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 144 of 438
Found at i:43039243 original size:50 final size:50
Alignment explanation
Indices: 43039106--43039341 Score: 181
Period size: 50 Copynumber: 4.7 Consensus size: 50
43039096 ATTATGAGAA
* * * *
43039106 CACATGTGTAGTACTATGTGCAGGCTGCTATGCGTTA--AAATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG-TACCAGATGG--TTAGGT
* * **
43039157 CACGTGTGTAGTACTAAGTGTAGGCTACTACATGTACCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGGT
** * * *
43039207 TGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGATAGCTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGAT-GGTT-AGGT
* * ** * *
43039258 CACATGTGTGGTACTAAGTGCAGGCCACTATGTGTAAGAGATGGTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGGT
* * * * * *
43039308 CACAAGTGTGGTACTATGTGAAGGCCACTTTGTG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG
43039342 AAGAAGGTAG
Statistics
Matches: 150, Mismatches: 30, Indels: 11
0.79 0.16 0.06
Matches are distributed among these distances:
50 78 0.52
51 66 0.44
52 6 0.04
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATGGTTAGGT
Found at i:43049527 original size:40 final size:40
Alignment explanation
Indices: 43049467--43049642 Score: 196
Period size: 40 Copynumber: 4.4 Consensus size: 40
43049457 GATGATAACG
* * *
43049467 GGGCTAAGTCCCAAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACTATA-TCC
*
43049507 GGGCCAAGTCCCGAAGGCATTTGTGCGAGTAACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACTATATCC
* * *
43049547 GGGCTAAGTCCCGAAGGCTTTTGTGCGAACT-ACTATATCT
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTAACTATATCC
* ** *
43049587 GGGCTAAGTCCCGAAGGGATTTGAACGAGTAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACTATATCC
* *
43049627 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
43049643 TACTTGGTTT
Statistics
Matches: 116, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 16 0.14
40 97 0.84
41 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTAACTATATCC
Found at i:43056185 original size:20 final size:20
Alignment explanation
Indices: 43056160--43056226 Score: 125
Period size: 20 Copynumber: 3.4 Consensus size: 20
43056150 ATTCTGATAT
43056160 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
43056180 ACATGATATGTGTGATATGC
1 ACATGATATGTATGATATGC
43056200 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
43056220 ACATGAT
1 ACATGAT
43056227 GTATTCATAA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:43056187 original size:11 final size:11
Alignment explanation
Indices: 43056171--43056226 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
43056161 CATGATATGT
43056171 ATGATATGCAC
1 ATGATATGCAC
*
43056182 ATGATATG--T
1 ATGATATGCAC
*
43056191 GTGATATGCAC
1 ATGATATGCAC
*
43056202 ATGATATG--T
1 ATGATATGCAC
43056211 ATGATATGCAC
1 ATGATATGCAC
43056222 ATGAT
1 ATGAT
43056227 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.34, C:0.11, G:0.21, T:0.34
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:43056214 original size:9 final size:9
Alignment explanation
Indices: 43056162--43056218 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
43056152 TCTGATATAC
43056162 ATGATATGT
1 ATGATATGT
*
43056171 ATGATATGCAC
1 ATGATATG--T
43056182 ATGATATGT
1 ATGATATGT
* *
43056191 GTGATATGCAC
1 ATGATATG--T
43056202 ATGATATGT
1 ATGATATGT
43056211 ATGATATG
1 ATGATATG
43056219 CACATGATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (9 bp):
ATGATATGT
Found at i:43056240 original size:40 final size:40
Alignment explanation
Indices: 43056160--43056240 Score: 119
Period size: 40 Copynumber: 2.0 Consensus size: 40
43056150 ATTCTGATAT
* *
43056160 ACATGATATGTATGATATGCACATGATATGTGTGATATGC
1 ACATGATATGTATGATATGCACATGATATATGTCATATGC
*
43056200 ACATGATATGTATGATATGCACATGATGTAT-TCATAATGC
1 ACATGATATGTATGATATGCACATGATATATGTCAT-ATGC
43056240 A
1 A
43056241 TTTGGATGGG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.08
40 34 0.92
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.35
Consensus pattern (40 bp):
ACATGATATGTATGATATGCACATGATATATGTCATATGC
Found at i:43056310 original size:26 final size:25
Alignment explanation
Indices: 43056274--43056357 Score: 109
Period size: 26 Copynumber: 3.4 Consensus size: 25
43056264 AGGAAGTGCA
43056274 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGCTTTTGCCCCAGTTTATC
*
43056299 GAAAAGGGCTTTTGCCTCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
* *
43056325 AAAAAGGC-TTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATC
43056348 AAAAGAGGCT
1 AAAAG-GGCT
43056358 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
23 8 0.16
24 12 0.24
25 7 0.14
26 24 0.47
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:43060703 original size:49 final size:49
Alignment explanation
Indices: 43060634--43060883 Score: 448
Period size: 49 Copynumber: 5.1 Consensus size: 49
43060624 GTACATAATA
43060634 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
43060683 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTG-AAATATAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
43060731 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
*
43060780 ATATATGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
* *
43060829 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTAT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
43060878 ATATAT
1 ATATAT
43060884 ATGTGGTAAA
Statistics
Matches: 192, Mismatches: 8, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
48 46 0.24
49 146 0.76
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.30
Consensus pattern (49 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTAT
Found at i:43060741 original size:97 final size:98
Alignment explanation
Indices: 43060634--43060883 Score: 457
Period size: 97 Copynumber: 2.6 Consensus size: 98
43060624 GTACATAATA
*
43060634 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
43060699 CTAATGGCCGATGTGATGAATGTG-AAATATAT
66 CTAATGGCCGATGTGATGAATGTGAAAATATAT
*
43060731 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATGAGGC
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
*
43060796 CTAATGGCCGATGTGATGAATGTGAAAATGTAT
66 CTAATGGCCGATGTGATGAATGTGAAAATATAT
*
43060829 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAGTGTATATATAT
1 ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATAT
43060884 ATGTGGTAAA
Statistics
Matches: 148, Mismatches: 4, Indels: 1
0.97 0.03 0.01
Matches are distributed among these distances:
97 87 0.59
98 61 0.41
ACGTcount: A:0.34, C:0.09, G:0.26, T:0.30
Consensus pattern (98 bp):
ATATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAAATGTATATATATGTGATAAGGC
CTAATGGCCGATGTGATGAATGTGAAAATATAT
Found at i:43061007 original size:37 final size:36
Alignment explanation
Indices: 43060952--43061038 Score: 147
Period size: 37 Copynumber: 2.3 Consensus size: 36
43060942 AACTTGGAAA
43060952 TATGTTCCGGGTGAGACCCGATGACTACGTGTGGAGAT
1 TATG-TCCGGGT-AGACCCGATGACTACGTGTGGAGAT
43060990 TATGTCCGGGTACGACCCGATGACTACGTGTGGAGAT
1 TATGTCCGGGTA-GACCCGATGACTACGTGTGGAGAT
43061027 TATGTCCGGGTA
1 TATGTCCGGGTA
43061039 AGACTTCGTA
Statistics
Matches: 48, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
36 1 0.02
37 43 0.90
38 4 0.08
ACGTcount: A:0.21, C:0.20, G:0.33, T:0.26
Consensus pattern (36 bp):
TATGTCCGGGTAGACCCGATGACTACGTGTGGAGAT
Found at i:43062041 original size:22 final size:22
Alignment explanation
Indices: 43062013--43062057 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
43062003 TCATGCCATA
43062013 TATGTATAGATTGCTCTCTGAG
1 TATGTATAGATTGCTCTCTGAG
43062035 TATGTATAGATTGCTCTCTGAG
1 TATGTATAGATTGCTCTCTGAG
43062057 T
1 T
43062058 CTAGTTTCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.22, C:0.13, G:0.22, T:0.42
Consensus pattern (22 bp):
TATGTATAGATTGCTCTCTGAG
Found at i:43063082 original size:14 final size:14
Alignment explanation
Indices: 43063063--43063090 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43063053 CTTCGATGAG
43063063 TTAGAAGAAACTAT
1 TTAGAAGAAACTAT
43063077 TTAGAAGAAACTAT
1 TTAGAAGAAACTAT
43063091 GAGTAAGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.07, G:0.14, T:0.29
Consensus pattern (14 bp):
TTAGAAGAAACTAT
Found at i:43064382 original size:50 final size:50
Alignment explanation
Indices: 43064307--43064443 Score: 168
Period size: 50 Copynumber: 2.7 Consensus size: 50
43064297 TATGGATGAA
* *
43064307 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGAT-GG
1 TTAGGTCACATGTGTA-TACTAAGTGCAGGCTACTACGAGTACCAGATAGC
* * * *
43064357 TTAGGTCGCATGTGTATTACTAAGTGCAGGCTACTATGCGTACCTGATAGC
1 TTAGGTCACATGTGTA-TACTAAGTGCAGGCTACTACGAGTACCAGATAGC
* *
43064408 TTCGATCACATGTGTGATACTAAGTGCAGGCTACTA
1 TTAGGTCACATGTGT-ATACTAAGTGCAGGCTACTA
43064444 TGTGTAAGAG
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
50 42 0.56
51 32 0.43
52 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (50 bp):
TTAGGTCACATGTGTATACTAAGTGCAGGCTACTACGAGTACCAGATAGC
Found at i:43064466 original size:51 final size:50
Alignment explanation
Indices: 43064307--43064474 Score: 167
Period size: 51 Copynumber: 3.3 Consensus size: 50
43064297 TATGGATGAA
* * * *
43064307 TTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGAGTACCAGATGG
1 TTAGATCACATGTGTATTACTAAGTGCAGGCTACTATGAGTACCAGATGG
* * * * *
43064357 TTAGGTCGCATGTGTATTACTAAGTGCAGGCTACTATGCGTACCTGATAGC
1 TTAGATCACATGTGTATTACTAAGTGCAGGCTACTATGAGTACCAGAT-GG
* * **
43064408 TTCGATCACATGTGTGA-TACTAAGTGCAGGCTACTATGTGTAAGAGATGG
1 TTAGATCACATGTGT-ATTACTAAGTGCAGGCTACTATGAGTACCAGATGG
* *
43064458 TTTTGATCACAAGTGTA
1 -TTAGATCACATGTGTA
43064475 GTATTATATG
Statistics
Matches: 98, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
50 44 0.45
51 53 0.54
52 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (50 bp):
TTAGATCACATGTGTATTACTAAGTGCAGGCTACTATGAGTACCAGATGG
Found at i:43072825 original size:18 final size:18
Alignment explanation
Indices: 43072785--43072825 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
43072775 AGGCCATTTC
43072785 TGGGCTATGTAGGCCACA
1 TGGGCTATGTAGGCCACA
*
43072803 CGGGCT-TGTAGGCCCACA
1 TGGGCTATGTAGG-CCACA
43072821 TGGGC
1 TGGGC
43072826 CCACAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.17, C:0.27, G:0.37, T:0.20
Consensus pattern (18 bp):
TGGGCTATGTAGGCCACA
Found at i:43076745 original size:54 final size:54
Alignment explanation
Indices: 43076485--43076745 Score: 321
Period size: 54 Copynumber: 4.9 Consensus size: 54
43076475 TTTCCTTTTT
* * *
43076485 GAACTTACCATTGCCATG-CTTGACATGGTCTTACATGGTATCCTTGCCTTAT-
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATA
* * * *
43076537 GAACTCACCAATGTCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGGTATCC-TTGCCTTATA
* * * * *
43076591 GTAACTCATCAATGCCATGTCTTGGCATGGTCTTACATGATTTCCTTTCCTTATA
1 G-AACTTATCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATA
* ** * *
43076646 GAACTTATCGATGCCATGTATTGGCATGGTCTTACATGATTTCCTTGCCTTATA
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATA
*
43076700 GAACTTATCAATGCCATGCCTTGGCATGGTCTTTCATGGTATCCTT
1 GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTT
43076746 ATCTTACCAA
Statistics
Matches: 182, Mismatches: 22, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
52 17 0.09
53 29 0.16
54 90 0.49
55 44 0.24
56 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (54 bp):
GAACTTATCAATGCCATGCCTTGGCATGGTCTTACATGGTATCCTTGCCTTATA
Found at i:43076785 original size:47 final size:47
Alignment explanation
Indices: 43076724--43076845 Score: 174
Period size: 47 Copynumber: 2.6 Consensus size: 47
43076714 CATGCCTTGG
43076724 CATGGTCTTT-CATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGT-TTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* *
43076771 CATGGTTTTACATGGTATCCTTTTCTTACCAAATTCCATGTTCCAAA
1 CATGGTTTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
* * * *
43076818 CATGGTCTTACATGATATACTTGTCTTA
1 CATGGTTTTACATGGTATCCTTATCTTA
43076846 GTGCCAATGC
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
46 3 0.04
47 65 0.96
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.39
Consensus pattern (47 bp):
CATGGTTTTACATGGTATCCTTATCTTACCAAATGCCATGTTCCAAA
Found at i:43079304 original size:40 final size:40
Alignment explanation
Indices: 43079238--43079404 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
43079228 AAATTGAATG
* * *
43079238 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
43079277 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
43079317 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
43079357 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
43079397 ATATCCGG
1 ATATCCGG
43079405 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:43087238 original size:40 final size:40
Alignment explanation
Indices: 43087172--43087338 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
43087162 AAATTGAATG
* * *
43087172 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
43087211 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
43087251 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
43087291 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
43087331 ATATCCGG
1 ATATCCGG
43087339 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:43090446 original size:55 final size:53
Alignment explanation
Indices: 43090304--43090439 Score: 166
Period size: 53 Copynumber: 2.5 Consensus size: 53
43090294 TTTTCCTTTT
* * * *
43090304 TGAACTTACCATTGCCATGTCTTGACATGGTCTTACGTGATATCCTTGCCTTA
1 TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGAGATCCTTGCCTTA
* * *
43090357 TGAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTA
1 TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGAGATCC-TTGCCTTA
*
43090410 TAGTAACTCATCAATGCCATGTCTTGACAT
1 T-G-AACTCACCAATGCCATGTCTTGACAT
43090440 TATCTTATGT
Statistics
Matches: 70, Mismatches: 10, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
52 2 0.03
53 44 0.63
54 1 0.01
55 23 0.33
ACGTcount: A:0.23, C:0.26, G:0.18, T:0.34
Consensus pattern (53 bp):
TGAACTCACCAATGCCATGTCTTGACATGGTCTTACATGAGATCCTTGCCTTA
Found at i:43091473 original size:27 final size:28
Alignment explanation
Indices: 43091443--43091532 Score: 105
Period size: 27 Copynumber: 3.3 Consensus size: 28
43091433 TTTAGTTTAC
43091443 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
43091470 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
* * *
43091497 TAAATTTACCGAAATA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTAGATTTG
43091524 TAAAATTAC
1 TAAAATTAC
43091533 TAAAGTACCC
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 4 0.08
27 49 0.92
ACGTcount: A:0.39, C:0.19, G:0.10, T:0.32
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTAGATTTG
Found at i:43091510 original size:54 final size:54
Alignment explanation
Indices: 43091443--43091549 Score: 137
Period size: 54 Copynumber: 2.0 Consensus size: 54
43091433 TTTAGTTTAC
* *
43091443 TAAAATTACCGAAATACCCTTAG-TTTGTAAAAATACTGAAA-TACCCTCGATTTG
1 TAAAATTACCGAAATA-CCTTAGACTTGTAAAAATACT-AAAGTACCCCCGATTTG
* * *
43091497 TAAATTTACCGAAATACCTTCGACTTGTAAAATTACTAAAGTACCCCCGATTT
1 TAAAATTACCGAAATACCTTAGACTTGTAAAAATACTAAAGTACCCCCGATTT
43091550 ACAGAATTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
53 8 0.17
54 38 0.83
ACGTcount: A:0.37, C:0.21, G:0.10, T:0.32
Consensus pattern (54 bp):
TAAAATTACCGAAATACCTTAGACTTGTAAAAATACTAAAGTACCCCCGATTTG
Found at i:43091541 original size:27 final size:26
Alignment explanation
Indices: 43091467--43091542 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
43091457 TACCCTTAGT
* *
43091467 TTGTAAAAATACTGAAATACCCTCGAT
1 TTGTAAAATTACT-AAATACCCTCGAC
* * *
43091494 TTGTAAATTTACCGAAATACCTTCGAC
1 TTGTAAAATTA-CTAAATACCCTCGAC
43091521 TTGTAAAATTACTAAAGTACCC
1 TTGTAAAATTACTAAA-TACCC
43091543 CCGATTTACA
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
26 4 0.10
27 34 0.87
28 1 0.03
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.32
Consensus pattern (26 bp):
TTGTAAAATTACTAAATACCCTCGAC
Found at i:43091568 original size:27 final size:27
Alignment explanation
Indices: 43091538--43091747 Score: 255
Period size: 27 Copynumber: 7.8 Consensus size: 27
43091528 ATTACTAAAG
* * *
43091538 TACCCCCGATTTACAGAATTAACGTTT
1 TACCCCTGATTTACATAATTACCGTTT
*
43091565 TACCCCTAATTTACATAATTACCGTTT
1 TACCCCTGATTTACATAATTACCGTTT
*
43091592 TACCCCTGATTTACATAATTATCGTTT
1 TACCCCTGATTTACATAATTACCGTTT
* *
43091619 TA-CCCTCGACTTACAGAATTACCGTTT
1 TACCCCT-GATTTACATAATTACCGTTT
*
43091646 TACCCCTAATTTACATAATTACCGTTT
1 TACCCCTGATTTACATAATTACCGTTT
*
43091673 TACCCCTGATTTACATAATTATCGTTT
1 TACCCCTGATTTACATAATTACCGTTT
* * **
43091700 TA-CCTTGATTTACAGAATTACTATTT
1 TACCCCTGATTTACATAATTACCGTTT
*
43091726 TA-CCCTCGATTTACAAAATTAC
1 TACCCCT-GATTTACATAATTAC
43091748 TAAAATACCC
Statistics
Matches: 159, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
26 28 0.18
27 127 0.80
28 4 0.03
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCCTGATTTACATAATTACCGTTT
Found at i:43091698 original size:81 final size:81
Alignment explanation
Indices: 43091538--43091747 Score: 325
Period size: 81 Copynumber: 2.6 Consensus size: 81
43091528 ATTACTAAAG
* *
43091538 TACCCCCGATTTACAGAATTAACGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
43091603 TACATAATTATCGTTT
66 TACATAATTATCGTTT
*
43091619 TACCCTCGACTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
43091684 TACATAATTATCGTTT
66 TACATAATTATCGTTT
* ** * *
43091700 TA-CCTTGATTTACAGAATTACTATTTTA-CCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTACCGTTTTACCCCT-AATTTACATAATTAC
43091748 TAAAATACCC
Statistics
Matches: 119, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
79 4 0.03
80 35 0.29
81 80 0.67
ACGTcount: A:0.29, C:0.24, G:0.07, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCCTAATTTACATAATTACCGTTTTACCCCTGATT
TACATAATTATCGTTT
Found at i:43091756 original size:27 final size:27
Alignment explanation
Indices: 43091706--43091758 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
43091696 GTTTTACCTT
* ***
43091706 GATTTACAGAATTACTATTTTACCCTC
1 GATTTACAAAATTACTAAAATACCCTC
43091733 GATTTACAAAATTACTAAAATACCCT
1 GATTTACAAAATTACTAAAATACCCT
43091759 TGGTTTGTAG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.21, G:0.06, T:0.36
Consensus pattern (27 bp):
GATTTACAAAATTACTAAAATACCCTC
Found at i:43091866 original size:27 final size:27
Alignment explanation
Indices: 43091805--43091867 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 27
43091795 AAATGACTAA
43091805 AATACCCCTAAAAGGTAAAAAGACCGT
1 AATACCCCTAAAAGGTAAAAAGACCGT
* * **
43091832 AA-AGCCCCTATAGGGTAAAGTGACCGT
1 AATA-CCCCTAAAAGGTAAAAAGACCGT
43091859 AATACCCCT
1 AATACCCCT
43091868 GTATGATAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
26 1 0.03
27 28 0.93
28 1 0.03
ACGTcount: A:0.40, C:0.25, G:0.17, T:0.17
Consensus pattern (27 bp):
AATACCCCTAAAAGGTAAAAAGACCGT
Found at i:43093149 original size:20 final size:20
Alignment explanation
Indices: 43093124--43093166 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
43093114 ATTTTGATAA
43093124 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
43093144 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
43093164 ACA
1 ACA
43093167 CGAGATGTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:43093174 original size:20 final size:20
Alignment explanation
Indices: 43093131--43093174 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
43093121 TAAACATGAT
* *
43093131 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACACGAG
43093151 ATGTATGATATGCACACGAG
1 ATGTATGATATGCACACGAG
43093171 ATGT
1 ATGT
43093175 TCATAAATGC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACACGAG
Found at i:43093277 original size:24 final size:23
Alignment explanation
Indices: 43093221--43093387 Score: 228
Period size: 24 Copynumber: 7.0 Consensus size: 23
43093211 GAGGAAGTGA
43093221 AAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
43093244 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
43093267 CAAAAGGGCTTATGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
43093291 CAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTAT
*
43093315 TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTAT
*
43093338 AAAAAGGGCTTTTGCCCCAGTTATT
1 -AAAAGGGCTTATGCCCCAGTTA-T
*
43093363 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
43093387 A
1 A
43093388 TGATAAAGCA
Statistics
Matches: 130, Mismatches: 9, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
23 43 0.33
24 76 0.58
25 11 0.08
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (23 bp):
AAAAGGGCTTATGCCCCAGTTAT
Found at i:43093290 original size:47 final size:47
Alignment explanation
Indices: 43093221--43093387 Score: 230
Period size: 47 Copynumber: 3.5 Consensus size: 47
43093211 GAGGAAGTGA
*
43093221 AAAAGGGCTTATGCCCCAGTTAT-TAAAGGGCTTATGCCCCAGTTAT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
43093267 CAAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTACGCCCCAGTTAT
1 -AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
* *
43093315 TAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTA-T
*
43093363 AAAAGAGGC-TAGGCCTCCAGTTATA
1 AAAAG-GGCTTATGCC-CCAGTTATA
43093388 TGATAAAGCA
Statistics
Matches: 108, Mismatches: 8, Indels: 6
0.89 0.07 0.05
Matches are distributed among these distances:
47 65 0.60
48 31 0.29
49 12 0.11
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.26
Consensus pattern (47 bp):
AAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCAGTTAT
Found at i:43093337 original size:71 final size:71
Alignment explanation
Indices: 43093221--43093386 Score: 262
Period size: 71 Copynumber: 2.3 Consensus size: 71
43093211 GAGGAAGTGA
* *
43093221 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
43093286 GTTATC
66 GTTATC
*
43093292 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTTTGCCCCA
1 AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
*
43093357 GTTATT
66 GTTATC
*
43093363 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTACGCC-CCAGTTAT
43093387 ATGATAAAGC
Statistics
Matches: 88, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 77 0.88
72 11 0.12
ACGTcount: A:0.29, C:0.23, G:0.22, T:0.27
Consensus pattern (71 bp):
AAAAGGGCTTACGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATAAAAAGGGCTTATGCCCCA
GTTATC
Found at i:43093615 original size:31 final size:31
Alignment explanation
Indices: 43093580--43093643 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
43093570 CGTTTACCGT
*
43093580 AAAGGCTTCGGCCCAGTAATATGAAATTTGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
43093611 AAAGGCTTCGGCCTAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
43093642 AA
1 AA
43093644 TATGAGAAGG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:43096699 original size:31 final size:31
Alignment explanation
Indices: 43096658--43096721 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
43096648 CCTTCTCATA
*
43096658 TTTCATATTTCATAACACTAGGCCGAAGCCT
1 TTTCAAATTTCATAACACTAGGCCGAAGCCT
** * *
43096689 TTTCAAATTTCATATTATTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTAGGCCGAAGCCT
43096720 TT
1 TT
43096722 ACGGTAAACG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.38
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTAGGCCGAAGCCT
Found at i:43096967 original size:24 final size:24
Alignment explanation
Indices: 43096915--43097080 Score: 230
Period size: 24 Copynumber: 7.0 Consensus size: 24
43096905 GCTTTATCAT
*
43096915 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
43096940 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
43096964 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* * *
43096987 ATAACTGAGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
43097011 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
43097035 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
43097058 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
43097081 TCACTTCCTC
Statistics
Matches: 127, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
23 42 0.33
24 73 0.57
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:43096991 original size:47 final size:48
Alignment explanation
Indices: 43096914--43097080 Score: 232
Period size: 47 Copynumber: 3.5 Consensus size: 48
43096904 TGCTTTATCA
* *
43096914 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
* *
43096963 TATAACTGGGGCATAAGCCC-TTTAATAACTGAGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
43097010 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
43097057 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
43097081 TCACTTCCTC
Statistics
Matches: 107, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
47 69 0.64
48 25 0.23
49 13 0.12
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:43097015 original size:71 final size:71
Alignment explanation
Indices: 43096915--43097080 Score: 253
Period size: 71 Copynumber: 2.3 Consensus size: 71
43096905 GCTTTATCAT
* *
43096915 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACT-GAGGCATAAGCC-CTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
43096979 GCCCTTTA
64 GCCCTTTA
* * *
43096987 ATAACTGAGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGAGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
43097052 CCTTTA
66 CCTTTA
*
43097058 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGAGGCATAAGCCCTTTT
43097081 TCACTTCCTC
Statistics
Matches: 87, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
71 77 0.89
72 10 0.11
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (71 bp):
ATAACTGAGGCATAAGCCCTTTTAATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:43097153 original size:9 final size:9
Alignment explanation
Indices: 43097139--43097195 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
43097129 ATCTCGTGTG
43097139 CATATCATA
1 CATATCATA
*
43097148 CATATCATGTG
1 CATATCA--TA
43097159 CATATCATA
1 CATATCATA
* *
43097168 CATGTCATGTG
1 CATATCA--TA
43097179 CATATCATA
1 CATATCATA
43097188 CATATCAT
1 CATATCAT
43097196 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:43097158 original size:20 final size:20
Alignment explanation
Indices: 43097135--43097197 Score: 117
Period size: 20 Copynumber: 3.1 Consensus size: 20
43097125 GAACATCTCG
43097135 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
*
43097155 TGTGCATATCATACATGTCA
1 TGTGCATATCATACATATCA
43097175 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
43097195 TGT
1 TGT
43097198 TTATCAAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.32, C:0.19, G:0.13, T:0.37
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:43097280 original size:25 final size:25
Alignment explanation
Indices: 43097234--43097281 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
43097224 ATATATAAAC
* * * *
43097234 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
43097259 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
43097282 CATATTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:43098602 original size:27 final size:27
Alignment explanation
Indices: 43098573--43098781 Score: 246
Period size: 27 Copynumber: 7.8 Consensus size: 27
43098563 GGGTATTTTA
* *
43098573 GTAATTTTGTAAATC-GAGGGTAAAACA
1 GTAATTATGTAAATCAG-GGGTAAAACG
* * *
43098600 GTAATTCTGTAAATCA-AGGTAAAATG
1 GTAATTATGTAAATCAGGGGTAAAACG
* *
43098626 ATAATTATGTAAATCAGGGGTAAAATG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
43098653 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
* * *
43098680 GTAATTCTGTAAGTC-GAGGGTAAAATG
1 GTAATTATGTAAATCAG-GGGTAAAACG
*
43098707 ATAATTATGTAAATCAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
43098734 GTAATTATGTAAATTAGGGGTAAAACG
1 GTAATTATGTAAATCAGGGGTAAAACG
*
43098761 GTAATTCTGTAAATC-GGGGTA
1 GTAATTATGTAAATCAGGGGTA
43098782 CTTTAGTAAT
Statistics
Matches: 156, Mismatches: 22, Indels: 9
0.83 0.12 0.05
Matches are distributed among these distances:
26 28 0.18
27 127 0.81
28 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (27 bp):
GTAATTATGTAAATCAGGGGTAAAACG
Found at i:43098731 original size:81 final size:81
Alignment explanation
Indices: 43098573--43098781 Score: 334
Period size: 81 Copynumber: 2.6 Consensus size: 81
43098563 GGGTATTTTA
* * * *
43098573 GTAATTTTGTAAA-TCGAGGGTAAAACAGTAATTCTGTAAATC-AAGGTAAAATGATAATTATGT
1 GTAATTATGTAAATTAG-GGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTATGT
*
43098636 AAATCAGGGGTAAAATG
65 AAATCAGGGGTAAAACG
*
43098653 GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAGTCGAGGGTAAAATGATAATTATGTA
1 GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTATGTA
43098718 AATCAGGGGTAAAACG
66 AATCAGGGGTAAAACG
43098734 GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAATCG-GGGTA
1 GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
43098782 CTTTAGTAAT
Statistics
Matches: 120, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
80 40 0.33
81 80 0.67
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.30
Consensus pattern (81 bp):
GTAATTATGTAAATTAGGGGTAAAACGGTAATTCTGTAAATCGAGGGTAAAATGATAATTATGTA
AATCAGGGGTAAAACG
Found at i:43098817 original size:27 final size:26
Alignment explanation
Indices: 43098787--43098876 Score: 90
Period size: 27 Copynumber: 3.3 Consensus size: 26
43098777 GGGTACTTTA
43098787 GTAATTTTACAAGTCGAAGGTATTTCG
1 GTAATTTTACAA-TCGAAGGTATTTCG
* * *
43098814 GTAAATTTACAAATCGAGGGTATTTCA
1 GTAATTTTAC-AATCGAAGGTATTTCG
* * *
43098841 GTATTTTTACAAACTAAGGGTATTTCG
1 GTAATTTTACAATCGAA-GGTATTTCG
*
43098868 ATAATTTTA
1 GTAATTTTA
43098877 GTAAACTAAA
Statistics
Matches: 50, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
26 4 0.08
27 44 0.88
28 2 0.04
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (26 bp):
GTAATTTTACAATCGAAGGTATTTCG
Found at i:43098874 original size:53 final size:53
Alignment explanation
Indices: 43098771--43098876 Score: 126
Period size: 54 Copynumber: 2.0 Consensus size: 53
43098761 GTAATTCTGT
* *
43098771 AAATCGGGGTACTTTAGTAATTTTACAAGTCGAAGGTATTTCGGTAAATTTAC
1 AAATCGGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCGATAAATTTAC
* * *
43098824 AAATCGAGGGTA-TTTCAGTATTTTTACAA-ACTAAGGGTATTTCGATAATTTTA
1 AAATCG-GGGTACTTT-AGTAATTTTACAAGACGAA-GGTATTTCGATAAATTTA
43098877 GTAAACTAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
53 12 0.27
54 33 0.73
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (53 bp):
AAATCGGGGTACTTTAGTAATTTTACAAGACGAAGGTATTTCGATAAATTTAC
Found at i:43098883 original size:28 final size:27
Alignment explanation
Indices: 43098777--43098885 Score: 82
Period size: 27 Copynumber: 4.0 Consensus size: 27
43098767 CTGTAAATCG
* *
43098777 GGGTACTTT-AGTAATTTTACAAGTCGAA
1 GGGTA-TTTCAGTAATTTTACAA-ACTAA
* * *
43098805 -GGTATTTCGGTAAATTTACAAA-TCGA
1 GGGTATTTCAGTAATTTTACAAACT-AA
*
43098831 GGGTATTTCAGTATTTTTACAAACTAA
1 GGGTATTTCAGTAATTTTACAAACTAA
*
43098858 GGGTATTTC-GATAATTTTAGTAAACTAA
1 GGGTATTTCAG-TAATTTTA-CAAACTAA
43098886 AGTATTCTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
26 5 0.08
27 51 0.80
28 8 0.12
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (27 bp):
GGGTATTTCAGTAATTTTACAAACTAA
Found at i:43099955 original size:54 final size:54
Alignment explanation
Indices: 43099873--43100106 Score: 317
Period size: 54 Copynumber: 4.3 Consensus size: 54
43099863 GGGTGTTACA
* * ** *
43099873 TCTTACATGATTTCCTTACCTTATAGAACTTATCTATGCCATGTATTAGCATGG
1 TCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGG
43099927 TCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGG
1 TCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGG
*** * * * *
43099981 TCTTACATG-GGACCTTTGCCTTATAGTAACTCATCAATGCCATGTCTTGACATGA
1 TCTTACATGATTTCC-TTGCCTTATAG-AACTTATCAATGCCATGCCTTGGCATGG
43100036 TCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGG
1 TCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGG
* *
43100090 ACTTACATGATATCCTT
1 TCTTACATGATTTCCTT
43100107 ATCTTACCAA
Statistics
Matches: 156, Mismatches: 21, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
53 2 0.01
54 108 0.69
55 44 0.28
56 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.15, T:0.38
Consensus pattern (54 bp):
TCTTACATGATTTCCTTGCCTTATAGAACTTATCAATGCCATGCCTTGGCATGG
Found at i:43100043 original size:109 final size:108
Alignment explanation
Indices: 43099891--43100098 Score: 346
Period size: 109 Copynumber: 1.9 Consensus size: 108
43099881 GATTTCCTTA
* * *
43099891 CCTTATAGAACTTATCTATGCCATGTATTAGCATGGTCTTACATGATTTCCTTGCCTTATAGAAC
1 CCTTATAGAACTCATCAATGCCATGTATTAGCATGATCTTACATGATTTCCTTGCCTTATAGAAC
*
43099956 TTATCAATGCCATGCCTTGGCATGGTCTTACATGGGACCTTTG
66 TTATCAATGCCATGCCTTGGCATGGACTTACATGGGACCTTTG
*
43099999 CCTTATAGTAACTCATCAATGCCATGTCTT-GACATGATCTTACATGATTTCCTTGCCTTATAGA
1 CCTTATAG-AACTCATCAATGCCATGTATTAG-CATGATCTTACATGATTTCCTTGCCTTATAGA
43100063 ACTTATCAATGCCATGCCTTGGCATGGACTTACATG
64 ACTTATCAATGCCATGCCTTGGCATGGACTTACATG
43100099 ATATCCTTAT
Statistics
Matches: 93, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
108 9 0.10
109 84 0.90
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (108 bp):
CCTTATAGAACTCATCAATGCCATGTATTAGCATGATCTTACATGATTTCCTTGCCTTATAGAAC
TTATCAATGCCATGCCTTGGCATGGACTTACATGGGACCTTTG
Found at i:43106546 original size:46 final size:46
Alignment explanation
Indices: 43106298--43106620 Score: 216
Period size: 46 Copynumber: 6.9 Consensus size: 46
43106288 AGGGCATGAT
* *
43106298 GCCGATGCCATGTTCCAGACATGGTCTTACACTGGC-TCATC-CATCAA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTCATCTCAT--G
** * * * *
43106345 GTTGATCCATGTCCCAGACATGGTCTTACACTGACTATTGAAAT-TGA-G
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGC--TT--CATCTCATG
* * * *
43106393 GCCGACGCCACGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCAT-
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCT-T--CATCT-CATG
* * *
43106443 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC--AATCTCATA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTCATCTCATG
* * *
43106488 GCCAATGCATGTCCCAAACAT-GTCTTACACTGGCTTACATCTCGTG
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTT-CATCTCATG
* * *
43106534 GCCGATGCATGTCCCAGACAT-ATCTTACACTAGCTCTCGTCTCAAT-
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGGCT-TCATCTC-ATG
* *
43106580 ACCGATGCCATGTCCTAGACATGGTCTTACACTGGCTTCAT
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTTCAT
43106621 AATGTGGTCG
Statistics
Matches: 216, Mismatches: 41, Indels: 38
0.73 0.14 0.13
Matches are distributed among these distances:
43 12 0.06
44 16 0.07
45 9 0.04
46 74 0.34
47 23 0.11
48 19 0.09
49 27 0.12
50 33 0.15
51 3 0.01
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGGCTTCATCTCATG
Found at i:43111164 original size:99 final size:91
Alignment explanation
Indices: 43110962--43111175 Score: 234
Period size: 92 Copynumber: 2.3 Consensus size: 91
43110952 ATTTGTGAGC
* ** *
43110962 CAGTGTAAGACCATGTCTGAGACATGGCATCGACATTTAGATGAGAGCTAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACAGATAGATGAGACCTAGTGTAAGACATGTCT
43111027 GAGACATGCATCGGCTACTAGATGTGT
66 GAGACATGCATCGGC-ACTAGATGTGT
* *
43111054 CAGTGTAAGACCATGTCTGGGACATGGCTTCGGAACAGATATG-TGAGACCTAGTGTAGGACCAT
1 CAGTGTAAGACCATGTCTGGGACATGGCATC-G-ACAGATA-GATGAGACCTAGTGTAAGA-CAT
* * *
43111118 GTCTGGGACATGGCGTCGGC-CTCGATTTTGATAGT
62 GTCTGAGACAT-GCATCGGCACTAGA---TG-T-GT
43111153 CAGTGTAAGACCATGTCTGGGAC
1 CAGTGTAAGACCATGTCTGGGAC
43111176 CTAGCATCAA
Statistics
Matches: 103, Mismatches: 9, Indels: 13
0.82 0.07 0.10
Matches are distributed among these distances:
92 29 0.28
93 1 0.01
94 24 0.23
95 14 0.14
96 7 0.07
97 2 0.02
98 1 0.01
99 25 0.24
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (91 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACAGATAGATGAGACCTAGTGTAAGACATGTCT
GAGACATGCATCGGCACTAGATGTGT
Found at i:43111174 original size:49 final size:50
Alignment explanation
Indices: 43111052--43111175 Score: 146
Period size: 50 Copynumber: 2.5 Consensus size: 50
43111042 TACTAGATGT
*
43111052 GTCAGTGTAAGACCATGTCTGGGACATGGCTTCGGAACAGATATGTGAGA
1 GTCAGTGTAAGACCATGTCTGGGACATGGCGTCGGAACAGATATGTGAGA
* * * * * *
43111102 -CCTAGTGTAGGACCATGTCTGGGACATGGCGTCGG-CCTCGAT-TTTGATA
1 GTC-AGTGTAAGACCATGTCTGGGACATGGCGTCGGAAC-AGATATGTGAGA
43111151 GTCAGTGTAAGACCATGTCTGGGAC
1 GTCAGTGTAAGACCATGTCTGGGAC
43111176 CTAGCATCAA
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
49 28 0.45
50 34 0.55
ACGTcount: A:0.23, C:0.19, G:0.31, T:0.26
Consensus pattern (50 bp):
GTCAGTGTAAGACCATGTCTGGGACATGGCGTCGGAACAGATATGTGAGA
Found at i:43111571 original size:36 final size:36
Alignment explanation
Indices: 43111524--43111592 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
43111514 CTTATGAGAA
43111524 TGATTTTGTGATGA-CTTGGTGATTATAGGTCTACAC
1 TGATTTTGTGATGACCTT-GTGATTATAGGTCTACAC
43111560 TGATTTTGTGATGACCTTGTGATTATAGGTCTA
1 TGATTTTGTGATGACCTTGTGATTATAGGTCTA
43111593 TACTTATGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
36 29 0.91
37 3 0.09
ACGTcount: A:0.22, C:0.10, G:0.25, T:0.43
Consensus pattern (36 bp):
TGATTTTGTGATGACCTTGTGATTATAGGTCTACAC
Found at i:43115007 original size:15 final size:15
Alignment explanation
Indices: 43114980--43115023 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
43114970 TATAGTCCCG
43114980 TATCTTGGGATTTCTC
1 TATCTT-GGATTTCTC
*
43114996 TATCTTGGATTTCTT
1 TATCTTGGATTTCTC
*
43115011 TA-CTTGGTTTTCT
1 TATCTTGGATTTCT
43115024 TGTTATCTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
14 10 0.38
15 10 0.38
16 6 0.23
ACGTcount: A:0.11, C:0.16, G:0.16, T:0.57
Consensus pattern (15 bp):
TATCTTGGATTTCTC
Found at i:43123170 original size:40 final size:40
Alignment explanation
Indices: 43123115--43123248 Score: 187
Period size: 40 Copynumber: 3.4 Consensus size: 40
43123105 ACTGTGGACA
* *
43123115 TACTGATGGCTTTGTGCTGCTATTGATGGCTTTGTGCTAC
1 TACTGATGGCTTTGTGCTACTATTGATGGCTTTGTGCCAC
* *
43123155 TACTGATGGCTTTGTGCCACTATTGATGTCTTTGTGCCAC
1 TACTGATGGCTTTGTGCTACTATTGATGGCTTTGTGCCAC
* * * *
43123195 TACTGATGGCTTTGTACTACTATTGATGGATTTGTACCGC
1 TACTGATGGCTTTGTGCTACTATTGATGGCTTTGTGCCAC
*
43123235 TATTGATGGCTTTG
1 TACTGATGGCTTTG
43123249 ATCCGCTACT
Statistics
Matches: 83, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 83 1.00
ACGTcount: A:0.16, C:0.18, G:0.25, T:0.42
Consensus pattern (40 bp):
TACTGATGGCTTTGTGCTACTATTGATGGCTTTGTGCCAC
Found at i:43123215 original size:60 final size:60
Alignment explanation
Indices: 43123118--43123267 Score: 194
Period size: 60 Copynumber: 2.5 Consensus size: 60
43123108 GTGGACATAC
* * * * *
43123118 TGATGGCTTTGTGCTGCTATTGATGGCTTTGTGCTACTACTGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCGCTACTGATGGCTTTGTACTACTACTGATGGATTTGTACCACTAT
* * * *
43123178 TGATGTCTTTGTGCCACTACTGATGGCTTTGTACTACTATTGATGGATTTGTACCGCTAT
1 TGATGGCTTTGTGCCGCTACTGATGGCTTTGTACTACTACTGATGGATTTGTACCACTAT
*
43123238 TGATGGCTTTGAT-CCGCTACTCATGGCTTT
1 TGATGGCTTTG-TGCCGCTACTGATGGCTTT
43123268 CTGCCATATA
Statistics
Matches: 77, Mismatches: 12, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
60 76 0.99
61 1 0.01
ACGTcount: A:0.15, C:0.19, G:0.24, T:0.41
Consensus pattern (60 bp):
TGATGGCTTTGTGCCGCTACTGATGGCTTTGTACTACTACTGATGGATTTGTACCACTAT
Found at i:43123256 original size:20 final size:20
Alignment explanation
Indices: 43123118--43123248 Score: 163
Period size: 20 Copynumber: 6.5 Consensus size: 20
43123108 GTGGACATAC
**
43123118 TGATGGCTTTGTGCTGCTAT
1 TGATGGCTTTGTGCCACTAT
* *
43123138 TGATGGCTTTGTGCTACTAC
1 TGATGGCTTTGTGCCACTAT
43123158 TGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCACTAT
* *
43123178 TGATGTCTTTGTGCCACTAC
1 TGATGGCTTTGTGCCACTAT
* *
43123198 TGATGGCTTTGTACTACTAT
1 TGATGGCTTTGTGCCACTAT
* * *
43123218 TGATGGATTTGTACCGCTAT
1 TGATGGCTTTGTGCCACTAT
43123238 TGATGGCTTTG
1 TGATGGCTTTG
43123249 ATCCGCTACT
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 97 1.00
ACGTcount: A:0.15, C:0.18, G:0.25, T:0.42
Consensus pattern (20 bp):
TGATGGCTTTGTGCCACTAT
Found at i:43123377 original size:26 final size:26
Alignment explanation
Indices: 43123327--43123382 Score: 67
Period size: 26 Copynumber: 2.2 Consensus size: 26
43123317 ATTTGTTGCG
* * *
43123327 ATACTATTACTGGCATCTCTTCTGCA
1 ATACTATTACTGGCAGCTATGCTGCA
* *
43123353 ATACTGTTACTGGCAGCTATGCTGCG
1 ATACTATTACTGGCAGCTATGCTGCA
43123379 ATAC
1 ATAC
43123383 CGGTGTGTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.25, G:0.18, T:0.34
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTATGCTGCA
Found at i:43127113 original size:20 final size:20
Alignment explanation
Indices: 43127068--43127164 Score: 90
Period size: 20 Copynumber: 5.0 Consensus size: 20
43127058 GACTGTGGAC
*
43127068 CTACTGATGGC--TGTGCCG
1 CTACTGATGGCTTTCTGCCG
* *
43127086 CTATTGATGGCTTTCTGCTG
1 CTACTGATGGCTTTCTGCCG
* *
43127106 CTACTGATGGCTTTATGCCA
1 CTACTGATGGCTTTCTGCCG
* * *
43127126 CTATTGATGGCTTTGTGCCT
1 CTACTGATGGCTTTCTGCCG
* *
43127146 CTACTCATAGCTTTCTGCC
1 CTACTGATGGCTTTCTGCC
43127165 ATATACTGAT
Statistics
Matches: 63, Mismatches: 14, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
18 10 0.16
20 53 0.84
ACGTcount: A:0.13, C:0.26, G:0.23, T:0.38
Consensus pattern (20 bp):
CTACTGATGGCTTTCTGCCG
Found at i:43127137 original size:40 final size:40
Alignment explanation
Indices: 43127068--43127165 Score: 112
Period size: 40 Copynumber: 2.5 Consensus size: 40
43127058 GACTGTGGAC
* *
43127068 CTACTGATGGC--TGTGCCGCTATTGATGGCTTTCTG-CT
1 CTACTGATGGCTTTATGCCACTATTGATGGCTTTCTGCCT
*
43127105 GCTACTGATGGCTTTATGCCACTATTGATGGCTTTGTGCCT
1 -CTACTGATGGCTTTATGCCACTATTGATGGCTTTCTGCCT
* * *
43127146 CTACTCATAGCTTTCTGCCA
1 CTACTGATGGCTTTATGCCA
43127166 TATACTGATA
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
38 11 0.22
40 38 0.75
41 2 0.04
ACGTcount: A:0.14, C:0.26, G:0.22, T:0.38
Consensus pattern (40 bp):
CTACTGATGGCTTTATGCCACTATTGATGGCTTTCTGCCT
Found at i:43127185 original size:27 final size:27
Alignment explanation
Indices: 43127153--43127217 Score: 80
Period size: 26 Copynumber: 2.4 Consensus size: 27
43127143 CCTCTACTCA
43127153 TAGCTTT-CTGCCATATACTGATACTGG
1 TAGCTTTGCTGCCAT-TACTGATACTGG
* *
43127180 TAGCTTTGCTG-CGTTACTGTTACTGG
1 TAGCTTTGCTGCCATTACTGATACTGG
*
43127206 CAGCTTTGCTGC
1 TAGCTTTGCTGC
43127218 GATACTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
26 21 0.64
27 9 0.27
28 3 0.09
ACGTcount: A:0.15, C:0.23, G:0.23, T:0.38
Consensus pattern (27 bp):
TAGCTTTGCTGCCATTACTGATACTGG
Found at i:43127204 original size:26 final size:26
Alignment explanation
Indices: 43127167--43127248 Score: 101
Period size: 26 Copynumber: 3.2 Consensus size: 26
43127157 TTTCTGCCAT
* *
43127167 ATACTGATACTGGTAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
*
43127193 TTACTGTTACTGGCAGCTTTGCTGCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
* * * *
43127219 ATACTATTATTGGCAGCTATGCTTCG
1 ATACTGTTACTGGCAGCTTTGCTGCG
43127245 ATAC
1 ATAC
43127249 CGGTGTGTTG
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 48 1.00
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.37
Consensus pattern (26 bp):
ATACTGTTACTGGCAGCTTTGCTGCG
Found at i:43131187 original size:28 final size:27
Alignment explanation
Indices: 43131124--43131193 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
43131114 ATAGTGAGTC
43131124 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
43131151 CGTACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
43131179 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43131194 GTACAAATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
27 22 0.55
28 18 0.45
ACGTcount: A:0.31, C:0.26, G:0.13, T:0.30
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:43132994 original size:39 final size:40
Alignment explanation
Indices: 43132939--43133109 Score: 215
Period size: 39 Copynumber: 4.3 Consensus size: 40
43132929 GGACTAAGAT
* *
43132939 CCGAAGGCGTTCGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
43132978 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAG-C
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* *
43133017 CCGAAGGCATTTGTGCGAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
* * * * *
43133057 CCGATGGCATTCGTACGAGTTACTATAA-CCGGGGTT-TGTC
1 CCGAAGGCATTTGTGCGAGTTAATA-AATCC-GGGTTAAGTC
43133097 CCGAAGGCATTTG
1 CCGAAGGCATTTG
43133110 AGCTAGTCGT
Statistics
Matches: 119, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
39 73 0.61
40 39 0.33
41 7 0.06
ACGTcount: A:0.25, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTTAATAAATCCGGGTTAAGTC
Found at i:43142383 original size:28 final size:27
Alignment explanation
Indices: 43142320--43142389 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
43142310 ATAGTGAGTC
43142320 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
43142347 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
43142375 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43142390 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:43145958 original size:2 final size:2
Alignment explanation
Indices: 43145951--43145976 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
43145941 CATACTTATG
43145951 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
43145977 CACTTCCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43148053 original size:21 final size:20
Alignment explanation
Indices: 43148014--43148053 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
43148004 TGGTCCATAA
*
43148014 GCCCATTGGGCCCAGTTTTG
1 GCCCATTGGGCCCACTTTTG
*
43148034 GCCCATTGAGGCCCTCTTTT
1 GCCCATTG-GGCCCACTTTT
43148054 TCCGAAGTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.10, C:0.33, G:0.25, T:0.33
Consensus pattern (20 bp):
GCCCATTGGGCCCACTTTTG
Found at i:43156716 original size:15 final size:15
Alignment explanation
Indices: 43156692--43156721 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
43156682 CTAATGTATT
43156692 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
43156707 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
43156722 ACAAGTGTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.33, T:0.50
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:43157831 original size:34 final size:33
Alignment explanation
Indices: 43157771--43157842 Score: 83
Period size: 34 Copynumber: 2.2 Consensus size: 33
43157761 TGTTACCGAC
* * *
43157771 ACTGAAATGGGCTAAGGCTCACACTGATACTGA
1 ACTGTAATGGGCTAAGCCTCACACTGAAACTGA
*
43157804 TACTGTAATGGGCTAAGACCTTA-ACTGAAACTGA
1 -ACTGTAATGGGCTAAG-CCTCACACTGAAACTGA
43157838 ACTGT
1 ACTGT
43157843 TACTGATACG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
33 5 0.15
34 25 0.76
35 3 0.09
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (33 bp):
ACTGTAATGGGCTAAGCCTCACACTGAAACTGA
Found at i:43160756 original size:40 final size:40
Alignment explanation
Indices: 43160711--43160877 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
43160701 CGGAATATAA
43160711 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
43160751 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
43160791 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
43160831 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
43160870 CCGGATAT
1 CCGGATAT
43160878 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:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:43160861 original size:80 final size:79
Alignment explanation
Indices: 43160711--43160877 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
43160701 CGGAATATAA
* *
43160711 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
43160776 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
43160791 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
43160853 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
43160870 CCGGATAT
1 CCGGATAT
43160878 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:43164247 original size:3 final size:3
Alignment explanation
Indices: 43164239--43164290 Score: 104
Period size: 3 Copynumber: 17.3 Consensus size: 3
43164229 CTTTGTTTCT
43164239 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
43164287 TTC T
1 TTC T
43164291 CATTCACTCC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 49 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:43171104 original size:19 final size:19
Alignment explanation
Indices: 43171080--43171118 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
43171070 CCCTGGTCAC
43171080 ACACTTCCGAAAATACTCT
1 ACACTTCCGAAAATACTCT
43171099 ACACTTCCGAAAATACTCT
1 ACACTTCCGAAAATACTCT
43171118 A
1 A
43171119 TCTCATTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.31, G:0.05, T:0.26
Consensus pattern (19 bp):
ACACTTCCGAAAATACTCT
Found at i:43172672 original size:2 final size:2
Alignment explanation
Indices: 43172665--43172704 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
43172655 AGTATAGTTG
* *
43172665 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43172705 TCGGCCATCA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (2 bp):
AT
Found at i:43173383 original size:29 final size:29
Alignment explanation
Indices: 43173348--43173421 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
43173338 GTTGTGAGAT
* *
43173348 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
43173377 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
43173406 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43173422 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:43176093 original size:33 final size:33
Alignment explanation
Indices: 43176050--43176153 Score: 111
Period size: 33 Copynumber: 3.1 Consensus size: 33
43176040 AAAATACATG
* *
43176050 CAGTAACAGTCTGGGCCTGAGCCTTAT-CTAGTAT
1 CAGT-ACAGTCTGGGCCTGAGCCATATAC-AGTAA
*
43176084 CAGTACAGTCTGGGCCTTAGCCATATACAGTAA
1 CAGTACAGTCTGGGCCTGAGCCATATACAGTAA
* * * * *
43176117 CAGAACAGTTTGGGCTTTAGCCCTATACAGTAA
1 CAGTACAGTCTGGGCCTGAGCCATATACAGTAA
43176150 CAGT
1 CAGT
43176154 GTGGACCTAA
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
33 56 0.92
34 5 0.08
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (33 bp):
CAGTACAGTCTGGGCCTGAGCCATATACAGTAA
Found at i:43176393 original size:53 final size:53
Alignment explanation
Indices: 43176313--43176416 Score: 147
Period size: 53 Copynumber: 2.0 Consensus size: 53
43176303 TGCCAGTAAT
*
43176313 AATAATGTAGCATAGCTACCAGAAACAGTAAATGTGGCA-AGCCACTAGTATC
1 AATAATGTAGCATAGCTACCAGAAACAGTAAATGTGACATAGCCACTAGTATC
* * * *
43176365 AATAATCGTGGCATAGCTACCAGTAACAGTGAATGTGACATAGTCACTAGTA
1 AATAAT-GTAGCATAGCTACCAGAAACAGTAAATGTGACATAGCCACTAGTA
43176417 CAGTACTTCC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
52 6 0.13
53 29 0.64
54 10 0.22
ACGTcount: A:0.38, C:0.18, G:0.20, T:0.23
Consensus pattern (53 bp):
AATAATGTAGCATAGCTACCAGAAACAGTAAATGTGACATAGCCACTAGTATC
Found at i:43176406 original size:27 final size:26
Alignment explanation
Indices: 43176300--43176407 Score: 92
Period size: 26 Copynumber: 4.1 Consensus size: 26
43176290 ATCGCAATAA
* * * *
43176300 AGCTGCCAGTAATAATAATGTAGCAT
1 AGCTACCAGTAACAGTAATGTGGCAT
*
43176326 AGCTACCAGAAACAGTAAATGTGGCA-
1 AGCTACCAGTAACAGT-AATGTGGCAT
* * * *
43176352 AGCCACTAGTATCAATAATCGTGGCAT
1 AGCTACCAGTAACAGTAAT-GTGGCAT
*
43176379 AGCTACCAGTAACAGTGAATGTGACAT
1 AGCTACCAGTAACAGT-AATGTGGCAT
43176406 AG
1 AG
43176408 TCACTAGTAC
Statistics
Matches: 63, Mismatches: 15, Indels: 7
0.74 0.18 0.08
Matches are distributed among these distances:
25 3 0.05
26 29 0.46
27 28 0.44
28 3 0.05
ACGTcount: A:0.38, C:0.19, G:0.21, T:0.22
Consensus pattern (26 bp):
AGCTACCAGTAACAGTAATGTGGCAT
Found at i:43176587 original size:27 final size:27
Alignment explanation
Indices: 43176558--43176674 Score: 135
Period size: 27 Copynumber: 4.3 Consensus size: 27
43176548 GGCATAATCG
* *
43176558 TCATTTTACCATACAGGGGTATTATGG
1 TCATTTTACCATACAGGGGTATTACGA
* * *
43176585 TCATTTTACTATACAGTGATATTACGA
1 TCATTTTACCATACAGGGGTATTACGA
* * *
43176612 TTATTTTACCCTACAGGGGCATTACGA
1 TCATTTTACCATACAGGGGTATTACGA
* *
43176639 TCATTTTACCCTATAGGGGTATTACGA
1 TCATTTTACCATACAGGGGTATTACGA
*
43176666 TTATTTTAC
1 TCATTTTAC
43176675 AAATAGTGGT
Statistics
Matches: 75, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.27, C:0.17, G:0.16, T:0.39
Consensus pattern (27 bp):
TCATTTTACCATACAGGGGTATTACGA
Found at i:43176643 original size:54 final size:54
Alignment explanation
Indices: 43176560--43176674 Score: 149
Period size: 54 Copynumber: 2.1 Consensus size: 54
43176550 CATAATCGTC
* * * * *
43176560 ATTTTACCATACAGGGGTATTATGGTCATTTTACTATACAGTGATATTACGATT
1 ATTTTACCATACAGGGGCATTACGATCATTTTACCATACAGGGATATTACGATT
* * * *
43176614 ATTTTACCCTACAGGGGCATTACGATCATTTTACCCTATAGGGGTATTACGATT
1 ATTTTACCATACAGGGGCATTACGATCATTTTACCATACAGGGATATTACGATT
43176668 ATTTTAC
1 ATTTTAC
43176675 AAATAGTGGT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
54 52 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (54 bp):
ATTTTACCATACAGGGGCATTACGATCATTTTACCATACAGGGATATTACGATT
Found at i:43180388 original size:33 final size:33
Alignment explanation
Indices: 43180345--43180448 Score: 129
Period size: 33 Copynumber: 3.1 Consensus size: 33
43180335 ACAATGCATG
* *
43180345 CAGTAACAGTCTGGGCCTGAGCCCTATCCAGTAT
1 CAGT-ACAGTCTGGGCCTTAGCCCTATACAGTAT
43180379 CAGTACAGTCTGGGCCTTAGCCCTATACAGTAAT
1 CAGTACAGTCTGGGCCTTAGCCCTATACAGT-AT
* * * *
43180413 -AGAATAGTCTGGGCTTTAGCCCTATACAGTAA
1 CAGTACAGTCTGGGCCTTAGCCCTATACAGTAT
43180445 CAGT
1 CAGT
43180449 GCAGACCTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
32 1 0.02
33 54 0.89
34 6 0.10
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.26
Consensus pattern (33 bp):
CAGTACAGTCTGGGCCTTAGCCCTATACAGTAT
Found at i:43180690 original size:27 final size:26
Alignment explanation
Indices: 43180639--43180712 Score: 78
Period size: 27 Copynumber: 2.8 Consensus size: 26
43180629 AGAAACAATA
* *
43180639 AATGTGGCA-AGTCACCAATATCAGT
1 AATGTGGCATAGTCACCAGTAACAGT
*
43180664 AATTGTGGCATAGCCACCAGTAACAGT
1 AA-TGTGGCATAGTCACCAGTAACAGT
* *
43180691 GAATGTGACATAGTCACTAGTA
1 -AATGTGGCATAGTCACCAGTA
43180713 TAGTACTTCC
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
25 2 0.05
26 7 0.17
27 29 0.73
28 2 0.05
ACGTcount: A:0.35, C:0.19, G:0.22, T:0.24
Consensus pattern (26 bp):
AATGTGGCATAGTCACCAGTAACAGT
Found at i:43180883 original size:27 final size:26
Alignment explanation
Indices: 43180853--43180996 Score: 180
Period size: 27 Copynumber: 5.4 Consensus size: 26
43180843 GGGCATAATC
*
43180853 GTCATTTTACCATATAGTGGTATTACG
1 GTCATTTTACCCTATAG-GGTATTACG
*
43180880 GTCATTTTACCATATAAGGGTATTACG
1 GTCATTTTACCCTAT-AGGGTATTACG
*
43180907 GTCATTTTACCCTATAGGGGCATTACG
1 GTCATTTTACCCTATA-GGGTATTACG
* * *
43180934 GTTATTTTACCCTACAGGGGTATTACA
1 GTCATTTTACCCTATA-GGGTATTACG
* *
43180961 GTCATTTTACCCTACAGGGTATTATG
1 GTCATTTTACCCTATAGGGTATTACG
43180987 GTCATTTTAC
1 GTCATTTTAC
43180997 AAATTAGGGT
Statistics
Matches: 106, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
26 19 0.18
27 85 0.80
28 2 0.02
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCCTATAGGGTATTACG
Found at i:43191500 original size:28 final size:27
Alignment explanation
Indices: 43191437--43191506 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
43191427 ATAGTGAGTC
43191437 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
43191464 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
43191492 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
43191507 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:43199096 original size:29 final size:29
Alignment explanation
Indices: 43199037--43199138 Score: 109
Period size: 29 Copynumber: 3.6 Consensus size: 29
43199027 GGGACGAGAT
* * *
43199037 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
43199066 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
43199095 T-GCACTATGTGTGCGGGCTT-GAATCACA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
43199123 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
43199139 TGATTGAGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
27 3 0.05
28 19 0.32
29 38 0.63
ACGTcount: A:0.22, C:0.17, G:0.32, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:43207823 original size:20 final size:20
Alignment explanation
Indices: 43207794--43207846 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
43207784 GTTATACCTC
*
43207794 ACACGCCCGTGTGCTTGGGG
1 ACACACCCGTGTGCTTGGGG
*
43207814 ACACATCCGTGTGCTTGGGG
1 ACACACCCGTGTGCTTGGGG
43207834 ACACACCCGTGTG
1 ACACACCCGTGTG
43207847 GCCCACCTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.15, C:0.30, G:0.34, T:0.21
Consensus pattern (20 bp):
ACACACCCGTGTGCTTGGGG
Found at i:43213983 original size:16 final size:16
Alignment explanation
Indices: 43213959--43213993 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
43213949 TTTGTTACAA
*
43213959 AAGGGAAATTGAGTCC
1 AAGGCAAATTGAGTCC
43213975 AAGGCAAATTGAGTCC
1 AAGGCAAATTGAGTCC
43213991 AAG
1 AAG
43213994 TTTCATTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.14, G:0.29, T:0.17
Consensus pattern (16 bp):
AAGGCAAATTGAGTCC
Found at i:43221993 original size:48 final size:48
Alignment explanation
Indices: 43221890--43222110 Score: 172
Period size: 48 Copynumber: 4.6 Consensus size: 48
43221880 GTCGAGGCCG
* ** * ** * * *
43221890 ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCGTCTCAATGCTA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTTCCA
* * * *
43221938 ATTCCATGTCCCAGATATGGTCTTACACTGGCTCTCATAACATTTTCA
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTTCCA
* * * *
43221986 ATGCCATGTTCCAAACATGGTCTTACACTGTCTCTCATAACATTGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTTCCA
* * * * * ** ** *
43222034 ATGCCATGTTCCAAACATCGTCTTACAATGGCACACATAATGTGGCCG
1 ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTTCCA
***
43222082 ATGCCATGTCTTGAACATGGTCTTACACT
1 ATGCCATGTCCCAAACATGGTCTTACACT
43222111 AGAACACATA
Statistics
Matches: 140, Mismatches: 33, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 140 1.00
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (48 bp):
ATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACATTTCCA
Found at i:43222041 original size:96 final size:96
Alignment explanation
Indices: 43221890--43222065 Score: 208
Period size: 96 Copynumber: 1.8 Consensus size: 96
43221880 GTCGAGGCCG
* * ** * * * *
43221890 ATGCCATGTCCCAGACATGGTCTTACACTAACTCTCGTCTCAATGCTAATTCCATGTCCCAGATA
1 ATGCCATGTCCCAAACATGGTCTTACACTAACTCTCATAACAATGCCAATGCCATGTCCCAAACA
* *
43221955 TGGTCTTACACTGGCTCTCATAACATTTTCA
66 TCGTCTTACAATGGCTCTCATAACATTTTCA
* ** * * *
43221986 ATGCCATGTTCCAAACATGGTCTTACACTGTCTCTCATAACATTGCCGATGCCATGTTCCAAACA
1 ATGCCATGTCCCAAACATGGTCTTACACTAACTCTCATAACAATGCCAATGCCATGTCCCAAACA
43222051 TCGTCTTACAATGGC
66 TCGTCTTACAATGGC
43222066 ACACATAATG
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
96 64 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (96 bp):
ATGCCATGTCCCAAACATGGTCTTACACTAACTCTCATAACAATGCCAATGCCATGTCCCAAACA
TCGTCTTACAATGGCTCTCATAACATTTTCA
Found at i:43229889 original size:27 final size:27
Alignment explanation
Indices: 43229857--43229950 Score: 75
Period size: 27 Copynumber: 3.3 Consensus size: 27
43229847 AATGAAAATC
43229857 ACGATAAGCACTAAAGTGCAAAATAAT
1 ACGATAAGCACTAAAGTGCAAAATAAT
* *
43229884 ACGATAAGCA-TCAAAGTGTAAATTTTTTACA-
1 ACGATAAGCACT-AAAGTGCAAA----ATA-AT
** *
43229915 ACGATAAGCACCGAAGTGCGAAATAAT
1 ACGATAAGCACTAAAGTGCAAAATAAT
43229942 ACGATAAGC
1 ACGATAAGC
43229951 GCATTATTTT
Statistics
Matches: 52, Mismatches: 7, Indels: 16
0.69 0.09 0.21
Matches are distributed among these distances:
26 2 0.04
27 30 0.58
31 19 0.37
32 1 0.02
ACGTcount: A:0.46, C:0.16, G:0.17, T:0.21
Consensus pattern (27 bp):
ACGATAAGCACTAAAGTGCAAAATAAT
Found at i:43231320 original size:26 final size:26
Alignment explanation
Indices: 43231284--43231334 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
43231274 TAATGCAGAC
43231284 TTAATATATCGTCGGTACTCCACGGT
1 TTAATATATCGTCGGTACTCCACGGT
43231310 TTAATATATCGTCGGTACTCCACGG
1 TTAATATATCGTCGGTACTCCACGG
43231335 AACTCCTTCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.33
Consensus pattern (26 bp):
TTAATATATCGTCGGTACTCCACGGT
Found at i:43233300 original size:27 final size:27
Alignment explanation
Indices: 43233270--43233388 Score: 166
Period size: 27 Copynumber: 4.4 Consensus size: 27
43233260 GGGGCAAAAT
* * * *
43233270 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
43233297 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
43233324 GGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
43233351 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
43233378 GGTAATTCTAC
1 GGTAATTCTAC
43233389 AACTTATCTA
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 81 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:43237421 original size:50 final size:49
Alignment explanation
Indices: 43237311--43237440 Score: 181
Period size: 50 Copynumber: 2.6 Consensus size: 49
43237301 TTGGTACGCA
* * * **
43237311 TAGTAGCTTGCACTTAGTACTACACATGCGACCAACAGTCTGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
*
43237360 TAGTAGCCTGCACTTAGTACTACACACGTGACCTCACCA-TCTAATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAACAGTCTAATACACG
43237410 TAGTAGCCTGCACTTAGTACTACACACGTGA
1 TAGTAGCCTGCACTTAGTACTACACACGTGA
43237441 TCATAGTTTT
Statistics
Matches: 73, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
49 28 0.38
50 41 0.56
51 4 0.05
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAACAGTCTAATACACG
Found at i:43240435 original size:29 final size:28
Alignment explanation
Indices: 43240373--43240443 Score: 81
Period size: 29 Copynumber: 2.5 Consensus size: 28
43240363 TACTCAATCA
* *
43240373 CGCACACTTAGTGCCATATGATTCAAGC
1 CGCACACTTAGTGCCATATGATCCAAAC
*
43240401 CTGCACACATAGTGCCATAT-AGTCCAAAC
1 C-GCACACTTAGTGCCATATGA-TCCAAAC
43240430 TCGCACACTTAGTG
1 -CGCACACTTAGTG
43240444 TCGTACATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 2 0.06
29 33 0.92
30 1 0.03
ACGTcount: A:0.30, C:0.30, G:0.17, T:0.24
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATGATCCAAAC
Found at i:43247494 original size:40 final size:40
Alignment explanation
Indices: 43247433--43247619 Score: 171
Period size: 40 Copynumber: 4.7 Consensus size: 40
43247423 CATTGGAATG
* * * * *
43247433 ATATCCGGGCTAAGTCTCGAAGGCAATTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* *
43247473 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTTATT
* **
43247513 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
* * * * *
43247553 AAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAA-TCACT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC-AAGTTATT
* * * *
43247593 ATAACCGGGCTAGGTCCCGAAGACAAT
1 ATATCCGGGCTAAGACCCGAAGGCAAT
43247620 CGAGCGAGTC
Statistics
Matches: 121, Mismatches: 23, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
39 3 0.02
40 114 0.94
41 4 0.03
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTATT
Found at i:43247537 original size:80 final size:80
Alignment explanation
Indices: 43247433--43247586 Score: 209
Period size: 80 Copynumber: 1.9 Consensus size: 80
43247423 CATTGGAATG
* * * ** *
43247433 ATATCCGGGCTAAGTCTCGAAGGCAATTATGCTAGTAATTATATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
*
43247498 TTCGTGCGAGTTGTT
66 ATCGTGCGAGTTGTT
* * * *
43247513 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
43247578 ATCGTGCGA
66 ATCGTGCGA
43247587 ATCACTATAA
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
80 63 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTATGCAAGTAACCAAATCCGGGCTAAGACCCGAAGGCA
ATCGTGCGAGTTGTT
Found at i:43247639 original size:80 final size:80
Alignment explanation
Indices: 43247472--43247654 Score: 181
Period size: 80 Copynumber: 2.3 Consensus size: 80
43247462 TGCTAGTAAT
* * * *** * *
43247472 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTTATATCCGGGCTAAGACCCGAAGGC
1 TATATCCGGGTTAAGACCCGAAGGCAATCGTGCGAATCACTATAACCGGGCTAAGACCCGAAGAC
* * * *
43247537 ATTTGTGCAAGTTAC
66 AATCGAGCAAGTCAC
* * * *
43247552 CAAATCCGGGTTAAGACCCGAAGGCAATCGTGCGAATCACTATAACCGGGCTAGGTCCCGAAGAC
1 TATATCCGGGTTAAGACCCGAAGGCAATCGTGCGAATCACTATAACCGGGCTAAGACCCGAAGAC
* *
43247617 AATCGAGCGAGTCGC
66 AATCGAGCAAGTCAC
43247632 TATATCC-GGTTAA-ATCCCGAAGG
1 TATATCCGGGTTAAGA-CCCGAAGG
43247655 TACGTGATTC
Statistics
Matches: 82, Mismatches: 20, Indels: 3
0.78 0.19 0.03
Matches are distributed among these distances:
78 1 0.01
79 14 0.17
80 67 0.82
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.21
Consensus pattern (80 bp):
TATATCCGGGTTAAGACCCGAAGGCAATCGTGCGAATCACTATAACCGGGCTAAGACCCGAAGAC
AATCGAGCAAGTCAC
Found at i:43249776 original size:27 final size:27
Alignment explanation
Indices: 43249746--43249864 Score: 166
Period size: 27 Copynumber: 4.4 Consensus size: 27
43249736 GGGGTAGAAT
* * * *
43249746 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
43249773 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
43249800 AGTAATTCTATCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
43249827 GGTAATTCTACCTTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
43249854 GATAATTCTAC
1 GGTAATTCTAC
43249865 AACTTATCCA
Statistics
Matches: 82, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 82 1.00
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:43253223 original size:16 final size:16
Alignment explanation
Indices: 43253202--43253247 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
43253192 ATGTATCGGC
*
43253202 AAAAGCCAAAATGCTG
1 AAAAGCCAAAAAGCTG
*
43253218 AAAAGCTAAAAAGCTG
1 AAAAGCCAAAAAGCTG
* *
43253234 AAATGCCCAAAAGC
1 AAAAGCCAAAAAGC
43253248 CAAAAGTTTG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.52, C:0.20, G:0.17, T:0.11
Consensus pattern (16 bp):
AAAAGCCAAAAAGCTG
Found at i:43253577 original size:28 final size:29
Alignment explanation
Indices: 43253463--43253577 Score: 137
Period size: 29 Copynumber: 4.0 Consensus size: 29
43253453 GTGAGCATGA
* *
43253463 ATATGAATGTGA-CTGGGCCTAACGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
43253491 ATATAAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
43253520 ATAT-ACAGGTGATTTGGGCCTAATGAGCC
1 ATATGA-ATGTGATTTGGGCCTAATGGGCC
* *
43253549 ATATGAATATGA-TTGGGCTTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
43253577 A
1 A
43253578 GATACAGGTA
Statistics
Matches: 75, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
28 27 0.36
29 47 0.63
30 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.29, T:0.28
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:43253583 original size:57 final size:58
Alignment explanation
Indices: 43253476--43253586 Score: 161
Period size: 57 Copynumber: 1.9 Consensus size: 58
43253466 TGAATGTGAC
* * *
43253476 TGGGCCTAACGGGCCATATAAATGTGATTTGGGCCTAATGGGCCATATACAGGTGATT
1 TGGGCCTAACGAGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
* * *
43253534 TGGGCCTAATGAGCCATATGAATATGA-TTGGGCTTAATGGGCCAGATACAGGT
1 TGGGCCTAACGAGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGT
43253587 ATGTGAAATT
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
57 24 0.51
58 23 0.49
ACGTcount: A:0.27, C:0.16, G:0.30, T:0.27
Consensus pattern (58 bp):
TGGGCCTAACGAGCCATATAAATATGATTTGGGCCTAATGGGCCAGATACAGGTGATT
Found at i:43258714 original size:30 final size:30
Alignment explanation
Indices: 43258659--43258818 Score: 231
Period size: 29 Copynumber: 5.5 Consensus size: 30
43258649 ATAGTGAATC
43258659 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
43258688 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
43258718 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
43258747 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * *
43258775 CGCACACTTAGTGCTGTATAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
43258805 CGCACACTTAGTGC
1 CGCACACTTAGTGC
43258819 CAATCTTGTC
Statistics
Matches: 121, Mismatches: 4, Indels: 11
0.89 0.03 0.08
Matches are distributed among these distances:
27 2 0.02
28 23 0.19
29 48 0.40
30 47 0.39
31 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:43258751 original size:59 final size:57
Alignment explanation
Indices: 43258659--43258818 Score: 232
Period size: 59 Copynumber: 2.8 Consensus size: 57
43258649 ATAGTGAATC
*
43258659 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTC-AGCT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAA---TCAAACT
43258718 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
* * * *
43258775 CGCACACTTAGTGCTGTATAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATAT-ATTTTCAGCTCGCACACTTAGTGC
43258819 CAATCTTGTC
Statistics
Matches: 94, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
56 2 0.02
57 21 0.22
58 21 0.22
59 50 0.53
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (57 bp):
CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATCAAACT
Found at i:43266668 original size:30 final size:30
Alignment explanation
Indices: 43266574--43266675 Score: 120
Period size: 28 Copynumber: 3.5 Consensus size: 30
43266564 TATAGTGAAT
* * *
43266574 CCGCACACTTAGTGCTATAT-GTTTTCAGC
1 CCGCACACTTAGTGCTATATAATTTTAAAC
* *
43266603 TCGCACACTTAGTGCTATATAA--TCAAAC
1 CCGCACACTTAGTGCTATATAATTTTAAAC
* *
43266631 TCGCACACTTAGTGCTGTATAATTTTAAAC
1 CCGCACACTTAGTGCTATATAATTTTAAAC
43266661 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
43266676 CAATCTTGTC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
28 24 0.39
29 19 0.31
30 19 0.31
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.31
Consensus pattern (30 bp):
CCGCACACTTAGTGCTATATAATTTTAAAC
Found at i:43267330 original size:21 final size:21
Alignment explanation
Indices: 43267304--43267352 Score: 89
Period size: 21 Copynumber: 2.3 Consensus size: 21
43267294 AATCAAGTTC
43267304 AACATCCTCATATACGGCATT
1 AACATCCTCATATACGGCATT
43267325 AACATCCTCATATACGGCATT
1 AACATCCTCATATACGGCATT
*
43267346 AGCATCC
1 AACATCC
43267353 AAACAACCTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.33, C:0.31, G:0.10, T:0.27
Consensus pattern (21 bp):
AACATCCTCATATACGGCATT
Found at i:43268764 original size:4 final size:4
Alignment explanation
Indices: 43268755--43268779 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
43268745 ACCATTTTCA
43268755 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
43268780 TTATTTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:43277569 original size:45 final size:45
Alignment explanation
Indices: 43277475--43277592 Score: 182
Period size: 45 Copynumber: 2.6 Consensus size: 45
43277465 TATAATGTCG
* * * *
43277475 ATGCCATGTCCCAGACATGATCTTACACTGGCTCTTATCTTAAGTCA
1 ATGCCATGTCCTAGACATGGTCTT--ACTGGCTCATATCTTAAGCCA
43277522 ATGCCATGTCCTAGACATGGTCTTACTGGCTCATATCTTAAGCCA
1 ATGCCATGTCCTAGACATGGTCTTACTGGCTCATATCTTAAGCCA
43277567 ATGCCATGTCCTAGACATGGTCTTAC
1 ATGCCATGTCCTAGACATGGTCTTAC
43277593 ACTGACTATC
Statistics
Matches: 67, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
45 45 0.67
47 22 0.33
ACGTcount: A:0.25, C:0.27, G:0.17, T:0.31
Consensus pattern (45 bp):
ATGCCATGTCCTAGACATGGTCTTACTGGCTCATATCTTAAGCCA
Found at i:43277690 original size:99 final size:92
Alignment explanation
Indices: 43277473--43277790 Score: 240
Period size: 92 Copynumber: 3.4 Consensus size: 92
43277463 GGTATAATGT
* ** * * * * * * *
43277473 CGATGCCATGTCCCAGACATGATCTTACACTGGCTCTTATCTTAAGTCAATGCCATGTCCTAGAC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGT-AGCCGATG-CATGTCCCAGAC
*
43277538 ATGGTCTT--ACTGGC-T-CATATCTTAA-GC
64 A-GGTCTTACACTAGCTTACATATC--AAGGC
* * * * *
43277565 CAATGCCATGTCCTAGACATGGTCTTACACTGAC-TATCGTCATTGAGGCCGATGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACATC-TC-GT-A-GCCGATG-CATGTCCCA
*
43277629 GACAAGGTCTTACACTAGCTCTCACATATC-TGCGC
61 GAC-AGGTCTTACACTAGCT-T-ACATATCAAG-GC
*
43277664 CGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTAGCCGATGCATGTCCCAGACAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTAGCCGATGCATGTCCCAGACAG
* * * *
43277729 GTCTTTCACTGGCTTACGTCTCAAGGC
66 GTCTTACACTAGCTTACATATCAAGGC
*
43277756 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACACA
43277791 CAAATGACCC
Statistics
Matches: 187, Mismatches: 25, Indels: 30
0.77 0.10 0.12
Matches are distributed among these distances:
90 15 0.08
91 15 0.08
92 44 0.24
93 5 0.03
94 36 0.19
95 13 0.07
96 12 0.06
97 1 0.01
98 2 0.01
99 35 0.19
100 9 0.05
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (92 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACACATCTCGTAGCCGATGCATGTCCCAGACAG
GTCTTACACTAGCTTACATATCAAGGC
Found at i:43281628 original size:5 final size:5
Alignment explanation
Indices: 43281618--43281677 Score: 120
Period size: 5 Copynumber: 12.0 Consensus size: 5
43281608 AGTTAAATAA
43281618 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
43281668 ATATT ATATT
1 ATATT ATATT
43281678 GGTGCAAGCT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 55 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATATT
Found at i:43286105 original size:33 final size:33
Alignment explanation
Indices: 43286063--43286130 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
43286053 CAAAAGTGTA
43286063 TAAATTTCGAAATTGATATAAAATTATTATTAT
1 TAAATTTCGAAATTGATATAAAATTATTATTAT
43286096 TAAATTTCGAAATTGATATAAAATTATTATTAT
1 TAAATTTCGAAATTGATATAAAATTATTATTAT
43286129 TA
1 TA
43286131 TTGTTGATAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (33 bp):
TAAATTTCGAAATTGATATAAAATTATTATTAT
Found at i:43289166 original size:46 final size:46
Alignment explanation
Indices: 43289099--43289273 Score: 196
Period size: 46 Copynumber: 3.8 Consensus size: 46
43289089 TGTAACCCGC
*
43289099 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
* *
43289145 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG--G-C--GTTCGCAT
* * * * *
43289195 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
*
43289238 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGG
43289274 ATGCTCAACC
Statistics
Matches: 106, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 2 0.02
45 2 0.02
46 60 0.57
47 26 0.25
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGGCGTTCGCAT
Found at i:43289214 original size:93 final size:93
Alignment explanation
Indices: 43289106--43289277 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
43289096 CGCCCATAAG
* * * *
43289106 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43289171 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
43289199 CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
43289264 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
43289278 TCAACCATCC
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:43293637 original size:29 final size:27
Alignment explanation
Indices: 43293603--43293704 Score: 89
Period size: 29 Copynumber: 3.6 Consensus size: 27
43293593 TACTCAATCA
*
43293603 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
43293632 CGCACACATAGTG-CATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
43293660 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
43293689 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
43293705 ATCTCGTCCC
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
27 1 0.02
28 22 0.37
29 37 0.62
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:43293687 original size:57 final size:57
Alignment explanation
Indices: 43293575--43293695 Score: 147
Period size: 57 Copynumber: 2.1 Consensus size: 57
43293565 GTGTAGAGTT
* * **
43293575 CGCACACATAGTGCTTAATACTCAATCACGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACATAGTGCATAATACTCAAACACGCACACTTAGTGCCATGACATTCAAGCC
* * *
43293632 CGCACACATAGTGCAT-ATAGTCCAAACTCGCACACTTAGTGCCAT-ACATTACAAGCT
1 CGCACACATAGTGCATAATACT-CAAACACGCACACTTAGTGCCATGACATT-CAAGCC
43293689 CGCACAC
1 CGCACAC
43293696 TCAGTGCCAA
Statistics
Matches: 55, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
56 7 0.13
57 48 0.87
ACGTcount: A:0.31, C:0.31, G:0.15, T:0.22
Consensus pattern (57 bp):
CGCACACATAGTGCATAATACTCAAACACGCACACTTAGTGCCATGACATTCAAGCC
Found at i:43301197 original size:29 final size:27
Alignment explanation
Indices: 43301163--43301265 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
43301153 TACTCAATCA
*
43301163 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
43301192 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
43301221 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
43301250 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
43301266 ATCTCGTCCC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:43307040 original size:44 final size:45
Alignment explanation
Indices: 43306977--43307147 Score: 170
Period size: 44 Copynumber: 3.8 Consensus size: 45
43306967 TGTAACCCGC
*
43306977 CCATAAGCGAACTCGGACTCAACTCAACGAGCTC-GGCGTTCCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCCAT
* * *
43307021 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC--A-GGC--GTTCCAT
* * * *
43307071 -C-TCA-CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCGTTC-CAT
* *
43307114 CCATAAGTGAACTTGGACTCAACTCAACGAGTTC
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC
43307148 GGATGCTCAA
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 35 0.34
45 3 0.03
46 24 0.23
47 25 0.24
48 4 0.04
49 1 0.01
50 6 0.06
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (45 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCCAT
Found at i:43307141 original size:93 final size:91
Alignment explanation
Indices: 43306984--43307153 Score: 277
Period size: 93 Copynumber: 1.8 Consensus size: 91
43306974 CGCCCATAAG
* * *
43306984 CGAACTCGGACTCAACTCAACGAGCTCGGCGTTCCATCCATAAGTGAACTCGGACTCAACTCAAC
1 CGAACTCAGACTCAACTCAACGAGCTCGACATTCCATCCATAAGTGAACTCGGACTCAACTCAAC
43307049 GAGTTCGGATGCCTAGTTACATCTCA
66 GAGTTCGGATGCCTAGTTACATCTCA
* *
43307075 CGAACTCAGACTCAACTCAACGAGTTCAGACATTCGCATCCATAAGTGAACTTGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGCTC-GACATTC-CATCCATAAGTGAACTCGGACTCAACTCA
43307140 ACGAGTTCGGATGC
64 ACGAGTTCGGATGC
43307154 TCAACCATCC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
91 25 0.35
92 5 0.07
93 42 0.58
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (91 bp):
CGAACTCAGACTCAACTCAACGAGCTCGACATTCCATCCATAAGTGAACTCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCA
Found at i:43323757 original size:23 final size:23
Alignment explanation
Indices: 43323727--43323773 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
43323717 TCTGCTACTG
43323727 ACATATCACCCTAAACCAAATCC
1 ACATATCACCCTAAACCAAATCC
43323750 ACATATCACCCTAAACCAAATCC
1 ACATATCACCCTAAACCAAATCC
43323773 A
1 A
43323774 GAAACTCACG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.17
Consensus pattern (23 bp):
ACATATCACCCTAAACCAAATCC
Found at i:43331385 original size:40 final size:40
Alignment explanation
Indices: 43331341--43331521 Score: 188
Period size: 40 Copynumber: 4.5 Consensus size: 40
43331331 GCTCGATTGT
* * * *
43331341 CTTCGGGACATAGCCCGG-TTATAGTGATTCGCACAATTGC
1 CTTCGGGACATAGCCCGGATT-TAGTAACTAGCACAAATGC
43331381 CTTCGGGA-ATTAGCCCGGATTTAGTAACTAGCACAAATGC
1 CTTCGGGACA-TAGCCCGGATTTAGTAACTAGCACAAATGC
* * * * *
43331421 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGC
1 CTTCGGGACATAGCCCGGATTTAGTAACTAGCACAAATGC
* * *
43331461 CTTCGGGA-ATTGACCCGGATTTAGTCACTTAGCACAAAAGC
1 CTTCGGGACATAG-CCCGGATTTAGTAAC-TAGCACAAATGC
*
43331502 CTTCGGGACTTAGCCCGGAT
1 CTTCGGGACATAGCCCGGAT
43331522 ACCATTCGAA
Statistics
Matches: 116, Mismatches: 19, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
39 2 0.02
40 85 0.73
41 27 0.23
42 2 0.02
ACGTcount: A:0.25, C:0.25, G:0.24, T:0.26
Consensus pattern (40 bp):
CTTCGGGACATAGCCCGGATTTAGTAACTAGCACAAATGC
Found at i:43331439 original size:80 final size:81
Alignment explanation
Indices: 43331341--43331519 Score: 254
Period size: 80 Copynumber: 2.2 Consensus size: 81
43331331 GCTCGATTGT
* * * *
43331341 CTTCGGGACATAGCCCGGTTATAGTGATTCGCACAATTGCCTTCGGGAATT-AGCCCGGATTTAG
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGA-CCCGGATTTAG
*
43331405 TAAC-TAGCACAAATGC
65 TAACTTAGCACAAAAGC
* * *
43331421 CTTCGGGACTTAACCCGGTTTTGGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
1 CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
*
43331486 CACTTAGCACAAAAGC
66 AACTTAGCACAAAAGC
43331502 CTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGG
43331520 ATACCATTCG
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
80 58 0.67
81 29 0.33
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.26
Consensus pattern (81 bp):
CTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGAATTGACCCGGATTTAGT
AACTTAGCACAAAAGC
Found at i:43334662 original size:114 final size:113
Alignment explanation
Indices: 43334466--43334686 Score: 318
Period size: 114 Copynumber: 1.9 Consensus size: 113
43334456 TATACTAAGC
* * *
43334466 TCTACTTCATCTCCGTTGACCATTTTATCACCATTATTTCTTGTCAGTTGACTCTAAATGGATGC
1 TCTACTTAATCTCCGTTGACCATTTTATCACCATTATTTCTTATCAGTTGACTCCAAATGGATGC
43334531 TCAATGTTAGCTCTTTAT-TTTTTAAAATTTTTTTTGGTGAATACTAGAA
66 TCAATGTTAGCTCTTTATATTTTT-AAA-TTTTTTTGGTGAATACTAGAA
* * * *
43334580 TCTACTTAATCTTCGTTGACCATTTTATTACCATTATTTCTTATTAGTTGTCTCCAAATGGATGC
1 TCTACTTAATCTCCGTTGACCATTTTATCACCATTATTTCTTATCAGTTGACTCCAAATGGATGC
** * *
43334645 TCAATGTTATTTTTTTATATTTTTTAATTTTTTTGGTGAATA
66 TCAATGTTAGCTCTTTATATTTTTAAATTTTTTTGGTGAATA
43334687 GGGAAAAAAA
Statistics
Matches: 95, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
113 15 0.16
114 75 0.79
115 5 0.05
ACGTcount: A:0.24, C:0.15, G:0.11, T:0.49
Consensus pattern (113 bp):
TCTACTTAATCTCCGTTGACCATTTTATCACCATTATTTCTTATCAGTTGACTCCAAATGGATGC
TCAATGTTAGCTCTTTATATTTTTAAATTTTTTTGGTGAATACTAGAA
Found at i:43336554 original size:25 final size:25
Alignment explanation
Indices: 43336521--43336584 Score: 92
Period size: 25 Copynumber: 2.6 Consensus size: 25
43336511 ATTTCACAAC
*
43336521 TCGTGTGAGCATTTACAGTTACAGA
1 TCGTGTGAGCATTTACAATTACAGA
* *
43336546 TCGTCTGAGCATTTACAATTACAGC
1 TCGTGTGAGCATTTACAATTACAGA
*
43336571 TCGTGTAAGCATTT
1 TCGTGTGAGCATTT
43336585 TCCTGTGTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (25 bp):
TCGTGTGAGCATTTACAATTACAGA
Done.