Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, whole genome shotgun sequence
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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 50 of 109
Found at i:9480264 original size:34 final size:34
Alignment explanation
Indices: 9480221--9480286 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
9480211 CTTTAAAATT
*
9480221 TTTAGATTTATAAATTCAGAAGC-TTGTAAAAGCC
1 TTTAAATTTATAAATTCAGAAGCATT-TAAAAGCC
*
9480255 TTTAAATTTATAACTTCAGAAGCATTTAAAAG
1 TTTAAATTTATAAATTCAGAAGCATTTAAAAG
9480287 TTTTTTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 27 0.93
35 2 0.07
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (34 bp):
TTTAAATTTATAAATTCAGAAGCATTTAAAAGCC
Found at i:9480533 original size:17 final size:17
Alignment explanation
Indices: 9480513--9480545 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
9480503 TAAAATTTTC
9480513 TAAA-TATAAATATTTAA
1 TAAATTATAAAT-TTTAA
9480530 TAAATTATAAATTTTA
1 TAAATTATAAATTTTA
9480546 TGGATATACG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAATTATAAATTTTAA
Found at i:9487695 original size:13 final size:14
Alignment explanation
Indices: 9487664--9487693 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
9487654 AGAATATCCT
9487664 AAAGGAAAAGGAAA
1 AAAGGAAAAGGAAA
*
9487678 AAAGGAAAATGAAA
1 AAAGGAAAAGGAAA
9487692 AA
1 AA
9487694 GGCAATCCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.03
Consensus pattern (14 bp):
AAAGGAAAAGGAAA
Found at i:9488464 original size:2 final size:2
Alignment explanation
Indices: 9488457--9488485 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9488447 TATCATCCTC
9488457 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 T
9488486 CTTAATTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9495306 original size:18 final size:17
Alignment explanation
Indices: 9495283--9495338 Score: 73
Period size: 18 Copynumber: 3.4 Consensus size: 17
9495273 ATTATAAATT
9495283 TATTAATTAATATTATTA
1 TATTAATTAATA-TATTA
9495301 TATTAATTAATATATT-
1 TATTAATTAATATATTA
9495317 TA-TAATTTAA-ATATTA
1 TATTAA-TTAATATATTA
9495333 TATTAA
1 TATTAA
9495339 AAATTTTAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
15 8 0.23
16 8 0.23
17 7 0.20
18 12 0.34
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TATTAATTAATATATTA
Found at i:9495318 original size:34 final size:31
Alignment explanation
Indices: 9495228--9495338 Score: 88
Period size: 34 Copynumber: 3.6 Consensus size: 31
9495218 ATAATTAAAT
* * * *
9495228 ATTTAATATAATATATAAATTAAAAAATTA-A
1 ATTTAA-ATATTATATTAATTATAAATTTATA
*
9495259 ATTTAAATACT-TA--AATTATAAATTTATTA
1 ATTTAAATATTATATTAATTATAAATTTA-TA
*
9495288 A-TTAATATTATTATATTAATTAATATATTTATA
1 ATTTAA-A-TATTATATTAATT-ATAAATTTATA
9495321 ATTTAAATATTATATTAA
1 ATTTAAATATTATATTAA
9495339 AAATTTTAAA
Statistics
Matches: 66, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
27 11 0.17
28 4 0.06
29 5 0.08
30 7 0.11
31 8 0.12
32 11 0.17
33 8 0.12
34 12 0.18
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (31 bp):
ATTTAAATATTATATTAATTATAAATTTATA
Found at i:9495344 original size:27 final size:27
Alignment explanation
Indices: 9495237--9495344 Score: 76
Period size: 27 Copynumber: 3.7 Consensus size: 27
9495227 TATTTAATAT
*
9495237 AATATATAAATTAAAAAATTA-AATTTA
1 AATAT-TAAATTAAAAATTTATAATTTA
*
9495264 AATACTTAAATTATAAATTTATTAA-TTA
1 AATA-TTAAATTAAAAATTTA-TAATTTA
*
9495292 ATATTATTATATTAATTAATATATTTATAATTTA
1 A-A-TA-T-TA--AATTAA-AAATTTATAATTTA
*
9495326 AATATTATATTAAAAATTT
1 AATATTAAATTAAAAATTT
9495345 TAAAAATTCA
Statistics
Matches: 64, Mismatches: 7, Indels: 20
0.70 0.08 0.22
Matches are distributed among these distances:
27 22 0.34
28 10 0.16
29 3 0.05
30 5 0.08
31 3 0.05
32 2 0.03
33 9 0.14
34 10 0.16
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (27 bp):
AATATTAAATTAAAAATTTATAATTTA
Found at i:9496448 original size:2 final size:2
Alignment explanation
Indices: 9496441--9496467 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9496431 ATTTGTAACC
9496441 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
9496468 GAAGCGTGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:9498840 original size:3 final size:3
Alignment explanation
Indices: 9498834--9498858 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
9498824 TATTATTTTT
9498834 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
9498859 TTGGTGATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:9503881 original size:32 final size:32
Alignment explanation
Indices: 9503840--9503906 Score: 134
Period size: 32 Copynumber: 2.1 Consensus size: 32
9503830 GCAAATGGAC
9503840 GGTCCCGGATTTGAAAATGAAGGATTATGTTG
1 GGTCCCGGATTTGAAAATGAAGGATTATGTTG
9503872 GGTCCCGGATTTGAAAATGAAGGATTATGTTG
1 GGTCCCGGATTTGAAAATGAAGGATTATGTTG
9503904 GGT
1 GGT
9503907 TCGTTGATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.27, C:0.09, G:0.33, T:0.31
Consensus pattern (32 bp):
GGTCCCGGATTTGAAAATGAAGGATTATGTTG
Found at i:9507279 original size:2 final size:2
Alignment explanation
Indices: 9507272--9507296 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
9507262 AGCTTAAATT
9507272 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 T
9507297 GTATGTATGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9508417 original size:42 final size:45
Alignment explanation
Indices: 9508370--9508470 Score: 118
Period size: 46 Copynumber: 2.3 Consensus size: 45
9508360 CAGAAAGCAT
* * *
9508370 AGATTTATTAC-AAA-GCATATTATCTACAAGGAGCTCACAT-TG
1 AGATTTAGTACTAAATGCATATTATCTACAAGCAGCTCACATATA
*
9508412 AGATTTAGTACTGTAAATGCATATTATCTACAAGCAGCTCGCATATA
1 AGATTTAGTAC--TAAATGCATATTATCTACAAGCAGCTCACATATA
*
9508459 AGATTTACTACT
1 AGATTTAGTACT
9508471 GTATTCAACA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
42 10 0.20
45 4 0.08
46 24 0.49
47 11 0.22
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.33
Consensus pattern (45 bp):
AGATTTAGTACTAAATGCATATTATCTACAAGCAGCTCACATATA
Found at i:9508436 original size:46 final size:47
Alignment explanation
Indices: 9508384--9508473 Score: 137
Period size: 46 Copynumber: 1.9 Consensus size: 47
9508374 TTATTACAAA
* * *
9508384 GCATATTATCTACAAGGAGCTCACAT-TGAGATTTAGTACTGTAAAT
1 GCATATTATCTACAAGCAGCTCACATATAAGATTTACTACTGTAAAT
*
9508430 GCATATTATCTACAAGCAGCTCGCATATAAGATTTACTACTGTA
1 GCATATTATCTACAAGCAGCTCACATATAAGATTTACTACTGTA
9508474 TTCAACAGCA
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
46 24 0.62
47 15 0.38
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (47 bp):
GCATATTATCTACAAGCAGCTCACATATAAGATTTACTACTGTAAAT
Found at i:9508790 original size:3 final size:3
Alignment explanation
Indices: 9508782--9508808 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
9508772 GAATCACAAA
9508782 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
9508809 GAAAATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:9518134 original size:1 final size:1
Alignment explanation
Indices: 9518128--9518156 Score: 58
Period size: 1 Copynumber: 29.0 Consensus size: 1
9518118 AGCTTTTAAG
9518128 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTT
9518157 AAGGAATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:9519361 original size:163 final size:163
Alignment explanation
Indices: 9519089--9519416 Score: 593
Period size: 163 Copynumber: 2.0 Consensus size: 163
9519079 TCCAGTTAGG
9519089 TTGATCTGACAGTATTAAATGAAGAGAGAAATTGTTTGAGCAGAAAAGTTTAAAGTAAAAAGATG
1 TTGATCTGACAGTATTAAATGAAGAGAGAAATTGTTTGAGCAGAAAAGTTTAAAGTAAAAAGATG
* * *
9519154 AAAAGAAGTCTACTTACCCATGCTCTGACATGTGGTGTAGAATGTGTCATCCATCTGGTCTACAA
66 AAAAAAAGTCTACTTACCCATGCTCTGACACGTGGTGCAGAATGTGTCATCCATCTGGTCTACAA
9519219 CGTGTCTATATAAAAGGCTTGTAAGGTTTCAGC
131 CGTGTCTATATAAAAGGCTTGTAAGGTTTCAGC
9519252 TTGATCTGACAGTATTAAATGAAGAGAGAAATTGTTTGAGCAGAAAAGTTTAAAGTAAAAAGATG
1 TTGATCTGACAGTATTAAATGAAGAGAGAAATTGTTTGAGCAGAAAAGTTTAAAGTAAAAAGATG
** *
9519317 AAAAAAAGTCTACTTACCCATGCTCTGACACGTGGTGCAGAATGTGTTGTCCATCTGGTTTACAA
66 AAAAAAAGTCTACTTACCCATGCTCTGACACGTGGTGCAGAATGTGTCATCCATCTGGTCTACAA
*
9519382 CGTGTCTATATAAAAGGCTTGTAAGGTTTTAGC
131 CGTGTCTATATAAAAGGCTTGTAAGGTTTCAGC
9519415 TT
1 TT
9519417 TTCATCTTTT
Statistics
Matches: 158, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
163 158 1.00
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (163 bp):
TTGATCTGACAGTATTAAATGAAGAGAGAAATTGTTTGAGCAGAAAAGTTTAAAGTAAAAAGATG
AAAAAAAGTCTACTTACCCATGCTCTGACACGTGGTGCAGAATGTGTCATCCATCTGGTCTACAA
CGTGTCTATATAAAAGGCTTGTAAGGTTTCAGC
Found at i:9533112 original size:18 final size:18
Alignment explanation
Indices: 9533065--9533113 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
9533055 ATGAATAATG
*
9533065 AATAAATTATTACTAAACA
1 AATAAATTA-TAATAAACA
*
9533084 AATTTAA-TATAATAAACA
1 AA-TAAATTATAATAAACA
9533102 AATAAATTATAA
1 AATAAATTATAA
9533114 ATGAATATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 3 0.12
18 15 0.60
19 4 0.16
20 3 0.12
ACGTcount: A:0.61, C:0.06, G:0.00, T:0.33
Consensus pattern (18 bp):
AATAAATTATAATAAACA
Found at i:9541845 original size:2 final size:2
Alignment explanation
Indices: 9541838--9541867 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9541828 AGCCAAATCT
9541838 TA TA TA TA TA TA TA TA TA TA T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
9541868 GAAGTTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:9543377 original size:27 final size:27
Alignment explanation
Indices: 9543324--9543377 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
9543314 AGGGAGGGAG
* *
9543324 AGAGGAAAGTCATGAAATTGAAGGAGA
1 AGAGGAAAGTCATGAAATTAAAAGAGA
* * *
9543351 AGAGGAGAGTCGTGAGATTAAAAGAGA
1 AGAGGAAAGTCATGAAATTAAAAGAGA
9543378 CAGGATAGCG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.46, C:0.04, G:0.35, T:0.15
Consensus pattern (27 bp):
AGAGGAAAGTCATGAAATTAAAAGAGA
Found at i:9543760 original size:2 final size:2
Alignment explanation
Indices: 9543753--9543781 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
9543743 TAGGCCATGC
9543753 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 T
9543782 CTCTAAAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9546453 original size:12 final size:13
Alignment explanation
Indices: 9546429--9546466 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
9546419 ATAAAAAATT
*
9546429 ATTATAATTAAAA
1 ATTATATTTAAAA
9546442 ATT-TATTTAAAA
1 ATTATATTTAAAA
*
9546454 ATTATATATAAAA
1 ATTATATTTAAAA
9546467 TATAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 11 0.50
13 11 0.50
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (13 bp):
ATTATATTTAAAA
Found at i:9547502 original size:2 final size:2
Alignment explanation
Indices: 9547495--9547527 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
9547485 CGTCCAAAAC
9547495 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9547528 AAAGAAAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:9552936 original size:2 final size:2
Alignment explanation
Indices: 9552931--9552956 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
9552921 TTTTTTTTCC
9552931 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
9552957 TTAGGGTGAA
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:9554001 original size:16 final size:16
Alignment explanation
Indices: 9553980--9554015 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
9553970 TCTCTCTCTC
*
9553980 TATACATATATATATA
1 TATACATAAATATATA
9553996 TATACATAAATATATA
1 TATACATAAATATATA
9554012 TATA
1 TATA
9554016 TAGGAATTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (16 bp):
TATACATAAATATATA
Found at i:9566920 original size:11 final size:11
Alignment explanation
Indices: 9566904--9566949 Score: 56
Period size: 11 Copynumber: 3.9 Consensus size: 11
9566894 TTATATAAAA
9566904 AATTATTTTTT
1 AATTATTTTTT
9566915 AATTATTTTTT
1 AATTATTTTTT
*
9566926 AATTTTTTATTT
1 AATTATTT-TTT
9566938 ATATATATTTTT
1 A-AT-TATTTTT
9566950 ATATAATGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 18 0.60
12 4 0.13
13 4 0.13
14 4 0.13
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
AATTATTTTTT
Found at i:9566950 original size:16 final size:16
Alignment explanation
Indices: 9566929--9566980 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
9566919 ATTTTTTAAT
*
9566929 TTTTTATTTATATATA
1 TTTTTATATATATATA
9566945 TTTTTATATA-ATGATA
1 TTTTTATATATAT-ATA
* *
9566961 TTTTTAAATATTTATA
1 TTTTTATATATATATA
9566977 TTTT
1 TTTT
9566981 AAAAATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 2 0.06
16 28 0.90
17 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (16 bp):
TTTTTATATATATATA
Found at i:9569408 original size:19 final size:18
Alignment explanation
Indices: 9569321--9569429 Score: 60
Period size: 19 Copynumber: 5.7 Consensus size: 18
9569311 TATTTTATTT
*
9569321 AAATT-TAAATAAAATAA
1 AAATTATAATTAAAATAA
* *
9569338 AAATTAATATTATTAAATTAT
1 AAATT-ATA--ATTAAAATAA
* *
9569359 TAA-TATATTTAAAATATA
1 AAATTATAATTAAAATA-A
*
9569377 TAAATAATATAATTAAAATATC
1 -AAAT--TATAATTAAAATA-A
*
9569399 AAATTATAATAAAAATAA
1 AAATTATAATTAAAATAA
*
9569417 AAATTTTAATTAA
1 AAATTATAATTAA
9569430 TAAATTAATA
Statistics
Matches: 69, Mismatches: 14, Indels: 17
0.69 0.14 0.17
Matches are distributed among these distances:
17 12 0.17
18 11 0.16
19 19 0.28
20 1 0.01
21 13 0.19
22 13 0.19
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATTATAATTAAAATAA
Found at i:9569410 original size:22 final size:22
Alignment explanation
Indices: 9569334--9569410 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
9569324 TTTAAATAAA
* *
9569334 ATAAAAATTAATATTATTAAATT
1 ATAATAATTAA-AATATTAAATT
*
9569357 ATTAATATATTTAAAATATATAAATA
1 A-TAATA-A-TTAAAATAT-TAAATT
*
9569383 AT-ATAATTAAAATATCAAATT
1 ATAATAATTAAAATATTAAATT
9569404 ATAATAA
1 ATAATAA
9569411 AAATAAAAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 11
0.73 0.08 0.18
Matches are distributed among these distances:
21 6 0.14
22 13 0.30
23 2 0.05
24 7 0.16
25 6 0.14
26 10 0.23
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAATAATTAAAATATTAAATT
Found at i:9569430 original size:22 final size:22
Alignment explanation
Indices: 9569405--9569447 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
9569395 TATCAAATTA
9569405 TAATAAAAATAA-AAATTTTAAT
1 TAAT-AAAATAATAAATTTTAAT
*
9569427 TAATAAATTAATAAATTTTAA
1 TAATAAAATAATAAATTTTAA
9569448 AATTATGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TAATAAAATAATAAATTTTAAT
Found at i:9569863 original size:22 final size:20
Alignment explanation
Indices: 9569836--9569880 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 20
9569826 TGTTCTTGTA
*
9569836 AAAATTGAAATGAAATAGTTTT
1 AAAATTGAAAT--AATAGTATT
*
9569858 AAAATTTAAATAATAGTATT
1 AAAATTGAAATAATAGTATT
9569878 AAA
1 AAA
9569881 TCATAAACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 11 0.52
22 10 0.48
ACGTcount: A:0.56, C:0.00, G:0.09, T:0.36
Consensus pattern (20 bp):
AAAATTGAAATAATAGTATT
Found at i:9581080 original size:29 final size:31
Alignment explanation
Indices: 9581029--9581106 Score: 97
Period size: 29 Copynumber: 2.6 Consensus size: 31
9581019 AATTAATATA
* *
9581029 TTTATAATTCAAATATTATATT-ATAAATTT
1 TTTATAATTCAAATATCACATTAATAAATTT
*
9581059 TTTA-AATTCAAATATCACATTAATCAATTT
1 TTTATAATTCAAATATCACATTAATAAATTT
* *
9581089 ATTATAATTTAAATATCA
1 TTTATAATTCAAATATCA
9581107 TTTATGATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 15 0.37
30 14 0.34
31 12 0.29
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (31 bp):
TTTATAATTCAAATATCACATTAATAAATTT
Found at i:9584090 original size:2 final size:2
Alignment explanation
Indices: 9584083--9584109 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
9584073 TATTTCAACT
9584083 CA CA CA CA CA CA CA CA CA CA CA CA CA C
1 CA CA CA CA CA CA CA CA CA CA CA CA CA C
9584110 GCATACACTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:9592194 original size:21 final size:21
Alignment explanation
Indices: 9592160--9592231 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 21
9592150 TATTATTTTT
*
9592160 ATTTTAGT-ATAATATTAATA
1 ATTTTAATAATAATATTAATA
**
9592180 ATTTTAATAATAATAACAATA
1 ATTTTAATAATAATATTAATA
*
9592201 ATTTTAA-AA-AATAATTATTA
1 ATTTTAATAATAAT-ATTAATA
9592221 ATTTTATATAA
1 ATTTTA-ATAA
9592232 AAAAAACAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 3 0.07
20 19 0.45
21 18 0.43
22 2 0.05
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (21 bp):
ATTTTAATAATAATATTAATA
Found at i:9592255 original size:11 final size:11
Alignment explanation
Indices: 9592231--9592269 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
9592221 ATTTTATATA
9592231 AAAAAAACAAAG
1 AAAAAAA-AAAG
*
9592243 AAACAAAAAAG
1 AAAAAAAAAAG
9592254 AAAAAAAAAACG
1 AAAAAAAAAA-G
9592266 AAAA
1 AAAA
9592270 GTAAGGTGGC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
11 13 0.54
12 11 0.46
ACGTcount: A:0.85, C:0.08, G:0.08, T:0.00
Consensus pattern (11 bp):
AAAAAAAAAAG
Found at i:9592323 original size:23 final size:25
Alignment explanation
Indices: 9592293--9592357 Score: 77
Period size: 23 Copynumber: 2.8 Consensus size: 25
9592283 CGCTGCTACT
9592293 GCCC-CTGACCAACCACCTT-A-CA
1 GCCCTCTGACCAACCACCTTGACCA
*
9592315 GCCCTCTGACCAGCC-CCTTGACCA
1 GCCCTCTGACCAACCACCTTGACCA
9592339 G-CCTCTGACCAACCCACCT
1 GCCCTCTGACCAA-CCACCT
9592358 AAAGCCGCCC
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
22 8 0.22
23 20 0.56
24 5 0.14
25 3 0.08
ACGTcount: A:0.22, C:0.51, G:0.12, T:0.15
Consensus pattern (25 bp):
GCCCTCTGACCAACCACCTTGACCA
Found at i:9592330 original size:12 final size:12
Alignment explanation
Indices: 9592313--9592349 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
9592303 AACCACCTTA
9592313 CAGCCCTCTGAC
1 CAGCCCTCTGAC
9592325 CAGCCC-CTTGAC
1 CAGCCCTC-TGAC
9592337 CAG-CCTCTGAC
1 CAGCCCTCTGAC
9592348 CA
1 CA
9592350 ACCCACCTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.19, C:0.49, G:0.16, T:0.16
Consensus pattern (12 bp):
CAGCCCTCTGAC
Found at i:9593230 original size:9 final size:9
Alignment explanation
Indices: 9593216--9593273 Score: 53
Period size: 9 Copynumber: 5.9 Consensus size: 9
9593206 AAAAAAAATT
9593216 TTTTTTTAA
1 TTTTTTTAA
9593225 TTTTTTTAA
1 TTTTTTTAA
9593234 TTTTTTTATA
1 TTTTTTTA-A
*
9593244 TTATTATTTTTA
1 -T-TT-TTTTAA
*
9593256 TTATTTTTAG
1 TT-TTTTTAA
9593266 TTTTTTTA
1 TTTTTTTA
9593274 TTTATTCTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
9 23 0.56
10 8 0.20
11 3 0.07
12 3 0.07
13 4 0.10
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.78
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:9593253 original size:23 final size:21
Alignment explanation
Indices: 9593212--9593264 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
9593202 AGGTAAAAAA
9593212 AATTTTTTT-TTAATTTTTTT
1 AATTTTTTTATTAATTTTTTT
*
9593232 AATTTTTTTATATTATTATTTTT
1 AATTTTTTTAT-TAATT-TTTTT
9593255 -ATTATTTTTA
1 AATT-TTTTTA
9593265 GTTTTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
20 9 0.32
21 1 0.04
22 7 0.25
23 11 0.39
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (21 bp):
AATTTTTTTATTAATTTTTTT
Found at i:9593254 original size:32 final size:31
Alignment explanation
Indices: 9593218--9593279 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 31
9593208 AAAAAATTTT
9593218 TTTTTAATT-TTTTTAATTTTTTTATATTATTA
1 TTTTT-ATTATTTTTAATTTTTTTAT-TTATTA
*
9593250 TTTTTATTATTTTTAGTTTTTTTATTTATT
1 TTTTTATTATTTTTAATTTTTTTATTTATT
9593280 CTTGCATGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 8 0.29
32 20 0.71
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (31 bp):
TTTTTATTATTTTTAATTTTTTTATTTATTA
Found at i:9593276 original size:15 final size:14
Alignment explanation
Indices: 9593227--9593276 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 14
9593217 TTTTTTAATT
9593227 TTTTTAATTTTTTTA
1 TTTTT-ATTTTTTTA
9593242 TATTATTATTTTTATTA
1 T-TT-TTATTTTT-TTA
9593259 TTTTTAGTTTTTTTA
1 TTTTTA-TTTTTTTA
9593274 TTT
1 TTT
9593277 ATTCTTGCAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 10 0.32
16 15 0.48
17 6 0.19
ACGTcount: A:0.20, C:0.00, G:0.02, T:0.78
Consensus pattern (14 bp):
TTTTTATTTTTTTA
Found at i:9601701 original size:10 final size:10
Alignment explanation
Indices: 9601674--9601711 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
9601664 ATATTATATT
*
9601674 TTAATAAAAA
1 TTAATTAAAA
9601684 TT--TTAAAA
1 TTAATTAAAA
9601692 TTAATTAAAA
1 TTAATTAAAA
9601702 TTAATTAAAA
1 TTAATTAAAA
9601712 AAATTTAGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
8 7 0.28
10 18 0.72
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (10 bp):
TTAATTAAAA
Found at i:9602297 original size:17 final size:16
Alignment explanation
Indices: 9602253--9602319 Score: 75
Period size: 17 Copynumber: 4.2 Consensus size: 16
9602243 TAATTAATTA
*
9602253 ATTA-TTATTTTGATT
1 ATTATTTATTTTTATT
*
9602268 ATT-TTAATTTTTATT
1 ATTATTTATTTTTATT
9602283 ATTATTTATTGTTTATT
1 ATTATTTATT-TTTATT
*
9602300 ATTATTTCTTTTTTATT
1 ATTATTT-ATTTTTATT
9602317 ATT
1 ATT
9602320 TAAATGAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
15 15 0.34
16 5 0.11
17 22 0.50
18 2 0.05
ACGTcount: A:0.24, C:0.01, G:0.03, T:0.72
Consensus pattern (16 bp):
ATTATTTATTTTTATT
Found at i:9602771 original size:15 final size:15
Alignment explanation
Indices: 9602740--9602791 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
9602730 TTTTTTGTTT
*
9602740 AAAAAT-ATCTAACAA
1 AAAAATAAT-TAAAAA
9602755 AAAAATAATTAAAAA
1 AAAAATAATTAAAAA
* *
9602770 AAATAAAAATGAAAAA
1 AAA-AATAATTAAAAA
9602786 AAAAAT
1 AAAAAT
9602792 CCCACCAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
15 16 0.52
16 15 0.48
ACGTcount: A:0.77, C:0.04, G:0.02, T:0.17
Consensus pattern (15 bp):
AAAAATAATTAAAAA
Found at i:9603939 original size:40 final size:40
Alignment explanation
Indices: 9603893--9604059 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 40
9603883 TTTTAAAAAT
9603893 TTTAAAAAAC-TCTTCTAACCAGAGGCTATGAAACTTTAAA
1 TTTAAAAAACTTCTT-TAACCAGAGGCTATGAAACTTTAAA
** *
9603933 TTTAAAAGGCTTCTTTGACCAGAGGCTATGAAACTTTAAA
1 TTTAAAAAACTTCTTTAACCAGAGGCTATGAAACTTTAAA
* * ** * * *
9603973 CTCAAAAGGCTTCTTTAACCAAAGG-AAAGAAAACTTTAAA
1 TTTAAAAAACTTCTTTAACCAGAGGCTATG-AAACTTTAAA
** * * * *
9604013 TTTAAAATTCTTCTTTGACTAGA-GATAACGAAACTTTAAA
1 TTTAAAAAACTTCTTTAACCAGAGGCT-ATGAAACTTTAAA
9604053 TTTAAAA
1 TTTAAAA
9604060 GGCTCAATTG
Statistics
Matches: 105, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
39 3 0.03
40 96 0.91
41 6 0.06
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (40 bp):
TTTAAAAAACTTCTTTAACCAGAGGCTATGAAACTTTAAA
Found at i:9604086 original size:80 final size:79
Alignment explanation
Indices: 9603923--9604093 Score: 186
Period size: 80 Copynumber: 2.1 Consensus size: 79
9603913 AGAGGCTATG
* * *
9603923 AAACTTTAAATTTAAAAGGCTTCTTTGACCAGAGGCTATGAAACTTTAAACTCAAAAGGCTTCTT
1 AAACTTTAAATTTAAAAGGCTTCTTTGACCAGAGGATACGAAACTTTAAACTCAAAAGGCTTCAT
9603988 TAACCAAAGGAAAGA
66 TAACCAAA-GAAAGA
** * * *
9604003 AAACTTTAAATTTAAAATTCTTCTTTGACTAGA-GATAACGAAACTTTAAATTTAAAAGGC-TCA
1 AAACTTTAAATTTAAAAGGCTTCTTTGACCAGAGGAT-ACGAAACTTTAAACTCAAAAGGCTTC-
* *
9604066 ATTGACCAGAA-ACAGTA
64 ATTAACCA-AAGAAAG-A
9604083 AAACTTTAAAT
1 AAACTTTAAAT
9604094 GGCTCCTTTA
Statistics
Matches: 77, Mismatches: 10, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
79 7 0.09
80 68 0.88
81 2 0.03
ACGTcount: A:0.43, C:0.15, G:0.12, T:0.30
Consensus pattern (79 bp):
AAACTTTAAATTTAAAAGGCTTCTTTGACCAGAGGATACGAAACTTTAAACTCAAAAGGCTTCAT
TAACCAAAGAAAGA
Found at i:9604316 original size:34 final size:34
Alignment explanation
Indices: 9604242--9604325 Score: 98
Period size: 34 Copynumber: 2.5 Consensus size: 34
9604232 CTGATTAGAT
* *
9604242 GCTATGAAACTTTAGATGACTCTTCTAACTAGAG
1 GCTATGAAACTTTAAATGACTCTTCTAACTAAAG
* *
9604276 GATATGAAACTTTAAATGACTCTTCTGA-TCAAAG
1 GCTATGAAACTTTAAATGACTCTTCTAACT-AAAG
* *
9604310 GCTATGACACATTAAA
1 GCTATGAAACTTTAAA
9604326 GAAAGCTCAT
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
33 1 0.02
34 41 0.98
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (34 bp):
GCTATGAAACTTTAAATGACTCTTCTAACTAAAG
Found at i:9604534 original size:88 final size:88
Alignment explanation
Indices: 9604385--9604566 Score: 346
Period size: 88 Copynumber: 2.1 Consensus size: 88
9604375 GAGGCAATGG
*
9604385 TATTTGAAAGATTTTTCTAAACGGAAGGTTCACACCTTTTCTATTTTTGACTTTTCTTTTATTGG
1 TATTTGAAAGATTTTTCTAAACGGAAGGTTCACACCTTTTCTATTTTTGACTTTTCCTTTATTGG
9604450 TTTTGGATTGTCCTAAACCCATA
66 TTTTGGATTGTCCTAAACCCATA
*
9604473 TATTTGAAAGATTTTTCTAAACGGAAGGTTCACATCTTTTCTATTTTTGACTTTTCCTTTATTGG
1 TATTTGAAAGATTTTTCTAAACGGAAGGTTCACACCTTTTCTATTTTTGACTTTTCCTTTATTGG
9604538 TTTTGGATTGTCCTAAACCCATA
66 TTTTGGATTGTCCTAAACCCATA
9604561 TATTTG
1 TATTTG
9604567 TTATGCCACA
Statistics
Matches: 92, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
88 92 1.00
ACGTcount: A:0.24, C:0.15, G:0.14, T:0.47
Consensus pattern (88 bp):
TATTTGAAAGATTTTTCTAAACGGAAGGTTCACACCTTTTCTATTTTTGACTTTTCCTTTATTGG
TTTTGGATTGTCCTAAACCCATA
Found at i:9611803 original size:51 final size:51
Alignment explanation
Indices: 9611743--9611840 Score: 124
Period size: 51 Copynumber: 1.9 Consensus size: 51
9611733 TCAATTATAA
*
9611743 TTGAGAGATTTTTGGAATATAATTCCAGAATCAATTCGCATTAAAATATTG
1 TTGAAAGATTTTTGGAATATAATTCCAGAATCAATTCGCATTAAAATATTG
* * *** * *
9611794 TTGAAAGATTTTTGGGATTTAATTTTTGAATTAATTCTCATTAAAAT
1 TTGAAAGATTTTTGGAATATAATTCCAGAATCAATTCGCATTAAAAT
9611841 TAAATCAAAT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 39 1.00
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (51 bp):
TTGAAAGATTTTTGGAATATAATTCCAGAATCAATTCGCATTAAAATATTG
Found at i:9618331 original size:19 final size:20
Alignment explanation
Indices: 9618292--9618333 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
9618282 GATTTAACAC
9618292 AATAATCCTTAAAATAAAAT
1 AATAATCCTTAAAATAAAAT
* *
9618312 AATAATCTTTATAA-AAAAT
1 AATAATCCTTAAAATAAAAT
9618331 AAT
1 AAT
9618334 TGTTAGTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAATCCTTAAAATAAAAT
Found at i:9618851 original size:13 final size:13
Alignment explanation
Indices: 9618835--9618877 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
9618825 TTTAAGGTAA
9618835 AAGTTTAGGGTTT
1 AAGTTTAGGGTTT
9618848 AAGTTTAGGGTTT
1 AAGTTTAGGGTTT
*
9618861 GAAGGTTTGGGGTTT
1 -AA-GTTTAGGGTTT
9618876 AA
1 AA
9618878 TTAAAACGCG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 13 0.48
14 4 0.15
15 10 0.37
ACGTcount: A:0.23, C:0.00, G:0.35, T:0.42
Consensus pattern (13 bp):
AAGTTTAGGGTTT
Found at i:9620365 original size:3 final size:3
Alignment explanation
Indices: 9620357--9620397 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
9620347 ATCTTTTTAT
9620357 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9620398 TCTTATGGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:9620515 original size:3 final size:3
Alignment explanation
Indices: 9620509--9620576 Score: 68
Period size: 3 Copynumber: 22.7 Consensus size: 3
9620499 ATAATAATAA
*
9620509 TAT TAT TAT TAT TAT TAT TAAT T-T TAA TAT TAT TAT TGA- TAT TAT
1 TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT T-AT TAT TAT
* * *
9620554 TAT TAA AAT TAT TAT TAA TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
9620577 AACTAAAATA
Statistics
Matches: 53, Mismatches: 8, Indels: 8
0.77 0.12 0.12
Matches are distributed among these distances:
2 3 0.06
3 46 0.87
4 4 0.08
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:9620526 original size:12 final size:12
Alignment explanation
Indices: 9620506--9620576 Score: 88
Period size: 12 Copynumber: 5.7 Consensus size: 12
9620496 TTAATAATAA
9620506 TAATATTATTAT
1 TAATATTATTAT
*
9620518 TATTATTATTAATTT
1 TAATATTATT-A--T
9620533 TAATATTATTAT
1 TAATATTATTAT
*
9620545 TGATATTATTAT
1 TAATATTATTAT
*
9620557 TAAAATTATTAT
1 TAATATTATTAT
9620569 TAATATTA
1 TAATATTA
9620577 AACTAAAATA
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
12 38 0.76
13 1 0.02
14 1 0.02
15 10 0.20
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (12 bp):
TAATATTATTAT
Found at i:9620528 original size:30 final size:30
Alignment explanation
Indices: 9620493--9620559 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 30
9620483 TATACTTTTT
9620493 TTATTAATAATAATAATATTATT-ATTATTA
1 TTATTAATAATAATAATATTATTGA-TATTA
** *
9620523 TTATTAATTTTAATATTATTATTGATATTA
1 TTATTAATAATAATAATATTATTGATATTA
9620553 TTATTAA
1 TTATTAA
9620560 AATTATTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
30 32 0.97
31 1 0.03
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (30 bp):
TTATTAATAATAATAATATTATTGATATTA
Found at i:9620577 original size:6 final size:6
Alignment explanation
Indices: 9620494--9620577 Score: 69
Period size: 6 Copynumber: 14.0 Consensus size: 6
9620484 ATACTTTTTT
* * * * * * *
9620494 TATTAA TAATAA TAATAT TATTAT TATTAT TATTAA TTTTAA TATTAT
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA
* * * *
9620542 TATTGA TATTAT TATTAA AATTAT TATTAA TATTAA
1 TATTAA TATTAA TATTAA TATTAA TATTAA TATTAA
9620578 ACTAAAATAA
Statistics
Matches: 62, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (6 bp):
TATTAA
Found at i:9625447 original size:16 final size:15
Alignment explanation
Indices: 9625418--9625493 Score: 59
Period size: 15 Copynumber: 5.1 Consensus size: 15
9625408 TAAATTACTC
*
9625418 AATAAAATAAATAAT
1 AATAAAATAAATAAA
9625433 AATAAAATCAAATAAA
1 AATAAAAT-AAATAAA
**
9625449 AATAAAA-ACTTAAA
1 AATAAAATAAATAAA
* *
9625463 ATATTAAAT-ATTAAA
1 A-ATAAAATAAATAAA
9625478 AATAAAAATAAA-AAA
1 AAT-AAAATAAATAAA
9625493 A
1 A
9625494 CCTGCGATTG
Statistics
Matches: 49, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
14 8 0.16
15 27 0.55
16 14 0.29
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (15 bp):
AATAAAATAAATAAA
Found at i:9626338 original size:3 final size:3
Alignment explanation
Indices: 9626332--9626456 Score: 93
Period size: 3 Copynumber: 43.7 Consensus size: 3
9626322 TAAAGATTAT
*
9626332 TAA TAA TAA T-A TAA T-A TAA T-A TAA TAA T-A TAA TAA T-A TAC T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
9626374 TAG TAA T-A TAA TAC TAG TAA CAA TAA TAA TAAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
* * * * *
9626419 TAA TAA TAA TAC TAA CAA AAA TAA TGA TAA TGA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
9626457 TAAAAAATCG
Statistics
Matches: 94, Mismatches: 20, Indels: 16
0.72 0.15 0.12
Matches are distributed among these distances:
2 13 0.14
3 78 0.83
4 3 0.03
ACGTcount: A:0.60, C:0.05, G:0.03, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:9626350 original size:13 final size:13
Alignment explanation
Indices: 9626334--9626386 Score: 72
Period size: 13 Copynumber: 4.1 Consensus size: 13
9626324 AAGATTATTA
9626334 ATAATAATATAAT
1 ATAATAATATAAT
9626347 ATAAT-ATAATAAT
1 ATAATAAT-ATAAT
*
9626360 ATAATAATATACT
1 ATAATAATATAAT
*
9626373 ATAGTAATATAAT
1 ATAATAATATAAT
9626386 A
1 A
9626387 CTAGTAACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
12 2 0.06
13 31 0.89
14 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.38
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:9626787 original size:23 final size:23
Alignment explanation
Indices: 9626728--9626789 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 23
9626718 AATTAATTAA
*
9626728 TTTTTATTATGATTATTTTAATTTT
1 TTTTTATTAT--TTATTTTAATTTC
9626753 TTTGTTATTATTTATTATT-ATTTC
1 TTT-TTATTATTTATT-TTAATTTC
9626777 TTTTTATTATTTA
1 TTTTTATTATTTA
9626790 AATGAATCAT
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
23 10 0.29
24 12 0.35
25 5 0.15
26 7 0.21
ACGTcount: A:0.23, C:0.02, G:0.03, T:0.73
Consensus pattern (23 bp):
TTTTTATTATTTATTTTAATTTC
Found at i:9627193 original size:3 final size:3
Alignment explanation
Indices: 9627185--9627228 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
9627175 CGCTTTGATT
9627185 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
9627229 TGTTTAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9627297 original size:18 final size:19
Alignment explanation
Indices: 9627274--9627320 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
9627264 AAATCAAATC
* *
9627274 AAAATAAATTAAAA-TCAA
1 AAAATAAATAAAAATTAAA
9627292 AAAATAAAATAAAAATTAAA
1 AAAAT-AAATAAAAATTAAA
9627312 AAAATAAAT
1 AAAATAAAT
9627321 CTCACTAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.20
19 12 0.48
20 8 0.32
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (19 bp):
AAAATAAATAAAAATTAAA
Found at i:9627313 original size:13 final size:13
Alignment explanation
Indices: 9627279--9627312 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
9627269 AAATCAAAAT
9627279 AAATTAAAATCAA
1 AAATTAAAATCAA
*
9627292 AAAATAAAAT-AA
1 AAATTAAAATCAA
9627304 AAATTAAAA
1 AAATTAAAA
9627313 AAATAAATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 10 0.53
13 9 0.47
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATTAAAATCAA
Found at i:9628713 original size:2 final size:2
Alignment explanation
Indices: 9628706--9628746 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9628696 AACTGTCAAT
9628706 TA TA TA TA TA 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 TA TA TA TA TA T
9628747 TGAACTCACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9629673 original size:21 final size:21
Alignment explanation
Indices: 9629632--9629675 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
9629622 ATAATTTCAT
**
9629632 AATAAATATTAATTATGATAA
1 AATAAATATTAATTAAAATAA
9629653 AATAAATAATTAA-TAAAATAA
1 AATAAAT-ATTAATTAAAATAA
9629674 AA
1 AA
9629676 CCTAAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (21 bp):
AATAAATATTAATTAAAATAA
Found at i:9630294 original size:29 final size:29
Alignment explanation
Indices: 9630257--9630313 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
9630247 TTGTAGTTTG
*
9630257 CCAAGTAATATTACCT-GATTGGCTTATTA
1 CCAAATAATATTACCTAG-TTGGCTTATTA
9630286 CCAAATAATATTACCTAGTTGGCTTATT
1 CCAAATAATATTACCTAGTTGGCTTATT
9630314 CGGTTTGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.39
Consensus pattern (29 bp):
CCAAATAATATTACCTAGTTGGCTTATTA
Found at i:9631250 original size:2 final size:2
Alignment explanation
Indices: 9631243--9631280 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
9631233 ACTTGATCTG
*
9631243 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9631281 GTGTATGTAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9633585 original size:26 final size:26
Alignment explanation
Indices: 9633555--9633629 Score: 71
Period size: 29 Copynumber: 2.8 Consensus size: 26
9633545 TTTTTTAAAA
9633555 TTGATTCATTAATAAAATATTATTAT
1 TTGATTCATTAATAAAATATTATTAT
*
9633581 TTGATTTTTTATTAATAAAATGA-TATTAT
1 TTGA---TTCATTAATAAAAT-ATTATTAT
* * *
9633610 TCGATTCATTGATAATATAT
1 TTGATTCATTAATAAAATAT
9633630 AAAATTCATA
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
25 1 0.03
26 15 0.38
29 22 0.56
30 1 0.03
ACGTcount: A:0.39, C:0.04, G:0.07, T:0.51
Consensus pattern (26 bp):
TTGATTCATTAATAAAATATTATTAT
Found at i:9635017 original size:2 final size:2
Alignment explanation
Indices: 9635010--9635037 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9635000 GTAATCCTTT
9635010 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9635038 CACAAACCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9635970 original size:16 final size:17
Alignment explanation
Indices: 9635949--9635982 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
9635939 GAGGATTCAG
9635949 TATAAT-TAATTCTTTT
1 TATAATCTAATTCTTTT
*
9635965 TATAATCTTATTCTTTT
1 TATAATCTAATTCTTTT
9635982 T
1 T
9635983 TTTAAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
TATAATCTAATTCTTTT
Found at i:9636720 original size:2 final size:2
Alignment explanation
Indices: 9636713--9636753 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9636703 TAATTACTTG
9636713 TA TA TA TA TA 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 TA TA TA TA TA T
9636754 TACAGGTACT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9636965 original size:19 final size:18
Alignment explanation
Indices: 9636931--9636969 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
9636921 AAATAAATAA
*
9636931 AATTTGAAAATTTTTAATT
1 AATTTGAAAATATTT-ATT
*
9636950 AATTTGAATATATTTATT
1 AATTTGAAAATATTTATT
9636968 AA
1 AA
9636970 ATAAATATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (18 bp):
AATTTGAAAATATTTATT
Found at i:9637779 original size:2 final size:2
Alignment explanation
Indices: 9637766--9637797 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
9637756 AGCTGAACTC
*
9637766 AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9637798 CACATAGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:9637913 original size:2 final size:2
Alignment explanation
Indices: 9637906--9637933 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9637896 TAAGGATTTC
9637906 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9637934 TATTGCGTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9638842 original size:2 final size:2
Alignment explanation
Indices: 9638835--9638867 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
9638825 TAGGACTAGG
*
9638835 AT AT AT AT AC AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
9638868 GCCCTGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:9639970 original size:18 final size:18
Alignment explanation
Indices: 9639949--9639983 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
9639939 ATTTGCTTAA
9639949 ATTTAGTTAATTTAACAT
1 ATTTAGTTAATTTAACAT
9639967 ATTTAGTTAATTTAACA
1 ATTTAGTTAATTTAACA
9639984 CCTGATTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.49
Consensus pattern (18 bp):
ATTTAGTTAATTTAACAT
Found at i:9644456 original size:23 final size:23
Alignment explanation
Indices: 9644426--9644471 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
9644416 CATTTAAAAA
*
9644426 TTTAAAATTCTATAGTAGGCAAG
1 TTTAAAATTCTATAGCAGGCAAG
9644449 TTTAAAATTCTATAGCAGGCAAG
1 TTTAAAATTCTATAGCAGGCAAG
9644472 ATAAGCATCA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (23 bp):
TTTAAAATTCTATAGCAGGCAAG
Found at i:9647090 original size:2 final size:2
Alignment explanation
Indices: 9647083--9647118 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
9647073 TTTATAATTT
9647083 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
9647119 AAACCCTAAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:9648485 original size:22 final size:20
Alignment explanation
Indices: 9648442--9648485 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
9648432 TTAATCGAAC
*
9648442 TTTTTTATTTTAATATATAT
1 TTTTTTATTTTAATATAAAT
9648462 TTTTATTATTTTAATTATAAAT
1 TTTT-TTATTTTAA-TATAAAT
9648484 TT
1 TT
9648486 ACAATTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.19
21 9 0.43
22 8 0.38
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
TTTTTTATTTTAATATAAAT
Found at i:9648878 original size:21 final size:21
Alignment explanation
Indices: 9648853--9648911 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 21
9648843 CTCTCTCTTT
9648853 TTTTTTCATTATTTTTAAAGC
1 TTTTTTCATTATTTTTAAAGC
** * * *
9648874 TTTTTTTTTTTTTTTTTAATC
1 TTTTTTCATTATTTTTAAAGC
*
9648895 TTTTTACATGTATTTTT
1 TTTTTTCAT-TATTTTT
9648912 TTATTAGAGA
Statistics
Matches: 28, Mismatches: 9, Indels: 1
0.74 0.24 0.03
Matches are distributed among these distances:
21 22 0.79
22 6 0.21
ACGTcount: A:0.17, C:0.07, G:0.03, T:0.73
Consensus pattern (21 bp):
TTTTTTCATTATTTTTAAAGC
Found at i:9648889 original size:22 final size:23
Alignment explanation
Indices: 9648849--9648892 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
9648839 GCACCTCTCT
9648849 CTTTTTTTTTCATTATTTTTAAAG
1 CTTTTTTTTT-ATTATTTTTAAAG
*
9648873 CTTTTTTTTT-TTTTTTTTAA
1 CTTTTTTTTTATTATTTTTAA
9648893 TCTTTTTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
24 10 0.53
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.75
Consensus pattern (23 bp):
CTTTTTTTTTATTATTTTTAAAG
Found at i:9648899 original size:22 final size:23
Alignment explanation
Indices: 9648848--9648899 Score: 63
Period size: 21 Copynumber: 2.3 Consensus size: 23
9648838 AGCACCTCTC
9648848 TCTTTTTTTTTCATTATTTTTAAA
1 TCTTTTTTTTT-ATTATTTTTAAA
* *
9648872 GCTTTTTTTTT-TT-TTTTTTAA
1 TCTTTTTTTTTATTATTTTTAAA
9648893 TCTTTTT
1 TCTTTTT
9648900 ACATGTATTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 13 0.52
22 2 0.08
24 10 0.40
ACGTcount: A:0.13, C:0.08, G:0.02, T:0.77
Consensus pattern (23 bp):
TCTTTTTTTTTATTATTTTTAAA
Found at i:9649496 original size:22 final size:22
Alignment explanation
Indices: 9649449--9649490 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9649439 TATATAAAAA
*
9649449 ATTATATTTAATTATTTATTTG
1 ATTATATTTAATTATGTATTTG
9649471 ATTATATTT-ATATATGTATT
1 ATTATATTTAAT-TATGTATT
9649491 ATATTAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (22 bp):
ATTATATTTAATTATGTATTTG
Found at i:9656171 original size:19 final size:18
Alignment explanation
Indices: 9656147--9656186 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
9656137 TTAAAATTTT
*
9656147 TATTTTTATTATGATTTGA
1 TATTTTAATTAT-ATTTGA
*
9656166 TATTTTAATTATATTTTA
1 TATTTTAATTATATTTGA
9656184 TAT
1 TAT
9656187 ATATTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.30, C:0.00, G:0.05, T:0.65
Consensus pattern (18 bp):
TATTTTAATTATATTTGA
Found at i:9656186 original size:18 final size:19
Alignment explanation
Indices: 9656142--9656186 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 19
9656132 GTTAATTAAA
*
9656142 ATTTT-TATTTTTATTATG
1 ATTTTATATTTTAATTATG
*
9656160 ATTTGATATTTTAATTAT-
1 ATTTTATATTTTAATTATG
9656178 ATTTTATAT
1 ATTTTATAT
9656187 ATATTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.67
Consensus pattern (19 bp):
ATTTTATATTTTAATTATG
Found at i:9656453 original size:24 final size:24
Alignment explanation
Indices: 9656421--9656467 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
9656411 AACAAAGGTT
*
9656421 AAAATTAAAAAAAAAAAAAAAAAA
1 AAAACTAAAAAAAAAAAAAAAAAA
* * *
9656445 AAAACTAAAGAAAGAGAAAAAAA
1 AAAACTAAAAAAAAAAAAAAAAA
9656468 GAAGATTCTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.85, C:0.02, G:0.06, T:0.06
Consensus pattern (24 bp):
AAAACTAAAAAAAAAAAAAAAAAA
Found at i:9658871 original size:16 final size:15
Alignment explanation
Indices: 9658845--9658875 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
9658835 TGATTTATAA
9658845 ATAAAAAATATTTTT
1 ATAAAAAATATTTTT
9658860 ATAAAAATATATTTTT
1 ATAAAAA-ATATTTTT
9658876 TGTTTTTAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATAAAAAATATTTTT
Found at i:9658991 original size:15 final size:17
Alignment explanation
Indices: 9658968--9659012 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
9658958 TCAATTAAAA
9658968 ATAAAAAATAT-TTA-G
1 ATAAAAAATATATTATG
*
9658983 ATAATAAATTATATTATG
1 ATAA-AAAATATATTATG
9659001 ATAAAAAATATA
1 ATAAAAAATATA
9659013 AAAATATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
15 4 0.16
16 6 0.24
17 10 0.40
18 5 0.20
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (17 bp):
ATAAAAAATATATTATG
Found at i:9660440 original size:2 final size:2
Alignment explanation
Indices: 9660435--9660475 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
9660425 TTCTTGTGTG
9660435 TA TA TA TA TA 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 TA TA TA TA TA T
9660476 GTCTAGATGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:9661900 original size:54 final size:56
Alignment explanation
Indices: 9661781--9661909 Score: 235
Period size: 56 Copynumber: 2.3 Consensus size: 56
9661771 ATTCATAATT
*
9661781 TCATGAGAGCATATCATCAATCATTAAATCATTATAAAAAAAATATTATATCATTA
1 TCATGAGAGCATATCATTAATCATTAAATCATTATAAAAAAAATATTATATCATTA
9661837 TCATGAGAGCATATCATTAATCATTAAATCATTAT-AAAAAAAT-TTATATCATTA
1 TCATGAGAGCATATCATTAATCATTAAATCATTATAAAAAAAATATTATATCATTA
9661891 TCATGAGAGCATATCATTA
1 TCATGAGAGCATATCATTA
9661910 TAAAAAAAAT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
54 30 0.42
55 8 0.11
56 34 0.47
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.35
Consensus pattern (56 bp):
TCATGAGAGCATATCATTAATCATTAAATCATTATAAAAAAAATATTATATCATTA
Found at i:9661920 original size:54 final size:56
Alignment explanation
Indices: 9661781--9661924 Score: 195
Period size: 54 Copynumber: 2.6 Consensus size: 56
9661771 ATTCATAATT
* * **
9661781 TCATGAGAGCATATCATCAATCATTAAATCATTATAAAAAAAATATTATATCATTA
1 TCATGAGAGCATATCATTAATAAAAAAATCATTATAAAAAAAATATTATATCATTA
* **
9661837 TCATGAGAGCATATCATTAATCATTAAATCATTAT-AAAAAAAT-TTATATCATTA
1 TCATGAGAGCATATCATTAATAAAAAAATCATTATAAAAAAAATATTATATCATTA
9661891 TCATGAGAGCATATCATT-ATAAAAAAAATCATTA
1 TCATGAGAGCATATCATTAAT-AAAAAAATCATTA
9661925 AATACATGTA
Statistics
Matches: 83, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
53 2 0.02
54 39 0.47
55 8 0.10
56 34 0.41
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.34
Consensus pattern (56 bp):
TCATGAGAGCATATCATTAATAAAAAAATCATTATAAAAAAAATATTATATCATTA
Found at i:9662621 original size:16 final size:17
Alignment explanation
Indices: 9662562--9662623 Score: 58
Period size: 16 Copynumber: 3.8 Consensus size: 17
9662552 ATGCACTAAA
*
9662562 ATTTA-TTTTTGAAAAC
1 ATTTAGTTTTTGGAAAC
* *
9662578 ATTTAGTTTTTGTAAAT
1 ATTTAGTTTTTGGAAAC
* *
9662595 ATTT-CTGTTTGGAAA-
1 ATTTAGTTTTTGGAAAC
9662610 ATTTAGTTTTTGGA
1 ATTTAGTTTTTGGA
9662624 TATCTTAATA
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
15 4 0.11
16 20 0.54
17 13 0.35
ACGTcount: A:0.29, C:0.03, G:0.15, T:0.53
Consensus pattern (17 bp):
ATTTAGTTTTTGGAAAC
Found at i:9662708 original size:13 final size:11
Alignment explanation
Indices: 9662679--9662720 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
9662669 TATAAAAATG
*
9662679 AAATATATTAA
1 AAATATATTAT
9662690 AAATATCATTCAT
1 AAATAT-ATT-AT
9662703 AAATATATTAT
1 AAATATATTAT
9662714 AAA-ATAT
1 AAATATAT
9662721 GTTTTGCAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 4 0.14
11 11 0.39
12 6 0.21
13 7 0.25
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (11 bp):
AAATATATTAT
Found at i:9662720 original size:12 final size:12
Alignment explanation
Indices: 9662679--9662720 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
9662669 TATAAAAATG
9662679 AAATATATTA-A
1 AAATATATTATA
9662690 AAATATCATTCAT-
1 AAATAT-ATT-ATA
9662703 AAATATATTATA
1 AAATATATTATA
9662715 AAATAT
1 AAATAT
9662721 GTTTTGCAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
11 8 0.30
12 12 0.44
13 7 0.26
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (12 bp):
AAATATATTATA
Found at i:9663435 original size:22 final size:22
Alignment explanation
Indices: 9663410--9663462 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
9663400 TTTTCTCTCC
* ** *
9663410 TTTTTGTGTCTTTTTTTTTTTA
1 TTTTTGTGTCTTGTTTACTTGA
*
9663432 TTTTTTTGTCTTGTTTACTTGA
1 TTTTTGTGTCTTGTTTACTTGA
9663454 TTTTTGTGT
1 TTTTTGTGT
9663463 ATTTGTTCTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.06, C:0.06, G:0.13, T:0.75
Consensus pattern (22 bp):
TTTTTGTGTCTTGTTTACTTGA
Found at i:9665566 original size:20 final size:20
Alignment explanation
Indices: 9665530--9665567 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
9665520 CGTAAATAAA
*
9665530 TAATGTAAATATGTATATTG
1 TAATGTAAATATATATATTG
9665550 TAATGT-AATATTATATAT
1 TAATGTAAATA-TATATAT
9665568 GATGATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.42, C:0.00, G:0.11, T:0.47
Consensus pattern (20 bp):
TAATGTAAATATATATATTG
Found at i:9666058 original size:24 final size:23
Alignment explanation
Indices: 9666027--9666073 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
9666017 AGCCTGTGGA
*
9666027 AAGAGAGGAGCAGCAAGAAGAAG
1 AAGAGAGGAGCAGAAAGAAGAAG
*
9666050 AAGACGAGGAGGAGAAAGAAGAAG
1 AAGA-GAGGAGCAGAAAGAAGAAG
9666074 GGAGGAGGGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.53, C:0.06, G:0.40, T:0.00
Consensus pattern (23 bp):
AAGAGAGGAGCAGAAAGAAGAAG
Found at i:9666070 original size:18 final size:17
Alignment explanation
Indices: 9666045--9666092 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
9666035 AGCAGCAAGA
9666045 AGAAGAAGACGAGGAGG
1 AGAAGAAGACGAGGAGG
*
9666062 AGAAAGAAGAAG-GGAGG
1 AG-AAGAAGACGAGGAGG
*
9666079 AG-GGAAGACGAGGA
1 AGAAGAAGACGAGGA
9666093 ATTAATGGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
15 6 0.23
16 3 0.12
17 9 0.35
18 8 0.31
ACGTcount: A:0.48, C:0.04, G:0.48, T:0.00
Consensus pattern (17 bp):
AGAAGAAGACGAGGAGG
Found at i:9677317 original size:8 final size:8
Alignment explanation
Indices: 9677303--9677332 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
9677293 TGGGCCCAAA
9677303 GTTTTTTT
1 GTTTTTTT
9677311 -TTTTTTT
1 GTTTTTTT
9677318 GTTTTTTT
1 GTTTTTTT
9677326 GTTTTTT
1 GTTTTTT
9677333 GATATAGGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
7 7 0.33
8 14 0.67
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (8 bp):
GTTTTTTT
Found at i:9677323 original size:15 final size:15
Alignment explanation
Indices: 9677303--9677333 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
9677293 TGGGCCCAAA
*
9677303 GTTTTTTTTTTTTTT
1 GTTTTTTTGTTTTTT
9677318 GTTTTTTTGTTTTTT
1 GTTTTTTTGTTTTTT
9677333 G
1 G
9677334 ATATAGGATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.13, T:0.87
Consensus pattern (15 bp):
GTTTTTTTGTTTTTT
Found at i:9683151 original size:17 final size:18
Alignment explanation
Indices: 9683129--9683162 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9683119 TCTAATCAAA
9683129 TTTTTA-TATTTAAATTT
1 TTTTTATTATTTAAATTT
*
9683146 TTTTTATTATTTTAATT
1 TTTTTATTATTTAAATT
9683163 AATAAAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTTTATTATTTAAATTT
Found at i:9685707 original size:27 final size:28
Alignment explanation
Indices: 9685676--9685735 Score: 68
Period size: 28 Copynumber: 2.2 Consensus size: 28
9685666 ATTTCTTTAC
9685676 TTTTTCCTTTACATCT-TGTTTTCATTT
1 TTTTTCCTTTACATCTATGTTTTCATTT
* * * **
9685703 TTTTTTCTTTTCATTTATGTTTTTTTTT
1 TTTTTCCTTTACATCTATGTTTTCATTT
9685731 TTTTT
1 TTTTT
9685736 TTAAATTAGA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 13 0.48
28 14 0.52
ACGTcount: A:0.08, C:0.12, G:0.03, T:0.77
Consensus pattern (28 bp):
TTTTTCCTTTACATCTATGTTTTCATTT
Found at i:9685707 original size:28 final size:28
Alignment explanation
Indices: 9685676--9685738 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
9685666 ATTTCTTTAC
*
9685676 TTTTTCCTTTACATCT-TGTTTTCATTT
1 TTTTTTCTTTACATCTATGTTTTCATTT
* *
9685703 TTTTTTCTTTTCATTTATGTTTT--TTT
1 TTTTTTCTTTACATCTATGTTTTCATTT
9685729 TTTTTT-TTTA
1 TTTTTTCTTTA
9685739 AATTAGATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 3 0.10
26 9 0.29
27 13 0.42
28 6 0.19
ACGTcount: A:0.10, C:0.11, G:0.03, T:0.76
Consensus pattern (28 bp):
TTTTTTCTTTACATCTATGTTTTCATTT
Found at i:9686217 original size:27 final size:26
Alignment explanation
Indices: 9686167--9686224 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 26
9686157 TCATTTGTTC
* *
9686167 TTTTTTTTTCCTTTCTTCTATTTAGT
1 TTTTTTTTTCCTTTCTTATATTTAAT
*
9686193 TTTTTTTTTCCTTTTTTATATTTTAAT
1 TTTTTTTTTCCTTTCTTATA-TTTAAT
9686220 TTTTT
1 TTTTT
9686225 GTCAAACCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 18 0.64
27 10 0.36
ACGTcount: A:0.10, C:0.10, G:0.02, T:0.78
Consensus pattern (26 bp):
TTTTTTTTTCCTTTCTTATATTTAAT
Found at i:9686861 original size:29 final size:33
Alignment explanation
Indices: 9686796--9686861 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 33
9686786 AAATATATAT
* *
9686796 TTTATTATTTATTTATGTATTATTTTAATAAAA
1 TTTATTATTTATATATGTATTAATTTAATAAAA
9686829 -TTATTATTTA-ATA-GT-TTAATTTAA-AAAA
1 TTTATTATTTATATATGTATTAATTTAATAAAA
9686857 TTTAT
1 TTTAT
9686862 GTATAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
28 4 0.13
29 12 0.40
30 2 0.07
31 2 0.07
32 10 0.33
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (33 bp):
TTTATTATTTATATATGTATTAATTTAATAAAA
Found at i:9690146 original size:130 final size:124
Alignment explanation
Indices: 9689954--9690324 Score: 391
Period size: 128 Copynumber: 3.0 Consensus size: 124
9689944 AATATTTATT
* * *
9689954 TTTACTATGTATTGCATACATACATCCATGTAAATATCGTTGTATGTACATTATTCCATTTTTTT
1 TTTACTATATATTGCATACATACATCCATGTAAACATCATTGTATGTACATTATTCCATTTTTTT
* *
9690019 TGGGCAATCTTTGCCTTTCTTGTTTTGTATATAGTTGTAAATATGAATTCTTACTATGCA
66 AGGGCAATCTTTGCCTTTCTTATTTTGTATATAGTTGTAAATATGAATTCTTACTATG-A
* * * **
9690079 TTATA-TACATGTATTTGCGTATACATACATCCATGTAAACATCTTTGTATATATGTTAATT---
1 TT-TACT--ATATA-TTGC--ATACATACATCCATGTAAACATCATTGTATGTACATT-ATTCCA
** * * * *
9690140 TTTTTTTAGGAAAATTTTTGCCGTTT-TAATTTTTTACATAGTTGTAAATATGAATT-TT--TAT
59 TTTTTTTAGGGCAATCTTTGCC-TTTCTTATTTTGTATATAGTTGTAAATATGAATTCTTACTAT
9690201 -A
123 GA
* * * *
9690202 TTTACTATATATTGCATATATGCATCAATGTAAACATCATTGTATGTACATTATTCCATTTGTTT
1 TTTACTATATATTGCATACATACATCCATGTAAACATCATTGTATGTACATTATTCCATTTTTTT
* * *
9690267 GGGGCAATCTTTGCCTTTCCTATTTTGTATATAGTTGTGAATATGAATTCTTACTATG
66 AGGGCAATCTTTGCCTTTCTTATTTTGTATATAGTTGTAAATATGAATTCTTACTATG
9690325 TATTGCATAT
Statistics
Matches: 198, Mismatches: 31, Indels: 35
0.75 0.12 0.13
Matches are distributed among these distances:
117 3 0.02
118 30 0.15
119 3 0.02
120 46 0.23
121 6 0.03
122 2 0.01
123 7 0.04
125 6 0.03
126 2 0.01
127 7 0.04
128 48 0.24
129 3 0.02
130 32 0.16
131 3 0.02
ACGTcount: A:0.28, C:0.12, G:0.12, T:0.47
Consensus pattern (124 bp):
TTTACTATATATTGCATACATACATCCATGTAAACATCATTGTATGTACATTATTCCATTTTTTT
AGGGCAATCTTTGCCTTTCTTATTTTGTATATAGTTGTAAATATGAATTCTTACTATGA
Found at i:9690386 original size:110 final size:111
Alignment explanation
Indices: 9690111--9690425 Score: 280
Period size: 110 Copynumber: 2.8 Consensus size: 111
9690101 ACATACATCC
** * * * *
9690111 ATGTAAACATCTTTGTATATATGTTAATTT-TTTTTTAGGAAAATTTTTGCCGTTT-TAATTTTT
1 ATGTAAACATCTTTGTATATACATTATTTTATTTTTTTGGAAAATCTTTGCC-TTTCT-ATTTTG
* *
9690174 TACATAGTTGTAAATATGAATTTTTATATTTACTATATATTGCATATATGCATCA
64 TACATAGTTGTGAATATGAA----T-TACTTACTATATATTGCATATATG-AT-A
* * ** * **
9690229 ATGTAAACATCATTGTATGTACATTATTCCATTTGTTTGGGGCAATCTTTGCCTTTCCTATTTTG
1 ATGTAAACATCTTTGTATATACATTATTTTATTT-TTTTGGAAAATCTTTGCCTTT-CTATTTTG
* *
9690294 TATATAGTTGTGAATATGAATT-CTTACTATGTATTGCATATATG-T-
64 TACATAGTTGTGAATATGAATTACTTACTATATATTGCATATATGATA
** *
9690339 ATGTAAACATCTTTGTATATACATTATTTTATTTTTTTGGAAAAATCTTTGTAATTTCAATTTTG
1 ATGTAAACATCTTTGTATATACATTATTTTATTTTTTTGG-AAAATCTTTG-CCTTTCTATTTTG
* *
9690404 TACATAGTTTTGAATATTAATT
64 TACATAGTTGTGAATATGAATT
9690426 TTTGTTTTCA
Statistics
Matches: 162, Mismatches: 29, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
109 5 0.03
110 64 0.40
111 3 0.02
112 1 0.01
114 20 0.12
115 1 0.01
116 1 0.01
118 23 0.14
119 6 0.04
120 37 0.23
121 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.12, T:0.50
Consensus pattern (111 bp):
ATGTAAACATCTTTGTATATACATTATTTTATTTTTTTGGAAAATCTTTGCCTTTCTATTTTGTA
CATAGTTGTGAATATGAATTACTTACTATATATTGCATATATGATA
Found at i:9690488 original size:133 final size:131
Alignment explanation
Indices: 9690339--9690597 Score: 351
Period size: 133 Copynumber: 2.0 Consensus size: 131
9690329 GCATATATGT
* * * *
9690339 ATGTAAACATCTTTGTATATACATTATTTTATTTTTTTGGAAAAATCTTTG-TAATTTCAATTTT
1 ATGTAAACATCTTTGTATATACATTATTTCATTTGTTTGAAAAAATATTTGCT-ATTT-AATTTT
* ** *
9690403 GTACATAGTTTTGAATATTAATTTTTG-TTTTCATTTATATATTGTATACATGTATTTACATATA
64 GTACATAGTTTTGAATATGAATTTTTGCCGTT-A-TTATATATTGCATACATGTATTTACATATA
9690467 GATCC
127 GATCC
* * * *
9690472 ATGTAAACATTTTTGTATGTACGTTATTTCATTTGTTTGAAAAAATATTTGCTGTTTAATTTTGT
1 ATGTAAACATCTTTGTATATACATTATTTCATTTGTTTGAAAAAATATTTGCTATTTAATTTTGT
*
9690537 ACATAGTTTTGAATATGAATTTTTGCCGTTATTATATATTGCATATATGTATTTACATATA
66 ACATAGTTTTGAATATGAATTTTTGCCGTTATTATATATTGCATACATGTATTTACATATA
9690598 CATTTTTGTA
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
131 28 0.25
132 33 0.30
133 49 0.44
134 1 0.01
ACGTcount: A:0.31, C:0.08, G:0.11, T:0.51
Consensus pattern (131 bp):
ATGTAAACATCTTTGTATATACATTATTTCATTTGTTTGAAAAAATATTTGCTATTTAATTTTGT
ACATAGTTTTGAATATGAATTTTTGCCGTTATTATATATTGCATACATGTATTTACATATAGATC
C
Found at i:9691801 original size:9 final size:9
Alignment explanation
Indices: 9691787--9691826 Score: 53
Period size: 9 Copynumber: 4.1 Consensus size: 9
9691777 CAAAAACATG
9691787 AAGAAAAAA
1 AAGAAAAAA
9691796 AAGAAAAAA
1 AAGAAAAAA
9691805 AGAGAATAAAA
1 A-AGAA-AAAA
9691816 AATGAAAAAA
1 AA-GAAAAAA
9691826 A
1 A
9691827 CATGTTCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
9 10 0.36
10 10 0.36
11 8 0.29
ACGTcount: A:0.82, C:0.00, G:0.12, T:0.05
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:9691804 original size:22 final size:24
Alignment explanation
Indices: 9691778--9691830 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
9691768 GTCAAGATGC
9691778 AAAAACATGAAGAA-AAAAAA-G-A
1 AAAAACATG-AGAATAAAAAATGAA
9691800 AAAAA-A-GAGAATAAAAAATGAA
1 AAAAACATGAGAATAAAAAATGAA
9691822 AAAAACATG
1 AAAAACATG
9691831 TTCTAAGAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
19 4 0.15
20 7 0.27
21 2 0.08
22 11 0.42
23 1 0.04
24 1 0.04
ACGTcount: A:0.75, C:0.04, G:0.13, T:0.08
Consensus pattern (24 bp):
AAAAACATGAGAATAAAAAATGAA
Found at i:9693350 original size:23 final size:23
Alignment explanation
Indices: 9693322--9693368 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
9693312 GTTTAAGAAT
*
9693322 TGCATTTGATTCATAGTATGACA
1 TGCATTTGAATCATAGTATGACA
*
9693345 TGCATTTGAATCATAGTGTGACA
1 TGCATTTGAATCATAGTATGACA
9693368 T
1 T
9693369 TTGTATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.30, C:0.13, G:0.19, T:0.38
Consensus pattern (23 bp):
TGCATTTGAATCATAGTATGACA
Found at i:9693674 original size:46 final size:44
Alignment explanation
Indices: 9693624--9693862 Score: 164
Period size: 46 Copynumber: 5.3 Consensus size: 44
9693614 AATGAGAATA
9693624 TTTGAAATTTTGGATGTGAATCTTTAAAATTTTTTAAGTATAAATC
1 TTTGAAATTTTGGATGTGAATCTTT-AAATTTTTTAA-TATAAATC
* * * ** * * *
9693670 TTTGAAATTGTGGTTGTGAAAT-ATTAAAGTTTTCAAATGTGAATT
1 TTTGAAATTTTGGATGTG-AATCTTTAAA-TTTTTTAATATAAATC
* * * * * * *
9693715 TTTGAAAATTTGGATTTGAATCTCTAAAATTTTTCGAATTTGAATA
1 TTTGAAATTTTGGATGTGAATCT-TTAAATTTTT-TAATATAAATC
* *
9693761 TTTGAAATTTTGGATGTGAATCCTTAAATTTTTTGAATGA-ATATC
1 TTTGAAATTTTGGATGTGAATCTTTAAATTTTTT-AAT-ATAAATC
* * * *
9693806 TTT-AATTTTTGGATGTGAACCTCT-AATTTTATTGAATAAAAATC
1 TTTGAAATTTTGGATGTGAATCTTTAAATTTT-TT-AATATAAATC
9693850 TTTG-AATTTTGGA
1 TTTGAAATTTTGGA
9693863 GTAGAGTTTT
Statistics
Matches: 150, Mismatches: 33, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
43 7 0.05
44 41 0.27
45 43 0.29
46 56 0.37
47 3 0.02
ACGTcount: A:0.33, C:0.05, G:0.15, T:0.46
Consensus pattern (44 bp):
TTTGAAATTTTGGATGTGAATCTTTAAATTTTTTAATATAAATC
Found at i:9693788 original size:91 final size:91
Alignment explanation
Indices: 9693608--9693780 Score: 222
Period size: 91 Copynumber: 1.9 Consensus size: 91
9693598 ATGAGTTTTT
* * * * *
9693608 TTTTCGAATGAGAATATTTGAAATTTTGGATGTGAATCTTTAAAATTTTTTAAGTATAAATCTTT
1 TTTTCAAATGAGAATATTTGAAAATTTGGATGTGAATCTCTAAAATTTTTGAAGTATAAATATTT
*
9693673 GAAATTGTGGTTGTGAAATATTAAAG
66 GAAATTGTGGATGTGAAATATTAAAG
* * * * *
9693699 TTTTCAAATGTGAATTTTTGAAAATTTGGATTTGAATCTCTAAAATTTTTCGAA-TTTGAATATT
1 TTTTCAAATGAGAATATTTGAAAATTTGGATGTGAATCTCTAAAATTTTT-GAAGTATAAATATT
*
9693763 TGAAATTTTGGATGTGAA
65 TGAAATTGTGGATGTGAA
9693781 TCCTTAAATT
Statistics
Matches: 69, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
91 67 0.97
92 2 0.03
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.45
Consensus pattern (91 bp):
TTTTCAAATGAGAATATTTGAAAATTTGGATGTGAATCTCTAAAATTTTTGAAGTATAAATATTT
GAAATTGTGGATGTGAAATATTAAAG
Found at i:9693824 original size:23 final size:23
Alignment explanation
Indices: 9693723--9693824 Score: 77
Period size: 22 Copynumber: 4.5 Consensus size: 23
9693713 TTTTTGAAAA
* * *
9693723 TTTGGATTTGAATCTCTAAAATT
1 TTTGGATGTGAATATCTTAAATT
* *
9693746 TTTCGAATTTGAATAT-TTGAAA-T
1 TTT-GGATGTGAATATCTT-AAATT
*
9693769 TTTGGATGTGAAT-CCTTAAATT
1 TTTGGATGTGAATATCTTAAATT
* * *
9693791 TTTTGA-ATGAATATCTTTAATT
1 TTTGGATGTGAATATCTTAAATT
9693813 TTTGGATGTGAA
1 TTTGGATGTGAA
9693825 CCTCTAATTT
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
21 8 0.13
22 28 0.46
23 12 0.20
24 13 0.21
ACGTcount: A:0.30, C:0.06, G:0.16, T:0.48
Consensus pattern (23 bp):
TTTGGATGTGAATATCTTAAATT
Found at i:9693824 original size:44 final size:44
Alignment explanation
Indices: 9693723--9693859 Score: 136
Period size: 44 Copynumber: 3.0 Consensus size: 44
9693713 TTTTTGAAAA
* * * * *
9693723 TTTGGATTTGAATCTCTAAAATTTTTCGAATTTGAATAT-TTGAAAT
1 TTTGGATGTGAATC-CTTAAATTTTTTGAA--TGAATATCTTTAATT
9693769 TTTGGATGTGAATCCTTAAATTTTTTGAATGAATATCTTTAATT
1 TTTGGATGTGAATCCTTAAATTTTTTGAATGAATATCTTTAATT
* *
9693813 TTTGGATGTGAA-CCTCT-AATTTTATTGAATAAAAATCTTTGAATT
1 TTTGGATGTGAATCCT-TAAATTTT-TTGAATGAATATCTTT-AATT
9693858 TT
1 TT
9693860 GGAGTAGAGT
Statistics
Matches: 80, Mismatches: 7, Indels: 9
0.83 0.07 0.09
Matches are distributed among these distances:
43 16 0.20
44 32 0.40
45 19 0.24
46 13 0.16
ACGTcount: A:0.31, C:0.07, G:0.13, T:0.48
Consensus pattern (44 bp):
TTTGGATGTGAATCCTTAAATTTTTTGAATGAATATCTTTAATT
Found at i:9694048 original size:18 final size:18
Alignment explanation
Indices: 9694015--9694049 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9694005 CTTGTGAATC
*
9694015 TTTAAATTCTTGCAAATA
1 TTTAAATTCTTACAAATA
*
9694033 TTTAAATTTTTACAAAT
1 TTTAAATTCTTACAAAT
9694050 CTGAAAGTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.49
Consensus pattern (18 bp):
TTTAAATTCTTACAAATA
Found at i:9694174 original size:35 final size:35
Alignment explanation
Indices: 9694135--9694203 Score: 95
Period size: 35 Copynumber: 2.0 Consensus size: 35
9694125 AATCCTTATG
* * *
9694135 AATAT-AAAATTCTTATGAATCTTTGAATTCTTACA
1 AATATGAAAA-TCTCATAAATCTATGAATTCTTACA
9694170 AATATGAAAATCTCATAAATCTATGAATTCTTAC
1 AATATGAAAATCTCATAAATCTATGAATTCTTAC
9694204 GCATCTTAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
35 26 0.87
36 4 0.13
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (35 bp):
AATATGAAAATCTCATAAATCTATGAATTCTTACA
Found at i:9694383 original size:35 final size:33
Alignment explanation
Indices: 9694326--9694390 Score: 78
Period size: 35 Copynumber: 1.9 Consensus size: 33
9694316 CTTTTATGAA
* *
9694326 TTCTTACGAATCTAAAAGTCTTGCTAATATTTGAG
1 TTCTTACAAAACTAAAAGTCTTG-TAA-ATTTGAG
9694361 TTCTTACAAAACTGAAAA-TCTTGTAAATTT
1 TTCTTACAAAACT-AAAAGTCTTGTAAATTT
9694391 AAAAATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 4 0.15
34 3 0.11
35 16 0.59
36 4 0.15
ACGTcount: A:0.35, C:0.14, G:0.11, T:0.40
Consensus pattern (33 bp):
TTCTTACAAAACTAAAAGTCTTGTAAATTTGAG
Found at i:9694556 original size:17 final size:16
Alignment explanation
Indices: 9694536--9694576 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 16
9694526 GAAATCTTAA
9694536 TGAATTTGAAACCTTTG
1 TGAATTTG-AACCTTTG
*
9694553 TGAATTTTGAATCTTTG
1 TGAA-TTTGAACCTTTG
9694570 TGAATTT
1 TGAATTT
9694577 TGAGATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 3 0.14
17 15 0.68
18 4 0.18
ACGTcount: A:0.27, C:0.07, G:0.17, T:0.49
Consensus pattern (16 bp):
TGAATTTGAACCTTTG
Found at i:9695590 original size:12 final size:11
Alignment explanation
Indices: 9695541--9695591 Score: 52
Period size: 12 Copynumber: 4.5 Consensus size: 11
9695531 TATAATTATA
9695541 ATTTTGATTTT
1 ATTTTGATTTT
9695552 GATTTTGATTTT
1 -ATTTTGATTTT
*
9695564 -TTTAG-TTTT
1 ATTTTGATTTT
9695573 AGTTTTGATTCTT
1 A-TTTTGATT-TT
9695586 ATTTTG
1 ATTTTG
9695592 TGATTCATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
9 4 0.12
10 4 0.12
11 4 0.12
12 18 0.55
13 3 0.09
ACGTcount: A:0.16, C:0.02, G:0.14, T:0.69
Consensus pattern (11 bp):
ATTTTGATTTT
Found at i:9696546 original size:14 final size:14
Alignment explanation
Indices: 9696527--9696553 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9696517 CAAAATCTTG
9696527 AATTAAATCTTACC
1 AATTAAATCTTACC
9696541 AATTAAATCTTAC
1 AATTAAATCTTAC
9696554 TAAACTAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.37
Consensus pattern (14 bp):
AATTAAATCTTACC
Done.