Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 78 of 295
Found at i:22573627 original size:53 final size:54
Alignment explanation
Indices: 22573519--22573629 Score: 179
Period size: 53 Copynumber: 2.1 Consensus size: 54
22573509 TATAAAATAC
22573519 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
1 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
* * * *
22573573 AAATTAATTAAGATTACATAAAT-AAAAAAATATTAAATAATTTTCAACATTTA
1 AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
22573626 AAAT
1 AAAT
22573630 AAACCGTTAC
Statistics
Matches: 53, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 31 0.58
54 22 0.42
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (54 bp):
AAATTAATTAAAATTACATAAATGAAAAAAATATTAAATAATATTCAAAAATTA
Found at i:22574414 original size:10 final size:10
Alignment explanation
Indices: 22574399--22574466 Score: 57
Period size: 10 Copynumber: 6.5 Consensus size: 10
22574389 AATTTTCTAA
22574399 AAAAAATATT
1 AAAAAATATT
22574409 AAAAAAATCATT
1 -AAAAAAT-ATT
*
22574421 -AAAAATCATA
1 AAAAAAT-ATT
22574431 AAAAAATATT
1 AAAAAATATT
** *
22574441 AAAATTTTATA
1 AAAA-AATATT
22574452 AAAAAATATT
1 AAAAAATATT
22574462 AAAAA
1 AAAAA
22574467 TTATGGTTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 7
0.75 0.13 0.11
Matches are distributed among these distances:
10 23 0.50
11 20 0.43
12 3 0.07
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (10 bp):
AAAAAATATT
Found at i:22574414 original size:11 final size:11
Alignment explanation
Indices: 22574398--22574466 Score: 65
Period size: 11 Copynumber: 6.5 Consensus size: 11
22574388 CAATTTTCTA
22574398 AAAAAAATATT
1 AAAAAAATATT
22574409 AAAAAAATCATT
1 AAAAAAAT-ATT
22574421 --AAAAATCA-T
1 AAAAAAAT-ATT
22574430 AAAAAAATATT
1 AAAAAAATATT
***
22574441 AAAATTTTA-T
1 AAAAAAATATT
22574451 AAAAAAATATT
1 AAAAAAATATT
22574462 AAAAA
1 AAAAA
22574467 TTATGGTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
9 1 0.02
10 16 0.34
11 27 0.57
12 3 0.06
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.28
Consensus pattern (11 bp):
AAAAAAATATT
Found at i:22574425 original size:21 final size:20
Alignment explanation
Indices: 22574400--22574467 Score: 84
Period size: 21 Copynumber: 3.3 Consensus size: 20
22574390 ATTTTCTAAA
22574400 AAAAATATTAAAAAAATCATT
1 AAAAATATTAAAAAAAT-ATT
22574421 AAAAATCA-TAAAAAAATATT
1 AAAAAT-ATTAAAAAAATATT
* *
22574441 AAAATTTTATAAAAAAATATT
1 AAAAATAT-TAAAAAAATATT
22574462 AAAAAT
1 AAAAAT
22574468 TATGGTTAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 8 0.20
21 32 0.78
22 1 0.02
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (20 bp):
AAAAATATTAAAAAAATATT
Found at i:22574470 original size:20 final size:20
Alignment explanation
Indices: 22574408--22574470 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 20
22574398 AAAAAAATAT
*
22574408 TAAAAAAATCATTAAAAATCA
1 TAAAAAAAT-ATTAAAAATTA
*
22574429 TAAAAAAATATTAAAATTTTA
1 TAAAAAAATATTAAAA-ATTA
22574450 TAAAAAAATATTAAAAATTA
1 TAAAAAAATATTAAAAATTA
22574470 T
1 T
22574471 GGTTAAGTAT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 11 0.29
21 27 0.71
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAAAATATTAAAAATTA
Found at i:22581017 original size:16 final size:16
Alignment explanation
Indices: 22580996--22581026 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22580986 TTCACTATTA
*
22580996 TGTCTTTTGTATTTTC
1 TGTCTTTTATATTTTC
22581012 TGTCTTTTATATTTT
1 TGTCTTTTATATTTT
22581027 GCATGCACAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.10, G:0.10, T:0.71
Consensus pattern (16 bp):
TGTCTTTTATATTTTC
Found at i:22582125 original size:13 final size:13
Alignment explanation
Indices: 22582107--22582131 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22582097 GGATTGTTCA
22582107 ATTAAAGAATTTG
1 ATTAAAGAATTTG
22582120 ATTAAAGAATTT
1 ATTAAAGAATTT
22582132 TCTCAAAAAA
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:0.48, C:0.00, G:0.12, T:0.40
Consensus pattern (13 bp):
ATTAAAGAATTTG
Found at i:22583842 original size:20 final size:20
Alignment explanation
Indices: 22583814--22583871 Score: 73
Period size: 20 Copynumber: 2.9 Consensus size: 20
22583804 TAAAAAAAAT
*
22583814 AATCAATTGAAACCAAGAAC
1 AATCGATTGAAACCAAGAAC
*
22583834 AAAT-GATTGAAACCAAGAGC
1 -AATCGATTGAAACCAAGAAC
*
22583854 AATCGATTAAAACCAAGA
1 AATCGATTGAAACCAAGA
22583872 GTAAAAAGAT
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.53, C:0.17, G:0.14, T:0.16
Consensus pattern (20 bp):
AATCGATTGAAACCAAGAAC
Found at i:22583980 original size:20 final size:20
Alignment explanation
Indices: 22583955--22583993 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22583945 AGTAGCTTGC
22583955 TAAACAAACTTAAGAACTGG
1 TAAACAAACTTAAGAACTGG
*
22583975 TAAACAAACTTAATAACTG
1 TAAACAAACTTAAGAACTG
22583994 CCTAACCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.23
Consensus pattern (20 bp):
TAAACAAACTTAAGAACTGG
Found at i:22584929 original size:45 final size:45
Alignment explanation
Indices: 22584865--22584956 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
22584855 AAGTTTAAGA
*
22584865 TTACTGAAGATTGCTCACAAAGCATAATGTAAAACAATTGCTCTT
1 TTACTGAAGATTGCTCACAAAGCATAATATAAAACAATTGCTCTT
*
22584910 TTACTGAAGATTGCTCACAAAGCATAATATGAAACAATTGCTCTT
1 TTACTGAAGATTGCTCACAAAGCATAATATAAAACAATTGCTCTT
22584955 TT
1 TT
22584957 GTTTGGCAGT
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (45 bp):
TTACTGAAGATTGCTCACAAAGCATAATATAAAACAATTGCTCTT
Found at i:22587713 original size:15 final size:15
Alignment explanation
Indices: 22587693--22587722 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
22587683 AAACAAAACA
22587693 TGATTTCTACTAATC
1 TGATTTCTACTAATC
*
22587708 TGATTTTTACTAATC
1 TGATTTCTACTAATC
22587723 CAGTTTTTGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.50
Consensus pattern (15 bp):
TGATTTCTACTAATC
Found at i:22596249 original size:18 final size:16
Alignment explanation
Indices: 22596212--22596266 Score: 76
Period size: 16 Copynumber: 3.4 Consensus size: 16
22596202 GTTTTTTATA
22596212 TTTTTTATATATT-AT
1 TTTTTTATATATTAAT
* *
22596227 TTTTTATAAATTTTAAT
1 TTTTT-TATATATTAAT
22596244 TTTTTTATATATTAAT
1 TTTTTTATATATTAAT
22596260 TTTTTTA
1 TTTTTTA
22596267 CATTTTTAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 5 0.15
16 22 0.65
17 7 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTTTTTATATATTAAT
Found at i:22596282 original size:34 final size:33
Alignment explanation
Indices: 22596205--22596294 Score: 100
Period size: 32 Copynumber: 2.8 Consensus size: 33
22596195 TATTATAGTT
*
22596205 TTTTATATTTTTTATATATT-ATTTTTTATAAA
1 TTTTAAATTTTTTATATATTAATTTTTTATAAA
* *
22596237 TTTTAATTTTTTTATATATTAATTTTTT-TACAT
1 TTTTAAATTTTTTATATATTAATTTTTTATA-AA
22596270 TTTTAAAATTTTTT-TA-A-TAATTTTT
1 TTTT-AAATTTTTTATATATTAATTTTT
22596295 GAGATGTAAT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
31 8 0.16
32 21 0.41
33 14 0.27
34 8 0.16
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (33 bp):
TTTTAAATTTTTTATATATTAATTTTTTATAAA
Found at i:22596722 original size:17 final size:18
Alignment explanation
Indices: 22596681--22596723 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
22596671 TGTATTTACT
22596681 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
22596699 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
22596716 TATTATAT
1 TATTATAT
22596724 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:22596734 original size:18 final size:17
Alignment explanation
Indices: 22596711--22596747 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
22596701 ATATAAAGTA
*
22596711 AATTATATTATATTATAT
1 AATTATAATATATTA-AT
22596729 AATTATAATATATTAAT
1 AATTATAATATATTAAT
22596746 AA
1 AA
22596748 AATAAAGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AATTATAATATATTAAT
Found at i:22604005 original size:17 final size:18
Alignment explanation
Indices: 22603964--22604006 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
22603954 TGTATTCACT
22603964 TATTATATAAGTAAATAA
1 TATTATATAAGTAAATAA
* *
22603982 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
22603999 TATTATAT
1 TATTATAT
22604007 TATATAATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 15 0.71
18 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:22604978 original size:6 final size:6
Alignment explanation
Indices: 22604961--22604998 Score: 58
Period size: 6 Copynumber: 6.3 Consensus size: 6
22604951 CCTGAATATG
* *
22604961 ACTGTT AGTGTT ACTGTT ATTGTT ACTGTT ACTGTT AC
1 ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT ACTGTT AC
22604999 CCTACAGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.50
Consensus pattern (6 bp):
ACTGTT
Found at i:22613694 original size:16 final size:16
Alignment explanation
Indices: 22613673--22613713 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
22613663 ATGAAAGCTT
*
22613673 AAAATGGTGTTTTAGC
1 AAAATGATGTTTTAGC
22613689 AAAATGATGTTTTAGC
1 AAAATGATGTTTTAGC
22613705 AAAATGATG
1 AAAATGATG
22613714 GCTAATGACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.22, T:0.34
Consensus pattern (16 bp):
AAAATGATGTTTTAGC
Found at i:22614475 original size:26 final size:26
Alignment explanation
Indices: 22614446--22614553 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
22614436 TGGTACAAAT
*
22614446 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
**
22614472 TGATAATGAATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
22614498 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
22614524 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
22614550 TGAT
1 TGAT
22614554 GGGCATTTCA
Statistics
Matches: 75, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 75 1.00
ACGTcount: A:0.34, C:0.07, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:22617680 original size:7 final size:7
Alignment explanation
Indices: 22617668--22617784 Score: 117
Period size: 7 Copynumber: 16.4 Consensus size: 7
22617658 ACAATTGAAG
22617668 ACCCTAA
1 ACCCTAA
22617675 ACCCTAA
1 ACCCTAA
*
22617682 ACCATAA
1 ACCCTAA
*
22617689 ACTCTAA
1 ACCCTAA
*
22617696 ACCATAA
1 ACCCTAA
*
22617703 ACCATAA
1 ACCCTAA
22617710 ACCCTAA
1 ACCCTAA
*
22617717 ACCTTAAA
1 ACCCT-AA
22617725 ACCCTAA
1 ACCCTAA
*
22617732 ACTCTAA
1 ACCCTAA
*
22617739 ACACTAAA
1 ACCCT-AA
*
22617747 ACCATAA
1 ACCCTAA
*
22617754 ACCATAA
1 ACCCTAA
*
22617761 ACTCTAA
1 ACCCTAA
*
22617768 ACCATAA
1 ACCCTAA
22617775 ACCCTAA
1 ACCCTAA
22617782 ACC
1 ACC
22617785 ATCTACCAAT
Statistics
Matches: 91, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
7 80 0.88
8 11 0.12
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (7 bp):
ACCCTAA
Found at i:22617697 original size:21 final size:21
Alignment explanation
Indices: 22617668--22617784 Score: 144
Period size: 21 Copynumber: 5.5 Consensus size: 21
22617658 ACAATTGAAG
22617668 ACCCTAAACCCTAAACCATAA
1 ACCCTAAACCCTAAACCATAA
* *
22617689 ACTCTAAACCATAAACCATAA
1 ACCCTAAACCCTAAACCATAA
* *
22617710 ACCCTAAACCTTAAAACCCTAA
1 ACCCTAAACCCT-AAACCATAA
* *
22617732 ACTCTAAACACTAAAACCATAA
1 ACCCTAAACCCT-AAACCATAA
* *
22617754 ACCATAAACTCTAAACCATAA
1 ACCCTAAACCCTAAACCATAA
22617775 ACCCTAAACC
1 ACCCTAAACC
22617785 ATCTACCAAT
Statistics
Matches: 81, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
21 46 0.57
22 35 0.43
ACGTcount: A:0.50, C:0.33, G:0.00, T:0.17
Consensus pattern (21 bp):
ACCCTAAACCCTAAACCATAA
Found at i:22622233 original size:9 final size:9
Alignment explanation
Indices: 22622212--22622241 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
22622202 TTCCCAAAAT
22622212 ATTAATT-A
1 ATTAATTAA
22622220 ATTAATTAA
1 ATTAATTAA
22622229 ATTAATTAA
1 ATTAATTAA
22622238 ATTA
1 ATTA
22622242 CCTCCTCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.33
9 14 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (9 bp):
ATTAATTAA
Found at i:22640674 original size:22 final size:22
Alignment explanation
Indices: 22640648--22640694 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
22640638 TGTTAATTTT
*
22640648 AAATGA-CATTATAGAAAAATTA
1 AAATGATCATGATA-AAAAATTA
*
22640670 AAATGATCATGATAAAAATTTA
1 AAATGATCATGATAAAAAATTA
22640692 AAA
1 AAA
22640695 CTTTGGTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.60, C:0.04, G:0.09, T:0.28
Consensus pattern (22 bp):
AAATGATCATGATAAAAAATTA
Found at i:22644437 original size:34 final size:34
Alignment explanation
Indices: 22644389--22644459 Score: 97
Period size: 34 Copynumber: 2.1 Consensus size: 34
22644379 AAAAAAAATT
* * *
22644389 TAACAAACTCAGCTTCTTACTCTCATTATCAAGC
1 TAACAAACTCAGCTTCCTACTCTCACTAACAAGC
* *
22644423 TAACAAACTTAGCTTCCTACTCTTACTAACAAGC
1 TAACAAACTCAGCTTCCTACTCTCACTAACAAGC
22644457 TAA
1 TAA
22644460 TGATCTCTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.35, C:0.28, G:0.06, T:0.31
Consensus pattern (34 bp):
TAACAAACTCAGCTTCCTACTCTCACTAACAAGC
Found at i:22645723 original size:13 final size:13
Alignment explanation
Indices: 22645705--22645735 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
22645695 GTGAGTAAAA
22645705 CATATAACCATAT
1 CATATAACCATAT
22645718 CATATAACCATAT
1 CATATAACCATAT
22645731 CATAT
1 CATAT
22645736 TGTAATTCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (13 bp):
CATATAACCATAT
Found at i:22645954 original size:34 final size:34
Alignment explanation
Indices: 22645911--22646024 Score: 122
Period size: 34 Copynumber: 3.4 Consensus size: 34
22645901 CAGATATATG
* *
22645911 AGTAACTACACCACACCAGGTTGCTCGTTAAAGC
1 AGTAACTACACCACACCAGATTGCTCGTCAAAGC
* * *
22645945 AGTAACTACACCACACCAGATTGCTTGTCAGAGT
1 AGTAACTACACCACACCAGATTGCTCGTCAAAGC
* * * * *
22645979 AATAACTACACCACACTAGATTACTC-TGACGAGC
1 AGTAACTACACCACACCAGATTGCTCGTCA-AAGC
22646013 AGTAACTACACC
1 AGTAACTACACC
22646025 TTACCAGCTC
Statistics
Matches: 67, Mismatches: 12, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
33 2 0.03
34 65 0.97
ACGTcount: A:0.35, C:0.29, G:0.15, T:0.21
Consensus pattern (34 bp):
AGTAACTACACCACACCAGATTGCTCGTCAAAGC
Found at i:22652366 original size:17 final size:17
Alignment explanation
Indices: 22652346--22652389 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
22652336 TTCATAAGCA
22652346 TATATCATTCATTTCAT-
1 TATATCATT-ATTTCATC
*
22652363 TATATCAATATTTCATGC
1 TATATCATTATTTCAT-C
22652381 TATATCATT
1 TATATCATT
22652390 TCCATATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 7 0.30
17 8 0.35
18 8 0.35
ACGTcount: A:0.32, C:0.16, G:0.02, T:0.50
Consensus pattern (17 bp):
TATATCATTATTTCATC
Found at i:22652661 original size:46 final size:46
Alignment explanation
Indices: 22652609--22652913 Score: 369
Period size: 46 Copynumber: 6.6 Consensus size: 46
22652599 TGACATAGTG
* ** *
22652609 TCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGCTGCCATGGTA
* * *
22652655 TCTTTCAACCATGGTCTTATTCATTTCATGTCACGCTGCCATAGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGCTGCCATGGTA
* * * *
22652701 TCTTTCAACCATGGTCTTATTTATTTCCCT-TCATGTTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTT-CATGTCATGCTGCCATGGTA
* * ** * *
22652747 TCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCAATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGCTGCCATGGTA
* * *
22652793 TCTTTCAACCATGGTCTTACACATTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGCTGCCATGGTA
* * * *
22652839 TCTTTCAACCATGGTCTTACACGTTTCATATCAGGCTGCCATGGTA
1 TCTTTCAACCATGGTCTTACTCATTTCATGTCATGCTGCCATGGTA
*
22652885 TCTTTCAACCATGGTCTTACACATTTCAT
1 TCTTTCAACCATGGTCTTACTCATTTCAT
22652914 ATCAGAGAGC
Statistics
Matches: 232, Mismatches: 25, Indels: 4
0.89 0.10 0.02
Matches are distributed among these distances:
45 2 0.01
46 228 0.98
47 2 0.01
ACGTcount: A:0.21, C:0.24, G:0.14, T:0.41
Consensus pattern (46 bp):
TCTTTCAACCATGGTCTTACTCATTTCATGTCATGCTGCCATGGTA
Found at i:22652804 original size:138 final size:138
Alignment explanation
Indices: 22652609--22652911 Score: 410
Period size: 138 Copynumber: 2.2 Consensus size: 138
22652599 TGACATAGTG
* *** *
22652609 TCTTTCAACTATGGTCTTACTCATTTTTTGTCATGTTGCCATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCAATGGTATCTTTCAACCATGGTCTTA
** * *** * * *
22652674 TTCATTTCATGTCACGCTGCCATAGTATCTTTCAACCATGGTCTTATTTATTTCCCT-TCATGTT
66 CACATTTCATATCACGCTGCCATAGTATCTTTCAACCATGGTCTTACACATTT-CATATCAGGCT
22652738 GCCATGGTA
130 GCCATGGTA
* *
22652747 TCTTTCAACCATGGTCTTATTTATTTCCCGTCATGTTGCAATGGTATCTTTCAACCATGGTCTTA
1 TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCAATGGTATCTTTCAACCATGGTCTTA
* * *
22652812 CACATTTCATATCAGGCTGCCATGGTATCTTTCAACCATGGTCTTACACGTTTCATATCAGGCTG
66 CACATTTCATATCACGCTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
22652877 CCATGGTA
131 CCATGGTA
*
22652885 TCTTTCAACCATGGTCTTACACATTTC
1 TCTTTCAACCATGGTCTTACTCATTTC
22652912 ATATCAGAGA
Statistics
Matches: 142, Mismatches: 22, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
137 2 0.01
138 140 0.99
ACGTcount: A:0.20, C:0.24, G:0.14, T:0.41
Consensus pattern (138 bp):
TCTTTCAACCATGGTCTTACTCATTTCCCGTCATGTTGCAATGGTATCTTTCAACCATGGTCTTA
CACATTTCATATCACGCTGCCATAGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGCTG
CCATGGTA
Found at i:22655091 original size:18 final size:20
Alignment explanation
Indices: 22655076--22655112 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
22655066 TAATAATAAA
*
22655076 ATATCTCATTAAAATAATAT
1 ATATCTAATTAAAATAATAT
22655096 ATATCTAATT-AAATAAT
1 ATATCTAATTAAAATAAT
22655113 CATAAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
ATATCTAATTAAAATAATAT
Found at i:22659185 original size:72 final size:72
Alignment explanation
Indices: 22659064--22659395 Score: 648
Period size: 72 Copynumber: 4.6 Consensus size: 72
22659054 GCTTACAACT
*
22659064 TAAC-AACTTAGTTGGAATACAACTAAGTTTCATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
22659128 ACTACAC
66 ACTACAC
22659135 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
22659200 ACTACAC
66 ACTACAC
22659207 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
22659272 ACTACAC
66 ACTACAC
22659279 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
22659344 ACTACAC
66 ACTACAC
22659351 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
1 TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCA
22659396 AATAATAATA
Statistics
Matches: 259, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
71 4 0.02
72 255 0.98
ACGTcount: A:0.42, C:0.24, G:0.06, T:0.27
Consensus pattern (72 bp):
TAACAAACTTAGTTGGAATACAACTAAGTTACATCATTACATCCACTTAAAATAAATCACCACCT
ACTACAC
Found at i:22659404 original size:3 final size:3
Alignment explanation
Indices: 22659396--22659430 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
22659386 ATTACATCCA
22659396 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
22659431 AACATGTGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:22660786 original size:81 final size:81
Alignment explanation
Indices: 22660692--22660855 Score: 301
Period size: 81 Copynumber: 2.0 Consensus size: 81
22660682 TTACGCTTTC
22660692 AAAGAAATAACGAAATTTAAAAGGTTAGAATTGATATTATTAAAAAAACAACCATAAACTTTAAA
1 AAAGAAATAACGAAATTTAAAAGGTTAGAATTGATATTATTAAAAAAACAACCATAAACTTTAAA
*
22660757 TATAAACTGTAAAACA
66 TATAAACGGTAAAACA
* *
22660773 AAAGAAATGACGAAATTTAAAAGGTTGGAATTGATATTATTAAAAAAACAACCATAAACTTTAAA
1 AAAGAAATAACGAAATTTAAAAGGTTAGAATTGATATTATTAAAAAAACAACCATAAACTTTAAA
22660838 TATAAACGGTAAAACA
66 TATAAACGGTAAAACA
22660854 AA
1 AA
22660856 CCTCAAAAGT
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 80 1.00
ACGTcount: A:0.56, C:0.09, G:0.10, T:0.25
Consensus pattern (81 bp):
AAAGAAATAACGAAATTTAAAAGGTTAGAATTGATATTATTAAAAAAACAACCATAAACTTTAAA
TATAAACGGTAAAACA
Found at i:22670089 original size:23 final size:24
Alignment explanation
Indices: 22670057--22670128 Score: 74
Period size: 25 Copynumber: 3.0 Consensus size: 24
22670047 CCATATAGCC
* * *
22670057 ACATAACAGGAAGTTCA-AACGAG
1 ACATATCAGGAAGCTCACAAAGAG
*
22670080 TCATATCAGGAAGCTCACAAAGAG
1 ACATATCAGGAAGCTCACAAAGAG
* *
22670104 ACTATATCAGGACGCTCATAAAGAG
1 AC-ATATCAGGAAGCTCACAAAGAG
22670129 CTGTGTTTGT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
23 14 0.35
24 6 0.15
25 20 0.50
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.17
Consensus pattern (24 bp):
ACATATCAGGAAGCTCACAAAGAG
Found at i:22673037 original size:45 final size:45
Alignment explanation
Indices: 22672987--22673076 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
22672977 ATCTTTATGA
*
22672987 TTTTAATGATTTTAAATAGAAAATACTAGTTTTGCCACGTGGCAT
1 TTTTAATGATTTTAAATAAAAAATACTAGTTTTGCCACGTGGCAT
22673032 TTTTAATGATTTTAAATAAAAAATACTAGTTTTGCCACGTGGCAT
1 TTTTAATGATTTTAAATAAAAAATACTAGTTTTGCCACGTGGCAT
22673077 AATCTTGGTG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (45 bp):
TTTTAATGATTTTAAATAAAAAATACTAGTTTTGCCACGTGGCAT
Found at i:22684174 original size:57 final size:57
Alignment explanation
Indices: 22684085--22684194 Score: 211
Period size: 57 Copynumber: 1.9 Consensus size: 57
22684075 ATCCGCTCAC
*
22684085 CAAAGTCACAACATTCAAGCCAGTAGCTTGAAGATGGAAGTTGATCCCAAACAATAA
1 CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAATAA
22684142 CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACA
1 CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACA
22684195 GCAGCAAAGT
Statistics
Matches: 52, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (57 bp):
CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAATAA
Found at i:22684203 original size:57 final size:57
Alignment explanation
Indices: 22684085--22684216 Score: 210
Period size: 57 Copynumber: 2.3 Consensus size: 57
22684075 ATCCGCTCAC
* *
22684085 CAAAGTCACAACATTCAAGCCAGTAGCTTGAAGATGGAAGTTGATCCCAAACAATAA
1 CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAACAA
* *
22684142 CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAGCAG
1 CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAACAA
* *
22684199 CAAAGTCGCGACATTCAA
1 CAAAGTCACAACATTCAA
22684217 CACGGTCTCA
Statistics
Matches: 69, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
57 69 1.00
ACGTcount: A:0.40, C:0.23, G:0.19, T:0.17
Consensus pattern (57 bp):
CAAAGTCACAACATTCAAGCCAGTAGCCTGAAGATGGAAGTTGATCCCAAACAACAA
Found at i:22686673 original size:16 final size:15
Alignment explanation
Indices: 22686645--22686687 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
22686635 TCAGTCATGC
22686645 AATACTCAATTCATA
1 AATACTCAATTCATA
*
22686660 AATACATCATTTCATA
1 AATAC-TCAATTCATA
*
22686676 CCATACTCAATT
1 -AATACTCAATT
22686688 TACGAGTATA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
15 5 0.22
16 14 0.61
17 4 0.17
ACGTcount: A:0.42, C:0.23, G:0.00, T:0.35
Consensus pattern (15 bp):
AATACTCAATTCATA
Found at i:22687009 original size:41 final size:41
Alignment explanation
Indices: 22686880--22687015 Score: 138
Period size: 41 Copynumber: 3.4 Consensus size: 41
22686870 GCTAGTTTGG
* * *
22686880 CACCCAGTGCCTCATC-AAATAATTCGAAGTAATAAATTGA
1 CACCCAGTGTCTCATCGAAATAATCCGAAGTAGTAAATTGA
* ** * *
22686920 CACTCAGTGTCTCATCG-GCTAAACCG-A--AGTAAATTGG
1 CACCCAGTGTCTCATCGAAATAATCCGAAGTAGTAAATTGA
* * *
22686957 CACTCAATGTCTCATCGAATTAATCCGAAGTAGTAAATTGA
1 CACCCAGTGTCTCATCGAAATAATCCGAAGTAGTAAATTGA
22686998 CACCCAGTGTCTCATCGA
1 CACCCAGTGTCTCATCGA
22687016 CTTGAAGTCG
Statistics
Matches: 76, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
37 24 0.32
38 6 0.08
39 2 0.03
40 19 0.25
41 25 0.33
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (41 bp):
CACCCAGTGTCTCATCGAAATAATCCGAAGTAGTAAATTGA
Found at i:22697707 original size:2 final size:2
Alignment explanation
Indices: 22697700--22697730 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22697690 ATGCTACGTG
22697700 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22697731 GCATTAATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22713827 original size:31 final size:31
Alignment explanation
Indices: 22713792--22713851 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
22713782 AAGTTAATTC
*
22713792 TTAAACTTGACGATTATTCT-CATATTGGGAT
1 TTAAACTTGACAATTATT-TACATATTGGGAT
*
22713823 TTAAACTTGATAATTATTTACATATTGGG
1 TTAAACTTGACAATTATTTACATATTGGG
22713852 GTCTGAGCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 1 0.04
31 25 0.96
ACGTcount: A:0.32, C:0.10, G:0.15, T:0.43
Consensus pattern (31 bp):
TTAAACTTGACAATTATTTACATATTGGGAT
Found at i:22716463 original size:3 final size:3
Alignment explanation
Indices: 22716448--22716574 Score: 130
Period size: 3 Copynumber: 42.7 Consensus size: 3
22716438 CAATTTAATA
* * * * *
22716448 TAT TAT TAC TAT TAT TAT TAT TAC CAT TAT TAT TAC TAT TAT TAT TTT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * *
22716496 TAT TAC TAT TAT TAT TAC TAT TTT TGT TAT TAT TAT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
22716544 TAT T-G TAT TAT TAC TAT TAT TTT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
22716575 CATTTTTTTG
Statistics
Matches: 98, Mismatches: 25, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
2 1 0.01
3 97 0.99
ACGTcount: A:0.30, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:22716764 original size:3 final size:3
Alignment explanation
Indices: 22716737--22716795 Score: 84
Period size: 3 Copynumber: 19.3 Consensus size: 3
22716727 CAAATTTTAG
*
22716737 ATT ATTT ATT ATT -TGT ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
22716783 ATT ATT ATT ATT A
1 ATT ATT ATT ATT A
22716796 AAACTACCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
2 1 0.02
3 46 0.90
4 4 0.08
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:22721742 original size:8 final size:8
Alignment explanation
Indices: 22721700--22721724 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
22721690 ATATATACTA
22721700 AATAAAAT
1 AATAAAAT
22721708 AATAAAAT
1 AATAAAAT
22721716 AATAAAAT
1 AATAAAAT
22721724 A
1 A
22721725 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:22721748 original size:29 final size:31
Alignment explanation
Indices: 22721697--22721765 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
22721687 TATATATATA
*
22721697 CTAAATAAAATAATAAAATAATAA-AA-TAT
1 CTAATTAAAATAATAAAATAATAATAATTAT
* *
22721726 CTTATTAAAAT-ATTAAATAAATAATAATTAT
1 CTAATTAAAATAATAAAAT-AATAATAATTAT
22721757 CTAATTAAA
1 CTAATTAAA
22721766 TAACTATAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 6 0.18
29 14 0.42
30 2 0.06
31 11 0.33
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (31 bp):
CTAATTAAAATAATAAAATAATAATAATTAT
Found at i:22722045 original size:30 final size:30
Alignment explanation
Indices: 22721978--22722045 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
22721968 CACCCTTAAA
* * *
22721978 ATATTTGCACTATTAGTCCTTAAACTTTTT
1 ATATTTACACTATTAGTCCTCAAACTTTTG
22722008 ATATTTACACT-TTAGTCCCTCAAA-TTTTG
1 ATATTTACACTATTAGT-CCTCAAACTTTTG
22722037 AGTATTTAC
1 A-TATTTAC
22722046 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
29 10 0.30
30 23 0.70
ACGTcount: A:0.28, C:0.18, G:0.07, T:0.47
Consensus pattern (30 bp):
ATATTTACACTATTAGTCCTCAAACTTTTG
Found at i:22724779 original size:17 final size:18
Alignment explanation
Indices: 22724752--22724785 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
22724742 AATAAATATT
22724752 TTTATTTGCTGTAATTTA
1 TTTATTTGCTGTAATTTA
22724770 TTTA-TTGCTGTAATTT
1 TTTATTTGCTGTAATTT
22724786 GCAAACTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.62
Consensus pattern (18 bp):
TTTATTTGCTGTAATTTA
Found at i:22727516 original size:9 final size:9
Alignment explanation
Indices: 22727466--22727517 Score: 59
Period size: 9 Copynumber: 5.8 Consensus size: 9
22727456 TTTTCTTTTT
*
22727466 GTTAATTCA
1 GTTAATTCG
* *
22727475 ATTAAATCG
1 GTTAATTCG
* *
22727484 TTTAAATCG
1 GTTAATTCG
22727493 GTTAATTCG
1 GTTAATTCG
22727502 GTTAATTCG
1 GTTAATTCG
22727511 GTTAATT
1 GTTAATT
22727518 TTTATACTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 37 1.00
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (9 bp):
GTTAATTCG
Found at i:22728024 original size:12 final size:12
Alignment explanation
Indices: 22728007--22728040 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
22727997 ATACAGAAGG
22728007 AGATGCAAGAAC
1 AGATGCAAGAAC
*
22728019 AGATGCAAGCAC
1 AGATGCAAGAAC
*
22728031 AAATGCAAGA
1 AGATGCAAGA
22728041 GCAATTGGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.18, G:0.24, T:0.09
Consensus pattern (12 bp):
AGATGCAAGAAC
Found at i:22738095 original size:28 final size:28
Alignment explanation
Indices: 22738055--22738111 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
22738045 TCCCGAGAAG
22738055 CGCTTACTTATAGTCTAAGCTCGACTTA
1 CGCTTACTTATAGTCTAAGCTCGACTTA
*
22738083 CGCTTACTTATAGTCTAAGCTTGACTTA
1 CGCTTACTTATAGTCTAAGCTCGACTTA
22738111 C
1 C
22738112 CTCTCCGTTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.37
Consensus pattern (28 bp):
CGCTTACTTATAGTCTAAGCTCGACTTA
Found at i:22741490 original size:13 final size:13
Alignment explanation
Indices: 22741472--22741497 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
22741462 TCACCCTATG
22741472 TCTAGGCGTGCAA
1 TCTAGGCGTGCAA
22741485 TCTAGGCGTGCAA
1 TCTAGGCGTGCAA
22741498 ACAACTCCGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
TCTAGGCGTGCAA
Found at i:22744671 original size:17 final size:18
Alignment explanation
Indices: 22744649--22744682 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
22744639 TAGTTGACAT
22744649 AACAAATACAA-AAATAA
1 AACAAATACAACAAATAA
*
22744666 AACAAATCCAACAAATA
1 AACAAATACAACAAATA
22744683 TATATATGGC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.71, C:0.18, G:0.00, T:0.12
Consensus pattern (18 bp):
AACAAATACAACAAATAA
Found at i:22747761 original size:44 final size:44
Alignment explanation
Indices: 22747710--22748269 Score: 292
Period size: 44 Copynumber: 12.6 Consensus size: 44
22747700 CATAGCATAC
* *
22747710 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATTACAAGT
** * * * *
22747754 CTTATCTCTTTGAAGTT-CTAGTGGAGTAGACTAAAGATGACAAAT
1 CTTATCTCCCTGAAGTTGC-AGTGGAGTAGATTGAA-ATTACAAGT
* * * ** *
22747799 CTTATCTCCCTGAAGTTGCAGTAGAGTAAATT-ACGACCACTAA-C
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGA-AATTAC-AAGT
* * * * *
22747843 CTTATCTCTCTGAATTTGTAGTGGAGTAGGTTGAAGTTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATTACAAGT
* *
22747887 CTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGA-TAGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA-ATTA-CAAGT
* * * * * * *
22747932 ATTATTTCCCTGAAGTTGCAGTAGAATAGGTTGAAGCTATAAATTATAGAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAA---AT-TA-CA-AG-T
* ** * * * * **
22747983 TTTATCTCTTTGAAGTTGCAGTAGAG-AAAATCAAA--ACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATTACAAGT
** * * * *
22748024 CTTATCTAACTGAAATTGCAGTGGAATAGGTTGAAATTATAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATTACAAGT
* * * * * **
22748068 CTTATCTCCTTAAAGTTGCAGTGGAGCAGACTGAAAACTACAAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTG-AAATTACAAGT
* * * *** *
22748113 CTTATCTCTCTGAAGTTACAGTAGAGTA-AGTTGAAGCCACAAGC
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TTGAAATTACAAGT
* * ** *
22748157 CTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAACACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATTACAAGT
* * ** *
22748200 CTCATATCCCTGAAGTTGCAGTGGAGTAGACTAAAAACTACAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGTAGA-TTGAAATTACAAGT
* *
22748245 CTTATCTCTCTGAAGTTACAGTGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
22748270 ATGGATCGAA
Statistics
Matches: 377, Mismatches: 116, Indels: 45
0.70 0.22 0.08
Matches are distributed among these distances:
41 19 0.05
42 6 0.02
43 38 0.10
44 153 0.41
45 129 0.34
46 1 0.00
47 2 0.01
49 2 0.01
50 5 0.01
51 22 0.06
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGTAGATTGAAATTACAAGT
Found at i:22747820 original size:89 final size:88
Alignment explanation
Indices: 22747710--22747912 Score: 221
Period size: 89 Copynumber: 2.3 Consensus size: 88
22747700 CATAGCATAC
** ** * *
22747710 CTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGA-AATTAC-AAGTCTTATCTCTTTGAAGTTCT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAATT-ACAACCACTAA-CCTTATCTCTCTGAAGTTCT
22747773 AGTGGAGTAGACTAAAGATGACAAAT
64 AGTGGAGTAGACTAAAG-TGACAAAT
* * * * *
22747799 CTTATCTCCCTGAAGTTGCAGTAGAGTAAATTACGACCACTAACCTTATCTCTCTGAATTTGTAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAAATTACAACCACTAACCTTATCTCTCTGAAGTTCTAG
** * * *
22747864 TGGAGTAGGTTGAAGTTACAAGT
66 TGGAGTAGACTAAAGTGACAAAT
22747887 CTTATCTCCCTGAAGTTGCAGTGGAG
1 CTTATCTCCCTGAAGTTGCAGTGGAG
22747913 TAGACTGAAG
Statistics
Matches: 95, Mismatches: 17, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
88 32 0.34
89 61 0.64
90 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.32
Consensus pattern (88 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAAATTACAACCACTAACCTTATCTCTCTGAAGTTCTAG
TGGAGTAGACTAAAGTGACAAAT
Found at i:22747874 original size:133 final size:133
Alignment explanation
Indices: 22747708--22747956 Score: 376
Period size: 133 Copynumber: 1.9 Consensus size: 133
22747698 ATCATAGCAT
**
22747708 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCTTTGAAGTT-C
1 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGC
*
22747772 TAGTGGAGTAGACTAAAGAT-GACAAATCTTATCTCCCTGAAGTTGCAGTAGAGTAAATTACGAC
66 -AGTGGAGTAGACTAAAGATAG-CAAATATTATCTCCCTGAAGTTGCAGTAGAGTAAATTACGAC
22747836 CACTA
129 CACTA
* * * * *
22747841 ACCTTATCTCTCTGAATTTGTAGTGGAGTAGGTTGAAGTTACAAGTCTTATCTCCCTGAAGTTGC
1 ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGC
* *
22747906 AGTGGAGTAGACTGAAGATAGCAAATATTATTTCCCTGAAGTTGCAGTAGA
66 AGTGGAGTAGACTAAAGATAGCAAATATTATCTCCCTGAAGTTGCAGTAGA
22747957 ATAGGTTGAA
Statistics
Matches: 104, Mismatches: 10, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
133 102 0.98
134 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (133 bp):
ACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTTATCTCCCTGAAGTTGC
AGTGGAGTAGACTAAAGATAGCAAATATTATCTCCCTGAAGTTGCAGTAGAGTAAATTACGACCA
CTA
Found at i:22748137 original size:314 final size:312
Alignment explanation
Indices: 22747562--22748231 Score: 828
Period size: 314 Copynumber: 2.1 Consensus size: 312
22747552 GCAAGATCGA
* * * * * *
22747562 TGAATTACAAGTCTTGTCTCTCTAAAGTTGCAGTGGAGCAGACTGAAGTTAGCAAATCTTATTTC
1 TGAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATATTATTTC
* * * **
22747627 CTTGAAGTTGCAGTGGACCAGATTGAAGCTATAATTATAGATCTTATCTCTCTGAAGTTTTAGTA
66 CCTGAAGTTGCAGTAGAACAGATTGAAGCTATAATTATAGATCTTATCTCTCTGAAGTTGCAGTA
** * * * ** * *
22747692 GAGAGGATCATAGCATACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAATTACAAGTCTT
131 GAGAAAATCAAAACAAACCTTATCTAACTGAAATTGCAGTGGAACAGGTTGAAATTACAAGTCTT
* * * * *
22747757 ATCTCTTTGAAGTTCTAGTGGAGTAGACTAAAGATGACAAATCTTATCTCCCTGAAGTTGCAGTA
196 ATCTCCTTAAAGTTCTAGTGGAGCAGACTAAAGATGACAAACCTTATCTCCCTGAAGTTACAGTA
* * * * * **
22747822 GAGTAAATT-ACGACCACTAA-CCTTATCTCTCTGAATTTGTAGTGGAGTAGGT
261 GAGTAAATTGAAG-CCAC-AAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
22747874 TGAAGTTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATATTATTT
1 TGAA-TTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATATTATTT
* * * *
22747939 CCCTGAAGTTGCAGTAGAATAGGTTGAAGCTATAAATTATAGATTTTATCTCTTTGAAGTTGCAG
65 CCCTGAAGTTGCAGTAGAACAGATTGAAGCTAT-AATTATAGATCTTATCTCTCTGAAGTTGCAG
* *
22748004 TAGAGAAAATCAAAACAAACCTTATCTAACTGAAATTGCAGTGGAATAGGTTGAAATTATAAGTC
129 TAGAGAAAATCAAAACAAACCTTATCTAACTGAAATTGCAGTGGAACAGGTTGAAATTACAAGTC
*
22748069 TTATCTCCTTAAAGTTGC-AGTGGAGCAGACTGAAA-ACT-ACAAACCTTATCTCTCTGAAGTTA
194 TTATCTCCTTAAAGTT-CTAGTGGAGCAGACT-AAAGA-TGACAAACCTTATCTCCCTGAAGTTA
*
22748131 CAGTAGAGTAAGTTGAAGCCACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
256 CAGTAGAGTAAATTGAAGCCACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
* ** * * *
22748188 TAAAACACAAATCTCATATCCCTGAAGTTGCAGTGGAGTAGACT
1 TGAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACT
22748232 AAAAACTACA
Statistics
Matches: 305, Mismatches: 46, Indels: 13
0.84 0.13 0.04
Matches are distributed among these distances:
312 4 0.01
313 119 0.39
314 175 0.57
315 7 0.02
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.31
Consensus pattern (312 bp):
TGAATTACAAGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTGAAGATAGCAAATATTATTTC
CCTGAAGTTGCAGTAGAACAGATTGAAGCTATAATTATAGATCTTATCTCTCTGAAGTTGCAGTA
GAGAAAATCAAAACAAACCTTATCTAACTGAAATTGCAGTGGAACAGGTTGAAATTACAAGTCTT
ATCTCCTTAAAGTTCTAGTGGAGCAGACTAAAGATGACAAACCTTATCTCCCTGAAGTTACAGTA
GAGTAAATTGAAGCCACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGAC
Found at i:22748268 original size:45 final size:44
Alignment explanation
Indices: 22748064--22748269 Score: 200
Period size: 45 Copynumber: 4.7 Consensus size: 44
22748054 TTGAAATTAT
* *
22748064 AAGTCTTATCTCCTTAAAGTTGCAGTGGAGCAGACTGAAAACTAC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAACTAC
** * * * * * * * *
22748109 AAACCTTATCTCTCTGAAGTTACAGTAGAGTA-AGTTGAAGCCAC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAAACTAC
*
22748153 AAGCCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAAC-AC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACTAC
* * * *
22748196 AAATCTCATATCCCTGAAGTTGCAGTGGAGTAGACTAAAAACTAC
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAACTAC
* *
22748241 AAGTCTTATCTCTCTGAAGTTACAGTGGA
1 AAGTCTTATCTCCCTGAAGTTGCAGTGGA
22748270 ATGGATCGAA
Statistics
Matches: 127, Mismatches: 30, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
43 33 0.26
44 42 0.33
45 52 0.41
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.26
Consensus pattern (44 bp):
AAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAACTAC
Found at i:22748531 original size:19 final size:19
Alignment explanation
Indices: 22748507--22748543 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
22748497 AACTACACCC
22748507 AAACCCAAACCCAAAACCA
1 AAACCCAAACCCAAAACCA
* *
22748526 AAACCCTAGCCCAAAACC
1 AAACCCAAACCCAAAACC
22748544 CCAATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.43, G:0.03, T:0.03
Consensus pattern (19 bp):
AAACCCAAACCCAAAACCA
Found at i:22749556 original size:3 final size:3
Alignment explanation
Indices: 22749545--22749664 Score: 109
Period size: 3 Copynumber: 40.0 Consensus size: 3
22749535 ATTATCAATT
* **
22749545 TTA TGTA TTA TTA CTA TTA TTA TTA TTA CCA TTA TTA TTA CTT- TTA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA
* * * * * *
22749591 TTA TTT TTA TTA CTA TTA TTA TTA CTA TTT TTG TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
22749639 TT- GTA TTA TTA TTA TTG TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
22749665 CATTTTTTTG
Statistics
Matches: 92, Mismatches: 21, Indels: 8
0.76 0.17 0.07
Matches are distributed among these distances:
2 3 0.03
3 84 0.91
4 5 0.05
ACGTcount: A:0.28, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:22749845 original size:3 final size:3
Alignment explanation
Indices: 22749824--22749879 Score: 51
Period size: 3 Copynumber: 18.0 Consensus size: 3
22749814 CAAACTTTAG
* *
22749824 ATT ATTT ATT ATT -TGT ATT ATT GTT ATT ATT ATT ATC ATT ATT AATT
1 ATT A-TT ATT ATT AT-T ATT ATT ATT ATT ATT ATT ATT ATT ATT -ATT
*
22749871 AGT ATT ATT
1 ATT ATT ATT
22749880 TTTAAAACTA
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
2 1 0.02
3 35 0.81
4 7 0.16
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:22750044 original size:18 final size:18
Alignment explanation
Indices: 22750023--22750074 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
22750013 TGTTTTATTA
22750023 TTTTATTATTATTTACCC
1 TTTTATTATTATTTACCC
* *
22750041 TTTTTTTATT-TTTTCCC
1 TTTTATTATTATTTACCC
*
22750058 TTATTATTGTTATTTAC
1 TT-TTATTATTATTTAC
22750075 ATTATCACCC
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 15 0.56
19 4 0.15
ACGTcount: A:0.17, C:0.13, G:0.02, T:0.67
Consensus pattern (18 bp):
TTTTATTATTATTTACCC
Found at i:22753389 original size:9 final size:9
Alignment explanation
Indices: 22753375--22753417 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
22753365 GTTAATCGAA
22753375 TTGAGTTAT
1 TTGAGTTAT
22753384 TTGAGTTAT
1 TTGAGTTAT
22753393 TTGAGTTAT
1 TTGAGTTAT
** *
22753402 TCAAATTAT
1 TTGAGTTAT
22753411 TTGAGTT
1 TTGAGTT
22753418 CGAGTCGGGT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.26, C:0.02, G:0.19, T:0.53
Consensus pattern (9 bp):
TTGAGTTAT
Found at i:22753725 original size:17 final size:16
Alignment explanation
Indices: 22753703--22753743 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
22753693 CTCAAGTATC
22753703 TTTCTTTTCTTTTCTTT
1 TTTCTTTT-TTTTCTTT
*
22753720 TTTCTTTTTTTTTTTT
1 TTTCTTTTTTTTCTTT
22753736 TTTGCTTT
1 TTT-CTTT
22753744 GAAAATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 10 0.45
17 12 0.55
ACGTcount: A:0.00, C:0.12, G:0.02, T:0.85
Consensus pattern (16 bp):
TTTCTTTTTTTTCTTT
Found at i:22755403 original size:13 final size:13
Alignment explanation
Indices: 22755385--22755415 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
22755375 ATTCGTCCGG
*
22755385 ATATTTCCAGCAA
1 ATATTTCCAACAA
22755398 ATATTTCCAACAA
1 ATATTTCCAACAA
22755411 ATATT
1 ATATT
22755416 CAAAGAGAGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.42, C:0.19, G:0.03, T:0.35
Consensus pattern (13 bp):
ATATTTCCAACAA
Found at i:22764660 original size:18 final size:18
Alignment explanation
Indices: 22764639--22764679 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
22764629 AATCAGCAAT
* * *
22764639 CAGTAACGGTAGCATTAA
1 CAGTAACAGTAACAATAA
22764657 CAGTAACAGTAACAATAA
1 CAGTAACAGTAACAATAA
22764675 CAGTA
1 CAGTA
22764680 TTCAACACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.17, G:0.17, T:0.20
Consensus pattern (18 bp):
CAGTAACAGTAACAATAA
Found at i:22764781 original size:45 final size:45
Alignment explanation
Indices: 22764657--22764769 Score: 190
Period size: 45 Copynumber: 2.5 Consensus size: 45
22764647 GTAGCATTAA
* * *
22764657 CAGTAACAGTAACAATAACAGTATTCAACACACAAAGTGTTGAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACATAAAGTGTCGAAT
*
22764702 CTGTAACAGTAACAGTAACAGTATTCAACACATAAAGTGTCGAAT
1 CAGTAACAGTAACAGTAACAGTATTCAACACATAAAGTGTCGAAT
22764747 CAGTAACAGTAACAGTAACAGTA
1 CAGTAACAGTAACAGTAACAGTA
22764770 GTTGGCACAT
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 63 1.00
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.22
Consensus pattern (45 bp):
CAGTAACAGTAACAGTAACAGTATTCAACACATAAAGTGTCGAAT
Found at i:22765014 original size:19 final size:19
Alignment explanation
Indices: 22764992--22765056 Score: 53
Period size: 19 Copynumber: 3.3 Consensus size: 19
22764982 TAGTTCAATG
22764992 CAGTATACATAACAATATT
1 CAGTATACATAACAATATT
* *
22765011 CAGTA-ACTTCACAATTCAATT
1 CAGTATACATAACAA-T--ATT
*
22765032 CAGTACT-CAAAACAATATT
1 CAGTA-TACATAACAATATT
22765051 CAGTAT
1 CAGTAT
22765057 TCCATAATTC
Statistics
Matches: 36, Mismatches: 5, Indels: 11
0.69 0.10 0.21
Matches are distributed among these distances:
18 8 0.22
19 14 0.39
21 9 0.25
22 5 0.14
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (19 bp):
CAGTATACATAACAATATT
Found at i:22765015 original size:40 final size:40
Alignment explanation
Indices: 22764969--22765055 Score: 113
Period size: 40 Copynumber: 2.2 Consensus size: 40
22764959 AATTCATTAC
* * * *
22764969 TTCAGTAATTTCATAGTTCAATGCAGTA-TACATAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACT-CAAAACAATA
*
22765009 TTCAGTAACTTCACAATTCAATTCAGTACTCAAAACAATA
1 TTCAGTAACTTCACAATTCAATGCAGTACTCAAAACAATA
22765049 TTCAGTA
1 TTCAGTA
22765056 TTCCATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
40 40 0.98
41 1 0.02
ACGTcount: A:0.40, C:0.18, G:0.08, T:0.33
Consensus pattern (40 bp):
TTCAGTAACTTCACAATTCAATGCAGTACTCAAAACAATA
Found at i:22766057 original size:29 final size:31
Alignment explanation
Indices: 22766001--22766058 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
22765991 TTATTCAACA
*
22766001 AATAAAAATCTTATAATATCAATATTTAATT
1 AATAAAAATCTTATAATATCAAAATTTAATT
* *
22766032 AATAAATATCTT-TAAT-TTAAAATTTAA
1 AATAAAAATCTTATAATATCAAAATTTAA
22766059 GTAAATACAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 9 0.38
30 4 0.17
31 11 0.46
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (31 bp):
AATAAAAATCTTATAATATCAAAATTTAATT
Found at i:22767852 original size:31 final size:29
Alignment explanation
Indices: 22767817--22767891 Score: 84
Period size: 29 Copynumber: 2.6 Consensus size: 29
22767807 CGGCTCAAGA
22767817 ACTAAAATGTTACAACATATT-AACATAAGTG
1 ACTAAAATGTT--AACAT-TTAAACATAAGTG
*
22767848 ACTAAAATG-TAATATTTCAAACATAAGTG
1 ACTAAAATGTTAACATTT-AAACATAAGTG
22767877 ACTAAAATG-TAACAT
1 ACTAAAATGTTAACAT
22767892 GAGGTAAATA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
27 2 0.05
28 4 0.10
29 24 0.60
30 1 0.03
31 9 0.22
ACGTcount: A:0.49, C:0.12, G:0.09, T:0.29
Consensus pattern (29 bp):
ACTAAAATGTTAACATTTAAACATAAGTG
Found at i:22774594 original size:5 final size:5
Alignment explanation
Indices: 22774584--22774610 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
22774574 GGTACCAAGG
22774584 TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TT
22774611 ATAAAATAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:22775677 original size:25 final size:25
Alignment explanation
Indices: 22775641--22775693 Score: 97
Period size: 25 Copynumber: 2.1 Consensus size: 25
22775631 AGGCAAAACC
*
22775641 ATTATATTGTTTATGTTGTTAAATA
1 ATTATATCGTTTATGTTGTTAAATA
22775666 ATTATATCGTTTATGTTGTTAAATA
1 ATTATATCGTTTATGTTGTTAAATA
22775691 ATT
1 ATT
22775694 TTATACTTCG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.02, G:0.11, T:0.55
Consensus pattern (25 bp):
ATTATATCGTTTATGTTGTTAAATA
Found at i:22777873 original size:14 final size:14
Alignment explanation
Indices: 22777854--22777882 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
22777844 AACCCCTAGA
22777854 ATTTTATTTTTATC
1 ATTTTATTTTTATC
22777868 ATTTTATTTTTATC
1 ATTTTATTTTTATC
22777882 A
1 A
22777883 ACAATGAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.07, G:0.00, T:0.69
Consensus pattern (14 bp):
ATTTTATTTTTATC
Found at i:22794162 original size:21 final size:22
Alignment explanation
Indices: 22794136--22794178 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22794126 TATGCAAAAG
22794136 TTTTTTTA-AAAAAATCATAAA
1 TTTTTTTATAAAAAATCATAAA
* *
22794157 TTTTTTTATCAAATATCATAAA
1 TTTTTTTATAAAAAATCATAAA
22794179 AGTTATTACG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.47
Consensus pattern (22 bp):
TTTTTTTATAAAAAATCATAAA
Found at i:22794689 original size:12 final size:13
Alignment explanation
Indices: 22794663--22794687 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22794653 GAATTTTTTC
22794663 TTAATTTTAAAAA
1 TTAATTTTAAAAA
22794676 TTAATTTTAAAA
1 TTAATTTTAAAA
22794688 TTTTAGAAAA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TTAATTTTAAAAA
Found at i:22796662 original size:199 final size:200
Alignment explanation
Indices: 22796321--22796715 Score: 684
Period size: 199 Copynumber: 2.0 Consensus size: 200
22796311 GAATAGTCTC
* *
22796321 TTACATTTATTCATATAATTAACATGAAATCTGATAAGTAACTATAACAACCTTGCATGAGTATG
1 TTACATTTATTCAAATAATTAACATGAAATCTGATAAGTAACTATAACAACCTTACATGAGTATG
* *
22796386 ATCTGAATTGTTATTTTTGTATACGCATATTTGACATATGTTAAATCTGCATCTACATTGGGTTG
66 ATCTGAATTGTTATTTATGTATACGCATATCTGACATATGTTAAATCTGCATCTACATTGGGTTG
*
22796451 GGATTGTGAAAAAGAGAAAGCGTGGGCAATTTAATAATCTACTGAACTTAGTGGCTAAGCCACAA
131 GGATTGTGAAAAAGAGAAAGCGTGGGCAATTTAATAATCTACCGAACTTAGTGGCTAAGCCACAA
22796516 ATCTG
196 ATCTG
* * *
22796521 TTACATTTATTTAAATAGTTAACATGAAATCTGATAAGTAACTATGACAACCTTACATGAGTAT-
1 TTACATTTATTCAAATAATTAACATGAAATCTGATAAGTAACTATAACAACCTTACATGAGTATG
22796585 ATCTGAATTGTTATTTATGTATACGCATATCTGACATATGTTAAATCTGCATCTACATTGGGTTG
66 ATCTGAATTGTTATTTATGTATACGCATATCTGACATATGTTAAATCTGCATCTACATTGGGTTG
* * *
22796650 GGATTGTGAAAAATAGGAAGCGTGGGCAATTTAATAATCTACCGAACTTAGTGGCTAAGCTACAA
131 GGATTGTGAAAAAGAGAAAGCGTGGGCAATTTAATAATCTACCGAACTTAGTGGCTAAGCCACAA
22796715 A
196 A
22796716 CTTATATTTG
Statistics
Matches: 184, Mismatches: 11, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
199 125 0.68
200 59 0.32
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.34
Consensus pattern (200 bp):
TTACATTTATTCAAATAATTAACATGAAATCTGATAAGTAACTATAACAACCTTACATGAGTATG
ATCTGAATTGTTATTTATGTATACGCATATCTGACATATGTTAAATCTGCATCTACATTGGGTTG
GGATTGTGAAAAAGAGAAAGCGTGGGCAATTTAATAATCTACCGAACTTAGTGGCTAAGCCACAA
ATCTG
Found at i:22797582 original size:18 final size:20
Alignment explanation
Indices: 22797559--22797602 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
22797549 AAACATTTAG
*
22797559 AAAAATTAT-AA-AAAATCT
1 AAAAATTATAAAGAAAATAT
*
22797577 AAAAATTTTAAAGAAAATAT
1 AAAAATTATAAAGAAAATAT
22797597 AAAAAT
1 AAAAAT
22797603 AAAATTCTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 8 0.36
19 2 0.09
20 12 0.55
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAATTATAAAGAAAATAT
Found at i:22798394 original size:91 final size:91
Alignment explanation
Indices: 22798295--22798483 Score: 265
Period size: 91 Copynumber: 2.1 Consensus size: 91
22798285 TTGATGCATT
*
22798295 AAAAAAAAT-CAGGGGTTTAATTGCTATT-TTTGAAAAAGTTTGAAGACCTTTTTAATACATTTT
1 AAAAAAAATACAGGGGCTTAATTGCT-TTCTTTGAAAAAGTTTGAAGACC-TTTTAATACATTTT
* *
22798358 GAAAGTTCAAGTACTCAATTGAGTGCAA
64 GAAAGGTCAAGTACCCAATTGAGTGCAA
* * * * *
22798386 AAAAAAAATAGAGGGGCTTAATTGCTTTCTTTGAAAAAGTTTGAAGGCCTTTTGATGCATTTTTA
1 AAAAAAAATACAGGGGCTTAATTGCTTTCTTTGAAAAAGTTTGAAGACCTTTTAATACATTTTGA
*
22798451 AAGGTCAAGTACCCAATTGAGTGCCA
66 AAGGTCAAGTACCCAATTGAGTGCAA
22798477 AAAAAAA
1 AAAAAAA
22798484 GGAGCTTAAT
Statistics
Matches: 87, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
91 54 0.62
92 33 0.38
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (91 bp):
AAAAAAAATACAGGGGCTTAATTGCTTTCTTTGAAAAAGTTTGAAGACCTTTTAATACATTTTGA
AAGGTCAAGTACCCAATTGAGTGCAA
Found at i:22802109 original size:3 final size:3
Alignment explanation
Indices: 22802101--22802144 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
22802091 TTTTATGCAT
* * * *
22802101 TTA TTA TTA TTA TTG TTG TTG TTG TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
22802145 CATGTTAATA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.23, C:0.00, G:0.09, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:22803401 original size:13 final size:13
Alignment explanation
Indices: 22803383--22803418 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
22803373 GCCTGGGACA
*
22803383 TGCCCGTGTGGCC
1 TGCCCGTGGGGCC
22803396 TGCCCGTGGGGCC
1 TGCCCGTGGGGCC
*
22803409 AGCCCGTGGG
1 TGCCCGTGGG
22803419 CAAATCTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.03, C:0.36, G:0.44, T:0.17
Consensus pattern (13 bp):
TGCCCGTGGGGCC
Found at i:22804363 original size:52 final size:52
Alignment explanation
Indices: 22804233--22804399 Score: 178
Period size: 52 Copynumber: 3.2 Consensus size: 52
22804223 TCTTACACGG
** *
22804233 ATCACATAACATACCGATGTCATATTCCAGA-TATGGTCTTATACGGAATCACATT
1 ATCACAT--CATACCGATGTCATAGCCCA-ACTATGGTCTTATACGGAAGCACA-T
* * *
22804288 ATCACATCACACTGATGCCATAGCCCAACTATGGTCTTATACAGGAA-CACGA-
1 ATCACATCATACCGATGTCATAGCCCAACTATGGTCTTATAC-GGAAGCAC-AT
** *
22804340 ATCACATTGTACCGATGTCATAGCCCAGCTATGGTCTTATACGGAAGCACAT
1 ATCACATCATACCGATGTCATAGCCCAACTATGGTCTTATACGGAAGCACAT
22804392 ATCACATC
1 ATCACATC
22804400 TTTTCCGTCA
Statistics
Matches: 95, Mismatches: 12, Indels: 13
0.79 0.10 0.11
Matches are distributed among these distances:
51 5 0.05
52 47 0.49
53 31 0.33
54 5 0.05
55 7 0.07
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (52 bp):
ATCACATCATACCGATGTCATAGCCCAACTATGGTCTTATACGGAAGCACAT
Found at i:22805286 original size:14 final size:15
Alignment explanation
Indices: 22805251--22805288 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
22805241 CAATTACATC
22805251 ATATTTTACTATTAA
1 ATATTTTACTATTAA
*
22805266 ATTTTTTACTATTAA
1 ATATTTTACTATTAA
22805281 A-ATTTTAC
1 ATATTTTAC
22805289 CCTATTTCCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATTTTACTATTAA
Found at i:22807450 original size:28 final size:28
Alignment explanation
Indices: 22807387--22807450 Score: 65
Period size: 28 Copynumber: 2.3 Consensus size: 28
22807377 AAAAACTCAA
** *
22807387 AAAATTTAATTAATTACATAAATAACTT
1 AAAATTTAATTAAACACATAAATAACCT
*** *
22807415 ATTTTTTAATTAAACACATAAATGACCT
1 AAAATTTAATTAAACACATAAATAACCT
22807443 AAAATTTA
1 AAAATTTA
22807451 CTGTGAAAGT
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (28 bp):
AAAATTTAATTAAACACATAAATAACCT
Found at i:22812065 original size:15 final size:15
Alignment explanation
Indices: 22812045--22812074 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22812035 AAGGAAGAAG
22812045 CGGTGGCGATAGTTT
1 CGGTGGCGATAGTTT
22812060 CGGTGGCGATAGTTT
1 CGGTGGCGATAGTTT
22812075 TTAGCAGCTC
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:0.13, C:0.13, G:0.40, T:0.33
Consensus pattern (15 bp):
CGGTGGCGATAGTTT
Found at i:22814403 original size:23 final size:24
Alignment explanation
Indices: 22814358--22814412 Score: 62
Period size: 23 Copynumber: 2.4 Consensus size: 24
22814348 ATAATTTTAA
*
22814358 TAAATAAAAAAATTATTAAA-TTT
1 TAAATAAAAAAATTATAAAATTTT
*
22814381 TAAATAAAAGAA-TATAAATATTTT
1 TAAATAAAAAAATTATAAA-ATTTT
22814405 TAAA-AAAA
1 TAAATAAAA
22814413 TTTAAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 5 0.18
23 16 0.57
24 7 0.25
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.35
Consensus pattern (24 bp):
TAAATAAAAAAATTATAAAATTTT
Found at i:22814677 original size:4 final size:4
Alignment explanation
Indices: 22814668--22814692 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
22814658 TAATTTATCC
22814668 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
22814693 GTGGGGCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:22824911 original size:195 final size:195
Alignment explanation
Indices: 22824579--22824973 Score: 790
Period size: 195 Copynumber: 2.0 Consensus size: 195
22824569 ATAGGGAACA
22824579 AGAAGCAAATCCGGTGTTTCTCCGTGGCTTGACTAGTTGCTCCGTTCTTCGTTCTTCGTTGCCCT
1 AGAAGCAAATCCGGTGTTTCTCCGTGGCTTGACTAGTTGCTCCGTTCTTCGTTCTTCGTTGCCCT
22824644 CGGCTATCAAGGTGGCTAATGAACATTTAATTGCTGCTCTAAAATGGCTGATGAGAGCTTCTTTC
66 CGGCTATCAAGGTGGCTAATGAACATTTAATTGCTGCTCTAAAATGGCTGATGAGAGCTTCTTTC
22824709 CCAAGAGAAGAAATTGGCACTTGAACAATAAGGGAAATGGGATGGAAAAATGAGAGAAAAGTGAG
131 CCAAGAGAAGAAATTGGCACTTGAACAATAAGGGAAATGGGATGGAAAAATGAGAGAAAAGTGAG
22824774 AGAAGCAAATCCGGTGTTTCTCCGTGGCTTGACTAGTTGCTCCGTTCTTCGTTCTTCGTTGCCCT
1 AGAAGCAAATCCGGTGTTTCTCCGTGGCTTGACTAGTTGCTCCGTTCTTCGTTCTTCGTTGCCCT
22824839 CGGCTATCAAGGTGGCTAATGAACATTTAATTGCTGCTCTAAAATGGCTGATGAGAGCTTCTTTC
66 CGGCTATCAAGGTGGCTAATGAACATTTAATTGCTGCTCTAAAATGGCTGATGAGAGCTTCTTTC
22824904 CCAAGAGAAGAAATTGGCACTTGAACAATAAGGGAAATGGGATGGAAAAATGAGAGAAAAGTGAG
131 CCAAGAGAAGAAATTGGCACTTGAACAATAAGGGAAATGGGATGGAAAAATGAGAGAAAAGTGAG
22824969 AGAAG
1 AGAAG
22824974 GAATGAGAGA
Statistics
Matches: 200, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
195 200 1.00
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (195 bp):
AGAAGCAAATCCGGTGTTTCTCCGTGGCTTGACTAGTTGCTCCGTTCTTCGTTCTTCGTTGCCCT
CGGCTATCAAGGTGGCTAATGAACATTTAATTGCTGCTCTAAAATGGCTGATGAGAGCTTCTTTC
CCAAGAGAAGAAATTGGCACTTGAACAATAAGGGAAATGGGATGGAAAAATGAGAGAAAAGTGAG
Found at i:22833895 original size:19 final size:20
Alignment explanation
Indices: 22833873--22833943 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
22833863 TTTAAAAAAA
22833873 TATAA-ATTTTGAATTTTTT
1 TATAATATTTTGAATTTTTT
22833892 TATAAATATTTTGAA-TTTTT
1 TAT-AATATTTTGAATTTTTT
* * *
22833912 AAAAATTATTTTGAATTATTT
1 TATAA-TATTTTGAATTTTTT
22833933 TATAAT-TTTTG
1 TATAATATTTTG
22833944 TTGAGAGGCT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 10 0.23
20 18 0.42
21 15 0.35
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
TATAATATTTTGAATTTTTT
Found at i:22833904 original size:21 final size:22
Alignment explanation
Indices: 22833878--22833937 Score: 81
Period size: 19 Copynumber: 2.9 Consensus size: 22
22833868 AAAAATATAA
22833878 ATTTTGAATTTTTTTATAAA-T
1 ATTTTGAATTTTTTTATAAATT
*
22833899 ATTTTGAA--TTTTTAAAAATT
1 ATTTTGAATTTTTTTATAAATT
*
22833919 ATTTTGAATTATTTTATAA
1 ATTTTGAATTTTTTTATAA
22833938 TTTTTGTTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 9 0.27
20 9 0.27
21 8 0.24
22 7 0.21
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (22 bp):
ATTTTGAATTTTTTTATAAATT
Found at i:22835805 original size:22 final size:20
Alignment explanation
Indices: 22835756--22835807 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
22835746 GGAAATTGGA
*
22835756 GGTCAAGTCTTGAGACCTAG
1 GGTCAAGTCTTGAGACATAG
*
22835776 GGTTAAGTCTTGAGACATAGAG
1 GGTCAAGTCTTGAGACAT--AG
22835798 GGTCAAGTCT
1 GGTCAAGTCT
22835808 CGGGACTTGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
20 16 0.59
22 11 0.41
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (20 bp):
GGTCAAGTCTTGAGACATAG
Found at i:22836653 original size:42 final size:42
Alignment explanation
Indices: 22836594--22836674 Score: 117
Period size: 42 Copynumber: 1.9 Consensus size: 42
22836584 CTCTAGGGAC
* *
22836594 TGTAACCTTCGAACTAGGGACACACGGCCATGTCTCAGCTCG
1 TGTAACCTTCAAACTAGGGACACACGGCCATGTCCCAGCTCG
* * *
22836636 TGTAACCTTTAAACTAGGGACACATGGCCGTGTCCCAGC
1 TGTAACCTTCAAACTAGGGACACACGGCCATGTCCCAGC
22836675 CTATGTCCTC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.22
Consensus pattern (42 bp):
TGTAACCTTCAAACTAGGGACACACGGCCATGTCCCAGCTCG
Found at i:22838512 original size:29 final size:29
Alignment explanation
Indices: 22838476--22838537 Score: 117
Period size: 29 Copynumber: 2.2 Consensus size: 29
22838466 TAAAATTCCG
22838476 CTAA-CTATTGGAATGGTCTAATTACCAT
1 CTAAGCTATTGGAATGGTCTAATTACCAT
22838504 CTAAGCTATTGGAATGGTCTAATTACCAT
1 CTAAGCTATTGGAATGGTCTAATTACCAT
22838533 CTAAG
1 CTAAG
22838538 TCCCCCCAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 4 0.12
29 29 0.88
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.34
Consensus pattern (29 bp):
CTAAGCTATTGGAATGGTCTAATTACCAT
Found at i:22839310 original size:57 final size:57
Alignment explanation
Indices: 22839247--22839362 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
22839237 ATAGGTATAG
22839247 GTTTTGTATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCTGTTATTGTGA
1 GTTTTGTATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCTGTTATTGTGA
22839304 GTTTTGTATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCTGTTATTGTGA
1 GTTTTGTATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCTGTTATTGTGA
22839361 GT
1 GT
22839363 GCATTGAGAG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (57 bp):
GTTTTGTATTGAGAGTCATTAGCATTTATTTGCTCATAAAAGAGCCTGTTATTGTGA
Found at i:22846631 original size:28 final size:28
Alignment explanation
Indices: 22846600--22846662 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
22846590 TCCCATATTA
22846600 ATGGGGTATAGGAAAAGTCTCATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
* * *
22846628 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGGAAAAGTCTCATAACTT
22846656 ATGGGGT
1 ATGGGGT
22846663 TGATAATGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.32, C:0.06, G:0.30, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGGAAAAGTCTCATAACTT
Found at i:22852067 original size:28 final size:28
Alignment explanation
Indices: 22852033--22852095 Score: 90
Period size: 28 Copynumber: 2.2 Consensus size: 28
22852023 TCTCATATTA
22852033 ATGGGGTATAGAAAAAGTCTCATAACTT
1 ATGGGGTATAGAAAAAGTCTCATAACTT
* * * *
22852061 ATGGGGTATAGGAAGAGTTTTATAACTT
1 ATGGGGTATAGAAAAAGTCTCATAACTT
22852089 ATGGGGT
1 ATGGGGT
22852096 TGATAATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
ATGGGGTATAGAAAAAGTCTCATAACTT
Found at i:22865544 original size:24 final size:24
Alignment explanation
Indices: 22865517--22865562 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
22865507 TTGAATAAAG
22865517 TCACAATAAAGAATAAATATATGT
1 TCACAATAAAGAATAAATATATGT
* *
22865541 TCACAATAAAGAGTAGATATAT
1 TCACAATAAAGAATAAATATAT
22865563 ATTGCCCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.52, C:0.09, G:0.11, T:0.28
Consensus pattern (24 bp):
TCACAATAAAGAATAAATATATGT
Found at i:22873728 original size:16 final size:16
Alignment explanation
Indices: 22873703--22873734 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22873693 ACGAAACTGC
22873703 TTAAAAAAAAGTTAAA
1 TTAAAAAAAAGTTAAA
*
22873719 TTAAACAAAAGTTAAA
1 TTAAAAAAAAGTTAAA
22873735 ACAATAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.66, C:0.03, G:0.06, T:0.25
Consensus pattern (16 bp):
TTAAAAAAAAGTTAAA
Found at i:22875560 original size:20 final size:21
Alignment explanation
Indices: 22875535--22875574 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
22875525 CTCTTAAAAC
*
22875535 AGGGC-ACACGCTCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
22875555 AGGGCAACATGCCCGTGTGG
1 AGGGCAACACGCCCGTGTGG
22875575 TCATTATAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:22876020 original size:43 final size:43
Alignment explanation
Indices: 22875971--22876057 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
22875961 TGGCCGTGTG
* *
22875971 TCACACACGACCTAAACACACTCCCGTGTGGACAATATAAGGC
1 TCACACACGACCTAAACACACTCCCGTATAGACAATATAAGGC
*
22876014 TCACACACGGCCTAAACACACTCCCGTATAGACAATATAAGGC
1 TCACACACGACCTAAACACACTCCCGTATAGACAATATAAGGC
22876057 T
1 T
22876058 ATCTACCAAG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.36, C:0.32, G:0.15, T:0.17
Consensus pattern (43 bp):
TCACACACGACCTAAACACACTCCCGTATAGACAATATAAGGC
Found at i:22876937 original size:50 final size:46
Alignment explanation
Indices: 22876867--22877313 Score: 260
Period size: 46 Copynumber: 9.5 Consensus size: 46
22876857 AGGTTGACGC
* * * * * *
22876867 CATGTCCTAGATATGTTCTTACATTAGCTCTCACATATCCGTGCTGATA
1 CATGTCCCAGACATGGTCTTACACT-GCT-TCACATAT-CGTGCCGATG
* * * *
22876916 CTATGTCCCAGACATGGTCTTACATTG--ACACATCTCGTAGCCGATT
1 C-ATGTCCCAGACATGGTCTTACACTGCTTCACATATCGT-GCCGATG
* * * *
22876962 CATGTCCCAGACAT-GTCTTACACTGATTTACATCTCGAGGCCGATG
1 CATGTCCCAGACATGGTCTTACACTGCTTCACATATCG-TGCCGATG
* *
22877008 CATGTCCCAGACAT-GTCTTACACTAGCTCTCACATATCCCTGCCAATG
1 CATGTCCCAGACATGGTCTTACACT-GCT-TCACATAT-CGTGCCGATG
* * * *
22877056 CCATGTCCCACACATGGTCTTACACTG--ACACATTTATACGTACTGATG
1 -CATGTCCCAGACATGGTCTTACACTGCTTCACA--TAT-CGTGCCGATG
* * *
22877104 CCATGTCCCAAACATGGTCTTACACTG--ACACATCTCGTAGCCGATG
1 -CATGTCCCAGACATGGTCTTACACTGCTTCACATATCGT-GCCGATG
* *
22877150 CATGTCCCAGACA-GGTCTTACACTGGCTT-ACATCTCAAG-GTCGATG
1 CATGTCCCAGACATGGTCTTACACT-GCTTCACATATC--GTGCCGATG
* * * * * *
22877196 CATGTCCTAGACAT-GTCTTACACTAGC-TCTCGTCTCAATACCGATG
1 CATGTCCCAGACATGGTCTTACACT-GCTTCACATATC-GTGCCGATG
* * *
22877242 CCATGTCCCAAACATGGTCTTATACTGGC-TCTCATAGT-GTGGCCGATG
1 -CATGTCCCAGACATGGTCTTACACT-GCTTCACATA-TCGT-GCCGATG
22877290 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
22877314 AGCACACAAA
Statistics
Matches: 324, Mismatches: 49, Indels: 53
0.76 0.12 0.12
Matches are distributed among these distances:
44 21 0.06
45 34 0.10
46 117 0.36
47 28 0.09
48 75 0.23
49 18 0.06
50 31 0.10
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (46 bp):
CATGTCCCAGACATGGTCTTACACTGCTTCACATATCGTGCCGATG
Found at i:22877045 original size:140 final size:141
Alignment explanation
Indices: 22876867--22877316 Score: 386
Period size: 140 Copynumber: 3.2 Consensus size: 141
22876857 AGGTTGACGC
* * * * ** * *
22876867 CATGTCCTAGATATGTTCTTACATTAGCTCTCACATATCCGTGCTGATACTATGTCCCAGACATG
1 CATGTCCCAGACATG-TCTTACACTAGCTCTCACATATCCCTGCCAATACCATGTCCCACACATG
* * * * *
22876932 GTCTTACATTGACACA-TCT-CGTAGCCGAT-TCATGTCCCAGACAT-GTCTTACACTGATTTAC
65 GTCTTACACTGACACATTATACGTA-CCGATGCCATGTCCCAAACATGGTCTTACACTGA--CAC
22876993 ATCTCG-AGGCCGATG
127 ATCTCGTA-GCCGATG
*
22877008 CATGTCCCAGACATGTCTTACACTAGCTCTCACATATCCCTGCCAATGCCATGTCCCACACATGG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCACATATCCCTGCCAATACCATGTCCCACACATGG
*
22877073 TCTTACACTGACACATTTATACGTACTGATGCCATGTCCCAAACATGGTCTTACACTGACACATC
66 TCTTACACTGACACA-TTATACGTACCGATGCCATGTCCCAAACATGGTCTTACACTGACACATC
22877138 TCGTAGCCGATG
130 TCGTAGCCGATG
* * * *** * * * * *
22877150 CATGTCCCAGACAGGTCTTACACTGGCT-T-ACATCTCAAGGTCGAT-GCATGTCCTAGACAT-G
1 CATGTCCCAGACATGTCTTACACTAGCTCTCACATATCCCTGCCAATACCATGTCCCACACATGG
* * * * * *
22877211 TCTTACACT-AGCTC-TCGTCT-CAATACCGATGCCATGTCCCAAACATGGTCTTATACTGGCTC
66 TCTTACACTGA-CACAT--TATAC-GTACCGATGCCATGTCCCAAACATGGTCTTACACTGACAC
* *
22877273 -TCATAGTGTGGCCGATG
127 ATC-T--CGTAGCCGATG
22877290 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
22877317 ACACAAATAA
Statistics
Matches: 259, Mismatches: 37, Indels: 27
0.80 0.11 0.08
Matches are distributed among these distances:
136 1 0.00
137 4 0.02
138 50 0.19
139 12 0.05
140 101 0.39
141 14 0.05
142 47 0.18
143 18 0.07
144 12 0.05
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.29
Consensus pattern (141 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCACATATCCCTGCCAATACCATGTCCCACACATGG
TCTTACACTGACACATTATACGTACCGATGCCATGTCCCAAACATGGTCTTACACTGACACATCT
CGTAGCCGATG
Found at i:22880013 original size:27 final size:27
Alignment explanation
Indices: 22879990--22880053 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
22879980 AAATATTCTC
22879990 TAAATTAAT-AAATATTAATTTATTGA
1 TAAATTAATAAAATATTAATTTATTGA
*
22880016 TAAATTAATAAAATATTTATTTATTGA
1 TAAATTAATAAAATATTAATTTATTGA
*
22880043 TAAACTAATAA
1 TAAATTAATAA
22880054 TATCGATAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
26 9 0.26
27 26 0.74
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.44
Consensus pattern (27 bp):
TAAATTAATAAAATATTAATTTATTGA
Found at i:22880501 original size:23 final size:26
Alignment explanation
Indices: 22880448--22880502 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
22880438 ATACAAAACA
*
22880448 TAATTAAAAAAATATAAAAAAATTAAT
1 TAATTAAAAAAATATAAAAAAATT-AC
22880475 TAATT-AAAAAATAT-AAAAAATT-C
1 TAATTAAAAAAATATAAAAAAATTAC
22880498 TAATT
1 TAATT
22880503 GAATTGCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
23 5 0.19
25 8 0.30
26 9 0.33
27 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
TAATTAAAAAAATATAAAAAAATTAC
Found at i:22899120 original size:3 final size:3
Alignment explanation
Indices: 22899112--22899164 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
22899102 AGATAACGTG
22899112 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
22899160 TAA TA
1 TAA TA
22899165 CAATGACATG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:22907881 original size:207 final size:207
Alignment explanation
Indices: 22907526--22907915 Score: 699
Period size: 207 Copynumber: 1.9 Consensus size: 207
22907516 AGATATATGA
22907526 TTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCAGTGAGTATTGTCAGC
1 TTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCAGTGAGTATTGTCAGC
* * *
22907591 TTATTCATGTCTGCACCTATAGTTAGACATTGGGTTATTGTTGAACAAATTCTATGTTACTTAAA
66 TTATTCACGTCTGCACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAA
* * *
22907656 AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGGAATAGTCGTTCCAATCTCAAGAGAT
131 AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGAAATACTCATTCCAATCTCAAGAGAT
22907721 ATAAGATGATAG
196 ATAAGATGATAG
* *
22907733 TTGGGAAATTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCTGTGAGTATTGTCAGC
1 TTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCAGTGAGTATTGTCAGC
*
22907798 TTATTCACGTTTGCACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAA
66 TTATTCACGTCTGCACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAA
22907863 AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGAAATACTCATTCCA
131 AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGAAATACTCATTCCA
22907916 CCTACAGTTA
Statistics
Matches: 174, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
207 174 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (207 bp):
TTGGGAAACTAAACTATCTTACTGTGACTGGTCCAAACATTATATTTGCAGTGAGTATTGTCAGC
TTATTCACGTCTGCACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAA
AGGAGCTTTAGGATTGGGAATATCATACAACAATCATAGAAATACTCATTCCAATCTCAAGAGAT
ATAAGATGATAG
Found at i:22907953 original size:103 final size:103
Alignment explanation
Indices: 22907811--22908003 Score: 298
Period size: 103 Copynumber: 1.9 Consensus size: 103
22907801 TTCACGTTTG
* * **
22907811 CACCTATAGTTAAACATTGGCTTATTGTTGAACAAATTCTATGTTACTTAAAAGGAGCTTTAGGA
1 CACCTACAGTTAAACATTGGCTAATTGTTGAACAAATTCTATGTTACCCAAAAGGAGCTTTAGGA
*
22907876 TTGGGAATATCATACAACAATCATAGAAATACTCATTC
66 CTGGGAATATCATACAACAATCATAGAAATACTCATTC
* *
22907914 CACCTACAGTTAAACATTGGGC-AATTGTTGAATAGATTCTATGTTACCCAAAAGGAGCTTTAGG
1 CACCTACAGTTAAACATT-GGCTAATTGTTGAACAAATTCTATGTTACCCAAAAGGAGCTTTAGG
*
22907978 GCTGGGAATATCATACAACAATCATA
65 ACTGGGAATATCATACAACAATCATA
22908004 TGACTAATCG
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
103 78 0.96
104 3 0.04
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.31
Consensus pattern (103 bp):
CACCTACAGTTAAACATTGGCTAATTGTTGAACAAATTCTATGTTACCCAAAAGGAGCTTTAGGA
CTGGGAATATCATACAACAATCATAGAAATACTCATTC
Found at i:22912421 original size:30 final size:31
Alignment explanation
Indices: 22912385--22912444 Score: 77
Period size: 31 Copynumber: 2.0 Consensus size: 31
22912375 CTTTATTTTT
*
22912385 TAAAAAA-ATTTAACAAATCAGTGATTTAAA
1 TAAAAAATATTTAACAAATCAGTAATTTAAA
* * *
22912415 TAAAAAATTTTTAATAATTCAGTAATTTAA
1 TAAAAAATATTTAACAAATCAGTAATTTAA
22912445 GTGAACTTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 7 0.28
31 18 0.72
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (31 bp):
TAAAAAATATTTAACAAATCAGTAATTTAAA
Found at i:22913545 original size:47 final size:47
Alignment explanation
Indices: 22913470--22913561 Score: 166
Period size: 47 Copynumber: 2.0 Consensus size: 47
22913460 TAAATAAAAC
*
22913470 AATTAAAGGAGAAAAAAAACATGAAGAAAACTTAACCAAATTCAAAT
1 AATTAAAGGAGAAAAAAAACACGAAGAAAACTTAACCAAATTCAAAT
*
22913517 AATTAAAGGAGAAAAAAAACACGGAGAAAACTTAACCAAATTCAA
1 AATTAAAGGAGAAAAAAAACACGAAGAAAACTTAACCAAATTCAA
22913562 CTTCTTCTTT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.61, C:0.12, G:0.12, T:0.15
Consensus pattern (47 bp):
AATTAAAGGAGAAAAAAAACACGAAGAAAACTTAACCAAATTCAAAT
Found at i:22914102 original size:12 final size:12
Alignment explanation
Indices: 22914085--22914109 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22914075 TTATTGAAAA
22914085 AAATAATTTTTT
1 AAATAATTTTTT
22914097 AAATAATTTTTT
1 AAATAATTTTTT
22914109 A
1 A
22914110 TTTTTAATTT
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:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AAATAATTTTTT
Found at i:22916655 original size:30 final size:31
Alignment explanation
Indices: 22916589--22916658 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 31
22916579 CCACCCTTAA
* * *
22916589 AATATTTACACTATTAGTCCTTCAAAATTTT
1 AATATTTACACTATCAATCCCTCAAAATTTT
*
22916620 CATATTTACACT-TCAATCCCTC-AAATTTT
1 AATATTTACACTATCAATCCCTCAAAATTTT
22916649 GAATATTTAC
1 -AATATTTAC
22916659 TCTTGGGCCA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
29 7 0.21
30 15 0.45
31 11 0.33
ACGTcount: A:0.34, C:0.20, G:0.03, T:0.43
Consensus pattern (31 bp):
AATATTTACACTATCAATCCCTCAAAATTTT
Found at i:22916960 original size:21 final size:22
Alignment explanation
Indices: 22916901--22916961 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
22916891 ATTATTACCT
*
22916901 TTAAATTAAATAATAATATTTTTA
1 TTAAATT-AAT-ATAATATTTATA
* *
22916925 TTATATTATTA-AATATTTATA
1 TTAAATTAATATAATATTTATA
22916946 -TAAATTAATATAATAT
1 TTAAATTAATATAATAT
22916962 AATTCATAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
20 8 0.26
21 14 0.45
22 1 0.03
23 2 0.06
24 6 0.19
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAAATTAATATAATATTTATA
Found at i:22921476 original size:12 final size:12
Alignment explanation
Indices: 22921459--22921483 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
22921449 GGTGTTCATT
22921459 CGGTTAACCGAC
1 CGGTTAACCGAC
22921471 CGGTTAACCGAC
1 CGGTTAACCGAC
22921483 C
1 C
22921484 CGAAATTACT
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:22921658 original size:9 final size:9
Alignment explanation
Indices: 22921644--22921713 Score: 113
Period size: 9 Copynumber: 7.8 Consensus size: 9
22921634 TTTGGTTAAA
22921644 AATTACCCG
1 AATTACCCG
22921653 AATTACCCG
1 AATTACCCG
22921662 AATTACCCG
1 AATTACCCG
22921671 AATTACCCG
1 AATTACCCG
*
22921680 AATTAACCG
1 AATTACCCG
*
22921689 AATTAACCG
1 AATTACCCG
*
22921698 AATTAACCG
1 AATTACCCG
22921707 AATTACC
1 AATTACC
22921714 GAAAAATACC
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.39, C:0.29, G:0.10, T:0.23
Consensus pattern (9 bp):
AATTACCCG
Found at i:22923174 original size:16 final size:15
Alignment explanation
Indices: 22923148--22923188 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
22923138 ACTTAAAATG
22923148 TAAATTGAATTGAAT
1 TAAATTGAATTGAAT
*
22923163 TAAATATGAATTGTAT
1 TAAAT-TGAATTGAAT
22923179 TAAATT-AATT
1 TAAATTGAATT
22923189 TAAATTTACT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 4 0.17
15 6 0.25
16 14 0.58
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (15 bp):
TAAATTGAATTGAAT
Found at i:22926707 original size:22 final size:22
Alignment explanation
Indices: 22926679--22926725 Score: 94
Period size: 22 Copynumber: 2.1 Consensus size: 22
22926669 ACTAGGGCCC
22926679 ATTTTTTAATACAAAGTCCTAG
1 ATTTTTTAATACAAAGTCCTAG
22926701 ATTTTTTAATACAAAGTCCTAG
1 ATTTTTTAATACAAAGTCCTAG
22926723 ATT
1 ATT
22926726 CTATTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.36, C:0.13, G:0.09, T:0.43
Consensus pattern (22 bp):
ATTTTTTAATACAAAGTCCTAG
Found at i:22938328 original size:10 final size:10
Alignment explanation
Indices: 22938296--22938329 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
22938286 TGAATTTGGT
22938296 TATGTGCATA
1 TATGTGCATA
*
22938306 TACGTGCATA
1 TATGTGCATA
22938316 TATGTGCATA
1 TATGTGCATA
22938326 TATG
1 TATG
22938330 GTTGATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (10 bp):
TATGTGCATA
Found at i:22943069 original size:28 final size:28
Alignment explanation
Indices: 22943024--22943089 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 28
22943014 TTATTCAGTA
* * *
22943024 ACAGT-ACAGTCTGAGCCTTAGCCCTAT
1 ACAGTAACAGTCTGAGCCTAAGCCCAAC
* *
22943051 ACAGTAACAGTGTGGGCCTAAGCCCAAC
1 ACAGTAACAGTCTGAGCCTAAGCCCAAC
22943079 ACAGTAACAGT
1 ACAGTAACAGT
22943090 ACAGTGTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
27 5 0.15
28 28 0.85
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (28 bp):
ACAGTAACAGTCTGAGCCTAAGCCCAAC
Found at i:22943277 original size:27 final size:27
Alignment explanation
Indices: 22943247--22943298 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
22943237 TACCAGAAAC
* *
22943247 AGTAAATGTGGTAAAGCCCCCAGTATT
1 AGTAAATGTGGCAAAGCCACCAGTATT
* *
22943274 AGTAATTGTGGCACAGCCACCAGTA
1 AGTAAATGTGGCAAAGCCACCAGTA
22943299 ACAGTGAATA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.33, C:0.21, G:0.23, T:0.23
Consensus pattern (27 bp):
AGTAAATGTGGCAAAGCCACCAGTATT
Found at i:22943527 original size:27 final size:27
Alignment explanation
Indices: 22943468--22943558 Score: 101
Period size: 27 Copynumber: 3.4 Consensus size: 27
22943458 GGGCTACTCG
* * * * *
22943468 TCATTTTGCCATAAAGGGGCATCACAA
1 TCATTTTACCCTACAGGGGCATTACGA
* * *
22943495 TAATTTTACCCTATAGGGGCATTACGG
1 TCATTTTACCCTACAGGGGCATTACGA
*
22943522 TCATTTTACCCTACAGGGGTATTACGA
1 TCATTTTACCCTACAGGGGCATTACGA
22943549 TCATTTTACC
1 TCATTTTACC
22943559 TATTTTGGAT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (27 bp):
TCATTTTACCCTACAGGGGCATTACGA
Found at i:22947378 original size:66 final size:66
Alignment explanation
Indices: 22947258--22947391 Score: 162
Period size: 66 Copynumber: 2.0 Consensus size: 66
22947248 TTATTTGGAT
* * * *
22947258 GTAACATTAGTATTTTGTTTAGATGTGTGCATTTTCTATTCAATATTATTTTCATCTTGCTCTTG
1 GTAACATTAGTACTTTGTTTAGATGTGTACATTTTCTATTCAAGATTATCTTCATCTTGCTCTTG
22947323 A
66 A
* * * * * *
22947324 GTAACATTAGTGCTTTGTTTATATGTGTATATTTTCTATTTAGGATTCA-CTTCATCTTGTTCTT
1 GTAACATTAGTACTTTGTTTAGATGTGTACATTTTCTATTCAAGATT-ATCTTCATCTTGCTCTT
22947388 GA
65 GA
22947390 GT
1 GT
22947392 TGTTGTGGGT
Statistics
Matches: 57, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
66 56 0.98
67 1 0.02
ACGTcount: A:0.22, C:0.12, G:0.15, T:0.51
Consensus pattern (66 bp):
GTAACATTAGTACTTTGTTTAGATGTGTACATTTTCTATTCAAGATTATCTTCATCTTGCTCTTG
A
Done.