Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 373 of 438
Found at i:116333302 original size:25 final size:25
Alignment explanation
Indices: 116333258--116333331 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 25
116333248 AACCCTCTCT
* *
116333258 CGAGCCATATAAC-AGAAAGCTCATG
1 CGAGCAATATAACGAG-AAGCTCATC
* ** *
116333283 TGAGCTGTATAACGAGAAGCTTATC
1 CGAGCAATATAACGAGAAGCTCATC
*
116333308 CGGGCAATATAACGAGAAGCTCAT
1 CGAGCAATATAACGAGAAGCTCAT
116333332 AAGAGCCATA
Statistics
Matches: 38, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
25 36 0.95
26 2 0.05
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (25 bp):
CGAGCAATATAACGAGAAGCTCATC
Found at i:116337231 original size:2 final size:2
Alignment explanation
Indices: 116337224--116337262 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
116337214 TATTATCCGG
116337224 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
116337263 AATGAATTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:116363961 original size:40 final size:40
Alignment explanation
Indices: 116363840--116363983 Score: 132
Period size: 40 Copynumber: 3.6 Consensus size: 40
116363830 CATAACCGGA
* *
116363840 TGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-GCACGAA-
1 TGCCTTCGGGTCTTAGCCCGGATAAAATCTC-CAGCAC-AAT
** ** * *
116363880 TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAAT
1 TGCCTTCGGGTCTTAGCCCGGATAAAATCTCCAGCACAAT
* * *
116363920 TGCCTTCGGGTCTTAACCCGGATAAAATTTCCAGCATAAT
1 TGCCTTCGGGTCTTAGCCCGGATAAAATCTCCAGCACAAT
*
116363960 TGTCTTCGGGAT-TTAGCCCGGATA
1 TGCCTTCGGG-TCTTAGCCCGGATA
116363984 TCATTCAATT
Statistics
Matches: 83, Mismatches: 18, Indels: 6
0.78 0.17 0.06
Matches are distributed among these distances:
39 2 0.02
40 80 0.96
41 1 0.01
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
TGCCTTCGGGTCTTAGCCCGGATAAAATCTCCAGCACAAT
Found at i:116366420 original size:63 final size:63
Alignment explanation
Indices: 116366299--116366425 Score: 175
Period size: 63 Copynumber: 2.0 Consensus size: 63
116366289 GTCATGTGGT
* * * * *
116366299 AGGTCGTGTAACTCACTGTTTTGGAATTAAAGTCACACGGGTCAGATATATAGACGTGTGTCC
1 AGGTCGTGTAACTCACTGTTTTGGAATTAAAGTCACACGAGCCAGAGACAGAGACGTGTGTCC
* *
116366362 AGGTCGTGTAACTCACTGTTTTGGAATTAGAGTCATACGAGCCAGAGACACGAG-CGTGTGTCC
1 AGGTCGTGTAACTCACTGTTTTGGAATTAAAGTCACACGAGCCAGAGACA-GAGACGTGTGTCC
116366425 A
1 A
116366426 AGCCGTGTGA
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
63 54 0.96
64 2 0.04
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (63 bp):
AGGTCGTGTAACTCACTGTTTTGGAATTAAAGTCACACGAGCCAGAGACAGAGACGTGTGTCC
Found at i:116367166 original size:22 final size:22
Alignment explanation
Indices: 116367138--116367182 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
116367128 GGTAGGAATT
116367138 TGCATCTGTATCTGATATGTTC
1 TGCATCTGTATCTGATATGTTC
* *
116367160 TGCATCTGTATTTGATCTGTTC
1 TGCATCTGTATCTGATATGTTC
116367182 T
1 T
116367183 ATATCTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.16, C:0.18, G:0.18, T:0.49
Consensus pattern (22 bp):
TGCATCTGTATCTGATATGTTC
Found at i:116367188 original size:22 final size:22
Alignment explanation
Indices: 116367140--116367193 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
116367130 TAGGAATTTG
*
116367140 CATCTGTATCTGATATGTTCTG
1 CATCTGTATCTGATATGTTCTA
* *
116367162 CATCTGTATTTGATCTGTTCTA
1 CATCTGTATCTGATATGTTCTA
* *
116367184 TATCTATATC
1 CATCTGTATC
116367194 GAGTATCCTC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.20, C:0.19, G:0.13, T:0.48
Consensus pattern (22 bp):
CATCTGTATCTGATATGTTCTA
Found at i:116368861 original size:61 final size:58
Alignment explanation
Indices: 116368753--116368868 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 58
116368743 TTCACTTTAA
*
116368753 TATTAAATTAATATAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATT
1 TATTAAATTAATAGAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATT
* *
116368811 TATTAAATTAATAGAATATTTATCCATAAGATAAATATTTA-ATTTAATTTAATATTAA
1 TATTAAATTAATAGAATACTTAT-C--AAGATAAATA-TTAGATTAAATTTAATATTAA
116368869 GATAATAATT
Statistics
Matches: 51, Mismatches: 3, Indels: 5
0.86 0.05 0.08
Matches are distributed among these distances:
58 21 0.41
59 1 0.02
61 26 0.51
62 3 0.06
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.44
Consensus pattern (58 bp):
TATTAAATTAATAGAATACTTATCAAGATAAATATTAGATTAAATTTAATATTAAATT
Found at i:116368900 original size:25 final size:25
Alignment explanation
Indices: 116368853--116368900 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
116368843 AAATATTTAA
*
116368853 TTTAATTTAATATTAAGATAATAAT
1 TTTAATTTAATATTAAGAAAATAAT
*
116368878 TTTAATGTTAA-ATTAATAAAATA
1 TTTAAT-TTAATATTAAGAAAATA
116368901 CTATCAAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 16 0.80
26 4 0.20
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (25 bp):
TTTAATTTAATATTAAGAAAATAAT
Found at i:116374615 original size:18 final size:18
Alignment explanation
Indices: 116374594--116374636 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
116374584 AAAGTTGTAT
116374594 TAACTAATAAATAATGTG
1 TAACTAATAAATAATGTG
116374612 TAACTAATAAATAATGTG
1 TAACTAATAAATAATGTG
*
116374630 GAACTAA
1 TAACTAA
116374637 AAGAACAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.51, C:0.07, G:0.12, T:0.30
Consensus pattern (18 bp):
TAACTAATAAATAATGTG
Found at i:116375676 original size:20 final size:20
Alignment explanation
Indices: 116375651--116375703 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
116375641 ACGGCTGTAG
* * *
116375651 CACACGGGCGTGTTCTAGGC
1 CACACGGGCATGTCCTAAGC
*
116375671 CACACGAGCATGTCCTAAGC
1 CACACGGGCATGTCCTAAGC
116375691 CACACGGGCATGT
1 CACACGGGCATGT
116375704 GCCCCTATCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.23, C:0.32, G:0.28, T:0.17
Consensus pattern (20 bp):
CACACGGGCATGTCCTAAGC
Found at i:116383078 original size:20 final size:20
Alignment explanation
Indices: 116383053--116383105 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
116383043 ACTGCCACAG
*
116383053 CACACGAGCATGTCCCAGGC
1 CACACGAGCATGTCCCAAGC
* **
116383073 CACACGGGTGTGTCCCAAGC
1 CACACGAGCATGTCCCAAGC
*
116383093 CACACGCGCATGT
1 CACACGAGCATGT
116383106 GCCCTTATCT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.23, C:0.38, G:0.26, T:0.13
Consensus pattern (20 bp):
CACACGAGCATGTCCCAAGC
Found at i:116402643 original size:23 final size:23
Alignment explanation
Indices: 116402607--116402660 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
116402597 CAGGTCATCG
* *
116402607 GAGCTTACCGTTTCAGCTCAGATA
1 GAGCTTACCATTTCACCTC-GATA
*
116402631 -AGCTTATCATTTCACCTCGATA
1 GAGCTTACCATTTCACCTCGATA
116402653 GAGCTTAC
1 GAGCTTAC
116402661 TGTTTATCAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (23 bp):
GAGCTTACCATTTCACCTCGATA
Found at i:116412559 original size:2 final size:2
Alignment explanation
Indices: 116412552--116412584 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
116412542 GCTTTAGCAT
116412552 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
116412585 TTGAAAAAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:116414431 original size:29 final size:29
Alignment explanation
Indices: 116414391--116414451 Score: 113
Period size: 29 Copynumber: 2.1 Consensus size: 29
116414381 CATATTTTTA
116414391 GAATAAAATTTTATCATTTTTATAACTTG
1 GAATAAAATTTTATCATTTTTATAACTTG
*
116414420 GAATAAAGTTTTATCATTTTTATAACTTG
1 GAATAAAATTTTATCATTTTTATAACTTG
116414449 GAA
1 GAA
116414452 CTTAAATGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.38, C:0.07, G:0.10, T:0.46
Consensus pattern (29 bp):
GAATAAAATTTTATCATTTTTATAACTTG
Found at i:116425600 original size:15 final size:15
Alignment explanation
Indices: 116425582--116425632 Score: 57
Period size: 15 Copynumber: 3.1 Consensus size: 15
116425572 TTTCTTTACT
116425582 ATTATTTTTATTATC
1 ATTATTTTTATTATC
116425597 ATTATTTATTCATTTATTC
1 ATTATTT-TT-A-TTA-TC
*
116425616 ATTATTATTATTATC
1 ATTATTTTTATTATC
116425631 AT
1 AT
116425633 ATTATATTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
15 11 0.35
16 5 0.16
17 2 0.06
18 5 0.16
19 8 0.26
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (15 bp):
ATTATTTTTATTATC
Found at i:116429948 original size:37 final size:37
Alignment explanation
Indices: 116429902--116429972 Score: 92
Period size: 37 Copynumber: 1.9 Consensus size: 37
116429892 AAAAATAATG
*
116429902 TTATTTTAATAGT-TTAATATTAAATTTAAT-TTAATAC
1 TTATCTTAATAGTATT-ATATT-AATTTAATATTAATAC
*
116429939 TTATCTTAATAGTATTTTATTAATTTAATATTAA
1 TTATCTTAATAGTATTATATTAATTTAATATTAA
116429973 AGAGATTATC
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
36 8 0.27
37 20 0.67
38 2 0.07
ACGTcount: A:0.39, C:0.03, G:0.03, T:0.55
Consensus pattern (37 bp):
TTATCTTAATAGTATTATATTAATTTAATATTAATAC
Found at i:116431074 original size:2 final size:2
Alignment explanation
Indices: 116431067--116431096 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
116431057 TATAATTGTG
116431067 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116431097 GAGATGATCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116433636 original size:6 final size:6
Alignment explanation
Indices: 116433617--116433724 Score: 51
Period size: 6 Copynumber: 17.3 Consensus size: 6
116433607 CCTATTTTCC
* * *
116433617 TATTTT TAGTTTTT TATTTT TA-TTT TA-TTT TACTTTAT TATTCT TCTTAT
1 TATTTT TA--TTTT TATTTT TATTTT TATTTT TA-TTT-T TATTTT TATTTT
* * * * * *
116433667 TATTTTT TGTTTGT TA-TTT TATATTT TATATT TATTCT TATTAT AATTAT
1 TA-TTTT TATTT-T TATTTT TAT-TTT TATTTT TATTTT TATTTT TATTTT
116433717 TATTTT TA
1 TATTTT TA
116433725 GTTCCTTTCT
Statistics
Matches: 79, Mismatches: 14, Indels: 18
0.71 0.13 0.16
Matches are distributed among these distances:
5 13 0.16
6 41 0.52
7 16 0.20
8 9 0.11
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.72
Consensus pattern (6 bp):
TATTTT
Found at i:116433636 original size:14 final size:13
Alignment explanation
Indices: 116433617--116433699 Score: 51
Period size: 14 Copynumber: 5.8 Consensus size: 13
116433607 CCTATTTTCC
116433617 TATTTTTAGTTTTT
1 TATTTTTA-TTTTT
116433631 TATTTTTATTTTAT
1 TATTTTTATTTT-T
116433645 T-TTACTTTATTATTCT
1 TATT--TTTATT-TT-T
* *
116433661 TCTTATTATTTTT
1 TATTTTTATTTTT
* *
116433674 TGTTTGTTATTTTA
1 TATTT-TTATTTTT
116433688 TATTTTATATTT
1 TATTTT-TATTT
116433700 ATTCTTATTA
Statistics
Matches: 56, Mismatches: 6, Indels: 14
0.74 0.08 0.18
Matches are distributed among these distances:
13 11 0.20
14 28 0.50
15 11 0.20
16 4 0.07
17 2 0.04
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (13 bp):
TATTTTTATTTTT
Found at i:116433708 original size:50 final size:49
Alignment explanation
Indices: 116433617--116433727 Score: 134
Period size: 50 Copynumber: 2.2 Consensus size: 49
116433607 CCTATTTTCC
* * **
116433617 TATTTTTAGTTTTTTATTTTTATTTTATTTTACTTTATTATTCTTCTTAT
1 TATTTTTAGTTTGTTATTTTTATTTTATTTTAC-TTATTATTATAATTAT
* *
116433667 TATTTTTTGTTTGTTATTTTATATTTTATATTTA-TTCTTATTATAATTAT
1 TATTTTTAGTTTGTTATTTT-TATTTTAT-TTTACTTATTATTATAATTAT
116433717 TATTTTTAGTT
1 TATTTTTAGTT
116433728 CCTTTCTTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
50 40 0.77
51 8 0.15
52 4 0.08
ACGTcount: A:0.21, C:0.04, G:0.04, T:0.72
Consensus pattern (49 bp):
TATTTTTAGTTTGTTATTTTTATTTTATTTTACTTATTATTATAATTAT
Found at i:116435437 original size:6 final size:6
Alignment explanation
Indices: 116435426--116435468 Score: 54
Period size: 6 Copynumber: 7.5 Consensus size: 6
116435416 ATTTTATTTG
* *
116435426 TTTTAT TTTTAT TTTTA- -TTTAT TTTTAT GTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
116435469 CTTAGACTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 4 0.13
6 27 0.87
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:116435448 original size:16 final size:16
Alignment explanation
Indices: 116435417--116435460 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
116435407 GGACCATTAA
*
116435417 TTTTATTTGT-TTTAT
1 TTTTATTTTTATTTAT
116435432 TTTTATTTTTATTTAT
1 TTTTATTTTTATTTAT
*
116435448 TTTTATGTTTATT
1 TTTTATTTTTATT
116435461 GTTATTTTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
15 9 0.35
16 17 0.65
ACGTcount: A:0.16, C:0.00, G:0.05, T:0.80
Consensus pattern (16 bp):
TTTTATTTTTATTTAT
Found at i:116435458 original size:22 final size:21
Alignment explanation
Indices: 116435417--116435467 Score: 66
Period size: 22 Copynumber: 2.4 Consensus size: 21
116435407 GGACCATTAA
*
116435417 TTTTATTTGTTTTATTTTTAT
1 TTTTATTTGTTTTATGTTTAT
*
116435438 TTTTATTTATTTTTATGTTTAT
1 TTTTATTT-GTTTTATGTTTAT
*
116435460 TGTTATTT
1 TTTTATTT
116435468 TCTTAGACTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (21 bp):
TTTTATTTGTTTTATGTTTAT
Found at i:116436584 original size:19 final size:19
Alignment explanation
Indices: 116436548--116436583 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
116436538 GTAGTTCTTG
116436548 ATTTATGCACTTGTTTTTA
1 ATTTATGCACTTGTTTTTA
*
116436567 ATTTA-GCATTTGTTTTT
1 ATTTATGCACTTGTTTTT
116436584 TTTCTAGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.19, C:0.08, G:0.11, T:0.61
Consensus pattern (19 bp):
ATTTATGCACTTGTTTTTA
Found at i:116439769 original size:68 final size:65
Alignment explanation
Indices: 116439697--116439846 Score: 176
Period size: 67 Copynumber: 2.2 Consensus size: 65
116439687 CGTCATGTGT
* * * *
116439697 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGT-GTACACCAT
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGGTAGGACACCAT
116439761 GTAG
62 GTAG
* * *
116439765 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTAAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGGT--AGGACACCATGT
116439830 AG
64 AG
116439832 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
116439847 GATAAATTGG
Statistics
Matches: 72, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
64 26 0.36
65 3 0.04
66 3 0.04
67 27 0.38
68 13 0.18
ACGTcount: A:0.33, C:0.17, G:0.28, T:0.21
Consensus pattern (65 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGGTAGGACACCATGTAG
Found at i:116443392 original size:36 final size:36
Alignment explanation
Indices: 116443351--116443422 Score: 117
Period size: 36 Copynumber: 2.0 Consensus size: 36
116443341 ATGATTATTC
* *
116443351 TACAATTTGAAAGATAATACGATTCAAGTTTCTACT
1 TACAATCTGAAAGATAATACAATTCAAGTTTCTACT
*
116443387 TACAATCTGAAAGATAATACAATTTAAGTTTCTACT
1 TACAATCTGAAAGATAATACAATTCAAGTTTCTACT
116443423 CATGCTACTT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.40, C:0.14, G:0.10, T:0.36
Consensus pattern (36 bp):
TACAATCTGAAAGATAATACAATTCAAGTTTCTACT
Found at i:116445311 original size:16 final size:16
Alignment explanation
Indices: 116445290--116445320 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
116445280 TTCACTATTA
*
116445290 TATCTTTTGTATTTTC
1 TATCTTTTATATTTTC
116445306 TATCTTTTATATTTT
1 TATCTTTTATATTTT
116445321 ACATGCATAC
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:0.16, C:0.10, G:0.03, T:0.71
Consensus pattern (16 bp):
TATCTTTTATATTTTC
Found at i:116455223 original size:24 final size:25
Alignment explanation
Indices: 116455167--116455224 Score: 66
Period size: 24 Copynumber: 2.4 Consensus size: 25
116455157 GCTGAGTGAT
116455167 GCAGACCAGTGCCTTGGGCTGAATA
1 GCAGACCAGTGCCTTGGGCTGAATA
* * * *
116455192 G-TGGCCAGTGTCTTGGGCTGAA-C
1 GCAGACCAGTGCCTTGGGCTGAATA
116455215 GCAGACCAGT
1 GCAGACCAGT
116455225 ATATTAGGCT
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
23 1 0.04
24 24 0.92
25 1 0.04
ACGTcount: A:0.21, C:0.24, G:0.34, T:0.21
Consensus pattern (25 bp):
GCAGACCAGTGCCTTGGGCTGAATA
Found at i:116460156 original size:15 final size:14
Alignment explanation
Indices: 116460130--116460159 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
116460120 TAAATTGTTT
116460130 TCTTAGTTTTAAAA
1 TCTTAGTTTTAAAA
*
116460144 TCTTAGTTTTTAAA
1 TCTTAGTTTTAAAA
116460158 TC
1 TC
116460160 ACTCTTTTCA
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:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (14 bp):
TCTTAGTTTTAAAA
Found at i:116471235 original size:28 final size:29
Alignment explanation
Indices: 116471181--116471235 Score: 69
Period size: 29 Copynumber: 1.9 Consensus size: 29
116471171 ACAGGGGTTT
*
116471181 TCACACGGCCAAGCACACGCTTGTGTCCC
1 TCACACGGCCAAGCACACGCTCGTGTCCC
*
116471210 TCACACGGCCTAGACACAC-C-CGTGTC
1 TCACACGGCCAAG-CACACGCTCGTGTC
116471236 GTCGCCCGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
28 5 0.22
29 13 0.57
30 5 0.22
ACGTcount: A:0.22, C:0.42, G:0.20, T:0.16
Consensus pattern (29 bp):
TCACACGGCCAAGCACACGCTCGTGTCCC
Found at i:116481140 original size:28 final size:29
Alignment explanation
Indices: 116481086--116481140 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
116481076 ACAAGGGTTT
* *
116481086 TCACACGGCCAAGCACACGTCTGTGTCCC
1 TCACACGGCCAAGCACACGCCCGTGTCCC
*
116481115 TCACACGGCCTAG-ACACGCCCGTGTC
1 TCACACGGCCAAGCACACGCCCGTGTC
116481141 GTCGCCCGTG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 11 0.48
29 12 0.52
ACGTcount: A:0.20, C:0.42, G:0.22, T:0.16
Consensus pattern (29 bp):
TCACACGGCCAAGCACACGCCCGTGTCCC
Found at i:116483610 original size:13 final size:13
Alignment explanation
Indices: 116483592--116483617 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
116483582 AAACTGTTGT
116483592 TTATATAAAAAAA
1 TTATATAAAAAAA
116483605 TTATATAAAAAAA
1 TTATATAAAAAAA
116483618 AAACTCTCTG
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:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTATATAAAAAAA
Found at i:116485595 original size:29 final size:29
Alignment explanation
Indices: 116485561--116485692 Score: 158
Period size: 29 Copynumber: 4.6 Consensus size: 29
116485551 CACTCGAGCT
** * * *
116485561 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * *
116485590 TGCACACATAGTGTCATAT-TATTCCAGCA
1 CGCACACTTAGTGCCATATAT-TTCCAGCA
* *
116485619 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
116485648 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
116485677 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
116485693 ATCTCGTCAC
Statistics
Matches: 90, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
28 1 0.01
29 88 0.98
30 1 0.01
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:116486526 original size:143 final size:141
Alignment explanation
Indices: 116486336--116486630 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
116486326 AAATTCTATA
116486336 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
116486401 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
*
116486466 GAAGACAACAT
131 GAAAACAACAT
116486477 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATG--CACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
116486542 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
64 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
116486607 AGGAAAACAACAT
129 AGGAAAACAACAT
116486620 GCATGGCCGAA
1 GCATGGCCGAA
116486631 ATTTAACTCA
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 19 0.13
143 132 0.87
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (141 bp):
GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACAT
Found at i:116493545 original size:29 final size:29
Alignment explanation
Indices: 116493513--116493647 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
116493503 ATACCCTTCG
** * *
116493513 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * *
116493542 AGCTTGCACACATAGTGTCATAT-TTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
116493570 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
116493599 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
116493628 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
116493648 ATCTCGTCAC
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
28 23 0.25
29 70 0.75
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:116493598 original size:57 final size:58
Alignment explanation
Indices: 116493488--116493646 Score: 176
Period size: 57 Copynumber: 2.8 Consensus size: 58
116493478 AATTTAAGCC
* *** * * ** * *
116493488 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * *
116493546 TGCACACATAGTGTCATAT-TTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
116493603 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
116493647 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
57 45 0.54
58 38 0.46
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:116494480 original size:143 final size:141
Alignment explanation
Indices: 116494290--116494584 Score: 563
Period size: 143 Copynumber: 2.1 Consensus size: 141
116494280 AAATTCTATA
116494290 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
1 GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
116494355 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
66 TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
*
116494420 GAAGACAACAT
131 GAAAACAACAT
116494431 GCATGGCCGAATACTCATGCACACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
1 GCATGGCCGAATACTCATG--CACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTT
116494496 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
64 TTTGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCA
116494561 AGGAAAACAACAT
129 AGGAAAACAACAT
116494574 GCATGGCCGAA
1 GCATGGCCGAA
116494585 ATTTAACTCA
Statistics
Matches: 151, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
141 19 0.13
143 132 0.87
ACGTcount: A:0.39, C:0.29, G:0.11, T:0.21
Consensus pattern (141 bp):
GCATGGCCGAATACTCATGCACACACACATAACAACAAGAACTCAATGGCACAAAATTTCCTTTT
TGTTAAACATTCGAACTCACTCATCTCCATGCTTTCATCACAACAACATCAAAACACTCACCAAG
GAAAACAACAT
Found at i:116498031 original size:40 final size:40
Alignment explanation
Indices: 116497987--116498171 Score: 227
Period size: 40 Copynumber: 4.7 Consensus size: 40
116497977 GCTACTCGTT
* * * *
116497987 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGACTTAGTCCGGATT-TAGTAACTCGCA
116498027 CAAATGCCTTCGGGACTTA-TCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGTCCGGATTTAGTAACTCGCA
116498066 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGTCCGGATTTAGTAACTCGCA
* * *
116498106 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGTCCGGATTTAGTAAC-TCGCA
*
116498147 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGTCCGGA
116498172 CATCATTCGA
Statistics
Matches: 132, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
38 3 0.02
39 30 0.23
40 88 0.67
41 11 0.08
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGTCCGGATTTAGTAACTCGCA
Found at i:116498098 original size:79 final size:80
Alignment explanation
Indices: 116497993--116498171 Score: 233
Period size: 79 Copynumber: 2.2 Consensus size: 80
116497983 CGTTCAAATA
* * *
116497993 CCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCGGATTT
1 CCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGGATAT
*
116498055 AGTAAC-TCGCACAAATG
64 AGTAACTTAGCACAAA-G
*
116498072 CCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATA
1 CCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATA
*
116498136 GTCACTTAGCACAAAG
65 GTAACTTAGCACAAAG
116498152 CCTTCGGGACTTAGCCCGGA
1 CCTTCGGGACTTAGCCCGGA
116498172 CATCATTCGA
Statistics
Matches: 87, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
78 6 0.07
79 39 0.45
80 31 0.36
81 11 0.13
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (80 bp):
CCTTCGGGACTTAGCCCGGATTTAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATATAG
TAACTTAGCACAAAG
Found at i:116506162 original size:40 final size:39
Alignment explanation
Indices: 116506118--116506301 Score: 189
Period size: 40 Copynumber: 4.6 Consensus size: 39
116506108 GCTACTCGTT
* *
116506118 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCA
1 CAAATGCCTTCGGGAC-TAGCCCGGATT-TAGTAACTCGCA
*
116506158 CAAATGCCTTCGGGACTTATCCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGAC-TAGCCCGGATTTAGTAACTCGCA
*
116506198 CAAATGCCTTC-GGATCTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTAGCCCGGATTTAGTAACTCGCA
* * * *
116506237 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-C-TAGCCCGGATTTAGTAAC-TCGCA
116506278 CAAA-GCCTTC-GGACTTAGCCCGGA
1 CAAATGCCTTCGGGAC-TAGCCCGGA
116506302 CATCATTCGA
Statistics
Matches: 130, Mismatches: 10, Indels: 9
0.87 0.07 0.06
Matches are distributed among these distances:
39 50 0.38
40 70 0.54
41 10 0.08
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (39 bp):
CAAATGCCTTCGGGACTAGCCCGGATTTAGTAACTCGCA
Found at i:116506233 original size:39 final size:40
Alignment explanation
Indices: 116506146--116506301 Score: 205
Period size: 39 Copynumber: 4.0 Consensus size: 40
116506136 AGCCCGGTTA
*
116506146 TAGTAGCTCGCACAAATGCCTTCGGGA-CTTA-TCCCGGATT
1 TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-CCGGATT
116506186 TAGTAACTCGCACAAATGCCTTCGGATC-TAGTCCGGATT
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
*
116506225 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATA
1 TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
* * *
116506265 TAGTCACTTAGCACAAA-GCCTTCGGA-CTTAGCCCGGA
1 TAGTAAC-TCGCACAAATGCCTTCGGATCTTAGTCCGGA
116506302 CATCATTCGA
Statistics
Matches: 107, Mismatches: 5, Indels: 9
0.88 0.04 0.07
Matches are distributed among these distances:
39 50 0.47
40 49 0.46
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGATT
Found at i:116506301 original size:79 final size:80
Alignment explanation
Indices: 116506118--116506301 Score: 218
Period size: 79 Copynumber: 2.3 Consensus size: 80
116506108 GCTACTCGTT
* * *
116506118 CAAATACCTTCGGGACATAGCCCGG-TTATAGTAGCTCGCACAAATGCCTTCGGGACTTATCCCG
1 CAAATGCCTTC-GGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTATCCCG
* *
116506182 GATTTAGTAACTCGCA
65 GATATAGTAACTAGCA
*
116506198 CAAATGCCTTCGGA-TCTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTC-GGATCTTAGT-C
1 CAAATGCCTTCGGACT-TAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGA-CTTA-TCC
*
116506259 CGGATATAGTCACTTAGCA
63 CGGATATAGTAAC-TAGCA
116506278 CAAA-GCCTTCGGACTTAGCCCGGA
1 CAAATGCCTTCGGACTTAGCCCGGA
116506302 CATCATTCGA
Statistics
Matches: 90, Mismatches: 8, Indels: 13
0.81 0.07 0.12
Matches are distributed among these distances:
78 3 0.03
79 65 0.72
80 22 0.24
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGGACTTATCCCGG
ATATAGTAACTAGCA
Found at i:116517094 original size:40 final size:40
Alignment explanation
Indices: 116517039--116517195 Score: 142
Period size: 40 Copynumber: 4.0 Consensus size: 40
116517029 ATGATACCCG
* * * *
116517039 GGCTAAGTCTCGAAGGCATTTATGCTAGTGATTATATCCA
1 GGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCA
* *
116517079 GGCTAAGACCCGAAGG--ATTCGTGC-GGTTG-TTATATCCG
1 GGCTAAGACCCGAAGGCAATT-GTGCTAG-TGATTATATCCA
* * ** *
116517117 GGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAATCCA
1 GGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCA
* * *
116517157 GGTTAAGACCCGAAGGCAATTGTGCTTGTGGTTATATCC
1 GGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCC
116517196 GGTTGAATCC
Statistics
Matches: 91, Mismatches: 20, Indels: 12
0.74 0.16 0.10
Matches are distributed among these distances:
38 27 0.30
39 10 0.11
40 54 0.59
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (40 bp):
GGCTAAGACCCGAAGGCAATTGTGCTAGTGATTATATCCA
Found at i:116523003 original size:36 final size:36
Alignment explanation
Indices: 116522956--116523028 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
116522946 TGCATGTCAA
116522956 ATTCCCCCTTTTTAATTGCTAGTGGCTGGCCATGAC
1 ATTCCCCCTTTTTAATTGCTAGTGGCTGGCCATGAC
116522992 ATTCCCCCTTTTTAATTGCTAGTGGCTGGCCATGAC
1 ATTCCCCCTTTTTAATTGCTAGTGGCTGGCCATGAC
116523028 A
1 A
116523029 AAGGATGATG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.18, C:0.27, G:0.19, T:0.36
Consensus pattern (36 bp):
ATTCCCCCTTTTTAATTGCTAGTGGCTGGCCATGAC
Found at i:116524928 original size:49 final size:49
Alignment explanation
Indices: 116524872--116525282 Score: 687
Period size: 49 Copynumber: 8.4 Consensus size: 49
116524862 TACATATATG
* * **
116524872 TGTGATAAGGCCGAATGGCCAATGCAATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
116524921 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
116524970 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
116525019 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
116525068 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* * *
116525117 TGTGATGAGTCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
* *
116525166 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
*
116525215 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
116525264 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
116525283 TAATGTAAAA
Statistics
Matches: 345, Mismatches: 17, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
49 345 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.30
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
Found at i:116525434 original size:37 final size:37
Alignment explanation
Indices: 116525384--116525505 Score: 226
Period size: 37 Copynumber: 3.3 Consensus size: 37
116525374 GGAATATGTT
*
116525384 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
116525421 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
116525458 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
116525495 CCGGGTAAGAC
1 CCGGGTAAGAC
116525506 TTCTTTTATA
Statistics
Matches: 83, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 83 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:116530578 original size:46 final size:46
Alignment explanation
Indices: 116530528--116530650 Score: 201
Period size: 46 Copynumber: 2.7 Consensus size: 46
116530518 TTGAGCATCT
* **
116530528 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGCCC
116530574 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGCCC
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGCCC
* *
116530620 GAGCTCGTTGAGTTGAGTCCAAGTTCACTTA
1 GAACTCGTTGAGTTGAGTCCGAGTTCACTTA
116530651 GGGGCGGGTT
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 72 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAAGCCC
Found at i:116533476 original size:130 final size:130
Alignment explanation
Indices: 116533227--116533480 Score: 391
Period size: 130 Copynumber: 2.0 Consensus size: 130
116533217 GACATTGGGT
* * * *
116533227 ACATAACTTTCAATTTCTTCACCGGACGCTTCTCTGGATCCTTCTAACATGGTTATCAACACTAT
1 ACATAACTTTCAATTTCTTCACCAGACACTTCTCTAGATCCTTCAAACATGGTTATCAACACTAT
* *
116533292 AAGAAAATTCAGATTAGTTTAAATCATAAGGACTATACCAAAGGCGTATTATGCATGTTGGGGGC
66 AAGAAAATTCAGATCAGTTTAAATCATAAGGACTATACCAAAGGCGTATCATGCATGTTGGGGGC
* * * *
116533357 ACATTACTTTTAATTTCTTCACCAGACACTTTTCTAGATCCTTCAAACATTGTTATCAACACTAT
1 ACATAACTTTCAATTTCTTCACCAGACACTTCTCTAGATCCTTCAAACATGGTTATCAACACTAT
* * *
116533422 AAGAAAATTCAGATCAGTTTAAATCATAAGGACTATGCCAGAGGTGTATCATGCATGTT
66 AAGAAAATTCAGATCAGTTTAAATCATAAGGACTATACCAAAGGCGTATCATGCATGTT
116533481 AGGATGTGAC
Statistics
Matches: 111, Mismatches: 13, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
130 111 1.00
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.33
Consensus pattern (130 bp):
ACATAACTTTCAATTTCTTCACCAGACACTTCTCTAGATCCTTCAAACATGGTTATCAACACTAT
AAGAAAATTCAGATCAGTTTAAATCATAAGGACTATACCAAAGGCGTATCATGCATGTTGGGGGC
Found at i:116536627 original size:9 final size:9
Alignment explanation
Indices: 116536613--116536641 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
116536603 GAGATGGATT
116536613 GATTAGTTG
1 GATTAGTTG
116536622 GATTAGTTG
1 GATTAGTTG
116536631 GATTAGTTG
1 GATTAGTTG
116536640 GA
1 GA
116536642 CCGAGAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.34, T:0.41
Consensus pattern (9 bp):
GATTAGTTG
Found at i:116546839 original size:30 final size:30
Alignment explanation
Indices: 116546776--116546840 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
116546766 GTCTCAGCCA
* *
116546776 TGTGTGACATACAGCCAGGCGACATAGTCG
1 TGTGTGACACACAGCCAGGCGACACAGTCG
* * *
116546806 TGTGTGACACACGGCCAGGCGACACGGTTG
1 TGTGTGACACACAGCCAGGCGACACAGTCG
116546836 TGTGT
1 TGTGT
116546841 CCCCTGTAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.34, T:0.22
Consensus pattern (30 bp):
TGTGTGACACACAGCCAGGCGACACAGTCG
Found at i:116547616 original size:35 final size:35
Alignment explanation
Indices: 116547576--116547758 Score: 222
Period size: 35 Copynumber: 5.2 Consensus size: 35
116547566 ACTCTTTGTT
** * *
116547576 TTGGTGTGTTTCGGTTGGACTAGATCTTATGAGCA
1 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
** *
116547611 TTGGTGTGTTTTAGAGGGATTAGCTTTTATGAGCA
1 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
*
116547646 TTGGTGTGTTTTGGAGGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
* * *
116547681 TTGGTGTGTTTCAGAGGGATTAGCCCTTACGAGCA
1 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
* * * *
116547716 TTGGTGTGTTTAGGATGGATTGGCTATTATGAGCA
1 TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
116547751 TCTGGTGT
1 T-TGGTGT
116547759 CTTGGTTGGA
Statistics
Matches: 127, Mismatches: 20, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
35 121 0.95
36 6 0.05
ACGTcount: A:0.18, C:0.10, G:0.33, T:0.39
Consensus pattern (35 bp):
TTGGTGTGTTTCGGAGGGATTAGCTCTTATGAGCA
Found at i:116547674 original size:70 final size:70
Alignment explanation
Indices: 116547576--116547758 Score: 249
Period size: 70 Copynumber: 2.6 Consensus size: 70
116547566 ACTCTTTGTT
* * * * * ** *
116547576 TTGGTGTGTTTCGGTTGGACTAGATCTTATGAGCATTGGTGTGTTTTAGAGGGATTAGCTTTTAT
1 TTGGTGTGTTTAGGATGGATTAGCTCTTATGAGCATTGGTGTGTTTCAGAGGGATTAGCCCTTAC
116547641 GAGCA
66 GAGCA
* *
116547646 TTGGTGTGTTTTGGAGGGATTAGCTCTTATGAGCATTGGTGTGTTTCAGAGGGATTAGCCCTTAC
1 TTGGTGTGTTTAGGATGGATTAGCTCTTATGAGCATTGGTGTGTTTCAGAGGGATTAGCCCTTAC
116547711 GAGCA
66 GAGCA
* *
116547716 TTGGTGTGTTTAGGATGGATTGGCTATTATGAGCATCTGGTGT
1 TTGGTGTGTTTAGGATGGATTAGCTCTTATGAGCAT-TGGTGT
116547759 CTTGGTTGGA
Statistics
Matches: 99, Mismatches: 13, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
70 93 0.94
71 6 0.06
ACGTcount: A:0.18, C:0.10, G:0.33, T:0.39
Consensus pattern (70 bp):
TTGGTGTGTTTAGGATGGATTAGCTCTTATGAGCATTGGTGTGTTTCAGAGGGATTAGCCCTTAC
GAGCA
Found at i:116553089 original size:2 final size:2
Alignment explanation
Indices: 116553082--116553109 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
116553072 GTATACATAC
116553082 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116553110 GAGAAATAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116556828 original size:59 final size:59
Alignment explanation
Indices: 116556756--116556874 Score: 229
Period size: 59 Copynumber: 2.0 Consensus size: 59
116556746 CAATGCTGAG
116556756 ACGGTACAAATCTGATCCTTCACATACGATTCCTCATAGCGAGATTAAATTACAGCCAA
1 ACGGTACAAATCTGATCCTTCACATACGATTCCTCATAGCGAGATTAAATTACAGCCAA
*
116556815 ACGGTACAAATCTGATCCTTCACATACGATTCCTCATAGCGAGATTGAATTACAGCCAA
1 ACGGTACAAATCTGATCCTTCACATACGATTCCTCATAGCGAGATTAAATTACAGCCAA
116556874 A
1 A
116556875 TATGACGTAT
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.25
Consensus pattern (59 bp):
ACGGTACAAATCTGATCCTTCACATACGATTCCTCATAGCGAGATTAAATTACAGCCAA
Found at i:116558254 original size:35 final size:35
Alignment explanation
Indices: 116558208--116558334 Score: 155
Period size: 35 Copynumber: 3.6 Consensus size: 35
116558198 ACTCTCTGTT
*
116558208 TTGGTGTGTTTCGGCTGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
** *
116558243 TTGGTGTGTTTCAAAGGGATTAGCTCTTATGAGCA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
* * * *
116558278 TTCGTGTGTTTAGGATGGATTGGCTCTTATGAGAA
1 TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
* *
116558313 TCTGGTGTGTTTTGGTTGGATT
1 T-TGGTGTGTTTCGGATGGATT
116558335 GTCGATATAC
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
35 60 0.78
36 17 0.22
ACGTcount: A:0.17, C:0.10, G:0.31, T:0.42
Consensus pattern (35 bp):
TTGGTGTGTTTCGGATGGATTAGCTCTTATGAGCA
Found at i:116569187 original size:49 final size:49
Alignment explanation
Indices: 116569114--116569301 Score: 232
Period size: 49 Copynumber: 3.8 Consensus size: 49
116569104 TAACCGAAGC
* * *
116569114 TATCTGGTACGCATAGCAGCCTGCACTTAGTACTACACATGCAACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
* * * * *
116569163 AATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCATAGT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCA-A-T
* * *
116569214 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
** *
116569263 TATCAAGTACACGTAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACA
116569302 CGTGACCTCA
Statistics
Matches: 116, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
49 74 0.64
50 2 0.02
51 40 0.34
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAT
Found at i:116569235 original size:100 final size:100
Alignment explanation
Indices: 116569119--116569306 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
116569109 GAAGCTATCT
**
116569119 GGTACGCATAGCAGCCTGCACTTAGTACTACACATGCAACCAATAATCTGGTACACGTAGTAGCC
1 GGTACGCATAGCAGCCTGCACTTAGTACTACACATGCAACCAATAATCAAGTACACGTAGTAGCC
116569184 TGCACTTAGTACTACACACGTGATCATAGTTTTCG
66 TGCACTTAGTACTACACACGTGATCATAGTTTTCG
* * *
116569219 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCAAGTACACGTAGTAGCC
1 GGTACGCATAGCAGCCTGCACTTAGTACTACACATGCAACCAATAATCAAGTACACGTAGTAGCC
116569284 TGCACTTAGTACTACACACGTGA
66 TGCACTTAGTACTACACACGTGA
116569307 CCTCACAATA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (100 bp):
GGTACGCATAGCAGCCTGCACTTAGTACTACACATGCAACCAATAATCAAGTACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCATAGTTTTCG
Found at i:116574026 original size:23 final size:23
Alignment explanation
Indices: 116573994--116574048 Score: 76
Period size: 23 Copynumber: 2.3 Consensus size: 23
116573984 TTATAATATT
*
116573994 TTATTTAAATT-AGTAGATATTTA
1 TTATTAAAATTAAG-AGATATTTA
116574017 TTATTAAAATTAAGAGATATTTA
1 TTATTAAAATTAAGAGATATTTA
116574040 TTAATTAAA
1 TT-ATTAAA
116574049 TAATTATAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 21 0.72
24 8 0.28
ACGTcount: A:0.45, C:0.00, G:0.07, T:0.47
Consensus pattern (23 bp):
TTATTAAAATTAAGAGATATTTA
Found at i:116574233 original size:22 final size:20
Alignment explanation
Indices: 116574198--116574247 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
116574188 AATATAATAT
116574198 AAATAAAATAAAATAAAAAG
1 AAATAAAATAAAATAAAAAG
*
116574218 AAATAAAGCATAAAATAAATAG
1 AAATAAA--ATAAAATAAAAAG
*
116574240 AAACAAAA
1 AAATAAAA
116574248 CAAATAGAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 8 0.31
22 18 0.69
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (20 bp):
AAATAAAATAAAATAAAAAG
Found at i:116574301 original size:12 final size:12
Alignment explanation
Indices: 116574286--116574329 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
116574276 AAAACAGGGG
116574286 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
116574298 AGAAAAAGGGAA
1 AGAAAAAGAGAA
* *
116574310 AGAAATAGAAAA
1 AGAAAAAGAGAA
116574322 AGGAAAAA
1 A-GAAAAA
116574330 CTAGAGATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 21 0.81
13 5 0.19
ACGTcount: A:0.73, C:0.00, G:0.25, T:0.02
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:116578483 original size:19 final size:20
Alignment explanation
Indices: 116578459--116578506 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
116578449 CAAAGAATAG
*
116578459 AGAAGAAGAGAAACAAA-GA
1 AGAAGAAGAGAAAAAAATGA
*
116578478 AGAAGAAAAGAAAAAAATGA
1 AGAAGAAGAGAAAAAAATGA
*
116578498 AAAAGAAGA
1 AGAAGAAGA
116578507 AGTGGAGGAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.73, C:0.02, G:0.23, T:0.02
Consensus pattern (20 bp):
AGAAGAAGAGAAAAAAATGA
Found at i:116579747 original size:43 final size:43
Alignment explanation
Indices: 116579700--116579872 Score: 204
Period size: 43 Copynumber: 4.0 Consensus size: 43
116579690 ACATAGGATT
*
116579700 TCGATATGTGATTTCGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
* * * *
116579743 TCGATTTGAGATTTACATTTAAGACCATGTCTGGGACATTAGCA
1 TCGATATGTGATTT-CATGTAAGACCATGTCTGGGACATTGGCA
* * * *
116579787 TC-ATATTTGACTTCATGTAAGACCCTGTCTGGGACAGTGGCA
1 TCGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
* * * * *
116579829 TCTATATTTGATTACATGTAAGACCAAGTCTGGGACGTTGGCA
1 TCGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
116579872 T
1 T
116579873 TGTACGAGCT
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 27 0.25
43 54 0.50
44 28 0.26
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (43 bp):
TCGATATGTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
Found at i:116583677 original size:15 final size:15
Alignment explanation
Indices: 116583657--116583687 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
116583647 AGACACACGG
116583657 GCGTGTGACTAGGCC
1 GCGTGTGACTAGGCC
116583672 GCGTGTGACTAGGCC
1 GCGTGTGACTAGGCC
116583687 G
1 G
116583688 TGTATGACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.42, T:0.19
Consensus pattern (15 bp):
GCGTGTGACTAGGCC
Found at i:116583695 original size:15 final size:15
Alignment explanation
Indices: 116583657--116583695 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
116583647 AGACACACGG
*
116583657 GCGTGTGACTAGGCC
1 GCGTATGACTAGGCC
*
116583672 GCGTGTGACTAGGCC
1 GCGTATGACTAGGCC
*
116583687 GTGTATGAC
1 GCGTATGAC
116583696 ACACGGATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.15, C:0.23, G:0.38, T:0.23
Consensus pattern (15 bp):
GCGTATGACTAGGCC
Found at i:116603612 original size:42 final size:43
Alignment explanation
Indices: 116603513--116603627 Score: 187
Period size: 43 Copynumber: 2.7 Consensus size: 43
116603503 GAATTAAGAA
116603513 ATCCGAGCTTGTTGAGTGGTCCGAGTTCATGATATATGTGAGC
1 ATCCGAGCTTGTTGAGTGGTCCGAGTTCATGATATATGTGAGC
* *
116603556 ATCCGAACTTGTTGAGTGGTCCAAGTTCATGATATATGT-AGC
1 ATCCGAGCTTGTTGAGTGGTCCGAGTTCATGATATATGTGAGC
* *
116603598 ATCCGAGCTCGTTGAGTGGTTCGAGTTCAT
1 ATCCGAGCTTGTTGAGTGGTCCGAGTTCAT
116603628 AATGCATGCG
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
42 29 0.44
43 37 0.56
ACGTcount: A:0.22, C:0.17, G:0.28, T:0.33
Consensus pattern (43 bp):
ATCCGAGCTTGTTGAGTGGTCCGAGTTCATGATATATGTGAGC
Found at i:116610109 original size:48 final size:48
Alignment explanation
Indices: 116610026--116610450 Score: 415
Period size: 48 Copynumber: 8.8 Consensus size: 48
116610016 ATACTAGTGT
* * *
116610026 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCTA
* * * *
116610074 TATGTGAGCCAATGTAAGACCATGTTTGGAACATGGCATCGGCATTTA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCTA
* * * * *
116610122 TATGAGAGCTAGTGTAAGACTATGTCTGGGACATGGCATCGGCCTCAA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCTA
* * * * * *
116610170 TATGTGAGCCAGTGTAAGAGCATGTTTGGAACATGGAATCAGCATTTA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCTA
* * * *
116610218 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCTA
* * * * *
116610266 TATGTGAGCTAGTGTAAGAGCATGTTTGGAAAATGGTATCGGCATTTA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCTA
* ** * * *
116610314 CATGACAGCTAGTGTAAGACCATGTCTAGG-ACATAGCATCGGCCTCGA
1 TATGTGAGCTAGTGTAAGACCATGT-TTGGAACATGGCATCGGCCTCTA
* * * *
116610362 CATGTGGGCTAGTGTAAGACCATTTTTGGAACATGGCATTGGCAC-CAATA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGC-CTC--TA
* * * *
116610412 TATGAGAGCCAGTGTAAGATCATGTCTAGG-ACATGGCAT
1 TATGTGAGCTAGTGTAAGACCATGT-TTGGAACATGGCAT
116610451 TGGCATCTTA
Statistics
Matches: 299, Mismatches: 72, Indels: 10
0.78 0.19 0.03
Matches are distributed among these distances:
47 3 0.01
48 260 0.87
49 4 0.01
50 29 0.10
51 3 0.01
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (48 bp):
TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCTA
Found at i:116610194 original size:96 final size:96
Alignment explanation
Indices: 116610026--116610450 Score: 598
Period size: 96 Copynumber: 4.4 Consensus size: 96
116610016 ATACTAGTGT
* * *
116610026 TATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCTCGATATGTGAGCCAATGTAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAA
116610091 GACCATGTTTGGAACATGGCATCGGCATTTA
66 GACCATGTTTGGAACATGGCATCGGCATTTA
*
116610122 TATGAGAGCTAGTGTAAGACTATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAA
* * *
116610187 GAGCATGTTTGGAACATGGAATCAGCATTTA
66 GACCATGTTTGGAACATGGCATCGGCATTTA
*
116610218 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCTAGTGTAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAA
* * *
116610283 GAGCATGTTTGGAAAATGGTATCGGCATTTA
66 GACCATGTTTGGAACATGGCATCGGCATTTA
* * * * * * * *
116610314 CATGACAGCTAGTGTAAGACCATGTCTAGGACATAGCATCGGCCTCGACATGTGGGCTAGTGTAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAA
* * **
116610379 GACCATTTTTGGAACATGGCATTGGCACCAATA
66 GACCATGTTTGGAACATGGCATCGGCA--TTTA
* * *
116610412 TATGAGAGCCAGTGTAAGATCATGTCTAGGACATGGCAT
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
116610451 TGGCATCTTA
Statistics
Matches: 296, Mismatches: 31, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
96 260 0.88
98 36 0.12
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (96 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCAATATGTGAGCCAGTGTAA
GACCATGTTTGGAACATGGCATCGGCATTTA
Found at i:116611802 original size:20 final size:20
Alignment explanation
Indices: 116611770--116611809 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
116611760 ATCTTCTTGA
*
116611770 TTTGGTCCATTTTGTCTCTT
1 TTTGGTCCATTTTGACTCTT
116611790 TTTGGCTCC-TTTTGACTCTT
1 TTTGG-TCCATTTTGACTCTT
116611810 AGTGCTCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 15 0.83
21 3 0.17
ACGTcount: A:0.05, C:0.23, G:0.15, T:0.57
Consensus pattern (20 bp):
TTTGGTCCATTTTGACTCTT
Found at i:116620073 original size:70 final size:70
Alignment explanation
Indices: 116619960--116620097 Score: 258
Period size: 70 Copynumber: 2.0 Consensus size: 70
116619950 ATTTTCAAAG
116619960 TGTGTTTTTGGGCATCGTAGGCTCATATTAGGGGCGGTAAGAGGAAGTTTGAAAGTTTTAAATTT
1 TGTGTTTTTGGGCATCGTAGGCTCATATTAGGGGCGGTAAGAGGAAGTTTGAAAGTTTTAAATTT
116620025 GAGCA
66 GAGCA
* *
116620030 TGTGTTTTTGGGCGTCGTAGGTTCATATTAGGGGCGGTAAGAGGAAGTTTGAAAGTTTTAAATTT
1 TGTGTTTTTGGGCATCGTAGGCTCATATTAGGGGCGGTAAGAGGAAGTTTGAAAGTTTTAAATTT
116620095 GAG
66 GAG
116620098 TAAAATTCGA
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.25, C:0.07, G:0.33, T:0.36
Consensus pattern (70 bp):
TGTGTTTTTGGGCATCGTAGGCTCATATTAGGGGCGGTAAGAGGAAGTTTGAAAGTTTTAAATTT
GAGCA
Found at i:116624893 original size:85 final size:85
Alignment explanation
Indices: 116624792--116624961 Score: 313
Period size: 85 Copynumber: 2.0 Consensus size: 85
116624782 AAAACTTCAA
116624792 CAATGGTTTCTTTTCTTCTCACATTCTGCCATAAAAGATGAACATGCATGATATTTTATGTTTTG
1 CAATGGTTTCTTTTCTTCTCACATTCTGCCATAAAAGATGAACATGCATGATATTTTATGTTTTG
*
116624857 TTTTCTAATGCCCCAATTTT
66 TTTTCTAACGCCCCAATTTT
*
116624877 CAATGGTTTCTTTTCTTCTCACATTTTGCCATAAAAGATGAACATGCATGATATTTTATGTTTTG
1 CAATGGTTTCTTTTCTTCTCACATTCTGCCATAAAAGATGAACATGCATGATATTTTATGTTTTG
*
116624942 TTTTGTAACGCCCCAATTTT
66 TTTTCTAACGCCCCAATTTT
116624962 TGAGAATCCT
Statistics
Matches: 82, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
85 82 1.00
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.45
Consensus pattern (85 bp):
CAATGGTTTCTTTTCTTCTCACATTCTGCCATAAAAGATGAACATGCATGATATTTTATGTTTTG
TTTTCTAACGCCCCAATTTT
Found at i:116625315 original size:26 final size:26
Alignment explanation
Indices: 116625278--116625361 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
116625268 TGATACAATT
* *
116625278 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
116625304 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
116625330 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
116625356 TGATAA
1 TGATAA
116625362 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:116631382 original size:27 final size:26
Alignment explanation
Indices: 116631347--116631458 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
116631337 AGCATGGCTG
* *
116631347 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
*
116631373 CCAGATACAGATAATCGTGGCAGAACCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
116631401 CCAGAATAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
116631428 CCAGATCAAATAATTGTGGCATAGCCA
1 CCAGAACAGATAA-TGTGGCAGAGCCA
116631455 CCAG
1 CCAG
116631459 GATGCTTCCT
Statistics
Matches: 73, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
26 6 0.08
27 51 0.70
28 16 0.22
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:116631412 original size:54 final size:54
Alignment explanation
Indices: 116631347--116631458 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
116631337 AGCATGGCTG
* *
116631347 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAACCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAAATAATCGTGGCAGAACCA
* * * * *
116631401 CCAGAATAGATATATGTGGCAGAGCCACCAGATCAAATAATTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAAATAATCGTGGCAGAACCA
116631455 CCAG
1 CCAG
116631459 GATGCTTCCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 32 0.64
55 18 0.36
ACGTcount: A:0.38, C:0.22, G:0.22, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAAATAATCGTGGCAGAACCA
Found at i:116632906 original size:24 final size:24
Alignment explanation
Indices: 116632854--116632947 Score: 104
Period size: 24 Copynumber: 3.9 Consensus size: 24
116632844 ACCTCTTGTT
*
116632854 CCTTGATCAGCTCCTAGATTTCCT-T-
1 CCTT-ATCAGCTCCTA-A-ATCCTATC
*
116632879 CCTTATCTGCTCCTAAATCCTATC
1 CCTTATCAGCTCCTAAATCCTATC
116632903 CCTTATCAAG-TCCTAAATCCTATC
1 CCTTATC-AGCTCCTAAATCCTATC
*
116632927 CCTTATCAACTCCTAAATCCT
1 CCTTATCAGCTCCTAAATCCT
116632948 CTCCTGACAG
Statistics
Matches: 61, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
22 4 0.07
23 3 0.05
24 49 0.80
25 5 0.08
ACGTcount: A:0.23, C:0.35, G:0.05, T:0.36
Consensus pattern (24 bp):
CCTTATCAGCTCCTAAATCCTATC
Found at i:116635848 original size:24 final size:24
Alignment explanation
Indices: 116635821--116635867 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
116635811 CTAGATTTCC
*
116635821 TCCCTTATCTACTCCTAAATCCTA
1 TCCCTTATCAACTCCTAAATCCTA
116635845 TCCCTTATCAACTCCTAAATCCT
1 TCCCTTATCAACTCCTAAATCCT
116635868 CTCCTGACAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.38, G:0.00, T:0.36
Consensus pattern (24 bp):
TCCCTTATCAACTCCTAAATCCTA
Found at i:116641156 original size:40 final size:38
Alignment explanation
Indices: 116641065--116641214 Score: 131
Period size: 40 Copynumber: 3.8 Consensus size: 38
116641055 ATAACCATGT
* * *
116641065 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC
1 GCACAATTGCCTTCGGGTCTTAGCCCGGAT-GTA-GTCTA
*
116641105 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATGTAG--TCTA
* * * *
116641145 GCACAATTGCCTTCAGGTCTTAACCCGGATATAGTTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATGTAG--TCTA
* * *
116641185 GCATAATTGTCTTCGGGGCTTAGCCCGGAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGAT
116641215 ATCATTCAAT
Statistics
Matches: 91, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
38 1 0.01
39 4 0.04
40 84 0.92
41 2 0.02
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (38 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATGTAGTCTA
Found at i:116648286 original size:40 final size:39
Alignment explanation
Indices: 116648241--116648370 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
116648231 CGGAATATAA
116648241 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
116648281 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
116648321 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
116648361 CCGGATATAA
1 CCGGATATAA
116648371 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:116648385 original size:40 final size:40
Alignment explanation
Indices: 116648257--116648408 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
116648247 ATAACCATGT
* * *
116648257 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
116648297 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
116648337 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
116648377 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
116648409 CATTCAATTT
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 87 0.96
41 2 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:116648391 original size:80 final size:80
Alignment explanation
Indices: 116648257--116648406 Score: 205
Period size: 80 Copynumber: 1.9 Consensus size: 80
116648247 ATAACCATGT
* *
116648257 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
116648322 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * * * *
116648337 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGGCTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGGCTTAG
116648400 CCCGGAT
64 CCCGGAT
116648407 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
79 3 0.05
80 58 0.95
ACGTcount: A:0.21, C:0.27, G:0.25, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:116656801 original size:17 final size:16
Alignment explanation
Indices: 116656779--116656824 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 16
116656769 TGAGAGAAAT
116656779 TAAACAACGAAAATAAA
1 TAAACAA-GAAAATAAA
116656796 TAAACAAGAAAAATAAA
1 TAAACAAG-AAAATAAA
*
116656813 CAAACAATGAAA
1 TAAACAA-GAAA
116656825 TCAATAAAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
16 1 0.04
17 24 0.92
18 1 0.04
ACGTcount: A:0.72, C:0.11, G:0.07, T:0.11
Consensus pattern (16 bp):
TAAACAAGAAAATAAA
Found at i:116659911 original size:20 final size:20
Alignment explanation
Indices: 116659888--116659925 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
116659878 TTTTTGTACG
116659888 TATTTAAATTATTTTATTTT
1 TATTTAAATTATTTTATTTT
* *
116659908 TATTTAATTTTTTTTATT
1 TATTTAAATTATTTTATT
116659926 ATATAGATTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (20 bp):
TATTTAAATTATTTTATTTT
Found at i:116661297 original size:9 final size:9
Alignment explanation
Indices: 116661260--116661297 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
116661250 AAAGTTGATC
*
116661260 TCCTCATCC
1 TCCTCATCT
116661269 TCCTCATCT
1 TCCTCATCT
116661278 TCCTC-TCCT
1 TCCTCAT-CT
116661287 TCCTCATCT
1 TCCTCATCT
116661296 TC
1 TC
116661298 ACTTTCTTCT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
8 1 0.04
9 24 0.92
10 1 0.04
ACGTcount: A:0.08, C:0.50, G:0.00, T:0.42
Consensus pattern (9 bp):
TCCTCATCT
Found at i:116661306 original size:18 final size:18
Alignment explanation
Indices: 116661260--116661297 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
116661250 AAAGTTGATC
116661260 TCCTCATCC-TCCTCATCT
1 TCCTC-TCCTTCCTCATCT
116661278 TCCTCTCCTTCCTCATCT
1 TCCTCTCCTTCCTCATCT
116661296 TC
1 TC
116661298 ACTTTCTTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.16
18 16 0.84
ACGTcount: A:0.08, C:0.50, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCTCTCCTTCCTCATCT
Found at i:116666750 original size:27 final size:27
Alignment explanation
Indices: 116666720--116666797 Score: 138
Period size: 27 Copynumber: 2.9 Consensus size: 27
116666710 ATTATAGAGT
*
116666720 ATGAAATTTTTCCTTTAAGAAGTGTTG
1 ATGAAATTTGTCCTTTAAGAAGTGTTG
*
116666747 ATGAAATTTGTCCTTTAAGAAGTGTTT
1 ATGAAATTTGTCCTTTAAGAAGTGTTG
116666774 ATGAAATTTGTCCTTTAAGAAGTG
1 ATGAAATTTGTCCTTTAAGAAGTG
116666798 CTTAATGAGG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 49 1.00
ACGTcount: A:0.31, C:0.08, G:0.19, T:0.42
Consensus pattern (27 bp):
ATGAAATTTGTCCTTTAAGAAGTGTTG
Found at i:116669839 original size:19 final size:18
Alignment explanation
Indices: 116669815--116669854 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 18
116669805 GTGACCCCTA
116669815 TTTTCCAAAATTTTCATAT
1 TTTTCCAAAATTTTC-TAT
116669834 TTTTCCAAAATTTTCTAT
1 TTTTCCAAAATTTTCTAT
116669852 TTT
1 TTT
116669855 GTTTCAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.28, C:0.15, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTTCCAAAATTTTCTAT
Found at i:116679438 original size:17 final size:18
Alignment explanation
Indices: 116679398--116679440 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
116679388 TATTAATGTT
*
116679398 TAAAATTAAGTACAATGA
1 TAAAATTAAATACAATGA
* *
116679416 TTAAATTAAATA-AGTGA
1 TAAAATTAAATACAATGA
116679433 TAAAATTA
1 TAAAATTA
116679441 GTAATTAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (18 bp):
TAAAATTAAATACAATGA
Found at i:116680546 original size:20 final size:20
Alignment explanation
Indices: 116680521--116680565 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
116680511 GTGGAAGTGT
* *
116680521 TATTAAATTATGAAATGTGA
1 TATTAAATTATGAAAAGTAA
*
116680541 TATTAAGTTATGAAAAGTAA
1 TATTAAATTATGAAAAGTAA
116680561 TATTA
1 TATTA
116680566 TGGACTTACA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.47, C:0.00, G:0.13, T:0.40
Consensus pattern (20 bp):
TATTAAATTATGAAAAGTAA
Found at i:116680714 original size:35 final size:34
Alignment explanation
Indices: 116680632--116680714 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 34
116680622 ACTTTCACCA
* * *
116680632 GTTTATCTAACTAGTGTTGGGCACACATTCGTCT
1 GTTTATCCAACTAGCGTTGGGCACAAATTCGTCT
* **
116680666 GTTTATCCGACTAGCGTTGGGTGCAAATATCGT-T
1 GTTTATCCAACTAGCGTTGGGCACAAAT-TCGTCT
116680700 GGTTTATCCAACTAG
1 -GTTTATCCAACTAG
116680715 AGCTGGGCTC
Statistics
Matches: 40, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
34 23 0.57
35 17 0.43
ACGTcount: A:0.22, C:0.19, G:0.23, T:0.36
Consensus pattern (34 bp):
GTTTATCCAACTAGCGTTGGGCACAAATTCGTCT
Found at i:116683833 original size:30 final size:30
Alignment explanation
Indices: 116683797--116683927 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
116683787 GACAAGATTG
* * * * *
116683797 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
116683827 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
116683855 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
116683885 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
116683914 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
116683928 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:116683888 original size:58 final size:58
Alignment explanation
Indices: 116683797--116683927 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
116683787 GACAAGATTG
* * * * * *
116683797 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
116683855 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
116683914 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
116683928 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:116685461 original size:30 final size:30
Alignment explanation
Indices: 116685425--116685555 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
116685415 GACAAGATTG
* * * * *
116685425 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
116685455 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
116685483 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
116685513 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
116685542 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
116685556 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:116685516 original size:58 final size:58
Alignment explanation
Indices: 116685425--116685555 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
116685415 GACAAGATTG
* * * * * *
116685425 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
116685483 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
116685542 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
116685556 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:116688073 original size:40 final size:40
Alignment explanation
Indices: 116688028--116688194 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
116688018 CGGAATATAA
116688028 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
116688068 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
116688108 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
116688148 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
116688187 CCGGATAT
1 CCGGATAT
116688195 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:116689040 original size:17 final size:19
Alignment explanation
Indices: 116689017--116689062 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
116689007 AAGAAGCATG
116689017 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
116689035 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
116689053 AATCATGCTC
1 AATCATGCTC
116689063 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:116696075 original size:40 final size:40
Alignment explanation
Indices: 116696030--116696196 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
116696020 CGGAATATAA
116696030 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
116696070 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
116696110 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
116696150 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
116696189 CCGGATAT
1 CCGGATAT
116696197 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:116697039 original size:17 final size:19
Alignment explanation
Indices: 116697016--116697061 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
116697006 AAGAAGCATG
116697016 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
116697034 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
116697052 AATCATGCTC
1 AATCATGCTC
116697062 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:116699271 original size:27 final size:29
Alignment explanation
Indices: 116699218--116699340 Score: 139
Period size: 28 Copynumber: 4.3 Consensus size: 29
116699208 GTGAATCCGC
116699218 CACTTAGTGCTATATATTTTCAGCTCGCA
1 CACTTAGTGCTATATATTTTCAGCTCGCA
116699247 -ACTTAGTGCTATA-ATTTTCAGCTCGCA
1 CACTTAGTGCTATATATTTTCAGCTCGCA
* *
116699274 CACTTAGTGCTATATA--ATCAAACTCGCA
1 CACTTAGTGCTATATATTTTC-AGCTCGCA
* * * *
116699302 CACTTAGTGCTGTACAATTTTAAAC-CGCA
1 CACTTAGTGCTATA-TATTTTCAGCTCGCA
116699331 CACTTAGTGC
1 CACTTAGTGC
116699341 CAATCTTGTC
Statistics
Matches: 82, Mismatches: 6, Indels: 12
0.82 0.06 0.12
Matches are distributed among these distances:
27 16 0.20
28 46 0.56
29 16 0.20
30 3 0.04
31 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.33
Consensus pattern (29 bp):
CACTTAGTGCTATATATTTTCAGCTCGCA
Found at i:116704133 original size:40 final size:40
Alignment explanation
Indices: 116704022--116704173 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
116704012 GATATAGTGG
* * * * *** *
116704022 CTCGCTCAAAAGCCTTCGGGACATAGCCCGGTTATAATAG
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGAA
* *
116704062 CTCGCACAAATGCCTTCGGGACTTAACCCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGAA
* **
116704102 CTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATGGTCA
1 CTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATATGGGAA
*
116704142 CTTAGCACAAA-GCCTTCGGGACTTAGCCCGGA
1 C-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
116704174 CATCATTCGA
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
39 3 0.03
40 78 0.85
41 11 0.12
ACGTcount: A:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATGGGAA
Found at i:116713280 original size:39 final size:39
Alignment explanation
Indices: 116713215--116713346 Score: 165
Period size: 39 Copynumber: 3.4 Consensus size: 39
116713205 GGTCTTTAAC
* ** * * *
116713215 CCGGATATATTTCCAACACGTCGCCTGCAGACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
* *
116713254 CCGGATATATTTCGAGCATATAGCCTGCGGATCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
* *
116713293 CCGGATATTTTTCCAGCATATAGCCTACGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
*
116713332 CCAGATATATTTCCA
1 CCGGATATATTTCCA
116713347 ATCTCATATA
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
39 79 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.29
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:116713359 original size:18 final size:18
Alignment explanation
Indices: 116713336--116713379 Score: 88
Period size: 18 Copynumber: 2.4 Consensus size: 18
116713326 TCATGTCCAG
116713336 ATATATTTCCAATCTCAT
1 ATATATTTCCAATCTCAT
116713354 ATATATTTCCAATCTCAT
1 ATATATTTCCAATCTCAT
116713372 ATATATTT
1 ATATATTT
116713380 GATCATATTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (18 bp):
ATATATTTCCAATCTCAT
Found at i:116730867 original size:40 final size:40
Alignment explanation
Indices: 116730808--116730949 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
116730798 AAATTGAATG
* * *
116730808 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
116730848 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
116730888 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
116730928 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
116730950 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:116730973 original size:40 final size:39
Alignment explanation
Indices: 116730846--116730975 Score: 147
Period size: 40 Copynumber: 3.3 Consensus size: 39
116730836 ATGCTGGAAA
* * *
116730846 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGC-AAT-GC
* *
116730887 -TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTC
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATG-C
*
116730925 ATTCTATCCGGGCTAAGACCCGAAGGCATTTGTGCACATGC
1 -TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA-ATGC
116730966 TTATATCCGG
1 TTATATCCGG
116730976 TTATATTCCG
Statistics
Matches: 75, Mismatches: 9, Indels: 11
0.79 0.09 0.12
Matches are distributed among these distances:
37 1 0.01
38 1 0.01
40 70 0.93
41 2 0.03
42 1 0.01
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCAATGC
Found at i:116738878 original size:40 final size:40
Alignment explanation
Indices: 116738819--116738960 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
116738809 AAATTGAATG
* * *
116738819 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
116738859 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
116738899 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTCATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
116738939 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
116738961 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:116738961 original size:40 final size:39
Alignment explanation
Indices: 116738858--116738970 Score: 145
Period size: 40 Copynumber: 2.8 Consensus size: 39
116738848 TGCTGGAAAT
* * **
116738858 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTCAC
*
116738898 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTCAC
*
116738938 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGC
116738971 ACATGTTATA
Statistics
Matches: 65, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTCAC
Found at i:116745005 original size:2 final size:2
Alignment explanation
Indices: 116744998--116745025 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
116744988 ACCAGAACAG
116744998 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116745026 GTGGTGAAGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:116745093 original size:67 final size:67
Alignment explanation
Indices: 116745020--116745183 Score: 283
Period size: 67 Copynumber: 2.4 Consensus size: 67
116745010 ATATATATAT
* * * *
116745020 ATATATGTGGTGAAGCCACCAGATTACAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAT
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
116745085 AG
66 AG
116745087 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
1 ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
116745152 AG
66 AG
*
116745154 ACATATGTGGCGAGGCCACCAGATTGCAGC
1 ATATATGTGGCGAGGCCACCAGATTGCAGC
116745184 AAAGCTACCA
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
67 92 1.00
ACGTcount: A:0.30, C:0.22, G:0.29, T:0.19
Consensus pattern (67 bp):
ATATATGTGGCGAGGCCACCAGATTGCAGCGAGGCTGCCAGATATTGTGACGAAGTCACCAGAAC
AG
Found at i:116745106 original size:27 final size:26
Alignment explanation
Indices: 116745059--116745109 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
116745049 CGAGGCTGCC
*
116745059 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
116745085 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
116745110 TTGCAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:116748681 original size:17 final size:17
Alignment explanation
Indices: 116748659--116748696 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
116748649 AGATTTAAAG
*
116748659 AGTTTACTTGCAAGTCA
1 AGTTTACTTGCAAGACA
*
116748676 AGTTTACTTGTAAGACA
1 AGTTTACTTGCAAGACA
116748693 AGTT
1 AGTT
116748697 AAACAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (17 bp):
AGTTTACTTGCAAGACA
Found at i:116757630 original size:20 final size:20
Alignment explanation
Indices: 116757607--116757648 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
116757597 AAATATTTAA
**
116757607 ATAATATTATTTGAATAGTT
1 ATAATATTAAATGAATAGTT
116757627 ATAATATTAAATGAATAGTT
1 ATAATATTAAATGAATAGTT
116757647 AT
1 AT
116757649 GTGTTTATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (20 bp):
ATAATATTAAATGAATAGTT
Found at i:116761916 original size:19 final size:20
Alignment explanation
Indices: 116761892--116761929 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
116761882 GGTACCACCA
116761892 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
116761911 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
116761930 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:116762315 original size:46 final size:45
Alignment explanation
Indices: 116762154--116762322 Score: 168
Period size: 46 Copynumber: 3.8 Consensus size: 45
116762144 AACCCGCCCC
* * * *
116762154 TAAGTGAACTC--ACTCAACTCAACGAGCTCGGGCGTT-CATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTTGCTTCCA
* * *
116762196 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAG-TTACA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTTGCTTCCA
* * *
116762242 TCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCTTCCA
1 --TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-CTTGCTTCCA
116762289 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
116762323 TGCTCAACCA
Statistics
Matches: 103, Mismatches: 14, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
42 10 0.10
44 19 0.18
45 3 0.03
46 36 0.35
47 33 0.32
48 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTTGCTTCCA
Found at i:116762341 original size:46 final size:45
Alignment explanation
Indices: 116762156--116762341 Score: 129
Period size: 46 Copynumber: 4.1 Consensus size: 45
116762146 CCCGCCCCTA
* ** * * *
116762156 AGTGAACTC--ACTCAACTCAACGAGCTCGGGCGTTCATCCAT-A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
*
116762198 AATGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATCT
* * *
116762245 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCT--TCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--A--TGCTCAACCATCT
116762291 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCAT-CT
116762337 AGTGA
1 AGTGA
116762342 CATGTCACTT
Statistics
Matches: 112, Mismatches: 13, Indels: 34
0.70 0.08 0.21
Matches are distributed among these distances:
42 12 0.11
43 1 0.01
44 26 0.23
45 1 0.01
46 36 0.32
47 31 0.28
48 1 0.01
49 1 0.01
51 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.23
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCT
Found at i:116769491 original size:19 final size:20
Alignment explanation
Indices: 116769467--116769504 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
116769457 TGGTACCACA
116769467 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
116769486 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
116769505 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:116769844 original size:93 final size:93
Alignment explanation
Indices: 116769734--116769904 Score: 297
Period size: 93 Copynumber: 1.8 Consensus size: 93
116769724 GCCCCTAAGT
* *
116769734 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
116769799 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* * *
116769827 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
116769892 CGAGTTCGGATGC
66 CGAGTTCGGATGC
116769905 TCAACCATCC
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:116769901 original size:46 final size:46
Alignment explanation
Indices: 116769729--116769901 Score: 208
Period size: 46 Copynumber: 3.7 Consensus size: 46
116769719 AACCCGCCCC
* * * *
116769729 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * *
116769775 TAAATGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCATCCA
* *
116769823 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
116769868 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
116769902 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 13, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.56
47 29 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:116770358 original size:30 final size:30
Alignment explanation
Indices: 116770324--116770383 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
116770314 ATTTAATACG
116770324 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
116770354 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
116770384 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:116781995 original size:22 final size:23
Alignment explanation
Indices: 116781970--116782015 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
116781960 CAACCAAATC
116781970 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
116781992 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
116782015 A
1 A
116782016 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:116782021 original size:23 final size:23
Alignment explanation
Indices: 116781977--116782021 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
116781967 ATCAATTCAA
*
116781977 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
116782000 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
116782022 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:116789741 original size:22 final size:23
Alignment explanation
Indices: 116789716--116789761 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
116789706 CAACCAAATC
116789716 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
116789738 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
116789761 A
1 A
116789762 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:116789767 original size:23 final size:23
Alignment explanation
Indices: 116789723--116789767 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
116789713 ATCAATTCAA
*
116789723 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
116789746 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
116789768 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Done.