Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 210 of 438
Found at i:65082536 original size:40 final size:40
Alignment explanation
Indices: 65082477--65082661 Score: 221
Period size: 40 Copynumber: 4.6 Consensus size: 40
65082467 AAACCAAGTA
* * *
65082477 CCTTCGAGATTTAG-CCGGATATCGCAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * *
65082516 CCTTCGGGACTTAACCCGGATATAGTAACTCGCACACATG
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
* * *
65082556 CCTTCGGGTCTTAGCCCGGAAATAGTC-ACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATG
*
65082596 CCTTCGGGACTTAGCCCGGGTATAGCAACTACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGC-A--ACTCGCACAAATG
*
65082639 CCTTCGAGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
65082662 CATCCGAATA
Statistics
Matches: 122, Mismatches: 18, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
39 12 0.10
40 77 0.63
43 33 0.27
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATG
Found at i:65085630 original size:28 final size:28
Alignment explanation
Indices: 65085597--65085655 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
65085587 TCGATCATTC
65085597 ACTCTACAACTGGCTATTCACCATTTGA
1 ACTCTACAACTGGCTATTCACCATTTGA
65085625 ACTCTACAACTGGCTATTCACCATTTGA
1 ACTCTACAACTGGCTATTCACCATTTGA
65085653 ACT
1 ACT
65085656 TGTTTATGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.32
Consensus pattern (28 bp):
ACTCTACAACTGGCTATTCACCATTTGA
Found at i:65089160 original size:11 final size:11
Alignment explanation
Indices: 65089144--65089171 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
65089134 GATAGACAAC
65089144 ATTTTCACTTG
1 ATTTTCACTTG
65089155 ATTTTCACTTG
1 ATTTTCACTTG
65089166 ATTTTC
1 ATTTTC
65089172 CCTTTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.18, C:0.18, G:0.07, T:0.57
Consensus pattern (11 bp):
ATTTTCACTTG
Found at i:65093207 original size:13 final size:13
Alignment explanation
Indices: 65093172--65093210 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
65093162 TCATATTTAA
65093172 AAAAATTATTTTT
1 AAAAATTATTTTT
65093185 AAATAA--ATTTTT
1 AAA-AATTATTTTT
65093197 AAAAATTATTTTT
1 AAAAATTATTTTT
65093210 A
1 A
65093211 TTTTATTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 2 0.09
12 9 0.39
13 10 0.43
14 2 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
AAAAATTATTTTT
Found at i:65101287 original size:21 final size:22
Alignment explanation
Indices: 65101247--65101296 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 22
65101237 TACAAATTAA
*
65101247 AACACAAACTTATAAAAACATAT
1 AACACAAACTAATAAAAACAT-T
65101270 AACACAAA-TAAT-AAAACATT
1 AACACAAACTAATAAAAACATT
65101290 AA-ACAAA
1 AACACAAA
65101297 AGTTGATCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 5 0.19
20 3 0.12
21 7 0.27
22 3 0.12
23 8 0.31
ACGTcount: A:0.66, C:0.16, G:0.00, T:0.18
Consensus pattern (22 bp):
AACACAAACTAATAAAAACATT
Found at i:65102042 original size:20 final size:21
Alignment explanation
Indices: 65102003--65102044 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
65101993 CATTGATATA
*
65102003 CAAAAAGTATTAATACCTTTT
1 CAAAAAGTATCAATACCTTTT
* *
65102024 CAAAAAGTATCGATACTTTTT
1 CAAAAAGTATCAATACCTTTT
65102045 ACCAGGTATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.14, G:0.07, T:0.38
Consensus pattern (21 bp):
CAAAAAGTATCAATACCTTTT
Found at i:65110117 original size:3 final size:3
Alignment explanation
Indices: 65110109--65110140 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
65110099 TAGTGCAATG
65110109 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
65110141 GAAGAAAACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:65110502 original size:24 final size:23
Alignment explanation
Indices: 65110455--65110504 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
65110445 TAAAGTAAGT
*
65110455 TATATATTATTTTTTTAATATTA
1 TATATATGATTTTTTTAATATTA
65110478 TATATAATGATTTTTATTAAT-TTA
1 TATAT-ATGATTTTT-TTAATATTA
65110502 TAT
1 TAT
65110505 TTTAAAAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 5 0.21
24 14 0.58
25 5 0.21
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TATATATGATTTTTTTAATATTA
Found at i:65110625 original size:59 final size:59
Alignment explanation
Indices: 65110478--65110625 Score: 210
Period size: 59 Copynumber: 2.5 Consensus size: 59
65110468 TTTAATATTA
* * *
65110478 TATATAATGATTTTTATTAATTTATATTTTAAAAATAATTATATTAAGAATGTTATTAAAT
1 TATAT-ATTATTTTTATTAAATTATA-TTTAAAAATAATTATATTAAGAATATTATTAAAT
* *
65110539 TATATATTA-TTTTATTAAATTATATTTAATAATAATTATGTTAA-AATATTATTAAAT
1 TATATATTATTTTTATTAAATTATATTTAAAAATAATTATATTAAGAATATTATTAAAT
65110596 TATATCATTATTTTTATTAAATTATATTTA
1 TATAT-ATTATTTTTATTAAATTATATTTA
65110626 GTACTAATCT
Statistics
Matches: 80, Mismatches: 5, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
57 17 0.21
58 22 0.28
59 33 0.41
60 3 0.04
61 5 0.06
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (59 bp):
TATATATTATTTTTATTAAATTATATTTAAAAATAATTATATTAAGAATATTATTAAAT
Found at i:65110642 original size:59 final size:58
Alignment explanation
Indices: 65110478--65110642 Score: 208
Period size: 59 Copynumber: 2.8 Consensus size: 58
65110468 TTTAATATTA
* * * *
65110478 TATATAATGATTTTTATTAATTTATATTTTAAAAATAATTATATTAAGAATGTTATTAAAT
1 TATAT-ATTATTTTTATTAAATTATA-TTTAATAATAATTATATTAA-AATATTATTAAAT
*
65110539 TATATATTA-TTTTATTAAATTATATTTAATAATAATTATGTTAAAATATTATTAAAT
1 TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATTATTAAAT
* *
65110596 TATATCATTATTTTTATTAAATTATATTTAGTACTAATCT-TATTAAA
1 TATAT-ATTATTTTTATTAAATTATATTTAATAATAAT-TATATTAAA
65110643 TTTTAATAAC
Statistics
Matches: 93, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
57 17 0.18
58 22 0.24
59 45 0.48
60 4 0.04
61 5 0.05
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (58 bp):
TATATATTATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATTATTAAAT
Found at i:65110861 original size:16 final size:16
Alignment explanation
Indices: 65110842--65110877 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
65110832 AACTATGTTA
65110842 CATTACA-TCTCTATTC
1 CATTACAGTCT-TATTC
65110858 CATTACAGTCTTATTC
1 CATTACAGTCTTATTC
65110874 CATT
1 CATT
65110878 CACCCTAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.25, C:0.28, G:0.03, T:0.44
Consensus pattern (16 bp):
CATTACAGTCTTATTC
Found at i:65111505 original size:22 final size:22
Alignment explanation
Indices: 65111477--65111520 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
65111467 AAATTAGCAC
65111477 ACAAAAAATTCAAAGAATATTT
1 ACAAAAAATTCAAAGAATATTT
65111499 ACAAAAAATTCAAAGAATATTT
1 ACAAAAAATTCAAAGAATATTT
65111521 TCTCTCTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.59, C:0.09, G:0.05, T:0.27
Consensus pattern (22 bp):
ACAAAAAATTCAAAGAATATTT
Found at i:65111885 original size:26 final size:25
Alignment explanation
Indices: 65111826--65111875 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 25
65111816 TGTGTATTTG
*
65111826 GAATATTTCACATATAAAAATACTT
1 GAATATTTCACATATAAAAATAATT
*
65111851 GAAATATTTTACATATAAAAATAAT
1 G-AATATTTCACATATAAAAATAAT
65111876 AATGATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 1 0.05
26 21 0.95
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (25 bp):
GAATATTTCACATATAAAAATAATT
Found at i:65116173 original size:34 final size:38
Alignment explanation
Indices: 65116110--65116180 Score: 105
Period size: 34 Copynumber: 2.0 Consensus size: 38
65116100 TACAGATGTC
*
65116110 TAGGATTATAAGTTATCTTCAAGGTTTAAATTTAGGGA
1 TAGGATTATAAGTTATCTTCAAGGTTTAAATCTAGGGA
65116148 TAGGATTATAAG-T-T-TT-AAGGTTTAAATCTAGGG
1 TAGGATTATAAGTTATCTTCAAGGTTTAAATCTAGGG
65116181 GTAGTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 16 0.50
35 2 0.06
36 1 0.03
37 1 0.03
38 12 0.38
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (38 bp):
TAGGATTATAAGTTATCTTCAAGGTTTAAATCTAGGGA
Found at i:65122392 original size:22 final size:22
Alignment explanation
Indices: 65122367--65122408 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
65122357 AATTAACCAC
65122367 ACCATCACCGCACCACCACCTT
1 ACCATCACCGCACCACCACCTT
*
65122389 ACCATCACCGTACCACCACC
1 ACCATCACCGCACCACCACC
65122409 GTGATAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.29, C:0.55, G:0.05, T:0.12
Consensus pattern (22 bp):
ACCATCACCGCACCACCACCTT
Found at i:65122410 original size:11 final size:11
Alignment explanation
Indices: 65122367--65122410 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
65122357 AATTAACCAC
* *
65122367 ACCATCACCGC
1 ACCACCACCGT
*
65122378 ACCACCACCTT
1 ACCACCACCGT
*
65122389 ACCATCACCGT
1 ACCACCACCGT
65122400 ACCACCACCGT
1 ACCACCACCGT
65122411 GATAAATTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.27, C:0.52, G:0.07, T:0.14
Consensus pattern (11 bp):
ACCACCACCGT
Found at i:65123479 original size:24 final size:24
Alignment explanation
Indices: 65123452--65123499 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
65123442 TTTACTGCAA
*
65123452 TATTGAGTGGCTTGGCCACAACGT
1 TATTGAGTGGCTTGACCACAACGT
65123476 TATTGAGTGGCTTGACCACAACGT
1 TATTGAGTGGCTTGACCACAACGT
65123500 GCAGCTTCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (24 bp):
TATTGAGTGGCTTGACCACAACGT
Found at i:65126666 original size:11 final size:12
Alignment explanation
Indices: 65126652--65126683 Score: 57
Period size: 11 Copynumber: 2.8 Consensus size: 12
65126642 AAAGAAATGT
65126652 AAAAAGAAAAA-
1 AAAAAGAAAAAG
65126663 AAAAAGAAAAAG
1 AAAAAGAAAAAG
65126675 AAAAAGAAA
1 AAAAAGAAA
65126684 TCAAAAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:65126666 original size:23 final size:23
Alignment explanation
Indices: 65126640--65126697 Score: 64
Period size: 23 Copynumber: 2.5 Consensus size: 23
65126630 AAATAAAGAC
65126640 AAAAAGAAATGTAAAAAGAAA-AA
1 AAAAAGAAATG-AAAAAGAAATAA
* *
65126663 AAAAAGAAAAAGAAAAAGAAATCA
1 AAAAAG-AAATGAAAAAGAAATAA
*
65126687 AAAAATAAATG
1 AAAAAGAAATG
65126698 GACTCAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 19 0.66
24 10 0.34
ACGTcount: A:0.78, C:0.02, G:0.12, T:0.09
Consensus pattern (23 bp):
AAAAAGAAATGAAAAAGAAATAA
Found at i:65126680 original size:6 final size:6
Alignment explanation
Indices: 65126652--65126683 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
65126642 AAAGAAATGT
65126652 AAAAAG AAAAA- AAAAAG AAAAAG AAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
65126684 TCAAAAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.20
6 20 0.80
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:65126690 original size:12 final size:12
Alignment explanation
Indices: 65126640--65126696 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
65126630 AAATAAAGAC
**
65126640 AAAAAGAAATGT
1 AAAAAGAAATAA
65126652 AAAAAGAAA-AA
1 AAAAAGAAATAA
65126663 AAAAAGAAA-AA
1 AAAAAGAAATAA
*
65126674 GAAAAAGAAATCA
1 -AAAAAGAAATAA
*
65126687 AAAAATAAAT
1 AAAAAGAAAT
65126697 GGACTCAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
11 11 0.28
12 27 0.69
13 1 0.03
ACGTcount: A:0.79, C:0.02, G:0.11, T:0.09
Consensus pattern (12 bp):
AAAAAGAAATAA
Found at i:65131878 original size:18 final size:17
Alignment explanation
Indices: 65131855--65131897 Score: 50
Period size: 18 Copynumber: 2.5 Consensus size: 17
65131845 ATTGATAACA
65131855 TATAAAAGTTTTAAAACT
1 TATAAAAGTTTT-AAACT
* *
65131873 TATAAAAATTTTCAACT
1 TATAAAAGTTTTAAACT
*
65131890 TTTAAAAG
1 TATAAAAG
65131898 GTCACACGCC
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.40
Consensus pattern (17 bp):
TATAAAAGTTTTAAACT
Found at i:65140643 original size:17 final size:17
Alignment explanation
Indices: 65140621--65140653 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
65140611 AGTTGTCACA
65140621 TGAATTAAATTAATTTT
1 TGAATTAAATTAATTTT
*
65140638 TGAATTAATTTAATTT
1 TGAATTAAATTAATTT
65140654 GATAGTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (17 bp):
TGAATTAAATTAATTTT
Found at i:65147574 original size:50 final size:50
Alignment explanation
Indices: 65147457--65147688 Score: 191
Period size: 50 Copynumber: 4.6 Consensus size: 50
65147447 GTTGTGAGAA
* * * * *
65147457 CACATGTGTAGTACCATGTGCAGGCTACTATGTGT-TTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAG--TTAGGT
* *
65147509 CACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACTAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGT
* ** * * ** * * * *
65147559 CACATATGTAGTACTAAGTGCTTGCTACTATGCGTACCCGACAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGA-TAGTTAGGT
* * *
65147610 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGT-GTCGGATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-AGATAGTTAGGT
* *
65147659 CGCATGTGTAGTACTAAGTGCAAGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
65147689 TGCATACCAG
Statistics
Matches: 143, Mismatches: 34, Indels: 9
0.77 0.18 0.05
Matches are distributed among these distances:
49 30 0.21
50 40 0.28
51 37 0.26
52 35 0.24
53 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACTAGATAGTTAGGT
Found at i:65147636 original size:101 final size:100
Alignment explanation
Indices: 65147508--65147696 Score: 263
Period size: 101 Copynumber: 1.9 Consensus size: 100
65147498 TGGTTTTAGG
*
65147508 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACT-AGATAGTTAGGTCACATATGTAGTA
1 TCACATGTGTAGTACTAAGTACAGGCTACTACGTGT-CTCAGATAGTT-GGTCACATATGTAGTA
** *
65147572 CTAAGTGCTTGCTACTATGCGTACCCGACAACTTCGA
64 CTAAGTGCAAGCTACTATGCATACCCGACAACTTCGA
* * * * * *
65147609 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTGTCGGATTGTTGGTCGCATGTGTAGTACT
1 TCACATGTGTAGTACTAAGTACAGGCTACTACGTGTCTCAGATAGTTGGTCACATATGTAGTACT
65147674 AAGTGCAAGCTACTATGCATACC
66 AAGTGCAAGCTACTATGCATACC
65147697 AGATAGCTTC
Statistics
Matches: 77, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
100 37 0.48
101 40 0.52
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTACAGGCTACTACGTGTCTCAGATAGTTGGTCACATATGTAGTACT
AAGTGCAAGCTACTATGCATACCCGACAACTTCGA
Found at i:65148101 original size:30 final size:30
Alignment explanation
Indices: 65148065--65148125 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
65148055 ACGGTGTAAG
65148065 AAAAAGAATTTCATATTATGAGATATTTGA
1 AAAAAGAATTTCATATTATGAGATATTTGA
65148095 AAAAAGAATTTCATATTATGAGATATTTGA
1 AAAAAGAATTTCATATTATGAGATATTTGA
65148125 A
1 A
65148126 TTTTTGTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.48, C:0.03, G:0.13, T:0.36
Consensus pattern (30 bp):
AAAAAGAATTTCATATTATGAGATATTTGA
Found at i:65152741 original size:25 final size:25
Alignment explanation
Indices: 65152713--65152761 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
65152703 TAATTTCTCA
65152713 AATCATATATC-TATATATCATGTAC
1 AATCAT-TATCATATATATCATGTAC
* *
65152738 AATCATTTTCATATATGTCATGTA
1 AATCATTATCATATATATCATGTA
65152762 AATACCTGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (25 bp):
AATCATTATCATATATATCATGTAC
Found at i:65152961 original size:25 final size:25
Alignment explanation
Indices: 65152928--65152977 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
65152918 AAACGATAAT
65152928 CTCCAAGCTGAATAACAGTAAGCTC
1 CTCCAAGCTGAATAACAGTAAGCTC
* * *
65152953 CTCCGAGCTGTATAACGGTAAGCTC
1 CTCCAAGCTGAATAACAGTAAGCTC
65152978 ATACGATCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (25 bp):
CTCCAAGCTGAATAACAGTAAGCTC
Found at i:65162622 original size:48 final size:47
Alignment explanation
Indices: 65162556--65162821 Score: 282
Period size: 48 Copynumber: 5.6 Consensus size: 47
65162546 ACATGTCGAC
* * * * * * *
65162556 GCCATATCCCAGATATGGTCTTATACGAAGTCTCATATCAGTGTCGAT
1 GCCATGTCCCAGACATGGTCTTACAC-AAGACACATATCAATGCCGAT
*
65162604 GCCATGTCCCAGACATGGTCTTACACTAGCACACATAT-AATCGCCGAT
1 GCCATGTCCCAGACATGGTCTTACACAAG-ACACATATCAAT-GCCGAT
* * *
65162652 TCCATGTCCCAGACATGGTCTTACACTAACACACATATCAACGCCGAT
1 GCCATGTCCCAGACATGGTCTTACAC-AAGACACATATCAATGCCGAT
* ** * *
65162700 GCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAACGCTGAT
1 GCCATGTCCCAGACATGGTCTTACACAAG-ACACATATCAATGCCGAT
* ** * *
65162748 GCCATGTCCCAGACATGATCTTACACTGGCACACATATCAACGCCAAT
1 GCCATGTCCCAGACATGGTCTTACACAAG-ACACATATCAATGCCGAT
65162796 GCCATGTCCCAGACATGGTCTTACAC
1 GCCATGTCCCAGACATGGTCTTACAC
65162822 GGGATCTCAT
Statistics
Matches: 190, Mismatches: 23, Indels: 10
0.85 0.10 0.04
Matches are distributed among these distances:
47 4 0.02
48 183 0.96
49 3 0.02
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACAAGACACATATCAATGCCGAT
Found at i:65162701 original size:96 final size:96
Alignment explanation
Indices: 65162600--65162821 Score: 356
Period size: 96 Copynumber: 2.3 Consensus size: 96
65162590 ATATCAGTGT
*
65162600 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATAT-AATCGCCGATTCCATGTCCCAG
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAA-CGCCGATGCCATGTCCCAG
*
65162664 ACATGGTCTTACACTAACACACATATCAACGC
65 ACATGATCTTACACTAACACACATATCAACGC
* * *
65162696 CGATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATCAACGCTGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGA
**
65162761 CATGATCTTACACTGGCACACATATCAACGC
66 CATGATCTTACACTAACACACATATCAACGC
*
65162792 CAATGCCATGTCCCAGACATGGTCTTACAC
1 CGATGCCATGTCCCAGACATGGTCTTACAC
65162822 GGGATCTCAT
Statistics
Matches: 116, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
96 114 0.98
97 2 0.02
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGCCGATGCCATGTCCCAGA
CATGATCTTACACTAACACACATATCAACGC
Found at i:65170332 original size:16 final size:17
Alignment explanation
Indices: 65170292--65170332 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
65170282 GTCAATAGAA
65170292 TCGTTTCTCGATTTTCG
1 TCGTTTCTCGATTTTCG
*
65170309 TCGATTCTC-ATTTTCTG
1 TCGTTTCTCGATTTTC-G
65170326 T-GTTTCT
1 TCGTTTCT
65170333 GAGTACACAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 11 0.52
17 10 0.48
ACGTcount: A:0.07, C:0.22, G:0.15, T:0.56
Consensus pattern (17 bp):
TCGTTTCTCGATTTTCG
Found at i:65180664 original size:9 final size:9
Alignment explanation
Indices: 65180650--65180676 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
65180640 GTTTTGGCAA
65180650 AATTATATT
1 AATTATATT
65180659 AATTATATT
1 AATTATATT
65180668 AATTATATT
1 AATTATATT
65180677 GTTAAGTCTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (9 bp):
AATTATATT
Found at i:65181254 original size:3 final size:3
Alignment explanation
Indices: 65181246--65181277 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
65181236 AACCAAAACA
65181246 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
65181278 ATCAAAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:65181449 original size:19 final size:21
Alignment explanation
Indices: 65181413--65181460 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
65181403 TAAATAATAT
65181413 ATTTTTAATTATTGTAATT-A
1 ATTTTTAATTATTGTAATTGA
65181433 ATTTTTAATTCA-T-TAATTGA
1 ATTTTTAATT-ATTGTAATTGA
65181453 ATTTTTAA
1 ATTTTTAA
65181461 ATATATTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.19
20 20 0.77
21 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.58
Consensus pattern (21 bp):
ATTTTTAATTATTGTAATTGA
Found at i:65188391 original size:24 final size:25
Alignment explanation
Indices: 65188359--65188410 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
65188349 GCCTAGCCTC
65188359 TTTTAAT-AACGGGGGCAAAACCCT
1 TTTTAATAAACGGGGGCAAAACCCT
* * *
65188383 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACGGGGGCAAAACCCT
65188408 TTT
1 TTT
65188411 CGGTAAACTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
24 6 0.25
25 18 0.75
ACGTcount: A:0.29, C:0.19, G:0.21, T:0.31
Consensus pattern (25 bp):
TTTTAATAAACGGGGGCAAAACCCT
Found at i:65188402 original size:25 final size:25
Alignment explanation
Indices: 65188370--65188435 Score: 96
Period size: 25 Copynumber: 2.6 Consensus size: 25
65188360 TTTAATAACG
* *
65188370 GGGGCAAAACCCTTTTTGATAAACT
1 GGGGCAAAGCCCTTTTCGATAAACT
*
65188395 GGGGCAAAGCCCTTTTCGGTAAACT
1 GGGGCAAAGCCCTTTTCGATAAACT
*
65188420 GGGGCATAGCCCTTTT
1 GGGGCAAAGCCCTTTT
65188436 AGCACTTCCT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
GGGGCAAAGCCCTTTTCGATAAACT
Found at i:65189307 original size:27 final size:27
Alignment explanation
Indices: 65189245--65189322 Score: 88
Period size: 27 Copynumber: 2.9 Consensus size: 27
65189235 GGGCATATTC
65189245 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
65189272 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
65189299 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
65189323 TTAGTCATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
26 3 0.07
27 39 0.91
28 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:65189393 original size:27 final size:27
Alignment explanation
Indices: 65189363--65189470 Score: 87
Period size: 27 Copynumber: 3.9 Consensus size: 27
65189353 GTAAATCTAC
65189363 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
65189390 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* * *
65189416 AGAAAGTCAAAGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* * *
65189446 AAATCAGGGGTAATTT-GGTAATTTT
1 AAACCAAGGGT-ATTTCAGTAATTTT
65189471 ACAAATTGAT
Statistics
Matches: 67, Mismatches: 7, Indels: 14
0.76 0.08 0.16
Matches are distributed among these distances:
26 1 0.01
27 36 0.54
28 11 0.16
29 18 0.27
30 1 0.01
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:65189476 original size:27 final size:27
Alignment explanation
Indices: 65189436--65189549 Score: 99
Period size: 27 Copynumber: 4.2 Consensus size: 27
65189426 AGGTATTTCT
**
65189436 GTAATTTTGTAAATCAGGGGTAATTTG
1 GTAATTTTACAAATCAGGGGTAATTTG
* *
65189463 GTAATTTTACAAAT-TGATGGT-ATTTCG
1 GTAATTTTACAAATCAG-GGGTAATTT-G
* * * *
65189490 GTAATTTCACAAACCAGTGGTATTTTG
1 GTAATTTTACAAATCAGGGGTAATTTG
*
65189517 GTAATTTTACAAA-CTAGGGGTATTTTG
1 GTAATTTTACAAATC-AGGGGTAATTTG
65189544 GTAATT
1 GTAATT
65189550 CTACCCTATA
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
26 6 0.08
27 62 0.86
28 4 0.06
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCAGGGGTAATTTG
Found at i:65189517 original size:54 final size:54
Alignment explanation
Indices: 65189427--65189529 Score: 143
Period size: 54 Copynumber: 1.9 Consensus size: 54
65189417 GAAAGTCAAA
* *** *
65189427 GGTATTTCTGTAATTTTGTAAATCAGGGGTAATTTGGTAATTTTACAAATTGAT
1 GGTATTTCGGTAATTTCACAAACCAGGGGTAATTTGGTAATTTTACAAATTGAT
* *
65189481 GGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAA
1 GGTATTTCGGTAATTTCACAAACCAGGGGTAATTTGGTAATTTTACAAA
65189530 CTAGGGGTAT
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 42 1.00
ACGTcount: A:0.30, C:0.09, G:0.19, T:0.42
Consensus pattern (54 bp):
GGTATTTCGGTAATTTCACAAACCAGGGGTAATTTGGTAATTTTACAAATTGAT
Found at i:65189539 original size:54 final size:54
Alignment explanation
Indices: 65189427--65189549 Score: 140
Period size: 54 Copynumber: 2.3 Consensus size: 54
65189417 GAAAGTCAAA
* *** * * *
65189427 GGTATTTCTGTAATTTTGTAAATCAGGGGTAATTTGGTAATTTTACAAATTGAT
1 GGTATTTCGGTAATTTCACAAACCAGGGGTAATTTGGTAATTTTACAAATAGAG
* *
65189481 GGTATTTCGGTAATTTCACAAACCAGTGGTATTTTGGTAATTTTACAAACTAG-G
1 GGTATTTCGGTAATTTCACAAACCAGGGGTAATTTGGTAATTTTACAAA-TAGAG
*
65189535 GGTATTTTGGTAATT
1 GGTATTTCGGTAATT
65189550 CTACCCTATA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
54 56 0.97
55 2 0.03
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.42
Consensus pattern (54 bp):
GGTATTTCGGTAATTTCACAAACCAGGGGTAATTTGGTAATTTTACAAATAGAG
Found at i:65189617 original size:27 final size:27
Alignment explanation
Indices: 65189581--65189672 Score: 130
Period size: 27 Copynumber: 3.4 Consensus size: 27
65189571 ATAATTTCAC
*
65189581 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
*
65189608 AATTGAGGGTAAAACAGTAATTCTGTA
1 AATCGAGGGTAAAACAGTAATTCTGTA
* * * *
65189635 AATCAAGGGTTAAACAGTGATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTGTA
65189662 AATCGAGGGTA
1 AATCGAGGGTA
65189673 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTGTA
Found at i:65191833 original size:13 final size:13
Alignment explanation
Indices: 65191797--65191888 Score: 62
Period size: 13 Copynumber: 6.9 Consensus size: 13
65191787 ATCCAATGTT
* *
65191797 CCATTTTATATAT
1 CCATTTCATATAA
*
65191810 CTATTTCCATATAA
1 CCATTT-CATATAA
65191824 CCGA-TTCATATAA
1 CC-ATTTCATATAA
65191837 CCATTTCATAT-A
1 CCATTTCATATAA
*
65191849 TCATTTTTCATATAA
1 CCA--TTTCATATAA
* * *
65191864 TCAATTCGTATAA
1 CCATTTCATATAA
*
65191877 CCATTTTATATA
1 CCATTTCATATA
65191889 TTTATTTCCA
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
12 4 0.06
13 37 0.60
14 16 0.26
15 5 0.08
ACGTcount: A:0.35, C:0.18, G:0.02, T:0.45
Consensus pattern (13 bp):
CCATTTCATATAA
Found at i:65191834 original size:27 final size:24
Alignment explanation
Indices: 65191804--65191921 Score: 58
Period size: 27 Copynumber: 4.5 Consensus size: 24
65191794 GTTCCATTTT
65191804 ATATATCTATTTCCATATAACCGATTC
1 ATATATC-ATTT-CATATAACC-ATTC
* *
65191831 ATATAACCATTTCATAT-ATCATTTTTC
1 ATAT-ATCATTTCATATAACCA---TTC
* * *
65191858 ATATAATCAATTCGTATAACCATTTT
1 ATAT-ATCATTTCATATAACCA-TTC
* *
65191884 ATATATTTATTTCCACATAACCAATTC
1 ATATA-TCATTT-CATATAACC-ATTC
65191911 ATATATCATTT
1 ATATATCATTT
65191922 TTTAGATATC
Statistics
Matches: 70, Mismatches: 13, Indels: 17
0.70 0.13 0.17
Matches are distributed among these distances:
24 1 0.01
25 3 0.04
26 21 0.30
27 39 0.56
28 6 0.09
ACGTcount: A:0.36, C:0.19, G:0.02, T:0.44
Consensus pattern (24 bp):
ATATATCATTTCATATAACCATTC
Found at i:65191861 original size:40 final size:39
Alignment explanation
Indices: 65191797--65191915 Score: 141
Period size: 40 Copynumber: 3.0 Consensus size: 39
65191787 ATCCAATGTT
* *
65191797 CCATTTTATATATCTATTTCCATATAACCGATTCATATAA
1 CCATTTTATATATCT-TTTTCATATAACCAATTCATATAA
* * *
65191837 CCATTTCATATATCATTTTTCATATAATCAATTCGTATAA
1 CCATTTTATATATC-TTTTTCATATAACCAATTCATATAA
*
65191877 CCATTTTATATAT-TTATTTCCACATAACCAATTCATATA
1 CCATTTTATATATCTT-TTT-CATATAACCAATTCATATA
65191916 TCATTTTTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
38 2 0.03
39 3 0.04
40 61 0.91
41 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.02, T:0.44
Consensus pattern (39 bp):
CCATTTTATATATCTTTTTCATATAACCAATTCATATAA
Found at i:65193396 original size:41 final size:40
Alignment explanation
Indices: 65193324--65193420 Score: 104
Period size: 41 Copynumber: 2.3 Consensus size: 40
65193314 AATAATTCCA
* * ** *
65193324 CACACTTAGTGCCATCTCAATTAACCGAAGCTATTTCGGTATCG
1 CACACTTAGTG-C--CTCAAGTAACCGAAGCTAATTC-AAATAG
*
65193368 CACACTTAGTGCCTCAAGTAGCCGAAGCTAATTCAAATAG
1 CACACTTAGTGCCTCAAGTAACCGAAGCTAATTCAAATAG
65193408 CACACTTAGTGCC
1 CACACTTAGTGCC
65193421 AAATACCATT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 16 0.34
41 19 0.40
43 1 0.02
44 11 0.23
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (40 bp):
CACACTTAGTGCCTCAAGTAACCGAAGCTAATTCAAATAG
Found at i:65193569 original size:20 final size:20
Alignment explanation
Indices: 65193544--65193584 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
65193534 CGTACTCGGA
65193544 ATTGTCGACTCAGATTGTTT
1 ATTGTCGACTCAGATTGTTT
65193564 ATTGTCGACTCAGATTGTTT
1 ATTGTCGACTCAGATTGTTT
65193584 A
1 A
65193585 CTCTACAATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.22, C:0.15, G:0.20, T:0.44
Consensus pattern (20 bp):
ATTGTCGACTCAGATTGTTT
Found at i:65198936 original size:29 final size:27
Alignment explanation
Indices: 65198902--65199004 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
65198892 TACTCAATCA
*
65198902 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
65198931 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
65198960 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
65198989 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
65199005 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:65206687 original size:29 final size:27
Alignment explanation
Indices: 65206653--65206755 Score: 98
Period size: 29 Copynumber: 3.6 Consensus size: 27
65206643 TACTCAATCA
*
65206653 CGCACACTTAGTGCCATGTGATTCAAGCC
1 CGCACACTTAGTGCCAT-T-ATTCAAGCT
* * *
65206682 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCAT-TA-TTCAAGCT
*
65206711 CGCACACTTAGTGCCATACATTACAAGCT
1 CGCACACTTAGTGCCAT-TATT-CAAGCT
*
65206740 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
65206756 ATCTCGTCAC
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 2 0.03
29 60 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (27 bp):
CGCACACTTAGTGCCATTATTCAAGCT
Found at i:65209200 original size:40 final size:40
Alignment explanation
Indices: 65209134--65209284 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
65209124 AAATTGAATG
* * *
65209134 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
65209173 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
65209213 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
65209253 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
65209285 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:65217216 original size:40 final size:40
Alignment explanation
Indices: 65217150--65217300 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
65217140 AAATTGAATG
* * *
65217150 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
65217189 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
65217229 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
65217269 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
65217301 ACGTGATTAA
Statistics
Matches: 91, Mismatches: 17, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.18
40 73 0.80
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:65221639 original size:30 final size:30
Alignment explanation
Indices: 65221590--65221661 Score: 85
Period size: 30 Copynumber: 2.4 Consensus size: 30
65221580 AAAAATATGG
65221590 AAGCCTTTGTGGCAGTTCTCTG-ACAAGTGA
1 AAGCCTTTGTGGCAGTTCTC-GAACAAGTGA
* *
65221620 AAGCCTTTGTGGCTA-TTCTCGAATAAGTGG
1 AAGCCTTTGTGGC-AGTTCTCGAACAAGTGA
*
65221650 AAGCCTATGTGG
1 AAGCCTTTGTGG
65221662 TTGTTCTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
29 1 0.03
30 35 0.95
31 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.28, T:0.31
Consensus pattern (30 bp):
AAGCCTTTGTGGCAGTTCTCGAACAAGTGA
Found at i:65221764 original size:29 final size:29
Alignment explanation
Indices: 65221679--65221765 Score: 74
Period size: 29 Copynumber: 3.1 Consensus size: 29
65221669 TTGTTATACA
*
65221679 TGAGCCCTTGTGGCTGATTTTGTTAAATG
1 TGAGCCCTTGTGGATGATTTTGTTAAATG
* * * * *
65221708 -CA--CCTTCAT-GATGAAGTATGTTATATG
1 TGAGCCCTT-GTGGATG-ATTTTGTTAAATG
65221735 TGAGCCCTTGTGGATGATTTTGTTAAATG
1 TGAGCCCTTGTGGATGATTTTGTTAAATG
65221764 TG
1 TG
65221766 CCTTTGTGAC
Statistics
Matches: 41, Mismatches: 11, Indels: 12
0.64 0.17 0.19
Matches are distributed among these distances:
26 7 0.17
27 11 0.27
28 2 0.05
29 13 0.32
30 8 0.20
ACGTcount: A:0.22, C:0.13, G:0.25, T:0.40
Consensus pattern (29 bp):
TGAGCCCTTGTGGATGATTTTGTTAAATG
Found at i:65221786 original size:56 final size:56
Alignment explanation
Indices: 65221668--65221792 Score: 160
Period size: 56 Copynumber: 2.2 Consensus size: 56
65221658 GTGGTTGTTC
* * **
65221668 TTTGTTATACATGAGCCCTTGTGGCTGATTTTGTTAAATGCACCTTCATGATGAAG
1 TTTGTTATATATGAGCCCTTGTGGATGATTTTGTTAAATGCACCTTCATGACAAAG
* * ** **
65221724 TATGTTATATGTGAGCCCTTGTGGATGATTTTGTTAAATGTGCCTTTGTGACAAAG
1 TTTGTTATATATGAGCCCTTGTGGATGATTTTGTTAAATGCACCTTCATGACAAAG
65221780 TTTGTTATATATG
1 TTTGTTATATATG
65221793 GCCTCTTCTG
Statistics
Matches: 57, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.23, C:0.12, G:0.22, T:0.42
Consensus pattern (56 bp):
TTTGTTATATATGAGCCCTTGTGGATGATTTTGTTAAATGCACCTTCATGACAAAG
Found at i:65224427 original size:47 final size:47
Alignment explanation
Indices: 65224360--65224482 Score: 219
Period size: 47 Copynumber: 2.6 Consensus size: 47
65224350 GATGCGAATG
*
65224360 TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
*
65224407 TCCGAACTCGTTGAGCTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
*
65224454 TCCGAATTCGTTGAGTTGAGTCCGAGTTC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC
65224483 ACTTATGGAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCA
Found at i:65232152 original size:40 final size:40
Alignment explanation
Indices: 65231967--65232152 Score: 250
Period size: 40 Copynumber: 4.7 Consensus size: 40
65231957 GCTACTCATT
* *
65231967 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
65232007 CAAATGCCTTCGGGACTTAACCCAGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
65232047 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * *
65232087 CAAATGCCTTC-GGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
65232128 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
65232153 CATCATTCGA
Statistics
Matches: 131, Mismatches: 12, Indels: 6
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.02
40 117 0.89
41 11 0.08
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:65234588 original size:26 final size:26
Alignment explanation
Indices: 65234553--65234613 Score: 79
Period size: 26 Copynumber: 2.3 Consensus size: 26
65234543 GAATATATTT
*
65234553 ATCAAAATTTTA-CTAGTGGTAAAATC
1 ATCAAAATTTTACCAAG-GGTAAAATC
*
65234579 ATCAACATTTTACCAAGGGTAAAATC
1 ATCAAAATTTTACCAAGGGTAAAATC
*
65234605 GTCAAAATT
1 ATCAAAATT
65234614 GTTTTATATG
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 27 0.90
27 3 0.10
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (26 bp):
ATCAAAATTTTACCAAGGGTAAAATC
Found at i:65247289 original size:83 final size:83
Alignment explanation
Indices: 65247194--65247360 Score: 307
Period size: 83 Copynumber: 2.0 Consensus size: 83
65247184 AGGTGATTTG
*
65247194 AAGTTTGGTTTGGTAATTTTTCCGATTAATTGCTTAATTAAGGTAAAAGGATTAAATTGTAAAAG
1 AAGTTTGGTTTGGTAATTTTTCCGATTAATTGCTTAATTAAAGTAAAAGGATTAAATTGTAAAAG
65247259 AGGTAAAAGTTAATTGCT
66 AGGTAAAAGTTAATTGCT
*
65247277 AAGTTTGGTTTGGTAATTTTTTCGATTAATTGCTTAATTAAAGTAAAAGGATTAAATTGTAAAAG
1 AAGTTTGGTTTGGTAATTTTTCCGATTAATTGCTTAATTAAAGTAAAAGGATTAAATTGTAAAAG
*
65247342 AGGTAAAATTTAATTGCT
66 AGGTAAAAGTTAATTGCT
65247360 A
1 A
65247361 TAGATTTAAA
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
83 81 1.00
ACGTcount: A:0.37, C:0.04, G:0.19, T:0.40
Consensus pattern (83 bp):
AAGTTTGGTTTGGTAATTTTTCCGATTAATTGCTTAATTAAAGTAAAAGGATTAAATTGTAAAAG
AGGTAAAAGTTAATTGCT
Found at i:65248026 original size:16 final size:16
Alignment explanation
Indices: 65247994--65248028 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
65247984 TAGTAATTTT
*
65247994 AATGTTAAAGGGCTAA
1 AATGTTAAAGGGATAA
*
65248010 AATGTTAAAGTGATAA
1 AATGTTAAAGGGATAA
65248026 AAT
1 AAT
65248029 TATGACGACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.49, C:0.03, G:0.20, T:0.29
Consensus pattern (16 bp):
AATGTTAAAGGGATAA
Found at i:65248224 original size:20 final size:18
Alignment explanation
Indices: 65248200--65248248 Score: 57
Period size: 20 Copynumber: 2.7 Consensus size: 18
65248190 AATAGTATTT
65248200 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
65248218 GTAATT-ATCTTAATATTAAA
1 -T-ATTAAT-TTAATATTAAA
65248238 T-TTAATTTAAT
1 TATTAATTTAAT
65248249 GTTTATCTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
17 7 0.26
18 2 0.07
19 4 0.15
20 14 0.52
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
TATTAATTTAATATTAAA
Found at i:65248300 original size:62 final size:59
Alignment explanation
Indices: 65248227--65248343 Score: 162
Period size: 62 Copynumber: 1.9 Consensus size: 59
65248217 AGTAATTATC
* * * *
65248227 TTAATATTAAATTTAATTTAATGTTTATCTTATAGATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-T-GATAAACATTATATTAATTTAATAAGAT
*
65248289 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAACATTATATTAATTTAATA
65248344 TTACAGTGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
59 21 0.42
60 1 0.02
61 1 0.02
62 27 0.54
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAACATTATATTAATTTAATAAGAT
Found at i:65248971 original size:14 final size:14
Alignment explanation
Indices: 65248952--65248979 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
65248942 TAGGAATGTC
65248952 ATAAGAAAATTTTG
1 ATAAGAAAATTTTG
65248966 ATAAGAAAATTTTG
1 ATAAGAAAATTTTG
65248980 CCGATTATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.14, T:0.36
Consensus pattern (14 bp):
ATAAGAAAATTTTG
Found at i:65253052 original size:93 final size:93
Alignment explanation
Indices: 65252939--65253109 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
65252929 GCCCCTAAGT
* *
65252939 GAACTTGGACTCAACTCAACGAGCTT-GGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
65253003 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
65253032 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
65253097 CGAGTTCGGATGC
66 CGAGTTCGGATGC
65253110 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:65253103 original size:46 final size:46
Alignment explanation
Indices: 65252934--65253106 Score: 203
Period size: 46 Copynumber: 3.7 Consensus size: 46
65252924 AACCCGCCCC
* *
65252934 TAAGTGAACTTGGACTCAACTCAACGAGCTT-GGGCATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAG-TTCGGACATTCGCATCCA
* *
65252980 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
65253028 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
65253073 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65253107 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 10, Indels: 20
0.78 0.07 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 4 0.04
46 58 0.54
47 29 0.27
48 2 0.02
49 1 0.01
50 4 0.04
51 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:65255368 original size:20 final size:20
Alignment explanation
Indices: 65255343--65255389 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
65255333 GATTTGATAT
65255343 ACATGAT-TGATATGATATGC
1 ACATGATATG-TATGATATGC
65255363 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
65255383 ACATGAT
1 ACATGAT
65255390 GTATTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:65255475 original size:25 final size:24
Alignment explanation
Indices: 65255452--65255529 Score: 104
Period size: 24 Copynumber: 3.2 Consensus size: 24
65255442 AGCTATGCCT
65255452 AGTTTACCGAAAAGGGCTTTTGCCCC
1 AGTTTA-C-AAAAGGGCTTTTGCCCC
*
65255478 AGTTTATAAAAGGGCTTTTGCCCC
1 AGTTTACAAAAGGGCTTTTGCCCC
*
65255502 AGTTTATCAAAAGGG-ATTTGCCCC
1 AGTTTA-CAAAAGGGCTTTTGCCCC
65255526 AGTT
1 AGTT
65255530 ATTAAAAGAG
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
24 35 0.73
25 7 0.15
26 6 0.12
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.31
Consensus pattern (24 bp):
AGTTTACAAAAGGGCTTTTGCCCC
Found at i:65255488 original size:24 final size:24
Alignment explanation
Indices: 65255461--65255542 Score: 114
Period size: 24 Copynumber: 3.4 Consensus size: 24
65255451 TAGTTTACCG
65255461 AAAAGGGCTTTTGCCCCAGTTTAT
1 AAAAGGGCTTTTGCCCCAGTTTAT
65255485 AAAAGGGCTTTTGCCCCAGTTTAT
1 AAAAGGGCTTTTGCCCCAGTTTAT
*
65255509 CAAAAGGG-ATTTGCCCCAG-TTATT
1 -AAAAGGGCTTTTGCCCCAGTTTA-T
65255533 AAAAGAGGCT
1 AAAAG-GGCT
65255543 AGGCCTCTAG
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
23 8 0.15
24 37 0.71
25 7 0.13
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTTTGCCCCAGTTTAT
Found at i:65255786 original size:31 final size:31
Alignment explanation
Indices: 65255751--65255879 Score: 116
Period size: 38 Copynumber: 3.7 Consensus size: 31
65255741 CATTTACAGT
*
65255751 AAAGGCTTTGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
65255782 AAAGGCTTCGGCCCAGTGTTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCCA--G---T--AATATGAAATATGA
65255820 AAAGGCTTCGGCCCAGTGTTATGAAATATGAAATATGA
1 AAAGGCTTCGGCCCA--G---T--AATATGAAATATGA
65255858 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTAATATG
65255880 CTGAGATGGA
Statistics
Matches: 90, Mismatches: 1, Indels: 15
0.85 0.01 0.14
Matches are distributed among these distances:
30 5 0.06
31 14 0.16
33 2 0.02
36 2 0.02
38 67 0.74
ACGTcount: A:0.36, C:0.15, G:0.24, T:0.26
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:65255819 original size:38 final size:38
Alignment explanation
Indices: 65255768--65255874 Score: 214
Period size: 38 Copynumber: 2.8 Consensus size: 38
65255758 TTGGCCCAGT
65255768 AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
65255806 AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
65255844 AATATGAAATATGAAAAGGCTTCGGCCCAGT
1 AATATGAAATATGAAAAGGCTTCGGCCCAGT
65255875 ATATGCTGAG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 69 1.00
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.25
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTGTTATGA
Found at i:65258476 original size:40 final size:40
Alignment explanation
Indices: 65258399--65258575 Score: 243
Period size: 40 Copynumber: 4.5 Consensus size: 40
65258389 AAACCAAGTA
* * *
65258399 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGAATATAG-TAACTCGCACAAATG
65258438 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
* *
65258478 CCTTCGGGACTTAGCCCGGATATAGTAACTTGCACAAATG
1 CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
* *
65258518 CCTTCGGGACTTAGCCCGGAAT-TAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCC-GAATATAGTAACTCGCACAAATG
*
65258558 CCTTCAGGACTTAGCCCG
1 CCTTCGGGACTTAGCCCG
65258576 GTTACCATCC
Statistics
Matches: 126, Mismatches: 9, Indels: 6
0.89 0.06 0.04
Matches are distributed among these distances:
39 15 0.12
40 108 0.86
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGAATATAGTAACTCGCACAAATG
Found at i:65266722 original size:18 final size:17
Alignment explanation
Indices: 65266699--65266753 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 17
65266689 ACATGGGATT
65266699 TGATAT-ACATGATTGATA
1 TGATATCACATGA-TG-TA
65266717 TGATATGCACATGATGTA
1 TGATAT-CACATGATGTA
65266735 TGATATGCACATGATGTA
1 TGATAT-CACATGATGTA
65266753 T
1 T
65266754 TCATAATGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 27 0.77
19 2 0.06
20 6 0.17
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (17 bp):
TGATATCACATGATGTA
Found at i:65266730 original size:20 final size:19
Alignment explanation
Indices: 65266705--65266753 Score: 75
Period size: 18 Copynumber: 2.6 Consensus size: 19
65266695 GATTTGATAT
65266705 ACATGATTGATATGATATGC
1 ACATGATTG-TATGATATGC
65266725 ACATGA-TGTATGATATGC
1 ACATGATTGTATGATATGC
65266743 ACATGA-TGTAT
1 ACATGATTGTAT
65266754 TCATAATGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 21 0.72
19 2 0.07
20 6 0.21
ACGTcount: A:0.35, C:0.10, G:0.20, T:0.35
Consensus pattern (19 bp):
ACATGATTGTATGATATGC
Found at i:65266850 original size:25 final size:25
Alignment explanation
Indices: 65266822--65266904 Score: 116
Period size: 25 Copynumber: 3.4 Consensus size: 25
65266812 TAGTTTACCG
*
65266822 AAAAGGGCTTTTGCCCTAGTTTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
*
65266847 AAAAGGGCTTTTGCCCCAGTTTATC
1 AAAAGGGCTTTTGCCCCAGTTTATT
*
65266872 AAAAGCGC-TTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATT
65266895 AAAAGAGGCT
1 AAAAG-GGCT
65266905 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
23 9 0.18
24 12 0.24
25 30 0.59
ACGTcount: A:0.28, C:0.20, G:0.20, T:0.31
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATT
Found at i:65267148 original size:31 final size:31
Alignment explanation
Indices: 65267113--65267176 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
65267103 TGTTTACACT
*
65267113 AAAGGCTTCGGCCCAGTAG-TATGAAGTATGA
1 AAAGGCTTCGGCCCAGT-GTTATGAAATATGA
65267144 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTGTTATGAAATATGA
65267175 AA
1 AA
65267177 TATGAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGTTATGAAATATGA
Found at i:65275491 original size:15 final size:15
Alignment explanation
Indices: 65275471--65275500 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
65275461 AGTCATTTTG
65275471 GTATGATGTTAACCA
1 GTATGATGTTAACCA
65275486 GTATGATGTTAACCA
1 GTATGATGTTAACCA
65275501 TTTATGTTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (15 bp):
GTATGATGTTAACCA
Found at i:65283219 original size:27 final size:29
Alignment explanation
Indices: 65283158--65283219 Score: 78
Period size: 27 Copynumber: 2.3 Consensus size: 29
65283148 TTGGATTTGA
* *
65283158 ATAGT-TTTATACTATATATTGTATAAAT
1 ATAGTATTTATACTATATATTATACAAAT
65283186 ATA-TATTTATACTAT-TATTATACAAAT
1 ATAGTATTTATACTATATATTATACAAAT
65283213 -TAGTATT
1 ATAGTATT
65283220 ATATCAAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
26 2 0.07
27 15 0.50
28 13 0.43
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (29 bp):
ATAGTATTTATACTATATATTATACAAAT
Found at i:65285432 original size:7 final size:8
Alignment explanation
Indices: 65285412--65285441 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
65285402 TTGATCTAAA
65285412 GAAAAATT
1 GAAAAATT
*
65285420 AAAAAATT
1 GAAAAATT
65285428 GAAAAATT
1 GAAAAATT
65285436 GAAAAA
1 GAAAAA
65285442 GAAAATAGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.70, C:0.00, G:0.10, T:0.20
Consensus pattern (8 bp):
GAAAAATT
Found at i:65286477 original size:15 final size:17
Alignment explanation
Indices: 65286455--65286492 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
65286445 CGTATAGCCC
65286455 TATATTTT-TTAA-TTT
1 TATATTTTATTAAGTTT
*
65286470 TCTATTTTATTAAGTTT
1 TATATTTTATTAAGTTT
65286487 TATATT
1 TATATT
65286493 CATTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
15 7 0.37
16 4 0.21
17 8 0.42
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TATATTTTATTAAGTTT
Found at i:65289686 original size:44 final size:44
Alignment explanation
Indices: 65289623--65289712 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
65289613 CAGCACCTCA
*
65289623 AACAACTTCTAATCTTTATTCCTAGTCCAATAACATGTATTCTG
1 AACAACTTCTAATCTTTATTCCTAATCCAATAACATGTATTCTG
65289667 AACAACTTCTAATCTTTATTCCTAATCCAATAACATGTATTCTG
1 AACAACTTCTAATCTTTATTCCTAATCCAATAACATGTATTCTG
65289711 AA
1 AA
65289713 TGTTAATTTC
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.34, C:0.22, G:0.06, T:0.38
Consensus pattern (44 bp):
AACAACTTCTAATCTTTATTCCTAATCCAATAACATGTATTCTG
Found at i:65291720 original size:20 final size:20
Alignment explanation
Indices: 65291697--65291762 Score: 62
Period size: 20 Copynumber: 3.3 Consensus size: 20
65291687 TCGAAATTCA
65291697 TAATTTAATTATAAAATAAT
1 TAATTTAATTATAAAATAAT
* * ** * *
65291717 TAATTTGTAGTCGAAATTCA-
1 TAATTT-AATTATAAAATAAT
65291737 TAATTTAATTATAAAATAAT
1 TAATTTAATTATAAAATAAT
65291757 TAATTT
1 TAATTT
65291763 GTACTTAAAT
Statistics
Matches: 32, Mismatches: 12, Indels: 4
0.67 0.25 0.08
Matches are distributed among these distances:
19 7 0.22
20 18 0.56
21 7 0.22
ACGTcount: A:0.47, C:0.03, G:0.05, T:0.45
Consensus pattern (20 bp):
TAATTTAATTATAAAATAAT
Found at i:65291732 original size:40 final size:40
Alignment explanation
Indices: 65291686--65291765 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
65291676 AGTAAATTTT
65291686 GTCGAAATTCATAATTTAATTATAAAATAATTAATTTGTA
1 GTCGAAATTCATAATTTAATTATAAAATAATTAATTTGTA
65291726 GTCGAAATTCATAATTTAATTATAAAATAATTAATTTGTA
1 GTCGAAATTCATAATTTAATTATAAAATAATTAATTTGTA
65291766 CTTAAATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.45, C:0.05, G:0.07, T:0.42
Consensus pattern (40 bp):
GTCGAAATTCATAATTTAATTATAAAATAATTAATTTGTA
Found at i:65293290 original size:16 final size:18
Alignment explanation
Indices: 65293269--65293302 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
65293259 ATTGGAATTT
65293269 TTACTTA-TT-ATTTTTA
1 TTACTTAGTTAATTTTTA
65293285 TTACTTAGTTAATTTTTA
1 TTACTTAGTTAATTTTTA
65293303 GTTTTTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 2 0.12
18 7 0.44
ACGTcount: A:0.26, C:0.06, G:0.03, T:0.65
Consensus pattern (18 bp):
TTACTTAGTTAATTTTTA
Found at i:65294143 original size:6 final size:6
Alignment explanation
Indices: 65294131--65294170 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
65294121 TAGGTTTGAA
* *
65294131 AAAATG GAAATG -GAATG AAAATG AAAATG AAAATG AAAAT
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAAT
65294171 AGGGATAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.17
Consensus pattern (6 bp):
AAAATG
Found at i:65294153 original size:17 final size:18
Alignment explanation
Indices: 65294131--65294170 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
65294121 TAGGTTTGAA
* *
65294131 AAAATGGAAATG-GAATG
1 AAAATGAAAATGAAAATG
65294148 AAAATGAAAATGAAAATG
1 AAAATGAAAATGAAAATG
65294166 AAAAT
1 AAAAT
65294171 AGGGATAAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.62, C:0.00, G:0.20, T:0.17
Consensus pattern (18 bp):
AAAATGAAAATGAAAATG
Found at i:65297312 original size:46 final size:46
Alignment explanation
Indices: 65297262--65297437 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
65297252 TGGTTGAGCA
* *
65297262 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * * *
65297308 TCCGAACTCGTTGAGTTAAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAA--A--CG
*
65297355 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
* * *
65297401 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65297438 GCGGGTTACA
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 63 0.58
47 28 0.26
48 3 0.03
50 6 0.06
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTAAACG
Found at i:65297423 original size:93 final size:93
Alignment explanation
Indices: 65297259--65297430 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
65297249 GGATGGTTGA
* *
65297259 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
65297324 TAAGTCCGAGTTCGTGAGATGTAACTAG
66 TAAGTCCGAGTTCGTGAGATGTAACTAG
** *
65297352 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
*
65297417 TGAGTCCGAGTTCG
66 TAAGTCCGAGTTCG
65297431 CTTATGGGCG
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TAAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:65299926 original size:16 final size:15
Alignment explanation
Indices: 65299906--65299948 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
65299896 TTAAAAAAAT
65299906 TAATATTAAAAATT-
1 TAATATTAAAAATTC
*
65299920 TAAAATATAAATAATTC
1 TAATAT-TAAA-AATTC
65299937 TAATATTAAAAA
1 TAATATTAAAAA
65299949 AAAATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
14 5 0.21
15 6 0.25
16 8 0.33
17 5 0.21
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.37
Consensus pattern (15 bp):
TAATATTAAAAATTC
Found at i:65302297 original size:51 final size:52
Alignment explanation
Indices: 65302202--65302302 Score: 118
Period size: 51 Copynumber: 2.0 Consensus size: 52
65302192 ATTAAATTTA
* * * *
65302202 TTTAGTTTAAATTTGAAAAAGTTAATTTAAATAAGTTAAATTATATAAATAT
1 TTTAGTTTAAATTTGAAAAAATTAATATAAATAAATTAAATTATAAAAATAT
*
65302254 TTTA-TTTAATATTTGAAAAAATT-ATGATAAA-AAATTAACTTATAAAAAT
1 TTTAGTTTAA-ATTTGAAAAAATTAAT-ATAAATAAATTAAATTATAAAAAT
65302303 TCACTTAACT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
51 22 0.52
52 20 0.48
ACGTcount: A:0.50, C:0.01, G:0.06, T:0.43
Consensus pattern (52 bp):
TTTAGTTTAAATTTGAAAAAATTAATATAAATAAATTAAATTATAAAAATAT
Found at i:65310058 original size:23 final size:23
Alignment explanation
Indices: 65309976--65310062 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
65309966 CCTGATCAGT
*
65309976 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
65309998 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
65310018 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
65310041 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
65310063 TCAGTAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:65311583 original size:27 final size:30
Alignment explanation
Indices: 65311538--65311592 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
65311528 GCTCGAATGC
*
65311538 TTTCTGTTCTCTTTTCTCT-ATTCTTTTTG
1 TTTCTGTTCTCTTTACTCTGATTCTTTTTG
*
65311567 TTTCT-TT-TCTTTACTCTGTTTCTTTT
1 TTTCTGTTCTCTTTACTCTGATTCTTTT
65311593 ATTCACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 9 0.39
29 5 0.22
ACGTcount: A:0.04, C:0.20, G:0.05, T:0.71
Consensus pattern (30 bp):
TTTCTGTTCTCTTTACTCTGATTCTTTTTG
Found at i:65317882 original size:21 final size:21
Alignment explanation
Indices: 65317868--65317945 Score: 102
Period size: 21 Copynumber: 3.6 Consensus size: 21
65317858 GACACATAAA
65317868 GTGCCTAAAACGACACACGAG
1 GTGCCTAAAACGACACACGAG
* *
65317889 GTGCCTGATACGACACACGAG
1 GTGCCTAAAACGACACACGAG
* *
65317910 GTGCCTGATACGACACACGAG
1 GTGCCTAAAACGACACACGAG
65317931 GTGCCTGAAATACGA
1 GTGCCT-AAA-ACGA
65317946 TACATAAAGT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
21 46 0.90
22 1 0.02
23 4 0.08
ACGTcount: A:0.32, C:0.27, G:0.27, T:0.14
Consensus pattern (21 bp):
GTGCCTAAAACGACACACGAG
Found at i:65317914 original size:42 final size:42
Alignment explanation
Indices: 65317854--65317959 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
65317844 CCTGATCAGT
*
65317854 ATACGACACATAAAGTGCCTAAAACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTG
* * * *
65317896 ATACGACACACGAGGTGCCTGATACGACACACGAGGTGCCTG
1 ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTG
* *
65317938 AAATACGATACATAAAGTGCCT
1 --ATACGACACACAAAGTGCCT
65317960 GATCAGTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 37 0.70
44 16 0.30
ACGTcount: A:0.36, C:0.25, G:0.23, T:0.16
Consensus pattern (42 bp):
ATACGACACACAAAGTGCCTAAAACGACACACGAGGTGCCTG
Found at i:65319489 original size:27 final size:30
Alignment explanation
Indices: 65319444--65319498 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
65319434 GCTCGAATGC
*
65319444 TTTCTGTTCTCTTTTCTCT-ATTCTTTTTG
1 TTTCTGTTCTCTTTACTCTGATTCTTTTTG
*
65319473 TTTCT-TT-TCTTTACTCTGTTTCTTTT
1 TTTCTGTTCTCTTTACTCTGATTCTTTT
65319499 ATTCACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 9 0.39
29 5 0.22
ACGTcount: A:0.04, C:0.20, G:0.05, T:0.71
Consensus pattern (30 bp):
TTTCTGTTCTCTTTACTCTGATTCTTTTTG
Found at i:65330456 original size:21 final size:20
Alignment explanation
Indices: 65330419--65330458 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
65330409 CTTTGTAACA
* *
65330419 GGGCACACGCCCGTGTGGAT
1 GGGCACACACCCATGTGGAT
65330439 GGGCAACACACCCATGTGGA
1 GGGC-ACACACCCATGTGGA
65330459 ACTTGAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.30, G:0.35, T:0.12
Consensus pattern (20 bp):
GGGCACACACCCATGTGGAT
Found at i:65332455 original size:30 final size:30
Alignment explanation
Indices: 65332413--65332470 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
65332403 TAAGACTCAT
*
65332413 ACTTTGGTAAAATGACCATTTTGCCCTTGA
1 ACTTTGGTAAAATGACCATTTTACCCTTGA
* *
65332443 ACTTT-GTAAAAATTACGATTTTACCCTT
1 ACTTTGGT-AAAATGACCATTTTACCCTT
65332471 AGGCCCGAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 2 0.08
30 22 0.92
ACGTcount: A:0.29, C:0.19, G:0.12, T:0.40
Consensus pattern (30 bp):
ACTTTGGTAAAATGACCATTTTACCCTTGA
Found at i:65335840 original size:40 final size:40
Alignment explanation
Indices: 65335778--65336033 Score: 376
Period size: 40 Copynumber: 6.4 Consensus size: 40
65335768 AAACCAAGTA
* * *
65335778 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
**
65335817 CCTTCGGGACTTAGCCCGGATATAGTAGTTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
65335857 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
65335897 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
65335937 CCTTCGGGACTTAGCCCGGA-ATTAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
* * *
65335977 CCTTCGGGACTTAGCCTGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
65336017 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
65336034 CGTTATCATC
Statistics
Matches: 201, Mismatches: 13, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 14 0.07
40 187 0.93
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:65357192 original size:68 final size:68
Alignment explanation
Indices: 65357120--65357284 Score: 187
Period size: 68 Copynumber: 2.4 Consensus size: 68
65357110 ACACCCTGTA
* * * *
65357120 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTG--AG
65357182 ATAAAT
63 ATAAAT
*
65357188 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAGAT
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAGAT
65357253 AAAT
65 AAAT
* * *
65357257 -T-GCTAGGTCGCATGAGTGGTACTAAGTG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTG
65357285 TTCCCCATGT
Statistics
Matches: 84, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
67 23 0.27
68 25 0.30
69 11 0.13
70 1 0.01
71 24 0.29
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.22
Consensus pattern (68 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAGATA
AAT
Found at i:65363801 original size:16 final size:16
Alignment explanation
Indices: 65363782--65363817 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
65363772 GGTAAAAGCC
65363782 GAAATACTGAAAAACT
1 GAAATACTGAAAAACT
*
65363798 GAAATGCTGAAAAACT
1 GAAATACTGAAAAACT
65363814 GAAA
1 GAAA
65363818 GTTTGGCTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.56, C:0.11, G:0.17, T:0.17
Consensus pattern (16 bp):
GAAATACTGAAAAACT
Found at i:65364091 original size:29 final size:29
Alignment explanation
Indices: 65364022--65364161 Score: 135
Period size: 29 Copynumber: 4.9 Consensus size: 29
65364012 ATAATATGAT
* *
65364022 TTGGGCCGGATGGGCCATA-GAA-ATGAGA
1 TTGGGCCTGATGGGCCATATGAATGTGA-A
*
65364050 TTGGGCCTAATGGGCCATATGAATGTGAA
1 TTGGGCCTGATGGGCCATATGAATGTGAA
* * *
65364079 TTGGGCCTGATGGGTCATTTGAACGTGAA
1 TTGGGCCTGATGGGCCATATGAATGTGAA
* * *
65364108 TTGGGCCAGATGGGCCATATAAATGAG-A
1 TTGGGCCTGATGGGCCATATGAATGTGAA
* *
65364136 TTGGGCAT-AGTGGGCCATATGCATGT
1 TTGGGCCTGA-TGGGCCATATGAATGT
65364162 ATGTAGGGGT
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
27 1 0.01
28 37 0.41
29 50 0.55
30 3 0.03
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.26
Consensus pattern (29 bp):
TTGGGCCTGATGGGCCATATGAATGTGAA
Found at i:65364155 original size:28 final size:29
Alignment explanation
Indices: 65364022--65364155 Score: 127
Period size: 28 Copynumber: 4.7 Consensus size: 29
65364012 ATAATATGAT
* *
65364022 TTGGGCC-GGATGGGCCATAGAAATGAGA
1 TTGGGCCTAGATGGGCCATATAAATGAGA
* *
65364050 TTGGGCCTA-ATGGGCCATATGAATGTGAA
1 TTGGGCCTAGATGGGCCATATAAATGAG-A
* * *
65364079 TTGGGCCT-GATGGGTCATTTGAACGTGA-A
1 TTGGGCCTAGATGGGCCATAT-AA-ATGAGA
65364108 TTGGGCC-AGATGGGCCATATAAATGAGA
1 TTGGGCCTAGATGGGCCATATAAATGAGA
*
65364136 TTGGGCATAG-TGGGCCATAT
1 TTGGGCCTAGATGGGCCATAT
65364156 GCATGTATGT
Statistics
Matches: 85, Mismatches: 13, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
27 3 0.04
28 41 0.48
29 38 0.45
30 1 0.01
31 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.34, T:0.25
Consensus pattern (29 bp):
TTGGGCCTAGATGGGCCATATAAATGAGA
Found at i:65369281 original size:36 final size:36
Alignment explanation
Indices: 65369229--65369301 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
65369219 CTAACCTAAC
65369229 TTATTGAACAACTACTGTAAGCTATGTAACACTTGT
1 TTATTGAACAACTACTGTAAGCTATGTAACACTTGT
*
65369265 TTATTGAACAAGTACTGTAAGCTATGTAACACTTGT
1 TTATTGAACAACTACTGTAAGCTATGTAACACTTGT
65369301 T
1 T
65369302 GCCCGGCTCG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (36 bp):
TTATTGAACAACTACTGTAAGCTATGTAACACTTGT
Found at i:65381846 original size:17 final size:18
Alignment explanation
Indices: 65381810--65381849 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
65381800 TCTAAAGTAA
* *
65381810 TAATTTCATTCAATATAT
1 TAATTTCATACAATAAAT
65381828 TAATTT-ATACAATAAAT
1 TAATTTCATACAATAAAT
65381845 TAATT
1 TAATT
65381850 CCTTTCATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.47
Consensus pattern (18 bp):
TAATTTCATACAATAAAT
Found at i:65382401 original size:26 final size:26
Alignment explanation
Indices: 65382365--65382474 Score: 184
Period size: 26 Copynumber: 4.2 Consensus size: 26
65382355 TGATACAAAT
65382365 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
65382391 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
65382417 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
65382443 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
65382469 TGATAA
1 TGATAA
65382475 GAATTCCATG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 82 1.00
ACGTcount: A:0.34, C:0.05, G:0.25, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:65384170 original size:27 final size:26
Alignment explanation
Indices: 65384091--65384205 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
65384081 TGGAGGAAGC
* *
65384091 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
*
65384118 GATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTCTGCCACAT-TATCT
65384145 GTTCTGGTGGCTCTGCCACGATTATCT
1 GTTCTGGTGGCTCTGCCAC-ATTATCT
* * * *
65384172 ATATCTGATGACTCTGTCACATTATCT
1 GT-TCTGGTGGCTCTGCCACATTATCT
65384199 GTTCTGG
1 GTTCTGG
65384206 CAGCCATGCT
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
26 5 0.07
27 54 0.72
28 16 0.21
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGGCTCTGCCACATTATCT
Found at i:65384198 original size:54 final size:54
Alignment explanation
Indices: 65384091--65384205 Score: 151
Period size: 54 Copynumber: 2.1 Consensus size: 54
65384081 TGGAGGAAGC
* *
65384091 GTTCTGGTGGCTATGCCACAAATATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTTCTGGTGGCTATGCCACAAATATCTGATCTGATGACTCTGCCACATATATCT
* * * * *
65384145 GTTCTGGTGGCTCTGCCACGATTATCTATATCTGATGACTCTGTCACAT-TATCT
1 GTTCTGGTGGCTATGCCACAAATATCT-GATCTGATGACTCTGCCACATATATCT
65384199 GTTCTGG
1 GTTCTGG
65384206 CAGCCATGCT
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
54 36 0.68
55 17 0.32
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (54 bp):
GTTCTGGTGGCTATGCCACAAATATCTGATCTGATGACTCTGCCACATATATCT
Found at i:65403094 original size:41 final size:46
Alignment explanation
Indices: 65403035--65403154 Score: 153
Period size: 41 Copynumber: 2.7 Consensus size: 46
65403025 ATGCTATCTC
* * *
65403035 ATATCGATGCCATTGTCCCAGACAGGGTCTTACAT-G-AATCA-A-
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACATCGTAACCACAT
*
65403077 ATA-CGATGCCAATGTCCCAAACATGGTCTTAC-TCGTAACCACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACATCGTAACCACAT
*
65403121 ATATCGATGCCAATGTCCCAGACTTGGTCTTACA
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACA
65403155 CGAGAATACA
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
40 1 0.02
41 27 0.41
42 7 0.11
43 1 0.02
44 3 0.05
45 27 0.41
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.27
Consensus pattern (46 bp):
ATATCGATGCCAATGTCCCAGACATGGTCTTACATCGTAACCACAT
Found at i:65403166 original size:45 final size:45
Alignment explanation
Indices: 65403035--65403167 Score: 141
Period size: 45 Copynumber: 3.0 Consensus size: 45
65403025 ATGCTATCTC
* * * *
65403035 ATATCGATGCCATTGTCCCAGACAGGGTCTTACA--TGAAT-CAA
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAGAATACAT
* * **
65403077 ATA-CGATGCCAATGTCCCAAACATGGTCTTACTCGTA-ACCACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACG-AGAATACAT
*
65403121 ATATCGATGCCAATGTCCCAGACTTGGTCTTACACGAGAATACAT
1 ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAGAATACAT
65403166 AT
1 AT
65403168 CTGAAATCCT
Statistics
Matches: 72, Mismatches: 13, Indels: 9
0.77 0.14 0.10
Matches are distributed among these distances:
41 26 0.36
42 3 0.04
43 1 0.01
44 6 0.08
45 36 0.50
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.26
Consensus pattern (45 bp):
ATATCGATGCCAATGTCCCAGACATGGTCTTACACGAGAATACAT
Found at i:65405471 original size:40 final size:40
Alignment explanation
Indices: 65405392--65405568 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
65405382 CGGATGATAA
* * * * *
65405392 CCGGACTAAGATCCGAAGGCATTCGTGTGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
* * * *
65405432 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TTATAT
* *
65405472 CCGGGCTAAGACCCGAAGGTATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
65405512 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
65405552 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
65405569 ATACTTGGGT
Statistics
Matches: 117, Mismatches: 17, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 99 0.85
41 2 0.02
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
Found at i:65405817 original size:41 final size:41
Alignment explanation
Indices: 65405772--65405854 Score: 157
Period size: 41 Copynumber: 2.0 Consensus size: 41
65405762 AAACGTGAAC
65405772 TAAGTATAATTATGAGAATGTGCATTTATGAAGATATTCAT
1 TAAGTATAATTATGAGAATGTGCATTTATGAAGATATTCAT
*
65405813 TAAGTATAATTATGAGAATGTGCATTTATGAAGTTATTCAT
1 TAAGTATAATTATGAGAATGTGCATTTATGAAGATATTCAT
65405854 T
1 T
65405855 TAGCCATATG
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.41
Consensus pattern (41 bp):
TAAGTATAATTATGAGAATGTGCATTTATGAAGATATTCAT
Found at i:65409393 original size:40 final size:40
Alignment explanation
Indices: 65409339--65409572 Score: 380
Period size: 40 Copynumber: 5.9 Consensus size: 40
65409329 GATATAGCTT
*
65409339 CTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
65409379 CTCGCACAATTGCCTTCGGGACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* * *
65409419 CTAGCACAATTGCCTTCGGAACTTAGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
* *
65409459 CTCGCACAATTGCCTTCGGGACTTGGCCCGGTTATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
65409499 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
*
65409539 CTCGCACAAATGCCTTCGGG-CTTAGCCCGATTAT
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTAT
65409573 CAATTCGAAT
Statistics
Matches: 182, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 12 0.07
40 170 0.93
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGTTATAGTAA
Found at i:65416741 original size:40 final size:40
Alignment explanation
Indices: 65416662--65416838 Score: 207
Period size: 40 Copynumber: 4.5 Consensus size: 40
65416652 CAGATGATAA
* * *
65416662 CCGGACTAAGATCCGAAGGCATTCATGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
* * * *
65416702 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTG-CTATAT
**
65416742 CCGGGCTAAGACCCGAAGGCATTTGGGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
* **
65416782 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
65416822 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
65416839 ATACTTGGGT
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 15 0.13
40 100 0.85
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTATGCGAGTTGCTATAT
Found at i:65416800 original size:80 final size:80
Alignment explanation
Indices: 65416662--65416838 Score: 241
Period size: 80 Copynumber: 2.2 Consensus size: 80
65416652 CAGATGATAA
* * * * *
65416662 CCGGACTAAGATCCGAAGGCATTCATGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTCAGGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
65416727 TGCTAGTGATTATAT
66 TGCGAGTGATTATAT
** *
65416742 CCGGGCTAAGACCCGAAGGCATTTGGGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTCAGGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
*
65416807 TGCGAGTTATTATAT
66 TGCGAGTGATTATAT
65416822 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
65416839 ATACTTGGGT
Statistics
Matches: 86, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
78 1 0.01
79 13 0.15
80 72 0.84
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTCAGGCGAGTTGCTATATCCGGGCTAAGACCCGAAGGCATTTA
TGCGAGTGATTATAT
Found at i:65418956 original size:25 final size:25
Alignment explanation
Indices: 65418927--65418974 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
65418917 CATTATCTTA
65418927 CCATTTC-ATCATATAAATATATCAT
1 CCATTTCAAT-ATATAAATATATCAT
*
65418952 CCATTTCAATATATCAATATATC
1 CCATTTCAATATATAAATATATC
65418975 CTGTATTGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.40
Consensus pattern (25 bp):
CCATTTCAATATATAAATATATCAT
Found at i:65419435 original size:2 final size:2
Alignment explanation
Indices: 65419430--65419463 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
65419420 ATATAATAAC
65419430 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
65419464 CAGTTCATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:65424897 original size:40 final size:39
Alignment explanation
Indices: 65424833--65424913 Score: 108
Period size: 40 Copynumber: 2.1 Consensus size: 39
65424823 TATACATATA
* *
65424833 TAGCCGAAGCTATCTCCAATCGCACACCAAGTGCCACATT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCA-ATT
* **
65424873 TAGCCGAAGCTATTTCAAACCGCACAGTAAGTGCCAATT
1 TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCAATT
65424912 TA
1 TA
65424914 TTTAGCCGAT
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
39 5 0.14
40 31 0.86
ACGTcount: A:0.32, C:0.30, G:0.16, T:0.22
Consensus pattern (39 bp):
TAGCCGAAGCTATCTCAAACCGCACACCAAGTGCCAATT
Found at i:65432196 original size:42 final size:42
Alignment explanation
Indices: 65432149--65432488 Score: 171
Period size: 42 Copynumber: 7.7 Consensus size: 42
65432139 TCATTTACTT
* *
65432149 GATGCCATAGT-CCA-ACTATGGTCTTACACAAAGTCTCACATC
1 GATGCCAT-GTCCCAGAC-ATGGTCTTACACAAAATCACACATC
* *
65432191 GATGCCATGTCCCAGACATGGTCTTATACAAAATCACATATC
1 GATGCCATGTCCCAGACATGGTCTTACACAAAATCACACATC
*** * ** * * *
65432233 GATGCCGCATCCCAGACACGGTCTTACATGAAATCTCATACC
1 GATGCCATGTCCCAGACATGGTCTTACACAAAATCACACATC
* * * ** * *
65432275 GAAGCCATATCCCAGATATGGTCTTACACGTAATCTCATATC
1 GATGCCATGTCCCAGACATGGTCTTACACAAAATCACACATC
* * * *
65432317 GATGCCGATGTTATATCCCAGATATGGTCTTACACAAGATCTCATATC
1 GATGCC-ATG-----TCCCAGACATGGTCTTACACAAAATCACACATC
* * * *
65432365 GATGCTAATGTCATATGCCAGATATGGTCTTACACAAGATCTCATATCAATGC
1 GATGC-CATGTC-----CCAGACATGGTCTTACACAA-A-ATCACA-C-AT-C
* * * ** * *
65432418 TGATGCCATATCCCAAATATGGTCTTACACAGGATCTCATATC
1 -GATGCCATGTCCCAGACATGGTCTTACACAAAATCACACATC
65432461 GATGCCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
65432489 TGTATCACAA
Statistics
Matches: 234, Mismatches: 44, Indels: 40
0.74 0.14 0.13
Matches are distributed among these distances:
41 2 0.01
42 129 0.55
43 7 0.03
44 2 0.01
46 3 0.01
48 76 0.32
50 3 0.01
52 2 0.01
53 5 0.02
54 5 0.02
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (42 bp):
GATGCCATGTCCCAGACATGGTCTTACACAAAATCACACATC
Found at i:65432290 original size:84 final size:84
Alignment explanation
Indices: 65432168--65432323 Score: 206
Period size: 84 Copynumber: 1.9 Consensus size: 84
65432158 GTCCAACTAT
* * * *
65432168 GGTCTTACACAAAGTCTCACATCGATGCCATGTCCCAGACATGGTCTTATACAAAATCACATATC
1 GGTCTTACACAAAGTCTCACACCGAAGCCATATCCCAGACATGGTCTTACACAAAATCACATATC
65432233 GATGCCGCATCCCAGACAC
66 GATGCCGCATCCCAGACAC
* * * ** *
65432252 GGTCTTACATGAAA-TCTCATACCGAAGCCATATCCCAGATATGGTCTTACACGTAATCTCATAT
1 GGTCTTACA-CAAAGTCTCACACCGAAGCCATATCCCAGACATGGTCTTACACAAAATCACATAT
65432316 CGATGCCG
65 CGATGCCG
65432324 ATGTTATATC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
84 58 0.95
85 3 0.05
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (84 bp):
GGTCTTACACAAAGTCTCACACCGAAGCCATATCCCAGACATGGTCTTACACAAAATCACATATC
GATGCCGCATCCCAGACAC
Found at i:65432334 original size:48 final size:48
Alignment explanation
Indices: 65432280--65432471 Score: 271
Period size: 48 Copynumber: 4.0 Consensus size: 48
65432270 ATACCGAAGC
*
65432280 CATATCCCAGATATGGTCTTACACGTA-ATCTCATATCGATGCCGATGT
1 CATATCCCAGATATGGTCTTACAC-AAGATCTCATATCGATGCCGATGT
* **
65432328 TATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCTAATGT
1 CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCCGATGT
* * * *
65432376 CATATGCCAGATATGGTCTTACACAAGATCTCATATCAATGCTGATGC
1 CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCCGATGT
* *
65432424 CATATCCCAAATATGGTCTTACACAGGATCTCATATCGATGCC-ATGT
1 CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCCGATGT
65432471 C
1 C
65432472 CCAGACATGG
Statistics
Matches: 128, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
47 5 0.04
48 123 0.96
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (48 bp):
CATATCCCAGATATGGTCTTACACAAGATCTCATATCGATGCCGATGT
Found at i:65432548 original size:37 final size:37
Alignment explanation
Indices: 65432460--65432598 Score: 178
Period size: 37 Copynumber: 3.8 Consensus size: 37
65432450 GATCTCATAT
65432460 CGATGCCAT-GTCCCAGAC-ATGGTCTTACATGT-ATCA
1 CGATGCCATAG-CCCAG-CTATGGTCTTACATGTCATCA
* *
65432496 CAATGCTATAGCCCAGCTATGGTCTTACATGTCATCA
1 CGATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
* * *
65432533 CGATGCCATAACCCAGCTATGGCCTTACATG-CTATTA
1 CGATGCCATAGCCCAGCTATGGTCTTACATGTC-ATCA
65432570 CGATGCCATAGCCCAGCTATGGTCTTACA
1 CGATGCCATAGCCCAGCTATGGTCTTACA
65432599 CATACAACAT
Statistics
Matches: 90, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
35 1 0.01
36 27 0.30
37 62 0.69
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (37 bp):
CGATGCCATAGCCCAGCTATGGTCTTACATGTCATCA
Found at i:65432598 original size:74 final size:73
Alignment explanation
Indices: 65432460--65432598 Score: 199
Period size: 74 Copynumber: 1.9 Consensus size: 73
65432450 GATCTCATAT
** * *
65432460 CGATGCCATGTCCCAGACATGGTCTTACATGTATCACAATGCTATAGCCCAGCTATGGTCTTACA
1 CGATGCCATAACCCAGACATGGCCTTACATGTATCACAATGCCATAGCCCAGCTATGGTCTTACA
65432525 TGTCATCA
66 TGTCATCA
* *
65432533 CGATGCCATAACCCAG-CTATGGCCTTACATGCTATTACGATGCCATAGCCCAGCTATGGTCTTA
1 CGATGCCATAACCCAGAC-ATGGCCTTACATG-TATCACAATGCCATAGCCCAGCTATGGTCTTA
65432597 CA
64 CA
65432599 CATACAACAT
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
72 1 0.02
73 26 0.45
74 31 0.53
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.27
Consensus pattern (73 bp):
CGATGCCATAACCCAGACATGGCCTTACATGTATCACAATGCCATAGCCCAGCTATGGTCTTACA
TGTCATCA
Done.