Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 106 of 216
Found at i:33529809 original size:18 final size:18
Alignment explanation
Indices: 33529786--33529820 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
33529776 AGAATCAGTT
* *
33529786 GAAAAAATTATTTAATTG
1 GAAAAAAATAATTAATTG
33529804 GAAAAAAATAATTAATT
1 GAAAAAAATAATTAATT
33529821 AATTAAAATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (18 bp):
GAAAAAAATAATTAATTG
Found at i:33533345 original size:25 final size:25
Alignment explanation
Indices: 33533317--33533430 Score: 92
Period size: 25 Copynumber: 4.6 Consensus size: 25
33533307 GGACACACCA
*
33533317 CAGCTCGTATGAGCTTACCAAGTT-G
1 CAGCTCGTATGAGCTTACCAA-TTCC
**
33533342 CAGCTCGTGA-GAGCTTACTGATTCC
1 CAGCTCGT-ATGAGCTTACCAATTCC
*
33533367 CAGCTCGTATGAGCTTACCAATTCA
1 CAGCTCGTATGAGCTTACCAATTCC
* *
33533392 CAGCTTGCG-A-GAGCATACCAATTCA
1 CAGC-T-CGTATGAGCTTACCAATTCC
* *
33533417 TAGCTCTTATGAGC
1 CAGCTCGTATGAGC
33533431 ATACATGTAC
Statistics
Matches: 73, Mismatches: 9, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
23 1 0.01
24 5 0.07
25 62 0.85
26 3 0.04
27 2 0.03
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.27
Consensus pattern (25 bp):
CAGCTCGTATGAGCTTACCAATTCC
Found at i:33533422 original size:50 final size:50
Alignment explanation
Indices: 33533315--33533430 Score: 135
Period size: 50 Copynumber: 2.3 Consensus size: 50
33533305 GCGGACACAC
* * * **
33533315 CACAGCTCGTATGAGCTTACCAAGTTGCAGCTCGTGAGAGCTTACTGATT
1 CACAGCTCGTATGAGCTTACCAAGTTACAGCTCGCGAGAGCATACCAATT
* *
33533365 CCCAGCTCGTATGAGCTTACCAA-TTCACAGCTTGCGAGAGCATACCAATT
1 CACAGCTCGTATGAGCTTACCAAGTT-ACAGCTCGCGAGAGCATACCAATT
* *
33533415 CATAGCTCTTATGAGC
1 CACAGCTCGTATGAGC
33533431 ATACATGTAC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
49 2 0.04
50 53 0.96
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.27
Consensus pattern (50 bp):
CACAGCTCGTATGAGCTTACCAAGTTACAGCTCGCGAGAGCATACCAATT
Found at i:33537468 original size:13 final size:13
Alignment explanation
Indices: 33537450--33537476 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
33537440 TTCGATGTTG
33537450 TGTTTGCAATATA
1 TGTTTGCAATATA
33537463 TGTTTGCAATATA
1 TGTTTGCAATATA
33537476 T
1 T
33537477 TCACATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.15, T:0.48
Consensus pattern (13 bp):
TGTTTGCAATATA
Found at i:33538373 original size:43 final size:42
Alignment explanation
Indices: 33538324--33538476 Score: 135
Period size: 43 Copynumber: 3.6 Consensus size: 42
33538314 GGCACTACAA
*
33538324 TGCATCATCAGATAAACTGAAGGAAATATATTGGCACGCATAG
1 TGCATCATCAGATAAACTGAA-GAAATATACTGGCACGCATAG
** * * * *
33538367 TGCATCATCAGATGTACCGAACAATGTATACTGGCACTCATAG
1 TGCATCATCAGATAAACTGAAGAA-ATATACTGGCACGCATAG
* * * * * *
33538410 TGTATCATCAAACAAGCTGAAGAAATTATACTAGCATGCATAG
1 TGCATCATCAGATAAACTGAAGAAA-TATACTGGCACGCATAG
* * *
33538453 TGCATCATCGGATATACTAAAGAA
1 TGCATCATCAGATAAACTGAAGAA
33538477 TGTATATTGA
Statistics
Matches: 82, Mismatches: 26, Indels: 4
0.73 0.23 0.04
Matches are distributed among these distances:
42 2 0.02
43 80 0.98
ACGTcount: A:0.39, C:0.18, G:0.18, T:0.25
Consensus pattern (42 bp):
TGCATCATCAGATAAACTGAAGAAATATACTGGCACGCATAG
Found at i:33538495 original size:43 final size:43
Alignment explanation
Indices: 33538448--33538589 Score: 139
Period size: 43 Copynumber: 3.3 Consensus size: 43
33538438 TACTAGCATG
*
33538448 CATAGTGCATCATCGGATATA-CTAAAGAATGTATATTGACTCT
1 CATAGTGCATCATCGGATATATCGAAA-AATGTATATTGACTCT
* * * *
33538491 CATAGTACATCATCGGACA-AGTCGAAACAAT-TATACTGACAT-A
1 CATAGTGCATCATCGGATATA-TCGAAA-AATGTATATTGAC-TCT
* * * *
33538534 CATAGCGCATCATCGGATGTATCGAAAAATGTATATTGTCACT
1 CATAGTGCATCATCGGATATATCGAAAAATGTATATTGACTCT
33538577 CATAGTGCATCAT
1 CATAGTGCATCAT
33538590 TAGACAAGCC
Statistics
Matches: 78, Mismatches: 15, Indels: 12
0.74 0.14 0.11
Matches are distributed among these distances:
42 4 0.05
43 65 0.83
44 9 0.12
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (43 bp):
CATAGTGCATCATCGGATATATCGAAAAATGTATATTGACTCT
Found at i:33538632 original size:86 final size:85
Alignment explanation
Indices: 33538350--33538637 Score: 290
Period size: 86 Copynumber: 3.4 Consensus size: 85
33538340 CTGAAGGAAA
* * * * * * *
33538350 TATATTGGCACGCATAGTGCATCATCAGATGTACCGAACAATGTATACTGGCACTCATAGTGTAT
1 TATACTGGCACACATAGTGCATCATCGGATGTA-CGAAAAATGTATATTGACACTCATAGTGCAT
* *
33538415 CATCAAACAAGCTGAAGA-AAT
65 CATCAGACAAGCCGAA-ACAAT
* ** * * * *
33538436 TATACTAGCATGCATAGTGCATCATCGGATATACTAAAGAATGTATATTGACTCTCATAGTACAT
1 TATACTGGCACACATAGTGCATCATCGGATGTACGAAA-AATGTATATTGACACTCATAGTGCAT
* *
33538501 CATCGGACAAGTCGAAACAAT
65 CATCAGACAAGCCGAAACAAT
* * * *
33538522 TATACTGACATACATAGCGCATCATCGGATGTATCGAAAAATGTATATTGTCACTCATAGTGCAT
1 TATACTGGCACACATAGTGCATCATCGGATGTA-CGAAAAATGTATATTGACACTCATAGTGCAT
*
33538587 CATTAGACAAGCCGAAACAAT
65 CATCAGACAAGCCGAAACAAT
* * * *
33538608 TATATTGGCACATATAGTGTATCATTGGAT
1 TATACTGGCACACATAGTGCATCATCGGAT
33538638 AAATCAAAGC
Statistics
Matches: 164, Mismatches: 35, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
85 4 0.02
86 156 0.95
87 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.17, T:0.28
Consensus pattern (85 bp):
TATACTGGCACACATAGTGCATCATCGGATGTACGAAAAATGTATATTGACACTCATAGTGCATC
ATCAGACAAGCCGAAACAAT
Found at i:33543740 original size:34 final size:34
Alignment explanation
Indices: 33543697--33543766 Score: 131
Period size: 34 Copynumber: 2.1 Consensus size: 34
33543687 CGTTTTTTTA
*
33543697 AGTGTTAGGGTTTTGTTTATTTAAATTAGGGTTT
1 AGTGTTAGGGTTTTGTTTATTTAAAGTAGGGTTT
33543731 AGTGTTAGGGTTTTGTTTATTTAAAGTAGGGTTT
1 AGTGTTAGGGTTTTGTTTATTTAAAGTAGGGTTT
33543765 AG
1 AG
33543767 GGATTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (34 bp):
AGTGTTAGGGTTTTGTTTATTTAAAGTAGGGTTT
Found at i:33544348 original size:26 final size:26
Alignment explanation
Indices: 33544319--33544374 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
33544309 TATTCAATCG
33544319 ATTTAGTTCTGTAAATATTTTATTTT
1 ATTTAGTTCTGTAAATATTTTATTTT
33544345 ATTTAGTTCTGTAAATATTTTATTTT
1 ATTTAGTTCTGTAAATATTTTATTTT
33544371 ATTT
1 ATTT
33544375 TTATATTTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.27, C:0.04, G:0.07, T:0.62
Consensus pattern (26 bp):
ATTTAGTTCTGTAAATATTTTATTTT
Found at i:33545498 original size:18 final size:18
Alignment explanation
Indices: 33545464--33545499 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
33545454 AATTTATGAG
*
33545464 ATTTTTTAAAATTTTTTA
1 ATTTTTTAAAATATTTTA
*
33545482 ATTTTTTAATATATTTTA
1 ATTTTTTAAAATATTTTA
33545500 TTTAGTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTTTAAAATATTTTA
Found at i:33547003 original size:42 final size:42
Alignment explanation
Indices: 33546952--33547035 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
33546942 GGTACTCATC
33546952 GCCACTCACAGGGTATCTAAACCAGCCATCAGATTTGGTGTT
1 GCCACTCACAGGGTATCTAAACCAGCCATCAGATTTGGTGTT
*
33546994 GCCACTCACAGGGTATCTAAACGAGCCATCAGATTTGGTGTT
1 GCCACTCACAGGGTATCTAAACCAGCCATCAGATTTGGTGTT
33547036 TGAATGCTTG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (42 bp):
GCCACTCACAGGGTATCTAAACCAGCCATCAGATTTGGTGTT
Found at i:33547637 original size:25 final size:25
Alignment explanation
Indices: 33547603--33547652 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
33547593 CCACCGTAAG
33547603 AATAGCTAATAGAATTGACTTCTAC
1 AATAGCTAATAGAATTGACTTCTAC
33547628 AATAGCTAATAGAATTGACTTCTAC
1 AATAGCTAATAGAATTGACTTCTAC
33547653 CGAGTAAATC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (25 bp):
AATAGCTAATAGAATTGACTTCTAC
Found at i:33547905 original size:126 final size:126
Alignment explanation
Indices: 33547680--33547909 Score: 379
Period size: 126 Copynumber: 1.8 Consensus size: 126
33547670 CACTAACAAA
* *
33547680 GGTATTGGCATTTGTTATCGGTATACAAGAATCCTTAAATATTTTCCCAAATCTTCTGTCTATTG
1 GGTATCGGCATTTGTTATCGGAATACAAGAATCCTTAAATATTTTCCCAAATCTTCTGTCTATTG
*
33547745 AAAACCCAACTTGCTTGTAACATGACTCCTCAATGATTCCAAACTTTGTCAAAAATGAATT
66 AAAACACAACTTGCTTGTAACATGACTCCTCAATGATTCCAAACTTTGTCAAAAATGAATT
* * * *
33547806 GGTATCGGCATTTGTTATCGGAATAGAGGAATCCTTAAATATTTTCCCAAATCTTCTGTTTGTTG
1 GGTATCGGCATTTGTTATCGGAATACAAGAATCCTTAAATATTTTCCCAAATCTTCTGTCTATTG
* *
33547871 AAAACACAACTTGCTTGTAACTTGACTCTTCAATGATTC
66 AAAACACAACTTGCTTGTAACATGACTCCTCAATGATTC
33547910 ACACGTGTTT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
126 95 1.00
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (126 bp):
GGTATCGGCATTTGTTATCGGAATACAAGAATCCTTAAATATTTTCCCAAATCTTCTGTCTATTG
AAAACACAACTTGCTTGTAACATGACTCCTCAATGATTCCAAACTTTGTCAAAAATGAATT
Found at i:33549608 original size:50 final size:51
Alignment explanation
Indices: 33549538--33549635 Score: 153
Period size: 50 Copynumber: 1.9 Consensus size: 51
33549528 TTCATTAAAA
* *
33549538 GATGCAAACTTTAACTAACATGGGAGTTACATAATGCATGACATAATTTAT
1 GATGCAAACTTTAACTAACATGAGAGTAACATAATGCATGACATAATTTAT
* *
33549589 GATGC-AATTTTAACTAACATGAGAGTAACATAATGCATGTCATAATT
1 GATGCAAACTTTAACTAACATGAGAGTAACATAATGCATGACATAATT
33549636 AAAAGATGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
50 38 0.88
51 5 0.12
ACGTcount: A:0.40, C:0.13, G:0.15, T:0.32
Consensus pattern (51 bp):
GATGCAAACTTTAACTAACATGAGAGTAACATAATGCATGACATAATTTAT
Found at i:33550225 original size:31 final size:31
Alignment explanation
Indices: 33550132--33550227 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
33550122 GGCAAATTAC
*
33550132 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
33550163 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
33550195 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
33550226 AA
1 AA
33550228 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:33553382 original size:10 final size:10
Alignment explanation
Indices: 33553367--33553471 Score: 62
Period size: 10 Copynumber: 10.7 Consensus size: 10
33553357 TAGGCAACTT
33553367 TTTTTTTGCG
1 TTTTTTTGCG
33553377 TTTTTTTGC-
1 TTTTTTTGCG
*
33553386 TTTTTGTT--T
1 TTTTT-TTGCG
33553395 TTTTTTTGCG
1 TTTTTTTGCG
*
33553405 CTTTTTACT-C-
1 -TTTTT-TTGCG
33553415 TTTTTTTGCG
1 TTTTTTTGCG
* *
33553425 CTTTTTTGCTT
1 TTTTTTTGC-G
*
33553436 TTTTTTTG-T
1 TTTTTTTGCG
33553445 TTTTTTTGCG
1 TTTTTTTGCG
*
33553455 CTTTTTT-CTG
1 TTTTTTTGC-G
33553465 TTTTTTT
1 TTTTTTT
33553472 TTTGCTTTTA
Statistics
Matches: 75, Mismatches: 9, Indels: 22
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.04
9 26 0.35
10 32 0.43
11 13 0.17
12 1 0.01
ACGTcount: A:0.01, C:0.11, G:0.12, T:0.75
Consensus pattern (10 bp):
TTTTTTTGCG
Found at i:33553400 original size:20 final size:20
Alignment explanation
Indices: 33553384--33553443 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
33553374 GCGTTTTTTT
*
33553384 GCTTTTTGTTTTTTTTTTGC
1 GCTTTTTGCTTTTTTTTTGC
* *
33553404 GCTTTTTACTCTTTTTTTGC
1 GCTTTTTGCTTTTTTTTTGC
33553424 GCTTTTTTGCTTTTTTTTTG
1 GC-TTTTTGCTTTTTTTTTG
33553444 TTTTTTTTGC
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 19 0.56
21 15 0.44
ACGTcount: A:0.02, C:0.13, G:0.13, T:0.72
Consensus pattern (20 bp):
GCTTTTTGCTTTTTTTTTGC
Found at i:33553417 original size:29 final size:28
Alignment explanation
Indices: 33553365--33553419 Score: 76
Period size: 28 Copynumber: 1.9 Consensus size: 28
33553355 GGTAGGCAAC
*
33553365 TTTTTTTTTGCGTTTTTTTGCTTTTTGT
1 TTTTTTTTTGCGTTTTTCTGCTTTTTGT
33553393 TTTTTTTTTGCGCTTTTTACT-CTTTTT
1 TTTTTTTTTGCG-TTTTT-CTGCTTTTT
33553420 TTGCGCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
28 12 0.50
29 11 0.46
30 1 0.04
ACGTcount: A:0.02, C:0.11, G:0.11, T:0.76
Consensus pattern (28 bp):
TTTTTTTTTGCGTTTTTCTGCTTTTTGT
Found at i:33553430 original size:30 final size:30
Alignment explanation
Indices: 33553396--33553461 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
33553386 TTTTTGTTTT
33553396 TTTTTTGCGCTTTTTACT-CTTTTTTTGCGC
1 TTTTTTGC-CTTTTTACTGCTTTTTTTGCGC
* ** *
33553426 TTTTTTGCTTTTTTTTTGTTTTTTTTGCGC
1 TTTTTTGCCTTTTTACTGCTTTTTTTGCGC
33553456 TTTTTT
1 TTTTTT
33553462 CTGTTTTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 6 0.19
30 25 0.81
ACGTcount: A:0.02, C:0.14, G:0.12, T:0.73
Consensus pattern (30 bp):
TTTTTTGCCTTTTTACTGCTTTTTTTGCGC
Found at i:33553469 original size:30 final size:30
Alignment explanation
Indices: 33553415--33553472 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
33553405 CTTTTTACTC
33553415 TTTTTTTGCGCTTTTTTGCTTTTTTTTTGT
1 TTTTTTTGCGCTTTTTTGCTTTTTTTTTGT
33553445 TTTTTTTGCGCTTTTTT-CTGTTTTTTTT
1 TTTTTTTGCGCTTTTTTGCT-TTTTTTTT
33553473 TTGCTTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 2 0.07
30 25 0.93
ACGTcount: A:0.00, C:0.10, G:0.12, T:0.78
Consensus pattern (30 bp):
TTTTTTTGCGCTTTTTTGCTTTTTTTTTGT
Found at i:33553699 original size:25 final size:26
Alignment explanation
Indices: 33553662--33553715 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
33553652 AGAGAAACAC
33553662 AAATTAGAAATAAAACGAG-AATAAATA
1 AAATTAG-AATAAAA-GAGTAATAAATA
*
33553689 AAATTAG-ATAAAATAGTAATAAATA
1 AAATTAGAATAAAAGAGTAATAAATA
33553714 AA
1 AA
33553716 TAAATAATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 2 0.08
25 16 0.64
27 7 0.28
ACGTcount: A:0.67, C:0.02, G:0.09, T:0.22
Consensus pattern (26 bp):
AAATTAGAATAAAAGAGTAATAAATA
Found at i:33554125 original size:31 final size:31
Alignment explanation
Indices: 33554032--33554127 Score: 174
Period size: 31 Copynumber: 3.1 Consensus size: 31
33554022 GGCAAATTAC
*
33554032 AAGAGTAATTGAATCCTAATAAAACTCTTTC
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
33554063 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
33554095 AAGAGTAATTGAATCCTAATAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAACTCTTTA
33554126 AA
1 AA
33554128 ATTATCTAAG
Statistics
Matches: 63, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
31 33 0.52
32 30 0.48
ACGTcount: A:0.46, C:0.14, G:0.09, T:0.31
Consensus pattern (31 bp):
AAGAGTAATTGAATCCTAATAAAACTCTTTA
Found at i:33556084 original size:35 final size:35
Alignment explanation
Indices: 33555988--33556086 Score: 110
Period size: 35 Copynumber: 2.8 Consensus size: 35
33555978 GTGACCCGAT
* *
33555988 AGAAATATAAGGATGACGAATGTGGCAACCCAACC
1 AGAAACATAAGGATGACGAATGTGGCGACCCAACC
* * * *
33556023 AGAAACATGAGGATGATGGATGTGGCGGCCCAACC
1 AGAAACATAAGGATGACGAATGTGGCGACCCAACC
* *
33556058 -GAAAACATAAGGATGACGCATATGGCGAC
1 AG-AAACATAAGGATGACGAATGTGGCGAC
33556087 TTGGCCAGAA
Statistics
Matches: 52, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
34 1 0.02
35 51 0.98
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.14
Consensus pattern (35 bp):
AGAAACATAAGGATGACGAATGTGGCGACCCAACC
Found at i:33556143 original size:35 final size:35
Alignment explanation
Indices: 33556032--33556168 Score: 91
Period size: 35 Copynumber: 3.9 Consensus size: 35
33556022 CAGAAACATG
* * **
33556032 AGGATGATGGATGTGGCGGCCCAACC-GAAA-ACATA
1 AGGATGATGGATGTGGCGACTCGGCCAGAAATAC--A
* * * * * *
33556067 AGGATGACGCATATGGCGACTTGGCCAGAAACATA
1 AGGATGATGGATGTGGCGACTCGGCCAGAAATACA
* *
33556102 ATGATGATAGG-TGTGGCGACTCGGCCAGAAATACG
1 AGGATGAT-GGATGTGGCGACTCGGCCAGAAATACA
* * *
33556137 AGGATGATGGATGTGGTGAGTCGGCCAAAAAT
1 AGGATGATGGATGTGGCGACTCGGCCAGAAAT
33556169 GTAACACCCT
Statistics
Matches: 77, Mismatches: 21, Indels: 8
0.73 0.20 0.08
Matches are distributed among these distances:
34 2 0.03
35 69 0.90
36 5 0.06
37 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.33, T:0.18
Consensus pattern (35 bp):
AGGATGATGGATGTGGCGACTCGGCCAGAAATACA
Found at i:33556555 original size:18 final size:17
Alignment explanation
Indices: 33556524--33556557 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
33556514 CTCATAACAA
*
33556524 CATAAAACATGAGTTCG
1 CATAAAACACGAGTTCG
33556541 CATAATAACACGAGTTC
1 CATAA-AACACGAGTTC
33556558 ACAAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.41, C:0.21, G:0.15, T:0.24
Consensus pattern (17 bp):
CATAAAACACGAGTTCG
Found at i:33560545 original size:23 final size:23
Alignment explanation
Indices: 33560511--33560561 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
33560501 GTGTGAGACA
* *
33560511 TGTAATATCCCGAATATTACTAC
1 TGTAATACCCCGAAAATTACTAC
33560534 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCGAAAATTACTAC
*
33560557 AGTAA
1 TGTAA
33560562 GAAAGTAGGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.39, C:0.22, G:0.10, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCGAAAATTACTAC
Found at i:33561289 original size:43 final size:43
Alignment explanation
Indices: 33561230--33561321 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 43
33561220 TTTCATATCC
33561230 ATCAAGAGAGAAAGATAAAAAGGAGACAATGGGGAGCTAGAAT
1 ATCAAGAGAGAAAGATAAAAAGGAGACAATGGGGAGCTAGAAT
*
33561273 ATCAAGAGAGAAAGATAACAAGGAGACAATGGGGAGCTAGAAT
1 ATCAAGAGAGAAAGATAAAAAGGAGACAATGGGGAGCTAGAAT
33561316 ATCAAG
1 ATCAAG
33561322 TTAGATTCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.50, C:0.09, G:0.29, T:0.12
Consensus pattern (43 bp):
ATCAAGAGAGAAAGATAAAAAGGAGACAATGGGGAGCTAGAAT
Found at i:33566964 original size:27 final size:26
Alignment explanation
Indices: 33566934--33566986 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 26
33566924 CCCAGTTCGC
*
33566934 CAAACCAACTGGCGAACCCTAACTTGT
1 CAAACCAACTGGCGAACAC-AACTTGT
*
33566961 CAAACCAACTGTCGAACACAACTTGT
1 CAAACCAACTGGCGAACACAACTTGT
33566987 AATGAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
26 7 0.29
27 17 0.71
ACGTcount: A:0.36, C:0.32, G:0.13, T:0.19
Consensus pattern (26 bp):
CAAACCAACTGGCGAACACAACTTGT
Found at i:33567281 original size:35 final size:35
Alignment explanation
Indices: 33567242--33567323 Score: 92
Period size: 35 Copynumber: 2.3 Consensus size: 35
33567232 AGGACAATGA
* * **
33567242 GTGTGGTGACCCAACTATAAACATGAGGATGACGG
1 GTGTGGTGACCCAACCAGAAACACAAGGATGACGG
*** *
33567277 GTGTGACAACCCAACCAGAAACACAATGATGACGG
1 GTGTGGTGACCCAACCAGAAACACAAGGATGACGG
33567312 GTGTGGTGACCC
1 GTGTGGTGACCC
33567324 GATTAGAAAC
Statistics
Matches: 36, Mismatches: 11, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.32, C:0.22, G:0.29, T:0.17
Consensus pattern (35 bp):
GTGTGGTGACCCAACCAGAAACACAAGGATGACGG
Found at i:33568358 original size:15 final size:15
Alignment explanation
Indices: 33568318--33568359 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
33568308 AGGAACATGT
33568318 CTTAG-AAAGTGAAA
1 CTTAGTAAAGTGAAA
33568332 CATTTA-TAAAGTGAAA
1 C--TTAGTAAAGTGAAA
33568348 CTTAGTAAAGTG
1 CTTAGTAAAGTG
33568360 TTAAGGAATC
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
14 4 0.17
15 7 0.29
16 13 0.54
ACGTcount: A:0.45, C:0.07, G:0.19, T:0.29
Consensus pattern (15 bp):
CTTAGTAAAGTGAAA
Found at i:33571163 original size:61 final size:61
Alignment explanation
Indices: 33571056--33571196 Score: 138
Period size: 61 Copynumber: 2.3 Consensus size: 61
33571046 AACACTAAAT
* * ** * * * *
33571056 AGGAAAACCTTTGTTGTGAGTATTGGATGTAAAGGACAACCTTTGTGGAAAAAATTTGGAC
1 AGGAAAGCCTTTGTAGCAAGTACTGGATGTAAAGGACAACCATTGTGGAAAAAATCTGGAA
* *** **
33571117 AGGAAAGCCTTTGTGGCAAGTACTGGATGTAAAGGACTGTCATTGTGGCGAAAATCTGGAA
1 AGGAAAGCCTTTGTAGCAAGTACTGGATGTAAAGGACAACCATTGTGGAAAAAATCTGGAA
**
33571178 AGGTGAGCCTTTGTAGCAA
1 AGGAAAGCCTTTGTAGCAA
33571197 TCTTTGTTTA
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
61 64 1.00
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (61 bp):
AGGAAAGCCTTTGTAGCAAGTACTGGATGTAAAGGACAACCATTGTGGAAAAAATCTGGAA
Found at i:33571273 original size:29 final size:27
Alignment explanation
Indices: 33571228--33571309 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
33571218 GTGGAAAATT
33571228 TCTA-AAAGGAAATGCCTTTGTGGCAATC
1 TCTATAAAGGAAA-GCCTTTGTGGCAA-C
*
33571256 TCTATCAAAGGAAAGCCTCTGTGGCAAC
1 TCTAT-AAAGGAAAGCCTTTGTGGCAAC
* * * *
33571284 TTTGTAAAGGAAAGCCCTTATGGCAA
1 TCTATAAAGGAAAGCCTTTGTGGCAA
33571310 ACAACAAAGG
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 18 0.39
28 8 0.17
29 12 0.26
30 8 0.17
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (27 bp):
TCTATAAAGGAAAGCCTTTGTGGCAAC
Found at i:33573867 original size:19 final size:20
Alignment explanation
Indices: 33573838--33573878 Score: 66
Period size: 19 Copynumber: 2.1 Consensus size: 20
33573828 ATAAATATTC
33573838 AAAATATTTTAAAAAATTAA
1 AAAATATTTTAAAAAATTAA
*
33573858 AAAATA-TTTAAAATATTAA
1 AAAATATTTTAAAAAATTAA
33573877 AA
1 AA
33573879 TTGATCTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATATTTTAAAAAATTAA
Found at i:33573900 original size:9 final size:9
Alignment explanation
Indices: 33573886--33574101 Score: 81
Period size: 9 Copynumber: 23.4 Consensus size: 9
33573876 AAATTGATCT
33573886 AAAATTATA
1 AAAATTATA
33573895 AAAATTAT-
1 AAAATTATA
33573903 AAAA-TA-A
1 AAAATTATA
* * *
33573910 TAATTTGTA
1 AAAATTATA
*
33573919 AATATTATA
1 AAAATTATA
*
33573928 AAAA-CATA
1 AAAATTATA
33573936 AAAA--ACTA
1 AAAATTA-TA
* *
33573944 ATAAAATCTA
1 A-AAATTATA
33573954 AAAATTATAA
1 AAAATTAT-A
33573964 AAAATTAT-
1 AAAATTATA
33573972 AAAATTAATA
1 AAAATT-ATA
*
33573982 AAACATATTTA
1 AAA-AT-TATA
*
33573993 AAATTTTATA
1 AAA-ATTATA
*
33574003 AAAATGTATT
1 AAAAT-TATA
*
33574013 AAAATTCTTA
1 AAAATT-ATA
*
33574023 AAAACT-TA
1 AAAATTATA
*
33574031 AAAATCATA
1 AAAATTATA
*
33574040 AAAA-AATA
1 AAAATTATA
* *
33574048 ATTAAAATATT
1 A--AAATTATA
33574059 AAAATTGATA
1 AAAATT-ATA
*
33574069 TAAAATTGTA
1 -AAAATTATA
33574079 AAAATTATAA
1 AAAATTAT-A
*
33574089 AAAATCATA
1 AAAATTATA
33574098 AAAA
1 AAAA
33574102 CTTAAATTAG
Statistics
Matches: 155, Mismatches: 31, Indels: 42
0.68 0.14 0.18
Matches are distributed among these distances:
7 5 0.03
8 31 0.20
9 51 0.33
10 50 0.32
11 17 0.11
12 1 0.01
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (9 bp):
AAAATTATA
Found at i:33573961 original size:35 final size:33
Alignment explanation
Indices: 33573882--33573984 Score: 109
Period size: 35 Copynumber: 3.0 Consensus size: 33
33573872 ATTAAAATTG
* *
33573882 ATCT-AAAATTATAAAAATTATAAAATAATAAT
1 ATCTAAAAATTATAAAAAATATAAAATAATAAA
* * * *
33573914 TTGTAAATATTATAAAAACATAAAAAACTAATAAA
1 ATCTAAAAATTATAAAAA-ATATAAAA-TAATAAA
33573949 ATCTAAAAATTATAAAAAATTATAAAATTAATAAA
1 ATCTAAAAATTATAAAAAA-TATAAAA-TAATAAA
33573984 A
1 A
33573985 CATATTTAAA
Statistics
Matches: 56, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
32 2 0.04
33 12 0.21
34 7 0.12
35 35 0.62
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (33 bp):
ATCTAAAAATTATAAAAAATATAAAATAATAAA
Found at i:33573966 original size:10 final size:10
Alignment explanation
Indices: 33573953--33574101 Score: 52
Period size: 10 Copynumber: 15.4 Consensus size: 10
33573943 AATAAAATCT
33573953 AAAAATTATA
1 AAAAATTATA
33573963 AAAAATTAT-
1 AAAAATTATA
33573972 -AAAATTAATA
1 AAAAATT-ATA
33573982 AAACATATT-TA
1 AAA-A-ATTATA
**
33573993 AAATTTTAT-
1 AAAAATTATA
33574002 AAAAATGTAT-
1 AAAAAT-TATA
* * *
33574012 TAAAATTCTT
1 AAAAATTATA
*
33574022 AAAAACT-T-
1 AAAAATTATA
*
33574030 AAAAATCATA
1 AAAAATTATA
33574040 AAAAA--ATA
1 AAAAATTATA
33574048 ATTAAAA-TAT-
1 A--AAAATTATA
*
33574058 TAAAATTGATA
1 AAAAATT-ATA
* *
33574069 TAAAATTGT-
1 AAAAATTATA
33574078 AAAAATTATA
1 AAAAATTATA
*
33574088 AAAAATCATA
1 AAAAATTATA
33574098 AAAA
1 AAAA
33574102 CTTAAATTAG
Statistics
Matches: 107, Mismatches: 15, Indels: 34
0.69 0.10 0.22
Matches are distributed among these distances:
8 19 0.18
9 20 0.19
10 48 0.45
11 16 0.15
12 1 0.01
13 3 0.03
ACGTcount: A:0.62, C:0.03, G:0.02, T:0.32
Consensus pattern (10 bp):
AAAAATTATA
Found at i:33573967 original size:18 final size:19
Alignment explanation
Indices: 33573954--33574044 Score: 57
Period size: 21 Copynumber: 4.8 Consensus size: 19
33573944 ATAAAATCTA
33573954 AAAATT-ATAAAAAATTAT
1 AAAATTAATAAAAAATTAT
33573972 AAAATTAATAAAACATATT-T
1 AAAATTAATAAAA-A-ATTAT
*
33573992 AAAATT-TTATAAAAATGTATT
1 AAAATTAATA-AAAAAT-TA-T
** *
33574013 AAAATTCTTAAAAACTTA-
1 AAAATTAATAAAAAATTAT
*
33574031 AAAA-TCATAAAAAA
1 AAAATTAATAAAAAA
33574045 ATAATTAAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
17 8 0.13
18 12 0.20
19 10 0.16
20 13 0.21
21 15 0.25
22 3 0.05
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (19 bp):
AAAATTAATAAAAAATTAT
Found at i:33573974 original size:19 final size:19
Alignment explanation
Indices: 33573847--33574101 Score: 79
Period size: 20 Copynumber: 13.3 Consensus size: 19
33573837 CAAAATATTT
33573847 TAAAAAATTA-AAAAA-TA
1 TAAAAAATTATAAAAATTA
** *
33573864 TTTAAAA-TATTAAAATTGA
1 TAAAAAATTATAAAAATT-A
**
33573883 TCTAAAATTATAAAAATTA
1 TAAAAAATTATAAAAATTA
* *
33573902 TAAAATAATAATTTGTAAATATTA
1 T--AA-AA-AA-TTATAAAAATTA
*
33573926 TAAAAACA-TA-AAAAACTA
1 TAAAAA-ATTATAAAAATTA
* *
33573944 -ATAAAA-TCTAAAAATTA
1 TAAAAAATTATAAAAATTA
33573961 TAAAAAATTAT-AAAATTAA
1 TAAAAAATTATAAAAATT-A
*
33573980 TAAAACATATT-T-AAAATTT
1 TAAAA-A-ATTATAAAAATTA
* *
33573999 TATAAAAATGTATTAAAATTC
1 TA-AAAAAT-TATAAAAATTA
* * *
33574020 TTAAAAACT-TAAAAATCA
1 TAAAAAATTATAAAAATTA
* *
33574038 TAAAAAAATAATTAAAA-TA
1 T-AAAAAATTATAAAAATTA
* *
33574057 T-TAAAATTGATATAAAATTG
1 TAAAAAATT-ATA-AAAATTA
*
33574077 T-AAAAATTATAAAAAATCA
1 TAAAAAATTAT-AAAAATTA
33574096 TAAAAA
1 TAAAAA
33574102 CTTAAATTAG
Statistics
Matches: 175, Mismatches: 36, Indels: 51
0.67 0.14 0.19
Matches are distributed among these distances:
16 4 0.02
17 25 0.14
18 29 0.17
19 42 0.24
20 45 0.26
21 13 0.07
22 4 0.02
23 2 0.01
24 11 0.06
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (19 bp):
TAAAAAATTATAAAAATTA
Found at i:33574005 original size:21 final size:20
Alignment explanation
Indices: 33573958--33574018 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 20
33573948 AATCTAAAAA
33573958 TTATAAAAA-ATTATAAAA-T
1 TTATAAAAATATT-TAAAATT
*
33573977 TAATAAAACATATTTAAAATT
1 TTATAAAA-ATATTTAAAATT
*
33573998 TTATAAAAATGTATTAAAATT
1 TTATAAAAATAT-TTAAAATT
33574019 CTTAAAAACT
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
19 7 0.20
20 9 0.26
21 19 0.54
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TTATAAAAATATTTAAAATT
Found at i:33574835 original size:29 final size:29
Alignment explanation
Indices: 33574802--33574866 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
33574792 TATATATTTA
*
33574802 ATAATTTATTAAAATTTATTA-GTTTTTTT
1 ATAATTTATTAAAATTT-TTATGATTTTTT
* *
33574831 ATAATTTTTTAAAGTTTTTATGATTTTTT
1 ATAATTTATTAAAATTTTTATGATTTTTT
*
33574860 ATCATTT
1 ATAATTT
33574867 CTTTAAATGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 3 0.10
29 28 0.90
ACGTcount: A:0.31, C:0.02, G:0.05, T:0.63
Consensus pattern (29 bp):
ATAATTTATTAAAATTTTTATGATTTTTT
Found at i:33574838 original size:10 final size:10
Alignment explanation
Indices: 33574825--33574871 Score: 51
Period size: 10 Copynumber: 4.7 Consensus size: 10
33574815 ATTTATTAGT
33574825 TTTTTTATAA
1 TTTTTTATAA
33574835 TTTTTTA-AA
1 TTTTTTATAA
* *
33574844 GTTTTTATGA
1 TTTTTTATAA
*
33574854 TTTTTTATCA
1 TTTTTTATAA
33574864 TTTCTTTA
1 TTT-TTTA
33574872 AATGTATGTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
9 8 0.26
10 19 0.61
11 4 0.13
ACGTcount: A:0.23, C:0.04, G:0.04, T:0.68
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:33574905 original size:8 final size:9
Alignment explanation
Indices: 33574881--33574945 Score: 55
Period size: 9 Copynumber: 7.3 Consensus size: 9
33574871 AAATGTATGT
33574881 TAATTTTAA
1 TAATTTTAA
33574890 TAATTTTAA
1 TAATTTTAA
33574899 T-ATTTT-A
1 TAATTTTAA
*
33574906 TACTTTT-A
1 TAATTTTAA
*
33574914 TGATTTTTAA
1 T-AATTTTAA
*
33574924 TAATTTTTA
1 TAATTTTAA
*
33574933 TATATTTTTA
1 TA-ATTTTAA
33574943 TAA
1 TAA
33574946 AATTTTAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
7 2 0.04
8 11 0.23
9 24 0.50
10 11 0.23
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.62
Consensus pattern (9 bp):
TAATTTTAA
Found at i:33582101 original size:18 final size:18
Alignment explanation
Indices: 33582080--33582115 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
33582070 AAAAAAAGGG
33582080 TTTATATTATATTATAAA
1 TTTATATTATATTATAAA
33582098 TTTATATTATATTATAAA
1 TTTATATTATATTATAAA
33582116 AAGGATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTATATTATATTATAAA
Found at i:33587882 original size:120 final size:120
Alignment explanation
Indices: 33587685--33588667 Score: 1930
Period size: 120 Copynumber: 8.2 Consensus size: 120
33587675 TTTTCAAGTT
33587685 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
33587750 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
33587805 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
33587870 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
33587925 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
33587990 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
33588045 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
33588110 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
33588165 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
33588230 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
*
33588285 ATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
33588350 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
33588405 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
33588470 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
33588525 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
*
33588590 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
33588645 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
33588668 TAAATATGAT
Statistics
Matches: 858, Mismatches: 5, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 858 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (120 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATAGTTTAATTAAA
Found at i:33588524 original size:18 final size:17
Alignment explanation
Indices: 33588496--33588530 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33588486 ATTATTAAGA
*
33588496 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
33588513 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
33588531 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:33588644 original size:18 final size:17
Alignment explanation
Indices: 33588616--33588650 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
33588606 ATTATTAAGA
*
33588616 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
33588633 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
33588651 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:33588907 original size:16 final size:16
Alignment explanation
Indices: 33588886--33588953 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
33588876 GATTTGCTAT
33588886 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
33588902 TACACCTTTAATCCAA
1 TACACCTCTAATCCAA
* *
33588918 TACATCTCTAATCTAA
1 TACACCTCTAATCCAA
33588934 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
33588950 TACA
1 TACA
33588954 GCGAACCAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.38, C:0.32, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:33589967 original size:4 final size:4
Alignment explanation
Indices: 33589958--33589995 Score: 76
Period size: 4 Copynumber: 9.5 Consensus size: 4
33589948 AAAAACTAAA
33589958 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GT
33589996 GTGTGTTGTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:33594702 original size:27 final size:27
Alignment explanation
Indices: 33594664--33594717 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
33594654 TTTGGGGTTA
*
33594664 GTAGAAATAACTAGTGTTTATAAGTCT
1 GTAGAAATAACTAGTGCTTATAAGTCT
33594691 GTAGAAATAACTAGTGCTTATAAGTCT
1 GTAGAAATAACTAGTGCTTATAAGTCT
33594718 ACTAGTAGTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (27 bp):
GTAGAAATAACTAGTGCTTATAAGTCT
Found at i:33596430 original size:35 final size:35
Alignment explanation
Indices: 33596384--33596453 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
33596374 GAGTTATGCC
33596384 CCGAGTATTTTTGTGTACAATCTCAAATAAGATAT
1 CCGAGTATTTTTGTGTACAATCTCAAATAAGATAT
33596419 CCGAGTATTTTTGTGTACAATCTCAAATAAGATAT
1 CCGAGTATTTTTGTGTACAATCTCAAATAAGATAT
33596454 TGGACAGTAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.37
Consensus pattern (35 bp):
CCGAGTATTTTTGTGTACAATCTCAAATAAGATAT
Found at i:33611625 original size:50 final size:50
Alignment explanation
Indices: 33611514--33611690 Score: 184
Period size: 50 Copynumber: 3.6 Consensus size: 50
33611504 GGTAAAGAGG
* **
33611514 TCCCATGTAAGACCATGTCTGGAACATGGCATTGGCACCAAGATAAGAGGTC
1 TCCCATGTAAGACCATGTCTGGAACATGGCATTGGCACC--GATATGAGAAC
33611566 TCCC--GTAAGACCATGTCTGGAACATGGCATTGGCACCGATATGAGAAC
1 TCCCATGTAAGACCATGTCTGGAACATGGCATTGGCACCGATATGAGAAC
* * * * * *
33611614 TCCCATATAAGACTATATCTGGGATATGGCATTGGCA--G-TATAGAAAAC
1 TCCCATGTAAGACCATGTCTGGAACATGGCATTGGCACCGATAT-GAGAAC
* *
33611662 ATCCCATGTAAGACCATGTATGGGACATG
1 -TCCCATGTAAGACCATGTCTGGAACATG
33611691 AATTTGGCAT
Statistics
Matches: 107, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
47 3 0.03
48 18 0.17
49 23 0.21
50 59 0.55
52 4 0.04
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (50 bp):
TCCCATGTAAGACCATGTCTGGAACATGGCATTGGCACCGATATGAGAAC
Found at i:33614922 original size:19 final size:19
Alignment explanation
Indices: 33614898--33614936 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
33614888 TGCAGGAATT
33614898 AACTGATAAAGGTTTTGCA
1 AACTGATAAAGGTTTTGCA
33614917 AACTGATAAAGGTTTTGCA
1 AACTGATAAAGGTTTTGCA
33614936 A
1 A
33614937 GGCCTAGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.21, T:0.31
Consensus pattern (19 bp):
AACTGATAAAGGTTTTGCA
Found at i:33618869 original size:50 final size:50
Alignment explanation
Indices: 33618807--33618970 Score: 188
Period size: 50 Copynumber: 3.3 Consensus size: 50
33618797 TCCCGTTAAA
* *
33618807 ACATGGCGTTGGCACCGAGATGAAAGGTCCCATGTAAGACCATATCTTGG
1 ACATGGCATTGGCACCGAGATGAAAGGTCCCATGTAAGACCATATCTAGG
* * * *
33618857 ACATGGCATTGGCACCGAGATGAGAGGTTCCC-CGTAAGACCATGTCTGGG
1 ACATGGCATTGGCACCGAGATGAAAGG-TCCCATGTAAGACCATATCTAGG
* * * * *
33618907 ACATGACATGGGGACCGATATGAGAA-CTCCCATGTAAGACCATATCTAGG
1 ACATGGCATTGGCACCGAGATGA-AAGGTCCCATGTAAGACCATATCTAGG
*
33618957 ATATGGCATTGGCA
1 ACATGGCATTGGCA
33618971 GTACAGAAAA
Statistics
Matches: 93, Mismatches: 18, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
49 4 0.04
50 84 0.90
51 5 0.05
ACGTcount: A:0.29, C:0.22, G:0.28, T:0.21
Consensus pattern (50 bp):
ACATGGCATTGGCACCGAGATGAAAGGTCCCATGTAAGACCATATCTAGG
Found at i:33620905 original size:22 final size:20
Alignment explanation
Indices: 33620878--33620919 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
33620868 CCTGCCCGAT
33620878 TTTTAATAAACACAAAAAAATA
1 TTTTAA-AAACA-AAAAAAATA
*
33620900 TTTTAAAAATAAAAAAAATA
1 TTTTAAAAACAAAAAAAATA
33620920 AAAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 9 0.47
21 4 0.21
22 6 0.32
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.29
Consensus pattern (20 bp):
TTTTAAAAACAAAAAAAATA
Found at i:33620922 original size:8 final size:9
Alignment explanation
Indices: 33620904--33620928 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
33620894 AAAATATTTT
33620904 AAAAATAAA
1 AAAAATAAA
33620913 AAAAATAAA
1 AAAAATAAA
33620922 AAAAATA
1 AAAAATA
33620929 TTTTTAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
AAAAATAAA
Found at i:33620968 original size:8 final size:7
Alignment explanation
Indices: 33620944--33620980 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
33620934 AAAGTATTTT
33620944 AAAATTA
1 AAAATTA
33620951 AAAATTA
1 AAAATTA
33620958 AAAATTA
1 AAAATTA
*
33620965 AAAAATA
1 AAAATTA
33620972 AAAA-TA
1 AAAATTA
33620978 AAA
1 AAA
33620981 TATATTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 5 0.17
7 24 0.83
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (7 bp):
AAAATTA
Found at i:33625213 original size:28 final size:28
Alignment explanation
Indices: 33625191--33625248 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
33625181 TGTTTAGGGT
33625191 TTGAGTTTAATGTTTAAGAGTTTGGAGG
1 TTGAGTTTAATGTTTAAGAGTTTGGAGG
* *
33625219 TTGGGTTTAGTGTTTAATGA-TTTGG-GG
1 TTGAGTTTAATGTTTAA-GAGTTTGGAGG
33625246 TTG
1 TTG
33625249 TGGGTTCAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
27 5 0.19
28 20 0.74
29 2 0.07
ACGTcount: A:0.19, C:0.00, G:0.34, T:0.47
Consensus pattern (28 bp):
TTGAGTTTAATGTTTAAGAGTTTGGAGG
Found at i:33626050 original size:5 final size:5
Alignment explanation
Indices: 33626042--33626069 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
33626032 GGAAATACGA
33626042 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAA
33626070 GATGCAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:33626975 original size:13 final size:13
Alignment explanation
Indices: 33626957--33626999 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
33626947 TAGAATTTTC
33626957 CTAAATATTATCA
1 CTAAATATTATCA
*
33626970 CTAAATA--AT-T
1 CTAAATATTATCA
33626980 CTAAATATTATCA
1 CTAAATATTATCA
33626993 CTAAATA
1 CTAAATA
33627000 ATTCAAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.28
11 2 0.08
12 2 0.08
13 14 0.56
ACGTcount: A:0.49, C:0.14, G:0.00, T:0.37
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:33626983 original size:23 final size:23
Alignment explanation
Indices: 33626957--33627008 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
33626947 TAGAATTTTC
33626957 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
33626980 CTAAATATTATCACTAAATAATT
1 CTAAATATTATCACTAAATAATT
*
33627003 CAAAAT
1 CTAAAT
33627009 TTAAAAATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (23 bp):
CTAAATATTATCACTAAATAATT
Found at i:33631383 original size:20 final size:19
Alignment explanation
Indices: 33631335--33631383 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
33631325 AAAATAAAAT
*
33631335 AAAATAAAAATAGATTCAA
1 AAAATAAAAATAAATTCAA
* *
33631354 AAATACAAAAATAAATTTAA
1 AAA-ATAAAAATAAATTCAA
33631374 GAAAATAAAA
1 -AAAATAAAA
33631384 CAAATGGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 3 0.12
20 18 0.75
21 3 0.12
ACGTcount: A:0.71, C:0.04, G:0.04, T:0.20
Consensus pattern (19 bp):
AAAATAAAAATAAATTCAA
Found at i:33632226 original size:13 final size:13
Alignment explanation
Indices: 33632208--33632250 Score: 65
Period size: 13 Copynumber: 3.5 Consensus size: 13
33632198 TAGATTTTTC
33632208 CTAAATATTATCA
1 CTAAATATTATCA
33632221 CTAAATA--ATC-
1 CTAAATATTATCA
33632231 CTAAATATTATCA
1 CTAAATATTATCA
33632244 CTAAATA
1 CTAAATA
33632251 ATTCAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
10 7 0.26
11 3 0.11
12 3 0.11
13 14 0.52
ACGTcount: A:0.49, C:0.16, G:0.00, T:0.35
Consensus pattern (13 bp):
CTAAATATTATCA
Found at i:33632233 original size:23 final size:23
Alignment explanation
Indices: 33632206--33632252 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
33632196 GCTAGATTTT
33632206 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
33632229 TCCTAAATATTATCACTAAATAA
1 TCCTAAATATTATCACTAAATAA
33632252 T
1 T
33632253 TCAAAATTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.17, G:0.00, T:0.36
Consensus pattern (23 bp):
TCCTAAATATTATCACTAAATAA
Found at i:33632259 original size:23 final size:23
Alignment explanation
Indices: 33632210--33632259 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
33632200 GATTTTTCCT
*
33632210 AAATATTATCACTAAATAATCCT
1 AAATATTATCACTAAATAATCCA
*
33632233 AAATATTATCACTAAATAATTCA
1 AAATATTATCACTAAATAATCCA
33632256 AAAT
1 AAAT
33632260 TTAAAAATCA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (23 bp):
AAATATTATCACTAAATAATCCA
Found at i:33644114 original size:74 final size:74
Alignment explanation
Indices: 33644026--33644166 Score: 228
Period size: 74 Copynumber: 1.9 Consensus size: 74
33644016 CCAAATGAAT
* * *
33644026 ATTAAAACTAAATAAAATCTGTTTGGGGATTTATTCCCGCTGTTTAACAAATTTTATTCGATTTT
1 ATTAAAACTAAATAAAATCCGTTTGGGGATTTATTCCCGCTGTTCAACAAATTTTATTCCATTTT
33644091 TTTTTCCAA
66 TTTTTCCAA
* * *
33644100 ATTAAAAGTAAATAAAATCCGTTTTGGGATTTATTCCCGCTGTTCAACGAATTTTATTCCATTTT
1 ATTAAAACTAAATAAAATCCGTTTGGGGATTTATTCCCGCTGTTCAACAAATTTTATTCCATTTT
33644165 TT
66 TT
33644167 ATTATTTCTA
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
74 61 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.44
Consensus pattern (74 bp):
ATTAAAACTAAATAAAATCCGTTTGGGGATTTATTCCCGCTGTTCAACAAATTTTATTCCATTTT
TTTTTCCAA
Found at i:33644306 original size:89 final size:89
Alignment explanation
Indices: 33644100--33644597 Score: 489
Period size: 89 Copynumber: 5.7 Consensus size: 89
33644090 TTTTTTCCAA
* * * ** * *
33644100 ATTAAAAGT-AAATAAAATCCGTTTTGGGATTTATTCCCGCTGTTCAACGAATTTTATTCC-ATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCTACCGTTCAACGGATTTTATTCCAATT
* *** *
33644163 TT--TTATTATTTCTAAATGGGA-A
66 TTGATT-TTATTTCCAAAAACGAGT
* * * * * **
33644185 ATTAAAGTT-AAATAAAATTTGTTTCAGAATTTATTCCTATCGTTCAATAGATTTTATTCCAATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCTACCGTTCAACGGATTTTATTCCAATT
33644249 TTGATTTTATTTCCAAAAACGAGT
66 TTGATTTTATTTCCAAAAACGAGT
33644273 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCC-AGCCGTTCAACGGATTTTATTCCAAT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCTA-CCGTTCAACGGATTTTATTCCAAT
* * **
33644337 TTTCATTTCATTTTTAAAAACGAGT
65 TTTGATTTTATTTCCAAAAACGAGT
* * *
33644362 ATTAAAATTAAAATAAAATCTGTTTCGGAATTTATTCAC-GCCGTTCAACGAATTTTATTCCAAT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTC-CTACCGTTCAACGGATTTTATTCCAAT
* *
33644426 TTTGGTTTTATTTCCAAAAATGAGT
65 TTTGATTTTATTTCCAAAAACGAGT
* * *
33644451 ATTAAAATAAAAATAAAATCTGTTTCGAGATTTATT-CTCACCGTTCAACGGA-TTTATTAC-AT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCT-ACCGTTCAACGGATTTTATTCCAAT
* * * *
33644513 TTTGATTTTGTTGCCAAAAACAAGAA
65 TTTGATTTTATTTCCAAAAACGAG-T
* ** * * *
33644539 ATTAAAATT-AAATAAAATCTGTTCCAAGATTTATTCCTGCCGTTTAACAAGATTTTATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCTACCGTTCAAC-GGATTTTATT
33644598 TGATTTTATT
Statistics
Matches: 343, Mismatches: 57, Indels: 22
0.81 0.14 0.05
Matches are distributed among these distances:
85 46 0.13
86 5 0.01
87 66 0.19
88 30 0.09
89 195 0.57
90 1 0.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (89 bp):
ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCTACCGTTCAACGGATTTTATTCCAATT
TTGATTTTATTTCCAAAAACGAGT
Found at i:33644427 original size:178 final size:176
Alignment explanation
Indices: 33644100--33644597 Score: 557
Period size: 178 Copynumber: 2.8 Consensus size: 176
33644090 TTTTTTCCAA
* * * * * * *
33644100 ATTAAAAGT-AAATAAAATCCGTTTTGGGATTTATTCCCGCTGTTCAACGAATTTTATTCCATTT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCAGCCGTTCAACGGATTTTATTCCAATT
* *** * * *
33644164 TTTA-TTATTTCTAAATGGGA-AATTAAAGTTAAATAAAATTTGTTTCAGAATTTATTCCTATCG
66 TTCATTTATTTCTAAAAACGAGAATTAAAATTAAATAAAATCTGTTTCAGAATTTATTCCTACCG
*
33644227 TTCAATAGATTTTATTCCAATTTTGATTTTATTTCCAAAAACGAGT
131 TTCAAGAGATTTTATTCCAATTTTGATTTTATTTCCAAAAACGAGT
33644273 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCAGCCGTTCAACGGATTTTATTCCAATT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCAGCCGTTCAACGGATTTTATTCCAATT
* * * *
33644338 TTCATTTCATTTTTAAAAACGAGTATTAAAATTAAAATAAAATCTGTTTCGGAATTTATTCAC-G
66 TTCATTT-ATTTCTAAAAACGAGAATTAAAATT-AAATAAAATCTGTTTCAGAATTTATTC-CTA
* *
33644402 CCGTTCAACGA-ATTTTATTCCAATTTTGGTTTTATTTCCAAAAATGAGT
128 CCGTTCAA-GAGATTTTATTCCAATTTTGATTTTATTTCCAAAAACGAGT
* * *
33644451 ATTAAAATAAAAATAAAATCTGTTTCGAGATTTATTCTCA-CCGTTCAACGGA-TTTATTAC-AT
1 ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTC-CAGCCGTTCAACGGATTTTATTCCAAT
* * * *
33644513 TTTGATTT-TGTTGCCAAAAACAAGAAATTAAAATTAAATAAAATCTGTTCCA-AGATTTATTCC
65 TTTCATTTAT-TT-CTAAAAACGAG-AATTAAAATTAAATAAAATCTGTTTCAGA-ATTTATTCC
* * *
33644576 TGCCGTTTAACAAGATTTTATT
126 TACCGTTCAA-GAGATTTTATT
33644598 TGATTTTATT
Statistics
Matches: 278, Mismatches: 33, Indels: 24
0.83 0.10 0.07
Matches are distributed among these distances:
173 8 0.03
174 53 0.19
175 6 0.02
176 60 0.22
177 32 0.12
178 115 0.41
179 4 0.01
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (176 bp):
ATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCAGCCGTTCAACGGATTTTATTCCAATT
TTCATTTATTTCTAAAAACGAGAATTAAAATTAAATAAAATCTGTTTCAGAATTTATTCCTACCG
TTCAAGAGATTTTATTCCAATTTTGATTTTATTTCCAAAAACGAGT
Found at i:33644651 original size:84 final size:84
Alignment explanation
Indices: 33644184--33644947 Score: 489
Period size: 89 Copynumber: 8.9 Consensus size: 84
33644174 CTAAATGGGA
* ** * * **
33644184 AATTAAAGTTAAATAAAATTTGTTTC-AGAATTTATTCCTATCGTTCAA-TAGATTTTATTCCAA
1 AATTAAA-TTAAATAAAATCTGTTTCAAG-ATTTATTCCTGCCGTTTAACAAGATTTTATT-TGA
* *
33644247 TTTTGATTTTATTTCCAAA-AACG
63 TTTT-ATTTTGTTTCCAAATTA-G
** * * * *
33644270 AGTATTAAAATTAAAATAAAATCTGTTTCGGGATTTATTCCAGCCGTTCAAC-GGATTTTATTCC
1 A--ATT-AAATT-AAATAAAATCTGTTTCAAGATTTATTCCTGCCGTTTAACAAGATTTTATT-T
* * ** **
33644334 AATTTTCATTTCATTTTTAAAAACGAG
61 GATTTT-ATTT--TGTTTCCAAATTAG
* * * * *
33644361 TATTAAAATTAAAATAAAATCTGTTTC-GGAATTTATTCAC-GCCGTTCAACGA-ATTTTATTCC
1 AATT-AAATT-AAATAAAATCTGTTTCAAG-ATTTATTC-CTGCCGTTTAACAAGATTTTATT-T
* * * *
33644423 AATTTTGGTTTTATTTCCAAAAATGAG
61 GATTTT-ATTTTGTTTCC--AAATTAG
* * * * * * **
33644450 TATTAAAATAAAAATAAAATCTGTTTCGAGATTTATT-CTCACCGTTCAAC-GGA-TTTATTACA
1 AATT-AAAT-TAAATAAAATCTGTTTCAAGATTTATTCCT-GCCGTTTAACAAGATTTTATTTGA
* **
33644512 TTTTGATTTTGTTGCCAAAAACAAG
63 TTTT-ATTTTGTTTCC--AAATTAG
*
33644537 AAATTAAAATTAAATAAAATCTGTTCCAAGATTTATTCCTGCCGTTTAACAAGATTTTATTTGAT
1 -AATT-AAATTAAATAAAATCTGTTTCAAGATTTATTCCTGCCGTTTAACAAGATTTTATTTGAT
*
33644602 TTTATTTTGTTTCTAAATTAG
64 TTTATTTTGTTTCCAAATTAG
* *
33644623 AATTAAATTAAATAAAATCTGTTTCAAGATATATT-CTCGTCGTTTAACAAGATTTTATTTGATT
1 AATTAAATTAAATAAAATCTGTTTCAAGATTTATTCCT-GCCGTTTAACAAGATTTTATTTGATT
33644687 TTATTTTGTTTCCAAATTAG
65 TTATTTTGTTTCCAAATTAG
** * * *
33644707 AATTAAATTAAATAAAATCTGTTTTGAGATTTATCCCCGCCGTTTAACAAGATTTTATTTAATTT
1 AATTAAATTAAATAAAATCTGTTTCAAGATTTATTCCTGCCGTTTAACAAGATTTTATTTGATTT
* *
33644772 AATTTTGTTTCTAAATTAG
66 TATTTTGTTTCCAAATTAG
* * * * *
33644791 AATTAAATTAAATAAAATATGTTTCAAGATTT-TCCCT-CCATTTAACAAGATTTTATTCGATAT
1 AATTAAATTAAATAAAATCTGTTTCAAGATTTATTCCTGCCGTTTAACAAGATTTTATTTGATTT
* ** *
33644854 TGTTTTGTTTCCAAACAAA
66 TATTTTGTTTCCAAATTAG
* * * ** * * *
33644873 AACGT-AATCAAAT-AATTCTGTTTTGAGATTTATTCCCGTCGTTTAA-TAGATTTTATTTTGAT
1 AA-TTAAATTAAATAAAATCTGTTTCAAGATTTATTCCTGCCGTTTAACAAGATTTTA-TTTGAT
* *
33644935 ATAATTTTGTTTC
64 TTTATTTTGTTTC
33644948 AGGATTTAAT
Statistics
Matches: 565, Mismatches: 84, Indels: 61
0.80 0.12 0.09
Matches are distributed among these distances:
81 14 0.02
82 55 0.10
83 29 0.05
84 175 0.31
85 5 0.01
86 6 0.01
87 58 0.10
88 34 0.06
89 177 0.31
90 3 0.01
91 8 0.01
92 1 0.00
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (84 bp):
AATTAAATTAAATAAAATCTGTTTCAAGATTTATTCCTGCCGTTTAACAAGATTTTATTTGATTT
TATTTTGTTTCCAAATTAG
Found at i:33644739 original size:168 final size:167
Alignment explanation
Indices: 33644461--33644947 Score: 565
Period size: 168 Copynumber: 2.9 Consensus size: 167
33644451 ATTAAAATAA
* * * * *
33644461 AAATAAAATCTGTTTCGAGATTTATTCTCACCGTTCAAC-GGA-TTTATTACATTTTGATTTTGT
1 AAATAAAATCTGTTTCAAGA-TTATTCTCATCGTTTAACAAGATTTTATTAGATTTT-ATTTTGT
* *** *
33644524 TGCCAAAAACAAGAAATTAAAATTAAATAAAATCTGTTCCAAGATTTATTCCTGCCGTTTAACAA
64 TTCC--AAACAAG-AATT-AAATTAAATAAAATCTGTTTTGAGATTTATTCCCGCCGTTTAACAA
*
33644589 GATTTTATTTGATTTTATTTTGTTTCTAAATTAGAATTAAATT
125 GATTTTATTTGATTTAATTTTGTTTCTAAATTAGAATTAAATT
* *
33644632 AAATAAAATCTGTTTCAAGATATATTCTCGTCGTTTAACAAGATTTTATTTGATTTTATTTTGTT
1 AAATAAAATCTGTTTCAAGAT-TATTCTCATCGTTTAACAAGATTTTATTAGATTTTATTTTGTT
** *
33644697 TCCAAATTAGAATTAAATTAAATAAAATCTGTTTTGAGATTTATCCCCGCCGTTTAACAAGATTT
65 TCCAAACAAGAATTAAATTAAATAAAATCTGTTTTGAGATTTATTCCCGCCGTTTAACAAGATTT
*
33644762 TATTTAATTTAATTTTGTTTCTAAATTAGAATTAAATT
130 TATTTGATTTAATTTTGTTTCTAAATTAGAATTAAATT
* * * * * *
33644800 AAATAAAATATGTTTCAAGATT-TTC-CCTCCATTTAACAAGATTTTATTCGATATTGTTTTGTT
1 AAATAAAATCTGTTTCAAGATTATTCTCAT-CGTTTAACAAGATTTTATTAGATTTTATTTTGTT
* * * * * *
33644863 TCCAAACAAAAACGT-AATCAAAT-AATTCTGTTTTGAGATTTATTCCCGTCGTTTAA-TAGATT
65 TCCAAACAAGAA-TTAAATTAAATAAAATCTGTTTTGAGATTTATTCCCGCCGTTTAACAAGATT
*
33644925 TTATTTTGATATAATTTTGTTTC
129 TTA-TTTGATTTAATTTTGTTTC
33644948 AGGATTTAAT
Statistics
Matches: 276, Mismatches: 34, Indels: 18
0.84 0.10 0.05
Matches are distributed among these distances:
164 8 0.03
165 49 0.18
166 49 0.18
167 2 0.01
168 102 0.37
169 4 0.01
170 6 0.02
171 33 0.12
172 12 0.04
173 11 0.04
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (167 bp):
AAATAAAATCTGTTTCAAGATTATTCTCATCGTTTAACAAGATTTTATTAGATTTTATTTTGTTT
CCAAACAAGAATTAAATTAAATAAAATCTGTTTTGAGATTTATTCCCGCCGTTTAACAAGATTTT
ATTTGATTTAATTTTGTTTCTAAATTAGAATTAAATT
Found at i:33649537 original size:20 final size:20
Alignment explanation
Indices: 33649514--33649552 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
33649504 TATTTGGTTC
* *
33649514 TAATCAATTTGATTTGATTT
1 TAATCAAATTGATTCGATTT
33649534 TAATCAAATTGATTCGATT
1 TAATCAAATTGATTCGATT
33649553 GCCCCTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.08, G:0.10, T:0.49
Consensus pattern (20 bp):
TAATCAAATTGATTCGATTT
Found at i:33654408 original size:40 final size:40
Alignment explanation
Indices: 33654360--33654533 Score: 179
Period size: 40 Copynumber: 4.3 Consensus size: 40
33654350 GAATGAATTT
*
33654360 ACATATGTGCCCCTATTTGTACTTCGGTACCCCTGAATGC
1 ACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAATGC
* * * * ** *
33654400 TCATATGTGCCCTTGTTTGTACTTTAGTACCCCTAAATGC
1 ACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAATGC
* * *
33654440 ACATACATGCCCATGTTTGTACTTCGGTACCCCTGAATGC
1 ACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAATGC
* * * *
33654480 GCATACGTGCCCCTGA-ATGTACTTCGATACACCTGAATGC
1 ACATACGTGCCCCT-ATTTGTACTTCGGTACCCCTGAATGC
* *
33654520 ACTTACATGCCCCT
1 ACATACGTGCCCCT
33654534 GTTTATCCTC
Statistics
Matches: 110, Mismatches: 23, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
40 110 1.00
ACGTcount: A:0.22, C:0.30, G:0.17, T:0.32
Consensus pattern (40 bp):
ACATACGTGCCCCTATTTGTACTTCGGTACCCCTGAATGC
Found at i:33654501 original size:80 final size:80
Alignment explanation
Indices: 33654375--33654537 Score: 220
Period size: 80 Copynumber: 2.0 Consensus size: 80
33654365 TGTGCCCCTA
* * * ** *
33654375 TTTGTACTTCGGTACCCCTGAATGCTCATATGTGCCCTTGTTTGTACTTTAG-TACCCCTAAATG
1 TTTGTACTTCGGTACCCCTGAATGCGCATACGTGCCCCTGAATGTAC-TTAGATACACCTAAATG
33654439 CACATACATGCCCATG
65 CACATACATGCCCATG
* *
33654455 TTTGTACTTCGGTACCCCTGAATGCGCATACGTGCCCCTGAATGTACTTCGATACACCTGAATGC
1 TTTGTACTTCGGTACCCCTGAATGCGCATACGTGCCCCTGAATGTACTTAGATACACCTAAATGC
* *
33654520 ACTTACATGCCCCTG
66 ACATACATGCCCATG
33654535 TTT
1 TTT
33654538 ATCCTCTAGT
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
79 3 0.04
80 69 0.96
ACGTcount: A:0.21, C:0.29, G:0.17, T:0.33
Consensus pattern (80 bp):
TTTGTACTTCGGTACCCCTGAATGCGCATACGTGCCCCTGAATGTACTTAGATACACCTAAATGC
ACATACATGCCCATG
Found at i:33654534 original size:20 final size:20
Alignment explanation
Indices: 33654469--33654534 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
33654459 TACTTCGGTA
* * *
33654469 CCCCTGAATGCGCATACGTG
1 CCCCTGAATGCACTTACATG
* *
33654489 CCCCTGAATGTACTT-CGATA
1 CCCCTGAATGCACTTAC-ATG
*
33654509 CACCTGAATGCACTTACATG
1 CCCCTGAATGCACTTACATG
33654529 CCCCTG
1 CCCCTG
33654535 TTTATCCTCT
Statistics
Matches: 35, Mismatches: 9, Indels: 4
0.73 0.19 0.08
Matches are distributed among these distances:
19 1 0.03
20 33 0.94
21 1 0.03
ACGTcount: A:0.23, C:0.35, G:0.18, T:0.24
Consensus pattern (20 bp):
CCCCTGAATGCACTTACATG
Found at i:33656812 original size:15 final size:15
Alignment explanation
Indices: 33656792--33656829 Score: 76
Period size: 15 Copynumber: 2.5 Consensus size: 15
33656782 ACACAAGGTC
33656792 GTGTCACATGGCCAT
1 GTGTCACATGGCCAT
33656807 GTGTCACATGGCCAT
1 GTGTCACATGGCCAT
33656822 GTGTCACA
1 GTGTCACA
33656830 CACGGCTGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.21, C:0.26, G:0.26, T:0.26
Consensus pattern (15 bp):
GTGTCACATGGCCAT
Found at i:33657994 original size:25 final size:25
Alignment explanation
Indices: 33657966--33658055 Score: 103
Period size: 25 Copynumber: 3.6 Consensus size: 25
33657956 TCCTGTACAT
*
33657966 GTATGCTCATACGAGCTGTGAATCA
1 GTATGCTCATACGAGCTGTAAATCA
*
33657991 GTATGCTCACT-CGAGCTATAAATCA
1 GTATGCTCA-TACGAGCTGTAAATCA
**
33658016 GTATGCTC-TCACGAGCTGTAAATTG
1 GTATGCTCAT-ACGAGCTGTAAATCA
*
33658041 GTATGCTCACACGAG
1 GTATGCTCATACGAG
33658056 TTGTGGAGTA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
23 1 0.02
25 53 0.96
26 1 0.02
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
GTATGCTCATACGAGCTGTAAATCA
Found at i:33658955 original size:20 final size:20
Alignment explanation
Indices: 33658930--33658981 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
33658920 AAAGATGATA
33658930 TTAATTTACTTTTAATTTAC
1 TTAATTTACTTTTAATTTAC
* *
33658950 TTAATTTGTCATTT-ATTTAC
1 TTAATTT-ACTTTTAATTTAC
33658970 -TAA-TTACTTTTA
1 TTAATTTACTTTTA
33658982 TAACCTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
17 4 0.15
18 2 0.08
19 3 0.12
20 13 0.50
21 4 0.15
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.60
Consensus pattern (20 bp):
TTAATTTACTTTTAATTTAC
Found at i:33660841 original size:16 final size:16
Alignment explanation
Indices: 33660820--33660852 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
33660810 TTTTGTTATC
*
33660820 GTATTAACTTAATTTA
1 GTATTAACTGAATTTA
33660836 GTATTAACTGAATTTA
1 GTATTAACTGAATTTA
33660852 G
1 G
33660853 CTAACTCGGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (16 bp):
GTATTAACTGAATTTA
Found at i:33664890 original size:40 final size:40
Alignment explanation
Indices: 33664839--33664934 Score: 129
Period size: 40 Copynumber: 2.4 Consensus size: 40
33664829 TATATATGTC
* * **
33664839 CCCCCGTTTGTACTTCGGTACCCTTGAATGCACACACATG
1 CCCCTGTTTGTACTTCGGTACCCCTGAATGCACACACACA
* *
33664879 CCCCTGTTTGTACTTCGGTACCCCTGAATGCATATACACA
1 CCCCTGTTTGTACTTCGGTACCCCTGAATGCACACACACA
*
33664919 CCCCTGATTGTACTTC
1 CCCCTGTTTGTACTTC
33664935 AGTCCCTAAC
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.20, C:0.34, G:0.16, T:0.30
Consensus pattern (40 bp):
CCCCTGTTTGTACTTCGGTACCCCTGAATGCACACACACA
Found at i:33678738 original size:13 final size:13
Alignment explanation
Indices: 33678722--33678746 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33678712 TTTTACCTTC
33678722 TACTTTTGAAAAA
1 TACTTTTGAAAAA
33678735 TACTTTTGAAAA
1 TACTTTTGAAAA
33678747 GTTAAAAACT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
TACTTTTGAAAAA
Found at i:33680437 original size:21 final size:21
Alignment explanation
Indices: 33680411--33680475 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 21
33680401 TGCTATTTTT
33680411 TATATATTATATAATTTATAA
1 TATATATTATATAATTTATAA
*
33680432 TATATA-TAAATTAAATTTATAA
1 TATATATTATA-T-AATTTATAA
* *
33680454 TAGTATATAATATTA-TTATAA
1 TA-TATATTATATAATTTATAA
33680475 T
1 T
33680476 GTAAACATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
20 3 0.08
21 14 0.39
22 12 0.33
23 5 0.14
24 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TATATATTATATAATTTATAA
Found at i:33680451 original size:22 final size:24
Alignment explanation
Indices: 33680423--33680468 Score: 78
Period size: 22 Copynumber: 2.0 Consensus size: 24
33680413 TATATTATAT
33680423 AATTTATAATA-TATATAA-ATTA
1 AATTTATAATAGTATATAATATTA
33680445 AATTTATAATAGTATATAATATTA
1 AATTTATAATAGTATATAATATTA
33680469 TTATAATGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
22 11 0.50
23 7 0.32
24 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (24 bp):
AATTTATAATAGTATATAATATTA
Found at i:33690090 original size:27 final size:27
Alignment explanation
Indices: 33690059--33690115 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
33690049 TATTGGTTCC
33690059 TCAGTATACGTCAAATTAGGCTGAAAT
1 TCAGTATACGTCAAATTAGGCTGAAAT
33690086 TCAGTATACGTCAAATTAGGCTGAAAT
1 TCAGTATACGTCAAATTAGGCTGAAAT
33690113 TCA
1 TCA
33690116 ATCTCACTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (27 bp):
TCAGTATACGTCAAATTAGGCTGAAAT
Found at i:33690323 original size:45 final size:45
Alignment explanation
Indices: 33690259--33690350 Score: 184
Period size: 45 Copynumber: 2.0 Consensus size: 45
33690249 AATCTCGTAC
33690259 AGTCCGATAAATCTCGAACTCAGTTTCCCTTTACAGCCAAAACGT
1 AGTCCGATAAATCTCGAACTCAGTTTCCCTTTACAGCCAAAACGT
33690304 AGTCCGATAAATCTCGAACTCAGTTTCCCTTTACAGCCAAAACGT
1 AGTCCGATAAATCTCGAACTCAGTTTCCCTTTACAGCCAAAACGT
33690349 AG
1 AG
33690351 CACTTTCTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 47 1.00
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (45 bp):
AGTCCGATAAATCTCGAACTCAGTTTCCCTTTACAGCCAAAACGT
Found at i:33694889 original size:36 final size:36
Alignment explanation
Indices: 33694833--33694901 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
33694823 ACATCGATAT
* *
33694833 TCCAACCGAAACATACCAGATGCTTATAAGAGCTAA
1 TCCAACCGAAACATAACAGATGCTCATAAGAGCTAA
*
33694869 TCCATCCGAAACATAACAGATGCTCATAAGAGC
1 TCCAACCGAAACATAACAGATGCTCATAAGAGC
33694902 CAATACACCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.41, C:0.26, G:0.14, T:0.19
Consensus pattern (36 bp):
TCCAACCGAAACATAACAGATGCTCATAAGAGCTAA
Found at i:33704057 original size:14 final size:14
Alignment explanation
Indices: 33704038--33704067 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
33704028 GCCAGTATTC
33704038 TATGTTGGCATAAT
1 TATGTTGGCATAAT
*
33704052 TATGTTGGCTTAAT
1 TATGTTGGCATAAT
33704066 TA
1 TA
33704068 GTCTTCCTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.47
Consensus pattern (14 bp):
TATGTTGGCATAAT
Found at i:33704829 original size:8 final size:8
Alignment explanation
Indices: 33704816--33704841 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
33704806 GACCACGAAA
33704816 ATATTGGG
1 ATATTGGG
33704824 ATATTGGG
1 ATATTGGG
33704832 ATATTGGG
1 ATATTGGG
33704840 AT
1 AT
33704842 TAAGGTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.27, C:0.00, G:0.35, T:0.38
Consensus pattern (8 bp):
ATATTGGG
Found at i:33707828 original size:21 final size:21
Alignment explanation
Indices: 33707804--33707868 Score: 59
Period size: 21 Copynumber: 3.2 Consensus size: 21
33707794 GATAGTTCTA
33707804 TTTTACCAGGCAATTGGCTTT
1 TTTTACCAGGCAATTGGCTTT
* *
33707825 TTTTATCC--G---TTAGTTTT
1 TTTTA-CCAGGCAATTGGCTTT
33707842 ATTTTACCAGGCAATTGGCTTT
1 -TTTTACCAGGCAATTGGCTTT
33707864 TTTTA
1 TTTTA
33707869 TCCTGGTTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 14
0.65 0.08 0.27
Matches are distributed among these distances:
17 8 0.24
18 5 0.15
19 1 0.03
20 1 0.03
21 10 0.30
22 8 0.24
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.51
Consensus pattern (21 bp):
TTTTACCAGGCAATTGGCTTT
Found at i:33707850 original size:39 final size:39
Alignment explanation
Indices: 33707796--33707871 Score: 143
Period size: 39 Copynumber: 1.9 Consensus size: 39
33707786 GCCAATAAGA
33707796 TAGTTCTATTTTACCAGGCAATTGGCTTTTTTTATCCGT
1 TAGTTCTATTTTACCAGGCAATTGGCTTTTTTTATCCGT
*
33707835 TAGTTTTATTTTACCAGGCAATTGGCTTTTTTTATCC
1 TAGTTCTATTTTACCAGGCAATTGGCTTTTTTTATCC
33707872 TGGTTCTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.18, C:0.17, G:0.14, T:0.50
Consensus pattern (39 bp):
TAGTTCTATTTTACCAGGCAATTGGCTTTTTTTATCCGT
Found at i:33711772 original size:21 final size:20
Alignment explanation
Indices: 33711735--33711788 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
33711725 CGTAGCCTTG
*
33711735 TGTTGAGCCACAACAACCCTA
1 TGTTGAGCCATAACAA-CCTA
* *
33711756 TGTTGAGCCATATCAACCTG
1 TGTTGAGCCATAACAACCTA
*
33711776 TGTTTAGCCATAA
1 TGTTGAGCCATAA
33711789 AGCCTGCATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 14 0.50
21 14 0.50
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.28
Consensus pattern (20 bp):
TGTTGAGCCATAACAACCTA
Found at i:33711784 original size:20 final size:21
Alignment explanation
Indices: 33711733--33711788 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
33711723 CACGTAGCCT
*
33711733 TGTGTTGAGCCACAACAACCC
1 TGTGTTGAGCCATAACAACCC
* *
33711754 TATGTTGAGCCATATCAA-CC
1 TGTGTTGAGCCATAACAACCC
*
33711774 TGTGTTTAGCCATAA
1 TGTGTTGAGCCATAA
33711789 AGCCTGCATG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
20 14 0.48
21 15 0.52
ACGTcount: A:0.29, C:0.25, G:0.18, T:0.29
Consensus pattern (21 bp):
TGTGTTGAGCCATAACAACCC
Found at i:33715745 original size:37 final size:36
Alignment explanation
Indices: 33715660--33715751 Score: 130
Period size: 37 Copynumber: 2.5 Consensus size: 36
33715650 ATTTGGCGTC
*
33715660 TGAGCATTTGGCGTGTTATCGGTTGGATTAGCTCTT
1 TGAGCATTTGGCGTGTTTTCGGTTGGATTAGCTCTT
*
33715696 TGGAGCACTTGGCGTGTTTTCGGTTGGATTAGCTCTT
1 T-GAGCATTTGGCGTGTTTTCGGTTGGATTAGCTCTT
* *
33715733 ATGAGCGTTTGGCATGTTT
1 -TGAGCATTTGGCGTGTTT
33715752 CAGGTGGATT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
36 1 0.02
37 47 0.96
38 1 0.02
ACGTcount: A:0.13, C:0.14, G:0.32, T:0.41
Consensus pattern (36 bp):
TGAGCATTTGGCGTGTTTTCGGTTGGATTAGCTCTT
Found at i:33716924 original size:19 final size:19
Alignment explanation
Indices: 33716872--33716914 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
33716862 GTGTGTCCCT
33716872 TATTTT-TTGAAAATTTTCA
1 TATTTTCTTG-AAATTTTCA
*
33716891 TATTTTCTTGAAATTTTCT
1 TATTTTCTTGAAATTTTCA
33716910 TATTT
1 TATTT
33716915 GTTTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 19 0.86
20 3 0.14
ACGTcount: A:0.26, C:0.07, G:0.05, T:0.63
Consensus pattern (19 bp):
TATTTTCTTGAAATTTTCA
Found at i:33717289 original size:27 final size:26
Alignment explanation
Indices: 33717248--33717397 Score: 96
Period size: 27 Copynumber: 5.6 Consensus size: 26
33717238 CATTTTTCGT
*
33717248 CACAAGGTTTCCTTTATTCA-GATT-GC
1 CACAAGGCTTCCTTTA--CATGATTAGC
*
33717274 CACAAGGGCTTCCTTTACATGGTTAGC
1 CACAA-GGCTTCCTTTACATGATTAGC
*
33717301 CACAAAGGCTTCCTTTACATGGA-TA-A
1 CAC-AAGGCTTCCTTTACAT-GATTAGC
33717327 CATCAAAGGCTTCCTTTACATG-TATAGC
1 CA-C-AAGGCTTCCTTTACATGAT-TAGC
* * *
33717355 CACAAAGGCTCCCATTACAGAGATT-GC
1 CAC-AAGGCTTCCTTTACA-TGATTAGC
*
33717382 CACAAAGGCTTTCTTT
1 CAC-AAGGCTTCCTTT
33717398 TCAAATATGC
Statistics
Matches: 102, Mismatches: 11, Indels: 21
0.76 0.08 0.16
Matches are distributed among these distances:
25 2 0.02
26 11 0.11
27 81 0.79
28 7 0.07
29 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (26 bp):
CACAAGGCTTCCTTTACATGATTAGC
Found at i:33717388 original size:54 final size:53
Alignment explanation
Indices: 33717267--33717560 Score: 235
Period size: 54 Copynumber: 5.4 Consensus size: 53
33717257 TCCTTTATTC
*
33717267 AGATTGCCACAAGGGCTTCCTTTACATGGT-TAGCCACAAAGGCTTCC-TTTACATG
1 AGATTGCCACAAAGGCTTCCTTTACA-GGTAT-GCCACAAAGGCTTCCATTT-CA-G
** * * *
33717322 -GA-TAACATCAAAGGCTTCCTTTACATGTATAGCCACAAAGGCTCCCATTACAG
1 AGATTGCCA-CAAAGGCTTCCTTTACAGGTAT-GCCACAAAGGCTTCCATTTCAG
* * ** * *
33717375 AGATTGCCACAAAGGCTTTCTTTTCAAATATGCCACAAAGGTTTTCATTTC--
1 AGATTGCCACAAAGGCTTCCTTTACAGGTATGCCACAAAGGCTTCCATTTCAG
* * *
33717426 ATATGTGCCACAAAGGCTTCCATTT-TAGGTATGCCACAAAGGATTCCATTTCAG
1 AGAT-TGCCACAAAGGCTTCC-TTTACAGGTATGCCACAAAGGCTTCCATTTCAG
* * *
33717480 ATATTCGCCACAAAGGCTTTCCTTTCAGAGGTCTGCCACAAAGGCATTCC-TTTCAG
1 AGATT-GCCACAAAGGC-TTCCTTT-ACAGGTATGCCACAAAGGC-TTCCATTTCAG
*
33717536 AGGTTTGCCACAAAGGCTTTCCTTT
1 A-GATTGCCACAAAGGC-TTCCTTT
33717561 TCTGGTGTTT
Statistics
Matches: 196, Mismatches: 28, Indels: 29
0.77 0.11 0.11
Matches are distributed among these distances:
51 3 0.02
52 37 0.19
53 26 0.13
54 74 0.38
55 9 0.05
56 41 0.21
57 6 0.03
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.30
Consensus pattern (53 bp):
AGATTGCCACAAAGGCTTCCTTTACAGGTATGCCACAAAGGCTTCCATTTCAG
Found at i:33717493 original size:28 final size:27
Alignment explanation
Indices: 33717330--33717554 Score: 180
Period size: 26 Copynumber: 8.3 Consensus size: 27
33717320 TGGATAACAT
*
33717330 CAAAGGCTTCC-TTTACATG-TATAGCCA
1 CAAAGGCTTCCATTT-CA-GATATTGCCA
* * *
33717357 CAAAGGCTCCCATTACAGAGATTGCCA
1 CAAAGGCTTCCATTTCAGATATTGCCA
* * *
33717384 CAAAGGCTTTCTTTTCAAATA-TGCCA
1 CAAAGGCTTCCATTTCAGATATTGCCA
* *
33717410 CAAAGGTTTTCATTTC--ATATGTGCCA
1 CAAAGGCTTCCATTTCAGATAT-TGCCA
* *
33717436 CAAAGGCTTCCATTTTAGGTA-TGCCA
1 CAAAGGCTTCCATTTCAGATATTGCCA
*
33717462 CAAAGGATTCCATTTCAGATATTCGCCA
1 CAAAGGCTTCCATTTCAGATATT-GCCA
**
33717490 CAAAGGCTTTCC-TTTCAGAGGTCTGCCA
1 CAAAGGC-TTCCATTTCAGATAT-TGCCA
33717518 CAAAGGCATTCC-TTTCAGAGGT-TTGCCA
1 CAAAGGC-TTCCATTTCAGA--TATTGCCA
33717546 CAAAGGCTT
1 CAAAGGCTT
33717555 TCCTTTTCTG
Statistics
Matches: 162, Mismatches: 24, Indels: 24
0.77 0.11 0.11
Matches are distributed among these distances:
24 3 0.02
26 61 0.38
27 36 0.22
28 56 0.35
29 6 0.04
ACGTcount: A:0.28, C:0.25, G:0.17, T:0.29
Consensus pattern (27 bp):
CAAAGGCTTCCATTTCAGATATTGCCA
Found at i:33717557 original size:28 final size:27
Alignment explanation
Indices: 33717353--33717560 Score: 169
Period size: 28 Copynumber: 7.7 Consensus size: 27
33717343 TACATGTATA
* * *
33717353 GCCACAAAGGC-TCCCATTACAGAGATT
1 GCCACAAAGGCTTTCC-TTTCAGAGTTT
* * *
33717380 GCCACAAAGGCTTTCTTTTCA-AATAT
1 GCCACAAAGGCTTTCCTTTCAGAGTTT
* * * *
33717406 GCCACAAAGGTTTTCATTTCATA-TGT
1 GCCACAAAGGCTTTCCTTTCAGAGTTT
* *
33717432 GCCACAAAGGC-TTCCATTTTAG-GTAT
1 GCCACAAAGGCTTTCC-TTTCAGAGTTT
*
33717458 GCCACAAAGG-ATTCCATTTCAGA-TATT
1 GCCACAAAGGCTTTCC-TTTCAGAGT-TT
*
33717485 CGCCACAAAGGCTTTCCTTTCAGAGGTCT
1 -GCCACAAAGGCTTTCCTTTCAGA-GTTT
*
33717514 GCCACAAAGGCATTCCTTTCAGAGGTTT
1 GCCACAAAGGCTTTCCTTTCAGA-GTTT
33717542 GCCACAAAGGCTTTCCTTT
1 GCCACAAAGGCTTTCCTTT
33717561 TCTGGTGTTT
Statistics
Matches: 149, Mismatches: 21, Indels: 21
0.78 0.11 0.11
Matches are distributed among these distances:
25 3 0.02
26 60 0.40
27 17 0.11
28 63 0.42
29 5 0.03
30 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.30
Consensus pattern (27 bp):
GCCACAAAGGCTTTCCTTTCAGAGTTT
Found at i:33720988 original size:32 final size:31
Alignment explanation
Indices: 33720952--33721027 Score: 82
Period size: 33 Copynumber: 2.4 Consensus size: 31
33720942 ACTTTTCCGA
* *
33720952 AAAATATTTTCAGGAAATT-TCCTAAACAGCAG
1 AAAATATTTTCA-CAAATTATCC-AAACACCAG
*
33720984 AAAATATTTTACACAGATTCATCCAAACACCAG
1 AAAATATTTT-CACAAATT-ATCCAAACACCAG
33721017 AAAATATTTTC
1 AAAATATTTTC
33721028 CAGTAATTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
32 15 0.39
33 20 0.53
34 3 0.08
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (31 bp):
AAAATATTTTCACAAATTATCCAAACACCAG
Found at i:33721083 original size:34 final size:35
Alignment explanation
Indices: 33721017--33721083 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
33721007 CAAACACCAG
*
33721017 AAAATATTTTCCAGTAATTCATTTTACAGAAAAGT
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
33721052 AAAATATTTTTCAG-AAATCATTTTACGGAAAA
1 AAAATATTTTCCAGTAAATCATTTTACAGAAAA
33721084 CATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (35 bp):
AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:33722737 original size:17 final size:17
Alignment explanation
Indices: 33722715--33722748 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
33722705 TATCAGTTGC
*
33722715 TATTTCAATAGCATTTT
1 TATTTCAATAACATTTT
33722732 TATTTCAATAACATTTT
1 TATTTCAATAACATTTT
33722749 CCATTTCAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.12, G:0.03, T:0.53
Consensus pattern (17 bp):
TATTTCAATAACATTTT
Found at i:33722756 original size:18 final size:17
Alignment explanation
Indices: 33722716--33722757 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
33722706 ATCAGTTGCT
* *
33722716 ATTTCAATAGCATTTTT
1 ATTTCAATAACATTTTC
33722733 ATTTCAATAACATTTTCC
1 ATTTCAATAACATTTT-C
33722751 ATTTCAA
1 ATTTCAA
33722758 AATCAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.33, C:0.17, G:0.02, T:0.48
Consensus pattern (17 bp):
ATTTCAATAACATTTTC
Found at i:33724092 original size:35 final size:34
Alignment explanation
Indices: 33724052--33724265 Score: 108
Period size: 35 Copynumber: 5.9 Consensus size: 34
33724042 AAATGCGACG
*
33724052 TTAAAAGGTTGGGATAGACAGGTTCTAAGGCAACC
1 TTAAAAGGTTGGGATAGACACG-TCTAAGGCAACC
* * *
33724087 TTAAAAGGGTTGAGATAGACTCGTCTAAGTCTATGCTGACC
1 TTAAAA-GGTTGGGATAGACACGTCTAAG-----GC-AACC
* * * * * * *
33724128 TTTAAAGAGTT-GGATCATGCCCATGTCAAATGCGACGT
1 TTAAAAG-GTTGGGAT-A-G-ACACGTCTAAGGCAAC-C
* * *
33724166 TTAAAAGGTTGGGATAGATAGGTTGTAAGGCAACC
1 TTAAAAGGTTGGGATAGACACG-TCTAAGGCAACC
* *
33724201 TTAAAAGGGTTAGAATAGAC-CTGTCTAAGGCAACC
1 TTAAAA-GGTTGGGATAGACAC-GTCTAAGGCAACC
*
33724236 TTCAAAAGGTTAGGATAGACACGTCTAAGG
1 TT-AAAAGGTTGGGATAGACACGTCTAAGG
33724266 TAATTTTTTT
Statistics
Matches: 134, Mismatches: 27, Indels: 36
0.68 0.14 0.18
Matches are distributed among these distances:
35 53 0.40
36 37 0.28
37 7 0.05
38 12 0.09
40 6 0.04
41 12 0.09
42 1 0.01
43 6 0.04
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (34 bp):
TTAAAAGGTTGGGATAGACACGTCTAAGGCAACC
Found at i:33724219 original size:114 final size:113
Alignment explanation
Indices: 33724005--33724229 Score: 355
Period size: 114 Copynumber: 2.0 Consensus size: 113
33723995 AAAGCATACA
*
33724005 TATGCCGACCTTTAAAGAGTTGGGTCATGCCCACATCAAATGCGACGTTAAAAGGTTGGGATAGA
1 TATGCCGACCTTTAAAGAGTTGGATCATGCCCACATCAAATGCGACGTTAAAAGGTTGGGATAGA
33724070 CAGGTTCTAAGGCAACCTTAAAAGGGTTGAGATAGA-CTCGTCTAAGTC
66 CAGGTTCTAAGGCAACCTTAAAAGGGTTGAGATAGACCT-GTCTAAGTC
* **
33724118 TATGCTGACCTTTAAAGAGTTGGATCATGCCCATGTCAAATGCGACGTTTAAAAGGTTGGGATAG
1 TATGCCGACCTTTAAAGAGTTGGATCATGCCCACATCAAATGCGACG-TTAAAAGGTTGGGATAG
* *
33724183 ATAGGTTGTAAGGCAACCTTAAAAGGGTT-AGAATAGACCTGTCTAAG
65 ACAGGTTCTAAGGCAACCTTAAAAGGGTTGAG-ATAGACCTGTCTAAG
33724230 GCAACCTTCA
Statistics
Matches: 103, Mismatches: 6, Indels: 5
0.90 0.05 0.04
Matches are distributed among these distances:
113 45 0.44
114 56 0.54
115 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.26, T:0.26
Consensus pattern (113 bp):
TATGCCGACCTTTAAAGAGTTGGATCATGCCCACATCAAATGCGACGTTAAAAGGTTGGGATAGA
CAGGTTCTAAGGCAACCTTAAAAGGGTTGAGATAGACCTGTCTAAGTC
Found at i:33725111 original size:39 final size:39
Alignment explanation
Indices: 33725062--33725139 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
33725052 ACCAAACTTG
* *
33725062 AATATTCTAACAACTTACGACTACTAAATCCAAAGATAA
1 AATATACTAACAACTTACAACTACTAAATCCAAAGATAA
33725101 AATATACTAACAACTTACAACTACTAAATCCAAAGATAA
1 AATATACTAACAACTTACAACTACTAAATCCAAAGATAA
33725140 CTATTCTCTT
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:0.51, C:0.21, G:0.04, T:0.24
Consensus pattern (39 bp):
AATATACTAACAACTTACAACTACTAAATCCAAAGATAA
Found at i:33732095 original size:12 final size:12
Alignment explanation
Indices: 33732078--33732102 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33732068 GTCCGTATTG
33732078 AACTTAAATTTT
1 AACTTAAATTTT
33732090 AACTTAAATTTT
1 AACTTAAATTTT
33732102 A
1 A
33732103 GTTACAACAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (12 bp):
AACTTAAATTTT
Found at i:33732372 original size:21 final size:20
Alignment explanation
Indices: 33732334--33732372 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
33732324 TGTTGGTGAT
*
33732334 CATTTGGTCATGTTTTGTGC
1 CATTTGGTCATGTCTTGTGC
*
33732354 CATTTGAGTTATGTCTTGT
1 CATTTG-GTCATGTCTTGT
33732373 TTTGGATGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.38
21 10 0.62
ACGTcount: A:0.13, C:0.13, G:0.23, T:0.51
Consensus pattern (20 bp):
CATTTGGTCATGTCTTGTGC
Found at i:33736807 original size:18 final size:18
Alignment explanation
Indices: 33736767--33736807 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
33736757 TTAATCTTTG
33736767 ATTTA-TTATTTTATTTT
1 ATTTATTTATTTTATTTT
*
33736784 AGTTATTTATTTTAATTTT
1 ATTTATTTATTTT-ATTTT
33736803 -TTTAT
1 ATTTAT
33736808 CTGACTTGGA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 4 0.20
18 11 0.55
19 5 0.25
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (18 bp):
ATTTATTTATTTTATTTT
Found at i:33739945 original size:28 final size:28
Alignment explanation
Indices: 33739899--33739955 Score: 89
Period size: 28 Copynumber: 2.0 Consensus size: 28
33739889 TATAGTTTTT
33739899 ATAATAATTATAAAGGTTATAATAATAA
1 ATAATAATTATAAAGGTTATAATAATAA
*
33739927 ATAATATATTATAAA-GTTATTATAATAA
1 ATAATA-ATTATAAAGGTTATAATAATAA
33739955 A
1 A
33739956 AAAACAAACA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 19 0.70
29 8 0.30
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.39
Consensus pattern (28 bp):
ATAATAATTATAAAGGTTATAATAATAA
Found at i:33740942 original size:21 final size:22
Alignment explanation
Indices: 33740916--33740958 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
33740906 GAGTTGAAAT
33740916 TAAAGTTATGAAT-TAT-ATATA
1 TAAAGTT-TGAATGTATGATATA
33740937 TAAAGTTTGAATGTATGATATA
1 TAAAGTTTGAATGTATGATATA
33740959 AGTTCTTTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 5 0.25
21 10 0.50
22 5 0.25
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (22 bp):
TAAAGTTTGAATGTATGATATA
Found at i:33740957 original size:20 final size:21
Alignment explanation
Indices: 33740916--33740959 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 21
33740906 GAGTTGAAAT
*
33740916 TAAAGTTATGAATTATATATA
1 TAAAGTTATGAATTATAGATA
33740937 TAAAGTT-TGAATGTAT-GATA
1 TAAAGTTATGAAT-TATAGATA
33740957 TAA
1 TAA
33740960 GTTCTTTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 11 0.52
21 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (21 bp):
TAAAGTTATGAATTATAGATA
Found at i:33741111 original size:64 final size:63
Alignment explanation
Indices: 33741008--33741202 Score: 233
Period size: 64 Copynumber: 3.1 Consensus size: 63
33740998 TATGCACATA
* *
33741008 TGGTTCAAATATA--TATATAAAGTTCTTGAGCTGTATTTAATGTATGAATTTTATATACATATG
1 TGGTTCAAATATAGGT-TACAAAGTTCTTGAGCTGAATTTAATGT-TGAATTTTATATACATATG
*
33741071 TGGTTCAAATATAGGTTACAAAGTT-TTGGAGCTGAATTTAATGTGTGAATTTTACATACATATG
1 TGGTTCAAATATAGGTTACAAAGTTCTT-GAGCTGAATTTAATGT-TGAATTTTATATACATATG
* *
33741135 TGGTTCGAATATAGGTTACAAA-TTCTTTGAGCTGAATTTTAATGTTGTAA--AT-TATACATAT
1 TGGTTCAAATATAGGTTACAAAGTTC-TTGAGCTGAA-TTTAATGTTG-AATTTTATATACATAT
33741196 G
63 G
33741197 TGGTTC
1 TGGTTC
33741203 GAATGTTTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 15
0.84 0.05 0.11
Matches are distributed among these distances:
62 15 0.13
63 18 0.15
64 72 0.61
65 13 0.11
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (63 bp):
TGGTTCAAATATAGGTTACAAAGTTCTTGAGCTGAATTTAATGTTGAATTTTATATACATATG
Found at i:33749333 original size:6 final size:6
Alignment explanation
Indices: 33749317--33749359 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
33749307 CCCAAAAGAG
* *
33749317 AATTTT CATTTT AATTTT AATTTT -ATTTCC AATTTT AATTTT A
1 AATTTT AATTTT AATTTT AATTTT AATTT-T AATTTT AATTTT A
33749360 TTATTTTGTG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
5 4 0.13
6 23 0.74
7 4 0.13
ACGTcount: A:0.30, C:0.07, G:0.00, T:0.63
Consensus pattern (6 bp):
AATTTT
Found at i:33750805 original size:19 final size:19
Alignment explanation
Indices: 33750781--33750820 Score: 64
Period size: 19 Copynumber: 2.1 Consensus size: 19
33750771 ATCTCATCTC
33750781 ATTCA-TTGCATTTAGATTA
1 ATTCATTTGCATTTAG-TTA
33750800 ATTCATTTGCATTTAGTTA
1 ATTCATTTGCATTTAGTTA
33750819 AT
1 AT
33750821 AATAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (19 bp):
ATTCATTTGCATTTAGTTA
Found at i:33757707 original size:14 final size:14
Alignment explanation
Indices: 33757688--33757721 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
33757678 ATTCCCCAAA
*
33757688 AGCGCGTCCACGTC
1 AGCGCGTCCACATC
33757702 AGCGCGTCCACATC
1 AGCGCGTCCACATC
33757716 AGCGCG
1 AGCGCG
33757722 ATGTCAGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.18, C:0.41, G:0.29, T:0.12
Consensus pattern (14 bp):
AGCGCGTCCACATC
Found at i:33757981 original size:22 final size:21
Alignment explanation
Indices: 33757953--33758045 Score: 116
Period size: 22 Copynumber: 4.2 Consensus size: 21
33757943 AACTAAATCC
*
33757953 TTTCTCTCAATTTCTCTCTAA
1 TTTCTCTCAATTTCTCTCAAA
33757974 TATTCTCTCAAATTTCTCTCAAA
1 T-TTCTCTC-AATTTCTCTCAAA
*
33757997 TTTCTCTCAATTTCCTCTC-GA
1 TTTCTCTCAATTT-CTCTCAAA
33758018 TTTCCTCTCAATTTCCTCTCAAA
1 TTT-CTCTCAATTT-CTCTCAAA
33758041 TTTCT
1 TTTCT
33758046 ATTTAAAATA
Statistics
Matches: 64, Mismatches: 3, Indels: 9
0.84 0.04 0.12
Matches are distributed among these distances:
21 10 0.16
22 37 0.58
23 17 0.27
ACGTcount: A:0.20, C:0.30, G:0.01, T:0.48
Consensus pattern (21 bp):
TTTCTCTCAATTTCTCTCAAA
Found at i:33757992 original size:11 final size:10
Alignment explanation
Indices: 33757953--33758045 Score: 105
Period size: 11 Copynumber: 8.5 Consensus size: 10
33757943 AACTAAATCC
33757953 TTTCTCTCAA
1 TTTCTCTCAA
33757963 TTTCTCTCTAA
1 TTTCTCTC-AA
33757974 TATTCTCTCAAA
1 T-TTCTCTC-AA
33757986 TTTCTCTCAAA
1 TTTCTCTC-AA
33757997 TTTCTCTCAA
1 TTTCTCTCAA
*
33758007 TTTCCTCTCGA
1 TTT-CTCTCAA
33758018 TTTCCTCTCAA
1 TTT-CTCTCAA
33758029 TTTCCTCTCAAA
1 TTT-CTCTC-AA
33758041 TTTCT
1 TTTCT
33758046 ATTTAAAATA
Statistics
Matches: 76, Mismatches: 3, Indels: 7
0.88 0.03 0.08
Matches are distributed among these distances:
10 13 0.17
11 48 0.63
12 15 0.20
ACGTcount: A:0.20, C:0.30, G:0.01, T:0.48
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:33758026 original size:44 final size:44
Alignment explanation
Indices: 33757953--33758045 Score: 129
Period size: 44 Copynumber: 2.1 Consensus size: 44
33757943 AACTAAATCC
33757953 TTTCTCTCAATTTCTCTCTAATATTCTCTCAAATTT-CTCTCAAA
1 TTTCTCTCAATTTCTCTCTAATATTCTCTC-AATTTCCTCTCAAA
*
33757997 TTTCTCTCAATTTC-CTCTCGAT-TTCCTCTCAATTTCCTCTCAAA
1 TTTCTCTCAATTTCTCTCT-AATATT-CTCTCAATTTCCTCTCAAA
33758041 TTTCT
1 TTTCT
33758046 ATTTAAAATA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
43 11 0.24
44 34 0.76
ACGTcount: A:0.20, C:0.30, G:0.01, T:0.48
Consensus pattern (44 bp):
TTTCTCTCAATTTCTCTCTAATATTCTCTCAATTTCCTCTCAAA
Found at i:33762424 original size:21 final size:21
Alignment explanation
Indices: 33762400--33762454 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
33762390 CACCGACAAG
* * * *
33762400 CAGATTCCCTACCGGAGGAAC
1 CAGAATCCCCACCAGAGCAAC
33762421 CAGAATCCCCACCAGAGCAAC
1 CAGAATCCCCACCAGAGCAAC
* *
33762442 CACAACCCCCACC
1 CAGAATCCCCACC
33762455 GAAGGCTAGA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.33, C:0.45, G:0.15, T:0.07
Consensus pattern (21 bp):
CAGAATCCCCACCAGAGCAAC
Found at i:33762609 original size:34 final size:33
Alignment explanation
Indices: 33762569--33762667 Score: 98
Period size: 34 Copynumber: 3.0 Consensus size: 33
33762559 GAATATTTTG
33762569 ATATTATTTGATGTAATAAAATAGAAATTCTTCT
1 ATATTATTT-ATGTAATAAAATAGAAATTCTTCT
* * *
33762603 ATATTATTCCATGTACTAAAATAGAAATT-TACT
1 ATATTATT-TATGTAATAAAATAGAAATTCTTCT
* *
33762636 -TATACATTT-T-TAATATAATAGAAATTCTTCT
1 ATAT-TATTTATGTAATAAAATAGAAATTCTTCT
33762667 A
1 A
33762668 ATAAGGCAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
30 14 0.26
31 4 0.08
32 3 0.06
33 6 0.11
34 26 0.49
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.43
Consensus pattern (33 bp):
ATATTATTTATGTAATAAAATAGAAATTCTTCT
Found at i:33765896 original size:126 final size:126
Alignment explanation
Indices: 33765665--33766080 Score: 690
Period size: 126 Copynumber: 3.3 Consensus size: 126
33765655 CCAAACATGT
* * *
33765665 GCTATTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTACTGGCAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* *
33765730 GCTTAAAGCGTTTTTGACACTATTTGCTTAAAAACCTCTACTCGAAATTATTTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
*
33765791 GCTACTGTAGCAAAAGCCCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* * *
33765856 ACTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCAAAATTA-TTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
*
33765916 GCTACTGTAGCAAAAGCGCGTCCACGTGGTAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* *
33765981 GCTTAAAGTGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATCTTTTCAGGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
* * *
33766042 GCTACTATAGCAAGAGTGCGTCCACGTGGGAGCTTCTTT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
33766081 AAATTAACAA
Statistics
Matches: 269, Mismatches: 20, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
125 119 0.44
126 150 0.56
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.32
Consensus pattern (126 bp):
GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
GCTTAAAGCGTTTTTGACACTATTTGCTCAAAAACGTCTACTCGAAATTATTTTTTCAGGA
Found at i:33766261 original size:96 final size:96
Alignment explanation
Indices: 33766119--33766394 Score: 310
Period size: 96 Copynumber: 2.9 Consensus size: 96
33766109 CCTAAACCCC
* *
33766119 AAACCCTAATTTATTTGAGTTTTTACTTAAAAACACTAAACACTAAACCCTAATCTAATTTTGTA
1 AAACCCTAATTTATTT-AATTTTTACTTAAAAACACTTAACACTAAACCCTAATCTAATTTTGTA
33766184 AAAATTTATAATTAATTTACTCAAGTAA-CTCT
65 AAAATTTATAATTAATTTACTCAAGTAACCT-T
* * * * * * *
33766216 GAACCCTAATTTATTTAATTTTTCCTTAAAAACCCTTAACTCTAAACTCTTATCTGATTTT-TAA
1 AAACCCTAATTTATTTAATTTTTACTTAAAAACACTTAACACTAAACCCTAATCTAATTTTGTAA
*
33766280 ATAATTTTTAATTAATTTACTCAAGTAACCTT
66 A-AATTTATAATTAATTTACTCAAGTAACCTT
* * * * * *
33766312 AAACTCTAATTTAATTAATTTTTTCTTAAAAA-AATAATAAACACGAAA-CCTAATCCAATTTTG
1 AAACCCTAATTTATTTAATTTTTACTTAAAAACACT--T-AACACTAAACCCTAATCTAATTTTG
*
33766375 -AAAATTTTATAATTAATTTA
63 TAAAAATTTATAATTAATTTA
33766395 ATTGACAAAC
Statistics
Matches: 149, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
95 5 0.03
96 106 0.71
97 31 0.21
98 7 0.05
ACGTcount: A:0.41, C:0.15, G:0.03, T:0.41
Consensus pattern (96 bp):
AAACCCTAATTTATTTAATTTTTACTTAAAAACACTTAACACTAAACCCTAATCTAATTTTGTAA
AAATTTATAATTAATTTACTCAAGTAACCTT
Done.