Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 51 of 226
Found at i:16997245 original size:17 final size:17
Alignment explanation
Indices: 16997223--16997284 Score: 81
Period size: 17 Copynumber: 3.5 Consensus size: 17
16997213 ACATAACCAT
16997223 TTTAGCATAAAATTAAA
1 TTTAGCATAAAATTAAA
*
16997240 TTTAGCATAACA-TAACCA
1 TTTAGCATAAAATTAA--A
16997258 TTTTAGCATAAAATTAAA
1 -TTTAGCATAAAATTAAA
16997276 TTTAGCATA
1 TTTAGCATA
16997285 CCAATTACCT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
16 3 0.08
17 20 0.51
18 2 0.05
19 11 0.28
20 3 0.08
ACGTcount: A:0.47, C:0.11, G:0.06, T:0.35
Consensus pattern (17 bp):
TTTAGCATAAAATTAAA
Found at i:16997251 original size:36 final size:36
Alignment explanation
Indices: 16997211--16997284 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
16997201 GTGAATCATG
16997211 TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
1 TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
16997247 TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
1 TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
16997283 TA
1 TA
16997285 CCAATTACCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (36 bp):
TAACATAACCATTTTAGCATAAAATTAAATTTAGCA
Found at i:16997264 original size:19 final size:19
Alignment explanation
Indices: 16997211--16997268 Score: 77
Period size: 19 Copynumber: 3.2 Consensus size: 19
16997201 GTGAATCATG
16997211 TAACATAACCATTTTAGCA
1 TAACATAACCATTTTAGCA
*
16997230 TAAAATTAA--A-TTTAGCA
1 TAACA-TAACCATTTTAGCA
16997247 TAACATAACCATTTTAGCA
1 TAACATAACCATTTTAGCA
16997266 TAA
1 TAA
16997269 AATTAAATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
16 3 0.09
17 11 0.33
18 2 0.06
19 14 0.42
20 3 0.09
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.33
Consensus pattern (19 bp):
TAACATAACCATTTTAGCA
Found at i:16999471 original size:18 final size:18
Alignment explanation
Indices: 16999450--16999487 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
16999440 TATTTGAATT
16999450 TGCATATGTATCTGTAAC
1 TGCATATGTATCTGTAAC
* *
16999468 TGCATCTGTATTTGTAAC
1 TGCATATGTATCTGTAAC
16999486 TG
1 TG
16999488 ATTTGTCTGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (18 bp):
TGCATATGTATCTGTAAC
Found at i:17002858 original size:46 final size:46
Alignment explanation
Indices: 17002778--17003055 Score: 450
Period size: 46 Copynumber: 6.0 Consensus size: 46
17002768 ACATTGCTAT
*
17002778 AACTCAGTATGGTTTTTCTTCACGGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGG-TTTTCTTCACCGAAATACCATACCTACTTTTCAC
*
17002825 AACTCAGTATGGTTTTCTTCACCGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* *
17002871 AACTCAGTATGGTTTTCTTTACC-AGAATACCATACCCACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGA-AATACCATACCTACTTTTCAC
*
17002917 AACTCAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* *
17002963 AACTTAGTATGGTTTTCTTTACCGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
* *
17003009 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACGTTTCAC
1 AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
17003055 A
1 A
17003056 CTTTGCCATG
Statistics
Matches: 218, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
45 1 0.00
46 204 0.94
47 13 0.06
ACGTcount: A:0.28, C:0.27, G:0.09, T:0.36
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACCGAAATACCATACCTACTTTTCAC
Found at i:17007053 original size:13 final size:13
Alignment explanation
Indices: 17007035--17007059 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
17007025 ATTGCTTAAA
17007035 AATAATATCCCAT
1 AATAATATCCCAT
17007048 AATAATATCCCA
1 AATAATATCCCA
17007060 ACAATTTCCT
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:0.24, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAATATCCCAT
Found at i:17010439 original size:22 final size:24
Alignment explanation
Indices: 17010397--17010441 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
17010387 TAACTAAGTT
17010397 TACTTACTTTTCTAACTTAATTCA
1 TACTTACTTTTCTAACTTAATTCA
17010421 TACTT-CTTTTCT-ACTTAATTC
1 TACTTACTTTTCTAACTTAATTC
17010442 CTTGCCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.43
23 7 0.33
24 5 0.24
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.53
Consensus pattern (24 bp):
TACTTACTTTTCTAACTTAATTCA
Found at i:17010950 original size:19 final size:20
Alignment explanation
Indices: 17010926--17010964 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
17010916 ATTAATAAGC
17010926 AATACATAT-TTTATTATTA
1 AATACATATGTTTATTATTA
17010945 AATACATATGTTTATTATTA
1 AATACATATGTTTATTATTA
17010965 TTTCACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (20 bp):
AATACATATGTTTATTATTA
Found at i:17011729 original size:15 final size:15
Alignment explanation
Indices: 17011709--17011760 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
17011699 AATATAAAAC
17011709 ATTTATTATTAATAT
1 ATTTATTATTAATAT
*
17011724 ATTTATAATTGTAATAAAT
1 ATTTATTA-T-TAAT--AT
*
17011743 ATTTATTATTAAAAT
1 ATTTATTATTAATAT
17011758 ATT
1 ATT
17011761 AAAATTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
15 12 0.40
16 1 0.03
17 7 0.23
18 1 0.03
19 9 0.30
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
ATTTATTATTAATAT
Found at i:17011729 original size:31 final size:34
Alignment explanation
Indices: 17011694--17011760 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 34
17011684 TATTTTAACC
*
17011694 TTTATAA-TAT-A-AAACATTTATTATTAATATA
1 TTTATAATTATAATAAACATTTATTATTAAAATA
* *
17011725 TTTATAATTGTAATAAATATTTATTATTAAAATA
1 TTTATAATTATAATAAACATTTATTATTAAAATA
17011759 TT
1 TT
17011761 AAAATTAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 7 0.23
32 2 0.07
33 1 0.03
34 20 0.67
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (34 bp):
TTTATAATTATAATAAACATTTATTATTAAAATA
Found at i:17011906 original size:36 final size:34
Alignment explanation
Indices: 17011819--17011924 Score: 96
Period size: 36 Copynumber: 3.1 Consensus size: 34
17011809 TTATTTTTAA
17011819 AATTTATTAT-TAAAATAAAATTAAAATACTAAAT
1 AATTTATTATAT-AAATAAAATTAAAATACTAAAT
* *
17011853 AATTTATTA-AAATAATAAATTATTAAACAT-GTAAAT
1 AATTTATTATATA-AATAAA--ATTAAA-ATACTAAAT
*
17011889 AATTTATTATATAAATAATA-TAATAATA-TAAAT
1 AATTTATTATATAAATAAAATTAA-AATACTAAAT
17011922 AAT
1 AAT
17011925 ATGATAATTA
Statistics
Matches: 60, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
33 14 0.23
34 17 0.28
36 25 0.42
37 4 0.07
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.40
Consensus pattern (34 bp):
AATTTATTATATAAATAAAATTAAAATACTAAAT
Found at i:17011919 original size:17 final size:16
Alignment explanation
Indices: 17011900--17011955 Score: 85
Period size: 17 Copynumber: 3.4 Consensus size: 16
17011890 ATTTATTATA
17011900 TAAATAATATAATAAT
1 TAAATAATATAATAAT
*
17011916 ATAAATAATATGATAAT
1 -TAAATAATATAATAAT
17011933 TAAATAATATAAATAAT
1 TAAATAATAT-AATAAT
17011950 TAAATA
1 TAAATA
17011956 TGTATGTTTA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
16 10 0.28
17 26 0.72
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
TAAATAATATAATAAT
Found at i:17011953 original size:8 final size:8
Alignment explanation
Indices: 17011862--17011955 Score: 54
Period size: 8 Copynumber: 11.6 Consensus size: 8
17011852 TAATTTATTA
17011862 AAATAA-T
1 AAATAATT
*
17011869 AAATTATT
1 AAATAATT
*
17011877 AAA-CATGT
1 AAATAAT-T
17011885 AAATAATT
1 AAATAATT
* *
17011893 -TATTATAT
1 AAATAAT-T
17011901 AAATAA-T
1 AAATAATT
17011908 ATAATAATAT
1 A-AATAAT-T
17011918 AAATAA-T
1 AAATAATT
*
17011925 ATGATAATT
1 A-AATAATT
17011934 AAATAATAT
1 AAATAAT-T
17011943 AAATAATT
1 AAATAATT
17011951 AAATA
1 AAATA
17011956 TGTATGTTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 21
0.69 0.09 0.22
Matches are distributed among these distances:
7 15 0.22
8 30 0.45
9 20 0.30
10 2 0.03
ACGTcount: A:0.60, C:0.01, G:0.02, T:0.37
Consensus pattern (8 bp):
AAATAATT
Found at i:17012506 original size:23 final size:20
Alignment explanation
Indices: 17012476--17012525 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 20
17012466 GTTCATTAAA
17012476 TAAAAATAACATTTAAATATCAC
1 TAAAAATAAC-TTTAAA-AT-AC
*
17012499 TAAAAATATCTTTAAAATAC
1 TAAAAATAACTTTAAAATAC
17012519 TAAAAAT
1 TAAAAAT
17012526 GTGAAACACT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 9 0.35
21 2 0.08
22 6 0.23
23 9 0.35
ACGTcount: A:0.58, C:0.10, G:0.00, T:0.32
Consensus pattern (20 bp):
TAAAAATAACTTTAAAATAC
Found at i:17018294 original size:23 final size:23
Alignment explanation
Indices: 17018270--17018314 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
17018260 AATGATATAT
*
17018270 TTTAATTATT-TTAATATTTTAA
1 TTTAATTATTATTAATATCTTAA
17018292 TTTAATTATTATTAATATCTTAA
1 TTTAATTATTATTAATATCTTAA
17018315 CAATTAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
TTTAATTATTATTAATATCTTAA
Found at i:17018321 original size:25 final size:22
Alignment explanation
Indices: 17018271--17018322 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 22
17018261 ATGATATATT
* *
17018271 TTAATTATTTTAATATTTTAAT
1 TTAATTATTTTAATATTTAAAA
17018293 TTAATTATTATTAATATCTTAACAA
1 TTAATTATT-TTAATAT-TTAA-AA
17018318 TTAAT
1 TTAAT
17018323 AATAGTAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 9 0.36
23 7 0.28
24 3 0.12
25 6 0.24
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATTTTAATATTTAAAA
Found at i:17022597 original size:12 final size:12
Alignment explanation
Indices: 17022582--17022622 Score: 73
Period size: 12 Copynumber: 3.4 Consensus size: 12
17022572 AAAAGGAAAG
17022582 GGAAGAGGAAGA
1 GGAAGAGGAAGA
17022594 GGAAGAGGAAGA
1 GGAAGAGGAAGA
*
17022606 GGAAGAGGAAAA
1 GGAAGAGGAAGA
17022618 GGAAG
1 GGAAG
17022623 TAGAGAGGTG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (12 bp):
GGAAGAGGAAGA
Found at i:17022603 original size:18 final size:18
Alignment explanation
Indices: 17022575--17022622 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
17022565 TTTGACGAAA
*
17022575 AGGAAAGGGAAGAGGAAG
1 AGGAAAAGGAAGAGGAAG
*
17022593 AGGAAGAGGAAGAGGAAG
1 AGGAAAAGGAAGAGGAAG
17022611 AGGAAAAGGAAG
1 AGGAAAAGGAAG
17022623 TAGAGAGGTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (18 bp):
AGGAAAAGGAAGAGGAAG
Found at i:17023187 original size:18 final size:18
Alignment explanation
Indices: 17023164--17023206 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
17023154 TTTTGTCATT
*
17023164 ATATATTTTGAAAT-TAAA
1 ATATATATT-AAATATAAA
17023182 ATATATATTAAATATAAA
1 ATATATATTAAATATAAA
*
17023200 AAATATA
1 ATATATA
17023207 ATTTTTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
ATATATATTAAATATAAA
Found at i:17023206 original size:38 final size:38
Alignment explanation
Indices: 17023163--17023247 Score: 89
Period size: 38 Copynumber: 2.2 Consensus size: 38
17023153 TTTTTGTCAT
* *
17023163 TATATATTTTGAAATTAAAATATATATTAAATATAAAAAA
1 TATA-ATTTTGAAATAAAAAT-TATATTAAAGATAAAAAA
** * *
17023203 TATAATTTTTTAATAAAAATTATCTTAAAGATAAAATA
1 TATAATTTTGAAATAAAAATTATATTAAAGATAAAAAA
*
17023241 TAAAATT
1 TATAATT
17023248 GATGCAAATA
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
38 21 0.55
39 13 0.34
40 4 0.11
ACGTcount: A:0.55, C:0.01, G:0.02, T:0.41
Consensus pattern (38 bp):
TATAATTTTGAAATAAAAATTATATTAAAGATAAAAAA
Found at i:17024124 original size:16 final size:16
Alignment explanation
Indices: 17024103--17024144 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
17024093 CGTTTGGTTC
*
17024103 GCTGTAATGGAATAGA
1 GCTGTAATAGAATAGA
17024119 GCTGTAATAGAATAGA
1 GCTGTAATAGAATAGA
17024135 GGC-GTAATAG
1 -GCTGTAATAG
17024145 TAATTTAGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 22 0.92
17 2 0.08
ACGTcount: A:0.38, C:0.07, G:0.31, T:0.24
Consensus pattern (16 bp):
GCTGTAATAGAATAGA
Found at i:17024439 original size:38 final size:36
Alignment explanation
Indices: 17024390--17024479 Score: 83
Period size: 38 Copynumber: 2.4 Consensus size: 36
17024380 ATTTAATAAA
17024390 AATATATAATTTAATAAAATTCTTAATATTAAATATT
1 AATATATAATTTAATAAAA-TCTTAATATTAAATATT
** * *
17024427 CTTATATGAATTTACTAAAATCATAATA-TATAATACTAT
1 AATATAT-AATTTAATAAAATCTTAATATTA-AATA-T-T
*
17024466 AAAATATAATTTAA
1 AATATATAATTTAA
17024480 AATAATAATT
Statistics
Matches: 41, Mismatches: 8, Indels: 7
0.73 0.14 0.12
Matches are distributed among these distances:
36 2 0.05
37 16 0.39
38 18 0.44
39 5 0.12
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.42
Consensus pattern (36 bp):
AATATATAATTTAATAAAATCTTAATATTAAATATT
Found at i:17024469 original size:61 final size:61
Alignment explanation
Indices: 17024390--17024591 Score: 206
Period size: 61 Copynumber: 3.3 Consensus size: 61
17024380 ATTTAATAAA
*
17024390 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
* * * *
17024451 AATATATAATACT-ATAAAATATAATTTAA-AAT-AATAATTATTAAATAT-AATTTAAT-AAA-
1 AATATATAAT-CTAATAAAAT-T--CTTAATATTAAAT-ATTCTT--ATATGAATTTACTAAAAT
17024510 -A-
59 CAT
* *
17024511 AATATATAATTTAATAAAAATCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
17024572 AATATATAATACT-ATAAAAT
1 AATATATAAT-CTAATAAAAT
17024592 ATAATTTAAA
Statistics
Matches: 112, Mismatches: 13, Indels: 32
0.71 0.08 0.20
Matches are distributed among these distances:
56 4 0.04
57 11 0.10
58 10 0.09
59 5 0.04
60 17 0.15
61 34 0.30
62 6 0.05
63 10 0.09
64 11 0.10
65 4 0.04
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (61 bp):
AATATATAATCTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
Found at i:17024489 original size:13 final size:12
Alignment explanation
Indices: 17024465--17024505 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
17024455 TATAATACTA
17024465 TAAAATATAATT
1 TAAAATATAATT
17024477 TAAAATAATAATT
1 TAAAAT-ATAATT
*
17024490 ATTAAATATAATT
1 -TAAAATATAATT
17024503 TAA
1 TAA
17024506 TAAAAAATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 8 0.32
13 12 0.48
14 5 0.20
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAAATATAATT
Found at i:17024549 original size:121 final size:119
Alignment explanation
Indices: 17024355--17024815 Score: 570
Period size: 121 Copynumber: 4.0 Consensus size: 119
17024345 TTAATCATAT
* * *
17024355 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAATCTTAATA-T
*
17024420 AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
65 AAATATTCATATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
17024475 TTTAAAATAATAATTATTAAATATAATTTAATAAAAAATATATAATTTAATAAAAATCTTAATAT
1 TTTAAAATAATAATTATTAAATATAATTTAAT-AAAAATATATAATTTAATAAAAATCTTAATA-
*
17024540 TAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
64 TAAATATTCATATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * * * *
17024596 TTTAAAATAATAATTACTAAATATAATTTAATAAAATTCT-TAATATT-A-AATATTCTT-ATAT
1 TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAAT-TTAATAAAAATCTTAATAT
* * *
17024657 GAAT-TT-ACTA-A--AA--T-C-ATAAT-AT-ATA-ATACTA-TA-A--ATATAA
65 AAATATTCA-TATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
17024697 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTATTAATA-A
1 TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAATCTTAATATA
17024761 AATTATTCATATATGAATTTACTAAAATCATAATATATAATACTATAAAA-ATAA
66 AA-TATTCATATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
17024815 T
1 T
17024816 ATATAATCTA
Statistics
Matches: 296, Mismatches: 21, Indels: 50
0.81 0.06 0.14
Matches are distributed among these distances:
101 44 0.15
102 5 0.02
103 10 0.03
104 6 0.02
105 9 0.03
106 5 0.02
107 2 0.01
108 6 0.02
109 1 0.00
110 2 0.01
111 1 0.00
112 6 0.02
113 2 0.01
114 4 0.01
115 9 0.03
116 6 0.02
117 4 0.01
118 12 0.04
119 6 0.02
120 38 0.13
121 118 0.40
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (119 bp):
TTTAAAATAATAATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAAATCTTAATATA
AATATTCATATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:17024696 original size:21 final size:21
Alignment explanation
Indices: 17024662--17024826 Score: 61
Period size: 21 Copynumber: 7.3 Consensus size: 21
17024652 TATATGAATT
17024662 TACTA-AAATCATAATATATAA
1 TACTATAAAT-ATAATATATAA
*
17024683 TACTATAAATATAATTTAAAATAA
1 TACTATAAATATAA--T-ATATAA
* *
17024707 TTATTATTAAATATAATTTAATAA
1 -TACTA-TAAATATAATAT-ATAA
* * *
17024731 AAATATATAATTTAATA-A-AA
1 TACTATA-AATATAATATATAA
* *
17024751 TTATTAATAAAATTATTCATATATGAA
1 -TACT-AT-AAA-TA-TAATATAT-AA
17024778 TTTACTA-AAATCATAATATATAA
1 -T-ACTATAAAT-ATAATATATAA
*
17024801 TACTATAAAAATAATATATAA
1 TACTATAAATATAATATATAA
17024822 T-CTAT
1 TACTAT
17024827 TTTATTATTT
Statistics
Matches: 110, Mismatches: 15, Indels: 39
0.67 0.09 0.24
Matches are distributed among these distances:
20 6 0.05
21 28 0.25
22 14 0.13
23 15 0.14
24 22 0.20
25 9 0.08
26 9 0.08
27 5 0.05
28 2 0.02
ACGTcount: A:0.55, C:0.05, G:0.01, T:0.40
Consensus pattern (21 bp):
TACTATAAATATAATATATAA
Found at i:17024699 original size:37 final size:38
Alignment explanation
Indices: 17024613--17024701 Score: 94
Period size: 37 Copynumber: 2.4 Consensus size: 38
17024603 TAATAATTAC
* * *
17024613 TAAATATAATTTAATAAAATTCTTAATATTAAATATTC
1 TAAATATAATTTAATAAAATTCATAATATTAAATACTA
* *
17024651 T-TATATGAATTTACTAAAA-TCATAATA-TATAATACTA
1 TAAATAT-AATTTAATAAAATTCATAATATTA-AATACTA
17024688 TAAATATAATTTAA
1 TAAATATAATTTAA
17024702 AATAATTATT
Statistics
Matches: 41, Mismatches: 7, Indels: 7
0.75 0.13 0.13
Matches are distributed among these distances:
36 2 0.05
37 23 0.56
38 16 0.39
ACGTcount: A:0.51, C:0.06, G:0.01, T:0.43
Consensus pattern (38 bp):
TAAATATAATTTAATAAAATTCATAATATTAAATACTA
Found at i:17024728 original size:101 final size:102
Alignment explanation
Indices: 17024514--17024734 Score: 408
Period size: 102 Copynumber: 2.2 Consensus size: 102
17024504 AATAAAAAAT
17024514 ATATAATTTAATAAAAATCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAAATCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
17024579 AATACTATAAAATATAATTTAAAATAATAATTACTAA
66 AATACTATAAAATATAATTTAAAATAATAATTACTAA
*
17024616 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATTTAATAAAAATCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
* *
17024681 AATACTAT-AAATATAATTTAAAATAATTATTATTAA
66 AATACTATAAAATATAATTTAAAATAATAATTACTAA
17024717 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
17024735 ATATAATTTA
Statistics
Matches: 115, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
101 43 0.37
102 72 0.63
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.42
Consensus pattern (102 bp):
ATATAATTTAATAAAAATCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
AATACTATAAAATATAATTTAAAATAATAATTACTAA
Found at i:17024757 original size:12 final size:12
Alignment explanation
Indices: 17024742--17024767 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
17024732 AATATATAAT
17024742 TTAATAAAATTA
1 TTAATAAAATTA
17024754 TTAATAAAATTA
1 TTAATAAAATTA
17024766 TT
1 TT
17024768 CATATATGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTAATAAAATTA
Found at i:17024810 original size:60 final size:60
Alignment explanation
Indices: 17024626--17024810 Score: 177
Period size: 60 Copynumber: 3.1 Consensus size: 60
17024616 ATATAATTTA
* *
17024626 ATAAAATTCTTAATATTAAA-TATTCTTATATGAATTTACTAAAATCATAATATATAATACT
1 ATAAAATTATTAATA--AAATTATTCATATATGAATTTACTAAAATCATAATATATAATACT
* * * ** * * *
17024687 ATAAATATAATTTAA-AATAATTATT-AT-TA--AATATAATTTAATAAAAATATATAAT-TT
1 ATAAA-ATTA-TTAATAA-AATTATTCATATATGAATTTACTAAAATCATAATATATAATACT
17024744 AATAAAATTATTAATAAAATTATTCATATATGAATTTACTAAAATCATAATATATAATACT
1 -ATAAAATTATTAATAAAATTATTCATATATGAATTTACTAAAATCATAATATATAATACT
17024805 ATAAAA
1 ATAAAA
17024811 ATAATATATA
Statistics
Matches: 95, Mismatches: 18, Indels: 23
0.70 0.13 0.17
Matches are distributed among these distances:
56 11 0.12
57 8 0.08
58 27 0.28
60 29 0.31
61 9 0.09
62 7 0.07
63 4 0.04
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (60 bp):
ATAAAATTATTAATAAAATTATTCATATATGAATTTACTAAAATCATAATATATAATACT
Found at i:17024921 original size:220 final size:220
Alignment explanation
Indices: 17024393--17024818 Score: 617
Period size: 223 Copynumber: 1.9 Consensus size: 220
17024383 TAATAAAAAT
** ** *
17024393 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATGCAATAAAATTCTTAATATTAAATATGATTATATGAA--TACAAAAATCATAATATAT
* *
17024458 AATACTATAAAATATAATTTAAAATAATAATTATTAAATATAATTTAATAAAAAATATATAATTT
64 AATACAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAATATATAATTT
* *
17024523 AATAAAAATCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATA
129 AATAAAAATATTAATA-TAAATATTCATATATGAATTTACTAAAATCATAATATATAATACTATA
*
17024588 AAATATAATTTAAAATAATAATTACTAA
193 AAATATAATATAAAATAATAATTACTAA
** ** *
17024616 ATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATAT
1 ATATAATGCAATAAAATTCTTAATATTAAATATGATTATATGAA--TACAAAAATCATAATATAT
*
17024681 AATACTAT-AAATATAATTTAAAATAATTATTATTAAATATAATTTAAT-AAAAATATATAATTT
64 AATACAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAATATATAATTT
*
17024744 AATAAAATTATTAATA-AAATTATTCATATATGAATTTACTAAAATCATAATATATAATACTATA
129 AATAAAAATATTAATATAAA-TATTCATATATGAATTTACTAAAATCATAATATATAATACTATA
17024808 AAA-ATAATATA
193 AAATATAATATA
17024819 TAATCTATTT
Statistics
Matches: 197, Mismatches: 5, Indels: 6
0.95 0.02 0.03
Matches are distributed among these distances:
219 10 0.05
220 46 0.23
221 29 0.15
222 39 0.20
223 73 0.37
ACGTcount: A:0.53, C:0.05, G:0.01, T:0.41
Consensus pattern (220 bp):
ATATAATGCAATAAAATTCTTAATATTAAATATGATTATATGAATACAAAAATCATAATATATAA
TACAATAAAATATAATTTAAAATAATTATTATTAAATATAATTTAATAAAAAATATATAATTTAA
TAAAAATATTAATATAAATATTCATATATGAATTTACTAAAATCATAATATATAATACTATAAAA
TATAATATAAAATAATAATTACTAA
Found at i:17024925 original size:12 final size:12
Alignment explanation
Indices: 17024908--17024934 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17024898 TTCTACAATA
17024908 AATATATAATTT
1 AATATATAATTT
17024920 AATATATAATTT
1 AATATATAATTT
17024932 AAT
1 AAT
17024935 TATTTTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
AATATATAATTT
Found at i:17025218 original size:32 final size:32
Alignment explanation
Indices: 17025182--17025243 Score: 106
Period size: 32 Copynumber: 1.9 Consensus size: 32
17025172 TCATGTTGGT
17025182 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
1 TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
* *
17025214 TTTTTCGTGTTGTCAACGAGTTGAACAATG
1 TTTTTCATGTTGTCAAAGAGTTGAACAATG
17025244 AAAATAGATG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (32 bp):
TTTTTCATGTTGTCAAAGAGTTGAACAATGGA
Found at i:17025840 original size:15 final size:15
Alignment explanation
Indices: 17025829--17025860 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
17025819 AATAAATTGG
17025829 AATATTAAAAATAAA
1 AATATTAAAAATAAA
17025844 AATATTAAAAATAAA
1 AATATTAAAAATAAA
17025859 AA
1 AA
17025861 AAATTTAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (15 bp):
AATATTAAAAATAAA
Found at i:17025981 original size:23 final size:23
Alignment explanation
Indices: 17025934--17025981 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
17025924 TTTTTATTTT
**
17025934 AACTTGAATTACAAAAATATCCA
1 AACTTGAATTACAAAAATAAACA
17025957 AACTTGAATTACAAAAATAAACA
1 AACTTGAATTACAAAAATAAACA
17025980 AA
1 AA
17025982 TGCATTATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.58, C:0.15, G:0.04, T:0.23
Consensus pattern (23 bp):
AACTTGAATTACAAAAATAAACA
Found at i:17026113 original size:21 final size:24
Alignment explanation
Indices: 17026086--17026132 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
17026076 TTAAAAATAA
* *
17026086 TAAAAATA-AATTTAATTATTTTT
1 TAAATATATAATTTAATTAGTTTT
17026109 TAAATATATAATTTAATTAGTTTT
1 TAAATATATAATTTAATTAGTTTT
17026133 ATGCATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TAAATATATAATTTAATTAGTTTT
Found at i:17026132 original size:23 final size:23
Alignment explanation
Indices: 17026086--17026133 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
17026076 TTAAAAATAA
*
17026086 TAAAAATAAATTTAATTATTTTT
1 TAAAAATAAATTTAATTATGTTT
*
17026109 TAAATATATAATTTAATTA-GTTT
1 TAAAAATA-AATTTAATTATGTTT
17026132 TA
1 TA
17026134 TGCATTTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 12 0.55
24 10 0.45
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (23 bp):
TAAAAATAAATTTAATTATGTTT
Found at i:17026203 original size:23 final size:23
Alignment explanation
Indices: 17026156--17026203 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
17026146 TTTTTATTTT
* **
17026156 AACTTGAATTTCAAAAATATCCA
1 AACTTGAATTACAAAAATAAACA
17026179 AACTTGAATTACAAAAATAAACA
1 AACTTGAATTACAAAAATAAACA
17026202 AA
1 AA
17026204 TGCATTATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.56, C:0.15, G:0.04, T:0.25
Consensus pattern (23 bp):
AACTTGAATTACAAAAATAAACA
Found at i:17026266 original size:222 final size:222
Alignment explanation
Indices: 17025872--17026319 Score: 842
Period size: 222 Copynumber: 2.0 Consensus size: 222
17025862 AATTTAATTT
*
17025872 AATTTAATTAATTTTTAAATATATAATTTAATTATTTTTATGCATTTAATTATTTTTATTTTAAC
1 AATTTAATTAATTTTTAAATATATAATTTAATTAGTTTTATGCATTTAATTATTTTTATTTTAAC
17025937 TTGAATTACAAAAATATCCAAACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGA
66 TTGAATTACAAAAATATCCAAACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGA
** *
17026002 AAAACAATTGCATAAAACCAATCCATAACTTTAAATTTAAAACTTGAATAATAATTGAAAAATAA
131 AAAACAATTGCATAAAACCAATCCATAACAATAAAATTAAAACTTGAATAATAATTGAAAAATAA
17026067 TAGTTAAAATTAAAAATAATAAAAATA
196 TAGTTAAAATTAAAAATAATAAAAATA
*
17026094 AATTTAATTATTTTTTAAATATATAATTTAATTAGTTTTATGCATTTAATTATTTTTATTTTAAC
1 AATTTAATTAATTTTTAAATATATAATTTAATTAGTTTTATGCATTTAATTATTTTTATTTTAAC
*
17026159 TTGAATTTCAAAAATATCCAAACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGA
66 TTGAATTACAAAAATATCCAAACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGA
17026224 AAAACAATTGCATAAAACCAATCCATAACAATAAAATTAAAACTTGAATAATAATTGAAAAATAA
131 AAAACAATTGCATAAAACCAATCCATAACAATAAAATTAAAACTTGAATAATAATTGAAAAATAA
17026289 TAGTTAAAATTAAAAATAATAAAAATA
196 TAGTTAAAATTAAAAATAATAAAAATA
17026316 AATT
1 AATT
17026320 GTTTTGCACT
Statistics
Matches: 220, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
222 220 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.38
Consensus pattern (222 bp):
AATTTAATTAATTTTTAAATATATAATTTAATTAGTTTTATGCATTTAATTATTTTTATTTTAAC
TTGAATTACAAAAATATCCAAACTTGAATTACAAAAATAAACAAATGCATTATTTAGTAAATTGA
AAAACAATTGCATAAAACCAATCCATAACAATAAAATTAAAACTTGAATAATAATTGAAAAATAA
TAGTTAAAATTAAAAATAATAAAAATA
Found at i:17027461 original size:17 final size:18
Alignment explanation
Indices: 17027428--17027464 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
17027418 ATCGAGTCAT
17027428 AAAATTTCATTAATTATTA
1 AAAATTTCA-TAATTATTA
17027447 AAAATTTCA-AATTATTA
1 AAAATTTCATAATTATTA
17027464 A
1 A
17027465 CATGCTTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
19 9 0.50
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
AAAATTTCATAATTATTA
Found at i:17029081 original size:2 final size:2
Alignment explanation
Indices: 17029074--17029098 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
17029064 TTCTTTCCAC
17029074 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
17029099 CTAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17029925 original size:25 final size:25
Alignment explanation
Indices: 17029879--17029947 Score: 111
Period size: 25 Copynumber: 2.7 Consensus size: 25
17029869 TAATCCATAA
* *
17029879 ACAGAAACGGAAAACATCAACTTAAT
1 ACAGAAAC-CAAAACATGAACTTAAT
17029905 ACAGAAACCAAAACATGAACTTAAT
1 ACAGAAACCAAAACATGAACTTAAT
17029930 ACAGAAACCAAAACATGA
1 ACAGAAACCAAAACATGA
17029948 CCATTATAAC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
25 33 0.80
26 8 0.20
ACGTcount: A:0.57, C:0.20, G:0.10, T:0.13
Consensus pattern (25 bp):
ACAGAAACCAAAACATGAACTTAAT
Found at i:17030836 original size:5 final size:5
Alignment explanation
Indices: 17030826--17030851 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
17030816 TTGATTTTAC
17030826 AGAAA AGAAA AGAAA AGAAA AGAAA A
1 AGAAA AGAAA AGAAA AGAAA AGAAA A
17030852 ACAGGGAAAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:17030933 original size:19 final size:17
Alignment explanation
Indices: 17030898--17030938 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 17
17030888 AAATGGAGAA
*
17030898 AAGAAAAGAAACGTGAG
1 AAGAAAAGAAACATGAG
17030915 AAGAAAAGAAACATATGAG
1 AAGAAAAGAAAC--ATGAG
17030934 AAGAA
1 AAGAA
17030939 GAAGCAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 12 0.57
19 9 0.43
ACGTcount: A:0.63, C:0.05, G:0.24, T:0.07
Consensus pattern (17 bp):
AAGAAAAGAAACATGAG
Found at i:17043194 original size:14 final size:14
Alignment explanation
Indices: 17043175--17043203 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
17043165 ACCTATGATA
17043175 ATACTGTAATAGAC
1 ATACTGTAATAGAC
17043189 ATACTGTAATAGAC
1 ATACTGTAATAGAC
17043203 A
1 A
17043204 AATCTATTGC
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:0.45, C:0.14, G:0.14, T:0.28
Consensus pattern (14 bp):
ATACTGTAATAGAC
Found at i:17044074 original size:9 final size:9
Alignment explanation
Indices: 17044060--17044087 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
17044050 TTTTGTTGCA
17044060 ACAATTAAT
1 ACAATTAAT
17044069 ACAATTAAT
1 ACAATTAAT
17044078 ACAATTAAT
1 ACAATTAAT
17044087 A
1 A
17044088 GTTTGATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (9 bp):
ACAATTAAT
Found at i:17044109 original size:68 final size:67
Alignment explanation
Indices: 17044030--17044230 Score: 278
Period size: 59 Copynumber: 3.1 Consensus size: 67
17044020 TCAAGTTTGT
* *
17044030 TTTACTAATCAAATGTTAGATTTTGTTGCAACAATTAATACAATTAATACAATTAATAGTTTGAT
1 TTTACTAATCAAATGTTAGATTTTATT-CAACAATTAATACAATTAATACAATTAATAATTTGAT
17044095 AAA
65 AAA
17044098 TTTACTAATCAAATGTTAGATTTTATT--AC-----A-ACAATTAATACAATTAATAATTTGATA
1 TTTACTAATCAAATGTTAGATTTTATTCAACAATTAATACAATTAATACAATTAATAATTTGATA
17044155 AA
66 AA
*
17044157 TTTACTAATCAAATGTTAGATTTTATTACAATAATTAATACAATT-A-ACAATTAATAATTTGAT
1 TTTACTAATCAAATGTTAGATTTTATT-CAACAATTAATACAATTAATACAATTAATAATTTGAT
*
17044220 AAT
65 AAA
17044223 TTTACTAA
1 TTTACTAA
17044231 CAATTAATTT
Statistics
Matches: 120, Mismatches: 4, Indels: 20
0.83 0.03 0.14
Matches are distributed among these distances:
59 55 0.46
60 1 0.01
62 1 0.01
65 2 0.02
66 27 0.22
67 2 0.02
68 32 0.27
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.41
Consensus pattern (67 bp):
TTTACTAATCAAATGTTAGATTTTATTCAACAATTAATACAATTAATACAATTAATAATTTGATA
AA
Found at i:17044240 original size:16 final size:16
Alignment explanation
Indices: 17044219--17044260 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
17044209 AATAATTTGA
*
17044219 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
17044235 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
17044251 TAGTTTTAAT
1 TAATTTTAAT
17044261 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:17044244 original size:22 final size:23
Alignment explanation
Indices: 17044234--17044289 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 23
17044224 TTACTAACAA
* * *
17044234 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
17044256 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
17044279 TTAATTTTAAT
1 TTAATTTTAAT
17044290 TTAAAACGGG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.36
23 18 0.64
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:17045161 original size:21 final size:21
Alignment explanation
Indices: 17045137--17045213 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
17045127 CTTTCTATTT
*
17045137 AGCTCTTAAGAGCTTTTGTTC
1 AGCTCTTAAGAGCTTCTGTTC
* *
17045158 AGCTCTTATGAGCTTCTGTTT
1 AGCTCTTAAGAGCTTCTGTTC
* * *
17045179 GGTTCTTACA-AGCTTCTGTTA
1 AGCTCTTA-AGAGCTTCTGTTC
* *
17045200 AGCTTTTATGAGCT
1 AGCTCTTAAGAGCT
17045214 GCTATTAAGC
Statistics
Matches: 43, Mismatches: 11, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.18, C:0.18, G:0.19, T:0.44
Consensus pattern (21 bp):
AGCTCTTAAGAGCTTCTGTTC
Found at i:17046495 original size:21 final size:22
Alignment explanation
Indices: 17046471--17046511 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
17046461 TCTAACACGA
17046471 ATGTTATATT-ATATG-AAACAT
1 ATGTT-TATTGATATGTAAACAT
17046492 ATGTTTATTGATATGTAAAC
1 ATGTTTATTGATATGTAAAC
17046512 TCCGACAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 10 0.56
22 4 0.22
ACGTcount: A:0.39, C:0.05, G:0.12, T:0.44
Consensus pattern (22 bp):
ATGTTTATTGATATGTAAACAT
Found at i:17048069 original size:22 final size:22
Alignment explanation
Indices: 17048026--17048072 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
17048016 AAAAACAAAA
* * *
17048026 AAATAGTAGCAATATAATAATG
1 AAATAGTAGCAAAACAACAATG
*
17048048 AAATGGTAGCAAAACAACAATG
1 AAATAGTAGCAAAACAACAATG
17048070 AAA
1 AAA
17048073 CAACTGATTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.57, C:0.09, G:0.15, T:0.19
Consensus pattern (22 bp):
AAATAGTAGCAAAACAACAATG
Found at i:17052187 original size:58 final size:60
Alignment explanation
Indices: 17052102--17052230 Score: 145
Period size: 58 Copynumber: 2.2 Consensus size: 60
17052092 TATACATTTT
* * * * * * *
17052102 GGTACCTGAACTTGGTTTCAAGTTTTAATTTAGTACTT-AA-TTGTTTTTTCTCCAATAA
1 GGTACTTGAACGTGGCTTAAAGGTTTAACTTAGCACTTCAAGTTGTTTTTTCTCCAATAA
* * * *
17052160 GGTACTTGAACGTGGCTTAAAGGTTTAACTTGGCACTTCAAGTTTTTTTTTGTCCAATTA
1 GGTACTTGAACGTGGCTTAAAGGTTTAACTTAGCACTTCAAGTTGTTTTTTCTCCAATAA
17052220 GGTACTTGAAC
1 GGTACTTGAAC
17052231 TTGCTTGCGT
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
58 30 0.52
59 2 0.03
60 26 0.45
ACGTcount: A:0.25, C:0.15, G:0.18, T:0.43
Consensus pattern (60 bp):
GGTACTTGAACGTGGCTTAAAGGTTTAACTTAGCACTTCAAGTTGTTTTTTCTCCAATAA
Found at i:17053943 original size:22 final size:22
Alignment explanation
Indices: 17053899--17053943 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
17053889 GGTCACTACC
** *
17053899 ATCATCCCTGTGACAAAGTAGT
1 ATCATCCCTACGACAAAGGAGT
*
17053921 ATCATCCCTACGACAGAGGAGT
1 ATCATCCCTACGACAAAGGAGT
17053943 A
1 A
17053944 AACTTGCCAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.22
Consensus pattern (22 bp):
ATCATCCCTACGACAAAGGAGT
Found at i:17057046 original size:66 final size:66
Alignment explanation
Indices: 17056940--17057072 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
17056930 ATTTGTTCGG
17056940 TGAAAAATTTCATATATTTACCGATCACAAGAGTTTAAAGTATCTAATGTCGCAAAAAGATTTGA
1 TGAAAAATTTCATATATTTACCGATCACAAGAGTTTAAAGTATCTAATGTCGCAAAAAGATTTGA
17057005 A
66 A
17057006 TGAAAAATTTCATATATTTACCGATCACAAGAGTTTAAAGTATCTAATGTCGCAAAAAGATTTGA
1 TGAAAAATTTCATATATTTACCGATCACAAGAGTTTAAAGTATCTAATGTCGCAAAAAGATTTGA
17057071 A
66 A
17057072 T
1 T
17057073 CTGAGACAAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (66 bp):
TGAAAAATTTCATATATTTACCGATCACAAGAGTTTAAAGTATCTAATGTCGCAAAAAGATTTGA
A
Found at i:17059386 original size:13 final size:13
Alignment explanation
Indices: 17059368--17059412 Score: 63
Period size: 13 Copynumber: 3.3 Consensus size: 13
17059358 TGTTGTTAGA
17059368 TAAATAATTTTTG
1 TAAATAATTTTTG
17059381 TAAATAATTTTTG
1 TAAATAATTTTTG
*
17059394 TAAAGAGATTTTTGG
1 TAAATA-ATTTTT-G
17059409 TAAA
1 TAAA
17059413 ATTATTAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
13 18 0.62
14 6 0.21
15 5 0.17
ACGTcount: A:0.40, C:0.00, G:0.13, T:0.47
Consensus pattern (13 bp):
TAAATAATTTTTG
Found at i:17063876 original size:7 final size:7
Alignment explanation
Indices: 17063861--17063904 Score: 54
Period size: 7 Copynumber: 6.3 Consensus size: 7
17063851 TGGGTACTTC
*
17063861 TGATCAG
1 TGATAAG
17063868 TGATAAG
1 TGATAAG
17063875 TGATAAG
1 TGATAAG
*
17063882 TGACAAG
1 TGATAAG
17063889 TGGA-AAG
1 T-GATAAG
17063896 TGATAAG
1 TGATAAG
17063903 TG
1 TG
17063905 GTAGTTTTAG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 2 0.06
7 29 0.88
8 2 0.06
ACGTcount: A:0.39, C:0.05, G:0.32, T:0.25
Consensus pattern (7 bp):
TGATAAG
Found at i:17063951 original size:46 final size:46
Alignment explanation
Indices: 17063892--17064170 Score: 416
Period size: 46 Copynumber: 6.3 Consensus size: 46
17063882 TGACAAGTGG
** *
17063892 AAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGAT
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
17063938 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
*
17063984 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGCGAC
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
17064030 AAAGTGATAAGTGGTAGCCTTAGCTACAC---T-T-ATC---TGAC
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
* *
17064068 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAA
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
*
17064114 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATTAAG-GAC
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
*
17064159 -AAGTGAGAAGTG
1 AAAGTGATAAGTG
17064171 ATCATACTTA
Statistics
Matches: 214, Mismatches: 11, Indels: 18
0.88 0.05 0.07
Matches are distributed among these distances:
38 31 0.14
41 4 0.02
42 2 0.01
43 4 0.02
44 11 0.05
45 2 0.01
46 160 0.75
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (46 bp):
AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGTGAC
Found at i:17064121 original size:84 final size:84
Alignment explanation
Indices: 17063980--17064150 Score: 315
Period size: 84 Copynumber: 2.0 Consensus size: 84
17063970 TCTGATCAAG
*
17063980 TGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGCGACAAAGTGATAAGTGGT
1 TGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGCGAAAAAGTGATAAGTGGT
17064045 AGCCTTAGCTACACTTATC
66 AGCCTTAGCTACACTTATC
* *
17064064 TGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGT
1 TGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGCGAAAAAGTGATAAGTGGT
17064129 AGCCTTAGCTACACTTATC
66 AGCCTTAGCTACACTTATC
17064148 TGA
1 TGA
17064151 TTAAGGACAA
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (84 bp):
TGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGCGAAAAAGTGATAAGTGGT
AGCCTTAGCTACACTTATC
Found at i:17064133 original size:130 final size:131
Alignment explanation
Indices: 17063892--17064170 Score: 420
Period size: 130 Copynumber: 2.1 Consensus size: 131
17063882 TGACAAGTGG
**
17063892 AAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAAGTGATAAAGTGATAAGTGGTAGCC
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATC-----A-AAAGTGATAAGTGGTAGCC
*
17063957 TTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
60 TTAGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGAT
17064022 CAAGCGAC
125 CAAG-GAC
*
17064030 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGA-C-AAAGTGATAAGTGGTAGCTTTAGCT
1 AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAAAGTGATAAGTGGTAGCCTTAGCT
*
17064093 ACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATTAAGGA
66 ACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGGA
17064158 C
131 C
*
17064159 -AAGTGAGAAGTG
1 AAAGTGATAAGTG
17064171 ATCATACTTA
Statistics
Matches: 135, Mismatches: 6, Indels: 10
0.89 0.04 0.07
Matches are distributed among these distances:
128 11 0.08
129 3 0.02
130 85 0.63
137 1 0.01
138 35 0.26
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (131 bp):
AAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAAAGTGATAAGTGGTAGCCTTAGCT
ACACTTATCTGATCAAGTGAAAAAGTGATAAGTGGTAGCCTTAGCTACACTTATCTGATCAAGGA
C
Found at i:17067036 original size:22 final size:21
Alignment explanation
Indices: 17067009--17067194 Score: 163
Period size: 22 Copynumber: 9.0 Consensus size: 21
17066999 TAGATTAGAA
*
17067009 TTTTGTATGAATATTTTAAATT
1 TTTTGTATGAATATTGT-AATT
*
17067031 TTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGTAATT
17067052 TTTT-TATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
17067070 TGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATT
* *
17067091 ATTTTATAATTAA-ATTTGT-ATT
1 -TTTTGT-ATGAATA-TTGTAATT
* * * * *
17067113 TATAGTTTTGGAT-TAGTAATT
1 TTTTG-TATGAATATTGTAATT
17067134 TTTTGTATGAATATTGTAA--
1 TTTTGTATGAATATTGTAATT
*
17067153 TTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTGT-AATT
17067175 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
17067195 AATATTATAG
Statistics
Matches: 131, Mismatches: 20, Indels: 27
0.74 0.11 0.15
Matches are distributed among these distances:
18 3 0.02
19 30 0.23
20 23 0.18
21 26 0.20
22 41 0.31
23 8 0.06
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.55
Consensus pattern (21 bp):
TTTTGTATGAATATTGTAATT
Found at i:17067080 original size:19 final size:19
Alignment explanation
Indices: 17067033--17067089 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 19
17067023 TTTAAATTTT
* *
17067033 TTGTATGAATATTATAATTT
1 TTGTATGAATATTGTAA-TG
*
17067053 TTTTATGAATATTGTAATG
1 TTGTATGAATATTGTAATG
17067072 TTGTATGAATATTGTAAT
1 TTGTATGAATATTGTAAT
17067090 TATTTTATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.33, C:0.00, G:0.14, T:0.53
Consensus pattern (19 bp):
TTGTATGAATATTGTAATG
Found at i:17067175 original size:41 final size:40
Alignment explanation
Indices: 17067009--17067194 Score: 175
Period size: 41 Copynumber: 4.5 Consensus size: 40
17066999 TAGATTAGAA
*
17067009 TTTTGTATGAATATTTTAAATTTTTTGTATGAATATTATAATT
1 TTTTGTATGAATATTGT-AA--TTTTGTATGAATATTATAATT
* *
17067052 TTTT-TATGAATATTGTAATGTTGTATGAATATTGTAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
* * * *
17067091 ATTTTATAATTAA-ATTTGT-ATTTATAGTTTTG--GATTAGTAATT
1 -TTTTGT-ATGAATA-TTGTAATTT-T-G-TATGAATATTA-TAATT
17067134 TTTTGTATGAATATTGTAATTTTGTATGAATATTATAAATT
1 TTTTGTATGAATATTGTAATTTTGTATGAATATTAT-AATT
17067175 TTTTGTATGAATATTGTAAT
1 TTTTGTATGAATATTGTAAT
17067195 AATATTATAG
Statistics
Matches: 118, Mismatches: 12, Indels: 28
0.75 0.08 0.18
Matches are distributed among these distances:
39 22 0.19
40 6 0.05
41 44 0.37
42 33 0.28
43 10 0.08
44 3 0.03
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.55
Consensus pattern (40 bp):
TTTTGTATGAATATTGTAATTTTGTATGAATATTATAATT
Found at i:17067277 original size:49 final size:49
Alignment explanation
Indices: 17067147--17067355 Score: 294
Period size: 49 Copynumber: 4.2 Consensus size: 49
17067137 TGTATGAATA
* *
17067147 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATAAT
1 TTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGTAAT--T
* * *
17067198 ATTATAGTTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATT
1 -TTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGTAATT
* * *
17067248 TTGTAATTTTGTATGAATATTA-TATTTTTTTGTATGAATGTTGTAATA
1 TTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGTAATT
* *
17067296 TTATAATTTTGTATGAATATTGCAATTTTTTTGTATGAATATTGTAATT
1 TTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGTAATT
17067345 TTGTAATTTTG
1 TTGTAATTTTG
17067356 CAATTTTTAT
Statistics
Matches: 139, Mismatches: 17, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
48 43 0.31
49 52 0.37
50 1 0.01
52 43 0.31
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (49 bp):
TTGTAATTTTGTATGAATATTACAATTTTTTTGTATGAATATTGTAATT
Found at i:17067320 original size:97 final size:99
Alignment explanation
Indices: 17067147--17067355 Score: 359
Period size: 97 Copynumber: 2.1 Consensus size: 99
17067137 TGTATGAATA
*
17067147 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGTAATAATATTATAGTTTTGTA
1 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTG--ATAATATTATAATTTTGTA
17067212 TGAATATTGCAATTTTTTTGTATGAATATTGTAATT
64 TGAATATTGCAATTTTTTTGTATGAATATTGTAATT
* *
17067248 TTGTAATTTTGTATGAATATTAT-ATTTTTTTGTATGAATGTTG-TAATATTATAATTTTGTATG
1 TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGATAATATTATAATTTTGTATG
17067311 AATATTGCAATTTTTTTGTATGAATATTGTAATT
66 AATATTGCAATTTTTTTGTATGAATATTGTAATT
17067345 TTGTAATTTTG
1 TTGTAATTTTG
17067356 CAATTTTTAT
Statistics
Matches: 105, Mismatches: 3, Indels: 4
0.94 0.03 0.04
Matches are distributed among these distances:
97 64 0.61
100 18 0.17
101 23 0.22
ACGTcount: A:0.31, C:0.01, G:0.13, T:0.55
Consensus pattern (99 bp):
TTGTAATTTTGTATGAATATTATAAATTTTTTGTATGAATATTGATAATATTATAATTTTGTATG
AATATTGCAATTTTTTTGTATGAATATTGTAATT
Found at i:17067357 original size:38 final size:40
Alignment explanation
Indices: 17067292--17067369 Score: 106
Period size: 38 Copynumber: 2.0 Consensus size: 40
17067282 TGAATGTTGT
*
17067292 AATATTATAATTTTGTATGAATATTGCAATTTTTTTGTATG
1 AATATTATAATTTTG-ATGAATATTGCAATTTTTATGTATG
* *
17067333 AATATTGTAATTTTG-T-AATTTTGCAATTTTTATGTAT
1 AATATTATAATTTTGATGAATATTGCAATTTTTATGTAT
17067370 TTTGTTTACA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
38 19 0.56
39 1 0.03
41 14 0.41
ACGTcount: A:0.31, C:0.03, G:0.12, T:0.55
Consensus pattern (40 bp):
AATATTATAATTTTGATGAATATTGCAATTTTTATGTATG
Found at i:17070573 original size:6 final size:6
Alignment explanation
Indices: 17070554--17070618 Score: 103
Period size: 6 Copynumber: 10.8 Consensus size: 6
17070544 AGAATGTAGT
* *
17070554 TCTGCC TCTCGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC
1 TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC TCTGGC
*
17070602 CCTGGC TCTGGC TCTGG
1 TCTGGC TCTGGC TCTGG
17070619 TGTATGATGC
Statistics
Matches: 54, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 54 1.00
ACGTcount: A:0.00, C:0.37, G:0.31, T:0.32
Consensus pattern (6 bp):
TCTGGC
Found at i:17072272 original size:16 final size:15
Alignment explanation
Indices: 17072241--17072282 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
17072231 ACAAAATCAA
*
17072241 ATAAAATTTAATTAT
1 ATAAAAGTTAATTAT
17072256 ATAAAAGTTACATTAT
1 ATAAAAGTTA-ATTAT
*
17072272 ATAAAAATTAA
1 ATAAAAGTTAA
17072283 ATAAGTTAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.38
Consensus pattern (15 bp):
ATAAAAGTTAATTAT
Found at i:17072448 original size:38 final size:38
Alignment explanation
Indices: 17072394--17072467 Score: 139
Period size: 38 Copynumber: 1.9 Consensus size: 38
17072384 TAAAAAACCC
17072394 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
1 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
*
17072432 AAACTTTTAATGAAATGATTTTTAATTTTTTTATAA
1 AAACTTTTAATAAAATGATTTTTAATTTTTTTATAA
17072468 ACTTTATATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (38 bp):
AAACTTTTAATAAAATGATTTTTAATTTTTTTATAATT
Found at i:17072696 original size:27 final size:26
Alignment explanation
Indices: 17072663--17072889 Score: 175
Period size: 27 Copynumber: 9.1 Consensus size: 26
17072653 ATATCCTCAC
*
17072663 ATTACAATATTCATGCAAAATTACAAA
1 ATTACAATATTCATACAAAATTA-AAA
17072690 ATTACAATATTCATAC--AA--AAAA
1 ATTACAATATTCATACAAAATTAAAA
* *
17072712 ATTGCAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAATTA-AAA
*
17072739 ATTACAACATTCATAC--AA--AAAA
1 ATTACAATATTCATACAAAATTAAAA
*
17072761 A-TATAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTA-AAA
17072787 ATTACAATATTCATAC---A--AAAA
1 ATTACAATATTCATACAAAATTAAAA
* *
17072808 ATTGCAATATTCATACAAAACTATAATATT
1 ATTACAATATTCATACAAAA-T-TAA-A-A
17072838 ATTACAATATTCATAC--AA--AAAA
1 ATTACAATATTCATACAAAATTAAAA
* *
17072860 TTTATAATATTCATACAAAATTACAAA
1 ATTACAATATTCATACAAAATTA-AAA
17072887 ATT
1 ATT
17072890 CATACAAAAA
Statistics
Matches: 159, Mismatches: 16, Indels: 50
0.71 0.07 0.22
Matches are distributed among these distances:
21 30 0.19
22 36 0.23
23 5 0.03
24 8 0.05
25 5 0.03
26 6 0.04
27 49 0.31
28 4 0.03
29 1 0.01
30 15 0.09
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (26 bp):
ATTACAATATTCATACAAAATTAAAA
Found at i:17072706 original size:19 final size:19
Alignment explanation
Indices: 17072684--17073025 Score: 128
Period size: 19 Copynumber: 18.5 Consensus size: 19
17072674 CATGCAAAAT
17072684 TACAAAATTACAATATTCA
1 TACAAAATTACAATATTCA
*
17072703 TACAAAAAAATTGCAATATTCA
1 TAC---AAAATTACAATATTCA
*
17072725 TACAAAATTATAATA-T--
1 TACAAAATTACAATATTCA
*
17072741 TACAACATT-C-ATA--CA
1 TACAAAATTACAATATTCA
* *
17072756 -A-AAAAATATAATATTCA
1 TACAAAATTACAATATTCA
*
17072773 TACAAAATTACAA-AAT--
1 TACAAAATTACAATATTCA
*
17072789 TACAATATT-C-ATA--CA
1 TACAAAATTACAATATTCA
*
17072804 -A-AAAATTGCAATATTCA
1 TACAAAATTACAATATTCA
* *
17072821 TACAAAACTATAATATT-A
1 TACAAAATTACAATATTCA
*
17072839 TTACAATATT-C-ATA--CA
1 -TACAAAATTACAATATTCA
*
17072855 -A-AAAATTTATAATATTCA
1 TACAAAA-TTACAATATTCA
*
17072873 TACAAAATTACAAAATTCA
1 TACAAAATTACAATATTCA
* *
17072892 TACAAAAAATTACTA-ATCCAA
1 TAC--AAAATTACAATATTC-A
*
17072913 AACTATAAA-TACAAATTTAATT-A
1 TAC-A-AAATTAC-AA--T-ATTCA
*
17072936 TAAAATAATTACAATATTCA
1 TACAA-AATTACAATATTCA
*
17072956 TACAACATTACAATATTCA
1 TACAAAATTACAATATTCA
* *
17072975 TAAAAAAATTATAATATTCA
1 T-ACAAAATTACAATATTCA
*
17072995 TACAAAAAATTTAAAATATTCA
1 TAC--AAAA-TTACAATATTCA
17073017 TACAAAATT
1 TACAAAATT
17073026 CTAATCTAAA
Statistics
Matches: 240, Mismatches: 38, Indels: 90
0.65 0.10 0.24
Matches are distributed among these distances:
13 12 0.05
14 10 0.04
15 8 0.03
16 20 0.08
17 7 0.03
18 8 0.03
19 73 0.30
20 37 0.15
21 21 0.09
22 37 0.15
23 5 0.02
25 2 0.01
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.32
Consensus pattern (19 bp):
TACAAAATTACAATATTCA
Found at i:17072778 original size:48 final size:48
Alignment explanation
Indices: 17072668--17072889 Score: 293
Period size: 48 Copynumber: 4.5 Consensus size: 48
17072658 CTCACATTAC
*
17072668 AATATTCATGCAAAATTACAAAATTACAATATTCATACAAAAAAAT-T
1 AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATAT
* * *
17072715 GCAATATTCATACAAAATTATAATATTACAACATTCATACAAAAAAATAT
1 --AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATAT
* **
17072765 AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAATTGC
1 AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATAT
* * *
17072813 AATATTCATACAAAACTATAATATTATTACAATATTCATACAAAAAATTTAT
1 AATATTCATACAAAATTACAA-A--ATTACAATATTCATACAAAAAA-ATAT
17072865 AATATTCATACAAAATTACAAAATT
1 AATATTCATACAAAATTACAAAATT
17072890 CATACAAAAA
Statistics
Matches: 152, Mismatches: 16, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
48 61 0.40
49 46 0.30
50 1 0.01
51 23 0.15
52 21 0.14
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (48 bp):
AATATTCATACAAAATTACAAAATTACAATATTCATACAAAAAAATAT
Found at i:17072827 original size:21 final size:21
Alignment explanation
Indices: 17072687--17072731 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 21
17072677 GCAAAATTAC
17072687 AAAATTACAATATTCATACAAA
1 AAAATTACAATATTCATAC-AA
*
17072709 AAAATTGCAATATTCATACAA
1 AAAATTACAATATTCATACAA
17072730 AA
1 AA
17072732 TTATAATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.58, C:0.13, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAATTACAATATTCATACAA
Found at i:17072868 original size:22 final size:21
Alignment explanation
Indices: 17072838--17073023 Score: 124
Period size: 22 Copynumber: 9.0 Consensus size: 21
17072828 CTATAATATT
*
17072838 ATTACAATATTCATACAAAAA
1 ATTATAATATTCATACAAAAA
17072859 ATTTATAATATTCATAC--AAA
1 A-TTATAATATTCATACAAAAA
* *
17072879 ATTACAAAATTCATACAAAAA
1 ATTATAATATTCATACAAAAA
**
17072900 ATTACTAATCCAAAACTATA-AATACAA
1 ATTA-TAAT---ATTC-ATACAA-A-AA
*
17072927 ATT-T-A-ATT-ATA-AAATA
1 ATTATAATATTCATACAAAAA
* *
17072943 ATTACAATATTCATAC--AAC
1 ATTATAATATTCATACAAAAA
*
17072962 ATTACAATATTCATA-AAAAA
1 ATTATAATATTCATACAAAAA
17072982 ATTATAATATTCATACAAAAA
1 ATTATAATATTCATACAAAAA
*
17073003 ATTTAAAATATTCATACAAAA
1 A-TTATAATATTCATACAAAA
17073024 TTCTAATCTA
Statistics
Matches: 130, Mismatches: 16, Indels: 37
0.71 0.09 0.20
Matches are distributed among these distances:
16 4 0.03
17 1 0.01
18 6 0.05
19 32 0.25
20 24 0.18
21 14 0.11
22 34 0.26
24 1 0.01
25 5 0.04
26 4 0.03
27 5 0.04
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (21 bp):
ATTATAATATTCATACAAAAA
Found at i:17072883 original size:41 final size:41
Alignment explanation
Indices: 17072838--17073023 Score: 161
Period size: 41 Copynumber: 4.5 Consensus size: 41
17072828 CTATAATATT
17072838 ATTACAATATTCATACAAAAAATTTATAATATTCATAC-AAA
1 ATTACAATATTCATACAAAAAA-TTATAATATTCATACAAAA
* * * *
17072879 ATTACAAAATTCATACAAAAAATTACT-A-ATCCAAAACTATAA
1 ATTACAATATTCATACAAAAAATTA-TAATATTC-ATAC-AAAA
* * * *
17072921 A-TACAA-ATTTAATTATAAAATAATTACAATATTCATAC-AAC
1 ATTACAATA-TTCA-TACAAAA-AATTATAATATTCATACAAAA
17072962 ATTACAATATTCATA-AAAAAATTATAATATTCATACAAAAA
1 ATTACAATATTCATACAAAAAATTATAATATTCATAC-AAAA
*
17073003 ATTTAAAATATTCATACAAAA
1 A-TTACAATATTCATACAAAA
17073024 TTCTAATCTA
Statistics
Matches: 115, Mismatches: 15, Indels: 28
0.73 0.09 0.18
Matches are distributed among these distances:
39 19 0.17
40 12 0.10
41 37 0.32
42 30 0.26
43 14 0.12
44 3 0.03
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (41 bp):
ATTACAATATTCATACAAAAAATTATAATATTCATACAAAA
Found at i:17073024 original size:83 final size:84
Alignment explanation
Indices: 17072843--17073024 Score: 189
Period size: 83 Copynumber: 2.2 Consensus size: 84
17072833 ATATTATTAC
*
17072843 AATATTCATACAAAA-AATTTATAATATTCATACAAAATTACAAAATTCATACAAAAAATTACTA
1 AATATTCATACAAAATAATTTACAATATTCATACAAAATTACAAAATTCATACAAAAAATTACTA
* *
17072907 ATCCAAAACTATAAATACA
66 ATCCAAAACAAAAAATACA
* * * *
17072926 AAT-TTAATTATAAAATAA-TTACAATATTCATACAACATTACAATATTCATA-AAAAAATTA-T
1 AATATTCA-TACAAAATAATTTACAATATTCATACAAAATTACAAAATTCATACAAAAAATTACT
* *
17072987 AATATTC-ATACAAAAAATTTA-A
65 -A-ATCCAAAACAAAAAA--TACA
17073009 AATATTCATACAAAAT
1 AATATTCATACAAAAT
17073025 TCTAATCTAA
Statistics
Matches: 81, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
81 1 0.01
82 20 0.25
83 53 0.65
84 7 0.09
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.32
Consensus pattern (84 bp):
AATATTCATACAAAATAATTTACAATATTCATACAAAATTACAAAATTCATACAAAAAATTACTA
ATCCAAAACAAAAAATACA
Found at i:17073025 original size:20 final size:20
Alignment explanation
Indices: 17072948--17073025 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
17072938 AAATAATTAC
* *
17072948 AATATTCATACAACA-TTAC
1 AATATTCATACAAAATTTAA
* * *
17072967 AATATTCATAAAAAAATTAT
1 AATATTCATACAAAATTTAA
17072987 AATATTCATACAAAAAATTTAA
1 AATATTCATAC--AAAATTTAA
17073009 AATATTCATACAAAATT
1 AATATTCATACAAAATT
17073026 CTAATCTAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
19 13 0.26
20 19 0.38
22 18 0.36
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (20 bp):
AATATTCATACAAAATTTAA
Found at i:17073202 original size:3 final size:3
Alignment explanation
Indices: 17073194--17073221 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
17073184 TTTATAAACT
17073194 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC T
17073222 CCTCTTCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:17079556 original size:25 final size:25
Alignment explanation
Indices: 17079528--17079579 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
17079518 ATTTATTTAA
*
17079528 ATATTTAAT-AAATATTATAATAATT
1 ATATTTAATAAAATA-TAAAATAATT
*
17079553 ATATTTTATAAAATATAAAATAATT
1 ATATTTAATAAAATATAAAATAATT
17079578 AT
1 AT
17079580 CAATCTTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 19 0.79
26 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
ATATTTAATAAAATATAAAATAATT
Found at i:17084751 original size:20 final size:20
Alignment explanation
Indices: 17084685--17084751 Score: 68
Period size: 20 Copynumber: 3.4 Consensus size: 20
17084675 ATTTATAACC
17084685 TATATTT-A-AATTTTGTAA
1 TATATTTCATAATTTTGTAA
*
17084703 GTATTATTTCATATATTTTGTTA
1 -TA-TATTTCATA-ATTTTGTAA
*
17084726 TA-ATTTCATAATTTTATAA
1 TATATTTCATAATTTTGTAA
17084745 TATATTT
1 TATATTT
17084752 GGTTTAATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
19 11 0.28
20 17 0.43
21 1 0.03
22 3 0.08
23 8 0.20
ACGTcount: A:0.34, C:0.03, G:0.04, T:0.58
Consensus pattern (20 bp):
TATATTTCATAATTTTGTAA
Found at i:17101344 original size:23 final size:23
Alignment explanation
Indices: 17101313--17101363 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
17101303 ACCTACTTTC
* *
17101313 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
*
17101336 TTACAGTAGTAATTTTTGGGATA
1 TTACAGTAGTAATTTTCGGGATA
17101359 TTACA
1 TTACA
17101364 ATACTTATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.22, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:17102666 original size:2 final size:2
Alignment explanation
Indices: 17102659--17102684 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
17102649 GGAAAATTGA
17102659 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
17102685 TTGAGTACGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17105623 original size:29 final size:27
Alignment explanation
Indices: 17105581--17105675 Score: 82
Period size: 27 Copynumber: 3.4 Consensus size: 27
17105571 GACTATAGTG
*
17105581 CTCACACAACCTGACAGTGATCAAGGTTA
1 CTCACACAAGCTGACAGT-ATCAA-GTTA
* * *
17105610 CTCACACAAGCTGACAGTATGAATTTG
1 CTCACACAAGCTGACAGTATCAAGTTA
* * * * *
17105637 CCCACACAAGCTGACATTATGAATTTG
1 CTCACACAAGCTGACAGTATCAAGTTA
*
17105664 CTCACATAAGCT
1 CTCACACAAGCT
17105676 AACATTGTAT
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
27 37 0.64
28 4 0.07
29 17 0.29
ACGTcount: A:0.34, C:0.26, G:0.16, T:0.24
Consensus pattern (27 bp):
CTCACACAAGCTGACAGTATCAAGTTA
Found at i:17105680 original size:27 final size:27
Alignment explanation
Indices: 17105610--17105681 Score: 108
Period size: 27 Copynumber: 2.7 Consensus size: 27
17105600 ATCAAGGTTA
*
17105610 CTCACACAAGCTGACAGTATGAATTTG
1 CTCACACAAGCTGACATTATGAATTTG
*
17105637 CCCACACAAGCTGACATTATGAATTTG
1 CTCACACAAGCTGACATTATGAATTTG
* *
17105664 CTCACATAAGCTAACATT
1 CTCACACAAGCTGACATT
17105682 GTATCGAGGT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 40 1.00
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.26
Consensus pattern (27 bp):
CTCACACAAGCTGACATTATGAATTTG
Found at i:17105817 original size:35 final size:35
Alignment explanation
Indices: 17105771--17105845 Score: 150
Period size: 35 Copynumber: 2.1 Consensus size: 35
17105761 TCATGAAAAT
17105771 CCCTAATCATTTTCATATTTGACCCTAATGGCATG
1 CCCTAATCATTTTCATATTTGACCCTAATGGCATG
17105806 CCCTAATCATTTTCATATTTGACCCTAATGGCATG
1 CCCTAATCATTTTCATATTTGACCCTAATGGCATG
17105841 CCCTA
1 CCCTA
17105846 TTTCACAACG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 40 1.00
ACGTcount: A:0.25, C:0.28, G:0.11, T:0.36
Consensus pattern (35 bp):
CCCTAATCATTTTCATATTTGACCCTAATGGCATG
Found at i:17108148 original size:23 final size:23
Alignment explanation
Indices: 17108122--17108194 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
17108112 ATAAGTGCCA
17108122 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
17108145 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
17108168 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
17108191 CACT
1 CACT
17108195 AATCAATAAC
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:17108443 original size:17 final size:18
Alignment explanation
Indices: 17108421--17108461 Score: 59
Period size: 18 Copynumber: 2.3 Consensus size: 18
17108411 TAATTTTCTT
17108421 TTCACAT-TC-AATATTAA
1 TTCACATATCAAATA-TAA
17108438 TTCACATATCAAATATAA
1 TTCACATATCAAATATAA
17108456 TTCACA
1 TTCACA
17108462 ATTTATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.32
18 11 0.50
19 4 0.18
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.37
Consensus pattern (18 bp):
TTCACATATCAAATATAA
Found at i:17113292 original size:43 final size:43
Alignment explanation
Indices: 17113231--17113317 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
17113221 CAACCATTTA
17113231 ACTATTCAAATTAATAAAATATTTATTTATATATTTTCATAAT
1 ACTATTCAAATTAATAAAATATTTATTTATATATTTTCATAAT
17113274 ACTATTCAAATTAATAAAATATTTATTTATATATTTTCATAAT
1 ACTATTCAAATTAATAAAATATTTATTTATATATTTTCATAAT
17113317 A
1 A
17113318 AGATATAAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (43 bp):
ACTATTCAAATTAATAAAATATTTATTTATATATTTTCATAAT
Found at i:17113318 original size:28 final size:28
Alignment explanation
Indices: 17113285--17113338 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
17113275 CTATTCAAAT
**
17113285 TAATAAAATATTTATTTATATATTTTCA
1 TAATAAAATATAAATTTATATATTTTCA
* *
17113313 TAATAAGATATAAATTTATTTATTTT
1 TAATAAAATATAAATTTATATATTTT
17113339 TATTATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (28 bp):
TAATAAAATATAAATTTATATATTTTCA
Found at i:17115057 original size:21 final size:20
Alignment explanation
Indices: 17115033--17115080 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
17115023 AAGTGGTAAC
*
17115033 GAGATTAATTATTGTAATGAT
1 GAGATTAA-TATTGCAATGAT
*
17115054 GAGACTGAATATTGCAATGAT
1 GAGA-TTAATATTGCAATGAT
*
17115075 GTGATT
1 GAGATT
17115081 TAAAATAAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 18 0.82
22 3 0.14
ACGTcount: A:0.35, C:0.04, G:0.23, T:0.38
Consensus pattern (20 bp):
GAGATTAATATTGCAATGAT
Found at i:17117481 original size:17 final size:17
Alignment explanation
Indices: 17117451--17117494 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 17
17117441 CATTTTGTAT
*
17117451 AATTTAACAAAAAA-TAA
1 AATTTAA-AAAAAACGAA
17117468 GAATTTAAAAAAAACGAA
1 -AATTTAAAAAAAACGAA
17117486 AATTTAAAA
1 AATTTAAAA
17117495 TGATTTTTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.68, C:0.05, G:0.05, T:0.23
Consensus pattern (17 bp):
AATTTAAAAAAAACGAA
Found at i:17130290 original size:17 final size:17
Alignment explanation
Indices: 17130261--17130293 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
17130251 AAATAGATAT
17130261 TCGATAAATTAATAATC
1 TCGATAAATTAATAATC
17130278 TCGATTAAA-TAATAAT
1 TCGA-TAAATTAATAAT
17130294 TTTTTCAGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.36
Consensus pattern (17 bp):
TCGATAAATTAATAATC
Found at i:17130440 original size:13 final size:13
Alignment explanation
Indices: 17130422--17130449 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
17130412 AATATATTGA
17130422 AAATTTTATATAC
1 AAATTTTATATAC
17130435 AAATTTTATATAC
1 AAATTTTATATAC
17130448 AA
1 AA
17130450 TACATAAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (13 bp):
AAATTTTATATAC
Found at i:17133376 original size:3 final size:3
Alignment explanation
Indices: 17133368--17133399 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
17133358 ATTACATCCA
17133368 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17133400 AACATGTGAT
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:17137734 original size:3 final size:3
Alignment explanation
Indices: 17137726--17137754 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
17137716 ATTACATCCA
17137726 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
17137755 CATGTGATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17149826 original size:11 final size:10
Alignment explanation
Indices: 17149810--17149854 Score: 54
Period size: 10 Copynumber: 4.4 Consensus size: 10
17149800 TTTAACTTTC
17149810 TTTATATATTT
1 TTTATA-ATTT
17149821 TTTATAATTT
1 TTTATAATTT
* *
17149831 TTTAAAAATT
1 TTTATAATTT
*
17149841 TTCATAATTT
1 TTTATAATTT
17149851 TTTA
1 TTTA
17149855 AAAATATAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
10 22 0.79
11 6 0.21
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.64
Consensus pattern (10 bp):
TTTATAATTT
Found at i:17149847 original size:20 final size:20
Alignment explanation
Indices: 17149819--17149859 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
17149809 CTTTATATAT
*
17149819 TTTTTATAATTTTTTAAAAA
1 TTTTCATAATTTTTTAAAAA
17149839 TTTTCATAATTTTTTAAAAA
1 TTTTCATAATTTTTTAAAAA
17149859 T
1 T
17149860 ATAAATTTTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (20 bp):
TTTTCATAATTTTTTAAAAA
Found at i:17149889 original size:20 final size:20
Alignment explanation
Indices: 17149864--17149930 Score: 86
Period size: 19 Copynumber: 3.4 Consensus size: 20
17149854 AAAAATATAA
17149864 ATTTTGAAATTTTTATAAAT-
1 ATTTTGAAATTTTTA-AAATG
*
17149884 ATTTTG-AATTTTAAAAATG
1 ATTTTGAAATTTTTAAAATG
17149903 ATTTT-AAATTTTTGAAAATG
1 ATTTTGAAATTTTT-AAAATG
17149923 ATTTTGAA
1 ATTTTGAA
17149931 TTTCTTTTAC
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
18 4 0.10
19 18 0.44
20 17 0.41
21 2 0.05
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (20 bp):
ATTTTGAAATTTTTAAAATG
Found at i:17149932 original size:20 final size:19
Alignment explanation
Indices: 17149864--17149933 Score: 88
Period size: 20 Copynumber: 3.6 Consensus size: 19
17149854 AAAAATATAA
17149864 ATTTTGAAATTTTTATAAAT-
1 ATTTTG-AATTTTTA-AAATG
*
17149884 ATTTTGAATTTTAAAAATG
1 ATTTTGAATTTTTAAAATG
*
17149903 ATTTTAAATTTTTGAAAATG
1 ATTTTGAATTTTT-AAAATG
17149923 ATTTTGAATTT
1 ATTTTGAATTT
17149934 CTTTTACCAA
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.09
19 18 0.41
20 22 0.50
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.53
Consensus pattern (19 bp):
ATTTTGAATTTTTAAAATG
Found at i:17152117 original size:33 final size:33
Alignment explanation
Indices: 17152075--17152142 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
17152065 CTCATTTCCA
17152075 TTGCATCCCATCTCCTCCAGGCTAATGTTTGAG
1 TTGCATCCCATCTCCTCCAGGCTAATGTTTGAG
17152108 TTGCATCCCATCTCCTCCAGGCTAATGTTTGAG
1 TTGCATCCCATCTCCTCCAGGCTAATGTTTGAG
17152141 TT
1 TT
17152143 TCACATGATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.18, C:0.29, G:0.18, T:0.35
Consensus pattern (33 bp):
TTGCATCCCATCTCCTCCAGGCTAATGTTTGAG
Found at i:17157186 original size:30 final size:30
Alignment explanation
Indices: 17157150--17157210 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
17157140 TCTCGTTTAC
*
17157150 ATAATAAATAAATTTACTTTTATGACTCAT
1 ATAATAAACAAATTTACTTTTATGACTCAT
*
17157180 ATAATAAACAAATTTACTTTTTTGACTCAT
1 ATAATAAACAAATTTACTTTTATGACTCAT
17157210 A
1 A
17157211 CTTTTACATA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (30 bp):
ATAATAAACAAATTTACTTTTATGACTCAT
Found at i:17158323 original size:10 final size:10
Alignment explanation
Indices: 17158308--17158353 Score: 67
Period size: 10 Copynumber: 4.6 Consensus size: 10
17158298 CAATTTATTT
17158308 TTTTCTTTTA
1 TTTTCTTTTA
17158318 TTTTCTTTTAA
1 TTTTCTTTT-A
*
17158329 CTTTCTTTTA
1 TTTTCTTTTA
17158339 TTTTC-TTTA
1 TTTTCTTTTA
17158348 TTTTCT
1 TTTTCT
17158354 ATTCTCTTCC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
9 9 0.28
10 14 0.44
11 9 0.28
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTTCTTTTA
Found at i:17160939 original size:36 final size:36
Alignment explanation
Indices: 17160899--17161016 Score: 200
Period size: 36 Copynumber: 3.3 Consensus size: 36
17160889 ACTGCCACCA
17160899 CCAGCTCCACTTATTCCAAACCCATTTCAGCCTCCT
1 CCAGCTCCACTTATTCCAAACCCATTTCAGCCTCCT
*
17160935 CCAGCTCCACTTATTCCAAACCCCTTTCAGCCTCCT
1 CCAGCTCCACTTATTCCAAACCCATTTCAGCCTCCT
* *
17160971 CCAGCTCCTCTTATTCCAAACCCTTTTCAGCCTCCT
1 CCAGCTCCACTTATTCCAAACCCATTTCAGCCTCCT
*
17161007 CCAGCACCAC
1 CCAGCTCCAC
17161017 CGGCTCCACT
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 77 1.00
ACGTcount: A:0.20, C:0.47, G:0.06, T:0.27
Consensus pattern (36 bp):
CCAGCTCCACTTATTCCAAACCCATTTCAGCCTCCT
Found at i:17161038 original size:45 final size:45
Alignment explanation
Indices: 17160971--17161110 Score: 181
Period size: 45 Copynumber: 3.1 Consensus size: 45
17160961 TCAGCCTCCT
* *
17160971 CCAGCTCCTCTTATTCCAAACCCTTTTCAGCCTCCTCCAGCACCA
1 CCAGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCAGCACCA
* * *
17161016 CCGGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCCGCACCT
1 CCAGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCAGCACCA
* * * * * *
17161061 CCAGCTCCATTTATCCCGAACCCCTTCCAGCCTCCTCCGGCACCT
1 CCAGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCAGCACCA
17161106 CCAGC
1 CCAGC
17161111 ACCTCCAGCA
Statistics
Matches: 84, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 84 1.00
ACGTcount: A:0.17, C:0.50, G:0.09, T:0.24
Consensus pattern (45 bp):
CCAGCTCCACTTATTCCAAACCCTTTCCAGCCTCCTCCAGCACCA
Found at i:17170080 original size:13 final size:13
Alignment explanation
Indices: 17170062--17170103 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
17170052 ATATGACGTG
17170062 ATTTTTTTGGTTC
1 ATTTTTTTGGTTC
* *
17170075 ATTTTTTT-ATGC
1 ATTTTTTTGGTTC
17170087 ACTTTTTTTGGTTC
1 A-TTTTTTTGGTTC
17170101 ATT
1 ATT
17170104 AATGTGACGT
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
12 3 0.13
13 17 0.74
14 3 0.13
ACGTcount: A:0.12, C:0.10, G:0.12, T:0.67
Consensus pattern (13 bp):
ATTTTTTTGGTTC
Found at i:17174824 original size:12 final size:12
Alignment explanation
Indices: 17174809--17174833 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
17174799 CAAAAGATGT
17174809 GAAAAAAAAAAA
1 GAAAAAAAAAAA
17174821 GAAAAAAAAAAA
1 GAAAAAAAAAAA
17174833 G
1 G
17174834 CTTTGTGGTT
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:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (12 bp):
GAAAAAAAAAAA
Found at i:17181686 original size:25 final size:27
Alignment explanation
Indices: 17181644--17181713 Score: 83
Period size: 25 Copynumber: 2.7 Consensus size: 27
17181634 AACTAATAAT
*
17181644 AATAATAATAATAATAATAATG-GTAAA
1 AATAA-AACAATAATAATAATGAGTAAA
*
17181671 AATAAAA-AATAATAAT-ATGAGTAAT
1 AATAAAACAATAATAATAATGAGTAAA
*
17181696 AATAAAACAATAGTAATA
1 AATAAAACAATAATAATA
17181714 GGGGTAATAA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
24 3 0.08
25 20 0.53
26 10 0.26
27 5 0.13
ACGTcount: A:0.64, C:0.01, G:0.07, T:0.27
Consensus pattern (27 bp):
AATAAAACAATAATAATAATGAGTAAA
Found at i:17181727 original size:3 final size:3
Alignment explanation
Indices: 17181637--17181713 Score: 63
Period size: 3 Copynumber: 26.7 Consensus size: 3
17181627 AATGAGTAAC
** *
17181637 TAA TAA TAA TAA TAA TAA TAA TAA TAA TGG TAA AAA TAA -AA -AA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
17181683 TAA T-A TGAG TAA TAA TAA -AA CAA TAG TAA TA
1 TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA
17181714 GGGGTAATAA
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
2 8 0.14
3 50 0.85
4 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.06, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:17183518 original size:99 final size:99
Alignment explanation
Indices: 17183264--17183970 Score: 832
Period size: 99 Copynumber: 7.1 Consensus size: 99
17183254 CTTCTGTCTG
* *
17183264 TTTAATTGCAATGTCGGGGAAGCAAGATT-GACTGTCGTAGCTTCAATCTGTTCCAATGCACCGC
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCG-CTGTTGTAGCTTCAATCTGTTCCACTGCACCGC
* * * *
17183328 TAGGAAAGTAAGATTCGCTGTTGTGGCTTCAATATT
65 CAGGAAAGTAAGATTCACCGTTGTGGCTTCAAT-CT
** * * * * *
17183364 TTTAATTGCAATGTCAAGG-AGATAAGATTCGTTGTTATAACTTTAATCTGTTCCACTGCACCGC
1 TTTAATTGCAATGTCGGGGAAG-CAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGC
* *
17183428 CAGGGAAGTAAGATTCACCGTTGTGGCCTCAATCT
65 CAGGAAAGTAAGATTCACCGTTGTGGCTTCAATCT
*
17183463 TTTAATTGTAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCG-C
* *
17183528 CA-AAAAGTAAGATTTACCGTTGTGGCCTT-AATCT
65 CAGGAAAGTAAGATTCACCGTTGTGG-CTTCAATCT
* * * *
17183562 TTTAATTACAATATCGGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCC
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
* * * *
17183627 TGGAAAGTAAGATTCGCCGTTGTGGCCTCAGTCT
66 AGGAAAGTAAGATTCACCGTTGTGGCTTCAATCT
* * *
17183661 TTTAATTGCAATATCGGGAAAGCAAGATTCGCTGTTGTAACTTCAATCTGTTCCACTGCACCGCC
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
*
17183726 A-GAGAAGTAAGATTCACCGTTGTGGCTTAAATCT
66 AGGA-AAGTAAGATTCACCGTTGTGGCTTCAATCT
* * * * * *
17183760 ATTTAACTACAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACCAC
1 -TTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGC
** * *
17183825 TTGGGAAGTAAGATTCGA-CGTTGTGGCTTTAATCT
65 CAGGAAAGTAAGATTC-ACCGTTGTGGCTTCAATCT
* * ** * * *
17183860 TTTAATTACACTGTCGGGGAAATAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCT
1 TTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
* ***
17183925 TGGAAAGTAAGATTTGTCGTTGTGGCTTCAATCTT
66 AGGAAAGTAAGATTCACCGTTGTGGCTTCAATC-T
17183960 TTTAATTGCAA
1 TTTAATTGCAA
17183971 ACTATGGTTT
Statistics
Matches: 521, Mismatches: 73, Indels: 26
0.84 0.12 0.04
Matches are distributed among these distances:
98 6 0.01
99 335 0.64
100 177 0.34
101 3 0.01
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (99 bp):
TTTAATTGCAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
AGGAAAGTAAGATTCACCGTTGTGGCTTCAATCT
Found at i:17183800 original size:298 final size:297
Alignment explanation
Indices: 17183264--17183970 Score: 970
Period size: 298 Copynumber: 2.4 Consensus size: 297
17183254 CTTCTGTCTG
* * * *
17183264 TTTAATTGCAATGTCGGGGAAGCAAGATTGACTGTCGTAGCTTCAATCTGTTCCAATGCACCG-C
1 TTTAATTACAATGTCGGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
* * * * *
17183328 TAGGAAAGTAAGATTCGCTGTTGTGGCTTCAATATTTTTAATTGCAATGTCAAGGAGATAAGATT
66 T-GGAAAGTAAGATTCGCCGTTGTGGCTTCAAT-CTTTTAATTGCAATATCAAGGAAACAAGATT
* * * *
17183393 CGTTGTTATAACTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTCACCGTTGTGGCCTC
129 CGCTGTTATAACTTCAATCTGTTCCACTGCACCGCCAGAGAAGTAAGATTCACCGTTGTGGCCTA
* ** * * *
17183458 AATCTTTTAATTGTAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCA
194 AATCTTTTAACTACAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACA
* *
17183523 CCGCCCAAAAAGTAAGATT-TACCGTTGTGGCCTTAATCT
259 CCACCCAAAAAGTAAGATTCGA-CGTTGTGGCCTTAATCT
* *
17183562 TTTAATTACAATATCGGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCC
1 TTTAATTACAATGTCGGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
* * *
17183627 TGGAAAGTAAGATTCGCCGTTGTGGCCTCAGTCTTTTAATTGCAATATC-GGGAAAGCAAGATTC
66 TGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAATTGCAATATCAAGGAAA-CAAGATTC
* *
17183691 GCTGTTGTAACTTCAATCTGTTCCACTGCACCGCCAGAGAAGTAAGATTCACCGTTGTGGCTTAA
130 GCTGTTATAACTTCAATCTGTTCCACTGCACCGCCAGAGAAGTAAGATTCACCGTTGTGGCCTAA
17183756 ATCTATTTAACTACAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACA
195 ATCT-TTTAACTACAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACA
***** *
17183821 CCACTTGGGAAGTAAGATTCGACGTTGTGGCTTTAATCT
259 CCACCCAAAAAGTAAGATTCGACGTTGTGGCCTTAATCT
* ** * *
17183860 TTTAATTACACTGTCGGGGAAATAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGCT
1 TTTAATTACAATGTCGGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
* *
17183925 TGGAAAGTAAGATTTGTCGTTGTGGCTTCAATCTTTTTAATTGCAA
66 TGGAAAGTAAGATTCGCCGTTGTGGCTTCAATC-TTTTAATTGCAA
17183971 ACTATGGTTT
Statistics
Matches: 359, Mismatches: 45, Indels: 9
0.87 0.11 0.02
Matches are distributed among these distances:
296 4 0.01
297 85 0.24
298 255 0.71
299 15 0.04
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (297 bp):
TTTAATTACAATGTCGGGGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
TGGAAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAATTGCAATATCAAGGAAACAAGATTCG
CTGTTATAACTTCAATCTGTTCCACTGCACCGCCAGAGAAGTAAGATTCACCGTTGTGGCCTAAA
TCTTTTAACTACAATGTCGGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACACC
ACCCAAAAAGTAAGATTCGACGTTGTGGCCTTAATCT
Found at i:17183864 original size:199 final size:199
Alignment explanation
Indices: 17183264--17183966 Score: 873
Period size: 199 Copynumber: 3.5 Consensus size: 199
17183254 CTTCTGTCTG
* * *
17183264 TTTAATTGCAATGTCGGGGAAGCAAGATT-GACTGTCGTAGCTTCAATCTGTTCCAATGCACCGC
1 TTTAATTGCAATGTCGGGAAAGCAAGATTCG-CTGTTGTAGCTTCAATCTGTTCCACTGCACCGC
* * * * * ** *
17183328 TAGGAAAGTAAGATTCGCTGTTGTGGCTTCAATATTTTTAATTGCAATGTCAAGG-AGATAAGAT
65 CAGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGGGAAG-CAAGAT
** * * * * *
17183392 TCGTTGTTATAACTTTAATCTGTTCCACTGCACCGCCAGGGAAGTAAGATTC-ACCGTTGTGGCC
129 TCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCCTGGGAAGTAAGATTCGA-CGTTGTGGCC
17183456 TCAATCT
193 TCAATCT
* *
17183463 TTTAATTGTAATGTCGGGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
1 TTTAATTGCAATGTCGGGAAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCG-C
* * *
17183528 CA-AAAAGTAAGATTTACCGTTGTGGCCTT-AATC-TTTTAATTACAATATCGGGGAAGCAAGAT
65 CAGGAAAGTAAGATTCACCGTTGTGG-CTTCAATCTTTTTAATTACAATGTCGGGGAAGCAAGAT
* *
17183590 TCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCCTGGAAAGTAAGATTCGCCGTTGTGGCCT
129 TCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCCTGGGAAGTAAGATTCGACGTTGTGGCCT
*
17183655 CAGTCT
194 CAATCT
* *
17183661 TTTAATTGCAATATCGGGAAAGCAAGATTCGCTGTTGTAACTTCAATCTGTTCCACTGCACCGCC
1 TTTAATTGCAATGTCGGGAAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
* * *
17183726 A-GAGAAGTAAGATTCACCGTTGTGGCTTAAATCTATTTAACTACAATGTCGGGGAAGCAAGATT
66 AGGA-AAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGGGAAGCAAGATT
* * * * *
17183790 CACCGTTGTAGCTTCAATCTGTTCCACTACACCACTTGGGAAGTAAGATTCGACGTTGTGGCTTT
130 CACTGTTGTAGCTTCAATCTGTTCCACTACACCGCCTGGGAAGTAAGATTCGACGTTGTGGCCTC
17183855 AATCT
195 AATCT
* * * * *
17183860 TTTAATTACACTGTCGGGGAAA-TAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTGCACCGC
1 TTTAATTGCAATGTC-GGGAAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGC
** ***
17183924 TTGGAAAGTAAGATTTGTCGTTGTGGCTTCAATCTTTTTAATT
65 CAGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATT
17183967 GCAAACTATG
Statistics
Matches: 438, Mismatches: 56, Indels: 20
0.85 0.11 0.04
Matches are distributed among these distances:
197 7 0.02
198 164 0.37
199 253 0.58
200 14 0.03
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (199 bp):
TTTAATTGCAATGTCGGGAAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCC
AGGAAAGTAAGATTCACCGTTGTGGCTTCAATCTTTTTAATTACAATGTCGGGGAAGCAAGATTC
ACTGTTGTAGCTTCAATCTGTTCCACTACACCGCCTGGGAAGTAAGATTCGACGTTGTGGCCTCA
ATCT
Found at i:17183889 original size:49 final size:50
Alignment explanation
Indices: 17183430--17183908 Score: 270
Period size: 50 Copynumber: 9.7 Consensus size: 50
17183420 TGCACCGCCA
* * * ** *
17183430 GGGAAGTAAGATTCACCGTTGTGGCCTCAATCT-TTTAATTGTAATGTCG
1 GGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTTAACTACACTGTCG
* * * * ** * * * *
17183479 GGGAAGCAAGATTCGCTGTTGTAGCTTCAATCTGTTCCACTGCACCGCCC
1 GGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTTAACTACACTGTCG
*** * * * * *
17183529 AAAAAGTAAGATTTACCGTTGTGGCCTT-AATCT-TTTAATTACAATATCG
1 GGGAAGTAAGATTCACCGTTGTAG-CTTCAATCTATTTAACTACACTGTCG
* * * ** * * *
17183578 GGGAAGCAAGATTCACTGTTGTAGCTTCAATCTGTTCCACTACACCGCCT
1 GGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTTAACTACACTGTCG
* * * * * * * * *
17183628 GGAAAGTAAGATTCGCCGTTGTGGCCTCAGTCT-TTTAATTGCAATATCG
1 GGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTTAACTACACTGTCG
* * * * * * ** * * * *
17183677 GGAAAGCAAGATTCGCTGTTGTAACTTCAATCTGTTCCACTGCACCGCCA
1 GGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTTAACTACACTGTCG
* * * *
17183727 GAGAAGTAAGATTCACCGTTGTGGCTTAAATCTATTTAACTACAATGTCG
1 GGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTTAACTACACTGTCG
* * ** ** *
17183777 GGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCACTACAC-CACTT
1 GGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTTAACTACACTGTC-G
* * *
17183827 GGGAAGTAAGATTCGA-CGTTGTGGCTTTAATCT-TTTAATTACACTGTCG
1 GGGAAGTAAGATTC-ACCGTTGTAGCTTCAATCTATTTAACTACACTGTCG
*
17183876 GGGAAATAAGATTCACCGTTGTAGCTTCAATCT
1 GGGAAGTAAGATTCACCGTTGTAGCTTCAATCT
17183909 GTTCCACTGC
Statistics
Matches: 307, Mismatches: 114, Indels: 18
0.70 0.26 0.04
Matches are distributed among these distances:
48 4 0.01
49 128 0.42
50 171 0.56
51 4 0.01
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (50 bp):
GGGAAGTAAGATTCACCGTTGTAGCTTCAATCTATTTAACTACACTGTCG
Found at i:17196237 original size:12 final size:13
Alignment explanation
Indices: 17196212--17196240 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
17196202 ACAAATCCAT
17196212 AATATACAAAACA
1 AATATACAAAACA
17196225 AATATAC-AAACA
1 AATATACAAAACA
17196237 AATA
1 AATA
17196241 ATATTAAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.69, C:0.14, G:0.00, T:0.17
Consensus pattern (13 bp):
AATATACAAAACA
Found at i:17196490 original size:26 final size:27
Alignment explanation
Indices: 17196436--17196517 Score: 87
Period size: 26 Copynumber: 3.0 Consensus size: 27
17196426 AAAGGGTGCA
* *
17196436 AATGAGTAACTAATAATGATAATAATAAT
1 AATGAGTAA-AAATAA-AATAATAATAAT
17196465 AATG-GTAAAAATAAAATAATAATAAT
1 AATGAGTAAAAATAAAATAATAATAAT
* * *
17196491 -ATGAGTAATAATAAAACAATAGTAAT
1 AATGAGTAAAAATAAAATAATAATAAT
17196517 A
1 A
17196518 GGTGTAATAA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
25 3 0.07
26 30 0.65
27 5 0.11
28 4 0.09
29 4 0.09
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.28
Consensus pattern (27 bp):
AATGAGTAAAAATAAAATAATAATAAT
Found at i:17196524 original size:26 final size:26
Alignment explanation
Indices: 17196456--17196530 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
17196446 TAATAATGAT
* * *
17196456 AATAATAATAATG-GTAAAAATAAAAT
1 AATAATAAT-AGGAGTAATAATAAAAC
*
17196482 AATAATAATATGAGTAATAATAAAAC
1 AATAATAATAGGAGTAATAATAAAAC
* *
17196508 AATAGTAATAGGTGTAATAATAA
1 AATAATAATAGGAGTAATAATAA
17196531 TGATTAAAGT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
25 3 0.07
26 40 0.93
ACGTcount: A:0.60, C:0.01, G:0.11, T:0.28
Consensus pattern (26 bp):
AATAATAATAGGAGTAATAATAAAAC
Found at i:17196531 original size:3 final size:3
Alignment explanation
Indices: 17196446--17196517 Score: 51
Period size: 3 Copynumber: 24.7 Consensus size: 3
17196436 AATGAGTAAC
* ** *
17196446 TAA TAA TGA TAA TAA TAA TAA TGG TAA AAA TAA -AA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * *
17196492 TGAG TAA TAA TAA -AA CAA TAG TAA TA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TA
17196518 GGTGTAATAA
Statistics
Matches: 52, Mismatches: 13, Indels: 8
0.71 0.18 0.11
Matches are distributed among these distances:
2 6 0.12
3 45 0.87
4 1 0.02
ACGTcount: A:0.61, C:0.01, G:0.08, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:17198351 original size:18 final size:18
Alignment explanation
Indices: 17198330--17198364 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
17198320 AAGAAAAAAT
*
17198330 AAATATGTATATATATAA
1 AAATATGTACATATATAA
17198348 AAATATGTACATATATA
1 AAATATGTACATATATA
17198365 TATAGGTGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.03, G:0.06, T:0.37
Consensus pattern (18 bp):
AAATATGTACATATATAA
Found at i:17198811 original size:3 final size:3
Alignment explanation
Indices: 17198800--17198876 Score: 84
Period size: 3 Copynumber: 25.3 Consensus size: 3
17198790 CAATAATACC
* * *
17198800 AAT ACT AAT AAT AGT AA- AGAT AAT AGT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT
* *
17198845 AAT AAT AAT AAT AAT AAT GAT AGAT GAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT A
17198877 CATTAAATTA
Statistics
Matches: 61, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
2 1 0.02
3 57 0.93
4 3 0.05
ACGTcount: A:0.60, C:0.01, G:0.08, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:17199807 original size:18 final size:18
Alignment explanation
Indices: 17199784--17199822 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
17199774 AGGGCTAGGG
* *
17199784 TTTTTTTTCTTTTGTTGT
1 TTTTTTTTCTGTTATTGT
17199802 TTTTTTTTCTGTTATTGT
1 TTTTTTTTCTGTTATTGT
17199820 TTT
1 TTT
17199823 CTGATTTGGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.03, C:0.05, G:0.10, T:0.82
Consensus pattern (18 bp):
TTTTTTTTCTGTTATTGT
Found at i:17203660 original size:16 final size:16
Alignment explanation
Indices: 17203629--17203660 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
17203619 ACTGATTTAC
*
17203629 GAAAAAGGAGAAAAAA
1 GAAAAAGGAAAAAAAA
17203645 GAAAAAGGAAAAAAAA
1 GAAAAAGGAAAAAAAA
17203661 ATTTAGGGGT
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:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (16 bp):
GAAAAAGGAAAAAAAA
Done.