Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A04
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: 82679320
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4050000 characters in sequence are not A, C, G, or T
File 211 of 255
Found at i:70652496 original size:15 final size:15
Alignment explanation
Indices: 70652476--70652504 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
70652466 TCAAATTTCA
70652476 AAAAAATAAAAATTT
1 AAAAAATAAAAATTT
70652491 AAAAAATAAAAATT
1 AAAAAATAAAAATT
70652505 GCATTTTGAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAAATAAAAATTT
Found at i:70652563 original size:30 final size:29
Alignment explanation
Indices: 70652500--70652613 Score: 117
Period size: 30 Copynumber: 3.9 Consensus size: 29
70652490 TAAAAAATAA
* *
70652500 AAATTGCATTTTGACCCCTAAACTTT-TCCT
1 AAATTTCATTTTGA-CCCTAAACTTTCT-TT
70652530 AAATTTCATTTTGACCCTTAAACTTTCTTT
1 AAATTTCATTTTGACCC-TAAACTTTCTTT
* * *
70652560 AAATTTCACTTAGACCCT-AACTTTCATT
1 AAATTTCATTTTGACCCTAAACTTTCTTT
* *
70652588 AAATTTCA-TTTAACCCTAAATTTTCT
1 AAATTTCATTTTGACCCTAAACTTTCT
70652614 AAAAATTACA
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
27 7 0.10
28 23 0.32
29 4 0.06
30 37 0.51
31 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.04, T:0.44
Consensus pattern (29 bp):
AAATTTCATTTTGACCCTAAACTTTCTTT
Found at i:70652590 original size:28 final size:28
Alignment explanation
Indices: 70652529--70652606 Score: 104
Period size: 28 Copynumber: 2.8 Consensus size: 28
70652519 AAACTTTTCC
* *
70652529 TAAATTTCATTTTGACCCTTAAACTTTCTT
1 TAAATTTCATTTAGACCC-T-AACTTTCAT
*
70652559 TAAATTTCACTTAGACCCTAACTTTCAT
1 TAAATTTCATTTAGACCCTAACTTTCAT
70652587 TAAATTTCATTTA-ACCCTAA
1 TAAATTTCATTTAGACCCTAA
70652607 ATTTTCTAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
27 7 0.16
28 20 0.45
29 1 0.02
30 16 0.36
ACGTcount: A:0.32, C:0.22, G:0.03, T:0.44
Consensus pattern (28 bp):
TAAATTTCATTTAGACCCTAACTTTCAT
Found at i:70652612 original size:28 final size:27
Alignment explanation
Indices: 70652515--70652613 Score: 101
Period size: 28 Copynumber: 3.5 Consensus size: 27
70652505 GCATTTTGAC
* *
70652515 CCCTAAACTTTTCCTAAATTTCATTTTGA
1 CCCTAAAC-TTTCTTAAATTTCA-TTTAA
*
70652544 CCCTTAAACTTTCTTTAAATTTCACTTAGA
1 CCC-TAAACTTTC-TTAAATTTCATTTA-A
70652574 CCCT-AACTTTCATTAAATTTCATTTAA
1 CCCTAAACTTTC-TTAAATTTCATTTAA
*
70652601 CCCTAAATTTTCT
1 CCCTAAACTTTCT
70652614 AAAAATTACA
Statistics
Matches: 60, Mismatches: 6, Indels: 10
0.79 0.08 0.13
Matches are distributed among these distances:
27 6 0.10
28 26 0.43
29 10 0.17
30 18 0.30
ACGTcount: A:0.29, C:0.24, G:0.02, T:0.44
Consensus pattern (27 bp):
CCCTAAACTTTCTTAAATTTCATTTAA
Found at i:70652619 original size:28 final size:28
Alignment explanation
Indices: 70652515--70652625 Score: 93
Period size: 28 Copynumber: 3.9 Consensus size: 28
70652505 GCATTTTGAC
* *
70652515 CCCTAAACTTT-TCCTAAATTTCATTTTGA
1 CCCTAAACTTTCT-ATAAATTTCA-TTTAA
* *
70652544 CCCTTAAACTTTCTTTAAATTTCACTTAGA
1 CCC-TAAACTTTCTATAAATTTCATTTA-A
70652574 CCCT-AACTTTC-ATTAAATTTCATTTAA
1 CCCTAAACTTTCTA-TAAATTTCATTTAA
* * *
70652601 CCCTAAATTTTCTAAAAATTACATT
1 CCCTAAACTTTCTATAAATTTCATT
70652626 AGCCCCAGAA
Statistics
Matches: 68, Mismatches: 8, Indels: 13
0.76 0.09 0.15
Matches are distributed among these distances:
27 5 0.07
28 34 0.50
29 7 0.10
30 21 0.31
31 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.02, T:0.43
Consensus pattern (28 bp):
CCCTAAACTTTCTATAAATTTCATTTAA
Found at i:70652986 original size:19 final size:19
Alignment explanation
Indices: 70652959--70653010 Score: 74
Period size: 19 Copynumber: 2.9 Consensus size: 19
70652949 GCTCGTTTTG
*
70652959 AAGAGAAGAAGAAG-GA-A
1 AAGAGAAGAAGAAGAAAGA
70652976 AAGA-AAGAAGAAGAAAGA
1 AAGAGAAGAAGAAGAAAGA
70652994 AAGAGAAGAAGAAGAAA
1 AAGAGAAGAAGAAGAAA
70653011 AAAAAAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
16 9 0.29
17 5 0.16
18 5 0.16
19 12 0.39
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (19 bp):
AAGAGAAGAAGAAGAAAGA
Found at i:70653019 original size:19 final size:19
Alignment explanation
Indices: 70652974--70653019 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
70652964 AAGAAGAAGG
*
70652974 AAAAGAAAGAAGAAGAAAGA
1 AAAAG-AAGAAGAAGAAAAA
*
70652994 AAGAGAAGAAGAAGAAAAA
1 AAAAGAAGAAGAAGAAAAA
70653013 AAAAGAA
1 AAAAGAA
70653020 AAAAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAAAGAAGAAGAAGAAAAA
Found at i:70653315 original size:15 final size:14
Alignment explanation
Indices: 70653295--70653360 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 14
70653285 GCAGCCCAGC
70653295 AGAAAAAAAAAAGGA
1 AGAAAAAAAAAA-GA
70653310 AGAAAAGAAGAAAA-A
1 AGAAAA-AA-AAAAGA
*
70653325 AGAAAAAAAGAAAAAA
1 AG-AAAAAA-AAAAGA
70653341 AGGAAAAAAAAAAGA
1 A-GAAAAAAAAAAGA
70653356 A-AAAA
1 AGAAAA
70653361 GGAAGAAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 12
0.78 0.02 0.21
Matches are distributed among these distances:
13 4 0.09
15 22 0.49
16 14 0.31
17 5 0.11
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AGAAAAAAAAAAGA
Found at i:70653321 original size:8 final size:8
Alignment explanation
Indices: 70653295--70653369 Score: 63
Period size: 8 Copynumber: 9.8 Consensus size: 8
70653285 GCAGCCCAGC
70653295 AGAAAA-A
1 AGAAAAGA
70653302 A-AAAAGGA
1 AGAAAA-GA
70653310 AGAAAAGA
1 AGAAAAGA
70653318 AGAAAA-A
1 AGAAAAGA
*
70653325 AGAAAAAA
1 AGAAAAGA
*
70653333 AGAAAAAA
1 AGAAAAGA
70653341 AGGAAAA-A
1 A-GAAAAGA
70653349 A-AAAAGA
1 AGAAAAGA
70653356 A-AAAAGGA
1 AGAAAA-GA
70653364 AGAAAA
1 AGAAAA
70653370 AGGGGGTTCA
Statistics
Matches: 60, Mismatches: 0, Indels: 14
0.81 0.00 0.19
Matches are distributed among these distances:
6 8 0.13
7 14 0.23
8 25 0.42
9 13 0.22
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (8 bp):
AGAAAAGA
Found at i:70653322 original size:23 final size:22
Alignment explanation
Indices: 70653295--70653370 Score: 91
Period size: 23 Copynumber: 3.3 Consensus size: 22
70653285 GCAGCCCAGC
70653295 AGAAAAAAAAAAGGAAGAAAAGA
1 AGAAAAAAAAAA-GAAGAAAAGA
* *
70653318 AGAAAAAAGAAAAAAAGAAAAAA
1 AGAAAAAA-AAAAGAAGAAAAGA
70653341 AGGAAAAAAAAAAGAA-AAAAGGA
1 A-GAAAAAAAAAAGAAGAAAA-GA
70653364 AGAAAAA
1 AGAAAAA
70653371 GGGGGTTCAA
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
22 10 0.22
23 25 0.54
24 11 0.24
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (22 bp):
AGAAAAAAAAAAGAAGAAAAGA
Found at i:70653343 original size:35 final size:37
Alignment explanation
Indices: 70653300--70653371 Score: 112
Period size: 35 Copynumber: 2.0 Consensus size: 37
70653290 CCAGCAGAAA
* *
70653300 AAAAAAAGGAAGAAAAGAAGAAAAAA-GAA-AAAAAG
1 AAAAAAAGGAAAAAAAAAAGAAAAAAGGAAGAAAAAG
70653335 AAAAAAAGGAAAAAAAAAAGAAAAAAGGAAGAAAAAG
1 AAAAAAAGGAAAAAAAAAAGAAAAAAGGAAGAAAAAG
70653372 GGGGTTCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
35 24 0.73
36 3 0.09
37 6 0.18
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (37 bp):
AAAAAAAGGAAAAAAAAAAGAAAAAAGGAAGAAAAAG
Found at i:70653887 original size:17 final size:17
Alignment explanation
Indices: 70653848--70653893 Score: 76
Period size: 16 Copynumber: 2.8 Consensus size: 17
70653838 TGACACTAAT
*
70653848 GTGTTTCAAAAATTTTC
1 GTGTTTCAAAAATTTCC
70653865 GT-TTTCAAAAATTTCC
1 GTGTTTCAAAAATTTCC
70653881 GTGTTTCAAAAAT
1 GTGTTTCAAAAAT
70653894 NNNNNNNNNN
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.43
Consensus pattern (17 bp):
GTGTTTCAAAAATTTCC
Found at i:70664023 original size:21 final size:21
Alignment explanation
Indices: 70663997--70664037 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
70663987 TATTTTTGAA
70663997 TTATTAATATCATTAATATTG
1 TTATTAATATCATTAATATTG
* *
70664018 TTATTATTATCATTATTATT
1 TTATTAATATCATTAATATT
70664038 ATGTGTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (21 bp):
TTATTAATATCATTAATATTG
Found at i:70668399 original size:23 final size:23
Alignment explanation
Indices: 70668373--70668421 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
70668363 TAAAACATAT
*
70668373 AGATTTCACGTGAAATCTCTTTC
1 AGATTTCACGTGAAATCCCTTTC
*
70668396 AGATTTTACGTGAAATCCCTTTC
1 AGATTTCACGTGAAATCCCTTTC
70668419 AGA
1 AGA
70668422 AAAAAAAAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.20, G:0.14, T:0.37
Consensus pattern (23 bp):
AGATTTCACGTGAAATCCCTTTC
Found at i:70675767 original size:5 final size:5
Alignment explanation
Indices: 70675754--70675792 Score: 69
Period size: 5 Copynumber: 7.8 Consensus size: 5
70675744 CCTTAATCTG
*
70675754 GTCTA GTCTG GTCTA GTCTA GTCTA GTCTA GTCTA GTCT
1 GTCTA GTCTA GTCTA GTCTA GTCTA GTCTA GTCTA GTCT
70675793 CCTTTGTCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.41
Consensus pattern (5 bp):
GTCTA
Found at i:70676889 original size:10 final size:12
Alignment explanation
Indices: 70676856--70676888 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
70676846 TGATGAGCAA
*
70676856 TATTTCACACAT
1 TATTCCACACAT
70676868 TATTCCACACAT
1 TATTCCACACAT
70676880 TATTCCACA
1 TATTCCACA
70676889 TAGTCGTAGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.36
Consensus pattern (12 bp):
TATTCCACACAT
Found at i:70678314 original size:4 final size:4
Alignment explanation
Indices: 70678305--70678330 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
70678295 GGTCTTCAAC
70678305 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
70678331 GTTGCTAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:70679047 original size:18 final size:17
Alignment explanation
Indices: 70679020--70679067 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
70679010 TTTTAATTTT
70679020 TTTTAAATATAAAATATA
1 TTTTAAATATAAAAT-TA
* *
70679038 TTTTATATATTAAATTA
1 TTTTAAATATAAAATTA
* *
70679055 TTGTAAATTTAAA
1 TTTTAAATATAAA
70679068 TTTTATGCAT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
17 11 0.46
18 13 0.54
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (17 bp):
TTTTAAATATAAAATTA
Found at i:70680849 original size:22 final size:22
Alignment explanation
Indices: 70680824--70680904 Score: 83
Period size: 22 Copynumber: 3.7 Consensus size: 22
70680814 ATGGAATTTT
*
70680824 CACTACGGTGCCTACTAATTCG
1 CACTACGGTGCCTATTAATTCG
* * *
70680846 CACTTCGGTGCC-ATTGATTCA
1 CACTACGGTGCCTATTAATTCG
** * *
70680867 CACTTTGGTGCCCATTAATTTG
1 CACTACGGTGCCTATTAATTCG
70680889 CACTACGGTGCCTATT
1 CACTACGGTGCCTATT
70680905 GCTCAAAGTT
Statistics
Matches: 47, Mismatches: 11, Indels: 2
0.78 0.18 0.03
Matches are distributed among these distances:
21 17 0.36
22 30 0.64
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (22 bp):
CACTACGGTGCCTATTAATTCG
Found at i:70683273 original size:89 final size:87
Alignment explanation
Indices: 70683122--70683297 Score: 298
Period size: 89 Copynumber: 2.0 Consensus size: 87
70683112 ATATGATAAA
* *
70683122 TATAAAACTATACCAATACGTCAAAATTTATCAACTACGTAACCACCAACTCATAAATGAGTAAG
1 TATAAAACTATACCAATACCTCAAAATTTATCAACTACGTAACCACAAACTCATAAATGAGTAAG
*
70683187 CTTGTCAACATCATAAATATTTTC
66 CTTATC-A-ATCATAAATATTTTC
*
70683211 TATAAAACTATACCAATGCCTCAAAATTTATCAACTACGTAACCACAAACTCATAAATGAGTAAG
1 TATAAAACTATACCAATACCTCAAAATTTATCAACTACGTAACCACAAACTCATAAATGAGTAAG
70683276 CTTATCAATCATAAATATTTTC
66 CTTATCAATCATAAATATTTTC
70683298 ATTCCTAACA
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
87 15 0.18
88 1 0.01
89 67 0.81
ACGTcount: A:0.43, C:0.21, G:0.06, T:0.30
Consensus pattern (87 bp):
TATAAAACTATACCAATACCTCAAAATTTATCAACTACGTAACCACAAACTCATAAATGAGTAAG
CTTATCAATCATAAATATTTTC
Found at i:70684630 original size:44 final size:44
Alignment explanation
Indices: 70684580--70684671 Score: 184
Period size: 44 Copynumber: 2.1 Consensus size: 44
70684570 AATAGGGGTA
70684580 TTTTGTATTCTATTTCAGGTTGGAGTTGAATTACTCTCTCTTCT
1 TTTTGTATTCTATTTCAGGTTGGAGTTGAATTACTCTCTCTTCT
70684624 TTTTGTATTCTATTTCAGGTTGGAGTTGAATTACTCTCTCTTCT
1 TTTTGTATTCTATTTCAGGTTGGAGTTGAATTACTCTCTCTTCT
70684668 TTTT
1 TTTT
70684672 TCCTATTTCC
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.15, C:0.15, G:0.15, T:0.54
Consensus pattern (44 bp):
TTTTGTATTCTATTTCAGGTTGGAGTTGAATTACTCTCTCTTCT
Found at i:70689612 original size:10 final size:10
Alignment explanation
Indices: 70689597--70689621 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
70689587 AGATATTATT
70689597 TTATTTTTAA
1 TTATTTTTAA
70689607 TTATTTTTAA
1 TTATTTTTAA
70689617 TTATT
1 TTATT
70689622 AAATTAGTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTATTTTTAA
Found at i:70691295 original size:19 final size:19
Alignment explanation
Indices: 70691273--70691310 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
70691263 TACCAACCAA
70691273 CATTTCAAATTCATAATTT
1 CATTTCAAATTCATAATTT
70691292 CATTTCAAATTCATAATTT
1 CATTTCAAATTCATAATTT
70691311 AACATAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (19 bp):
CATTTCAAATTCATAATTT
Found at i:70700327 original size:20 final size:20
Alignment explanation
Indices: 70700302--70700341 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
70700292 AACCACCGAG
*
70700302 GCAATCCATGGTGAGGACAC
1 GCAATCCATGGTGAAGACAC
70700322 GCAATCCATGGTGAAGACAC
1 GCAATCCATGGTGAAGACAC
70700342 CTTCGCAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.25, G:0.28, T:0.15
Consensus pattern (20 bp):
GCAATCCATGGTGAAGACAC
Found at i:70712366 original size:30 final size:31
Alignment explanation
Indices: 70712300--70712368 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
70712290 CAATTGAATC
* * *
70712300 AAATCAAAGTTTTATGTGTATATTTCAACTA
1 AAATCAAACTTTAATGTGTATATTGCAACTA
70712331 AAATCAAACTTTAATGTGTATAGTTGC-AC-A
1 AAATCAAACTTTAATGTGTATA-TTGCAACTA
70712361 AAATCAAA
1 AAATCAAA
70712369 GATTATGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
30 9 0.26
31 22 0.65
32 3 0.09
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (31 bp):
AAATCAAACTTTAATGTGTATATTGCAACTA
Found at i:70718077 original size:20 final size:20
Alignment explanation
Indices: 70718048--70718089 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
70718038 ATTTAGTCAT
*
70718048 TTTTTATTTTTATTTTAATA
1 TTTTTATTTTTAATTTAATA
*
70718068 TTTTTGTTTTTAATTTAATA
1 TTTTTATTTTTAATTTAATA
70718088 TT
1 TT
70718090 ATATTCTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (20 bp):
TTTTTATTTTTAATTTAATA
Found at i:70724522 original size:17 final size:16
Alignment explanation
Indices: 70724502--70724538 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 16
70724492 AAAAATCAAG
70724502 TATTTTTAGAAATTTTT
1 TATTTTTA-AAATTTTT
70724519 TATTTTTTAAAATTTTT
1 TA-TTTTTAAAATTTTT
70724536 TAT
1 TAT
70724539 AACCTTACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 1 0.05
17 12 0.63
18 6 0.32
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (16 bp):
TATTTTTAAAATTTTT
Found at i:70725824 original size:3 final size:3
Alignment explanation
Indices: 70725816--70725887 Score: 135
Period size: 3 Copynumber: 24.0 Consensus size: 3
70725806 CTTCATTTTC
*
70725816 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TTT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
70725864 TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT
70725888 ATTGTATAAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:70732902 original size:19 final size:19
Alignment explanation
Indices: 70732874--70732935 Score: 79
Period size: 19 Copynumber: 3.3 Consensus size: 19
70732864 GCACACATAA
*
70732874 TGCATACTAGCACACGAAG
1 TGCATCCTAGCACACGAAG
* * *
70732893 TGTATCCTAGCATACAAAG
1 TGCATCCTAGCACACGAAG
*
70732912 TGCATCCTAGCACAAGAAG
1 TGCATCCTAGCACACGAAG
70732931 TGCAT
1 TGCAT
70732936 ATTGACGCAT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.35, C:0.24, G:0.19, T:0.21
Consensus pattern (19 bp):
TGCATCCTAGCACACGAAG
Found at i:70741401 original size:17 final size:17
Alignment explanation
Indices: 70741376--70741413 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
70741366 TCATTATTTT
70741376 TTTTCTTTT-TTTGTCAG
1 TTTTCTTTTATTT-TCAG
*
70741393 TTTTGTTTTATTTTCAG
1 TTTTCTTTTATTTTCAG
70741410 TTTT
1 TTTT
70741414 TTTACTTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 16 0.84
18 3 0.16
ACGTcount: A:0.08, C:0.08, G:0.11, T:0.74
Consensus pattern (17 bp):
TTTTCTTTTATTTTCAG
Found at i:70741640 original size:19 final size:20
Alignment explanation
Indices: 70741601--70741641 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
70741591 TTAGTTTCAA
**
70741601 TTAATTTGAATTTTTTTAAT
1 TTAATTTGAATTTTTAAAAT
70741621 TTAATTT-AATTTTTAAAAT
1 TTAATTTGAATTTTTAAAAT
70741640 TT
1 TT
70741642 TGTATTGATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTAATTTGAATTTTTAAAAT
Found at i:70742740 original size:20 final size:20
Alignment explanation
Indices: 70742691--70742843 Score: 96
Period size: 20 Copynumber: 7.5 Consensus size: 20
70742681 ACAATAGAAG
*
70742691 TTATAAATTTTTATAAATTT
1 TTATAATTTTTTATAAATTT
*
70742711 TTATAATTTTTTATGAA-TT
1 TTATAATTTTTTATAAATTT
* * *
70742730 TTATATTTTTTTCTTTACATTTTT
1 TTATA-ATTTTT-TATA-A-ATTT
* *
70742754 TTATACTTTTCTTACAAATTT
1 TTATAATTTT-TTATAAATTT
* * *
70742775 ATAAAATTTTTTATATATTT
1 TTATAATTTTTTATAAATTT
* * **
70742795 TT-TTATATTTCTATTTATTT
1 TTATAAT-TTTTTATAAATTT
*
70742815 CTATAATTTTTTAT-AATTT
1 TTATAATTTTTTATAAATTT
70742834 TTATAATTTT
1 TTATAATTTT
70742844 AAAAAAAATT
Statistics
Matches: 100, Mismatches: 25, Indels: 17
0.70 0.18 0.12
Matches are distributed among these distances:
19 22 0.22
20 47 0.47
21 15 0.15
22 2 0.02
23 6 0.06
24 8 0.08
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (20 bp):
TTATAATTTTTTATAAATTT
Found at i:70742829 original size:10 final size:10
Alignment explanation
Indices: 70742691--70742843 Score: 84
Period size: 10 Copynumber: 15.0 Consensus size: 10
70742681 ACAATAGAAG
*
70742691 TTATAAATTT
1 TTATAATTTT
*
70742701 TTATAAATTT
1 TTATAATTTT
70742711 TTATAATTTT
1 TTATAATTTT
70742721 TTATGAATTTT
1 TTAT-AATTTT
* *
70742732 ATAT-TTTTT
1 TTATAATTTT
*
70742741 TCTTTACATTTTT
1 T-TATA-A-TTTT
*
70742754 TTATACTTTT
1 TTATAATTTT
* *
70742764 CTTACAAATTT
1 -TTATAATTTT
* *
70742775 ATAAAATTTT
1 TTATAATTTT
70742785 TTATATATTTT
1 TTATA-ATTTT
70742796 TT-TATATTTCT
1 TTATA-ATTT-T
70742807 ATT-T-A-TTT
1 -TTATAATTTT
*
70742815 CTATAATTTT
1 TTATAATTTT
70742825 TTATAA-TTT
1 TTATAATTTT
70742834 TTATAATTTT
1 TTATAATTTT
70742844 AAAAAAAATT
Statistics
Matches: 112, Mismatches: 18, Indels: 26
0.72 0.12 0.17
Matches are distributed among these distances:
7 1 0.01
8 2 0.02
9 16 0.14
10 58 0.52
11 24 0.21
12 6 0.05
13 5 0.04
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (10 bp):
TTATAATTTT
Found at i:70742842 original size:28 final size:28
Alignment explanation
Indices: 70742788--70742842 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
70742778 AAATTTTTTA
* *
70742788 TATATTTTTTTATATTTCTATTTATTTC
1 TATAATTTTTTATATTTCTATTAATTTC
*
70742816 TATAATTTTTTATAATTTTTA-TAATTT
1 TATAATTTTTTAT-ATTTCTATTAATTT
70742843 TAAAAAAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 17 0.74
29 6 0.26
ACGTcount: A:0.27, C:0.04, G:0.00, T:0.69
Consensus pattern (28 bp):
TATAATTTTTTATATTTCTATTAATTTC
Found at i:70744316 original size:24 final size:25
Alignment explanation
Indices: 70744289--70744344 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
70744279 CTTTTTTTAT
*
70744289 TAAATAAAAAAC-TTTAAAATATAA
1 TAAATAAAAAACATTTAAAACATAA
* *
70744313 TAAATCAAATACATTTAAAACATAA
1 TAAATAAAAAACATTTAAAACATAA
70744338 -AAATAAA
1 TAAATAAA
70744345 TAATAAAACA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 16 0.59
25 11 0.41
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.27
Consensus pattern (25 bp):
TAAATAAAAAACATTTAAAACATAA
Found at i:70744330 original size:25 final size:23
Alignment explanation
Indices: 70744301--70744365 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 23
70744291 AATAAAAAAC
*
70744301 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAAT-AAATACA
70744326 TTTAAAACATAAAAATAAATA-A
1 TTTAAAACATAAAAATAAATACA
70744348 --TAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAATAAATA
70744366 AATAATGGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
19 11 0.28
20 7 0.18
22 1 0.03
23 5 0.13
24 4 0.10
25 11 0.28
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAATAAATACA
Found at i:70749720 original size:21 final size:21
Alignment explanation
Indices: 70749658--70749720 Score: 56
Period size: 21 Copynumber: 2.9 Consensus size: 21
70749648 GAGCTCTTTC
* *
70749658 TTTTATATT-AAAATATTTTT
1 TTTTTTATTAAAAATATTTTA
* *
70749678 TTTGTTTTTTAAAATAAAATTTTA
1 TTT-TTTATT-AAA-AATATTTTA
70749702 TTTTTTATTAAAAATATTT
1 TTTTTTATTAAAAATATTT
70749721 AAATTTATAT
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
20 3 0.09
21 10 0.30
22 3 0.09
23 7 0.21
24 10 0.30
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTTTTATTAAAAATATTTTA
Found at i:70751655 original size:17 final size:17
Alignment explanation
Indices: 70751613--70751658 Score: 65
Period size: 18 Copynumber: 2.6 Consensus size: 17
70751603 ATTACTTTTT
* *
70751613 TAAAAATCTAAAATTAA
1 TAAAAATTTAAAAATAA
70751630 TAAAAAATTTAAAAATAA
1 T-AAAAATTTAAAAATAA
70751648 TAAAAATTTAA
1 TAAAAATTTAA
70751659 TTTATTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 11 0.42
18 15 0.58
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAAATTTAAAAATAA
Found at i:70754666 original size:19 final size:19
Alignment explanation
Indices: 70754642--70754681 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
70754632 AACAAATCCT
70754642 TCACTGTTTCTGGCTACTA
1 TCACTGTTTCTGGCTACTA
*
70754661 TCACTGTTTTTGGCTACTA
1 TCACTGTTTCTGGCTACTA
70754680 TC
1 TC
70754682 CCAGAGGCCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.25, G:0.15, T:0.45
Consensus pattern (19 bp):
TCACTGTTTCTGGCTACTA
Found at i:70757998 original size:21 final size:21
Alignment explanation
Indices: 70757972--70758012 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
70757962 AGACGAGCAA
* *
70757972 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
70757993 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
70758013 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:70771679 original size:10 final size:9
Alignment explanation
Indices: 70771656--70771683 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
70771646 AACTATGAAA
70771656 TAAAAAATT
1 TAAAAAATT
70771665 TAAAAAATT
1 TAAAAAATT
70771674 TAAAAAATT
1 TAAAAAATT
70771683 T
1 T
70771684 TCAAATTTAT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (9 bp):
TAAAAAATT
Found at i:70771913 original size:20 final size:19
Alignment explanation
Indices: 70771872--70771924 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 19
70771862 TTGAGAGCTT
70771872 TTTGAG-AATTGTGAGAAA
1 TTTGAGAAATTGTGAGAAA
70771890 TTTGAGAAATTAG-GAGAGAA
1 TTTGAGAAATT-GTGAGA-AA
*
70771910 TTTGTGAAAATTGTG
1 TTTGAG-AAATTGTG
70771925 TGTGGAGGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
18 6 0.21
19 8 0.28
20 9 0.31
21 6 0.21
ACGTcount: A:0.38, C:0.00, G:0.28, T:0.34
Consensus pattern (19 bp):
TTTGAGAAATTGTGAGAAA
Found at i:70776923 original size:100 final size:101
Alignment explanation
Indices: 70776794--70776992 Score: 328
Period size: 100 Copynumber: 2.0 Consensus size: 101
70776784 CCATGGCTTT
* * *
70776794 ACCATGGTCTTACATTCGTAGTGCCATAACCTAGTTATGGTCTTATCATCA-AATGCCATAGCCC
1 ACCATGGTCTTACATCCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCC
70776858 AACTATGGTCTTACATATAAACACTGCCATGGTCCA
66 AACTATGGTCTTACATATAAACACTGCCATGGTCCA
* * * *
70776894 ACCATGGTCTTACGTCCATAGTGCTATAACCCAGTTATGGTCTTATCATCAGAATTCCATAGCCT
1 ACCATGGTCTTACATCCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCC
70776959 AACTATGGTCTTACATATAAACACTGCCATGGTC
66 AACTATGGTCTTACATATAAACACTGCCATGGTC
70776993 TTACGTGCGA
Statistics
Matches: 91, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
100 46 0.51
101 45 0.49
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.31
Consensus pattern (101 bp):
ACCATGGTCTTACATCCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCC
AACTATGGTCTTACATATAAACACTGCCATGGTCCA
Found at i:70788778 original size:79 final size:77
Alignment explanation
Indices: 70788676--70788899 Score: 254
Period size: 79 Copynumber: 2.8 Consensus size: 77
70788666 GCTCCTCGTT
*
70788676 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
1 CAAATGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG
70788741 ATTTAATAACTCGCA
64 ATTT-ATAACTCGCA
* *
70788756 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAACCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGG-
* *
70788820 ATTTGTATCTCGCA
64 ATTTATAACTCGCA
* * * * * * *
70788834 CAAATGCCTTCGGATCTTAGTCCAGATATTGTCACTTAGCACAAA-GCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGG-GCTTAG-CCCGGTATAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCG
70788898 GA
63 GA
70788900 CATCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
78 32 0.26
79 57 0.46
80 35 0.28
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
TTATAACTCGCA
Found at i:70788793 original size:39 final size:40
Alignment explanation
Indices: 70788676--70788899 Score: 253
Period size: 40 Copynumber: 5.7 Consensus size: 40
70788666 GCTCCTCGTT
* *
70788676 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
70788716 CAAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
70788756 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
70788795 CAAATGCCTTCGGG-CTTAACCCGGAATTTGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * * *
70788834 CAAATGCCTTC-GGATCTTAGTCCAGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
70788875 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
70788900 CATCATTCAA
Statistics
Matches: 161, Mismatches: 17, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 69 0.43
40 74 0.46
41 16 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:70796721 original size:77 final size:77
Alignment explanation
Indices: 70796606--70796826 Score: 229
Period size: 77 Copynumber: 2.8 Consensus size: 77
70796596 GCTCCTCGTT
* *
70796606 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGACTTA-ACCG
1 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGACCG
*
70796669 GATTTAATAACTCGCA
63 GAATT-ATAACTCGCA
*
70796685 C-AATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGG-CTTAGCCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTA-CTCGCACAAATGCCTTCGGGACTTAGACCGGA
* *
70796748 ATTGTATCTCGCA
65 ATTATAACTCGCA
* * * *
70796761 CAAATGCCTTCGGATCTTAGTCCGGATATT-GTCACTTAGCACAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGG-GCTTAGCCCGGA-ATTAGT-AC-TCGCACAAATGCCTTCGGGACTTAGACC
70796824 GGA
62 GGA
70796827 CATCATTCAA
Statistics
Matches: 124, Mismatches: 9, Indels: 18
0.82 0.06 0.12
Matches are distributed among these distances:
76 14 0.11
77 51 0.41
78 35 0.28
79 24 0.19
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (77 bp):
CAAATGCCTTCGGGCTTAGCCCGGAATTAGTACTCGCACAAATGCCTTCGGGACTTAGACCGGAA
TTATAACTCGCA
Found at i:70796738 original size:39 final size:40
Alignment explanation
Indices: 70796606--70796826 Score: 253
Period size: 39 Copynumber: 5.7 Consensus size: 40
70796596 GCTCCTCGTT
* *
70796606 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* * *
70796646 CAAATGCCTTCGGGACTTA-ACCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
70796685 C-AATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
70796723 CAAATGCCTTCGGG-CTTAGCCCGGAATT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
70796761 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
70796802 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
70796827 CATCATTCAA
Statistics
Matches: 161, Mismatches: 12, Indels: 16
0.85 0.06 0.08
Matches are distributed among these distances:
37 6 0.04
38 50 0.31
39 52 0.32
40 42 0.26
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:70799307 original size:46 final size:46
Alignment explanation
Indices: 70799240--70799358 Score: 159
Period size: 46 Copynumber: 2.6 Consensus size: 46
70799230 TCCGAGCTTA
* * *
70799240 TTGAGTCGAGTCCGAGTTCACTTATGGATGCAAATGTCC-AAGTTCG
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG-CCTAAGCTCG
** *
70799286 TTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCTGAGCTCG
1 TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCTAAGCTCG
*
70799332 TTGAGTTGAGTCCGAGTTCGCTTATGG
1 TTGAGTTGAGTCCGAGTTCACTTATGG
70799359 GCGGGTTACA
Statistics
Matches: 65, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
45 2 0.03
46 63 0.97
ACGTcount: A:0.20, C:0.18, G:0.29, T:0.32
Consensus pattern (46 bp):
TTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCTAAGCTCG
Found at i:70800796 original size:36 final size:36
Alignment explanation
Indices: 70800756--70800860 Score: 106
Period size: 36 Copynumber: 2.9 Consensus size: 36
70800746 CTACATTGGC
70800756 CAGTAAAATCGACAAATGAGTGTGCCCAGCACTGGT
1 CAGTAAAATCGACAAATGAGTGTGCCCAGCACTGGT
* * * * *
70800792 CAGTATAA-CTGACAAATAAGTGCGCCCTGCGCTGGT
1 CAGTAAAATC-GACAAATGAGTGTGCCCAGCACTGGT
* * *
70800828 CGGTAAAATCGA-AAATTGAGTGTTCTCAGCACT
1 CAGTAAAATCGACAAA-TGAGTGTGCCCAGCACT
70800861 AGTCGATATA
Statistics
Matches: 53, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
35 4 0.08
36 48 0.91
37 1 0.02
ACGTcount: A:0.31, C:0.22, G:0.24, T:0.23
Consensus pattern (36 bp):
CAGTAAAATCGACAAATGAGTGTGCCCAGCACTGGT
Found at i:70800834 original size:72 final size:71
Alignment explanation
Indices: 70800758--70800915 Score: 221
Period size: 72 Copynumber: 2.2 Consensus size: 71
70800748 ACATTGGCCA
* * *
70800758 GTAAAATCGACAAATGAGTGTGCCCAGCACTGGTC-AGTATAACTGACAAATAAGTGCGCCCTGC
1 GTAAAATCGACAAATGAGTGTGCCCAGCACTAGTCGA-TATAACTAACAAATAAGTACGCCCT-C
70800822 GCTGGTCG
64 GCTGGTCG
* *
70800830 GTAAAATCGA-AAATTGAGTGTTCTCAGCACTAGTCGATATAACTAACAAATAAGTACGCCCTCG
1 GTAAAATCGACAAA-TGAGTGTGCCCAGCACTAGTCGATATAACTAACAAATAAGTACGCCCTCG
*
70800894 TTGGTCG
65 CTGGTCG
70800901 GTAAAATCGACAAAT
1 GTAAAATCGACAAAT
70800916 AAATGTTCAT
Statistics
Matches: 77, Mismatches: 6, Indels: 7
0.86 0.07 0.08
Matches are distributed among these distances:
71 22 0.29
72 54 0.70
73 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.22, T:0.23
Consensus pattern (71 bp):
GTAAAATCGACAAATGAGTGTGCCCAGCACTAGTCGATATAACTAACAAATAAGTACGCCCTCGC
TGGTCG
Found at i:70801023 original size:2 final size:2
Alignment explanation
Indices: 70801016--70801054 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
70801006 AAACAAAGTA
70801016 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
70801055 TATATAAGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:70801498 original size:23 final size:23
Alignment explanation
Indices: 70801437--70801508 Score: 74
Period size: 23 Copynumber: 3.2 Consensus size: 23
70801427 AAATGTCTAG
*
70801437 CTTT-GACAACACTTAAAACATG
1 CTTTGGACAACACTTAAAACATA
** *
70801459 CTTTGGATGACATTTAAAACATA
1 CTTTGGACAACACTTAAAACATA
* * *
70801482 TTTTGGACAACACTTAAATCTTA
1 CTTTGGACAACACTTAAAACATA
70801505 CTTT
1 CTTT
70801509 AATAGCATTT
Statistics
Matches: 38, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 4 0.11
23 34 0.89
ACGTcount: A:0.36, C:0.18, G:0.10, T:0.36
Consensus pattern (23 bp):
CTTTGGACAACACTTAAAACATA
Found at i:70802495 original size:19 final size:19
Alignment explanation
Indices: 70802471--70802508 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
70802461 CCCCTGCACC
70802471 GAGCTTGGAAGATGAAAGA
1 GAGCTTGGAAGATGAAAGA
70802490 GAGCTTGGAAGATGAAAGA
1 GAGCTTGGAAGATGAAAGA
70802509 AATAGGAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.05, G:0.37, T:0.16
Consensus pattern (19 bp):
GAGCTTGGAAGATGAAAGA
Found at i:70802839 original size:17 final size:16
Alignment explanation
Indices: 70802813--70802848 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
70802803 TTTATTATTA
70802813 TTTCTTCTTTTCTCTT
1 TTTCTTCTTTTCTCTT
*
70802829 TTTCTTTCTTTTTTCTT
1 TTTC-TTCTTTTCTCTT
70802846 TTT
1 TTT
70802849 ATAATACTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTCTTCTTTTCTCTT
Found at i:70807673 original size:3 final size:3
Alignment explanation
Indices: 70807667--70807702 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
70807657 CATCATCATC
70807667 ATT ATT ATT GA-T ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT
70807703 GTTACTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 1 0.03
3 29 0.94
4 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:70812376 original size:111 final size:110
Alignment explanation
Indices: 70812237--70812461 Score: 360
Period size: 111 Copynumber: 2.0 Consensus size: 110
70812227 ACATATATAA
* * *
70812237 CCAAAATATCTTAAAAGCTTGAAGAAGAAAAAAGAACAACAATTATTTTTCATTACTGTAGGAGC
1 CCAAAATATCTAAAAAGCTTGAAGAAGAAAAAAGAACAACAATCACTTTTCATTACTGTAGGAGC
* * *
70812302 CATTATTAATATTCAATATAGAACCATCTAATTAAGCAATGAATAT
66 CATTATTAATATTCAATACAGAACCATCT-ATTAAGCAACGAACAT
* * *
70812348 CCAAAATATCTAAAAAGCTTGAAGAAGAAAAAAGAACAATAGTCACTTTTCATTACTGTATGAGC
1 CCAAAATATCTAAAAAGCTTGAAGAAGAAAAAAGAACAACAATCACTTTTCATTACTGTAGGAGC
70812413 CATTATTAATATTCAATACAGAACCATCTATTAAGCAACGAACAT
66 CATTATTAATATTCAATACAGAACCATCTATTAAGCAACGAACAT
70812458 CCAA
1 CCAA
70812462 TATAAACACC
Statistics
Matches: 105, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
110 18 0.17
111 87 0.83
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.28
Consensus pattern (110 bp):
CCAAAATATCTAAAAAGCTTGAAGAAGAAAAAAGAACAACAATCACTTTTCATTACTGTAGGAGC
CATTATTAATATTCAATACAGAACCATCTATTAAGCAACGAACAT
Found at i:70817274 original size:14 final size:14
Alignment explanation
Indices: 70817255--70817332 Score: 54
Period size: 14 Copynumber: 5.4 Consensus size: 14
70817245 AAAAGTAATA
70817255 AAAGAAAGAAAAAG
1 AAAGAAAGAAAAAG
70817269 AAAGAAAGTCAAACAA-
1 AAAGAAAG--AAA-AAG
*
70817285 AATTAGAATG-AAAAG
1 AA--AGAAAGAAAAAG
*
70817300 AAAGGAAGAAAAAG
1 AAAGAAAGAAAAAG
*
70817314 AAA-AAGAAAAAAAG
1 AAAGAA-AGAAAAAG
70817328 AAAGA
1 AAAGA
70817333 GAACCCACGG
Statistics
Matches: 50, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
13 5 0.10
14 28 0.56
15 5 0.10
16 5 0.10
17 2 0.04
18 5 0.10
ACGTcount: A:0.73, C:0.03, G:0.19, T:0.05
Consensus pattern (14 bp):
AAAGAAAGAAAAAG
Found at i:70817328 original size:20 final size:20
Alignment explanation
Indices: 70817295--70817335 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
70817285 AATTAGAATG
**
70817295 AAAAGAAAGGAAGAAAAAGA
1 AAAAGAAAAAAAGAAAAAGA
*
70817315 AAAAGAAAAAAAGAAAGAGA
1 AAAAGAAAAAAAGAAAAAGA
70817335 A
1 A
70817336 CCCACGGCCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (20 bp):
AAAAGAAAAAAAGAAAAAGA
Found at i:70817335 original size:14 final size:15
Alignment explanation
Indices: 70817295--70817335 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
70817285 AATTAGAATG
70817295 AAAAGAAAG-GAAGA
1 AAAAGAAAGAGAAGA
*
70817309 AAAAGAAAAAGAA-A
1 AAAAGAAAGAGAAGA
70817323 AAAAGAAAGAGAA
1 AAAAGAAAGAGAA
70817336 CCCACGGCCT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 21 0.88
15 3 0.12
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (15 bp):
AAAAGAAAGAGAAGA
Found at i:70818079 original size:16 final size:15
Alignment explanation
Indices: 70818058--70818113 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 15
70818048 AGTAGATACA
70818058 TATTGAATGTATCGAT
1 TATTGAATGTAT-GAT
70818074 TATTGAATTGATAT-AT
1 TATTGAA-TG-TATGAT
70818090 TA-TGAATGTATTGAT
1 TATTGAATGTA-TGAT
70818105 TATTTGAAT
1 TA-TTGAAT
70818114 TGAAATGAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 8 0.24
16 11 0.32
17 7 0.21
18 3 0.09
ACGTcount: A:0.34, C:0.02, G:0.16, T:0.48
Consensus pattern (15 bp):
TATTGAATGTATGAT
Found at i:70820837 original size:24 final size:24
Alignment explanation
Indices: 70820810--70820855 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
70820800 AACCAGTGTC
70820810 ACAAAAATATAAATATATCAGAAT
1 ACAAAAATATAAATATATCAGAAT
70820834 ACAAAAATATAAATATATCAGA
1 ACAAAAATATAAATATATCAGA
70820856 CTCAATAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.63, C:0.09, G:0.04, T:0.24
Consensus pattern (24 bp):
ACAAAAATATAAATATATCAGAAT
Found at i:70821502 original size:8 final size:8
Alignment explanation
Indices: 70821460--70821484 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
70821450 ATATAGACTA
70821460 AATAAAAT
1 AATAAAAT
70821468 AATAAAAT
1 AATAAAAT
70821476 AATAAAAT
1 AATAAAAT
70821484 A
1 A
70821485 TCTTATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
AATAAAAT
Found at i:70825948 original size:47 final size:47
Alignment explanation
Indices: 70825896--70826054 Score: 178
Period size: 47 Copynumber: 3.4 Consensus size: 47
70825886 TGATTAGACC
* * *
70825896 ATGGCAAC-GTGTGATATGTGATTTCCGTATAAGACCATAGCTGGGCT
1 ATGGCATCAGTGTGATATGTG-CTTCCGTATAAGACCATAGCTGGGAT
* ** *
70825943 ATGGCATC-GATGTGATATGAGCTTCCGTATAAGACCATATTTGAGAT
1 ATGGCATCAG-TGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
* * * * *
70825990 ATGACATCTGTGTGATATGTGCTTCTGTGTAAGACCATATCTGGGAT
1 ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
70826037 ATGGCATCAGTGTGATAT
1 ATGGCATCAGTGTGATAT
70826055 TTGATCCATG
Statistics
Matches: 95, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
47 84 0.88
48 11 0.12
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (47 bp):
ATGGCATCAGTGTGATATGTGCTTCCGTATAAGACCATAGCTGGGAT
Found at i:70830574 original size:5 final size:5
Alignment explanation
Indices: 70830564--70830589 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
70830554 AATCTGTGTG
70830564 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
70830590 TCACAAATTG
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:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:70836613 original size:48 final size:48
Alignment explanation
Indices: 70836539--70836657 Score: 141
Period size: 48 Copynumber: 2.5 Consensus size: 48
70836529 TCCTAGTATT
* * *
70836539 ATTAGGATTA-CAAAGTTATATTTTATAAATATATATTAGTTAGAACTGA
1 ATTAGGATTATCAAAATTATA--TTATAAATATACATTAGTTAGAACTAA
* * *
70836588 ATTAGGATTATGAAAATTATATTATATATATACCTTAGTTAGAACTAA
1 ATTAGGATTATCAAAATTATATTATAAATATACATTAGTTAGAACTAA
* *
70836636 ATTAGTATCATCAAAATTATAT
1 ATTAGGATTATCAAAATTATAT
70836658 GTAGAGTTCC
Statistics
Matches: 60, Mismatches: 9, Indels: 3
0.83 0.12 0.04
Matches are distributed among these distances:
48 42 0.70
49 10 0.17
50 8 0.13
ACGTcount: A:0.44, C:0.06, G:0.10, T:0.40
Consensus pattern (48 bp):
ATTAGGATTATCAAAATTATATTATAAATATACATTAGTTAGAACTAA
Found at i:70839749 original size:16 final size:16
Alignment explanation
Indices: 70839728--70839766 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
70839718 TTAAATTTAG
70839728 TTTTTAAT-ATTTATAT
1 TTTTTAATAATTTA-AT
*
70839744 TTTTTATTAATTTAAT
1 TTTTTAATAATTTAAT
70839760 TTTTTAA
1 TTTTTAA
70839767 ATTAAATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (16 bp):
TTTTTAATAATTTAAT
Found at i:70839955 original size:18 final size:17
Alignment explanation
Indices: 70839932--70839990 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 17
70839922 TTTTTAACTT
70839932 TTTTAATATATTTTTAAA
1 TTTTAATAT-TTTTTAAA
* **
70839950 TTTTAAAATTTTTTTCA
1 TTTTAATATTTTTTAAA
**
70839967 TTAAAATATTTTTTATAA
1 TTTTAATATTTTTTA-AA
70839985 TTTTAA
1 TTTTAA
70839991 ATTATTTATT
Statistics
Matches: 30, Mismatches: 10, Indels: 2
0.71 0.24 0.05
Matches are distributed among these distances:
17 17 0.57
18 13 0.43
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTAATATTTTTTAAA
Found at i:70842513 original size:25 final size:25
Alignment explanation
Indices: 70842485--70842533 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
70842475 AAAGGGAAAG
70842485 TCCTAATAGAATTCCGAATTTAAAC
1 TCCTAATAGAATTCCGAATTTAAAC
*
70842510 TCCTAATAGAATTCCTAATTTAAA
1 TCCTAATAGAATTCCGAATTTAAA
70842534 GTTTATAAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.41, C:0.18, G:0.06, T:0.35
Consensus pattern (25 bp):
TCCTAATAGAATTCCGAATTTAAAC
Found at i:70847191 original size:25 final size:25
Alignment explanation
Indices: 70847163--70847216 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
70847153 TACAAAGGGG
70847163 AAGTCATAATAGAATTCCTAATTTA
1 AAGTCATAATAGAATTCCTAATTTA
*
70847188 AAGTCCTAATAGAATTCCTAATTTA
1 AAGTCATAATAGAATTCCTAATTTA
70847213 AAGT
1 AAGT
70847217 TTATAAGGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (25 bp):
AAGTCATAATAGAATTCCTAATTTA
Found at i:70850446 original size:26 final size:24
Alignment explanation
Indices: 70850402--70850452 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 24
70850392 CTTTGAACAA
* *
70850402 TTTAATTTTTTTTCTTTTATGTTT
1 TTTAATTTTTTTTCATTTATCTTT
70850426 TTTAACTTTTTTTTCCATTTATCTTT
1 TTTAA-TTTTTTTT-CATTTATCTTT
70850452 T
1 T
70850453 GCTTATCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 8 0.35
26 10 0.43
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTAATTTTTTTTCATTTATCTTT
Found at i:70850452 original size:25 final size:24
Alignment explanation
Indices: 70850402--70850452 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
70850392 CTTTGAACAA
* *
70850402 TTTAATTTTTTTTCTTTTATGTTT
1 TTTAATTTTTTTTCATTTATGCTT
70850426 TTTAACTTTTTTTTCCATTTAT-CTT
1 TTTAA-TTTTTTTT-CATTTATGCTT
70850451 TT
1 TT
70850453 GCTTATCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 5 0.22
25 12 0.52
26 6 0.26
ACGTcount: A:0.14, C:0.10, G:0.02, T:0.75
Consensus pattern (24 bp):
TTTAATTTTTTTTCATTTATGCTT
Found at i:70850707 original size:21 final size:22
Alignment explanation
Indices: 70850681--70850721 Score: 59
Period size: 21 Copynumber: 1.9 Consensus size: 22
70850671 GAATGAAAAA
70850681 TAAAAATAA-ATAAAA-AAAAGT
1 TAAAAA-AACATAAAAGAAAAGT
70850702 TAAAAAAACATAAAAGAAAA
1 TAAAAAAACATAAAAGAAAA
70850722 AAATTAATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 12 0.67
22 4 0.22
ACGTcount: A:0.78, C:0.02, G:0.05, T:0.15
Consensus pattern (22 bp):
TAAAAAAACATAAAAGAAAAGT
Found at i:70850715 original size:25 final size:23
Alignment explanation
Indices: 70850682--70850728 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 23
70850672 AATGAAAAAT
70850682 AAAAATAAATA-AAAAAAAGTTAAA
1 AAAAATAAA-AGAAAAAAA-TTAAA
70850706 AAAACATAAAAGAAAAAAATTAA
1 AAAA-ATAAAAGAAAAAAATTAA
70850729 TTGCTCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.79, C:0.02, G:0.04, T:0.15
Consensus pattern (23 bp):
AAAAATAAAAGAAAAAAATTAAA
Found at i:70852095 original size:20 final size:22
Alignment explanation
Indices: 70852070--70852110 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
70852060 TATATATTTT
70852070 ATTTT-AC-TATTTTAAAAATG
1 ATTTTAACATATTTTAAAAATG
*
70852090 ATTTTAACATTTTTTAAAAAT
1 ATTTTAACATATTTTAAAAAT
70852111 AGTTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 5 0.28
21 2 0.11
22 11 0.61
ACGTcount: A:0.41, C:0.05, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTTTAACATATTTTAAAAATG
Found at i:70852116 original size:21 final size:21
Alignment explanation
Indices: 70852079--70852138 Score: 59
Period size: 20 Copynumber: 2.8 Consensus size: 21
70852069 TATTTTACTA
*
70852079 TTTTAAAAATGATTTTAACATT
1 TTTTAAAAAT-AGTTTAACATT
**
70852101 TTTTAAAAATAGTTT-ATTTT
1 TTTTAAAAATAGTTTAACATT
*
70852121 TTTTCAAAATACGTTTAA
1 TTTTAAAAATA-GTTTAA
70852139 TAAAAATAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 13 0.41
21 8 0.25
22 11 0.34
ACGTcount: A:0.38, C:0.05, G:0.05, T:0.52
Consensus pattern (21 bp):
TTTTAAAAATAGTTTAACATT
Found at i:70852124 original size:20 final size:21
Alignment explanation
Indices: 70852099--70852137 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
70852089 GATTTTAACA
70852099 TTTTTTAAAAATA-GTTTATT
1 TTTTTTAAAAATACGTTTATT
*
70852119 TTTTTTCAAAATACGTTTA
1 TTTTTTAAAAATACGTTTA
70852138 ATAAAAATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.56
Consensus pattern (21 bp):
TTTTTTAAAAATACGTTTATT
Found at i:70856778 original size:9 final size:9
Alignment explanation
Indices: 70856761--70856835 Score: 61
Period size: 9 Copynumber: 8.7 Consensus size: 9
70856751 TGTTCTTTAA
*
70856761 AAAAATTTT
1 AAAATTTTT
70856770 AAAATTTTT
1 AAAATTTTT
70856779 AAAATTTTT
1 AAAATTTTT
* * *
70856788 -GAATATAT
1 AAAATTTTT
70856796 AAAATTTTT
1 AAAATTTTT
70856805 --AATTTTT
1 AAAATTTTT
70856812 ATAAATATTTT
1 A-AAAT-TTTT
70856823 -AAA-TTTT
1 AAAATTTTT
70856830 AAAATT
1 AAAATT
70856836 ATTTGTATTA
Statistics
Matches: 52, Mismatches: 7, Indels: 14
0.71 0.10 0.19
Matches are distributed among these distances:
7 11 0.21
8 8 0.15
9 26 0.50
10 3 0.06
11 4 0.08
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (9 bp):
AAAATTTTT
Found at i:70856784 original size:17 final size:17
Alignment explanation
Indices: 70856762--70856835 Score: 80
Period size: 17 Copynumber: 4.4 Consensus size: 17
70856752 GTTCTTTAAA
*
70856762 AAAATTTTAAAATTTTT
1 AAAATTTTTAAATTTTT
* * *
70856779 AAAATTTTTGAATATAT
1 AAAATTTTTAAATTTTT
70856796 AAAATTTTT-AATTTTT
1 AAAATTTTTAAATTTTT
70856812 ATAAATATTTTAAA-TTTT
1 A-AAAT-TTTTAAATTTTT
70856830 AAAATT
1 AAAATT
70856836 ATTTGTATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
16 7 0.15
17 30 0.62
18 9 0.19
19 2 0.04
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (17 bp):
AAAATTTTTAAATTTTT
Found at i:70856805 original size:26 final size:26
Alignment explanation
Indices: 70856769--70856840 Score: 76
Period size: 26 Copynumber: 2.8 Consensus size: 26
70856759 AAAAAAATTT
70856769 TAAAATTTTTAAAATTTTTGAATATA
1 TAAAATTTTTAAAATTTTTGAATATA
* * *
70856795 TAAAATTTTT-AATTTTTATAAATATT
1 TAAAATTTTTAAAATTTT-TGAATATA
*
70856821 TTAAA-TTTTAAAATTATTTG
1 TAAAATTTTTAAAATT-TTTG
70856841 TATTATTTTG
Statistics
Matches: 37, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
25 10 0.27
26 25 0.68
27 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (26 bp):
TAAAATTTTTAAAATTTTTGAATATA
Found at i:70857306 original size:62 final size:62
Alignment explanation
Indices: 70857229--70857349 Score: 206
Period size: 62 Copynumber: 2.0 Consensus size: 62
70857219 AAATTTCAAG
* * * *
70857229 TTAATCGAATCGAGTTATTCAATTTTTACGAGTCAACTCAAATAAGTAATTCGAGTTTCGAA
1 TTAATCGAATAGAGTTATTCAATTTTTACAAATCAACTCAAATAAGTAATTCAAGTTTCGAA
70857291 TTAATCGAATAGAGTTATTCAATTTTTACAAATCAACTCAAATAAGTAATTCAAGTTTC
1 TTAATCGAATAGAGTTATTCAATTTTTACAAATCAACTCAAATAAGTAATTCAAGTTTC
70857350 AAGTTCGAAT
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.38, C:0.14, G:0.12, T:0.36
Consensus pattern (62 bp):
TTAATCGAATAGAGTTATTCAATTTTTACAAATCAACTCAAATAAGTAATTCAAGTTTCGAA
Found at i:70857343 original size:32 final size:32
Alignment explanation
Indices: 70857245--70857344 Score: 107
Period size: 32 Copynumber: 3.2 Consensus size: 32
70857235 GAATCGAGTT
*
70857245 ATTCAATTTTTACGAGTCAACTCAAATAAGTA
1 ATTCAATTTTTACGAATCAACTCAAATAAGTA
* * * * *
70857277 ATTCGA-GTTT-CGAATTAA-TCGAATAGAGTT
1 ATTCAATTTTTACGAATCAACTCAAATA-AGTA
*
70857307 ATTCAATTTTTACAAATCAACTCAAATAAGTA
1 ATTCAATTTTTACGAATCAACTCAAATAAGTA
70857339 ATTCAA
1 ATTCAA
70857345 GTTTCAAGTT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
29 6 0.12
30 14 0.27
31 6 0.12
32 20 0.38
33 6 0.12
ACGTcount: A:0.41, C:0.14, G:0.10, T:0.35
Consensus pattern (32 bp):
ATTCAATTTTTACGAATCAACTCAAATAAGTA
Found at i:70857762 original size:14 final size:14
Alignment explanation
Indices: 70857745--70857783 Score: 60
Period size: 14 Copynumber: 2.8 Consensus size: 14
70857735 TTAATATTTT
*
70857745 TAATTTAATTCAAA
1 TAATTTAACTCAAA
70857759 TAATTTAACTCAAA
1 TAATTTAACTCAAA
*
70857773 TAATTTCACTC
1 TAATTTAACTC
70857784 GGTTCGATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.44, C:0.15, G:0.00, T:0.41
Consensus pattern (14 bp):
TAATTTAACTCAAA
Found at i:70857921 original size:23 final size:23
Alignment explanation
Indices: 70857875--70857921 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
70857865 GGACTTGGCA
**
70857875 ACTCGATTAACTCAAATTTTTTC
1 ACTCGATTAACTCAAATTAGTTC
70857898 ACTCGATTCAACTC-AATTAGTTC
1 ACTCGATT-AACTCAAATTAGTTC
70857921 A
1 A
70857922 AACACTCACC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 16 0.76
24 5 0.24
ACGTcount: A:0.32, C:0.23, G:0.06, T:0.38
Consensus pattern (23 bp):
ACTCGATTAACTCAAATTAGTTC
Found at i:70858480 original size:12 final size:12
Alignment explanation
Indices: 70858445--70858491 Score: 51
Period size: 12 Copynumber: 3.8 Consensus size: 12
70858435 TGTTTTACGC
*
70858445 TCTCTTCATTTTCA
1 TCTCTTC-TTTT-T
70858459 TCTCTT-TTTTT
1 TCTCTTCTTTTT
*
70858470 TCTTTTCTTTTT
1 TCTCTTCTTTTT
70858482 TCTCTTCTTT
1 TCTCTTCTTT
70858492 CATGCAAATC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 5 0.17
12 18 0.62
14 6 0.21
ACGTcount: A:0.04, C:0.23, G:0.00, T:0.72
Consensus pattern (12 bp):
TCTCTTCTTTTT
Found at i:70858778 original size:16 final size:19
Alignment explanation
Indices: 70858749--70858796 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
70858739 AATTAAAAGA
70858749 AAAAAATCTCAAATTT-C-
1 AAAAAATCTCAAATTTACT
*
70858766 AAAAAAT-TGAAATTTACT
1 AAAAAATCTCAAATTTACT
70858784 AAAAAATC-CAAAT
1 AAAAAATCTCAAAT
70858797 AGTATAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 7 0.27
17 8 0.31
18 11 0.42
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.27
Consensus pattern (19 bp):
AAAAAATCTCAAATTTACT
Found at i:70859282 original size:21 final size:20
Alignment explanation
Indices: 70859258--70859310 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
70859248 TCTTTAAAAA
*
70859258 TATATTATTTTTAATTATTTT
1 TATATT-TTTTTAATAATTTT
* *
70859279 TATAGTCTTTCTAATAATTTT
1 TATA-TTTTTTTAATAATTTT
70859300 TA-ATTTTTTTA
1 TATATTTTTTTA
70859311 CAATTATTGA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 6 0.23
20 1 0.04
21 18 0.69
22 1 0.04
ACGTcount: A:0.28, C:0.04, G:0.02, T:0.66
Consensus pattern (20 bp):
TATATTTTTTTAATAATTTT
Found at i:70860835 original size:41 final size:41
Alignment explanation
Indices: 70860790--70860869 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 41
70860780 AAGAATATCC
* **
70860790 AAAATTAAAATGTGGTATATATAATTGTTTAAAATTAAAGT
1 AAAATTAAAATGTGATATATATAATTGCATAAAATTAAAGT
*
70860831 AAAATTAAAATGTTATATATATAATTGCATAAAATTAAA
1 AAAATTAAAATGTGATATATATAATTGCATAAAATTAAA
70860870 ATTTATGTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.53, C:0.01, G:0.09, T:0.38
Consensus pattern (41 bp):
AAAATTAAAATGTGATATATATAATTGCATAAAATTAAAGT
Found at i:70862611 original size:23 final size:23
Alignment explanation
Indices: 70862579--70862665 Score: 88
Period size: 23 Copynumber: 3.8 Consensus size: 23
70862569 AATTTACACT
*
70862579 GAAGTGCCACTATCACTTTCA-C
1 GAAGTGCCACTATCACTTGCATC
* *
70862601 GGGAGTGCCACTATCGCTTGCATC
1 -GAAGTGCCACTATCACTTGCATC
* *
70862625 GAAGTGCCACTATCA-TTAGGACC
1 GAAGTGCCACTATCACTT-GCATC
*
70862648 GAAGTGCCACTATTACTT
1 GAAGTGCCACTATCACTT
70862666 TTGCCCATGA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
22 2 0.04
23 48 0.91
24 3 0.06
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (23 bp):
GAAGTGCCACTATCACTTGCATC
Found at i:70864122 original size:16 final size:17
Alignment explanation
Indices: 70864090--70864123 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
70864080 TAAAGCTTTA
*
70864090 TTTTAATTTTTTATATG
1 TTTTAATTTTATATATG
70864107 TTTTAATTTTAT-TATG
1 TTTTAATTTTATATATG
70864123 T
1 T
70864124 ACACTTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.71
Consensus pattern (17 bp):
TTTTAATTTTATATATG
Found at i:70864768 original size:12 final size:12
Alignment explanation
Indices: 70864738--70864770 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
70864728 TATTTATTTT
70864738 AAAATT-ATATA
1 AAAATTAATATA
70864749 AAAA-TAATATA
1 AAAATTAATATA
70864760 AAAATTAATAT
1 AAAATTAATAT
70864771 GGGCGGACCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:70866577 original size:30 final size:29
Alignment explanation
Indices: 70866541--70866606 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
70866531 AACATGCCAG
70866541 TGACCAACTTGTAACTTTTGAATAGTTCAA
1 TGACCAACTTGTAACTTTTGAA-AGTTCAA
* * *
70866571 TGACCAATTTGTAACTTTTTAAAGTTGAA
1 TGACCAACTTGTAACTTTTGAAAGTTCAA
*
70866600 TAACCAA
1 TGACCAA
70866607 AATATAAACT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 12 0.38
30 20 0.62
ACGTcount: A:0.36, C:0.15, G:0.12, T:0.36
Consensus pattern (29 bp):
TGACCAACTTGTAACTTTTGAAAGTTCAA
Found at i:70870936 original size:101 final size:101
Alignment explanation
Indices: 70870761--70870965 Score: 347
Period size: 101 Copynumber: 2.0 Consensus size: 101
70870751 TATGCTCTCA
* * *
70870761 TTGATATTGGCTTTACTTACTCGTATATAGCTAGTGTTTTTTCTTTAAATCTGGGTTTAACTGCT
1 TTGATATTGGCTCTACTTACTCGTATATAGCTAGTGTTGTTTCTGTAAATCTGGGTTTAACTGCT
*
70870826 GAGGATACTGCTAAAGAGTTTCCTGTGATTAGTCTG
66 GAGAATACTGCTAAAGAGTTTCCTGTGATTAGTCTG
*
70870862 TTGATATTGGCTCTACTTACTCGTATATAGCTAGTGTTGTTTCTGTAAATCTGGTTTTAACTGCT
1 TTGATATTGGCTCTACTTACTCGTATATAGCTAGTGTTGTTTCTGTAAATCTGGGTTTAACTGCT
* *
70870927 GAGAATACTGCTAGAGAGTTTCCTGTGATTAGTTTG
66 GAGAATACTGCTAAAGAGTTTCCTGTGATTAGTCTG
70870963 TTG
1 TTG
70870966 GGTTAGTCAA
Statistics
Matches: 97, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
101 97 1.00
ACGTcount: A:0.21, C:0.14, G:0.21, T:0.43
Consensus pattern (101 bp):
TTGATATTGGCTCTACTTACTCGTATATAGCTAGTGTTGTTTCTGTAAATCTGGGTTTAACTGCT
GAGAATACTGCTAAAGAGTTTCCTGTGATTAGTCTG
Found at i:70874096 original size:40 final size:40
Alignment explanation
Indices: 70874052--70874131 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
70874042 TTTACGGTAC
* *
70874052 TATTTGGTGTATAGGGTTGGATGGGTCAATTTTATCCCCA
1 TATTTGGTGTATAGGGCTGGATGGGTCAATTATATCCCCA
* * *
70874092 TATTTGGTGTGTAGGGCTGGGTGGGTCGATTATATCCCCA
1 TATTTGGTGTATAGGGCTGGATGGGTCAATTATATCCCCA
70874132 AATGGTGTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.17, C:0.14, G:0.31, T:0.38
Consensus pattern (40 bp):
TATTTGGTGTATAGGGCTGGATGGGTCAATTATATCCCCA
Found at i:70877279 original size:26 final size:26
Alignment explanation
Indices: 70877250--70877305 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
70877240 ATATGTATGA
**
70877250 AATAGA-TATAAAAAAAATATGTACAT
1 AATAGAGTAT-AAAAAAATACATACAT
* *
70877276 AATATAGTGTAAAAAAATACATACAT
1 AATAGAGTATAAAAAAATACATACAT
70877302 AATA
1 AATA
70877306 TAATTAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.61, C:0.05, G:0.07, T:0.27
Consensus pattern (26 bp):
AATAGAGTATAAAAAAATACATACAT
Found at i:70877282 original size:28 final size:26
Alignment explanation
Indices: 70877251--70877389 Score: 86
Period size: 25 Copynumber: 5.3 Consensus size: 26
70877241 TATGTATGAA
**
70877251 ATAGATATAAAAAAAATATGTACATAAT
1 ATAG-TAT-AAAAAAATACATACATAAT
*
70877279 ATAGTGTAAAAAAATACATACATAAT
1 ATAGTATAAAAAAATACATACATAAT
* * * * *
70877305 ATAAT-TAAATATATACATAAGATAAC
1 ATAGTATAAAAAAATACAT-ACATAAT
* * * *
70877331 AT-GTAGAAAAAAAAATATAAATAAT
1 ATAGTATAAAAAAATACATACATAAT
* * * *
70877356 ATAGTAT-TAAAGATATATACATAAA
1 ATAGTATAAAAAAATACATACATAAT
70877381 ATAGTATAA
1 ATAGTATAA
70877390 TATATATACG
Statistics
Matches: 84, Mismatches: 23, Indels: 10
0.72 0.20 0.09
Matches are distributed among these distances:
25 39 0.46
26 39 0.46
27 2 0.02
28 4 0.05
ACGTcount: A:0.60, C:0.04, G:0.07, T:0.29
Consensus pattern (26 bp):
ATAGTATAAAAAAATACATACATAAT
Found at i:70877320 original size:21 final size:21
Alignment explanation
Indices: 70877290--70877329 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
70877280 TAGTGTAAAA
*
70877290 AAATACATACATAATATAATT
1 AAATACATACATAAGATAATT
*
70877311 AAATATATACATAAGATAA
1 AAATACATACATAAGATAA
70877330 CATGTAGAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (21 bp):
AAATACATACATAAGATAATT
Found at i:70877329 original size:26 final size:26
Alignment explanation
Indices: 70877260--70877323 Score: 76
Period size: 26 Copynumber: 2.5 Consensus size: 26
70877250 AATAGATATA
** *
70877260 AAAAAAATATGTACATAATATAGTGT
1 AAAAAAATACATACATAATATAATGT
70877286 AAAAAAATACATACATAATATAAT-T
1 AAAAAAATACATACATAATATAATGT
* *
70877311 AAATATATACATA
1 AAAAAAATACATA
70877324 AGATAACATG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
25 12 0.36
26 21 0.64
ACGTcount: A:0.59, C:0.06, G:0.05, T:0.30
Consensus pattern (26 bp):
AAAAAAATACATACATAATATAATGT
Found at i:70877373 original size:25 final size:24
Alignment explanation
Indices: 70877344--70877472 Score: 99
Period size: 23 Copynumber: 5.5 Consensus size: 24
70877334 TAGAAAAAAA
*
70877344 AATATAAATAATATAGTATTAAAG
1 AATATACATAATATAGTATTAAAG
*
70877368 ATATATACATAAAATAGTA-TAATA-
1 A-ATATACATAATATAGTATTAA-AG
* * * *
70877392 TATATACGTAATATAGAATT-TAG
1 AATATACATAATATAGTATTAAAG
* *
70877415 AATATACCTAATATA-T-TAAAAG
1 AATATACATAATATAGTATTAAAG
* * *
70877437 AATATATATAATATAATATTAAAA
1 AATATACATAATATAGTATTAAAG
70877461 AATATA-ATAATA
1 AATATACATAATA
70877473 ACAAAAAAGA
Statistics
Matches: 82, Mismatches: 16, Indels: 15
0.73 0.14 0.13
Matches are distributed among these distances:
21 1 0.01
22 16 0.20
23 34 0.41
24 15 0.18
25 16 0.20
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (24 bp):
AATATACATAATATAGTATTAAAG
Found at i:70877790 original size:16 final size:16
Alignment explanation
Indices: 70877752--70877790 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
70877742 TCTCCAAAAA
*
70877752 AAAAACTAGCCTCTCC
1 AAAAACTAGCCTCTAC
*
70877768 AAAAACTAGCCTTTAC
1 AAAAACTAGCCTCTAC
*
70877784 AATAACT
1 AAAAACT
70877791 CTTCTCCTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.05, T:0.23
Consensus pattern (16 bp):
AAAAACTAGCCTCTAC
Found at i:70877976 original size:18 final size:18
Alignment explanation
Indices: 70877953--70878006 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
70877943 ACAAGTGGTG
70877953 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
*
70877971 GTGGAG-TAG-GT-G---
1 GTGGAGCAAGTGTGGCTA
70877983 GTGGAGCAAGTGTGGCTA
1 GTGGAGCAAGTGTGGCTA
70878001 GTGGAG
1 GTGGAG
70878007 TTGGTGGTGG
Statistics
Matches: 28, Mismatches: 2, Indels: 12
0.67 0.05 0.29
Matches are distributed among these distances:
12 6 0.21
13 2 0.07
14 2 0.07
15 2 0.07
16 2 0.07
17 2 0.07
18 12 0.43
ACGTcount: A:0.20, C:0.07, G:0.50, T:0.22
Consensus pattern (18 bp):
GTGGAGCAAGTGTGGCTA
Found at i:70877985 original size:30 final size:30
Alignment explanation
Indices: 70877949--70878016 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
70877939 AGGTACAAGT
70877949 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
*
70877979 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTT
1 GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
70878009 GGTGGTGG
1 GGTGGTGG
70878017 CAAAGGCTAG
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.16, C:0.06, G:0.53, T:0.25
Consensus pattern (30 bp):
GGTGGTGGAGCAAGTGTGGCTAGTGGAGTA
Found at i:70879948 original size:46 final size:46
Alignment explanation
Indices: 70879898--70880073 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
70879888 TGGTTGAGCA
*
70879898 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
70879944 TCCGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
70879989 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
70880037 -CCTGAGCTCGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCC-GAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
70880074 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 12, Indels: 20
0.77 0.09 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 5 0.05
46 60 0.56
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:70880054 original size:93 final size:93
Alignment explanation
Indices: 70879895--70880066 Score: 301
Period size: 93 Copynumber: 1.8 Consensus size: 93
70879885 GGATGGTTGA
*
70879895 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAGT
70879960 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
*
70879988 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCTGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCC-GAGCTCGTTGAG
*
70880052 TTGAGTCTGAGTTCG
65 TTGAGTCCGAGTTCG
70880067 CTTATGGGCG
Statistics
Matches: 75, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:70896011 original size:3 final size:3
Alignment explanation
Indices: 70896003--70896032 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
70895993 TATATGTATA
70896003 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
70896033 AAATGATTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:70898628 original size:24 final size:24
Alignment explanation
Indices: 70898583--70898628 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
70898573 ATTTAAATAT
* *
70898583 AAAATTTATTCCACAACTTAACCG
1 AAAATTTAATCCACAACATAACCG
70898607 AAAATTTAATCC-CTAACATAAC
1 AAAATTTAATCCAC-AACATAAC
70898629 TTCCCCTTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 1 0.05
24 18 0.95
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATTTAATCCACAACATAACCG
Found at i:70899194 original size:21 final size:20
Alignment explanation
Indices: 70899167--70899206 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
70899157 ATAACAGTTC
* *
70899167 CAAAAAATTATTTAAAATTA
1 CAAAAAAATAATTAAAATTA
70899187 CAAAAAAATAATTAAAATTA
1 CAAAAAAATAATTAAAATTA
70899207 AAATTTTAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
CAAAAAAATAATTAAAATTA
Found at i:70899452 original size:26 final size:26
Alignment explanation
Indices: 70899423--70899474 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
70899413 ATTATTTAAA
*
70899423 TAATAAAAATAATATTATTTATTATT
1 TAATAAAAATAACATTATTTATTATT
** *
70899449 TAATTGAAATAACATTATTTTTTATT
1 TAATAAAAATAACATTATTTATTATT
70899475 ATTTAAATAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (26 bp):
TAATAAAAATAACATTATTTATTATT
Found at i:70903446 original size:27 final size:27
Alignment explanation
Indices: 70903416--70903467 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
70903406 TCTGTAGTGA
70903416 ACTCTGAATAAATCA-CCTTTGTGGCAT
1 ACTCTGAATAAAT-AGCCTTTGTGGCAT
* *
70903443 ACTCTGTATATATAGCCTTTGTGGC
1 ACTCTGAATAAATAGCCTTTGTGGC
70903468 GTACATACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 1 0.05
27 21 0.95
ACGTcount: A:0.25, C:0.21, G:0.17, T:0.37
Consensus pattern (27 bp):
ACTCTGAATAAATAGCCTTTGTGGCAT
Found at i:70907245 original size:20 final size:19
Alignment explanation
Indices: 70907205--70907257 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
70907195 TTTACATCTC
70907205 AAAAAAT-TATAAAAAGCT
1 AAAAAATATATAAAAAGCT
70907223 AAAAAATATATAATAAA-CT
1 AAAAAATATATAA-AAAGCT
*
70907242 TAAAAA-ATATAAAAAG
1 AAAAAATATATAAAAAG
70907258 TTTAAAACCT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 3 0.10
18 13 0.42
19 12 0.39
20 3 0.10
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (19 bp):
AAAAAATATATAAAAAGCT
Found at i:70907262 original size:18 final size:17
Alignment explanation
Indices: 70907205--70907264 Score: 57
Period size: 19 Copynumber: 3.2 Consensus size: 17
70907195 TTTACATCTC
*
70907205 AAAAAATTATAAAAAGCTA
1 AAAAAA-TATAAAAAG-TT
*
70907224 AAAAATATATAATAAACTT
1 AAAAA-ATATAA-AAAGTT
70907243 AAAAAATATAAAAAGTTT
1 AAAAAATATAAAAAG-TT
70907261 AAAA
1 AAAA
70907265 CCTTAAACCC
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
17 3 0.09
18 12 0.34
19 16 0.46
20 4 0.11
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (17 bp):
AAAAAATATAAAAAGTT
Found at i:70912556 original size:41 final size:41
Alignment explanation
Indices: 70912485--70912589 Score: 106
Period size: 41 Copynumber: 2.5 Consensus size: 41
70912475 TTCATTAAAA
* * *
70912485 CATGATGATAAGACCTCTAAGCTATCTATAAGA-CCCCAAGG
1 CATGATGTTAAGACCTCTAAGCCATCTATAAAATCCCC-AGG
* * *
70912526 CATGATGTTAAGACCTCT-GGACCATTTATAAAATCTCCAGG
1 CATGATGTTAAGACCTCTAAG-CCATCTATAAAATCCCCAGG
*
70912567 CATGATGTTCAAGTCCTCTAAGC
1 CATGATGTT-AAGACCTCTAAGC
70912590 ATGATAATTG
Statistics
Matches: 52, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
40 1 0.02
41 38 0.73
42 12 0.23
43 1 0.02
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (41 bp):
CATGATGTTAAGACCTCTAAGCCATCTATAAAATCCCCAGG
Found at i:70913041 original size:13 final size:13
Alignment explanation
Indices: 70913023--70913050 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
70913013 ACTGAAATTT
70913023 TCCAAGAATTTCA
1 TCCAAGAATTTCA
70913036 TCCAAGAATTTCA
1 TCCAAGAATTTCA
70913049 TC
1 TC
70913051 ACCATTGGAT
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:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (13 bp):
TCCAAGAATTTCA
Found at i:70923216 original size:15 final size:15
Alignment explanation
Indices: 70923196--70923231 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
70923186 AATAAGTATT
70923196 ATACATACATTTGTA
1 ATACATACATTTGTA
*
70923211 ATACATATATTTGTA
1 ATACATACATTTGTA
70923226 ATACAT
1 ATACAT
70923232 GTATGTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.42, C:0.11, G:0.06, T:0.42
Consensus pattern (15 bp):
ATACATACATTTGTA
Found at i:70923354 original size:121 final size:121
Alignment explanation
Indices: 70923211--70923435 Score: 432
Period size: 121 Copynumber: 1.9 Consensus size: 121
70923201 TACATTTGTA
* *
70923211 ATACATATATTTGTAATACATGTATGTATTTACTTATTATTTAAGTAAATAATTAATGTATTTAT
1 ATACATACATTTGTAATACATGTATGTATTTACTTATTATTTAAGTAAATAATTAATGCATTTAT
70923276 TATTATTAAATTGATATTATATGATGAATAGATTAAATACATGTGTAATAAGTATT
66 TATTATTAAATTGATATTATATGATGAATAGATTAAATACATGTGTAATAAGTATT
70923332 ATACATACATTTGTAATACATGTATGTATTTACTTATTATTTAAGTAAATAATTAATGCATTTAT
1 ATACATACATTTGTAATACATGTATGTATTTACTTATTATTTAAGTAAATAATTAATGCATTTAT
70923397 TATTATTAAATTGATATTATATGATGAATAGATTAAATA
66 TATTATTAAATTGATATTATATGATGAATAGATTAAATA
70923436 AAGACTAGTG
Statistics
Matches: 102, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
121 102 1.00
ACGTcount: A:0.41, C:0.04, G:0.09, T:0.46
Consensus pattern (121 bp):
ATACATACATTTGTAATACATGTATGTATTTACTTATTATTTAAGTAAATAATTAATGCATTTAT
TATTATTAAATTGATATTATATGATGAATAGATTAAATACATGTGTAATAAGTATT
Found at i:70925942 original size:46 final size:46
Alignment explanation
Indices: 70925890--70926060 Score: 263
Period size: 46 Copynumber: 3.7 Consensus size: 46
70925880 AGTGTGCTTT
*
70925890 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
70925936 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* **
70925982 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
70926028 ATGATA-GAAAATGAGTAAGACCATAGTTGAAAG
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAG
70926061 GCACTACGGC
Statistics
Matches: 116, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
45 1 0.01
46 115 0.99
ACGTcount: A:0.40, C:0.13, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:70933920 original size:10 final size:8
Alignment explanation
Indices: 70933894--70933920 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
70933884 ACAATTCTGA
70933894 ACATTCAC
1 ACATTCAC
70933902 ACATTCAC
1 ACATTCAC
70933910 ACATTCAC
1 ACATTCAC
70933918 ACA
1 ACA
70933921 AGTCATATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.41, C:0.37, G:0.00, T:0.22
Consensus pattern (8 bp):
ACATTCAC
Found at i:70934604 original size:6 final size:6
Alignment explanation
Indices: 70934593--70934755 Score: 326
Period size: 6 Copynumber: 27.2 Consensus size: 6
70934583 AAATGAATTA
70934593 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
70934641 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
70934689 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
1 ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC ATATAC
70934737 ATATAC ATATAC ATATAC A
1 ATATAC ATATAC ATATAC A
70934756 ATTGTCGAAT
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 157 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
ATATAC
Found at i:70935949 original size:45 final size:44
Alignment explanation
Indices: 70935803--70935963 Score: 161
Period size: 45 Copynumber: 3.7 Consensus size: 44
70935793 ATTTATTGAA
* * *
70935803 CAATGCCAACTTCCCAGATATGGTCTTACATGCT-ACCTC-ATAT
1 CAATGCCAACGTCCCAGATATGGTCTTACACG-TAACCACAATAT
* ** * *
70935846 CGATGCCATTGTCCCAGATAAGGTCTTACACG-AATCA-AATA-
1 CAATGCCAACGTCCCAGATATGGTCTTACACGTAACCACAATAT
* * *
70935887 CAATGCCAATGTTCCAGACATGGTCTTACACGTAACCACATATAT
1 CAATGCCAACGTCCCAGATATGGTCTTACACGTAACCACA-ATAT
*
70935932 CAATGCCAACATCCCAGATATGGTCTTACACG
1 CAATGCCAACGTCCCAGATATGGTCTTACACG
70935964 AAAACACATA
Statistics
Matches: 94, Mismatches: 18, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
41 27 0.29
42 9 0.10
43 27 0.29
44 3 0.03
45 28 0.30
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (44 bp):
CAATGCCAACGTCCCAGATATGGTCTTACACGTAACCACAATAT
Found at i:70937075 original size:14 final size:15
Alignment explanation
Indices: 70937058--70937086 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
70937048 TCACAAAAAT
70937058 TTCACACAT-ATAAA
1 TTCACACATAATAAA
70937072 TTCACACATAATAAA
1 TTCACACATAATAAA
70937087 CAAAAAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:70940532 original size:28 final size:24
Alignment explanation
Indices: 70940501--70940564 Score: 83
Period size: 28 Copynumber: 2.5 Consensus size: 24
70940491 AACTCTTTCA
*
70940501 AAAAACCCTAACCCTAATCCATAAATCT
1 AAAAACCCTAACCCTAA---AAAAAT-T
70940529 AAAAACCCTAACCCTAAAAAAATT
1 AAAAACCCTAACCCTAAAAAAATT
70940553 AAAAACCCTAAC
1 AAAAACCCTAAC
70940565 ATTGGGAGAG
Statistics
Matches: 35, Mismatches: 1, Indels: 4
0.88 0.03 0.10
Matches are distributed among these distances:
24 13 0.37
25 5 0.14
28 17 0.49
ACGTcount: A:0.53, C:0.30, G:0.00, T:0.17
Consensus pattern (24 bp):
AAAAACCCTAACCCTAAAAAAATT
Done.