Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 17 of 255
Found at i:4570758 original size:14 final size:15
Alignment explanation
Indices: 4570741--4570769 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4570731 TTATTAAATA
4570741 TTTAAA-TTTATTTT
1 TTTAAATTTTATTTT
4570755 TTTAAATTTTATTTT
1 TTTAAATTTTATTTT
4570770 CAAATCATCG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (15 bp):
TTTAAATTTTATTTT
Found at i:4571481 original size:35 final size:35
Alignment explanation
Indices: 4571435--4571506 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
4571425 GGTGTGGAGA
4571435 CTACGCTTGATAGAGGATTTGATATTATAATTATT
1 CTACGCTTGATAGAGGATTTGATATTATAATTATT
4571470 CTACGCTTGATAGAGGATTTGATATTATAATTATT
1 CTACGCTTGATAGAGGATTTGATATTATAATTATT
4571505 CT
1 CT
4571507 TTCAGACAGT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.31, C:0.10, G:0.17, T:0.43
Consensus pattern (35 bp):
CTACGCTTGATAGAGGATTTGATATTATAATTATT
Found at i:4576317 original size:38 final size:39
Alignment explanation
Indices: 4576273--4576364 Score: 100
Period size: 39 Copynumber: 2.3 Consensus size: 39
4576263 CGTTTTGAAT
4576273 AAAAACGCCAC-AAAGAGT-GAGCATTAGCGGCGTTTCTA
1 AAAAACGCCACTAAAGA-TCGAGCATTAGCGGCGTTTCTA
* * *
4576311 AAAAACG-CAGCTAAAGATCGATCTTTAGCGGCGTTTTTA
1 AAAAACGCCA-CTAAAGATCGAGCATTAGCGGCGTTTCTA
4576350 ATAAAAGCGCCACTA
1 A-AAAA-CGCCACTA
4576365 TAGGTTCACA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
37 2 0.04
38 9 0.20
39 23 0.51
40 4 0.09
41 5 0.11
42 2 0.04
ACGTcount: A:0.37, C:0.21, G:0.21, T:0.22
Consensus pattern (39 bp):
AAAAACGCCACTAAAGATCGAGCATTAGCGGCGTTTCTA
Found at i:4577108 original size:21 final size:22
Alignment explanation
Indices: 4577082--4577122 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
4577072 GGTACTTTAC
4577082 GGTTTAGGGTATATG-GTTAAG
1 GGTTTAGGGTATATGAGTTAAG
*
4577103 GGTTTAGGGTTTATGAGTTA
1 GGTTTAGGGTATATGAGTTA
4577123 TTATTTTAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.22, C:0.00, G:0.37, T:0.41
Consensus pattern (22 bp):
GGTTTAGGGTATATGAGTTAAG
Found at i:4577225 original size:21 final size:21
Alignment explanation
Indices: 4577186--4577225 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
4577176 GGGTTAGGGG
**
4577186 TTTAGAGTTTATGTTTTATTA
1 TTTAGAGTTTATGGATTATTA
*
4577207 TTTAGGGTTTATGGATTAT
1 TTTAGAGTTTATGGATTAT
4577226 GGATTAGGGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.23, C:0.00, G:0.20, T:0.57
Consensus pattern (21 bp):
TTTAGAGTTTATGGATTATTA
Found at i:4577465 original size:21 final size:22
Alignment explanation
Indices: 4577419--4577471 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 22
4577409 GAGTTACAAC
* *
4577419 TTTAAGGGTTTGTGAATTATGG
1 TTTAAGGGTTGGTGAATTAAGG
*
4577441 TTTAAGGGTTGGTG-TTTAAGG
1 TTTAAGGGTTGGTGAATTAAGG
*
4577462 TTTAGGGGTT
1 TTTAAGGGTT
4577472 AAGGGTTACG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
21 14 0.52
22 13 0.48
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (22 bp):
TTTAAGGGTTGGTGAATTAAGG
Found at i:4577536 original size:287 final size:284
Alignment explanation
Indices: 4576979--4577539 Score: 620
Period size: 287 Copynumber: 2.0 Consensus size: 284
4576969 TGACTGATTG
* * *
4576979 TTTTTTAATTTATATGTTAAATATTTTCTTATATAATTGTAAAAGAGATTGTATTAATTTTAAAA
1 TTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTAAAA
* *** * *
4577044 TATTGAATTAATTATCATTATAGTTTAGGGTACTTTACGGTTTAGGGTATATGGTTAAGGGTTTA
66 TATTAAATTAATTATCATTATAGTTTAGGGTACTTTACAAATCAAGGTATATGGTTAAGGGTTTA
* ** * *
4577109 GGGTTTATGAGTTATTATTTTAAGGTTTAGGGATTATGGGGTTTAAGGGCTATGGTTTAAGTGTC
131 GGGCTTATGAGTTACAACTTTAAGGTTTAGGAATTAT-GGGTTTAAGGGCTATGGTTTAAGTGTC
* * * **** * *
4577174 AGGGGTTAGGGGTTTAGAGTTTATGTTTTATTATTTAGGGTTTATGGATTATGGATTAGGGATTA
195 AGGGGTTAAGGGTTTAGAGGTTAGGGGCCA-TATTTAGGGTTTAAGGATTATGGA-TAAGGATTA
4577239 TGGGTTTAGGGTTTTGATTAATTAGTA
258 TGGGTTTAGGGTTTTGATTAATTAGTA
* *
4577266 TTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTGAAAGAGATAGTGTTAATTTTAAAA
1 TTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTAAAA
* *
4577331 TATTAAATTAATTATCTTTATAGTTTAGGGTTTACTGTTTACAAATCAAGGTATATGGTTTATGG
66 TATTAAATTAATTATCATTATAGTTTAGGG--TAC--TTTACAAATCAAGGTATATGG-TTAAGG
*
4577396 TTTTAGGGCTTATGAGTTACAACTTTAAGGGTTT-GTGAATTAT-GGTTTAAGGG-T-TGGTGTT
126 GTTTAGGGCTTATGAGTTACAACTTTAA-GGTTTAG-GAATTATGGGTTTAAGGGCTAT-G-GTT
* *
4577457 TAAG-GTTTAGGGGTTAAGGG-TTACG-GGTTAGGGGCCA-GTTTAGGGTTTAAAGG-TTATGTG
187 TAAGTG-TCAGGGGTTAAGGGTTTA-GAGGTTAGGGGCCATATTTAGGGTTT-AAGGATTATG-G
* *
4577517 -TAAGGTTTATGGTTTTAGGGTTT
248 ATAAGGATTATGGGTTTAGGGTTT
4577540 ATGGTTTTAG
Statistics
Matches: 229, Mismatches: 32, Indels: 26
0.80 0.11 0.09
Matches are distributed among these distances:
287 108 0.47
288 15 0.07
289 8 0.03
290 12 0.05
291 46 0.20
292 29 0.13
293 11 0.05
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.45
Consensus pattern (284 bp):
TTTTTTAATTTATATATTAAATAATTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTAAAA
TATTAAATTAATTATCATTATAGTTTAGGGTACTTTACAAATCAAGGTATATGGTTAAGGGTTTA
GGGCTTATGAGTTACAACTTTAAGGTTTAGGAATTATGGGTTTAAGGGCTATGGTTTAAGTGTCA
GGGGTTAAGGGTTTAGAGGTTAGGGGCCATATTTAGGGTTTAAGGATTATGGATAAGGATTATGG
GTTTAGGGTTTTGATTAATTAGTA
Found at i:4577540 original size:7 final size:7
Alignment explanation
Indices: 4577520--4577597 Score: 68
Period size: 7 Copynumber: 11.0 Consensus size: 7
4577510 TTATGTGTAA
4577520 GGTTTATG
1 GGTTTA-G
*
4577528 GTTTTAG
1 GGTTTAG
4577535 GGTTTATG
1 GGTTTA-G
*
4577543 GTTTTAG
1 GGTTTAG
*
4577550 AGTTTAG
1 GGTTTAG
*
4577557 GGGTT-G
1 GGTTTAG
* *
4577563 GGGTTGG
1 GGTTTAG
4577570 GGTTTAG
1 GGTTTAG
4577577 GGTTTAG
1 GGTTTAG
*
4577584 GTTTTAG
1 GGTTTAG
4577591 GGTTTAG
1 GGTTTAG
4577598 TGTTAATAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
6 6 0.11
7 40 0.70
8 11 0.19
ACGTcount: A:0.13, C:0.00, G:0.41, T:0.46
Consensus pattern (7 bp):
GGTTTAG
Found at i:4577591 original size:14 final size:14
Alignment explanation
Indices: 4577520--4577597 Score: 77
Period size: 14 Copynumber: 5.5 Consensus size: 14
4577510 TTATGTGTAA
4577520 GGTTTATGGTTTTAG
1 GGTTTA-GGTTTTAG
4577535 GGTTTATGGTTTTAG
1 GGTTTA-GGTTTTAG
* **
4577550 AGTTTAGGGGTT-G
1 GGTTTAGGTTTTAG
* * *
4577563 GGGTTGGGGTTTAG
1 GGTTTAGGTTTTAG
4577577 GGTTTAGGTTTTAG
1 GGTTTAGGTTTTAG
4577591 GGTTTAG
1 GGTTTAG
4577598 TGTTAATAAA
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
13 9 0.17
14 23 0.44
15 20 0.38
ACGTcount: A:0.13, C:0.00, G:0.41, T:0.46
Consensus pattern (14 bp):
GGTTTAGGTTTTAG
Found at i:4577877 original size:14 final size:14
Alignment explanation
Indices: 4577841--4577877 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
4577831 AAAAAAAATG
4577841 AAATTATTTAGATT
1 AAATTATTTAGATT
4577855 AAATT-TTTAGATT
1 AAATTATTTAGATT
4577868 AAATTATTTA
1 AAATTATTTA
4577878 AAAGATAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (14 bp):
AAATTATTTAGATT
Found at i:4581912 original size:12 final size:12
Alignment explanation
Indices: 4581895--4581940 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 12
4581885 ATTCATGTGA
4581895 TTTTTTAAAATT
1 TTTTTTAAAATT
4581907 TTTTTTAAAATT
1 TTTTTTAAAATT
4581919 TATTTAATTAAAATAT
1 T-TTT--TTAAAAT-T
4581935 TTTTTT
1 TTTTTT
4581941 TAGCTTGGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
12 13 0.43
13 5 0.17
15 10 0.33
16 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTTTTAAAATT
Found at i:4582030 original size:13 final size:13
Alignment explanation
Indices: 4582012--4582046 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
4582002 TTACATAATA
*
4582012 CATAAATATGTAT
1 CATAAATATATAT
4582025 CATAAATATATAT
1 CATAAATATATAT
4582038 CATATAATA
1 CATA-AATA
4582047 ACTTACATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.51, C:0.09, G:0.03, T:0.37
Consensus pattern (13 bp):
CATAAATATATAT
Found at i:4582033 original size:56 final size:56
Alignment explanation
Indices: 4581971--4582136 Score: 209
Period size: 56 Copynumber: 3.0 Consensus size: 56
4581961 ATCTTAATGT
* *
4581971 TAAATATATATCATATAAAAACTTACAAAACTTACATAATACATAAATATGTATCA
1 TAAATATATATCATATAATAACTTACAAAACTTACATAATACATAAATATATATCA
* *
4582027 TAAATATATATCATATAATAACTTACATAACTT--AT-ATACCTTACAA-A-ATA-CA
1 TAAATATATATCATATAATAACTTACAAAACTTACATAATA-CATA-AATATATATCA
* * *
4582079 TTAATATATATCATATCATAACTTACACAACTTACATAATACATAAATATATATCA
1 TAAATATATATCATATAATAACTTACAAAACTTACATAATACATAAATATATATCA
4582135 TA
1 TA
4582137 TCATAACTTA
Statistics
Matches: 93, Mismatches: 9, Indels: 16
0.79 0.08 0.14
Matches are distributed among these distances:
52 32 0.34
53 7 0.08
54 12 0.13
55 8 0.09
56 34 0.37
ACGTcount: A:0.51, C:0.14, G:0.01, T:0.34
Consensus pattern (56 bp):
TAAATATATATCATATAATAACTTACAAAACTTACATAATACATAAATATATATCA
Found at i:4582056 original size:9 final size:9
Alignment explanation
Indices: 4582044--4582210 Score: 73
Period size: 9 Copynumber: 19.0 Consensus size: 9
4582034 ATATCATATA
4582044 ATAACTTAC
1 ATAACTTAC
*
4582053 ATAACTTAT
1 ATAACTTAC
*
4582062 ATACCTTAC
1 ATAACTTAC
*
4582071 A-AA-ATAC
1 ATAACTTAC
*
4582078 ATTAA--TAT
1 A-TAACTTAC
* *
4582086 ATATCATATC
1 ATAACTTA-C
4582096 ATAACTTAC
1 ATAACTTAC
*
4582105 ACAACTTAC
1 ATAACTTAC
4582114 ATAA--TAC
1 ATAACTTAC
* *
4582121 ATAA-ATAT
1 ATAACTTAC
* *
4582129 ATATCATATC
1 ATAACTTA-C
4582139 ATAACTTAC
1 ATAACTTAC
*
4582148 ATACCTTAC
1 ATAACTTAC
* *
4582157 ATAAATGTAT
1 ATAACT-TAC
* *
4582167 ATCA-TAAC
1 ATAACTTAC
4582175 ATAACTTAC
1 ATAACTTAC
4582184 ATAACTTAC
1 ATAACTTAC
4582193 A-AAGCTTAC
1 ATAA-CTTAC
*
4582202 TTAACTTAC
1 ATAACTTAC
4582211 GTAATACATA
Statistics
Matches: 119, Mismatches: 27, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
7 13 0.11
8 15 0.13
9 72 0.61
10 19 0.16
ACGTcount: A:0.46, C:0.19, G:0.01, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:4582100 original size:43 final size:43
Alignment explanation
Indices: 4582052--4582162 Score: 168
Period size: 43 Copynumber: 2.6 Consensus size: 43
4582042 TAATAACTTA
* *
4582052 CATAACTTATATACCTTACAAAATACATTAATATATATCATAT
1 CATAACTTACATACCTTACAAAATACATAAATATATATCATAT
* * *
4582095 CATAACTTACACAACTTACATAATACATAAATATATATCATAT
1 CATAACTTACATACCTTACAAAATACATAAATATATATCATAT
4582138 CATAACTTACATACCTTACATAAAT
1 CATAACTTACATACCTTACA-AAAT
4582163 GTATATCATA
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
43 56 0.95
44 3 0.05
ACGTcount: A:0.47, C:0.19, G:0.00, T:0.34
Consensus pattern (43 bp):
CATAACTTACATACCTTACAAAATACATAAATATATATCATAT
Found at i:4582100 original size:52 final size:49
Alignment explanation
Indices: 4582025--4582155 Score: 157
Period size: 43 Copynumber: 2.7 Consensus size: 49
4582015 AAATATGTAT
*
4582025 CATAAATATATATCATATAATAACTTACATAACTTATATACCTTACAAAATA
1 CATAAATATATATCATATCATAACTTACATAACTTA-A-A-CTTACAAAATA
* *
4582077 CATTAATATATATCATATCATAACTTAC---AC---AACTTACATAATA
1 CATAAATATATATCATATCATAACTTACATAACTTAAACTTACAAAATA
*
4582120 CATAAATATATATCATATCATAACTTACATACCTTA
1 CATAAATATATATCATATCATAACTTACATAACTTA
4582156 CATAAATGTA
Statistics
Matches: 68, Mismatches: 5, Indels: 15
0.77 0.06 0.17
Matches are distributed among these distances:
43 37 0.54
44 1 0.01
45 1 0.01
46 1 0.01
49 2 0.03
52 26 0.38
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.35
Consensus pattern (49 bp):
CATAAATATATATCATATCATAACTTACATAACTTAAACTTACAAAATA
Found at i:4582168 original size:36 final size:36
Alignment explanation
Indices: 4582107--4582193 Score: 133
Period size: 36 Copynumber: 2.5 Consensus size: 36
4582097 TAACTTACAC
*
4582107 AACTTACATAA--TACATAAATATATATCATATCAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
* *
4582141 AACTTACATACCTTACATAAATGTATATCATAACAT
1 AACTTACATAACTTACATAAATATATATCATAACAT
4582177 AACTTACATAACTTACA
1 AACTTACATAACTTACA
4582194 AAGCTTACTT
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
34 10 0.21
36 37 0.79
ACGTcount: A:0.47, C:0.18, G:0.01, T:0.33
Consensus pattern (36 bp):
AACTTACATAACTTACATAAATATATATCATAACAT
Found at i:4584185 original size:13 final size:14
Alignment explanation
Indices: 4584169--4584197 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4584159 TTCTAAATAT
4584169 TTATAA-TGTTTAA
1 TTATAATTGTTTAA
4584182 TTATAATTGTTTAA
1 TTATAATTGTTTAA
4584196 TT
1 TT
4584198 CAATTCATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.34, C:0.00, G:0.07, T:0.59
Consensus pattern (14 bp):
TTATAATTGTTTAA
Found at i:4584631 original size:15 final size:16
Alignment explanation
Indices: 4584606--4584636 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
4584596 GCAACAACTT
4584606 AGAGCGGAGGCAGCAG
1 AGAGCGGAGGCAGCAG
4584622 AGAG-GGAGGCAGCAG
1 AGAGCGGAGGCAGCAG
4584637 CAGCAGTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.32, C:0.16, G:0.52, T:0.00
Consensus pattern (16 bp):
AGAGCGGAGGCAGCAG
Found at i:4584641 original size:21 final size:20
Alignment explanation
Indices: 4584615--4584662 Score: 78
Period size: 21 Copynumber: 2.4 Consensus size: 20
4584605 TAGAGCGGAG
4584615 GCAGCAGAGAGGGAGGCAGC
1 GCAGCAGAGAGGGAGGCAGC
*
4584635 AGCAGCAGTGAGGGAGGCAGC
1 -GCAGCAGAGAGGGAGGCAGC
4584656 GCAGCAG
1 GCAGCAG
4584663 CGATGGCAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.29, C:0.21, G:0.48, T:0.02
Consensus pattern (20 bp):
GCAGCAGAGAGGGAGGCAGC
Found at i:4596576 original size:23 final size:23
Alignment explanation
Indices: 4596498--4596569 Score: 105
Period size: 22 Copynumber: 3.3 Consensus size: 23
4596488 TAAGCCCTCC
4596498 AAAAAA-AAAAACCTAACCCCC-
1 AAAAAAGAAAAACCTAACCCCCA
*
4596519 CAAAAAGAAAAACCTAACCCCCA
1 AAAAAAGAAAAACCTAACCCCCA
*
4596542 AAAAAAGAAAAA-CTAACCCGCA
1 AAAAAAGAAAAACCTAACCCCCA
4596564 AAAAAA
1 AAAAAA
4596570 ATCAAAAAAC
Statistics
Matches: 46, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
21 5 0.11
22 30 0.65
23 11 0.24
ACGTcount: A:0.64, C:0.28, G:0.04, T:0.04
Consensus pattern (23 bp):
AAAAAAGAAAAACCTAACCCCCA
Found at i:4596802 original size:1 final size:1
Alignment explanation
Indices: 4596798--4596836 Score: 60
Period size: 1 Copynumber: 39.0 Consensus size: 1
4596788 TTTTTTCCTC
* *
4596798 TTTTTTTATTTTTTTTTTTTTTTTTTTGTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4596837 CTATTATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.03, C:0.00, G:0.03, T:0.95
Consensus pattern (1 bp):
T
Found at i:4596834 original size:20 final size:20
Alignment explanation
Indices: 4596798--4596836 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
4596788 TTTTTTCCTC
4596798 TTTTTTTATTTTTTTTTTTT
1 TTTTTTTATTTTTTTTTTTT
*
4596818 TTTTTTTGTTTTTTTTTTT
1 TTTTTTTATTTTTTTTTTT
4596837 CTATTATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.03, C:0.00, G:0.03, T:0.95
Consensus pattern (20 bp):
TTTTTTTATTTTTTTTTTTT
Found at i:4597096 original size:26 final size:27
Alignment explanation
Indices: 4597065--4597119 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
4597055 TAAATATTAA
* *
4597065 ATCACTGTTATATATGTA-ATATTGTT
1 ATCACTATTATATATCTATATATTGTT
*
4597091 ATCACTATTATATTTCTATATATTGTT
1 ATCACTATTATATATCTATATATTGTT
4597118 AT
1 AT
4597120 TATTATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 15 0.60
27 10 0.40
ACGTcount: A:0.31, C:0.09, G:0.07, T:0.53
Consensus pattern (27 bp):
ATCACTATTATATATCTATATATTGTT
Found at i:4597324 original size:21 final size:23
Alignment explanation
Indices: 4597300--4597342 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
4597290 CTACTTCTTG
*
4597300 TATATT-TCT-ATGTATATACTT
1 TATATTGTCTCATGTACATACTT
4597321 TATATTGTCTCATGTACATACT
1 TATATTGTCTCATGTACATACT
4597343 CCGTCTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 3 0.16
23 10 0.53
ACGTcount: A:0.28, C:0.14, G:0.07, T:0.51
Consensus pattern (23 bp):
TATATTGTCTCATGTACATACTT
Found at i:4597609 original size:1 final size:1
Alignment explanation
Indices: 4597593--4597693 Score: 76
Period size: 1 Copynumber: 101.0 Consensus size: 1
4597583 ATTATGTACA
* * * * * * * * *
4597593 TTTTTTATTTTATTTTTTTTTTTTTTTCTATTATTATTATTATTTTTTTTTATTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
** * * *
4597658 TCCTTTTATTTTTATTTTTTTTTTTTTTTTATTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
4597694 AATTTATTTA
Statistics
Matches: 74, Mismatches: 26, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 74 1.00
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:4597655 original size:40 final size:39
Alignment explanation
Indices: 4597592--4597693 Score: 143
Period size: 40 Copynumber: 2.6 Consensus size: 39
4597582 TATTATGTAC
* *
4597592 ATTTTTTATTTTATTTTTTTTTTTTTTTCTATTATTATT
1 ATTTTTTTTTTTATTTTTTTTTTTTTTCCTATTATTATT
* *
4597631 ATTATTTTTTTTTATTTTTTTTTTTTTTCCTTTTATTTTT
1 ATT-TTTTTTTTTATTTTTTTTTTTTTTCCTATTATTATT
*
4597671 ATTTTTTTTTTT-TTTTTATTTTT
1 ATTTTTTTTTTTATTTTTTTTTTT
4597694 AATTTATTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 3
0.88 0.08 0.05
Matches are distributed among these distances:
38 10 0.18
39 12 0.21
40 35 0.61
ACGTcount: A:0.12, C:0.03, G:0.00, T:0.85
Consensus pattern (39 bp):
ATTTTTTTTTTTATTTTTTTTTTTTTTCCTATTATTATT
Found at i:4597669 original size:27 final size:26
Alignment explanation
Indices: 4597635--4597685 Score: 93
Period size: 27 Copynumber: 1.9 Consensus size: 26
4597625 ATTATTATTA
4597635 TTTTTTTTTATTTTTTTTTTTTTTCC
1 TTTTTTTTTATTTTTTTTTTTTTTCC
4597661 TTTTATTTTTATTTTTTTTTTTTTT
1 TTTT-TTTTTATTTTTTTTTTTTTT
4597686 TTATTTTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 4 0.17
27 20 0.83
ACGTcount: A:0.06, C:0.04, G:0.00, T:0.90
Consensus pattern (26 bp):
TTTTTTTTTATTTTTTTTTTTTTTCC
Found at i:4597699 original size:11 final size:11
Alignment explanation
Indices: 4597594--4597702 Score: 88
Period size: 11 Copynumber: 10.3 Consensus size: 11
4597584 TTATGTACAT
4597594 TTTTTATTTTA
1 TTTTTATTTTA
4597605 -TTTT-TTTT-
1 TTTTTATTTTA
*
4597613 TTTTT-TTCTA
1 TTTTTATTTTA
*
4597623 TTATTATTATTA
1 TTTTTATT-TTA
4597635 TTTTT-TTTTA
1 TTTTTATTTTA
4597645 TTTTT-TTTT-
1 TTTTTATTTTA
*
4597654 TTTTTCCTTTTA
1 TTTTT-ATTTTA
*
4597666 TTTTTATTTTTT
1 TTTTTA-TTTTA
*
4597678 TTTTTTTTTTA
1 TTTTTATTTTA
*
4597689 TTTTTAATTTA
1 TTTTTATTTTA
4597700 TTT
1 TTT
4597703 AAAATAAGGC
Statistics
Matches: 80, Mismatches: 10, Indels: 16
0.75 0.09 0.15
Matches are distributed among these distances:
9 16 0.20
10 20 0.25
11 24 0.30
12 20 0.25
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.84
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:4599129 original size:12 final size:12
Alignment explanation
Indices: 4599102--4599136 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
4599092 ATTCATTTGA
4599102 CATTCATGCA-T
1 CATTCATGCATT
4599113 CATTCATGCATT
1 CATTCATGCATT
*
4599125 CATTCATACATT
1 CATTCATGCATT
4599137 GCATATCCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 10 0.45
12 12 0.55
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.40
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:4607650 original size:72 final size:72
Alignment explanation
Indices: 4607504--4607694 Score: 224
Period size: 72 Copynumber: 2.6 Consensus size: 72
4607494 TAAGCCTTTT
* * * * *
4607504 AATTTTTGTTTTTCAAAATCAACTCATATTGCTAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGG
1 AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATAAGG
*
4607569 TATTTTC
66 TATTCTC
**
4607576 AATTTTTGTGTTTT-AATTTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATAAG
1 AATTTTTGT-TTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATAAG
4607640 GTCA-TCTC
65 GT-ATTCTC
* * * * *
4607648 AATTTTTGTTTGTCAAGAATCAACTAATATTGCAAGAGATGGGTTGA
1 AATTTTTGTTTTTCAA-AATCAACTCATATTGCGAGAGGTGAGTTGA
4607695 ATCTTTTAAT
Statistics
Matches: 100, Mismatches: 15, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
71 3 0.03
72 68 0.68
73 29 0.29
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.36
Consensus pattern (72 bp):
AATTTTTGTTTTTCAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGATAAGG
TATTCTC
Found at i:4607868 original size:88 final size:88
Alignment explanation
Indices: 4607719--4608050 Score: 486
Period size: 88 Copynumber: 3.8 Consensus size: 88
4607709 ACTTTTTCAA
*
4607719 AATCAGCTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
*
4607784 CTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* *
4607807 AATCAACTCATATTGCGAGAGGTGAGTTGAGTCTCAAGTCACGCCGAGGTATTTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
4607872 TTTCATTATTATGTTTTTGAAAG
66 TTTCATTATTATGTTTTTGAAAG
* * * *
4607895 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTACTTTCAATTTCC
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGT--CACGCCGAGGTATTTTCAATTTCT
* * * * *
4607960 GTTTTTCAAT-TTCTGTCTTTAAAAA
64 G-TTTTCATTATTATGTTTTTGAAAG
* * *
4607985 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGT
1 AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
4608050 T
66 T
4608051 GTCAAAAAAT
Statistics
Matches: 220, Mismatches: 21, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
87 2 0.01
88 141 0.64
90 70 0.32
91 7 0.03
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.35
Consensus pattern (88 bp):
AATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGTCACGCCGAGGTATTTTCAATTTCTGT
TTTCATTATTATGTTTTTGAAAG
Found at i:4608085 original size:73 final size:75
Alignment explanation
Indices: 4607963--4608737 Score: 252
Period size: 75 Copynumber: 9.7 Consensus size: 75
4607953 AATTTCCGTT
* *
4607963 TTTCAATTTCTGTCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-ACAC
1 TTTCAATTTCTGTCTGTAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACAC
*
4608027 GCTGAGGTAA
66 GCCGAGGTAA
* * *
4608037 TTTCAATTTCTGT-TGTCAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCACA
1 TTTCAATTTCTGTCTGTAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CACA
*
4608101 CGCCGAGGTAT
65 CGCCGAGGTAA
* *** * * * * *
4608112 TTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAA-AAAATCA-ACT-C-ATATTGCGAGAGGT
1 TTTCAA--------TTTC--TGTCTG--TAAAAAAATCAACTCATATTGCGAGA--G-G-C----
*
4608173 GAGTTGAGCCTCAGG-ACACGCTGAGGTAA
46 GAGTTGAGCCTCAGGCACACGCCGAGGTAA
* * *
4608202 TTTCAATTTCTGT-TGTCAAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCAC
1 TTTCAATTTCTGTCTGT-AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CAC
*
4608266 ACGCCGAGGTAT
64 ACGCCGAGGTAA
* *** ** * * * * *
4608278 TTTCAATTTTCGTTTTTTAATTTCTGCTTTTCAAAAAAAAATC-GACT-C-ATATTGCGAGAGGT
1 TTTCAA-TTTC---------TGTCTG--TAAAAAAATCAACTCATATTGCGAGA--G-GCG----
* * * *
4608340 GAGTTGAGCCT-TGGCTCACGCGCTGAGCTAT
47 -AGTTGAGCCTCAGGCACACGC-C-GAGGTAA
* * *** **
4608371 TTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCA-AAACA
1 TTTCAATTTCTGTCTGT-AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACA
* * *
4608435 TGCTGAGGTAT
65 CGCCGAGGTAA
* * * * * *
4608446 TTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCCGG-ACA
1 TTTCAATTTCTGTCTGT-AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACA
* *
4608510 CGCTGAGGTCA
65 CGCCGAGGTAA
* * *
4608521 TTTCAATTTCTGT-TGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTTAC
1 TTTCAATTTCTGTCTGT-AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CAC
*
4608585 ACGCC-AGGTAT
64 ACGCCGAGGTAA
* *
4608596 TTTCAATTTTGTTTTCATTTCTGCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTCAA------TTTC-TGTCTG---T--AAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAG
* * * *
4608661 CCT-TGGCTCACGCGCTGAGCTAT
54 CCTCAGGCACACGC-C-GAGGTAA
* * * *
4608684 TTTAAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTCAATTTCTGTCTGTAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGC
4608738 TTTAGATCAC
Statistics
Matches: 520, Mismatches: 105, Indels: 150
0.67 0.14 0.19
Matches are distributed among these distances:
73 41 0.08
74 69 0.13
75 110 0.21
76 60 0.12
77 19 0.04
78 4 0.01
79 7 0.01
80 5 0.01
81 10 0.02
82 20 0.04
83 12 0.02
84 1 0.00
85 11 0.02
86 12 0.02
87 46 0.09
88 24 0.05
89 1 0.00
90 18 0.03
91 6 0.01
92 22 0.04
93 22 0.04
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (75 bp):
TTTCAATTTCTGTCTGTAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACAC
GCCGAGGTAA
Found at i:4608120 original size:75 final size:74
Alignment explanation
Indices: 4607962--4608121 Score: 232
Period size: 73 Copynumber: 2.1 Consensus size: 74
4607952 CAATTTCCGT
* *
4607962 TTTTCAATTTCTGTCTTTAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACAC
1 TTTTCAATTTCTGTCTGTAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACAC
*
4608027 GCTGAGGTA
66 GCCGAGGTA
* * * *
4608036 ATTTCAATTTCTGT-TGTCAAAAAATCAACTCGTATTGCGAGTGGCGAGTTGAGCCTCAGGTCAC
1 TTTTCAATTTCTGTCTGTAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG--AC
4608100 ACGCCGAGGTA
64 ACGCCGAGGTA
4608111 TTTTCAATTTC
1 TTTTCAATTTC
4608122 CGTTTTTCAA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
73 41 0.54
74 13 0.17
75 22 0.29
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (74 bp):
TTTTCAATTTCTGTCTGTAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGACAC
GCCGAGGTA
Found at i:4608251 original size:74 final size:76
Alignment explanation
Indices: 4608126--4608737 Score: 282
Period size: 75 Copynumber: 7.7 Consensus size: 76
4608116 AATTTCCGTT
*
4608126 TTTCAATTTCTGCCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG-AC
1 TTTCAATTTCTG-CTTTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
*
4608190 ACGCTGAGGTAA
65 ACGCCGAGGTAA
* * *
4608202 TTTCAATTTCTG-TTGTC-AAAAAAGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCA
1 TTTCAATTTCTGCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
*
4608265 CACGCCGAGGTAT
64 CACGCCGAGGTAA
* * ****** *** * * * * *
4608278 TTTCAATTT-TCGTTTTTTAATTTCTGCTTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGA
1 TTTCAATTTCT-G-CTTTCAA----AAAAAATC-AACTCATATTG-C-GAGA--G-G-C----GA
* * * *
4608342 GTTGAGCCT-TGGCTCACGCGCTGAGCTAT
49 GTTGAGCCTCAGGCACACGC-C-GAGGTAA
* *** **
4608371 TTTCAATTTCTGTCTTTC-AAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCA-AAAC
1 TTTCAATTTCTG-CTTTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
* * *
4608434 ATGCTGAGGTAT
65 ACGCCGAGGTAA
** * * *
4608446 TTTCAATTTCTATTTTTC-AAAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCCGG-AC
1 TTTCAATTTCT-GCTTTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCAC
* *
4608509 ACGCTGAGGTCA
65 ACGCCGAGGTAA
* * *
4608521 TTTCAATTTCTG-TTGTC-AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTTA
1 TTTCAATTTCTGCTT-TCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG-CA
*
4608584 CACGCC-AGGTAT
64 CACGCCGAGGTAA
*
4608596 TTTCAATTTTGTTTTCATTTCTGCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
1 TTTC-A----------ATTTCTGCTTTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAG
* * * *
4608661 CCT-TGGCTCACGCGCTGAGCTAT
55 CCTCAGGCACACGC-C-GAGGTAA
* *
4608684 TTTAAATTTCTGTCTTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TTTCAATTTCTG-CTTTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGC
4608738 TTTAGATCAC
Statistics
Matches: 409, Mismatches: 79, Indels: 96
0.70 0.14 0.16
Matches are distributed among these distances:
73 2 0.00
74 81 0.20
75 91 0.22
76 77 0.19
77 23 0.06
78 8 0.02
82 2 0.00
83 5 0.01
84 1 0.00
85 8 0.02
86 12 0.03
87 46 0.11
88 11 0.03
91 6 0.01
92 4 0.01
93 31 0.08
94 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (76 bp):
TTTCAATTTCTGCTTTCAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGGCACA
CGCCGAGGTAA
Found at i:4608464 original size:75 final size:74
Alignment explanation
Indices: 4608312--4608979 Score: 324
Period size: 75 Copynumber: 8.5 Consensus size: 74
4608302 TGCTTTTCAA
* * * ** * *
4608312 AAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATTTTCA
1 AAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCC-T--CAAAACACGCTGAGGTATTTTCA
*
4608376 ATTTCTGTCTTTC
63 ATTTCT-TTTTTC
* *
4608389 AAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAAACATGCTGAGGTATTTTCAATT
1 AAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAAAACACGCTGAGGTATTTTCAATT
4608454 TCTATTTTTC
66 TCT-TTTTTC
* * ***
4608464 AAAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCCGGACACGCTGAGGTCA-TTTCAAT
1 AAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAAAACACGCTGAGGT-ATTTTCAAT
* *
4608528 TTCTGTTGTC
65 TTCTTTTTTC
* * * ** *
4608538 AAAAAAATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTTACACGC-CAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCA--AAACACGCTGAGGTATTTTCAA
4608602 TTTTGTTTTCATTTCTGCTTTC
64 ------TTTC--TT-T--TTTC
* * ** * * *
4608624 AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATTTTA
1 -AAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCC-T--CAAAACACGCTGAGGTATTTTC
*
4608688 AATTTCTGTCTTTC
62 AATTTCT-TTTTTC
* * * * * **
4608702 -AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATCACACATTGAGGTATTTTTTC
1 AAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCA-A-AACACGCTGAGGTA--TTTTC
* *
4608766 AATTTATATTTTC
62 AATTTCTTTTTTC
* * * * *** *
4608779 -AAAAAATTAACTTACATTGTGAGATGTGAGTTGAGCCTCGGTCACATG-TCGAGGTATTTTCAA
1 AAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTC-AAAACACGCT-GAGGTATTTTCAA
**
4608842 AATCTGTTTTTC
64 TTTCT-TTTTTC
* * * ***
4608854 AGATTCTGTTTTCAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGTGCTGA
1 A-A----------AAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAAAACAC--GCTGA
*
4608919 GCTATTTTCAATTTCTTTTTTTTC
53 GGTATTTTCAATTTC--TTTTTTC
* * * *
4608943 AAAAAATTCAACTTATATTGCGAGAGGTGAGTTGAGC
1 AAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGC
4608980 TTTTTAATTT
Statistics
Matches: 463, Mismatches: 81, Indels: 93
0.73 0.13 0.15
Matches are distributed among these distances:
74 51 0.11
75 103 0.22
76 64 0.14
77 71 0.15
78 45 0.10
80 1 0.00
81 5 0.01
82 4 0.01
83 1 0.00
84 1 0.00
86 6 0.01
87 74 0.16
88 27 0.06
89 8 0.02
90 2 0.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (74 bp):
AAAAAAATCAACTCATATTGTGAGAAGTGAGTTGAGCCTCAAAACACGCTGAGGTATTTTCAATT
TCTTTTTTC
Found at i:4608540 original size:319 final size:313
Alignment explanation
Indices: 4607895--4608817 Score: 1114
Period size: 319 Copynumber: 2.9 Consensus size: 313
4607885 TTTTTGAAAG
* *
4607895 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTACTTTCAATTTCC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCC-AGGTATTTTCAATTT-T
*
4607960 GTTTTTCAATTTCTGTCTTT--AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
64 G-TTTT-AATTTCTG-CTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TGG
* * * * * * ****
4608023 ---ACACGCTGAGGTAATTTCAATTTCTGT-TGTCAAAAAATCAACTCGTATTGCGAGTGGCGAG
125 CTCACGCGCTGAGCTATTTTAAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAG
* ***
4608084 TTGAGCCTCAGGTCACACGCCGAGGTA-TTTTCAATTTCCGTTTTTCAATTTCTGCCTTTCAAAA
190 TTGAGCCTCA-GACACACATTGAGGTATTTTTCAATTT-C-----T--A----T---TTTC-AAA
*
4608148 AAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
238 AAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCT
4608213 GTTGTCAAAAA
303 GTTGTCAAAAA
* *
4608224 AGTCAACTCGTATTGCGAGCGGCGAGTTGAGCCTCAGGTCACACGCCGAGGTATTTTCAATTTTC
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCC-AGGTATTTTCAATTTT-
*
4608289 GTTTTTTAATTTCTGCTTTTCAAAAAAAAATCGACTCATATTGCGAGAGGTGAGTTGAGCCTTGG
64 G--TTTTAATTTCTGC-TTTC-AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGG
* *
4608354 CTCACGCGCTGAGCTATTTTCAATTTCTGTCTTTCAAAAAAATCAACTCATATTGTGAGAAATGA
125 CTCACGCGCTGAGCTATTTTAAATTTCTGTCTTTC-AAAAAATCAACTCATATTGCGAGAAATGA
4608419 GTTGAGCCTCA-A-A-ACATGCTGAGGTA-TTTTCAATTTCTATTTTTCAAAAAAATCAACTCAT
189 GTTGAGCCTCAGACACACAT--TGAGGTATTTTTCAATTTCTA-TTTTCAAAAAAATCAACTCAT
* *
4608480 ATTGCGAGATGTGAGTTGAGCCTCCGGACACGCTGAGGTCATTTCAATTTCTGTTGTCAAAAA
251 ATTGCGAGATGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
* *
4608543 AATCAACTCGTATTGTGAGAGGCGAGTTGAGCCTCAGGTTACACGCCAGGTATTTTCAATTTTGT
1 AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAGGTATTTTCAATTTTGT
*
4608608 TTTCATTTCTGCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
66 TTTAATTTCTGCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
**
4608673 CGCTGAGCTATTTTAAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
131 CGCTGAGCTATTTTAAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
* * * * * * *
4608738 TTTAGATCACACATTGAGGTATTTTTTCAATTTATATTTTC-AAAAAATTAACTTACATTGTGAG
196 CTCAGA-CACACATTGAGGTA-TTTTTCAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAG
4608802 ATGTGAGTTGAGCCTC
259 ATGTGAGTTGAGCCTC
4608818 GGTCACATGT
Statistics
Matches: 534, Mismatches: 41, Indels: 53
0.85 0.07 0.08
Matches are distributed among these distances:
312 35 0.07
313 77 0.14
314 46 0.09
315 18 0.03
316 16 0.03
317 1 0.00
318 16 0.03
319 119 0.22
320 4 0.01
323 1 0.00
326 1 0.00
328 2 0.00
329 72 0.13
330 5 0.01
331 2 0.00
332 40 0.07
333 2 0.00
334 40 0.07
335 3 0.01
336 34 0.06
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (313 bp):
AATCAACTCGTATTGCGAGAGGCGAGTTGAGCCTCAGGTCACACGCCAGGTATTTTCAATTTTGT
TTTAATTTCTGCTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACG
CGCTGAGCTATTTTAAATTTCTGTCTTTCAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGC
CTCAGACACACATTGAGGTATTTTTCAATTTCTATTTTCAAAAAAATCAACTCATATTGCGAGAT
GTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTGTCAAAAA
Found at i:4608783 original size:76 final size:76
Alignment explanation
Indices: 4608626--4609181 Score: 228
Period size: 76 Copynumber: 6.9 Consensus size: 76
4608616 CTGCTTTCAA
* * * *
4608626 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTTAAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACACTGAGCTATTTTAAAT
* *
4608691 TTCTGTCTTTC
66 TTATATCTTTC
* * * *
4608702 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATCACACATTGAGGTATTTTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACACTGAGCTA--TTTTAA
4608767 ATTTATAT-TTTC
64 ATTTATATCTTTC
* * * * * * * ** *
4608779 AAAAAATTAACTTACATTGTGAGATGTGAGTTGAGCC-TCGGTCACA-TGTCGAGGTATTTTCAA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACACT-GAGCTATTTT--A
* *
4608842 AATCTGTTTTTCAGATTCTGTTTT
63 AA------TTT-ATA-TC--TTTC
* * * * *** *
4608866 CAAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGTGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACACTGAGCTATTTTAAAT
* * *
4608931 TTCTTTTTTTTC
66 TT-ATATCTTTC
* * * * * *
4608943 AAAAAATTCAACTTATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTCTGCGAGAGTTGAGTTG
1 AAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--CTTAGA--TC-AC-ACA-CTGAGCT-
* *
4609007 AGTCTTTTAATTTCTAT-TTTC
57 A-T-TTTAAATTTATATCTTTC
* * * *
4609028 -AAAAATCAACTCATATTGCGAGAGGTGAGTTGAACCTCCAG-TCACATA-TCGAGGTATTTTCA
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT-TAGATCACACACT-GAGCTATTTT--
**
4609090 AAATCTGCTTTTCAAGTTAAGTTTC
62 AAA------TTT--A--TATCTTTC
* * * *
4609115 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTTCAAT
1 AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACACTGAGCTATTTTAAAT
4609180 TT
66 TT
4609182 CTGTTTTTAA
Statistics
Matches: 360, Mismatches: 72, Indels: 92
0.69 0.14 0.18
Matches are distributed among these distances:
74 7 0.02
75 2 0.01
76 69 0.19
77 47 0.13
78 40 0.11
79 2 0.01
80 12 0.03
81 3 0.01
82 8 0.02
83 30 0.08
84 11 0.03
85 5 0.01
86 9 0.03
87 48 0.13
88 65 0.18
89 2 0.01
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.36
Consensus pattern (76 bp):
AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTAGATCACACACTGAGCTATTTTAAAT
TTATATCTTTC
Found at i:4608997 original size:30 final size:30
Alignment explanation
Indices: 4608961--4609021 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
4608951 CAACTTATAT
4608961 TGCGAGAGGTGAGTTGAG-CTTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTC-TTTTAATTTC
*
4608991 TGCGAGAGTTGAGTTGAGTCTTTTAATTTC
1 TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
4609021 T
1 T
4609022 ATTTTCAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 28 0.97
31 1 0.03
ACGTcount: A:0.20, C:0.10, G:0.28, T:0.43
Consensus pattern (30 bp):
TGCGAGAGGTGAGTTGAGTCTTTTAATTTC
Found at i:4609129 original size:249 final size:242
Alignment explanation
Indices: 4608385--4609189 Score: 759
Period size: 249 Copynumber: 3.3 Consensus size: 242
4608375 AATTTCTGTC
* ** ** ** *
4608385 TTTCAAAAAAATCAACTCATATTGTGAGAAATGAGTTGAGCC-T--CAAAACATGCTGAGGTATT
1 TTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGC-TCACGCGCTGAGCTATT
* * ***
4608447 TTCAATTTC-TATTTTTCAAAAAAATCAACTCATATTGCGAGATGTGAGTTGAGCCTCCGGA-CA
64 TTCAATTTCTTTTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG-CTTTAGATCA
* * * * * ** * *
4608510 CGC--TGAGG--TCATTTCAATTTCTGTTGTCAAAAAAATCAACTCGTATTGTGAGAGGCGAGTT
127 CACATTGAGGTATCTTTTCAATTTATATTTTC-AAAAAATCAACTCACATTGCGAGAGGTGAGTT
* * ** * * * * ** *
4608571 GAGCCTCAGGTTACA-CGCCAGGTATTTTC-AATTTTG-TTTTCA-TTTCTGC
191 GAACCTCA-GTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAGATTAAGT
4608620 TTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
1 TTTC--AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATT
* * *
4608685 TTAAATTTC-TGTCTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATCACA
64 TTCAATTTCTTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATCACA
* * * * * *
4608749 CATTGAGGTATTTTTTCAATTTATATTTTCAAAAAATTAACTTACATTGTGAGATGTGAGTTGAG
129 CATTGAGGTATCTTTTCAATTTATATTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAA
* * * **
4608814 CCTCGGTCACATGTCGAGGTATTTTCAAAATCTGTTTTTCAGATTCTGT
194 CCTCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAGATTAAGT
* * * *
4608863 TTTC-AAAAATTAACTCATATTGCGAGAAGTGAGTTGAGCCTTAGCTCACGTGCTGAGCTATTTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTT
*
4608927 CAATTTCTTTTTTTTCAAAAAATTCAACTTATATTGCGAGAGGTGAGTTGAGCTTTTTA-ATTTC
66 CAATTTCTTTTTTTTCAAAAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGC--TTTAGA--TC
* * * * *
4608991 TGCGAGAGTTGAGTTGAGTCTTTT-AATTTCTATTTTC-AAAAATCAACTCATATTGCGAGAGGT
126 -AC-ACA-TTGAGGT-A-TCTTTTCAATTTATATTTTCAAAAAATCAACTCACATTGCGAGAGGT
4609054 GAGTTGAACCTCCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCA-AGTTAAG-
186 GAGTTGAACCT-CAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAGA-TTAAGT
*
4609111 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACACGCTGAGCTATTTT
1 TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTT
*
4609176 CAATTTCTGTTTTT
66 CAATTTCTTTTTTT
4609190 AATGTCTGTT
Statistics
Matches: 477, Mismatches: 66, Indels: 40
0.82 0.11 0.07
Matches are distributed among these distances:
235 4 0.01
236 39 0.08
237 39 0.08
238 26 0.05
239 11 0.02
240 106 0.22
241 32 0.07
242 35 0.07
243 10 0.02
244 4 0.01
245 2 0.00
246 1 0.00
247 2 0.00
248 42 0.09
249 119 0.25
250 5 0.01
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.36
Consensus pattern (242 bp):
TTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGCTCACGCGCTGAGCTATTTT
CAATTTCTTTTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCTTTAGATCACACA
TTGAGGTATCTTTTCAATTTATATTTTCAAAAAATCAACTCACATTGCGAGAGGTGAGTTGAACC
TCAGTCACATATCGAGGTATTTTCAAAATCTGCTTTTCAGATTAAGT
Found at i:4609877 original size:27 final size:26
Alignment explanation
Indices: 4609847--4609947 Score: 163
Period size: 27 Copynumber: 4.0 Consensus size: 26
4609837 CCCTCCCAAA
4609847 AAAAAAACCTAACCCAAAAAAAAAGAG
1 AAAAAAACCTAACCCAAAAAAAAA-AG
4609874 AAAAAAACCTAACCCAAAAAAAAAAG
1 AAAAAAACCTAACCCAAAAAAAAAAG
4609900 -AAAAAACCTAA-CCAAAAAAAAAA-
1 AAAAAAACCTAACCCAAAAAAAAAAG
*
4609923 AGAAAAACCTAACCCAAAAAAAAAA
1 AAAAAAACCTAACCCAAAAAAAAAA
4609948 CTAAGAAACC
Statistics
Matches: 71, Mismatches: 1, Indels: 6
0.91 0.01 0.08
Matches are distributed among these distances:
24 22 0.31
25 23 0.32
26 2 0.03
27 24 0.34
ACGTcount: A:0.73, C:0.19, G:0.04, T:0.04
Consensus pattern (26 bp):
AAAAAAACCTAACCCAAAAAAAAAAG
Found at i:4609892 original size:25 final size:24
Alignment explanation
Indices: 4609844--4609947 Score: 156
Period size: 25 Copynumber: 4.2 Consensus size: 24
4609834 AAGCCCTCCC
4609844 AAAAAAAAAACCTAACCCAAAAAAA
1 AAAAAAAAAACCTAACCC-AAAAAA
4609869 AAGAGAAAAAAACCTAACCCAAAAAA
1 AA-A-AAAAAAACCTAACCCAAAAAA
4609895 AAAAGAAAAAACCTAA-CCAAAAAA
1 AAAA-AAAAAACCTAACCCAAAAAA
4609919 AAAAAGAAAAACCTAACCCAAAAAA
1 AAAAA-AAAAACCTAACCCAAAAAA
4609944 AAAA
1 AAAA
4609948 CTAAGAAACC
Statistics
Matches: 74, Mismatches: 0, Indels: 10
0.88 0.00 0.12
Matches are distributed among these distances:
23 1 0.01
24 23 0.31
25 26 0.35
26 9 0.12
27 15 0.20
ACGTcount: A:0.74, C:0.18, G:0.04, T:0.04
Consensus pattern (24 bp):
AAAAAAAAAACCTAACCCAAAAAA
Found at i:4609944 original size:24 final size:25
Alignment explanation
Indices: 4609844--4609947 Score: 167
Period size: 24 Copynumber: 4.2 Consensus size: 25
4609834 AAGCCCTCCC
4609844 AAAA-AAAAAACCTAACCCAAAAAA
1 AAAAGAAAAAACCTAACCCAAAAAA
4609868 AAAGAGAAAAAAACCTAACCCAAAAAA
1 AAA-AG-AAAAAACCTAACCCAAAAAA
*
4609895 AAAAGAAAAAACCTAACCAAAAAAA
1 AAAAGAAAAAACCTAACCCAAAAAA
4609920 AAAAG-AAAAACCTAACCCAAAAAA
1 AAAAGAAAAAACCTAACCCAAAAAA
4609944 AAAA
1 AAAA
4609948 CTAAGAAACC
Statistics
Matches: 75, Mismatches: 2, Indels: 6
0.90 0.02 0.07
Matches are distributed among these distances:
24 25 0.33
25 25 0.33
26 2 0.03
27 23 0.31
ACGTcount: A:0.74, C:0.18, G:0.04, T:0.04
Consensus pattern (25 bp):
AAAAGAAAAAACCTAACCCAAAAAA
Found at i:4633790 original size:17 final size:18
Alignment explanation
Indices: 4633760--4633795 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
4633750 AGTTGAACCA
4633760 ATTTTTCTAATTTTTAAT
1 ATTTTTCTAATTTTTAAT
*
4633778 ATTTTT-TATTTTTTAAT
1 ATTTTTCTAATTTTTAAT
4633795 A
1 A
4633796 ATTTATTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTTTCTAATTTTTAAT
Found at i:4635798 original size:28 final size:27
Alignment explanation
Indices: 4635767--4635819 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
4635757 TTTCTTTTTC
*
4635767 TTTTTT-AATAATA-TTGAAATCTGAAA
1 TTTTTTCAAAAATATTTG-AATCTGAAA
4635793 TTTTTTCAAAAATATTTGAATCTGAAA
1 TTTTTTCAAAAATATTTGAATCTGAAA
4635820 ATGAGTTTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 6 0.25
27 15 0.62
28 3 0.12
ACGTcount: A:0.42, C:0.06, G:0.08, T:0.45
Consensus pattern (27 bp):
TTTTTTCAAAAATATTTGAATCTGAAA
Found at i:4636884 original size:20 final size:20
Alignment explanation
Indices: 4636819--4636888 Score: 53
Period size: 20 Copynumber: 3.7 Consensus size: 20
4636809 AAATATGCTT
4636819 AAAAATT-TTAAAAATT-TT-
1 AAAAATTATT-AAAATTATTA
*
4636837 AAAAA-TATTAACATTGA-TA
1 AAAAATTATTAAAATT-ATTA
* *
4636856 TAAACTTATTAAAATTATTA
1 AAAAATTATTAAAATTATTA
4636876 AAAAATTA-TAAAA
1 AAAAATTATTAAAA
4636889 ACTTGTAAAT
Statistics
Matches: 40, Mismatches: 6, Indels: 11
0.70 0.11 0.19
Matches are distributed among these distances:
17 6 0.15
18 8 0.20
19 9 0.22
20 17 0.43
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (20 bp):
AAAAATTATTAAAATTATTA
Found at i:4636902 original size:19 final size:17
Alignment explanation
Indices: 4636772--4636923 Score: 73
Period size: 19 Copynumber: 8.5 Consensus size: 17
4636762 CATAAAAATG
*
4636772 ATTA-AAAATTAGAAAAA
1 ATTATAAAATTA-TAAAA
4636789 ATTATAAAA--ATAAAA
1 ATTATAAAATTATAAAA
*
4636804 ATTTTAAATATGCT-TAAAA
1 ATTATAAA-AT--TATAAAA
* *
4636823 ATTTTAAAAATTTTAAAA
1 ATTAT-AAAATTATAAAA
*
4636841 A-TATTAACATTGATATAAA
1 ATTA-TAAAATT-ATA-AAA
*
4636860 CTTATTAAAATTATTAAAAA
1 ATTA-TAAAATTA-T-AAAA
* *
4636880 ATTATAAAAACTTGTAAAT
1 ATTAT-AAAA-TTATAAAA
4636899 ATTATAAAATTAT-AAA
1 ATTATAAAATTATAAAA
4636915 ATTATAAAA
1 ATTATAAAA
4636924 AAAATTACAA
Statistics
Matches: 107, Mismatches: 12, Indels: 33
0.70 0.08 0.22
Matches are distributed among these distances:
15 11 0.10
16 13 0.12
17 14 0.13
18 17 0.16
19 25 0.23
20 24 0.22
21 3 0.03
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.36
Consensus pattern (17 bp):
ATTATAAAATTATAAAA
Found at i:4636925 original size:10 final size:9
Alignment explanation
Indices: 4636763--4636924 Score: 86
Period size: 9 Copynumber: 17.8 Consensus size: 9
4636753 CATTTTTTCC
*
4636763 ATAAAAATG
1 ATAAAAATT
4636772 ATTAAAAATT
1 A-TAAAAATT
*
4636782 AGAAAAAATT
1 A-TAAAAATT
4636792 AT-AAAA--
1 ATAAAAATT
4636798 ATAAAAATT
1 ATAAAAATT
* *
4636807 TTAAATATGCT
1 ATAAAAAT--T
4636818 -TAAAAATT
1 ATAAAAATT
*
4636826 TTAAAAATT
1 ATAAAAATT
*
4636835 TTAAAAA-T
1 ATAAAAATT
* *
4636843 ATTAACATT
1 ATAAAAATT
*
4636852 GATATAAACTT
1 -ATA-AAAATT
*
4636863 ATTAAAATT
1 ATAAAAATT
4636872 ATTAAAAAATT
1 A-T-AAAAATT
4636883 ATAAAAACTT
1 ATAAAAA-TT
* *
4636893 GTAAATATT
1 ATAAAAATT
4636902 AT-AAAATT
1 ATAAAAATT
4636910 AT-AAAATT
1 ATAAAAATT
4636918 ATAAAAA
1 ATAAAAA
4636925 AAATTACAAA
Statistics
Matches: 119, Mismatches: 20, Indels: 28
0.71 0.12 0.17
Matches are distributed among these distances:
6 2 0.02
7 4 0.03
8 25 0.21
9 41 0.34
10 35 0.29
11 12 0.10
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.35
Consensus pattern (9 bp):
ATAAAAATT
Found at i:4637011 original size:18 final size:19
Alignment explanation
Indices: 4636988--4637023 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4636978 TTAGAATTCT
4636988 TAAAAATAATA-AAAAATG
1 TAAAAATAATATAAAAATG
*
4637006 TAAAAATACTATAAAAAT
1 TAAAAATAATATAAAAAT
4637024 ATTCAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.69, C:0.03, G:0.03, T:0.25
Consensus pattern (19 bp):
TAAAAATAATATAAAAATG
Found at i:4637508 original size:9 final size:9
Alignment explanation
Indices: 4637468--4637654 Score: 67
Period size: 10 Copynumber: 19.3 Consensus size: 9
4637458 TTTTATTTTA
4637468 TTTTATAAGT
1 TTTTATAA-T
*
4637478 TTATATCAAT
1 TTTTAT-AAT
* *
4637488 TTTAAT-AC
1 TTTTATAAT
4637496 TTTTATAATT
1 TTTTATAA-T
*
4637506 TTTTACAATTT
1 TTTTATAA--T
*
4637517 TTTTATTATT
1 TTTTA-TAAT
*
4637527 TTTGTAGAAT
1 TTT-TATAAT
* *
4637537 TTTAATATGT
1 TTTTATA-AT
*
4637547 TTTTATAAAA
1 TTTTAT-AAT
4637557 TTTTA-AAT
1 TTTTATAAT
*
4637565 ATTTTAAATAT
1 -TTTTATA-AT
4637576 GTTTTATTAA-
1 -TTTTA-TAAT
4637586 TTTTATAAT
1 TTTTATAAT
4637595 TTTTATAAGT
1 TTTTATAA-T
*
4637605 TTATATCAAT
1 TTTTAT-AAT
*
4637615 TTTCAT-AT
1 TTTTATAAT
*
4637623 TTTTTTAATT
1 TTTTATAA-T
*
4637633 TTTTTTAAT
1 TTTTATAAT
4637642 TTTTATGAAT
1 TTTTAT-AAT
4637652 TTT
1 TTT
4637655 CTTTTTTTCA
Statistics
Matches: 133, Mismatches: 26, Indels: 36
0.68 0.13 0.18
Matches are distributed among these distances:
8 17 0.13
9 28 0.21
10 64 0.48
11 22 0.17
12 2 0.02
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:4637522 original size:21 final size:22
Alignment explanation
Indices: 4637496--4637539 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
4637486 ATTTTAATAC
4637496 TTTTATAATTTTT-TACAATTT
1 TTTTATAATTTTTGTACAATTT
* *
4637517 TTTTATTATTTTTGTAGAATTT
1 TTTTATAATTTTTGTACAATTT
4637539 T
1 T
4637540 AATATGTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (22 bp):
TTTTATAATTTTTGTACAATTT
Found at i:4637528 original size:10 final size:10
Alignment explanation
Indices: 4637496--4637654 Score: 70
Period size: 10 Copynumber: 16.2 Consensus size: 10
4637486 ATTTTAATAC
4637496 TTTTATAATT
1 TTTTATAATT
*
4637506 TTTTACAATTT
1 TTTTATAA-TT
*
4637517 TTTTATTATT
1 TTTTATAATT
*
4637527 TTTGTAGAA-T
1 TTT-TATAATT
*
4637537 TTTAAT-ATGT
1 TTTTATAAT-T
**
4637547 TTTTATAAAA
1 TTTTATAATT
*
4637557 TTTTA-AATA
1 TTTTATAATT
4637566 TTTTA-AATAT
1 TTTTATAAT-T
4637576 GTTTTATTAA--
1 -TTTTA-TAATT
4637586 TTTTATAA-T
1 TTTTATAATT
*
4637595 TTTTATAAGT
1 TTTTATAATT
*
4637605 TTATATCAA-T
1 TTTTAT-AATT
*
4637615 TTTCAT-ATT
1 TTTTATAATT
4637624 TTTT-TAATT
1 TTTTATAATT
*
4637633 TTTTTTAA-T
1 TTTTATAATT
4637642 TTTTATGAATT
1 TTTTAT-AATT
4637653 TT
1 TT
4637655 CTTTTTTTCA
Statistics
Matches: 115, Mismatches: 17, Indels: 33
0.70 0.10 0.20
Matches are distributed among these distances:
8 6 0.05
9 42 0.37
10 43 0.37
11 22 0.19
13 2 0.02
ACGTcount: A:0.31, C:0.02, G:0.04, T:0.64
Consensus pattern (10 bp):
TTTTATAATT
Found at i:4637581 original size:30 final size:31
Alignment explanation
Indices: 4637496--4637599 Score: 87
Period size: 30 Copynumber: 3.5 Consensus size: 31
4637486 ATTTTAATAC
* * *
4637496 TTTTATAATTTTTTACAAT-T-TTTTTATTAT
1 TTTTATAATATTTTA-AATATGTTTTTATAAA
*
4637526 TTTTGTAGA-ATTTT-AATATGTTTTTATAAAA
1 TTTTATA-ATATTTTAAATATGTTTTTAT-AAA
*
4637557 TTTTA-AATATTTTAAATATG-TTTTATTAA
1 TTTTATAATATTTTAAATATGTTTTTATAAA
4637586 TTTTATAAT-TTTTA
1 TTTTATAATATTTTA
4637600 TAAGTTTATA
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
28 3 0.05
29 14 0.23
30 32 0.52
31 12 0.20
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (31 bp):
TTTTATAATATTTTAAATATGTTTTTATAAA
Found at i:4637653 original size:37 final size:35
Alignment explanation
Indices: 4637586--4637662 Score: 84
Period size: 37 Copynumber: 2.1 Consensus size: 35
4637576 GTTTTATTAA
*
4637586 TTTTATAATTTTTATAAGTTTATATCAATTTTCATAT
1 TTTTTTAATTTTTATAAGTTTATATCAATTTTC-T-T
* * *
4637623 TTTTTTAATTTTTTTTAA-TTTTTATGAATTTTCTT
1 TTTTTTAA-TTTTTATAAGTTTATATCAATTTTCTT
4637658 TTTTT
1 TTTTT
4637663 CATATTTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
35 6 0.17
36 1 0.03
37 20 0.57
38 8 0.23
ACGTcount: A:0.25, C:0.04, G:0.03, T:0.69
Consensus pattern (35 bp):
TTTTTTAATTTTTATAAGTTTATATCAATTTTCTT
Found at i:4641642 original size:15 final size:15
Alignment explanation
Indices: 4641622--4641653 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
4641612 CAATTCATTA
*
4641622 TTATGTCTTTTGTAT
1 TTATGTCTTTTCTAT
4641637 TTATGTCTTTTCTAT
1 TTATGTCTTTTCTAT
4641652 TT
1 TT
4641654 TGCATGCATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.09, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTCTAT
Found at i:4648176 original size:59 final size:60
Alignment explanation
Indices: 4648110--4648224 Score: 214
Period size: 59 Copynumber: 1.9 Consensus size: 60
4648100 GTAAAATGCA
4648110 AAAATTCAAATGTTGACACTAGATTTATCTTTATATTTATATCATAGTA-TAGTACTGCT
1 AAAATTCAAATGTTGACACTAGATTTATCTTTATATTTATATCATAGTATTAGTACTGCT
*
4648169 AAAATTCAAATGTTGACACTGGATTTATCTTTATATTTATATCATAGTATTAGTAC
1 AAAATTCAAATGTTGACACTAGATTTATCTTTATATTTATATCATAGTATTAGTAC
4648225 AACAATATCT
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
59 48 0.89
60 6 0.11
ACGTcount: A:0.36, C:0.11, G:0.10, T:0.43
Consensus pattern (60 bp):
AAAATTCAAATGTTGACACTAGATTTATCTTTATATTTATATCATAGTATTAGTACTGCT
Found at i:4652943 original size:25 final size:25
Alignment explanation
Indices: 4652914--4652974 Score: 122
Period size: 25 Copynumber: 2.4 Consensus size: 25
4652904 TTTTTATATA
4652914 AAAATATTTTATATTTAAAATAGTG
1 AAAATATTTTATATTTAAAATAGTG
4652939 AAAATATTTTATATTTAAAATAGTG
1 AAAATATTTTATATTTAAAATAGTG
4652964 AAAATATTTTA
1 AAAATATTTTA
4652975 AAAGGTGTAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (25 bp):
AAAATATTTTATATTTAAAATAGTG
Found at i:4664496 original size:45 final size:46
Alignment explanation
Indices: 4664428--4664602 Score: 118
Period size: 46 Copynumber: 3.8 Consensus size: 46
4664418 GTCATACCAG
* *** * * * *
4664428 AAATGAGTAAGACCATAACTGAAAGACGCTATGGCATCGCGAT-TC
1 AAATGTGTAAGACCATGGTTGAAAGACACCATGACAACGCGATATC
* * *
4664473 AAATGTGTAAGACCATGGTTGAAAGATACCATGACAACGTGATATG
1 AAATGTGTAAGACCATGGTTGAAAGACACCATGACAACGCGATATC
* * * * ** ** * *
4664519 AAATATGAAAGACCATGGTTGAAAGATACTATGGTAACATGACATG
1 AAATGTGTAAGACCATGGTTGAAAGACACCATGACAACGCGATATC
** * *
4664565 AAATGAATAAAACCATGGTTGAAAGATACCATGACAAC
1 AAATGTGTAAGACCATGGTTGAAAGACACCATGACAAC
4664603 ATGACGGGGA
Statistics
Matches: 103, Mismatches: 26, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
45 33 0.32
46 70 0.68
ACGTcount: A:0.42, C:0.15, G:0.21, T:0.22
Consensus pattern (46 bp):
AAATGTGTAAGACCATGGTTGAAAGACACCATGACAACGCGATATC
Found at i:4664533 original size:46 final size:45
Alignment explanation
Indices: 4664481--4664683 Score: 225
Period size: 46 Copynumber: 4.5 Consensus size: 45
4664471 TCAAATGTGT
* *
4664481 AAGACCATGGTTGAAAGATACCATGACAACGTGATATGAAATATGA
1 AAGACCATGGTTGAAAGATACCATGACAACATGACATGAAA-ATGA
* **
4664527 AAGACCATGGTTGAAAGATACTATGGTAACATGACATG-AAATGAA
1 AAGACCATGGTTGAAAGATACCATGACAACATGACATGAAAATG-A
* ** *
4664572 TAAAACCATGGTTGAAAGATACCATGACAACATGACGGGGAAATG-
1 -AAGACCATGGTTGAAAGATACCATGACAACATGACATGAAAATGA
*
4664617 AAGACCATGGTTGAAAGATACCATGGA-AACTTGACA-GAAAATGA
1 AAGACCATGGTTGAAAGATACCAT-GACAACATGACATGAAAATGA
*
4664661 GTAAGACCATAGTTGAAAGATAC
1 --AAGACCATGGTTGAAAGATAC
4664684 TATAGCATCA
Statistics
Matches: 134, Mismatches: 16, Indels: 14
0.82 0.10 0.09
Matches are distributed among these distances:
43 6 0.04
44 33 0.25
45 5 0.04
46 85 0.63
47 5 0.04
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.20
Consensus pattern (45 bp):
AAGACCATGGTTGAAAGATACCATGACAACATGACATGAAAATGA
Found at i:4664660 original size:90 final size:92
Alignment explanation
Indices: 4664484--4664683 Score: 271
Period size: 90 Copynumber: 2.2 Consensus size: 92
4664474 AATGTGTAAG
* * * *
4664484 ACCATGGTTGAAAGATACCATGACAACGTGATATGAAATATGAAAGACCATGGTTGAAAGATACT
1 ACCATGGTTGAAAGATACCATGACAACATGACAGGAAATATGAAAGACCATGGTTGAAAGATACC
*
4664549 ATGGTAACATGACATGAAATGAATAAA
66 ATGGAAACATGACATGAAATGAATAAA
* *
4664576 ACCATGGTTGAAAGATACCATGACAACATGACGGGGAA-ATG-AAGACCATGGTTGAAAGATACC
1 ACCATGGTTGAAAGATACCATGACAACATGACAGGAAATATGAAAGACCATGGTTGAAAGATACC
* * *
4664639 ATGGAAACTTGACA-GAAAATGAGTAAG
66 ATGGAAACATGACATG-AAATGAATAAA
*
4664666 ACCATAGTTGAAAGATAC
1 ACCATGGTTGAAAGATAC
4664684 TATAGCATCA
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
89 1 0.01
90 59 0.61
91 3 0.03
92 33 0.34
ACGTcount: A:0.43, C:0.14, G:0.23, T:0.20
Consensus pattern (92 bp):
ACCATGGTTGAAAGATACCATGACAACATGACAGGAAATATGAAAGACCATGGTTGAAAGATACC
ATGGAAACATGACATGAAATGAATAAA
Found at i:4666523 original size:31 final size:31
Alignment explanation
Indices: 4666483--4666559 Score: 84
Period size: 31 Copynumber: 2.5 Consensus size: 31
4666473 TGATATTTTA
*
4666483 TAATTTTTTAATTAGATAATTATTATT-TATT
1 TAATATTTTAATTAGATAATTATTATTAT-TT
* **
4666514 TAATATTTTAATAAGATGTTTATTATTATTT
1 TAATATTTTAATTAGATAATTATTATTATTT
* *
4666545 TATTATTTTATTTAG
1 TAATATTTTAATTAG
4666560 TATATATATG
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 37 0.97
32 1 0.03
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (31 bp):
TAATATTTTAATTAGATAATTATTATTATTT
Found at i:4670227 original size:17 final size:15
Alignment explanation
Indices: 4670187--4670305 Score: 74
Period size: 15 Copynumber: 8.1 Consensus size: 15
4670177 ATATAAATAG
*
4670187 AAATAAAAATATAAT
1 AAATAGAAATATAAT
4670202 AAATAGAAATATAAT
1 AAATAGAAATATAAT
4670217 -AATAGTAGAA-AT-AT
1 AAATAG-A-AATATAAT
4670231 AAATAGATAA-ATAAT
1 AAATAGA-AATATAAT
*
4670246 AATTAGATAA-ATAAT
1 AAATAGA-AATATAAT
* * *
4670261 -AATAGTATTAGAAT
1 AAATAGAAATATAAT
*
4670275 AAA-A-AAATAAATAT
1 AAATAGAAATATA-AT
*
4670289 AAATAGAAACATAAT
1 AAATAGAAATATAAT
4670304 AA
1 AA
4670306 TAATAGCAAT
Statistics
Matches: 83, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
13 5 0.06
14 26 0.31
15 45 0.54
16 7 0.08
ACGTcount: A:0.66, C:0.01, G:0.07, T:0.27
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:4670316 original size:29 final size:29
Alignment explanation
Indices: 4670200--4670321 Score: 97
Period size: 29 Copynumber: 4.2 Consensus size: 29
4670190 TAAAAATATA
*
4670200 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
* * *
4670229 ATAAATAGATAA-ATAATAATTAGATAAAT
1 ATAAATAGA-AATATAATAATAATAGAAAT
* * * * * *
4670258 A-ATAATAGTATTAGAATAAAAAAATAAAT
1 ATA-AATAGAAATATAATAATAATAGAAAT
* *
4670287 ATAAATAGAAACATAATAATAATAGCAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
4670316 A-AAATA
1 ATAAATA
4670322 TTAAATTAGT
Statistics
Matches: 71, Mismatches: 18, Indels: 9
0.72 0.18 0.09
Matches are distributed among these distances:
28 7 0.10
29 61 0.86
30 3 0.04
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (29 bp):
ATAAATAGAAATATAATAATAATAGAAAT
Found at i:4671253 original size:44 final size:43
Alignment explanation
Indices: 4671204--4671355 Score: 141
Period size: 44 Copynumber: 3.5 Consensus size: 43
4671194 ATTTGAGCCA
*
4671204 CTACTGCTTAGGGAGATATGATCTGTAATTTCAAGCCTGTTTCC
1 CTACTGCTTAGGGAGATAAGATCTGTAATTTC-AGCCTGTTTCC
* * * * *
4671248 CTACTGCTTAGGGGGATAAGGCTCACTGT--CTTC-GATCTG-CTCC
1 CTACTGCTTAGGGAGATAA-GAT--CTGTAATTTCAG-CCTGTTTCC
*
4671291 ACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACC
1 -CTACTGCTTAGGGAGATAAGATCTGTAA-TTTCAGCCTGTTTCC
*
4671336 CTACTGCTTAGGGAGTTAAG
1 CTACTGCTTAGGGAGATAAG
4671356 GCTCACTGTC
Statistics
Matches: 85, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
41 4 0.05
43 6 0.07
44 63 0.74
45 8 0.09
47 4 0.05
ACGTcount: A:0.22, C:0.22, G:0.23, T:0.33
Consensus pattern (43 bp):
CTACTGCTTAGGGAGATAAGATCTGTAATTTCAGCCTGTTTCC
Found at i:4671356 original size:88 final size:87
Alignment explanation
Indices: 4671201--4671679 Score: 692
Period size: 88 Copynumber: 5.4 Consensus size: 87
4671191 TCAATTTGAG
* * *
4671201 CCACTACTGCTTAGGGAGATATGATCTGTAA-TTTCAAGCCTGTTTCCCTACTGCTTAGGGGGAT
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTC-AGCCTGTTACCCTACTGCTTA-GGGGTT
4671265 AAGGCTCACTGTCTTCGATCTGCT
64 AAGGCTCACTGTCTTCGATCTGCT
4671289 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGAGTTA
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGG-GTTA
*
4671354 AGGCTCACTGTCTTCGATTTGCT
65 AGGCTCACTGTCTTCGATCTGCT
* * * *
4671377 CCACTACTGCTTAGGGAAATAAGATCTGAAATTTTCAGCCTATTACTCTACTGCTTATAGGGGTT
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGC-T-TAGGGGTT
4671442 AAGGCTCACTGTCTTCGATCTGCT
64 AAGGCTCACTGTCTTCGATCTGCT
* *
4671466 CCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTACTTAGGGGGTTA
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTA-GGGGTTA
* *
4671531 AGGCTCACTGTCTTCAATCCGCT
65 AGGCTCACTGTCTTCGATCTGCT
* * ** * *
4671554 CCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACTTTACTACTTAGGGGAATA
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGG-TTA
4671619 AGGCTCA-TCGTCTTCGATCTGCT
65 AGGCTCACT-GTCTTCGATCTGCT
* *
4671642 CCACTACTGCTTAGGGAGATAATATCTGAAATTTTCAG
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAG
4671680 TCTGCTTCTT
Statistics
Matches: 355, Mismatches: 29, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
87 10 0.03
88 261 0.74
89 79 0.22
90 5 0.01
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (87 bp):
CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACCCTACTGCTTAGGGGTTAA
GGCTCACTGTCTTCGATCTGCT
Found at i:4671384 original size:44 final size:44
Alignment explanation
Indices: 4671248--4671663 Score: 207
Period size: 44 Copynumber: 9.4 Consensus size: 44
4671238 GCCTGTTTCC
*
4671248 CTACTGCTTAGGGGGATAAGGCTCACTGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACTGTCTTCGATCTGCTCCA
* * * * *
4671292 CTACTGCTTAGGGAGATAAGATCTGTAAT-T-TTC-AGCCTGTTACC-
1 CTACTGCTTAGGGAGATAAG-GCT-CACTGTCTTCGA-TCTGCT-CCA
* *
4671336 CTACTGCTTAGGGAGTTAAGGCTCACTGTCTTCGATTTGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACTGTCTTCGATCTGCTCCA
* * * * * ** * *
4671380 CTACTGCTTAGGGAAATAAGATCTGAAAT-T-TTC-AGCCTATTACT
1 CTACTGCTTAGGGAGATAAG-GCT-CACTGTCTTCGA-TCTGCTCCA
*
4671424 CTACTGCTTATAGGG-GTTAAGGCTCACTGTCTTCGATCTGCTCCA
1 CTACTGC-T-TAGGGAGATAAGGCTCACTGTCTTCGATCTGCTCCA
* * * * * *
4671469 CTACTGCTTAAGGAGATAAGATCTGTAAT-T-TTC-AGCCTGTTACC-
1 CTACTGCTTAGGGAGATAAG-GCT-CACTGTCTTCGA-TCTGCT-CCA
* * * * *
4671513 CTACTACTTAGGGGGTTAAGGCTCACTGTCTTCAATCCGCTCCA
1 CTACTGCTTAGGGAGATAAGGCTCACTGTCTTCGATCTGCTCCA
* * ** * * * * *
4671557 CTACTACTTAGGGAGATAA-GATCTGTAATCTTC-AGCCTGTTACT
1 CTACTGCTTAGGGAGATAAGGCTCACT-GTCTTCGA-TCTGCTCCA
* *
4671601 TTACTACTTAGGG-GAATAAGGCTCA-TCGTCTTCGATCTGCTCCA
1 CTACTGCTTAGGGAG-ATAAGGCTCACT-GTCTTCGATCTGCTCCA
4671645 CTACTGCTTAGGGAGATAA
1 CTACTGCTTAGGGAGATAA
4671664 TATCTGAAAT
Statistics
Matches: 268, Mismatches: 73, Indels: 62
0.67 0.18 0.15
Matches are distributed among these distances:
42 4 0.01
43 25 0.09
44 188 0.70
45 39 0.15
46 12 0.04
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (44 bp):
CTACTGCTTAGGGAGATAAGGCTCACTGTCTTCGATCTGCTCCA
Found at i:4671496 original size:177 final size:177
Alignment explanation
Indices: 4671201--4671679 Score: 716
Period size: 177 Copynumber: 2.7 Consensus size: 177
4671191 TCAATTTGAG
* * * *
4671201 CCACTACTGCTTAGGGAGATATGATCTGTAA-TTTCAAGCCTGTTTCCCTACTGCTTA-GGGGGA
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTC-AGCCTGTTACTCTACTGCTTATAGGGGA
4671264 TAAGGCTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCC
65 TAAGGCTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCC
* * **
4671329 TGTTACCCTACTGCTTAGGGAGTTAAGGCTCACTGTCTTCGATTTGCT
130 TGTTACCCTACTACTTAGGGAGTTAAGGCTCACTGTCTTCAATCCGCT
* * * *
4671377 CCACTACTGCTTAGGGAAATAAGATCTGAAATTTTCAGCCTATTACTCTACTGCTTATAGGGGTT
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACTCTACTGCTTATAGGGGAT
*
4671442 AAGGCTCACTGTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAGCCT
66 AAGGCTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCT
*
4671507 GTTACCCTACTACTTAGGGGGTTAAGGCTCACTGTCTTCAATCCGCT
131 GTTACCCTACTACTTAGGGAGTTAAGGCTCACTGTCTTCAATCCGCT
* * * *
4671554 CCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTTACTTTACTAC-T-TAGGGGAA
1 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACTCTACTGCTTATAGGGG-A
* *
4671617 TAAGGCTCA-TCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAATATCTGAAATTTTCAG
65 TAAGGCTCACT-GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAG
4671680 TCTGCTTCTT
Statistics
Matches: 274, Mismatches: 25, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
175 7 0.03
176 105 0.38
177 162 0.59
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (177 bp):
CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTTACTCTACTGCTTATAGGGGAT
AAGGCTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCT
GTTACCCTACTACTTAGGGAGTTAAGGCTCACTGTCTTCAATCCGCT
Found at i:4671674 original size:265 final size:265
Alignment explanation
Indices: 4671201--4671679 Score: 766
Period size: 265 Copynumber: 1.8 Consensus size: 265
4671191 TCAATTTGAG
* * * *
4671201 CCACTACTGCTTAGGGAGATATGATCTGTAATTTCAAGCCTGTTTCCCTACTGCTTAGGGGGATA
1 CCACTACTGCTTAAGGAGATAAGATCTGTAATTTCAAGCCTGTTACCCTACTACTTAGGGGGATA
* * * *
4671266 AGGCTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTG
66 AGGCTCACTGTCTTCAATCCGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAGCCTG
* * *
4671331 TTACCCTACTGCTTAGGGAGTTAAGGCTCACTGTCTTCGATTTGCTCCACTACTGCTTAGGGAAA
131 TTACCCTACTACTTAGGGAGATAAGGCTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAAA
4671396 TAAGATCTGAAATTTTCAGCCTATTACTCTACTGCTTATAGGGGTTAAGGCTCACTGTCTTCGAT
196 TAAGATCTGAAATTTTCAGCCTATTACTCTACTGCTTATAGGGGTTAAGGCTCACTGTCTTCGAT
4671461 CTGCT
261 CTGCT
*
4671466 CCACTACTGCTTAAGGAGATAAGATCTGTAATTTTC-AGCCTGTTACCCTACTACTTAGGGGGTT
1 CCACTACTGCTTAAGGAGATAAGATCTGTAA-TTTCAAGCCTGTTACCCTACTACTTAGGGGGAT
4671530 AAGGCTCACTGTCTTCAATCCGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAGCCT
65 AAGGCTCACTGTCTTCAATCCGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAGCCT
**
4671595 GTTACTTTACTACTTAGGG-GAATAAGGCTCA-TCGTCTTCGATCTGCTCCACTACTGCTTAGGG
130 GTTACCCTACTACTTAGGGAG-ATAAGGCTCACT-GTCTTCGATCTGCTCCACTACTGCTTAGGG
* *
4671658 AGATAATATCTGAAATTTTCAG
193 AAATAAGATCTGAAATTTTCAG
4671680 TCTGCTTCTT
Statistics
Matches: 195, Mismatches: 16, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
264 2 0.01
265 189 0.97
266 4 0.02
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (265 bp):
CCACTACTGCTTAAGGAGATAAGATCTGTAATTTCAAGCCTGTTACCCTACTACTTAGGGGGATA
AGGCTCACTGTCTTCAATCCGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAGCCTG
TTACCCTACTACTTAGGGAGATAAGGCTCACTGTCTTCGATCTGCTCCACTACTGCTTAGGGAAA
TAAGATCTGAAATTTTCAGCCTATTACTCTACTGCTTATAGGGGTTAAGGCTCACTGTCTTCGAT
CTGCT
Found at i:4671684 original size:44 final size:43
Alignment explanation
Indices: 4671201--4671685 Score: 125
Period size: 44 Copynumber: 11.0 Consensus size: 43
4671191 TCAATTTGAG
* * * *
4671201 CCACTACTGCTTAGGGAGATATGATCTGTAA-TTTCAAGCCTGTTT
1 CCACTACTGCTTAGGGAGATA-AATCTGAAATTTTC-AGTCTG-CT
* ** * *
4671246 CC-CTACTGCTTAGGGGGATAAGGCT-CACTGTCTTC-GATCTGCT
1 CCACTACTGCTTAGGGAGATAAATCTGAAAT-T-TTCAG-TCTGCT
* * *
4671289 CCACTACTGCTTAGGGAGATAAGATCTGTAATTTTCAGCCTGTT
1 CCACTACTGCTTAGGGAGATAA-ATCTGAAATTTTCAGTCTGCT
* ** * * *
4671333 ACC-CTACTGCTTAGGGAGTTAAGGCT-CACTGTCTTC-GATTTGCT
1 -CCACTACTGCTTAGGGAGATAAATCTGAAAT-T-TTCAG-TCTGCT
* * **
4671377 CCACTACTGCTTAGGGAAATAAGATCTGAAATTTTCAGCCTATT
1 CCACTACTGCTTAGGGAGATAA-ATCTGAAATTTTCAGTCTGCT
* * * ** * *
4671421 ACTCTACTGCTTATAGGG-GTTAAGGCT-CACTGTCTTC-GATCTGCT
1 CCACTACTGC-T-TAGGGAGATAAATCTGAAAT-T-TTCAG-TCTGCT
* * * *
4671466 CCACTACTGCTTAAGGAGATAAGATCTGTAATTTTCAGCCTGTT
1 CCACTACTGCTTAGGGAGATAA-ATCTGAAATTTTCAGTCTGCT
* * * ** * * * *
4671510 ACC-CTACTACTTAGGGGGTTAAGGCT-CACTGTCTTCAATCCGCT
1 -CCACTACTGCTTAGGGAGATAAATCTGAAAT-T-TTCAGTCTGCT
* * * * *
4671554 CCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAGCCTGTT
1 CCACTACTGCTTAGGGAGATAA-ATCTGAAATTTTCAGTCTGCT
* ** * ** * ** *
4671598 ACTTTACTACTTAGGG-GAATAAGGCTCATCGTCTTC-GATCTGCT
1 CCACTACTGCTTAGGGAG-ATAAATCTGA-AATTTTCAG-TCTGCT
4671642 CCACTACTGCTTAGGGAGATAATATCTGAAATTTTCAGTCTGCT
1 CCACTACTGCTTAGGGAGATAA-ATCTGAAATTTTCAGTCTGCT
4671686 TCTTTGCTAC
Statistics
Matches: 305, Mismatches: 98, Indels: 75
0.64 0.21 0.16
Matches are distributed among these distances:
42 5 0.02
43 27 0.09
44 214 0.70
45 46 0.15
46 13 0.04
ACGTcount: A:0.24, C:0.23, G:0.20, T:0.33
Consensus pattern (43 bp):
CCACTACTGCTTAGGGAGATAAATCTGAAATTTTCAGTCTGCT
Found at i:4671815 original size:133 final size:133
Alignment explanation
Indices: 4671657--4671931 Score: 433
Period size: 133 Copynumber: 2.1 Consensus size: 133
4671647 ACTGCTTAGG
* * * *
4671657 GAGATAATATCTGAAATTTTCAGTCTGCTTCTTTGCTACCTCAGGAAGATAAGAGTTGTATCTTC
1 GAGATAAGATCTGAAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTC
* ** * *
4671722 GACTTGCTTTCTTGCTACCTCAGAGAGATAAGGCAGGTGGCTAAAATCTGTTCCATAGCCGATAC
66 CACCGGCTTTCTTGCTACCTCAGAGAGATAACGCAGGTGGCTAAAATCTGCTCCATAGCCGATAC
4671787 ATA
131 ATA
*
4671790 GAGATAAGATCTGTAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTC
1 GAGATAAGATCTGAAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTC
* *
4671855 CACCGGCTTTCTTGCTACCTCAGAGAGATAACGCCGGTGGCTAAAATCTGCTCCATAGTCGATAC
66 CACCGGCTTTCTTGCTACCTCAGAGAGATAACGCAGGTGGCTAAAATCTGCTCCATAGCCGATAC
*
4671920 ATG
131 ATA
4671923 GAGATAAGA
1 GAGATAAGA
4671932 CTCACCATTT
Statistics
Matches: 129, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
133 129 1.00
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.31
Consensus pattern (133 bp):
GAGATAAGATCTGAAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTC
CACCGGCTTTCTTGCTACCTCAGAGAGATAACGCAGGTGGCTAAAATCTGCTCCATAGCCGATAC
ATA
Found at i:4671987 original size:178 final size:178
Alignment explanation
Indices: 4671767--4672935 Score: 1316
Period size: 178 Copynumber: 6.4 Consensus size: 178
4671757 GGTGGCTAAA
* * * *
4671767 ATCTGTTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTACTTCCTTGCTACCTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTT
* * * * *
4671832 AGGAAGATAAGACTTGTATCTTCCACCGGCTTTCTTGCTACCTCAGAGAGATAACGCCGGTGGCT
66 AAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCT
**
4671897 AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCACCATTTTTA
131 AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCACCATTTTCG
*
4671945 ATCTGCTCCATAGCCGATACATGGAGATAATATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTT
** * * *
4672010 AAGAAGATAA-AGCCGGTGTCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGC
66 AAGAAGATAAGA-CTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGC
*
4672074 TAAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCGCCATTTTCG
130 TAAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCACCATTTTCG
* * * * **
4672123 ATCTGCTCCATAGCC-ATTTCTGATCTGCTACAT-AGCCAATACATGGAGATAAGATCTA-TAAC
1 ATCTGCTCCATAGCCGA-TAC--A--TG-GAGATAAG---AT-C-TGTA-AT--TTTC-AGT--C
* * * *
4672185 TTTCAGTCTGCTTCCTTCCTACCTTAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTA
49 -TGC--T-TCCTTGCTA----CCTTAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTA
* * *
4672250 CCTAAGAGAGATAAGGCTGTTGGCTAAAATCTGCTCCATAG-CTGATACATGGAGATAAGACTCA
106 CCTCAGAGAGATAAGGCCGGTGGCTAAAATCTGCTCCATAGTC-GATACATGGAGATAAGACTCA
4672314 CCATTTTCG
170 CCATTTTCG
* * * *
4672323 ATCTACTCCATAGCTGATACATGGAAATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTT
* * * * * * *
4672388 AGGAAGATAA-AGTCGGTGTCTTCAACCTGCTCTCCTGCTACCTCATAGAGATAAGGCCAGTGGC
66 AAGAAGATAAGACT-TGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGC
* * **
4672452 TAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTT
130 TAAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCACCATTTTCG
* * *
4672501 ATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTTAGTCTGCTTCCTTGCTACCTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTT
* * * * *
4672566 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACATTAGAGAGATAATGCTGGTGGCT
66 AAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCT
* **
4672631 AAAATCTGCGCCATAGTCGATACATGGAGATAAGACTCATGATTTTCG
131 AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCACCATTTTCG
* ** * *
4672679 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGCCTATTATCC-TACT-GCT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCT-TCCTTGCTACCT
* * * * * * *
4672742 TAAG-AGATTAAGGCTCGTATCTTCAACCTACTCTCCTACTACCTCAGAGAGATAAGACCAGTGG
65 TAAGAAGA-TAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGG
* *
4672806 CTAAGATCTGCTCCATAG-CTGATACATGGAGACAAGACTCACCATTTTCG
129 CTAAAATCTGCTCCATAGTC-GATACATGGAGATAAGACTCACCATTTTCG
*
4672856 ATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAA-TTTCTAGTCTGCTTCCTTGCTACCT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTC-AGTCTGCTTCCTTGCTACCT
*
4672920 TAAGAAGATAAAACTT
65 TAAGAAGATAAGACTT
4672936 AAATTCACCG
Statistics
Matches: 833, Mismatches: 117, Indels: 82
0.81 0.11 0.08
Matches are distributed among these distances:
176 11 0.01
177 142 0.17
178 487 0.58
179 9 0.01
180 1 0.00
182 9 0.01
183 4 0.00
185 4 0.00
186 2 0.00
187 4 0.00
188 5 0.01
190 5 0.01
191 4 0.00
192 2 0.00
193 4 0.00
195 4 0.00
196 10 0.01
198 1 0.00
199 1 0.00
200 122 0.15
201 2 0.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (178 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTT
AAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCCGGTGGCT
AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCACCATTTTCG
Found at i:4672084 original size:44 final size:45
Alignment explanation
Indices: 4671991--4672085 Score: 106
Period size: 44 Copynumber: 2.2 Consensus size: 45
4671981 TAATTTTCAG
* **
4671991 TCTGCT-TCCTTGCTACCTTAAGAAGATAAAGCCGGTGTCTTCAA
1 TCTGCTCTCCTTGCTACCTTAAGAAGATAAAGCCGGTGGCTAAAA
* * *
4672035 CCTGCTCT-CTTGCTACCTT-AGAGAGATAAGGCTGGTGGCTAAAA
1 TCTGCTCTCCTTGCTACCTTAAGA-AGATAAAGCCGGTGGCTAAAA
4672079 TCTGCTC
1 TCTGCTC
4672086 CATAGTCGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
43 3 0.07
44 38 0.90
45 1 0.02
ACGTcount: A:0.23, C:0.25, G:0.21, T:0.31
Consensus pattern (45 bp):
TCTGCTCTCCTTGCTACCTTAAGAAGATAAAGCCGGTGGCTAAAA
Found at i:4672141 original size:22 final size:22
Alignment explanation
Indices: 4672113--4672160 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
4672103 GATAAGACTC
*
4672113 GCCATTT-TCGATCTGCTCCATA
1 GCCATTTCT-GATCTGCTACATA
4672135 GCCATTTCTGATCTGCTACATA
1 GCCATTTCTGATCTGCTACATA
4672157 GCCA
1 GCCA
4672161 ATACATGGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
22 23 0.96
23 1 0.04
ACGTcount: A:0.21, C:0.31, G:0.15, T:0.33
Consensus pattern (22 bp):
GCCATTTCTGATCTGCTACATA
Found at i:4672288 original size:200 final size:200
Alignment explanation
Indices: 4671936--4672336 Score: 635
Period size: 200 Copynumber: 2.0 Consensus size: 200
4671926 ATAAGACTCA
* * * * * *
4671936 CCATTTTTAATCTGCTCCATAGCCGATACATGGAGATAATATCTGTAATTTTCAGTCTGCTTCCT
1 CCATTTCTAATCTGCTACATAGCCAATACATGGAGATAAGATCTATAACTTTCAGTCTGCTTCCT
* * *
4672001 TGCTACCTTAAGAAGATAAAGCCGGTGTCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGG
66 TCCTACCTTAAGAAGATAAAGCCGGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAAGG
* *
4672066 CTGGTGGCTAAAATCTGCTCCATAG-TCGATACATGGAGATAAGACTCGCCATTTTCGATCTGCT
131 CTGGTGGCTAAAATCTGCTCCATAGCT-GATACATGGAGATAAGACTCACCATTTTCGATCTACT
4672130 CCATAG
195 CCATAG
*
4672136 CCATTTCTGATCTGCTACATAGCCAATACATGGAGATAAGATCTATAACTTTCAGTCTGCTTCCT
1 CCATTTCTAATCTGCTACATAGCCAATACATGGAGATAAGATCTATAACTTTCAGTCTGCTTCCT
**
4672201 TCCTACCTTAAGAAGAT-AAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAAG
66 TCCTACCTTAAGAAGATAAAG-CCGGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAAG
*
4672265 GCTGTTGGCTAAAATCTGCTCCATAGCTGATACATGGAGATAAGACTCACCATTTTCGATCTACT
130 GCTGGTGGCTAAAATCTGCTCCATAGCTGATACATGGAGATAAGACTCACCATTTTCGATCTACT
4672330 CCATAG
195 CCATAG
4672336 C
1 C
4672337 TGATACATGG
Statistics
Matches: 184, Mismatches: 15, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
199 3 0.02
200 180 0.98
201 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.17, T:0.31
Consensus pattern (200 bp):
CCATTTCTAATCTGCTACATAGCCAATACATGGAGATAAGATCTATAACTTTCAGTCTGCTTCCT
TCCTACCTTAAGAAGATAAAGCCGGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAAGG
CTGGTGGCTAAAATCTGCTCCATAGCTGATACATGGAGATAAGACTCACCATTTTCGATCTACTC
CATAG
Found at i:4672476 original size:378 final size:369
Alignment explanation
Indices: 4671767--4672935 Score: 1484
Period size: 378 Copynumber: 3.2 Consensus size: 369
4671757 GGTGGCTAAA
* * *
4671767 ATCTGTTCCATAGCCGATACATAGAGATAAGATCTGTAATTTTCAGTCTACTTCCTTGCTACCTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTC
* * * * *
4671832 AGGAAGATAAGACTTGTATCTTCCACCGGCTTTCTTGCTACCTCAGAGAGATAACGCCGGTGGCT
66 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAACGCTGGTGGCT
**
4671897 AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCACCATTTTTAATCTGCTCCATAGCCGA
131 AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCACCATTTTCGATCTGCTCCATAGCCGA
* *
4671962 TACATGGAGATAATATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTTAAGAAGATAAAGCCGGT
196 TACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTTAAGAAGATAAAGTCGGT
* * ** *
4672027 GTCTTCAACCTGCTCTCTTGCTACCTTAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATAGT
261 GTCTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCTGCTCCATAGC
4672092 CGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAG
326 CGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAG
* * *
4672136 CCATTTCTGATCTGCTACATAGCCAATACATGGAGATAAGATCTATAACTTTCAGTCTGCTTCCT
1 --A--TCTG--CT-C--CATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCT
* * * *
4672201 TCCTACCTTAAGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAAGG
57 TGCTACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAACG
* *
4672266 CTGTTGGCTAAAATCTGCTCCATAG-CTGATACATGGAGATAAGACTCACCATTTTCGATCTACT
122 CTGGTGGCTAAAATCTGCTCCATAGTC-GATACATGGAGATAAGACTCACCATTTTCGATCTGCT
* * * *
4672330 CCATAGCTGATACATGGAAATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGA
186 CCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTTAAGAAGA
*
4672395 TAAAGTCGGTGTCTTCAACCTGCTCTCCTGCTACCTCATAGAGATAAGGCCAGTGGCTAAAATCT
251 TAAAGTCGGTGTCTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCT
4672460 GCTCCATAGCCGATACATGGAGATAAGACTCGCCA--TT---T-T--T---T--
316 GCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAG
* *
4672501 ATCTGCTCCATAGTCGATACATGGAGATAAGATCTGTAATTTTTAGTCTGCTTCCTTGCTACCTC
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTC
* * *
4672566 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACATTAGAGAGATAATGCTGGTGGCT
66 AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAACGCTGGTGGCT
* **
4672631 AAAATCTGCGCCATAGTCGATACATGGAGATAAGACTCATGATTTTCGATCTGCTCCATAGCCGA
131 AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCACCATTTTCGATCTGCTCCATAGCCGA
* ** * * *
4672696 TACATGGAGATAAGATCTGTAATTTTCAGCCTATTATCC-TACT-GCTTAAG-AGATTAAGGCTC
196 TACATGGAGATAAGATCTGTAATTTTCAGTCTGCT-TCCTTGCTACCTTAAGAAGA-TAAAG-TC
* * * * *
4672758 -GTATCTTCAACCTACTCTCCTACTACCTCAGAGAGATAAGACCAGTGGCTAAGATCTGCTCCAT
258 GGTGTCTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCTGCTCCAT
* * *
4672822 AGCTGATACATGGAGACAAGACTCACCATTTTCGATCTGCTCCAT--
323 AGCCGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAG
4672867 A---G-----T---CGATACATGGAGATAAGATCTGTAA-TTTCTAGTCTGCTTCCTTGCTACCT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTC-AGTCTGCTTCCTTGCTACCT
* * *
4672920 TAAGAAGATAAAACTT
65 CAGGAAGATAAGACTT
4672936 AAATTCACCG
Statistics
Matches: 704, Mismatches: 70, Indels: 64
0.84 0.08 0.08
Matches are distributed among these distances:
354 6 0.01
355 149 0.21
356 204 0.29
357 6 0.01
358 2 0.00
359 2 0.00
360 1 0.00
361 5 0.01
363 3 0.00
366 2 0.00
367 1 0.00
370 1 0.00
371 1 0.00
372 1 0.00
373 5 0.01
375 1 0.00
376 3 0.00
377 1 0.00
378 310 0.44
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (369 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTC
AGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACCTAAGAGAGATAACGCTGGTGGCT
AAAATCTGCTCCATAGTCGATACATGGAGATAAGACTCACCATTTTCGATCTGCTCCATAGCCGA
TACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTTAAGAAGATAAAGTCGGT
GTCTTCAACCTGCTCTCCTGCTACCTCAGAGAGATAAGGCCAGTGGCTAAAATCTGCTCCATAGC
CGATACATGGAGATAAGACTCGCCATTTTCGATCTGCTCCATAG
Found at i:4672543 original size:45 final size:44
Alignment explanation
Indices: 4672456--4672552 Score: 133
Period size: 45 Copynumber: 2.2 Consensus size: 44
4672446 AGTGGCTAAA
*
4672456 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTCG-CAATTTTT
* *
4672501 ATCTGCTCCATAGTCGATACATGGAGATAAGA-TCTGTAATTTTT
1 ATCTGCTCCATAGCCGATACATGGAGATAAGACTC-GCAATTTTT
4672545 AGTCTGCT
1 A-TCTGCT
4672553 TCCTTGCTAC
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
44 9 0.19
45 38 0.81
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.34
Consensus pattern (44 bp):
ATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCAATTTTT
Found at i:4679770 original size:15 final size:15
Alignment explanation
Indices: 4679746--4679791 Score: 65
Period size: 15 Copynumber: 2.9 Consensus size: 15
4679736 ATATAAATAG
*
4679746 AAATAAAAATATAAT
1 AAATAGAAATATAAT
4679761 AAATAGAAATATAAT
1 AAATAGAAATATAAT
4679776 AATAGTAGAAATATAA
1 AA-A-TAGAAATATAA
4679792 ATAGATAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
15 16 0.57
16 1 0.04
17 11 0.39
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (15 bp):
AAATAGAAATATAAT
Found at i:4679792 original size:29 final size:29
Alignment explanation
Indices: 4679759--4679875 Score: 85
Period size: 29 Copynumber: 4.0 Consensus size: 29
4679749 TAAAAATATA
*
4679759 ATAAATAGAAATATAATAATAGTAGAAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
* * * *
4679788 ATAAATAGATAA-ATAAAAATTAGATAAAT
1 ATAAATAGA-AATATAATAATAATAGAAAT
* * * * * *
4679817 A-ATAATAGTATTAGAATAACAAAATAAAT
1 ATA-AATAGAAATATAATAATAATAGAAAT
* *
4679846 ATAAATAGAAACATAATAATAATAGTAAT
1 ATAAATAGAAATATAATAATAATAGAAAT
4679875 A
1 A
4679876 ATATATTAAA
Statistics
Matches: 64, Mismatches: 20, Indels: 8
0.70 0.22 0.09
Matches are distributed among these distances:
28 2 0.03
29 59 0.92
30 3 0.05
ACGTcount: A:0.63, C:0.02, G:0.08, T:0.27
Consensus pattern (29 bp):
ATAAATAGAAATATAATAATAATAGAAAT
Found at i:4679794 original size:44 final size:44
Alignment explanation
Indices: 4679740--4679826 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 44
4679730 ATTAGTATAT
4679740 AAATAGAAATA-A-AAATATAATAAATAGA-AATATAATAATAGTAG
1 AAATAGAAATAGATAAATA-AA-AAATAGATAA-ATAATAATAGTAG
* *
4679784 AAATATAAATAGATAAATAAAAATTAGATAAATAATAATAGTA
1 AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTA
4679827 TTAGAATAAC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
44 28 0.74
45 5 0.13
46 5 0.13
ACGTcount: A:0.66, C:0.00, G:0.08, T:0.26
Consensus pattern (44 bp):
AAATAGAAATAGATAAATAAAAAATAGATAAATAATAATAGTAG
Found at i:4679811 original size:15 final size:14
Alignment explanation
Indices: 4679738--4679854 Score: 62
Period size: 15 Copynumber: 8.1 Consensus size: 14
4679728 ATATTAGTAT
*
4679738 ATAAATAGAAATA-
1 ATAAATAAAAATAG
*
4679751 AAAATATAATAAATAG
1 ATAA-ATAA-AAATAG
*
4679767 A-AATATAATAATAG
1 ATAA-ATAAAAATAG
* *
4679781 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
4679796 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
4679811 ATAAATAATAATAG
1 ATAAATAAAAATAG
*
4679825 TATTAGAATAACAA-A-
1 -A-TA-AATAAAAATAG
*
4679840 ATAAATATAAATAG
1 ATAAATAAAAATAG
4679854 A
1 A
4679855 AACATAATAA
Statistics
Matches: 82, Mismatches: 11, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
12 6 0.07
13 6 0.07
14 22 0.27
15 35 0.43
16 6 0.07
17 7 0.09
ACGTcount: A:0.65, C:0.01, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:4704558 original size:84 final size:84
Alignment explanation
Indices: 4704447--4704615 Score: 338
Period size: 84 Copynumber: 2.0 Consensus size: 84
4704437 GGGATCCTAA
4704447 AACTTCAAATCTCCAAAACAAAAAAACATGGGAAGAATTTGAACATAAATGGAGAACAAGCCAAT
1 AACTTCAAATCTCCAAAACAAAAAAACATGGGAAGAATTTGAACATAAATGGAGAACAAGCCAAT
4704512 CCACTTCTCAAGTCACATT
66 CCACTTCTCAAGTCACATT
4704531 AACTTCAAATCTCCAAAACAAAAAAACATGGGAAGAATTTGAACATAAATGGAGAACAAGCCAAT
1 AACTTCAAATCTCCAAAACAAAAAAACATGGGAAGAATTTGAACATAAATGGAGAACAAGCCAAT
4704596 CCACTTCTCAAGTCACATT
66 CCACTTCTCAAGTCACATT
4704615 A
1 A
4704616 GGATTTCAAT
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
84 85 1.00
ACGTcount: A:0.47, C:0.21, G:0.12, T:0.20
Consensus pattern (84 bp):
AACTTCAAATCTCCAAAACAAAAAAACATGGGAAGAATTTGAACATAAATGGAGAACAAGCCAAT
CCACTTCTCAAGTCACATT
Found at i:4706307 original size:3 final size:3
Alignment explanation
Indices: 4706301--4706497 Score: 80
Period size: 3 Copynumber: 67.7 Consensus size: 3
4706291 TATTATCAAA
** *
4706301 ATT ATT ATT ATT ATT ATT A-T ATT -TGCT ACC ATT ATT ACT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT--T ATT ATT ATT ATT ATT ATT
* ** * * *
4706346 ACTT -TT ATT ACT ACC ACT ATT ATC ATT A-T ATT -TT -TT ATGT TTT
1 A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT
* *
4706389 ATT CATT TTCT ATT ATT ATTT ATT A-T ATT -TT A-T ATT ATT ATT A-G
1 ATT -ATT AT-T ATT ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT
* * * *
4706433 ATT ATT ATT A-G ATT ATT ATT -TT CTT ATT ATT -GT ATT ATT ATT TTCT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT-T
*
4706479 ACT -TT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT AT
4706498 CATCATTACT
Statistics
Matches: 146, Mismatches: 27, Indels: 42
0.68 0.13 0.20
Matches are distributed among these distances:
2 23 0.16
3 109 0.75
4 14 0.10
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:4706438 original size:11 final size:11
Alignment explanation
Indices: 4706400--4706474 Score: 64
Period size: 11 Copynumber: 6.8 Consensus size: 11
4706390 TTCATTTTCT
*
4706400 ATTATTATT-T
1 ATTATTATTAG
* *
4706410 ATTATATTTTAT
1 ATTAT-TATTAG
4706422 ATTATTATTAG
1 ATTATTATTAG
4706433 ATTATTATTAG
1 ATTATTATTAG
**
4706444 ATTATTATTTT
1 ATTATTATTAG
*
4706455 CTTATTATT-G
1 ATTATTATTAG
4706465 TATTATTATT
1 -ATTATTATT
4706475 TTCTACTTTA
Statistics
Matches: 54, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
10 5 0.09
11 43 0.80
12 6 0.11
ACGTcount: A:0.31, C:0.01, G:0.04, T:0.64
Consensus pattern (11 bp):
ATTATTATTAG
Found at i:4706476 original size:22 final size:22
Alignment explanation
Indices: 4706399--4706478 Score: 76
Period size: 22 Copynumber: 3.6 Consensus size: 22
4706389 ATTCATTTTC
*
4706399 TATTATTATTTAT-TATATT-TTA
1 TATTATTATTT-TCT-TATTATTG
***
4706421 TATTATTATTAGATTATTATTAG
1 TATTATTATTTTCTTATTATT-G
4706444 -ATTATTATTTTCTTATTATTG
1 TATTATTATTTTCTTATTATTG
4706465 TATTATTATTTTCT
1 TATTATTATTTTCT
4706479 ACTTTATTAT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
21 5 0.10
22 43 0.90
ACGTcount: A:0.29, C:0.03, G:0.04, T:0.65
Consensus pattern (22 bp):
TATTATTATTTTCTTATTATTG
Found at i:4706711 original size:27 final size:27
Alignment explanation
Indices: 4706655--4706713 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
4706645 ATTTTCATAA
**
4706655 ATTATTATTATCATTATTATTGTTGGT
1 ATTATTATTATCATTATTATTGTTACT
4706682 ATTATTATTATCATTATTA-TGTTTACT
1 ATTATTATTATCATTATTATTG-TTACT
4706709 ATTAT
1 ATTAT
4706714 CCTCTTTTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 2 0.07
27 27 0.93
ACGTcount: A:0.29, C:0.05, G:0.07, T:0.59
Consensus pattern (27 bp):
ATTATTATTATCATTATTATTGTTACT
Found at i:4708173 original size:17 final size:17
Alignment explanation
Indices: 4708151--4708191 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
4708141 TCCGTACCTA
*
4708151 TATCTTCGTGGGATTTT
1 TATCTTCGTGAGATTTT
4708168 TATCTTCGTGAGATTTT
1 TATCTTCGTGAGATTTT
4708185 TATCTTC
1 TATCTTC
4708192 ATGCGGCCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.15, C:0.15, G:0.17, T:0.54
Consensus pattern (17 bp):
TATCTTCGTGAGATTTT
Found at i:4720455 original size:44 final size:43
Alignment explanation
Indices: 4720407--4720926 Score: 188
Period size: 44 Copynumber: 11.7 Consensus size: 43
4720397 AATTCACAAC
* *
4720407 CTTATCTCTCTGAGGTAGTAAGAGAACAGGTTGAAGATTGAAGT
1 CTTATCTCTCTGAGGTAGTAAG-GAGCAGATTGAAGATTGAAGT
* * * *
4720451 CTTATCTTTCTGGGGTAGTAAGGAAGCAGACTGAGGATTGAAGAT
1 CTTATCTCTCTGAGGTAGTAAGG-AGCAGATTGAAGATTGAAG-T
* *
4720496 CTTATCTC-CATGAGGTAGCAATGGAGCAGATCGAAGATGGTGAA-T
1 CTTATCTCTC-TGAGGTAGTAA-GGAGCAGATTGAAGAT--TGAAGT
* * * ** * *
4720541 CTTATCT-TCCCGAGGTAGTAGGGGAGTAGATTTTAG--TCATAGC
1 CTTATCTCT-CTGAGGTAGTA-AGGAGCAGATTGAAGATTGA-AGT
* * *
4720584 CTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGT
1 CTTATCTCTCTGAGGTAGTAAG-GAGCAGATTGAAGATTGAAGT
* ** *
4720628 CTTATCT-TCCTGAGGTAGCAAAAAAGCAGACT-AAGGATTGAAGAT
1 CTTATCTCT-CTGAGGTAG-TAAGGAGCAGATTGAA-GATTGAAG-T
* * ** * *
4720673 CTTATCTCCCTAAGCAGTAGT-A-GAGCAGATCAAATATGGCGAA-T
1 CTTATCTCTCTGAG--GTAGTAAGGAGCAGATTGAAGAT--TGAAGT
* ** ***** *
4720717 CTTATCT-TCTCGAGGTAGCAGAGGAGCAGATTTTAGCCACCAGC
1 CTTATCTCTCT-GAGGTAGTA-AGGAGCAGATTGAAGATTGAAGT
** * *
4720761 CTTATCTCTCTGAGGTAGCGAGAGAGCAGGTTGAAGATTGTAGT
1 CTTATCTCTCTGAGGTAGTAAG-GAGCAGATTGAAGATTGAAGT
* * * *
4720805 CTTATCT-TCCTGAGATAGTAAGGAAGCAGACTGAATATTGTAGAT
1 CTTATCTCT-CTGAGGTAGTAAGG-AGCAGATTGAAGATTGAAG-T
* * * * * *
4720850 CTTATCTC-CATTAGGTAGCAATAGAGCAAATCGAAGATGGCGAA-T
1 CTTATCTCTC-TGAGGTAGTAA-GGAGCAGATTGAAGAT--TGAAGT
*
4720895 CTTATCTC-CTTGAGGTAGCAAGGGAGCAGATT
1 CTTATCTCTC-TGAGGTAGTAA-GGAGCAGATT
4720927 TAAGCCACTA
Statistics
Matches: 346, Mismatches: 90, Indels: 79
0.67 0.17 0.15
Matches are distributed among these distances:
41 2 0.01
42 6 0.02
43 35 0.10
44 148 0.43
45 138 0.40
46 7 0.02
47 10 0.03
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (43 bp):
CTTATCTCTCTGAGGTAGTAAGGAGCAGATTGAAGATTGAAGT
Found at i:4720764 original size:177 final size:177
Alignment explanation
Indices: 4720406--4721000 Score: 718
Period size: 177 Copynumber: 3.4 Consensus size: 177
4720396 GAATTCACAA
* * * *
4720406 CCTTATCTCTCTGAGGTAGTAAGAGAACAGGTTGAAGATTGAAGTCTTATCTTTCTGGGGTAGTA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGTA
* *
4720471 AGGAAGCAGACTGAGGATTGAAGATCTTATCTCCATGAGGTAGCAATGGAGCAGATCGAAGATGG
66 AGGAAGCAGACTAAGGATTGAAGATCTTATCTCCAT-AGGTAGCAATAGAGCAGATCGAAGATGG
* * * * * *
4720536 TGAATCTTATCTTCCCGAGGTAGTAGGGGAGTAGATTTTAGTCA-TAG
130 CGAATCTTATCTTCTCGAGGTAGCAGAGGAGCAGATTTTAGCCACTAG
* *
4720583 CCTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGTA
** * * * * * * *
4720648 AAAAAGCAGACTAAGGATTGAAGATCTTATCTCCCTAAGCAGTAGTAGAGCAGATCAAATATGGC
66 AGGAAGCAGACTAAGGATTGAAGATCTTATCTCCATAGGTAGCAATAGAGCAGATCGAAGATGGC
*
4720713 GAATCTTATCTTCTCGAGGTAGCAGAGGAGCAGATTTTAGCCACCAG
131 GAATCTTATCTTCTCGAGGTAGCAGAGGAGCAGATTTTAGCCACTAG
* * *
4720760 CCTTATCTCTCTGAGGTAGCGAGAGAGCAGGTTGAAGATTGTAGTCTTATCTTCCTGAGATAGTA
1 CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGTA
* * *
4720825 AGGAAGCAGACTGAA-TATTGTAGATCTTATCTCCATTAGGTAGCAATAGAGCAAATCGAAGATG
66 AGGAAGCAGACT-AAGGATTGAAGATCTTATCTCCA-TAGGTAGCAATAGAGCAGATCGAAGATG
* * *
4720889 GCGAATCTTATCTCCTTGAGGTAGCA-AGGGAGCAGATTTAAGCCACTAG
129 GCGAATCTTATCTTCTCGAGGTAGCAGA-GGAGCAGATTTTAGCCACTAG
* * * * * *
4720938 CCTTGTCT-TCCTGA-GCAGC-AGTAGAGCAAGCTGAAGATTGTAGATATTATC-TCCATGAGGT
1 CCTTATCTCT-CTGAGGTAGCAAG-AGAGCAGGTTGAAGATTGAAG-TCTTATCTTCC-TGAGGT
4720999 AG
62 AG
4721001 CAATGTAGCA
Statistics
Matches: 359, Mismatches: 51, Indels: 15
0.84 0.12 0.04
Matches are distributed among these distances:
176 61 0.17
177 208 0.58
178 90 0.25
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (177 bp):
CCTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGTA
AGGAAGCAGACTAAGGATTGAAGATCTTATCTCCATAGGTAGCAATAGAGCAGATCGAAGATGGC
GAATCTTATCTTCTCGAGGTAGCAGAGGAGCAGATTTTAGCCACTAG
Found at i:4721073 original size:133 final size:134
Alignment explanation
Indices: 4720835--4721133 Score: 362
Period size: 133 Copynumber: 2.2 Consensus size: 134
4720825 AGGAAGCAGA
* * * *
4720835 CTGAATATTGTAGATCTTATCTCCATTAGGTAGCAATAGAGCAAATCGAAGATGGCGAATCTTAT
1 CTGAAGATTGTAGATATTATCTCCATGAGGTAGCAATAGAGCAAATCGAAGACGGCGAATCTTAT
* * ** *
4720900 CTCCTTGAGGTAGCAAGGGAGCAGATTTAAGCCACTAGCCTTGTCT-TCCTGA-GCAGCAGTA-G
66 CTCCTTGAAGTAGCAAGGGAGCAGATCTAAGCCACTAGCCTCATCTCT-CTGAGGCAGCA-AAGG
4720962 AGCAAG
129 AGCAAG
* *
4720968 CTGAAGATTGTAGATATTATCTCCATGAGGTAGCAAT-GTAGCAGATCGAAGACGGTGAATCTTA
1 CTGAAGATTGTAGATATTATCTCCATGAGGTAGCAATAG-AGCAAATCGAAGACGGCGAATCTTA
*
4721032 TCTTCC-TGAAGTAGCAAGGGAGCAGATCTAAGCCA-TCAGCCTCATCTCTCTGAGGTAGCAAAG
65 TC-TCCTTGAAGTAGCAAGGGAGCAGATCTAAGCCACT-AGCCTCATCTCTCTGAGGCAGCAAAG
*
4721095 GAGCAGG
128 GAGCAAG
*
4721102 CTGAAGATTGTAG-TTTTATCTTCC-TGAGGTAG
1 CTGAAGATTGTAGATATTATC-TCCATGAGGTAG
4721134 TAAGGGGGCA
Statistics
Matches: 145, Mismatches: 14, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
132 2 0.01
133 112 0.77
134 31 0.21
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (134 bp):
CTGAAGATTGTAGATATTATCTCCATGAGGTAGCAATAGAGCAAATCGAAGACGGCGAATCTTAT
CTCCTTGAAGTAGCAAGGGAGCAGATCTAAGCCACTAGCCTCATCTCTCTGAGGCAGCAAAGGAG
CAAG
Found at i:4723395 original size:23 final size:20
Alignment explanation
Indices: 4723346--4723414 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 20
4723336 CATTTTCCAT
*
4723346 CTCCTTCTTTATCAGTCCTC
1 CTCCTTCTTCATCAGTCCTC
4723366 CTCCTTCTTCATCAGTCCAT-
1 CTCCTTCTTCATCAGTCC-TC
* * * *
4723386 CTCATTCTTCTTCATTCCTT
1 CTCCTTCTTCATCAGTCCTC
4723406 CTCCTTCTT
1 CTCCTTCTT
4723415 TTGTTCTTCA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
19 1 0.02
20 40 0.95
21 1 0.02
ACGTcount: A:0.10, C:0.39, G:0.03, T:0.48
Consensus pattern (20 bp):
CTCCTTCTTCATCAGTCCTC
Found at i:4726848 original size:7 final size:7
Alignment explanation
Indices: 4726836--4726866 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
4726826 TCACATGTAC
4726836 TTTAAAA
1 TTTAAAA
4726843 TTTAAAA
1 TTTAAAA
4726850 TTTAAAA
1 TTTAAAA
4726857 TTTAAAA
1 TTTAAAA
4726864 TTT
1 TTT
4726867 TAATCCTACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (7 bp):
TTTAAAA
Found at i:4737723 original size:21 final size:21
Alignment explanation
Indices: 4737677--4737723 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
4737667 TTTTCATTTA
*
4737677 ATTAGTATTAAACATTCTTTT
1 ATTAATATTAAACATTCTTTT
* *
4737698 A-TAATATTTAACATTTTTTT
1 ATTAATATTAAACATTCTTTT
4737718 ATTAAT
1 ATTAAT
4737724 GTAGCACATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.36, C:0.06, G:0.02, T:0.55
Consensus pattern (21 bp):
ATTAATATTAAACATTCTTTT
Found at i:4741570 original size:25 final size:25
Alignment explanation
Indices: 4741540--4741588 Score: 98
Period size: 25 Copynumber: 2.0 Consensus size: 25
4741530 GATACTCTTT
4741540 ATCTTCTTTTCATTATATATTTTTA
1 ATCTTCTTTTCATTATATATTTTTA
4741565 ATCTTCTTTTCATTATATATTTTT
1 ATCTTCTTTTCATTATATATTTTT
4741589 TTGATACAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.65
Consensus pattern (25 bp):
ATCTTCTTTTCATTATATATTTTTA
Found at i:4742295 original size:26 final size:26
Alignment explanation
Indices: 4742266--4742315 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
4742256 ATAATTTTTA
4742266 TATTATTTATT-TTTATAAATATTAGT
1 TATTATTT-TTATTTATAAATATTAGT
*
4742292 TATTATTTTTATTTATATATATTA
1 TATTATTTTTATTTATAAATATTA
4742316 TCCATTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 20 0.91
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (26 bp):
TATTATTTTTATTTATAAATATTAGT
Found at i:4742316 original size:22 final size:22
Alignment explanation
Indices: 4742264--4742316 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
4742254 AAATAATTTT
4742264 TATATTATTTATTTTTATAAATA
1 TATATTA-TTATTTTTATAAATA
**
4742287 T-TAGTTATTATTTTTATTTATA
1 TATA-TTATTATTTTTATAAATA
4742309 TATATTAT
1 TATATTAT
4742317 CCATTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
TATATTATTATTTTTATAAATA
Found at i:4742322 original size:26 final size:26
Alignment explanation
Indices: 4742267--4742323 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
4742257 TAATTTTTAT
*
4742267 ATTATTTATTTTTATAAATATTAGTT
1 ATTATTTATTTTTATAAATATTAGTC
*
4742293 ATTATTT-TTATTTATATATATTA-TCC
1 ATTATTTATT-TTTATAAATATTAGT-C
4742319 ATTAT
1 ATTAT
4742324 ATTAAATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 3 0.11
26 24 0.89
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.61
Consensus pattern (26 bp):
ATTATTTATTTTTATAAATATTAGTC
Found at i:4742371 original size:12 final size:12
Alignment explanation
Indices: 4742354--4742396 Score: 70
Period size: 12 Copynumber: 3.7 Consensus size: 12
4742344 ATCTATAAAT
4742354 TATATTTTATTA
1 TATATTTTATTA
*
4742366 TATATTTCATTA
1 TATATTTTATTA
4742378 TATATTTTA-TA
1 TATATTTTATTA
4742389 TATATTTT
1 TATATTTT
4742397 GTGCATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 10 0.34
12 19 0.66
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (12 bp):
TATATTTTATTA
Found at i:4744681 original size:33 final size:33
Alignment explanation
Indices: 4744639--4744704 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
4744629 CTTGATCAAG
4744639 TAAGAGAAAATCAATACAATTCATACTCAATGT
1 TAAGAGAAAATCAATACAATTCATACTCAATGT
*
4744672 TAAGAGAAAATCAATACAATTCATACTTAATGT
1 TAAGAGAAAATCAATACAATTCATACTCAATGT
4744705 AATTATTATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.48, C:0.14, G:0.09, T:0.29
Consensus pattern (33 bp):
TAAGAGAAAATCAATACAATTCATACTCAATGT
Found at i:4746294 original size:182 final size:179
Alignment explanation
Indices: 4745955--4746297 Score: 474
Period size: 182 Copynumber: 1.9 Consensus size: 179
4745945 CTAATGAACT
* *
4745955 TGAATTTTGGGTTGTTTGATCAAGTAAGGGAAATTTGATGAAATTCATATTCAATGTAATTATTA
1 TGAATTTTGGGTTGTTGGATCAAGTAAGGGAAATTCGATGAAATTCATATTCAATGTAATTATTA
* * *
4746020 TTTATTCTCACTATTACGAGGATAGCTCAGTTAGGAGAGCATCAGATGGAAGATCTAAAGGTCAC
66 TTTATTATCACAATTACGAGGATAGCTCAGTTAGGAGAGCATCAAATGGAAGATCTAAAGGTCAC
* **
4746085 GTGTTTGATCCACGTTCATTGCATTTTAAAACATAAAGGAGAGTGTACA
131 GTGTTTGATCCAAGTTCATCACATTTTAAAACATAAAGGAGAGTGTACA
*
4746134 TGAATTTTGGGTTGTTGGATCAAGTAAGGGAAATTCGATTG-AATTCATCCTT-AATGTAATTAT
1 TGAATTTTGGGTTGTTGGATCAAGTAAGGGAAATTCGA-TGAAATTCAT-ATTCAATGTAATTAT
* ** * * * * *
4746197 TATTAATTTTAATCACAATTGTGAGGATAGCTCAGTTGGGAGAGCGTCAAATTGATGATCTAATG
64 TATT--TATT-ATCACAATTACGAGGATAGCTCAGTTAGGAGAGCATCAAATGGAAGATCTAAAG
4746262 GTCACGTGTTTGATCCAAGTTCATCACATTTTAAAA
126 GTCACGTGTTTGATCCAAGTTCATCACATTTTAAAA
4746298 ATATCGATAA
Statistics
Matches: 142, Mismatches: 17, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
179 58 0.41
180 4 0.03
181 3 0.02
182 77 0.54
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.35
Consensus pattern (179 bp):
TGAATTTTGGGTTGTTGGATCAAGTAAGGGAAATTCGATGAAATTCATATTCAATGTAATTATTA
TTTATTATCACAATTACGAGGATAGCTCAGTTAGGAGAGCATCAAATGGAAGATCTAAAGGTCAC
GTGTTTGATCCAAGTTCATCACATTTTAAAACATAAAGGAGAGTGTACA
Found at i:4746422 original size:21 final size:21
Alignment explanation
Indices: 4746398--4746461 Score: 66
Period size: 21 Copynumber: 3.3 Consensus size: 21
4746388 AGTGCACTTG
4746398 TCATTTAATGTAGTTGAAATA
1 TCATTTAATGTAGTTGAAATA
* * *
4746419 TCATTTAGTGCACTTG-----
1 TCATTTAATGTAGTTGAAATA
4746435 TCATTTAATGTAGTTGAAATA
1 TCATTTAATGTAGTTGAAATA
4746456 TCATTT
1 TCATTT
4746462 TTTAAATATG
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
16 13 0.41
21 19 0.59
ACGTcount: A:0.31, C:0.09, G:0.14, T:0.45
Consensus pattern (21 bp):
TCATTTAATGTAGTTGAAATA
Found at i:4746429 original size:37 final size:37
Alignment explanation
Indices: 4746387--4746461 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
4746377 TAAATATACA
4746387 TAGTGCACTTGTCATTTAATGTAGTTGAAATATCATT
1 TAGTGCACTTGTCATTTAATGTAGTTGAAATATCATT
4746424 TAGTGCACTTGTCATTTAATGTAGTTGAAATATCATT
1 TAGTGCACTTGTCATTTAATGTAGTTGAAATATCATT
4746461 T
1 T
4746462 TTTAAATATG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.44
Consensus pattern (37 bp):
TAGTGCACTTGTCATTTAATGTAGTTGAAATATCATT
Found at i:4747684 original size:47 final size:47
Alignment explanation
Indices: 4747594--4747688 Score: 113
Period size: 47 Copynumber: 2.0 Consensus size: 47
4747584 CTTCATAGTA
* * *
4747594 TTTTTAAAATATCCATACCTAAGTTTTCATTTAATTTAGTTGAATTT
1 TTTTTAAAATATCCATACCTAAGTTATCATTTAATTAACTTGAATTT
* *
4747641 TTTTTAAAATATTCATAGCTTAA-TTATCATTT-ATTGAACTTGAATTT
1 TTTTTAAAATATCCATA-CCTAAGTTATCATTTAATT-AACTTGAATTT
4747688 T
1 T
4747689 GGGTTGTTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
46 3 0.07
47 34 0.83
48 4 0.10
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (47 bp):
TTTTTAAAATATCCATACCTAAGTTATCATTTAATTAACTTGAATTT
Found at i:4749178 original size:304 final size:278
Alignment explanation
Indices: 4749062--4749615 Score: 690
Period size: 285 Copynumber: 2.0 Consensus size: 278
4749052 TTATCCATAG
* * *
4749062 AGGAGAGTGTTAGAGTAAATACTTGAAGGATCACTTGGTCAATTC-ACTTTCACTATA-TTTTTA
1 AGGAGAGTGTTAGACTAAATACTTGAAGGATCACTTGGTCAA-TCAACTTTCACAACATTTTTTA
* *
4749125 GAATATCCATACCTCAATTTTCATTTAATGTAGTTGAAATAACATTCTTAAAATATGCCTAGCTT
65 -AATATCCATACCTCAATGTTCATTTAATGTAGTTGAAATAACATT-TTAAAATATGCATAGCTT
* * * *
4749190 AGTTATCATTTAATGCACTTGAATTTTGTGTTGTTGGATCAAATAAGGGGAATTCGATGCAATTC
128 AGTTATCATTTAAT-AACTTGAATTTTG-GTTGTTCGATCAAGTAAGGGAAATTCGATGCAATTC
*
4749255 ATACTCAATATAATAATAATTATTTTTTACTTATAATTGCGAGGATAG-TTCAGTTGGGAGAGCG
191 ATACTCAATATAAT--T-ATTA-TTTTTACTTATAGTTGCGAGGATAGCTT-AGTTGGGAGAGCG
* *
4749319 TCAGACTGAAGATCTAAAGGTTCCAAAA
251 TCAGAATGAAGATCTAAAAGTTCCAAAA
* *
4749347 AGGAGAGTGTTAGACTAAATACTTGAAGGGTCACTTGGTCGATCAACTTTCACAACATTTTTTAA
1 AGGAGAGTGTTAGACTAAATACTTGAAGGATCACTTGGTCAATCAACTTTCACAACATTTTTTAA
* * * * *
4749412 ATATCCATACCTTAGTGTTCATTTAATGTAGTTGAAATAAAAATTTTAAAATATTCATAGCTT-T
66 ATATCCATACCTCAATGTTCATTTAATGTAGTTGAAAT-AACATTTTAAAATATGCATAGCTTAG
* *
4749476 TTATCATTTACTGAACTTGAATTTT-GTTGTTTGATCAAGTAAGGGAAATTCGATGCAATTCATA
130 TTATCATTTAAT-AACTTGAATTTTGGTTGTTCGATCAAGTAAGGGAAATTCGATGCAATTCATA
* * * * * * *
4749540 CTCAATGTAATTATTTTTTTTACTCACAGTTGCGAGTATAGCTCAGTTGGGAGAGCCTCA-AACT
194 CTCAATATAATTATTATTTTTACTTATAGTTGCGAGGATAGCTTAGTTGGGAGAGCGTCAGAA-T
4749604 GAAGATC-AAAAG
258 GAAGATCTAAAAG
4749616 GTCACGTGTT
Statistics
Matches: 237, Mismatches: 27, Indels: 18
0.84 0.10 0.06
Matches are distributed among these distances:
277 5 0.02
278 44 0.19
279 4 0.02
280 1 0.00
282 46 0.19
284 25 0.11
285 101 0.43
286 11 0.05
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.36
Consensus pattern (278 bp):
AGGAGAGTGTTAGACTAAATACTTGAAGGATCACTTGGTCAATCAACTTTCACAACATTTTTTAA
ATATCCATACCTCAATGTTCATTTAATGTAGTTGAAATAACATTTTAAAATATGCATAGCTTAGT
TATCATTTAATAACTTGAATTTTGGTTGTTCGATCAAGTAAGGGAAATTCGATGCAATTCATACT
CAATATAATTATTATTTTTACTTATAGTTGCGAGGATAGCTTAGTTGGGAGAGCGTCAGAATGAA
GATCTAAAAGTTCCAAAA
Found at i:4750025 original size:11 final size:11
Alignment explanation
Indices: 4749952--4750027 Score: 52
Period size: 11 Copynumber: 6.8 Consensus size: 11
4749942 ATTTCAAAAA
*
4749952 TAATATTATTT
1 TAATATTAATT
4749963 TAATAGTTTAATAT
1 TAATA--TTAAT-T
4749977 TAA-ATTTAATT
1 TAATA-TTAATT
*
4749988 TAATATTTATCT
1 TAATATTAAT-T
*
4750000 TAATAAT-ATT
1 TAATATTAATT
4750010 T--TATTAATT
1 TAATATTAATT
4750019 TAATATTAA
1 TAATATTAA
4750028 AGTGATTGTC
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
8 3 0.06
9 4 0.08
10 2 0.04
11 21 0.40
12 14 0.26
13 5 0.09
14 4 0.08
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (11 bp):
TAATATTAATT
Found at i:4750086 original size:20 final size:18
Alignment explanation
Indices: 4749969--4750094 Score: 69
Period size: 20 Copynumber: 7.3 Consensus size: 18
4749959 ATTTTAATAG
4749969 TTTAATATTAAAT-TTAA
1 TTTAATATTAAATATTAA
* *
4749986 TTTAATATT-TATCTTAA
1 TTTAATATTAAATATTAA
*
4750003 --TAATATT--TTATTAA
1 TTTAATATTAAATATTAA
*
4750017 TTTAATATTAAAGTGATT-G
1 TTTAATATTAAA-T-ATTAA
4750036 TCTTAATATTAAAT-TTAA
1 T-TTAATATTAAATATTAA
*
4750054 --AAATA-T-AATATTAA
1 TTTAATATTAAATATTAA
4750068 TTTAATATTAAAGTGATTAA
1 TTTAATATTAAA-T-ATTAA
4750088 GTTTAAT
1 -TTTAAT
4750095 CATATTTAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 30
0.69 0.07 0.25
Matches are distributed among these distances:
13 3 0.04
14 10 0.12
15 11 0.13
16 13 0.15
17 16 0.19
18 2 0.02
19 4 0.05
20 19 0.23
21 6 0.07
ACGTcount: A:0.44, C:0.02, G:0.05, T:0.50
Consensus pattern (18 bp):
TTTAATATTAAATATTAA
Found at i:4758447 original size:39 final size:39
Alignment explanation
Indices: 4758388--4758465 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
4758378 CTCAAAATTG
* *
4758388 TTCCTTAGTCAATTGTTCTTTTTTGCTTGTGCCTCCAAT
1 TTCCATAGTCAATTGTTCTTTTTTGCTTCTGCCTCCAAT
4758427 TTCCATAGTCAATTGTTCTTTTTTGCTTCTGCCTCCAAT
1 TTCCATAGTCAATTGTTCTTTTTTGCTTCTGCCTCCAAT
4758466 AGATGGAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.14, C:0.24, G:0.12, T:0.50
Consensus pattern (39 bp):
TTCCATAGTCAATTGTTCTTTTTTGCTTCTGCCTCCAAT
Found at i:4761282 original size:13 final size:14
Alignment explanation
Indices: 4761246--4761295 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
4761236 ATTATATATA
4761246 AAAATTTTGAAAAAT
1 AAAA-TTTGAAAAAT
*
4761261 AAAATTTGAAAACT
1 AAAATTTGAAAAAT
* *
4761275 TAAA-TTGAAATAT
1 AAAATTTGAAAAAT
4761288 -AAATTTGA
1 AAAATTTGA
4761296 TTTGTCTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
12 3 0.10
13 11 0.37
14 12 0.40
15 4 0.13
ACGTcount: A:0.56, C:0.02, G:0.08, T:0.34
Consensus pattern (14 bp):
AAAATTTGAAAAAT
Found at i:4761732 original size:73 final size:73
Alignment explanation
Indices: 4761655--4761869 Score: 279
Period size: 73 Copynumber: 2.9 Consensus size: 73
4761645 AACCTTATTG
* ** *
4761655 TTCATTCTTGGTTGCTTTTGGCAAGGAATTACTCTCATTCACTTCTGTCTTTGCTCTGTAAGGAA
1 TTCATTCTTGGTTGCTTTTGGCAAGGAATCACTCTTGTTCATTTCTGTCTTTGCTCTGTAAGGAA
4761720 TCTCACTA
66 TCTCACTA
* * * * * * *
4761728 TTCATTCTTGGTTGCTTTTGGTAGGGAATCACTCTTGTTCATTTCTATTTTTGTTCTGCAGGGAA
1 TTCATTCTTGGTTGCTTTTGGCAAGGAATCACTCTTGTTCATTTCTGTCTTTGCTCTGTAAGGAA
*
4761793 TCTCATTA
66 TCTCACTA
* * *
4761801 TTCATTTTTGGTTGCTTTTGACAAGGAATCACTCTTGTTCATTTCTGTCTTTGCTTTGT-AGGAA
1 TTCATTCTTGGTTGCTTTTGGCAAGGAATCACTCTTGTTCATTTCTGTCTTTGCTCTGTAAGG-A
4761865 ATCTC
65 ATCTC
4761870 CCCTATTTAT
Statistics
Matches: 119, Mismatches: 22, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
72 2 0.02
73 117 0.98
ACGTcount: A:0.18, C:0.19, G:0.18, T:0.46
Consensus pattern (73 bp):
TTCATTCTTGGTTGCTTTTGGCAAGGAATCACTCTTGTTCATTTCTGTCTTTGCTCTGTAAGGAA
TCTCACTA
Found at i:4761791 original size:37 final size:38
Alignment explanation
Indices: 4761728--4761846 Score: 106
Period size: 37 Copynumber: 3.2 Consensus size: 38
4761718 AATCTCACTA
* **
4761728 TTCA-TTCTTGGTTGCTTTTGGTAGGGAATCACTCTTG
1 TTCATTTCTTGGTTGCTTCTGACAGGGAATCACTCTTG
** *
4761765 TTCATTTCTATTTTTG-TTCTG-CAGGGAAT--CTCATTA
1 TTCATTTCT-TGGTTGCTTCTGACAGGGAATCACTC-TTG
* *
4761801 TTCATTT-TTGGTTGCTTTTGACAAGGAATCACTCTTG
1 TTCATTTCTTGGTTGCTTCTGACAGGGAATCACTCTTG
4761838 TTCATTTCT
1 TTCATTTCT
4761847 GTCTTTGCTT
Statistics
Matches: 64, Mismatches: 10, Indels: 15
0.72 0.11 0.17
Matches are distributed among these distances:
34 4 0.06
35 8 0.12
36 16 0.25
37 20 0.31
38 12 0.19
39 4 0.06
ACGTcount: A:0.17, C:0.17, G:0.18, T:0.49
Consensus pattern (38 bp):
TTCATTTCTTGGTTGCTTCTGACAGGGAATCACTCTTG
Found at i:4761829 original size:36 final size:35
Alignment explanation
Indices: 4761714--4761830 Score: 85
Period size: 36 Copynumber: 3.2 Consensus size: 35
4761704 TTTGCTCTGT
* * *
4761714 AAGGAATCTCACTATTCATTCTTGGTTGCTTTTGGT
1 AAGGAATCTCATTATTCATTTTTGGTTGCTTTT-GC
* * ** *
4761750 AGGGAATCACTC-TTGTTCATTTCTATTTTTG-TTCTGC
1 AAGGAAT--CTCATTATTCATTT-T-TGGTTGCTTTTGC
*
4761787 AGGGAATCTCATTATTCATTTTTGGTTGCTTTTGAC
1 AAGGAATCTCATTATTCATTTTTGGTTGCTTTTG-C
4761823 AAGGAATC
1 AAGGAATC
4761831 ACTCTTGTTC
Statistics
Matches: 61, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
34 4 0.07
35 8 0.13
36 23 0.38
37 15 0.25
38 7 0.11
39 4 0.07
ACGTcount: A:0.21, C:0.16, G:0.19, T:0.44
Consensus pattern (35 bp):
AAGGAATCTCATTATTCATTTTTGGTTGCTTTTGC
Found at i:4762294 original size:20 final size:20
Alignment explanation
Indices: 4762257--4762296 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
4762247 ATTTACATAT
*
4762257 TATAAAAACATGATATAAAA
1 TATAAAAACATGAAATAAAA
**
4762277 TATAAAAAGTTGAAATAAAA
1 TATAAAAACATGAAATAAAA
4762297 CGAAATTAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.65, C:0.03, G:0.07, T:0.25
Consensus pattern (20 bp):
TATAAAAACATGAAATAAAA
Found at i:4762360 original size:17 final size:16
Alignment explanation
Indices: 4762340--4762424 Score: 59
Period size: 17 Copynumber: 5.0 Consensus size: 16
4762330 TCCAACAGTA
4762340 TATAAATTCTGAAAAAT
1 TATAAATTCT-AAAAAT
4762357 TATAAAAAATT-TAAAAAT
1 TAT---AAATTCTAAAAAT
4762375 ATATAAATTCTAAAAAAT
1 -TATAAATTCT-AAAAAT
*
4762393 TAAAAATT-TAAAAAAT
1 TATAAATTCT-AAAAAT
*
4762409 GTAAAAATT-TAAAAAT
1 -TATAAATTCTAAAAAT
4762425 AATTGAAATT
Statistics
Matches: 60, Mismatches: 1, Indels: 15
0.79 0.01 0.20
Matches are distributed among these distances:
16 19 0.32
17 20 0.33
18 12 0.20
19 4 0.07
20 5 0.08
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (16 bp):
TATAAATTCTAAAAAT
Found at i:4762372 original size:8 final size:8
Alignment explanation
Indices: 4762351--4762424 Score: 76
Period size: 8 Copynumber: 8.8 Consensus size: 8
4762341 ATAAATTCTG
4762351 AAAAATTAT
1 AAAAATT-T
4762360 AAAAAATTT
1 -AAAAATTT
*
4762369 AAAAATAT
1 AAAAATTT
*
4762377 ATAAATTCT
1 AAAAATT-T
*
4762386 AAAAAATT
1 AAAAATTT
4762394 AAAAATTT
1 AAAAATTT
*
4762402 AAAAAATGT
1 -AAAAATTT
4762411 AAAAATTT
1 AAAAATTT
4762419 AAAAAT
1 AAAAAT
4762425 AATTGAAATT
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
8 33 0.61
9 14 0.26
10 7 0.13
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (8 bp):
AAAAATTT
Found at i:4762395 original size:25 final size:25
Alignment explanation
Indices: 4762351--4762425 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
4762341 ATAAATTCTG
4762351 AAAAATTATAAAAAATTTAAAAATAT
1 AAAAATTATAAAAAA-TTAAAAATAT
* * *
4762377 ATAAATTCTAAAAAATTAAAAATTT
1 AAAAATTATAAAAAATTAAAAATAT
* * *
4762402 AAAAAATGTAAAAATTTAAAAATA
1 AAAAATTATAAAAAATTAAAAATA
4762426 ATTGAAATTT
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
25 28 0.68
26 13 0.32
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.31
Consensus pattern (25 bp):
AAAAATTATAAAAAATTAAAAATAT
Found at i:4762397 original size:34 final size:35
Alignment explanation
Indices: 4762338--4762423 Score: 106
Period size: 33 Copynumber: 2.5 Consensus size: 35
4762328 ATTCCAACAG
*
4762338 TATATAAATTCTGAAAAATTATAAAAAATTT-AAAAA
1 TATATAAATTCT-AAAAAATAT-AAAAATTTAAAAAA
4762374 TATATAAATTCTAAAAAAT-TAAAAATTTAAAAAA
1 TATATAAATTCTAAAAAATATAAAAATTTAAAAAA
* *
4762408 TGTAAAAATT-TAAAAA
1 TATATAAATTCTAAAAA
4762424 TAATTGAAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
33 14 0.30
34 14 0.30
35 6 0.13
36 12 0.26
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (35 bp):
TATATAAATTCTAAAAAATATAAAAATTTAAAAAA
Found at i:4763340 original size:21 final size:22
Alignment explanation
Indices: 4763302--4763354 Score: 54
Period size: 21 Copynumber: 2.4 Consensus size: 22
4763292 ATAATATAAC
*
4763302 ATAAAAAATTATAAAAAGATGAT
1 ATAAAAAATTAT-AAAAGATGAA
* *
4763325 ATAAAATATTAT-AAAGTTGAA
1 ATAAAAAATTATAAAAGATGAA
4763346 ATAATAAAA
1 ATAA-AAAA
4763355 CGAAATTAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
21 11 0.44
22 3 0.12
23 11 0.44
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (22 bp):
ATAAAAAATTATAAAAGATGAA
Found at i:4764404 original size:18 final size:17
Alignment explanation
Indices: 4764377--4764410 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
4764367 CTCTACTGTT
4764377 CTTTTTTTTGTCTTTAA
1 CTTTTTTTTGTCTTTAA
*
4764394 CTTTATTTTTGTTTTTA
1 CTTT-TTTTTGTCTTTA
4764411 GGTGTACTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.12, C:0.09, G:0.06, T:0.74
Consensus pattern (17 bp):
CTTTTTTTTGTCTTTAA
Found at i:4771584 original size:98 final size:99
Alignment explanation
Indices: 4771412--4771603 Score: 269
Period size: 98 Copynumber: 1.9 Consensus size: 99
4771402 AAATTCCTTT
* * * * *
4771412 GTGAATTCTCATTTTTGAGAGTAAGGTTGATTTAGGTGGATTTGAAATAAAGAAATAACCTAAGG
1 GTGAATTCCCATTTTCGAGAGTAAGGCTGACTTAGGTGGATTTGAAACAAAGAAATAACCTAAGG
*** * *
4771477 TTGCGTGGTTTGCCAGAC-TTAAGTTCTAATCCC
66 CCACATGGTTTACCAGACTTTAAGTTCTAATCCC
* *
4771510 GTGAATTCCCATTTTCGAGAGTAAGGCTGACTTAGGTGGATTTGAAGCAAAGAAATCACCTAAGG
1 GTGAATTCCCATTTTCGAGAGTAAGGCTGACTTAGGTGGATTTGAAACAAAGAAATAACCTAAGG
4771575 CCACATGGTTTACCAGACTTTAAGTTCTA
66 CCACATGGTTTACCAGACTTTAAGTTCTA
4771604 GCAAAAAACT
Statistics
Matches: 81, Mismatches: 12, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
98 71 0.88
99 10 0.12
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (99 bp):
GTGAATTCCCATTTTCGAGAGTAAGGCTGACTTAGGTGGATTTGAAACAAAGAAATAACCTAAGG
CCACATGGTTTACCAGACTTTAAGTTCTAATCCC
Found at i:4777936 original size:74 final size:74
Alignment explanation
Indices: 4777841--4777989 Score: 298
Period size: 74 Copynumber: 2.0 Consensus size: 74
4777831 AAATAGTGTT
4777841 AGACTAAATACTTAAAATGTCAGTTGGTCTATCCACTTTCACAACATTTCTAAAATACCCATACC
1 AGACTAAATACTTAAAATGTCAGTTGGTCTATCCACTTTCACAACATTTCTAAAATACCCATACC
4777906 TCAGTTTTC
66 TCAGTTTTC
4777915 AGACTAAATACTTAAAATGTCAGTTGGTCTATCCACTTTCACAACATTTCTAAAATACCCATACC
1 AGACTAAATACTTAAAATGTCAGTTGGTCTATCCACTTTCACAACATTTCTAAAATACCCATACC
4777980 TCAGTTTTC
66 TCAGTTTTC
4777989 A
1 A
4777990 TTTAATATAG
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 75 1.00
ACGTcount: A:0.34, C:0.24, G:0.08, T:0.34
Consensus pattern (74 bp):
AGACTAAATACTTAAAATGTCAGTTGGTCTATCCACTTTCACAACATTTCTAAAATACCCATACC
TCAGTTTTC
Found at i:4783588 original size:51 final size:51
Alignment explanation
Indices: 4783527--4783782 Score: 453
Period size: 51 Copynumber: 5.0 Consensus size: 51
4783517 AAATTAAAAG
4783527 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
4783578 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
*
4783629 ATTATACATACACCAACAATGTGATTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGT-TTTTTAGGGTAAATAACATTAAACCAACA
*
4783681 ATTATACATACACCAGCAATG-TTTTTAGGGTAAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
*
4783731 ATTATACATACACCAGCAATGTTTTTTAGGG-ACAATAACATTAAACCAACA
1 ATTATACATACACCAACAATGTTTTTTAGGGTA-AATAACATTAAACCAACA
4783782 A
1 A
4783783 GTAATTTTAG
Statistics
Matches: 199, Mismatches: 3, Indels: 6
0.96 0.01 0.03
Matches are distributed among these distances:
50 50 0.25
51 101 0.51
52 48 0.24
ACGTcount: A:0.45, C:0.18, G:0.09, T:0.28
Consensus pattern (51 bp):
ATTATACATACACCAACAATGTTTTTTAGGGTAAATAACATTAAACCAACA
Done.