 0.15
18 6 0.18
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (16 bp):
ATTTTAATTAAAATAT
Found at i:19718367 original size:44 final size:45
Alignment explanation
Indices: 19718302--19718392 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
19718292 ACCTCTATTC
* * *
19718302 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
19718346 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
19718391 CA
1 CA
19718393 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:19718394 original size:16 final size:16
Alignment explanation
Indices: 19718373--19718408 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
19718363 GATTAGCTAT
19718373 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
19718389 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
19718405 TACA
1 TACA
19718409 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:19724466 original size:30 final size:31
Alignment explanation
Indices: 19724430--19724508 Score: 94
Period size: 28 Copynumber: 2.6 Consensus size: 31
19724420 TTTTTTTAAA
*
19724430 ATTATTTAAATAATGAAAAATAATATTTTT-
1 ATTATTTAAATAATGAAAAACAATATTTTTC
*
19724460 ATTATTT-AAT--TGAAATAACATTATTTTTC
1 ATTATTTAAATAATGAAA-AACAATATTTTTC
*
19724489 ATTATTTAAATAATTAAAAA
1 ATTATTTAAATAATGAAAAA
19724509 AACTTATCTA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
27 5 0.12
28 10 0.24
29 10 0.24
30 10 0.24
31 2 0.05
32 4 0.10
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (31 bp):
ATTATTTAAATAATGAAAAACAATATTTTTC
Found at i:19725682 original size:20 final size:21
Alignment explanation
Indices: 19725650--19725688 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
19725640 CTATTTATAT
19725650 TTAATAATATTT-ATAAATAA
1 TTAATAATATTTAATAAATAA
19725670 TTAAT-ATATTTTAATAAAT
1 TTAATAATA-TTTAATAAAT
19725689 TATTTAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 8 0.47
21 6 0.35
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
TTAATAATATTTAATAAATAA
Found at i:19737818 original size:4 final size:4
Alignment explanation
Indices: 19737809--19737836 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
19737799 ATTAACAAAA
19737809 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT
19737837 GTTAGGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:19745077 original size:21 final size:21
Alignment explanation
Indices: 19745053--19745100 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
19745043 CATCTTAAAG
19745053 GCTGCAGAACAGTTTGTCATC
1 GCTGCAGAACAGTTTGTCATC
*
19745074 GCTGCGGAACAGTTTGTCATC
1 GCTGCAGAACAGTTTGTCATC
*
19745095 ACTGCA
1 GCTGCA
19745101 AAGAAGCTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.25, T:0.27
Consensus pattern (21 bp):
GCTGCAGAACAGTTTGTCATC
Found at i:19748622 original size:16 final size:16
Alignment explanation
Indices: 19748582--19748624 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
19748572 AATTTATTTC
* *
19748582 TTTTAACAATATATTAT
1 TTTTAA-AATACATTAA
19748599 TATTTAAAATACATTAA
1 T-TTTAAAATACATTAA
19748616 TTTTAAAAT
1 TTTTAAAAT
19748625 TTGATAATGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 8 0.35
17 10 0.43
18 5 0.22
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (16 bp):
TTTTAAAATACATTAA
Found at i:19749720 original size:12 final size:12
Alignment explanation
Indices: 19749703--19749728 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
19749693 CTTTTCCTCT
19749703 TTTGTTCATTTA
1 TTTGTTCATTTA
19749715 TTTGTTCATTTA
1 TTTGTTCATTTA
19749727 TT
1 TT
19749729 ATTAAAATTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTGTTCATTTA
Found at i:19751345 original size:16 final size:16
Alignment explanation
Indices: 19751326--19751358 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
19751316 TACCATTTGT
19751326 TAAAAGTTTGTGGAGA
1 TAAAAGTTTGTGGAGA
19751342 TAAAAGTTTGTGGAGA
1 TAAAAGTTTGTGGAGA
19751358 T
1 T
19751359 GGATTTTGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.30, T:0.33
Consensus pattern (16 bp):
TAAAAGTTTGTGGAGA
Found at i:19753219 original size:28 final size:29
Alignment explanation
Indices: 19753179--19753255 Score: 93
Period size: 31 Copynumber: 2.6 Consensus size: 29
19753169 ACCGTTCGTC
* *
19753179 TATTTATTTATTTATTCTCA-AATCCCCA
1 TATTTGTTTATTTATTATCATAATCCCCA
* *
19753207 TATTTGTTTATTTATTATTATTTCATCCCCA
1 TATTTGTTTATTTATTATCA--TAATCCCCA
19753238 TATTTGTTTATTTATTAT
1 TATTTGTTTATTTATTAT
19753256 TATTTCACTT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 17 0.40
31 25 0.60
ACGTcount: A:0.25, C:0.14, G:0.03, T:0.58
Consensus pattern (29 bp):
TATTTGTTTATTTATTATCATAATCCCCA
Found at i:19753235 original size:31 final size:31
Alignment explanation
Indices: 19753200--19753262 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
19753190 TTATTCTCAA
19753200 ATCCCCATATTTGTTTATTTATTATTATTTC
1 ATCCCCATATTTGTTTATTTATTATTATTTC
19753231 ATCCCCATATTTGTTTATTTATTATTATTTC
1 ATCCCCATATTTGTTTATTTATTATTATTTC
19753262 A
1 A
19753263 CTTCTCATAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.24, C:0.16, G:0.03, T:0.57
Consensus pattern (31 bp):
ATCCCCATATTTGTTTATTTATTATTATTTC
Found at i:19753328 original size:3 final size:3
Alignment explanation
Indices: 19753320--19753430 Score: 100
Period size: 3 Copynumber: 35.3 Consensus size: 3
19753310 TGTCTTTCTC
* *
19753320 ATT ATT ATT ATT GTT ATT AGT ATT ATT ATT ATT -TT ATT CATT AGTCT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT A-T-T
* * *
19753367 ACTT GGTT ATCT ATT CATT -TG CTT ATT ATT ATT ATT ATT ATT ATT ATT
1 A-TT -ATT AT-T ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19753415 ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT A
19753431 AATTGTCTTG
Statistics
Matches: 90, Mismatches: 10, Indels: 16
0.78 0.09 0.14
Matches are distributed among these distances:
2 3 0.03
3 71 0.79
4 13 0.14
5 3 0.03
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:19754391 original size:125 final size:126
Alignment explanation
Indices: 19754245--19754803 Score: 493
Period size: 127 Copynumber: 4.4 Consensus size: 126
19754235 GGTAAACCGG
* ** * * * * * * * **
19754245 AACCCAGCACGATTGGGCACGATTTATCGAATTTTCAAATACGAAACATTACCACATTTTAAATT
1 AACCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTACCTCGTTTTATTTT
* * *
19754310 GAGAAAACATGGATGGAATTT-CAAAAGGATATTCTATATTTTAGTCGAATGAAAAATCGA
66 AAGAAAACGTGGATGGAATTTAAAAAAGGATATTCTATATTTTAGTCGAATGAAAAATCGA
* * *
19754370 AACCCAGCACGATTAGGCACGACCTCCCAAACTTCCAAGCACGAAATATTACCTCGTTTTATTTT
1 AACCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTACCTCGTTTTATTTT
* * * * * *
19754435 AAGAAAGCGTGGATGAAATTTTAAAAAAGGATATTCCATATTTTAGTCGAGTGGAAAATTGA
66 AAGAAAACGTGGATGGAA-TTTAAAAAAGGATATTCTATATTTTAGTCGAATGAAAAATCGA
* * * *
19754497 AGCCCATCACAATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTGCCTCGTTTTATTTT
1 AACCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTACCTCGTTTTATTTT
* *
19754562 AAGAAAACGTGGAT-GAATTTAAAAAAAAAAAGATATTCTATA-TTTAGTCGAATGAACAAAACG
66 AAGAAAACGTGGATGGAATTT----AAAAAAGGATATTCTATATTTTAGTCGAATGAA-AAATCG
19754625 A
126 A
* * * * * * ** *
19754626 AACCCAGCACGATTGGACATGA-TCTCTCAAACTCCCCAAATATGAAATATTGTCTCCTTTTAAT
1 AACCCAGCACGATTGGGCACGACT-TCCCAAACT-TCCAAACACGAAATATTACCTCGTTTT-A-
* * * ** ** * * *
19754690 TTTTTA-AAAA-GTATGGACGAAATTT-CCAAAGGATATTCCGTATTTTAGCCGAATGGAAAATT
62 TTTTAAGAAAACG--TGGATGGAATTTAAAAAAGGATATTCTATATTTTAGTCGAATGAAAAATC
19754752 GA
125 GA
* * *
19754754 AGCCCAGCACGATTGGGCACGACCTCCCAAACTTCCCAACACGAAATATT
1 AACCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATT
19754804 TCCTTATGCT
Statistics
Matches: 347, Mismatches: 71, Indels: 30
0.77 0.16 0.07
Matches are distributed among these distances:
125 67 0.19
126 5 0.01
127 118 0.34
128 57 0.16
129 58 0.17
130 23 0.07
131 5 0.01
132 9 0.03
133 5 0.01
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (126 bp):
AACCCAGCACGATTGGGCACGACTTCCCAAACTTCCAAACACGAAATATTACCTCGTTTTATTTT
AAGAAAACGTGGATGGAATTTAAAAAAGGATATTCTATATTTTAGTCGAATGAAAAATCGA
Found at i:19754516 original size:127 final size:127
Alignment explanation
Indices: 19754332--19754803 Score: 513
Period size: 127 Copynumber: 3.7 Consensus size: 127
19754322 ATGGAATTTC
* *
19754332 AAAAGGATATTCTATATTTTAGTCGAATGAAAAATCGAAACCCAGCACGATTAGGCACGACCTCC
1 AAAAGGATATTCCATATTTTAGTCGAATGAAAAATCGAAACCCAGCACGATTGGGCACGACCTCC
* *
19754397 CAAACTTCCAAGCACGAAATATTACCTCGTTTTATTTTAAGAAAGCGTGGATGAAATTTTAA
66 CAAACTTCCAAACACGAAATATTGCCTCGTTTTATTTTAAGAAAGCGTGGATGAAATTTTAA
* * * * * * *
19754459 AAAAGGATATTCCATATTTTAGTCGAGTGGAAAATTGAAGCCCATCACAATTGGGCACGACTTCC
1 AAAAGGATATTCCATATTTTAGTCGAATGAAAAATCGAAACCCAGCACGATTGGGCACGACCTCC
* *
19754524 CAAACTTCCAAACACGAAATATTGCCTCGTTTTATTTTAAGAAAACGTGGATG-AATTTAAAAAA
66 CAAACTTCCAAACACGAAATATTGCCTCGTTTTATTTTAAGAAAGCGTGGATGAAATTT---TAA
* * * * * *
19754588 AAAAAGATATTCTATA-TTTAGTCGAATGAACAAAACGAAACCCAGCACGATTGGACATGATCTC
1 AAAAGGATATTCCATATTTTAGTCGAATGAA-AAATCGAAACCCAGCACGATTGGGCACGACCTC
* * * * * * ** *
19754652 TCAAACTCCCCAAATATGAAATATTGTCTCCTTTTAATTTTTTAA-AAAGTATGGACGAAA-TTT
65 CCAAACT-TCCAAACACGAAATATTGCCTCGTTTT-A--TTTTAAGAAAGCGTGGATGAAATTTT
*
19754715 -C
126 AA
* * * * * *
19754716 CAAAGGATATTCCGTATTTTAGCCGAATGGAAAATTGAAGCCCAGCACGATTGGGCACGACCTCC
1 AAAAGGATATTCCATATTTTAGTCGAATGAAAAATCGAAACCCAGCACGATTGGGCACGACCTCC
*
19754781 CAAACTTCCCAACACGAAATATT
66 CAAACTTCCAAACACGAAATATT
19754804 TCCTTATGCT
Statistics
Matches: 280, Mismatches: 55, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
126 5 0.02
127 119 0.43
128 57 0.20
129 58 0.21
130 22 0.08
131 1 0.00
132 10 0.04
133 8 0.03
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (127 bp):
AAAAGGATATTCCATATTTTAGTCGAATGAAAAATCGAAACCCAGCACGATTGGGCACGACCTCC
CAAACTTCCAAACACGAAATATTGCCTCGTTTTATTTTAAGAAAGCGTGGATGAAATTTTAA
Found at i:19754736 original size:257 final size:256
Alignment explanation
Indices: 19754332--19754803 Score: 639
Period size: 257 Copynumber: 1.8 Consensus size: 256
19754322 ATGGAATTTC
* *
19754332 AAAAGGATATTCTATATTTTAGTCGAATGAAAAATCGAAACCCAGCACGATTAGGCACGACCTCC
1 AAAAAGATATTCTATATTTTAGTCGAATGAAAAAACGAAACCCAGCACGATTAGGCACGACCTCC
* * * * *
19754397 CAAACTTCCAAGCACGAAATATTACCTCGTTTTATTTTAAGAAAGCGTGGATGAAATTTTAAAAA
66 CAAACTCCCAAACACGAAATATTACCTCCTTTTATTTTAAGAAAGCATGGACGAAATTTTAAAAA
* * * *
19754462 AGGATATTCCATATTTTAGTCGAGTGGAAAATTGAAGCCCATCACAATTGGGCACGACTTCCCAA
131 AGGATATTCCATATTTTAGCCGAATGGAAAATTGAAGCCCAGCACAATTGGGCACGACCTCCCAA
19754527 ACTTCCAAACACGAAATATTGCCTCGTTTTATTTTAAGAAAACGTGGATGAATTTAAAAAA
196 ACTTCCAAACACGAAATATTGCCTCGTTTTATTTTAAGAAAACGTGGATGAATTTAAAAAA
* *
19754588 AAAAAGATATTCTATA-TTTAGTCGAATGAACAAAACGAAACCCAGCACGATT-GGACATGATCT
1 AAAAAGATATTCTATATTTTAGTCGAATGAA-AAAACGAAACCCAGCACGATTAGG-CACGACCT
* * * ** *
19754651 CTCAAACTCCCCAAATATGAAATATTGTCTCCTTTTAATTTTTTAA-AAAGTATGGACGAAA-TT
64 CCCAAACT-CCCAAACACGAAATATTACCTCCTTTT-A--TTTTAAGAAAGCATGGACGAAATTT
** * *
19754714 T-CCAAAGGATATTCCGTATTTTAGCCGAATGGAAAATTGAAGCCCAGCACGATTGGGCACGACC
125 TAAAAAAGGATATTCCATATTTTAGCCGAATGGAAAATTGAAGCCCAGCACAATTGGGCACGACC
*
19754778 TCCCAAACTTCCCAACACGAAATATT
190 TCCCAAACTTCCAAACACGAAATATT
19754804 TCCTTATGCT
Statistics
Matches: 186, Mismatches: 24, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
255 16 0.09
256 48 0.26
257 100 0.54
258 4 0.02
259 12 0.06
260 6 0.03
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (256 bp):
AAAAAGATATTCTATATTTTAGTCGAATGAAAAAACGAAACCCAGCACGATTAGGCACGACCTCC
CAAACTCCCAAACACGAAATATTACCTCCTTTTATTTTAAGAAAGCATGGACGAAATTTTAAAAA
AGGATATTCCATATTTTAGCCGAATGGAAAATTGAAGCCCAGCACAATTGGGCACGACCTCCCAA
ACTTCCAAACACGAAATATTGCCTCGTTTTATTTTAAGAAAACGTGGATGAATTTAAAAAA
Found at i:19757017 original size:134 final size:134
Alignment explanation
Indices: 19756777--19757703 Score: 1446
Period size: 134 Copynumber: 6.9 Consensus size: 134
19756767 GATGGCCAAA
*
19756777 ATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAA-TTTTCAGTCTGCTTCCTGCAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTT-AGTCTGCTTCCTGCAACTTC
* ** * * *
19756841 AGGAAGATAATACTTGCCGTCTTCAGTCTGCTCAACTGCAACTTCAGGGAGATAAGACTTGTTAT
65 AGGAAGATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCAT
19756906 TTTCG
130 TTTCG
** * *
19756911 ATCTGCTCCATAGTTGATACATGGAGATAGGATCTGTAA-TTTTCAGTCTGCTTCCTGCAACTTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTT-AGTCTGCTTCCTGCAACTTC
** * * *
19756975 AGGAAGATAAGACTTGCCGTTTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTCAT
65 AGGAAGATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCAT
**
19757040 TTTTT
130 TTTCG
* *
19757045 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCTTGCATCTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCA
* * *
19757110 GGAAGATAAGACTTGCTGTCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTTGTCATT
66 GGAAGATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATT
19757175 TTCG
131 TTCG
** *
19757179 ATCTGCTCCATAATCGATACATGAAGATAAGATCTGTAA-TTTTCAGTCTGCTTCCTGCAACTTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTT-AGTCTGCTTCCTGCAACTTC
* * *
19757243 AGGAAGATAAGACTTACTATCTACAGTCTGTTCCACTGCAACTTCAGGAAGATAAGACTTGTCAT
65 AGGAAGATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCAT
19757308 TTTCG
130 TTTCG
*
19757313 ATCTGCTCCATAGCCGATACATGGAGATAAAATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCA
*
19757378 GGAAGATAAGACTTGCTATCTACAGTCTGCTTCACTGCAACTTCAGGGAGATAAGACTTGTCATT
66 GGAAGATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATT
19757443 TTCG
131 TTCG
* *
19757447 ATCTGCTCTATAGCTGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCA
*
19757512 GGAAGATAAGACTTGCTATCTACAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATT
66 GGAAGATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATT
19757577 TTCG
131 TTCG
* * * *
19757581 ATCCGCTCCATAGCTGATACATGGAGATAATATCTGTAACTTTTAATCTGCTTCCTGCAACTTCA
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCA
* *
19757646 GGAAGATAAGACTTGCTATCTACAGTCTGCTCCACTACAACTTCAGGAAGATAAGACT
66 GGAAGATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
19757704 AGTGGCTAAA
Statistics
Matches: 737, Mismatches: 53, Indels: 6
0.93 0.07 0.01
Matches are distributed among these distances:
133 4 0.01
134 725 0.98
135 8 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (134 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCA
GGAAGATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATT
TTCG
Found at i:19757562 original size:89 final size:87
Alignment explanation
Indices: 19756820--19757578 Score: 338
Period size: 89 Copynumber: 8.5 Consensus size: 87
19756810 CTGTAATTTT
* * *** *
19756820 CAGTCTGCTTC-CTGCAACTTCAGGAAGATAATACTTGCCGTCTTCAGTCTGC-TCAACTGCAAC
1 CAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAAT-TTTAGTCTGCTTC--CTGCAAC
* * *
19756883 TTCAGGGAGATAAGACTTGTTATTTT
63 TTCAGGAAGATAAGACTTG-TATCTA
** * *
19756909 C-GATCTGCTCCA-TAGTTGA-TACATGG-AGATAGGA-TCTGTAATTTTCAGTCTGCTTCCTGC
1 CAG-TCTGCTCCACT-G-CAACTTCA-GGAAGATAAGACT-TGTAATTTT-AGTCTGCTTCCTGC
* ** * *
19756969 AACTTTAGGAAGATAAGACTTGCCGTTTT
60 AACTTCAGGAAGATAAGACTTG-TATCTA
* * * *
19756998 CAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTCATTTTTTA-TCTGC-TCCATAGCCG
1 CAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGT-A-ATTTTAGTCTGCTTCC-T-G-CA
* * *
19757061 A-TACATGG-AGATAAGA-TCTGTAACTTT
61 ACTTCA-GGAAGATAAGACT-TGTATC-TA
* * * * * *
19757088 TAGTCTGCTTC-TTGCATCTTCAGGAAGATAAGACTTGCT-GTCTTCAGTCTGC-TCCATTGCAA
1 CAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTG-TAAT-TTTAGTCTGCTTCC--TGCAA
* * *
19757150 CTTCAGGGAGATAAGACTTGTCATTTT
62 CTTCAGGAAGATAAGACTTGT-ATCTA
* *
19757177 C-GATCTGCTCCA-T--AATCGATACATGAAGATAAGA-TCTGTAATTTTCAGTCTGCTTCCTGC
1 CAG-TCTGCTCCACTGCAA-C--TTCAGGAAGATAAGACT-TGTAATTTT-AGTCTGCTTCCTGC
*
19757237 AACTTCAGGAAGATAAGACTTACTATCTA
60 AACTTCAGGAAGATAAGACTT-GTATCTA
* * * *
19757266 CAGTCTGTTCCACTGCAACTTCAGGAAGATAAGACTTGTCATTTTCGATCTGC-TCCATAGCCGA
1 CAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAATTTTAG-TCTGCTTCC-T-G-CAA
* * * *
19757330 -TACATGG-AGATAA-AATCTGTAACTTT
62 CTTCA-GGAAGATAAGACT-TGTATC-TA
* * **
19757356 TAGTCTGCTTC-CTGCAACTTCAGGAAGATAAGACTTGCT-ATCTACAGTCTGCTTCACTGCAAC
1 CAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTG-TAAT-TTTAGTCTGCTTC-CTGCAAC
* * *
19757419 TTCAGGGAGATAAGACTTGTCATTTT
63 TTCAGGAAGATAAGACTTGT-ATCTA
* * *
19757445 C-GATCTGCTCTA-TAGCTGA-TACATGG-AGATAAGA-TCTGTAACTTTTAGTCTGCTTCCTGC
1 CAG-TCTGCTCCACT-GC-AACTTCA-GGAAGATAAGACT-TGTAA-TTTTAGTCTGCTTCCTGC
19757505 AACTTCAGGAAGATAAGACTTGCTATCTA
60 AACTTCAGGAAGATAAGACTTG-TATCTA
* * *
19757534 CAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATTTT
1 CAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAATTTT
19757579 CGATCCGCTC
Statistics
Matches: 508, Mismatches: 89, Indels: 147
0.68 0.12 0.20
Matches are distributed among these distances:
87 2 0.00
88 32 0.06
89 306 0.60
90 140 0.28
91 26 0.05
92 2 0.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (87 bp):
CAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTAATTTTAGTCTGCTTCCTGCAACTTC
AGGAAGATAAGACTTGTATCTA
Found at i:19757809 original size:402 final size:398
Alignment explanation
Indices: 19756781--19757823 Score: 1393
Period size: 402 Copynumber: 2.6 Consensus size: 398
19756771 GCCAAAATCT
19756781 GCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAGGAA
1 GCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAGGAA
* ** * * *
19756846 GATAATACTTGCCGTCTTCAGTCTGCTCAACTGCAACTTCAGGGAGATAAGACTTGTTATTTTCG
66 GATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTG-TATTTTCG
** * *
19756911 ATCTGCTCCATAGTTGATACATGGAGATAGGATCTGTAATTTTCAGTCTGCTTCCTGCA-ACTTT
130 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTT-AGTCTGCTTCCTGCATAC-AT
** * *
19756975 AGGAAGATAAGACTTGCCGTTTTCAGTCTGCTCCACTACAACTTCAGGGAGATAAGACTTGTCAT
193 -GGAAGATAAGACTTG-TATTTTCAGTCTGCTTCACTGCAACTTCAGGGAGATAAGACTTGTCAT
** * *
19757040 TTTTTATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCTTGCAT
256 TTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAA
* * *
19757105 CTTCAGGAAGATAAGACTTGCTGTCTTCAGTCTGCTCCATTGCAACTTCAGGGAGATAAGACTTG
321 CTTCAGGAAGATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
*
19757170 TCATTTTCGATCT
386 TCATTTTCGATCC
* *
19757183 GCTCCATAATCGATACATGAAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAGGAA
1 GCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAGGAA
* *
19757248 GATAAGACTTACTATCTACAGTCTGTTCCACTGCAACTTCAGGAAGATAAGACTTGTCATTTTCG
66 GATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGT-ATTTTCG
* *
19757313 ATCTGCTCCATAGCCGATACATGGAGATAAAATCTGTAACTTTTAGTCTGCTTCCTGCA-ACTTC
130 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAA-TTTTAGTCTGCTTCCTGCATACAT-
* *
19757377 AGGAAGATAAGACTTGCTATCTACAGTCTGCTTCACTGCAACTTCAGGGAGATAAGACTTGTCAT
193 -GGAAGATAAGACTTG-TATTTTCAGTCTGCTTCACTGCAACTTCAGGGAGATAAGACTTGTCAT
* *
19757442 TTTCGATCTGCTCTATAGCTGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAA
256 TTTCGATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAA
*
19757507 CTTCAGGAAGATAAGACTTGCTATCTACAGTTTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
321 CTTCAGGAAGATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTG
19757572 TCATTTTCGATCC
386 TCATTTTCGATCC
* *
19757585 GCTCCATAG-CTGATACATGGAGATAATATCTGTAACTTTT-AATCTGCTTCCTGCAACTTCAGG
1 GCTCCATAGTC-GATACATGGAGATAAGATCTGTAA-TTTTCAGTCTGCTTCCTGCAACTTCAGG
* * *** **
19757648 AAGATAAGACTTGCTATCTACAGTCTGCTCCACTACAACTTCAGGAAGATAAGACTAGTGGCTAA
64 AAGATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTATTTTC
* * * ** * *
19757713 AATCTGCTTCATAGCCGGTACATGGAGATAAGA-CTCGCCATTTCT-GATCTGCTCCACAGCCGA
129 GATCTGCTCCATAGCCGATACATGGAGATAAGATCT-GTAATTT-TAG-TCTGCTTC-CTG-C-A
*
19757776 TACATGG-AGATAAGA-TCTGTAATTTTTAGTCTGCTTCA-TGCAACTTCA
188 TACATGGAAGATAAGACT-TGT-ATTTTCAGTCTGCTTCACTGCAACTTCA
19757824 AGACAATAAG
Statistics
Matches: 571, Mismatches: 56, Indels: 29
0.87 0.09 0.04
Matches are distributed among these distances:
400 6 0.01
401 56 0.10
402 494 0.87
403 11 0.02
404 1 0.00
405 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (398 bp):
GCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTGCAACTTCAGGAA
GATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGTATTTTCGA
TCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTAGTCTGCTTCCTGCATACATGGA
AGATAAGACTTGTATTTTCAGTCTGCTTCACTGCAACTTCAGGGAGATAAGACTTGTCATTTTCG
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAACTTTTAGTCTGCTTCCTGCAACTTCA
GGAAGATAAGACTTGCTATCTACAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTCATT
TTCGATCC
Found at i:19769409 original size:127 final size:127
Alignment explanation
Indices: 19769231--19769705 Score: 512
Period size: 127 Copynumber: 3.7 Consensus size: 127
19769221 ATGGAATTTC
** *
19769231 AAAAGGATATTCTGTATTTTAGTCAAATGAAAAATCAAAACCCAGCACGATTGGGCACGACCTCC
1 AAAAGGATATTCCATATTTTAGTCAAATGGAAAATCAAAACCCAGCACGATTGGGCACGACCTCC
* * *
19769296 CAAACTTCCAAGCATGAAATATTACCTCGTTTTATTTTAAGAAAGCGTGGATGAAATTTTAA
66 CAAACTTCCAAACACGAAATATTGCCTCGTTTTATTTTAAGAAAGCGTGGATGAAATTTTAA
* * ** * *
19769358 AAAAGGATATTCCATATTTTAGTCGAGTGGAAAATTGAAGCCCAGCACGATTGGGCACGACTTCC
1 AAAAGGATATTCCATATTTTAGTCAAATGGAAAATCAAAACCCAGCACGATTGGGCACGACCTCC
* * * *
19769423 CAAACTTTCAAACACGAAATATTGCCTCGTTTTATTTTAAGAAAACGCGGATG-AATTTAAAAA
66 CAAACTTCCAAACACGAAATATTGCCTCGTTTTATTTTAAGAAAGCGTGGATGAAATTT--TAA
* * * * * *
19769486 AAAAGGATATTCCATA-TTTAGTCAAAT-GAACTAAACGAAACCCAGCACGATTAGACACAATCT
1 AAAAGGATATTCCATATTTTAGTCAAATGGAA--AATCAAAACCCAGCACGATTGGGCACGACCT
* * * * * *
19769549 CTCAAACTCCCCAAATACGAAATATTGCCTCCTTTTAATTTTTTAA-AAAGCATGGACGAAA-TT
64 CCCAAACT-TCCAAACACGAAATATTGCCTCGTTTT-A--TTTTAAGAAAGCGTGGATGAAATTT
*
19769612 T-C
125 TAA
* * * * * *
19769614 CAAAGGATATTCCGTATTTTAGCCGAATGGAAAATTAAAGCCCAGCACGATTGGGCACGACCTCC
1 AAAAGGATATTCCATATTTTAGTCAAATGGAAAATCAAAACCCAGCACGATTGGGCACGACCTCC
*
19769679 CAAACTTCCCAACACGAAATATTGCCT
66 CAAACTTCCAAACACGAAATATTGCCT
19769706 TATGCTGAGA
Statistics
Matches: 284, Mismatches: 53, Indels: 22
0.79 0.15 0.06
Matches are distributed among these distances:
126 8 0.03
127 130 0.46
128 92 0.32
129 32 0.11
130 4 0.01
131 10 0.04
132 8 0.03
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (127 bp):
AAAAGGATATTCCATATTTTAGTCAAATGGAAAATCAAAACCCAGCACGATTGGGCACGACCTCC
CAAACTTCCAAACACGAAATATTGCCTCGTTTTATTTTAAGAAAGCGTGGATGAAATTTTAA
Found at i:19769634 original size:256 final size:255
Alignment explanation
Indices: 19769231--19769705 Score: 636
Period size: 256 Copynumber: 1.9 Consensus size: 255
19769221 ATGGAATTTC
** * * *
19769231 AAAAGGATATTCTGTATTTTAGTCAAATGAAAAATCAAAACCCAGCACGATTGGGCACGACCTCC
1 AAAAGGATATTCCATATTTTAGTCAAATGAAAAATCAAAACCCAGCACGATTAGACACAACCTCC
* * * * * *
19769296 CAAACTTCCAAGCATGAAATATTACCTCGTTTTATTTTAAGAAAGCGTGGATGAAATTTTAAAAA
66 CAAACTCCCAAACACGAAATATTACCTCCTTTTATTTTAAGAAAGCATGGACGAAATTTTAAAAA
* * * *
19769361 AGGATATTCCATATTTTAGTCGAGTGGAAAATTGAAGCCCAGCACGATTGGGCACGACTTCCCAA
131 AGGATATTCCATATTTTAGCCGAATGGAAAATTAAAGCCCAGCACGATTGGGCACGACCTCCCAA
*
19769426 ACTTTCAAACACGAAATATTGCCTCGTTTTATTTTAAGAAAACGCGGATGAATTTAAAAA
196 ACTTCCAAACACGAAATATTGCCTCGTTTTATTTTAAGAAAACGCGGATGAATTTAAAAA
* *
19769486 AAAAGGATATTCCATA-TTTAGTCAAATGAACTAAA-CGAAACCCAGCACGATTAGACACAATCT
1 AAAAGGATATTCCATATTTTAGTCAAATGAA--AAATCAAAACCCAGCACGATTAGACACAACCT
* * *
19769549 CTCAAACTCCCCAAATACGAAATATTGCCTCCTTTTAATTTTTTAA-AAAGCATGGACGAAA-TT
64 CCCAAACT-CCCAAACACGAAATATTACCTCCTTTT-A--TTTTAAGAAAGCATGGACGAAATTT
** *
19769612 T-CCAAAGGATATTCCGTATTTTAGCCGAATGGAAAATTAAAGCCCAGCACGATTGGGCACGACC
125 TAAAAAAGGATATTCCATATTTTAGCCGAATGGAAAATTAAAGCCCAGCACGATTGGGCACGACC
*
19769676 TCCCAAACTTCCCAACACGAAATATTGCCT
190 TCCCAAACTTCCAAACACGAAATATTGCCT
19769706 TATGCTGAGA
Statistics
Matches: 189, Mismatches: 25, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
254 14 0.07
255 44 0.23
256 108 0.57
257 4 0.02
258 13 0.07
259 6 0.03
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (255 bp):
AAAAGGATATTCCATATTTTAGTCAAATGAAAAATCAAAACCCAGCACGATTAGACACAACCTCC
CAAACTCCCAAACACGAAATATTACCTCCTTTTATTTTAAGAAAGCATGGACGAAATTTTAAAAA
AGGATATTCCATATTTTAGCCGAATGGAAAATTAAAGCCCAGCACGATTGGGCACGACCTCCCAA
ACTTCCAAACACGAAATATTGCCTCGTTTTATTTTAAGAAAACGCGGATGAATTTAAAAA
Found at i:19773172 original size:23 final size:23
Alignment explanation
Indices: 19773137--19773207 Score: 65
Period size: 23 Copynumber: 3.2 Consensus size: 23
19773127 TATCTAATAA
* *
19773137 ATATATATTTTTTATTTTTAATT
1 ATATATATATTTTAATTTTAATT
*
19773160 ATATTTATATTTTAATTTTAATT
1 ATATATATATTTTAATTTTAATT
* * * *
19773183 TTA-ATATA-ATCAATTTTTATT
1 ATATATATATTTTAATTTTAATT
19773204 ATAT
1 ATAT
19773208 TTTTCAAATT
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
21 12 0.32
22 4 0.11
23 22 0.58
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.63
Consensus pattern (23 bp):
ATATATATATTTTAATTTTAATT
Found at i:19774244 original size:15 final size:17
Alignment explanation
Indices: 19774225--19774278 Score: 69
Period size: 16 Copynumber: 3.4 Consensus size: 17
19774215 TCTGAATATG
19774225 ATTATTTTGA-AC-ACA
1 ATTATTTTGAGACAACA
* *
19774240 GTTATTTTCAGACAACA
1 ATTATTTTGAGACAACA
19774257 ATTATTTTGAG-CAACA
1 ATTATTTTGAGACAACA
19774273 ATTATT
1 ATTATT
19774279 CTAAATAATC
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
15 8 0.24
16 13 0.39
17 12 0.36
ACGTcount: A:0.37, C:0.13, G:0.09, T:0.41
Consensus pattern (17 bp):
ATTATTTTGAGACAACA
Found at i:19777282 original size:25 final size:24
Alignment explanation
Indices: 19777245--19777314 Score: 90
Period size: 25 Copynumber: 3.0 Consensus size: 24
19777235 AGAATTAATA
*
19777245 TATAATTTCACTAATTTATTAAGT
1 TATAATTTCACTAATTTATTAAAT
19777269 TATAGATTTCACTAATTTATTAAAT
1 TATA-ATTTCACTAATTTATTAAAT
* *
19777294 TATATTTTTA-TAATTT-TTAAA
1 TATAATTTCACTAATTTATTAAA
19777315 AGATTAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
22 5 0.12
23 6 0.14
24 8 0.19
25 23 0.55
ACGTcount: A:0.39, C:0.06, G:0.03, T:0.53
Consensus pattern (24 bp):
TATAATTTCACTAATTTATTAAAT
Found at i:19779781 original size:12 final size:12
Alignment explanation
Indices: 19779764--19779788 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19779754 GACGAGGAGC
19779764 TCGAGGCTGAGG
1 TCGAGGCTGAGG
19779776 TCGAGGCTGAGG
1 TCGAGGCTGAGG
19779788 T
1 T
19779789 AGATTTCAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.48, T:0.20
Consensus pattern (12 bp):
TCGAGGCTGAGG
Found at i:19781920 original size:13 final size:13
Alignment explanation
Indices: 19781902--19781929 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19781892 AGCTTATGCA
19781902 GCAACTACATTGT
1 GCAACTACATTGT
19781915 GCAACTACATTGT
1 GCAACTACATTGT
19781928 GC
1 GC
19781930 TCCTCCAAGA
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:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (13 bp):
GCAACTACATTGT
Found at i:19782670 original size:40 final size:40
Alignment explanation
Indices: 19782622--19782709 Score: 104
Period size: 40 Copynumber: 2.2 Consensus size: 40
19782612 CTTTTCAGGT
** * *
19782622 CAAATCCTATTTGCCTTAAGTTACCGTAGTCAATCAGGAA
1 CAAATCCTATTCACCTTAAATTACCATAGTCAATCAGGAA
* * * *
19782662 TAAATCCTATTCACTTTAAATTACCATAGTGAATCAGTAA
1 CAAATCCTATTCACCTTAAATTACCATAGTCAATCAGGAA
19782702 CAAATCCT
1 CAAATCCT
19782710 TTCCACTTTG
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.36, C:0.22, G:0.10, T:0.32
Consensus pattern (40 bp):
CAAATCCTATTCACCTTAAATTACCATAGTCAATCAGGAA
Found at i:19782717 original size:40 final size:40
Alignment explanation
Indices: 19782637--19782759 Score: 131
Period size: 40 Copynumber: 3.1 Consensus size: 40
19782627 CCTATTTGCC
* * *
19782637 TTAAGTTACCGTAGTCAATCAGGAATAAATCCTATT-CACT
1 TTAAGTTACCATAGTGAATCAGGAACAAATCCT-TTCCACT
* *
19782677 TTAAATTACCATAGTGAATCAGTAACAAATCCTTTCCACT
1 TTAAGTTACCATAGTGAATCAGGAACAAATCCTTTCCACT
* * ** * *
19782717 TTGAGGTATTATAGTGAATCAGGAACGAATCCTATCCACT
1 TTAAGTTACCATAGTGAATCAGGAACAAATCCTTTCCACT
19782757 TTA
1 TTA
19782760 TATTCTCGAG
Statistics
Matches: 68, Mismatches: 14, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
39 2 0.03
40 66 0.97
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.33
Consensus pattern (40 bp):
TTAAGTTACCATAGTGAATCAGGAACAAATCCTTTCCACT
Found at i:19783292 original size:3 final size:3
Alignment explanation
Indices: 19783284--19783309 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
19783274 ATATATATTT
19783284 TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TC
19783310 TCCATTCCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.00, C:0.65, G:0.00, T:0.35
Consensus pattern (3 bp):
TCC
Found at i:19805943 original size:46 final size:46
Alignment explanation
Indices: 19805859--19806013 Score: 204
Period size: 46 Copynumber: 3.4 Consensus size: 46
19805849 TCTCAAAGAA
* * * * *
19805859 TGAAAGATACCATGGCAACCTGATATGAGATGTGTAAGACCATGGT
1 TGAAAGATACCATGGCAACATGACATGAAAAGAGTAAGACCATGGT
* *
19805905 TGAAAGATACCATGGCAACGTGACATGAAAAGAATAAGACCATGGT
1 TGAAAGATACCATGGCAACATGACATGAAAAGAGTAAGACCATGGT
*
19805951 TGAAAGATACCATGGCAACATGACA-GAAAATGAGTAAGACCATAGT
1 TGAAAGATACCATGGCAACATGACATGAAAA-GAGTAAGACCATGGT
* *
19805997 TGAAAGACACTATGGCA
1 TGAAAGATACCATGGCA
19806014 TCACGTCAAA
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
45 5 0.05
46 92 0.95
ACGTcount: A:0.41, C:0.15, G:0.24, T:0.19
Consensus pattern (46 bp):
TGAAAGATACCATGGCAACATGACATGAAAAGAGTAAGACCATGGT
Found at i:19806319 original size:23 final size:25
Alignment explanation
Indices: 19806274--19806320 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
19806264 AATAAATATA
*
19806274 CATAAAATATATGGAAATGATGAAG
1 CATAAAATATATGGAAATAATGAAG
*
19806299 CATAAAATAT-T-GATATAATGAA
1 CATAAAATATATGGAAATAATGAA
19806321 ATGAATGATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 1 0.05
25 10 0.50
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (25 bp):
CATAAAATATATGGAAATAATGAAG
Found at i:19810070 original size:3 final size:3
Alignment explanation
Indices: 19810062--19810290 Score: 152
Period size: 3 Copynumber: 76.0 Consensus size: 3
19810052 TAGTACCATG
* * * *
19810062 ATA ATA ATA AGA ATA ATA ATA ATA A-A ATA ATA AAA ATA ACA AT- ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
19810108 TTA CTA ACA ATA ATA ATAA ATAA ATA ATG TTA ATA A-A TATA TATA A-A
1 ATA ATA ATA ATA ATA AT-A AT-A ATA ATA ATA ATA ATA -ATA -ATA ATA
* *
19810155 ATA ATA GTA ACA ATA ATA A-A ATA A-A TATA ATA ATA ATA ATA AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA A-TA
* * *
19810200 ATA ATA TATA ATA ATA ACA GTA ATA AAA ATA ATA ATA ATGA ATA CA-A
1 ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA -ATA
* * *
19810247 ATG ATA ATA A-A ATA ATA ATA ATA ATTA ATT TTA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
19810291 GCAAAAATAA
Statistics
Matches: 177, Mismatches: 32, Indels: 34
0.73 0.13 0.14
Matches are distributed among these distances:
2 15 0.08
3 136 0.77
4 26 0.15
ACGTcount: A:0.63, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:19810146 original size:24 final size:23
Alignment explanation
Indices: 19810119--19810205 Score: 65
Period size: 23 Copynumber: 3.8 Consensus size: 23
19810109 TACTAACAAT
19810119 AATAATAAATAAATAAT-GTTAATA
1 AATAATAAATAAATAATAG-TAA-A
* *
19810143 AAT-ATATATAAAATAATAGTAAC
1 AATAATAAAT-AAATAATAGTAAA
* *
19810166 AATAATAAAATAAAT-ATAATAAT
1 AATAAT-AAATAAATAATAGTAAA
*
19810189 AATAATAAGT-AATAATA
1 AATAATAAATAAATAATA
19810206 TATAATAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
21 3 0.06
22 6 0.12
23 20 0.38
24 19 0.37
25 4 0.08
ACGTcount: A:0.64, C:0.01, G:0.03, T:0.31
Consensus pattern (23 bp):
AATAATAAATAAATAATAGTAAA
Found at i:19814285 original size:22 final size:23
Alignment explanation
Indices: 19814226--19814286 Score: 63
Period size: 23 Copynumber: 2.7 Consensus size: 23
19814216 TTTTAAAAAA
*
19814226 ATATTTGAAGAATATT-CTCTTTTT
1 ATATTT-AAGAAT-TTATTCTTTTT
*
19814250 ATTTTTAAGAATTTATTCTTTTT
1 ATATTTAAGAATTTATTCTTTTT
*
19814273 ATATTTCAG-ATTTA
1 ATATTTAAGAATTTA
19814287 AAAATTTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
22 7 0.22
23 20 0.62
24 5 0.16
ACGTcount: A:0.30, C:0.07, G:0.07, T:0.57
Consensus pattern (23 bp):
ATATTTAAGAATTTATTCTTTTT
Found at i:19815463 original size:18 final size:18
Alignment explanation
Indices: 19815437--19815471 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19815427 GTTGTATACA
19815437 TATAAACTATTAATATAT
1 TATAAACTATTAATATAT
* *
19815455 TATATACTATTTATATA
1 TATAAACTATTAATATA
19815472 ATACAATAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (18 bp):
TATAAACTATTAATATAT
Found at i:19817179 original size:28 final size:27
Alignment explanation
Indices: 19817148--19817210 Score: 63
Period size: 29 Copynumber: 2.2 Consensus size: 27
19817138 CAAATTTTAA
19817148 AATGATAAGAAATGAATTTAAAATGAAT
1 AATG-TAAGAAATGAATTTAAAATGAAT
* * * *
19817176 AATGTGAAAAAAAGAAATTTAATATCAAT
1 AATGT-AAGAAATG-AATTTAAAATGAAT
19817205 AATGTA
1 AATGTA
19817211 CAAAACAATT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 1 0.03
28 11 0.38
29 17 0.59
ACGTcount: A:0.57, C:0.02, G:0.13, T:0.29
Consensus pattern (27 bp):
AATGTAAGAAATGAATTTAAAATGAAT
Found at i:19817238 original size:29 final size:27
Alignment explanation
Indices: 19817202--19817257 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
19817192 ATTTAATATC
19817202 AATAATGTACAAAACAATTTAAAAATAG
1 AATAATGTACAAAA-AATTTAAAAATAG
* * *
19817230 AATATATGTATAAGAAATTTTAAAATAG
1 AATA-ATGTACAAAAAATTTAAAAATAG
19817258 GTAATATAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.57, C:0.04, G:0.09, T:0.30
Consensus pattern (27 bp):
AATAATGTACAAAAAATTTAAAAATAG
Found at i:19817308 original size:27 final size:26
Alignment explanation
Indices: 19817243--19817317 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
19817233 ATATGTATAA
* **
19817243 GAAATTTTAAAATAGGTAATATAGGC
1 GAAAGTTTAAAATAAATAATATAGGC
*
19817269 GAAAGTTTGAAATAAATAATATACGG-
1 GAAAGTTTAAAATAAATAATATA-GGC
*
19817295 GAAAAGTTTAAAATGAATAATAT
1 G-AAAGTTTAAAATAAATAATAT
19817318 GTAAAATAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
26 20 0.49
27 21 0.51
ACGTcount: A:0.51, C:0.03, G:0.17, T:0.29
Consensus pattern (26 bp):
GAAAGTTTAAAATAAATAATATAGGC
Found at i:19817339 original size:26 final size:27
Alignment explanation
Indices: 19817301--19817397 Score: 99
Period size: 26 Copynumber: 3.6 Consensus size: 27
19817291 ACGGGAAAAG
*
19817301 TTTAAAATGAATAATATGTAAAAT-AA
1 TTTAAAATAAATAATATGTAAAATGAA
* * *
19817327 TTTAAGATAAATAATATAT-AAATGAG
1 TTTAAAATAAATAATATGTAAAATGAA
* *
19817353 TTTAAAATAAATATTATGTAAAAAGAAA
1 TTTAAAATAAATAATATGTAAAATG-AA
* *
19817381 CTTAAAATAAGTAATAT
1 TTTAAAATAAATAATAT
19817398 ACAAGACATC
Statistics
Matches: 56, Mismatches: 12, Indels: 4
0.78 0.17 0.06
Matches are distributed among these distances:
25 4 0.07
26 33 0.59
27 4 0.07
28 15 0.27
ACGTcount: A:0.57, C:0.01, G:0.08, T:0.34
Consensus pattern (27 bp):
TTTAAAATAAATAATATGTAAAATGAA
Found at i:19819754 original size:45 final size:45
Alignment explanation
Indices: 19819688--19819812 Score: 153
Period size: 44 Copynumber: 2.8 Consensus size: 45
19819678 TTAATTTGTT
* *
19819688 CCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCC
1 CCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAACCTGCC
* * * * *
19819733 CCACTGCAATTTCAGGTAAATAAGACTTG-TAACTTTAACCTGCC
1 CCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAACCTGCC
** *
19819777 CCACTGCAACTTCAGGGGGATAAGGTTTGCTATCTT
1 CCACTGCAACTTCAGGGAAATAAGATTTGCTATCTT
19819813 TGATCTATTT
Statistics
Matches: 65, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
44 35 0.54
45 30 0.46
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (45 bp):
CCACTGCAACTTCAGGGAAATAAGATTTGCTATCTTCAACCTGCC
Found at i:19819827 original size:89 final size:89
Alignment explanation
Indices: 19819688--19819856 Score: 198
Period size: 89 Copynumber: 1.9 Consensus size: 89
19819678 TTAATTTGTT
* *
19819688 CCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTGCCCCACTGCAA-TTTCAGGTAA
1 CCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTACCCCACTGCAACTTTAAGG-AA
19819752 ATAAGA-CTTGTAACTTTAACCTGCC
65 ATAAGATC-TGTAACTTTAACCTGCC
* ** * ** *** *
19819777 CCACTGCAACTTCAGGGGGATAAGGTTTGCTATCTTTGATCTATTTCACTGCAACTTTAAGGAGA
1 CCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTACCCCACTGCAACTTTAAGGAAA
19819842 TAAGATCTGTAACTT
66 TAAGATCTGTAACTT
19819857 CAATCTACTC
Statistics
Matches: 66, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
89 59 0.89
90 7 0.11
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (89 bp):
CCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAATCTACCCCACTGCAACTTTAAGGAAA
TAAGATCTGTAACTTTAACCTGCC
Found at i:19819906 original size:44 final size:44
Alignment explanation
Indices: 19819823--19819939 Score: 137
Period size: 44 Copynumber: 2.7 Consensus size: 44
19819813 TGATCTATTT
*
19819823 CACTGCAACTTTAAGGAGATAAGA-TCTGTAACTTCAATCTACTC
1 CACTGCAACTTTAAGGAGATAAGATTC-GCAACTTCAATCTACTC
** * * * *
19819867 TTCTGTAACTTTAAGGAGATAAGATTCGCGACTTGAATCTGCTC
1 CACTGCAACTTTAAGGAGATAAGATTCGCAACTTCAATCTACTC
* *
19819911 CACTGCAACTTCAAGGAGACAAGATTCGC
1 CACTGCAACTTTAAGGAGATAAGATTCGC
19819940 CATGGTGATT
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 58 0.97
45 2 0.03
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.28
Consensus pattern (44 bp):
CACTGCAACTTTAAGGAGATAAGATTCGCAACTTCAATCTACTC
Found at i:19821717 original size:46 final size:47
Alignment explanation
Indices: 19821667--19821784 Score: 159
Period size: 46 Copynumber: 2.6 Consensus size: 47
19821657 TGCCATAGTG
* *
19821667 TCTTTCAACTACGGTCTTACTCATTTTC-TGTCATGTTGCCATGGAA
1 TCTTTCAACTATGGTCTTACTCATTTTCATGTCACGTTGCCATGGAA
* * *
19821713 TCTTTCAACTATGGTTTTATTC-TTTTCATGTCACGTTGCCATGGTA
1 TCTTTCAACTATGGTCTTACTCATTTTCATGTCACGTTGCCATGGAA
* *
19821759 TCTTTCAACCATGGTCTTACACATTT
1 TCTTTCAACTATGGTCTTACTCATTT
19821785 CATATCAGAG
Statistics
Matches: 61, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
45 5 0.08
46 53 0.87
47 3 0.05
ACGTcount: A:0.19, C:0.23, G:0.14, T:0.44
Consensus pattern (47 bp):
TCTTTCAACTATGGTCTTACTCATTTTCATGTCACGTTGCCATGGAA
Found at i:19824260 original size:29 final size:30
Alignment explanation
Indices: 19824210--19824277 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
19824200 CACCCTTAAA
* * *
19824210 ATATTTTCACTATTAGTCCTTCAACTTTTC
1 ATATTTACACTATTAATCCTTCAAATTTTC
*
19824240 ATATTTACACT-TTAATCCTTCAAATTTTG
1 ATATTTACACTATTAATCCTTCAAATTTTC
19824269 AGTATTTAC
1 A-TATTTAC
19824278 TATTGGGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 16 0.48
30 17 0.52
ACGTcount: A:0.28, C:0.19, G:0.04, T:0.49
Consensus pattern (30 bp):
ATATTTACACTATTAATCCTTCAAATTTTC
Found at i:19828778 original size:12 final size:13
Alignment explanation
Indices: 19828763--19828792 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
19828753 TCCCTTTTTA
19828763 TTTTCTTTCCCT-
1 TTTTCTTTCCCTG
19828775 TTTTCTTTCCCTG
1 TTTTCTTTCCCTG
19828788 TTTTC
1 TTTTC
19828793 ATTTTGTTCC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.71
13 5 0.29
ACGTcount: A:0.00, C:0.30, G:0.03, T:0.67
Consensus pattern (13 bp):
TTTTCTTTCCCTG
Found at i:19836638 original size:47 final size:47
Alignment explanation
Indices: 19836581--19836757 Score: 193
Period size: 47 Copynumber: 3.8 Consensus size: 47
19836571 TGGTTGAACA
* *
19836581 TCCGAACTCGTTGAGTTGAGTCCGAGTTCCCTTATGGATGTGAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * * *
19836628 TCCGAACTCGTTGAGTTGAGTCCCAGTTC-GTGA--GATGT-AACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAA--A--CG
*
19836675 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCG-AACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
* * *
19836721 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
19836758 GCTGGTTACA
Statistics
Matches: 109, Mismatches: 13, Indels: 17
0.78 0.09 0.12
Matches are distributed among these distances:
43 2 0.02
44 5 0.05
45 1 0.01
46 37 0.34
47 56 0.51
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAAACG
Found at i:19838141 original size:16 final size:16
Alignment explanation
Indices: 19838120--19838150 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
19838110 TTTATTATTT
19838120 TATTAACATAATATAA
1 TATTAACATAATATAA
*
19838136 TATTAATATAATATA
1 TATTAACATAATATA
19838151 TTAAAATATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TATTAACATAATATAA
Done.