Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 293 of 333
Found at i:96714156 original size:16 final size:16
Alignment explanation
Indices: 96714135--96714181 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
96714125 ATGAATTAAA
96714135 TATTATTATATTATAT
1 TATTATTATATTATAT
* *
96714151 TATTATTATAATGTAT
1 TATTATTATATTATAT
96714167 TATTATTAATATTAT
1 TATTATT-ATATTAT
96714182 TAACTAACAT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 21 0.81
17 5 0.19
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (16 bp):
TATTATTATATTATAT
Found at i:96714159 original size:19 final size:21
Alignment explanation
Indices: 96714135--96714181 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
96714125 ATGAATTAAA
96714135 TATTATTATAT-TA-TATTAT
1 TATTATTATATGTATTATTAT
96714154 TATTA-TA-ATGTATTATTAT
1 TATTATTATATGTATTATTAT
*
96714173 TAATATTAT
1 TATTATTAT
96714182 TAACTAACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
17 2 0.09
18 4 0.17
19 15 0.65
20 2 0.09
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTATTATATGTATTATTAT
Found at i:96714236 original size:17 final size:17
Alignment explanation
Indices: 96714216--96714250 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
96714206 GAAATAAAGT
*
96714216 AAAATAAGAAAAGAAAC
1 AAAAGAAGAAAAGAAAC
*
96714233 AAAAGGAGAAAAGAAAC
1 AAAAGAAGAAAAGAAAC
96714250 A
1 A
96714251 GAAGCTTTCG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.74, C:0.06, G:0.17, T:0.03
Consensus pattern (17 bp):
AAAAGAAGAAAAGAAAC
Found at i:96714640 original size:17 final size:17
Alignment explanation
Indices: 96714605--96714645 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
96714595 AATTAAGTGA
96714605 AATATGAAAAGAAATTG
1 AATATGAAAAGAAATTG
*
96714622 AATA-GAAATGAAATATG
1 AATATGAAAAGAAAT-TG
96714639 AAT-TGAA
1 AATATGAA
96714646 TTATAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 9 0.43
17 12 0.57
ACGTcount: A:0.59, C:0.00, G:0.17, T:0.24
Consensus pattern (17 bp):
AATATGAAAAGAAATTG
Found at i:96715914 original size:128 final size:129
Alignment explanation
Indices: 96715732--96715980 Score: 367
Period size: 128 Copynumber: 1.9 Consensus size: 129
96715722 CCTCGCTTTA
* * * *
96715732 AAAAACACTAGTGAAATTCCATAGGAATATTCGATTATTTTGAACAAACGGGAAATCGAAACCTA
1 AAAAACACGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGAAACCCA
* *
96715797 GCACGATAGGACACTATTCCCCGAATTTCCCAACATC-AGATATTGCC-TTGTTTTAGTGTTTGG
66 ACACGATAGGACACTATTCCCCGAATTTCCAAACATCGA-ATATTGCCTTTGTTTTAGTGTTTGG
* * *
96715860 AAAAACACGAGTAAAATTCTAAAGGAATATTTGATTATTTTGAACAAACGGGAAATTGAAACCCA
1 AAAAACACGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGAAACCCA
** *
96715925 ACACGATAGGGTACTATTTCCCGAATTTCCAAACATCGAATATTGCCTTTGTTTTA
66 ACACGATAGGACACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTTGTTTTA
96715981 ATGAATCTTC
Statistics
Matches: 107, Mismatches: 12, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
128 98 0.92
129 9 0.08
ACGTcount: A:0.37, C:0.18, G:0.16, T:0.29
Consensus pattern (129 bp):
AAAAACACGAGTAAAATTCCAAAGGAATATTCGATTATTTTGAACAAACGGGAAATCGAAACCCA
ACACGATAGGACACTATTCCCCGAATTTCCAAACATCGAATATTGCCTTTGTTTTAGTGTTTGG
Found at i:96718058 original size:21 final size:21
Alignment explanation
Indices: 96718017--96718058 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
96718007 TGTGGCGTGT
* *
96718017 GTACGGGGGCCGTGTGCTGGC
1 GTACGGAGGCCGTGGGCTGGC
96718038 GTACGGAGG-CGTGGGCGTGGC
1 GTACGGAGGCCGTGGGC-TGGC
96718059 TGTGGGTCCA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.07, C:0.21, G:0.55, T:0.17
Consensus pattern (21 bp):
GTACGGAGGCCGTGGGCTGGC
Found at i:96719503 original size:39 final size:40
Alignment explanation
Indices: 96719445--96719582 Score: 210
Period size: 39 Copynumber: 3.5 Consensus size: 40
96719435 TCTGATGAGC
*
96719445 TTCAGTTAGCCTTCAGGCTTCCGTTTAGCACTTTTGTGCG
1 TTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGTGCG
*
96719485 TT-AGTTAGCCTTCGGGCTTCCGTTTAACACTTTTGTGC-
1 TTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGTGCG
*
96719523 TTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTATGTG-G
1 TTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGTGCG
* *
96719562 TTCAGCTAGACTTCGGGCTTC
1 TTCAGTTAGCCTTCGGGCTTC
96719583 AGATGACGAT
Statistics
Matches: 90, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
38 2 0.02
39 86 0.96
40 2 0.02
ACGTcount: A:0.13, C:0.25, G:0.23, T:0.39
Consensus pattern (40 bp):
TTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTTTGTGCG
Found at i:96735410 original size:36 final size:37
Alignment explanation
Indices: 96735352--96735435 Score: 120
Period size: 36 Copynumber: 2.3 Consensus size: 37
96735342 ATTTGAAATA
*
96735352 TTTT-ATAATATTTTTTAAAAAATTTTAAATATATAT
1 TTTTAATATTATTTTTTAAAAAATTTTAAATATATAT
*
96735388 TTTTGAA-ATTATTTTTT-TAAAATTTTAAATATATAT
1 TTTT-AATATTATTTTTTAAAAAATTTTAAATATATAT
96735424 TTTTAATATTAT
1 TTTTAATATTAT
96735436 AAAACATTTA
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
35 2 0.05
36 31 0.72
37 9 0.21
38 1 0.02
ACGTcount: A:0.40, C:0.00, G:0.01, T:0.58
Consensus pattern (37 bp):
TTTTAATATTATTTTTTAAAAAATTTTAAATATATAT
Found at i:96735413 original size:22 final size:22
Alignment explanation
Indices: 96735388--96735438 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
96735378 AAATATATAT
*
96735388 TTTTGAAAT-TATTTTTTTAAAA
1 TTTT-AAATATATATTTTTAAAA
*
96735410 TTTTAAATATATATTTTTAATA
1 TTTTAAATATATATTTTTAAAA
*
96735432 TTATAAA
1 TTTTAAA
96735439 ACATTTAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (22 bp):
TTTTAAATATATATTTTTAAAA
Found at i:96735521 original size:9 final size:9
Alignment explanation
Indices: 96735484--96735560 Score: 55
Period size: 9 Copynumber: 7.8 Consensus size: 9
96735474 TTATTATTAG
96735484 TTTTATAATA
1 TTTTA-AATA
96735494 TTTTAAATGTA
1 TTTTAAA--TA
96735505 TCTTTTAAATA
1 --TTTTAAATA
* *
96735516 TTTTAATTTG
1 TTTTAA-ATA
96735526 TTTTATAATA
1 TTTTA-AATA
96735536 TTTTAAATA
1 TTTTAAATA
* *
96735545 TTTTTAATT
1 TTTTAAATA
96735554 TTTTAAA
1 TTTTAAA
96735561 AATATATTAT
Statistics
Matches: 54, Mismatches: 7, Indels: 13
0.73 0.09 0.18
Matches are distributed among these distances:
9 25 0.46
10 17 0.31
11 5 0.09
13 7 0.13
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (9 bp):
TTTTAAATA
Found at i:96735549 original size:20 final size:21
Alignment explanation
Indices: 96735484--96735550 Score: 77
Period size: 20 Copynumber: 3.2 Consensus size: 21
96735474 TTATTATTAG
96735484 TTTTATAATATTTTAAATGTATC
1 TTTTATAATATTTTAAA--TATC
* *
96735507 TTTTA-AATATTTT-AATTTG
1 TTTTATAATATTTTAAATATC
96735526 TTTTATAATATTTTAAATAT-
1 TTTTATAATATTTTAAATATC
96735546 TTTTA
1 TTTTA
96735551 ATTTTTTAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
19 7 0.18
20 13 0.33
21 6 0.15
22 8 0.21
23 5 0.13
ACGTcount: A:0.34, C:0.01, G:0.03, T:0.61
Consensus pattern (21 bp):
TTTTATAATATTTTAAATATC
Found at i:96735573 original size:16 final size:17
Alignment explanation
Indices: 96735553--96735590 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
96735543 TATTTTTAAT
96735553 TTTTTAAAAATAT-ATTA
1 TTTTTAAAAATATGA-TA
*
96735570 TTTTTAAAGATATGATA
1 TTTTTAAAAATATGATA
96735587 TTTT
1 TTTT
96735591 AAATTTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 18 0.95
18 1 0.05
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.55
Consensus pattern (17 bp):
TTTTTAAAAATATGATA
Found at i:96738872 original size:30 final size:30
Alignment explanation
Indices: 96738830--96738932 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 30
96738820 GGTTACTCTA
* *
96738830 GGTGAAATGAACTCGAACCACCTATGTCTG
1 GGTGATATGAACTCGAACCACCCATGTCTG
* * *
96738860 GTTGATATGAACTCGAAGCGCCCATGTCTG
1 GGTGATATGAACTCGAACCACCCATGTCTG
* ** *
96738890 GGTGATATGAACTTGAACCGTCCATGTCCG
1 GGTGATATGAACTCGAACCACCCATGTCTG
*
96738920 AGTGATATGAACT
1 GGTGATATGAACT
96738933 GCTCTGCGAC
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 62 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (30 bp):
GGTGATATGAACTCGAACCACCCATGTCTG
Found at i:96741574 original size:20 final size:20
Alignment explanation
Indices: 96741551--96741595 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
96741541 ATAATATATG
*
96741551 TTTTTAATCTTTAATTTAAA
1 TTTTTAATCTTTAATATAAA
* * *
96741571 TTTTTACTTTTTAATATATA
1 TTTTTAATCTTTAATATAAA
96741591 TTTTT
1 TTTTT
96741596 TAAATAAAGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTAATCTTTAATATAAA
Found at i:96741748 original size:14 final size:14
Alignment explanation
Indices: 96741729--96741755 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
96741719 ATCTTTAAAA
96741729 ATAATTTAAAAATC
1 ATAATTTAAAAATC
96741743 ATAATTTAAAAAT
1 ATAATTTAAAAAT
96741756 TATATGTAAA
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:0.59, C:0.04, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATTTAAAAATC
Found at i:96741886 original size:21 final size:21
Alignment explanation
Indices: 96741862--96741922 Score: 81
Period size: 21 Copynumber: 3.0 Consensus size: 21
96741852 TTTTATATAA
96741862 TTAAAAAATATATTTAAAATT
1 TTAAAAAATATATTTAAAATT
96741883 TT-AAAAATAATATTTAAAATT
1 TTAAAAAAT-ATATTTAAAATT
* *
96741904 TAAAAAAATA-ATTTCAAAT
1 TTAAAAAATATATTTAAAAT
96741923 ATATATTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
20 14 0.39
21 16 0.44
22 6 0.17
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (21 bp):
TTAAAAAATATATTTAAAATT
Found at i:96741888 original size:20 final size:19
Alignment explanation
Indices: 96741830--96741909 Score: 81
Period size: 20 Copynumber: 4.1 Consensus size: 19
96741820 TTGAAAGGTC
* **
96741830 ATATTTTTAAAATTTTTAA
1 ATATATTTAAAATTTAAAA
*
96741849 ATAT-TTTATATAATTAAAAA
1 ATATATTTA-A-AATTTAAAA
96741869 ATATATTTAAAATTTTAAAA
1 ATATATTTAAAA-TTTAAAA
96741889 ATAATATTTAAAATTTAAAA
1 AT-ATATTTAAAATTTAAAA
96741909 A
1 A
96741910 AATAATTTCA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
18 4 0.08
19 7 0.13
20 27 0.52
21 14 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATATTTAAAATTTAAAA
Found at i:96741917 original size:20 final size:20
Alignment explanation
Indices: 96741864--96741922 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
96741854 TTATATAATT
96741864 AAAAAATATATTTAAAATTTTA
1 AAAAAATA-ATTTAAAA-TTTA
96741886 AAAATAAT-ATTTAAAATTTA
1 AAAA-AATAATTTAAAATTTA
*
96741906 AAAAAATAATTTCAAAT
1 AAAAAATAATTTAAAAT
96741923 ATATATTTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 3 0.09
20 16 0.47
21 8 0.24
22 4 0.12
23 3 0.09
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (20 bp):
AAAAAATAATTTAAAATTTA
Found at i:96741917 original size:34 final size:34
Alignment explanation
Indices: 96741879--96741956 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 34
96741869 ATATATTTAA
96741879 AATTTTAAAAATAATATTT-AAAATTTAAAAAAAT
1 AATTTTAAAAAT-ATATTTAAAAATTTAAAAAAAT
* * *
96741913 AATTTCAAATATATATTTAAAAAATTTTAAAAAAT
1 AATTTTAAAAATATATTT-AAAAATTTAAAAAAAT
*
96741948 -ATTATAAAA
1 AATTTTAAAA
96741957 CATTTCAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
33 6 0.17
34 16 0.44
35 14 0.39
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (34 bp):
AATTTTAAAAATATATTTAAAAATTTAAAAAAAT
Found at i:96744031 original size:9 final size:9
Alignment explanation
Indices: 96744017--96744051 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
96744007 TTGCTTTGAA
96744017 TTTTGGTAC
1 TTTTGGTAC
96744026 TTTTGGTAC
1 TTTTGGTAC
*
96744035 TTTTGATAC
1 TTTTGGTAC
96744044 TTTGTGGT
1 TTT-TGGT
96744052 TGTGTGATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 20 0.87
10 3 0.13
ACGTcount: A:0.11, C:0.09, G:0.23, T:0.57
Consensus pattern (9 bp):
TTTTGGTAC
Found at i:96748885 original size:8 final size:7
Alignment explanation
Indices: 96748861--96748893 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
96748851 AAACTTTCAA
96748861 AAAATAT
1 AAAATAT
96748868 AAAATAT
1 AAAATAT
96748875 AAAATAT
1 AAAATAT
*
96748882 TAAA-AT
1 AAAATAT
96748888 AAAATA
1 AAAATA
96748894 AATATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAAATAT
Found at i:96749407 original size:21 final size:21
Alignment explanation
Indices: 96749381--96749423 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
96749371 GGTTCGCTGT
*
96749381 ATTGGATTAGAGGTGTATTGG
1 ATTGGATTAGAGGTGTAATGG
96749402 ATTGGATTAGAGGTGTAATGG
1 ATTGGATTAGAGGTGTAATGG
96749423 A
1 A
96749424 ATAGAGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (21 bp):
ATTGGATTAGAGGTGTAATGG
Found at i:96749423 original size:16 final size:16
Alignment explanation
Indices: 96749404--96749436 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
96749394 TGTATTGGAT
*
96749404 TGGATTAGAGGTGTAA
1 TGGAATAGAGGTGTAA
96749420 TGGAATAGAGGTGTAA
1 TGGAATAGAGGTGTAA
96749436 T
1 T
96749437 AGCAAATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.36, T:0.30
Consensus pattern (16 bp):
TGGAATAGAGGTGTAA
Found at i:96749481 original size:45 final size:44
Alignment explanation
Indices: 96749415--96749509 Score: 136
Period size: 45 Copynumber: 2.1 Consensus size: 44
96749405 GGATTAGAGG
* *
96749415 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAAC-ACTGTTTGGTTGAA
* **
96749460 TGTAATGGAATAGAGGCGTAATAGTAAAACTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
96749504 TGTAAT
1 TGTAAT
96749510 AGAGGTGTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.35, C:0.05, G:0.27, T:0.33
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGCAAAACACTGTTTGGTTGAA
Found at i:96749692 original size:18 final size:17
Alignment explanation
Indices: 96749671--96749705 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96749661 TTATTATTTA
*
96749671 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
96749689 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
96749706 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:96749699 original size:28 final size:27
Alignment explanation
Indices: 96749629--96749701 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
96749619 TTTATTATCA
*
96749629 AAAATAAATAATTTAATCATATTTAAAC
1 AAAATATATAATTTAAT-ATATTTAAAC
* * **
96749657 ATAAT-TATTATTTAATATATTTTAATT
1 AAAATATATAATTTAATATA-TTTAAAC
96749684 AAAATATATAATTTAATA
1 AAAATATATAATTTAATA
96749702 AAATTCTTAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
26 3 0.08
27 18 0.50
28 15 0.42
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (27 bp):
AAAATATATAATTTAATATATTTAAAC
Found at i:96749818 original size:144 final size:147
Alignment explanation
Indices: 96749590--96749861 Score: 487
Period size: 144 Copynumber: 1.9 Consensus size: 147
96749580 ATGATTATTG
96749590 TTATTGTTATTTAAATTTTAATAAGATTATTTATTATCAAAAATAAATAATTTAATCATATTTAA
1 TTATTGTTATTTAAATTTTAATAAGATTA--TATTATCAAAAATAAATAATTTAATCATATTTAA
*
96749655 ACATAATTATTATTTAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
64 ACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGC
96749720 AGAAATTTGTTTTGGTAAA
129 AGAAATTTGTTTTGGTAAA
*
96749739 TTATT-TTATTTAAATTTTAATAAGATTA-A-TATCAATAATAAATAATTTAATCATATTTAAAC
1 TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
96749801 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
66 ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTA
96749862 ATATTCTTAT
Statistics
Matches: 121, Mismatches: 2, Indels: 5
0.95 0.02 0.04
Matches are distributed among these distances:
144 92 0.76
145 1 0.01
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TTATTGTTATTTAAATTTTAATAAGATTATATTATCAAAAATAAATAATTTAATCATATTTAAAC
ATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAG
AAATTTGTTTTGGTAAA
Found at i:96749836 original size:18 final size:17
Alignment explanation
Indices: 96749815--96749849 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96749805 TTATTATTAA
*
96749815 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
96749833 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
96749850 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:96749893 original size:54 final size:54
Alignment explanation
Indices: 96749835--96750013 Score: 128
Period size: 55 Copynumber: 3.1 Consensus size: 54
96749825 ATTAAAATAT
*
96749835 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
** * * * * *
96749889 ATAATATATGATACTGTAAAATAT-AAAATAACATAATTATTATTAAATAT-AATATAATTAAAA
1 ATAAT-T-T-A-A---TAAAAT-TCTTAATAA-TTAA-TATTCTT--ATATGAAT-TTACTCAAA
*
96749952 TAT
53 -AC
*
96749955 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATC
1 ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
96750009 ATAAT
1 ATAAT
96750014 ATATGATTAT
Statistics
Matches: 91, Mismatches: 18, Indels: 32
0.65 0.13 0.23
Matches are distributed among these distances:
54 10 0.11
55 11 0.12
56 4 0.04
57 7 0.08
58 5 0.05
59 11 0.12
61 11 0.12
62 5 0.05
63 7 0.08
64 4 0.04
65 11 0.12
66 5 0.05
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (54 bp):
ATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAAAC
Found at i:96749895 original size:61 final size:61
Alignment explanation
Indices: 96749830--96750017 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
96749820 TTTTAATTAA
*
96749830 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAACCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * * * *
96749891 AATATATGATACT-GTAAAA-T-ATAA-AATAACATAATTATTAT-TAAATATAAT-ATAATTAA
1 AATATATAAT-TTAATAAAATTCTTAATAATTA-AT-ATTCTTATATGAATTTACTCA-AATCAT
96749950 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
96750011 AATATAT
1 AATATAT
96750018 GATTATAACT
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 29 0.31
60 16 0.17
61 37 0.39
62 6 0.06
ACGTcount: A:0.49, C:0.07, G:0.02, T:0.41
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:96749928 original size:120 final size:120
Alignment explanation
Indices: 96749798--96750020 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
96749788 ATCATATTTA
* *
96749798 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
96749863 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
96749918 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
*
96749983 TATTCTTATATGAATTTACTCAAATCATAATATATGAT
66 TATTCTTATATGAATTTACTCAAACCATAATATATGAT
96750021 TATAACTAAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.42
Consensus pattern (120 bp):
AACATAATTATTATTAAATATAATATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATGAATTTACTCAAACCATAATATATGATACTGTAAAATATAAAAT
Found at i:96749956 original size:18 final size:17
Alignment explanation
Indices: 96749935--96749969 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
96749925 TTATTATTAA
96749935 ATATAATATAATTAAAAT
1 ATATAATATAA-TAAAAT
*
96749953 ATATAATTTAATAAAAT
1 ATATAATATAATAAAAT
96749970 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (17 bp):
ATATAATATAATAAAAT
Found at i:96750032 original size:17 final size:16
Alignment explanation
Indices: 96750010--96750056 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
96750000 ACTCAAATCA
96750010 TAATATATGATTATAAC
1 TAATATATGATT-TAAC
*
96750027 T-A-ATATGATTTAAT
1 TAATATATGATTTAAC
96750041 TAAATATATGATTTAA
1 T-AATATATGATTTAA
96750057 TAAAATTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 12 0.46
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (16 bp):
TAATATATGATTTAAC
Found at i:96750057 original size:17 final size:17
Alignment explanation
Indices: 96750029--96750062 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
96750019 ATTATAACTA
*
96750029 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
96750046 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
96750063 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:96753834 original size:20 final size:20
Alignment explanation
Indices: 96753807--96753872 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
96753797 AAAAATATAT
96753807 TAAA-TTTATTATTTTAACA
1 TAAATTTTATTATTTTAACA
* *
96753826 TAAATTTTAATATTTTTAATA
1 TAAATTTTATTA-TTTTAACA
*
96753847 TAATTTTAATAATTATTTTAACA
1 TAAATTT--T-ATTATTTTAACA
96753870 TAA
1 TAA
96753873 TTTAAAAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 4 0.11
20 6 0.16
21 13 0.35
23 11 0.30
24 3 0.08
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (20 bp):
TAAATTTTATTATTTTAACA
Found at i:96753873 original size:23 final size:22
Alignment explanation
Indices: 96753813--96753875 Score: 85
Period size: 23 Copynumber: 2.9 Consensus size: 22
96753803 ATATTAAATT
96753813 TATTATTTTAACATAAATTTTAA
1 TATTATTTTAACAT-AATTTTAA
*
96753836 TA-T-TTTTAATATAATTTTAA
1 TATTATTTTAACATAATTTTAA
96753856 TAATTATTTTAACATAATTT
1 T-ATTATTTTAACATAATTT
96753876 AAAAATGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 9 0.26
21 9 0.26
22 2 0.06
23 15 0.43
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (22 bp):
TATTATTTTAACATAATTTTAA
Found at i:96769075 original size:37 final size:37
Alignment explanation
Indices: 96769025--96769124 Score: 121
Period size: 37 Copynumber: 2.7 Consensus size: 37
96769015 CAAATCTTAT
*
96769025 CGTTATATTGAATGAAGCTCAATCGAGC-AACTCATAC
1 CGTTATACTGAATGAAGCTCAATCGAGCAAAC-CATAC
* * *
96769062 CGTTATACTGAATGGAGCTCAATTGAGCAAACCTTAC
1 CGTTATACTGAATGAAGCTCAATCGAGCAAACCATAC
* * *
96769099 TGTTATACTGAATGATGTTCAATCGA
1 CGTTATACTGAATGAAGCTCAATCGA
96769125 TAAAATTCTA
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
37 50 0.94
38 3 0.06
ACGTcount: A:0.33, C:0.19, G:0.18, T:0.30
Consensus pattern (37 bp):
CGTTATACTGAATGAAGCTCAATCGAGCAAACCATAC
Found at i:96776507 original size:61 final size:61
Alignment explanation
Indices: 96776431--96776556 Score: 173
Period size: 61 Copynumber: 2.1 Consensus size: 61
96776421 CCTAAATATG
* * * * *
96776431 AAAAATTCAACAAATTT-AGTCTTCAATATTTACAAAATTTTTCATTTTAGTTCAAATTCTA
1 AAAAAATCAACAAATTTGA-CCTTCAATATTTACAAAATTTTTCAATTTAATTCAAATCCTA
* *
96776492 AAAAAATCAATAAATTTGACCTTCAATATTTACAAAATTTTTCAATTTAATTCTAATCCTA
1 AAAAAATCAACAAATTTGACCTTCAATATTTACAAAATTTTTCAATTTAATTCAAATCCTA
96776553 AAAA
1 AAAA
96776557 TATCCAAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
61 56 0.98
62 1 0.02
ACGTcount: A:0.44, C:0.13, G:0.02, T:0.40
Consensus pattern (61 bp):
AAAAAATCAACAAATTTGACCTTCAATATTTACAAAATTTTTCAATTTAATTCAAATCCTA
Found at i:96778648 original size:28 final size:28
Alignment explanation
Indices: 96778612--96778671 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
96778602 ATGCGGTAAT
* * *
96778612 CCACTAGAATTAGATAAACGTGGTTGAG
1 CCACCAGAATCAGATAAACGTGGTTGAA
**
96778640 CCACCAGAATCAGATAAGTGTGGTTGAA
1 CCACCAGAATCAGATAAACGTGGTTGAA
96778668 CCAC
1 CCAC
96778672 TAGATAAGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (28 bp):
CCACCAGAATCAGATAAACGTGGTTGAA
Found at i:96786781 original size:24 final size:24
Alignment explanation
Indices: 96786747--96786792 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
96786737 TATATGAAAT
* *
96786747 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
96786771 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
96786793 ATTTAATTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:96787745 original size:31 final size:32
Alignment explanation
Indices: 96787697--96787757 Score: 81
Period size: 31 Copynumber: 1.9 Consensus size: 32
96787687 TTGAAATATA
*
96787697 AAGATTGAATATTAAATTTGA-GAATAAGACG
1 AAGATTGAAAATTAAATTTGATGAATAAGACG
*
96787728 AAGATT-AAAATTGAAATTTGATGCATAAGA
1 AAGATTGAAAATT-AAATTTGATGAATAAGA
96787758 AATAAAATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 5 0.19
31 14 0.54
32 7 0.27
ACGTcount: A:0.49, C:0.03, G:0.18, T:0.30
Consensus pattern (32 bp):
AAGATTGAAAATTAAATTTGATGAATAAGACG
Found at i:96789022 original size:26 final size:26
Alignment explanation
Indices: 96788987--96789037 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
96788977 GAATTATATA
*
96788987 TTTTAGAATTTAATAAATTTTTTTAT
1 TTTTAAAATTTAATAAATTTTTTTAT
** *
96789013 TTTTAAAATTTTTTTAATTTTTTTA
1 TTTTAAAATTTAATAAATTTTTTTA
96789038 GAATTTTTAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (26 bp):
TTTTAAAATTTAATAAATTTTTTTAT
Found at i:96789027 original size:20 final size:20
Alignment explanation
Indices: 96789001--96789050 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
96788991 AGAATTTAAT
96789001 AAATTTTTTT-A--TTTTTA
1 AAATTTTTTTAATTTTTTTA
96789018 AAATTTTTTTAATTTTTTTA
1 AAATTTTTTTAATTTTTTTA
* *
96789038 GAATTTTTATAAT
1 AAATTTTTTTAAT
96789051 ATTATTATTA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 10 0.36
18 1 0.04
20 17 0.61
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
AAATTTTTTTAATTTTTTTA
Found at i:96789033 original size:17 final size:17
Alignment explanation
Indices: 96789001--96789033 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
96788991 AGAATTTAAT
*
96789001 AAATTTTTTTATTTTTA
1 AAATTTTTTTAATTTTA
96789018 AAATTTTTTTAATTTT
1 AAATTTTTTTAATTTT
96789034 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
AAATTTTTTTAATTTTA
Found at i:96798746 original size:54 final size:55
Alignment explanation
Indices: 96798680--96798803 Score: 139
Period size: 54 Copynumber: 2.3 Consensus size: 55
96798670 TTTGATACCG
* * *
96798680 AGCACTAAGTGTGTGAAATCGG-TCATT-GAGCACTAAGTGTGC-AAGTTGGTT-TTA
1 AGCACTAAGTGTG-CAAATCGGAT--TTCGAGCACTAAGTGTGCGAAATCGGTTATTA
* *
96798734 AGCACTAAGTGTGCAAATTGGATTTCCGAGCACTAAGTGTGCGAAATCGGTTATTG
1 AGCACTAAGTGTGCAAATCGGATTT-CGAGCACTAAGTGTGCGAAATCGGTTATTA
96798790 AGCACTAAGTGTGC
1 AGCACTAAGTGTGC
96798804 GAGAAAATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
52 2 0.03
53 6 0.10
54 29 0.48
55 7 0.12
56 16 0.27
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.29
Consensus pattern (55 bp):
AGCACTAAGTGTGCAAATCGGATTTCGAGCACTAAGTGTGCGAAATCGGTTATTA
Found at i:96798782 original size:82 final size:81
Alignment explanation
Indices: 96798654--96798803 Score: 237
Period size: 82 Copynumber: 1.8 Consensus size: 81
96798644 TTTGAGAGAT
* *
96798654 GCACTAAACGTGCAAATTTGATACCGAGCACTAAGTGTGTGAAATCGGTCATTGAGCACTAAGTG
1 GCACTAAACGTGCAAATTGGATACCGAGCACTAAGTGTGCGAAATCGGTCATTGAGCACTAAGTG
96798719 TGCAAGTTGGTTTTAA
66 TGCAAGTTGGTTTTAA
** * *
96798735 GCACTAAGTGTGCAAATTGGATTTCCGAGCACTAAGTGTGCGAAATCGGTTATTGAGCACTAAGT
1 GCACTAAACGTGCAAATTGGA-TACCGAGCACTAAGTGTGCGAAATCGGTCATTGAGCACTAAGT
96798800 GTGC
65 GTGC
96798804 GAGAAAATTT
Statistics
Matches: 62, Mismatches: 6, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
81 18 0.29
82 44 0.71
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.28
Consensus pattern (81 bp):
GCACTAAACGTGCAAATTGGATACCGAGCACTAAGTGTGCGAAATCGGTCATTGAGCACTAAGTG
TGCAAGTTGGTTTTAA
Found at i:96798804 original size:28 final size:27
Alignment explanation
Indices: 96798679--96798805 Score: 141
Period size: 28 Copynumber: 4.6 Consensus size: 27
96798669 ATTTGATACC
* *
96798679 GAGCACTAAGTGTGTGAAATCGGTCATT
1 GAGCACTAAGTGTGCGAAATCGGT-TTT
* *
96798707 GAGCACTAAGTGTGC-AAGTTGGTTTT
1 GAGCACTAAGTGTGCGAAATCGGTTTT
* * *
96798733 AAGCACTAAGTGTGC-AAATTGGATTTCC
1 GAGCACTAAGTGTGCGAAATCGG-TTT-T
96798761 GAGCACTAAGTGTGCGAAATCGGTTATT
1 GAGCACTAAGTGTGCGAAATCGGTT-TT
96798789 GAGCACTAAGTGTGCGA
1 GAGCACTAAGTGTGCGA
96798806 GAAAATTTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
26 22 0.26
27 9 0.11
28 47 0.55
29 7 0.08
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (27 bp):
GAGCACTAAGTGTGCGAAATCGGTTTT
Found at i:96803350 original size:8 final size:8
Alignment explanation
Indices: 96803337--96803374 Score: 51
Period size: 8 Copynumber: 4.9 Consensus size: 8
96803327 CTTTGCCTAC
*
96803337 TTATTTTT
1 TTATTTTA
*
96803345 TTA-TTTG
1 TTATTTTA
96803352 TTATTTTA
1 TTATTTTA
96803360 TTATTTTA
1 TTATTTTA
96803368 TTATTTT
1 TTATTTT
96803375 CGGTACTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
7 6 0.22
8 21 0.78
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (8 bp):
TTATTTTA
Found at i:96805537 original size:109 final size:110
Alignment explanation
Indices: 96805330--96805541 Score: 349
Period size: 110 Copynumber: 1.9 Consensus size: 110
96805320 ATGATGTCAG
* * *
96805330 AAATCTCATAGTAATAAACCATGAAATCTTATATTGTCCTTCCAAACGTGTTGCAATATTTGTTT
1 AAATATCATACTAATAAACCATGAAATCTCATATTGTCCTTCCAAACGTGTTGCAATATTTGTTT
96805395 TTGGCTAATCTTCATTTTCAACTCCTCAAGATTAATACTATATCT
66 TTGGCTAATCTTCATTTTCAACTCCTCAAGATTAATACTATATCT
*
96805440 AAATATCATACTAATAAACCATGAAATCTCATATTGTCCTTCCACAACGT-TATGTAAT-TTT-T
1 AAATATCATACTAATAAACCATGAAATCTCATATTGTCCTTCCA-AACGTGT-TGCAATATTTGT
96805502 TTTTGGCTAATCTTCATTTTCAACTCCTCAAGATTAATAC
64 TTTTGGCTAATCTTCATTTTCAACTCCTCAAGATTAATAC
96805542 AAGATTAATA
Statistics
Matches: 96, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
109 41 0.43
110 45 0.47
111 10 0.10
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.40
Consensus pattern (110 bp):
AAATATCATACTAATAAACCATGAAATCTCATATTGTCCTTCCAAACGTGTTGCAATATTTGTTT
TTGGCTAATCTTCATTTTCAACTCCTCAAGATTAATACTATATCT
Found at i:96818660 original size:40 final size:40
Alignment explanation
Indices: 96818607--96818724 Score: 164
Period size: 41 Copynumber: 2.9 Consensus size: 40
96818597 ATTTTAGTAA
* * * *
96818607 AAAACACCACTAAAAACAGAGCATTAGCGGTGCTTTTGGT
1 AAAACGCCGCTAAAAACCGAGCATTAGCGGCGCTTTTGGT
*
96818647 AAAACGCCGCTAAAGACTCGAGCATTAGCGGCGCTTTTGGT
1 AAAACGCCGCTAAAAAC-CGAGCATTAGCGGCGCTTTTGGT
*
96818688 AAAACGCCGCTAAAGACCCGAGCATTAGCGGCGCTTT
1 AAAACGCCGCTAAA-AACCGAGCATTAGCGGCGCTTT
96818725 CAATAAAACA
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
40 14 0.20
41 54 0.78
42 1 0.01
ACGTcount: A:0.31, C:0.25, G:0.24, T:0.20
Consensus pattern (40 bp):
AAAACGCCGCTAAAAACCGAGCATTAGCGGCGCTTTTGGT
Found at i:96818733 original size:41 final size:41
Alignment explanation
Indices: 96818625--96818724 Score: 182
Period size: 41 Copynumber: 2.4 Consensus size: 41
96818615 ACTAAAAACA
* *
96818625 GAGCATTAGCGGTGCTTTTGGTAAAACGCCGCTAAAGACTC
1 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCC
96818666 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCC
1 GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCC
96818707 GAGCATTAGCGGCGCTTT
1 GAGCATTAGCGGCGCTTT
96818725 CAATAAAACA
Statistics
Matches: 57, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 57 1.00
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (41 bp):
GAGCATTAGCGGCGCTTTTGGTAAAACGCCGCTAAAGACCC
Found at i:96819700 original size:78 final size:80
Alignment explanation
Indices: 96819599--96819774 Score: 221
Period size: 79 Copynumber: 2.2 Consensus size: 80
96819589 GCGTTTATTT
*
96819599 AAAAAACGCCGCAAAAAACATAGCAG-TTAACAAAAACGGCGTCATTTTAATTGGATATTTAGGA
1 AAAAAACG-C-CACAAAACATAGCAGTTTAACAAAAACGGCGTCATTTTAATTGGATATTTAGGA
* **
96819663 GAGTAGCGGCATTTTTT
64 GAGTACCGGCATTTTAA
** * * *
96819680 AAAAAA-GCCACAAAACATAGCAGTTTAATGAAAACGGCGTCGTTTTAATTGGATTTTTAGGGGA
1 AAAAAACGCCACAAAACATAGCAGTTTAACAAAAACGGCGTCATTTTAATTGGATATTTAGGAGA
*
96819744 GTACCGGCGTTTTAA
66 GTACCGGCATTTTAA
*
96819759 AAAAAACGCCGCAAAA
1 AAAAAACGCCACAAAA
96819775 ACAAAATACT
Statistics
Matches: 82, Mismatches: 11, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
78 14 0.17
79 53 0.65
80 9 0.11
81 6 0.07
ACGTcount: A:0.40, C:0.15, G:0.20, T:0.24
Consensus pattern (80 bp):
AAAAAACGCCACAAAACATAGCAGTTTAACAAAAACGGCGTCATTTTAATTGGATATTTAGGAGA
GTACCGGCATTTTAA
Found at i:96825128 original size:21 final size:21
Alignment explanation
Indices: 96825102--96825149 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
96825092 TCAACTTAGA
* *
96825102 GCGGAGGCAGCAGCGCGGGAG
1 GCGGAGGCAACAGCGAGGGAG
96825123 GCGGAGGCAACAGCGAGGGAG
1 GCGGAGGCAACAGCGAGGGAG
96825144 GCGGAG
1 GCGGAG
96825150 CAGAACAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.56, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAACAGCGAGGGAG
Found at i:96825479 original size:42 final size:44
Alignment explanation
Indices: 96825406--96825495 Score: 157
Period size: 42 Copynumber: 2.1 Consensus size: 44
96825396 ACTGGGCAAA
96825406 TTAGCGGCGTTTTTTTCTAAAAGCGCAGCTAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTTCTAAAAGCGCAGCTAAAAGTCCTGGTCT
*
96825450 TTAGCGGCG-TTTTTT-TAAAAGCGCCGCTAAAAGTCCTGGTCT
1 TTAGCGGCGTTTTTTTCTAAAAGCGCAGCTAAAAGTCCTGGTCT
96825492 TTAG
1 TTAG
96825496 AAGCGCTTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
42 30 0.67
43 6 0.13
44 9 0.20
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.34
Consensus pattern (44 bp):
TTAGCGGCGTTTTTTTCTAAAAGCGCAGCTAAAAGTCCTGGTCT
Found at i:96825506 original size:43 final size:43
Alignment explanation
Indices: 96825416--96825508 Score: 143
Period size: 42 Copynumber: 2.2 Consensus size: 43
96825406 TTAGCGGCGT
**
96825416 TTTTTTCTAAAAGCGCAGCTAAAAGTCCTGGTCTTTAGCGGCG
1 TTTTTTCTAAAAGCGCAGCTAAAAGTCCTGGTCTTTAGAAGCG
*
96825459 TTTTTT-TAAAAGCGCCGCTAAAAGTCCTGGTCTTTAGAAGCG
1 TTTTTTCTAAAAGCGCAGCTAAAAGTCCTGGTCTTTAGAAGCG
96825501 CTTTTTTC
1 -TTTTTTC
96825509 AGAAAAACGC
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
42 33 0.73
43 12 0.27
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (43 bp):
TTTTTTCTAAAAGCGCAGCTAAAAGTCCTGGTCTTTAGAAGCG
Found at i:96826601 original size:60 final size:59
Alignment explanation
Indices: 96826476--96826613 Score: 136
Period size: 60 Copynumber: 2.3 Consensus size: 59
96826466 GTGTTAACTG
* * * * *
96826476 GGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATTTTG
1 GGCC-TAGCCCATATTAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATATTA
* *
96826537 GGCCTAGCCCATATTAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATATTA
1 GGCCTAGCCCATATTAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATATTA
* *
96826597 GGCCTTGGCCATATTAA
1 GGCCTAGCCCATATTAA
96826614 CACAGTTGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
59 4 0.06
60 51 0.80
61 9 0.14
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.30
Consensus pattern (59 bp):
GGCCTAGCCCATATTAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTATATTA
Found at i:96830599 original size:60 final size:59
Alignment explanation
Indices: 96830475--96830614 Score: 149
Period size: 60 Copynumber: 2.3 Consensus size: 59
96830465 CAGTGTTACC
* * * *
96830475 TGGGCCTTAGCCCATATCAATATTAATCTGGGCCATAGCCCCTTACAGTATCAGAGTATTT
1 TGGGCC-TAGCCCATATTAATATCAATCTGGGCCATAGCCCATTACAG-ATCAGAGTATAT
* *
96830536 TGGGCCTAGCCCATATTAGTATCAATCTGGGCCGTAGCCCTATTACA-AGTC-GAGATATAT
1 TGGGCCTAGCCCATATTAATATCAATCTGGGCCATAGCCC-ATTACAGA-TCAGAG-TATAT
* *
96830596 TGGGCCTTGGCCATATTAA
1 TGGGCCTAGCCCATATTAA
96830615 CACAGTTGGG
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
59 4 0.06
60 52 0.78
61 11 0.16
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.30
Consensus pattern (59 bp):
TGGGCCTAGCCCATATTAATATCAATCTGGGCCATAGCCCATTACAGATCAGAGTATAT
Found at i:96830658 original size:19 final size:20
Alignment explanation
Indices: 96830616--96830658 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
96830606 CCATATTAAC
** *
96830616 ACAGTTGGGCCCATTTCAAT
1 ACAGTTGGGCCCATAACAAA
96830636 ACAGTT-GGCCCATAACAAA
1 ACAGTTGGGCCCATAACAAA
96830655 ACAG
1 ACAG
96830659 CCTTATATGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.21
Consensus pattern (20 bp):
ACAGTTGGGCCCATAACAAA
Found at i:96837731 original size:16 final size:16
Alignment explanation
Indices: 96837710--96837743 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
96837700 CTATATATGC
*
96837710 AAAATATAAAAGACAT
1 AAAATACAAAAGACAT
96837726 AAAATACAAAAGACAT
1 AAAATACAAAAGACAT
96837742 AA
1 AA
96837744 TAATGAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.09, G:0.06, T:0.15
Consensus pattern (16 bp):
AAAATACAAAAGACAT
Found at i:96866896 original size:13 final size:13
Alignment explanation
Indices: 96866878--96866903 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
96866868 GCGTTGAGGC
96866878 CCTGGGACATGTT
1 CCTGGGACATGTT
96866891 CCTGGGACATGTT
1 CCTGGGACATGTT
96866904 GGAGGGATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.23, G:0.31, T:0.31
Consensus pattern (13 bp):
CCTGGGACATGTT
Found at i:96869670 original size:20 final size:20
Alignment explanation
Indices: 96869645--96869697 Score: 81
Period size: 20 Copynumber: 2.6 Consensus size: 20
96869635 TATTTTGTAA
96869645 AAAGTATAGATACT-TGGTGC
1 AAAGTATAGATACTCT-GTGC
*
96869665 AAAGTATCGATACTCTGTGC
1 AAAGTATAGATACTCTGTGC
96869685 AAAGTATAGATAC
1 AAAGTATAGATAC
96869698 CTTGACCTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
20 29 0.97
21 1 0.03
ACGTcount: A:0.38, C:0.13, G:0.21, T:0.28
Consensus pattern (20 bp):
AAAGTATAGATACTCTGTGC
Found at i:96873479 original size:30 final size:30
Alignment explanation
Indices: 96873444--96873501 Score: 100
Period size: 30 Copynumber: 1.9 Consensus size: 30
96873434 TAGGCACTTC
96873444 CACACGGGT-GATCCACACGCCCGTGTGTGA
1 CACACGGGTAGA-CCACACGCCCGTGTGTGA
96873474 CACACGGGTAGACCACACGCCCGTGTGT
1 CACACGGGTAGACCACACGCCCGTGTGT
96873502 CATGGCCGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 25 0.93
31 2 0.07
ACGTcount: A:0.21, C:0.34, G:0.29, T:0.16
Consensus pattern (30 bp):
CACACGGGTAGACCACACGCCCGTGTGTGA
Found at i:96890601 original size:39 final size:39
Alignment explanation
Indices: 96890547--96890626 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
96890537 ATTTACAAAC
96890547 CCATTTTACCAATTTAGGTCTTCAGATAGTGTGAACGAG
1 CCATTTTACCAATTTAGGTCTTCAGATAGTGTGAACGAG
*
96890586 CCATTTTACCAATTTAGGTCTTCGGATAGTGTGAACGAG
1 CCATTTTACCAATTTAGGTCTTCAGATAGTGTGAACGAG
96890625 CC
1 CC
96890627 TTTGACCTAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.33
Consensus pattern (39 bp):
CCATTTTACCAATTTAGGTCTTCAGATAGTGTGAACGAG
Found at i:96897361 original size:5 final size:5
Alignment explanation
Indices: 96897335--96897392 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
96897325 ATGTGTTAAA
* *
96897335 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
96897384 ATATT ATAT
1 ATATT ATAT
96897393 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:96897371 original size:10 final size:9
Alignment explanation
Indices: 96897336--96897393 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
96897326 TGTGTTAAAA
96897336 TATATATAT
1 TATATATAT
*
96897345 TAAAT-TAT
1 TATATATAT
96897353 TAT-TATAT
1 TATATATAT
96897361 TATAGTATAT
1 TATA-TATAT
96897371 TATAT-TA-
1 TATATATAT
96897378 TATATTATAT
1 TATA-TATAT
96897388 TATATA
1 TATATA
96897394 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:96897383 original size:12 final size:12
Alignment explanation
Indices: 96897338--96897393 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
96897328 TGTTAAAATA
*
96897338 TATATATTAAAT
1 TATATATTATAT
96897350 TAT-TATTATATT
1 TATATATTATA-T
96897362 ATAGTATATTATAT
1 -TA-TATATTATAT
96897376 TATATATTATAT
1 TATATATTATAT
96897388 TATATA
1 TATATA
96897394 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:96898731 original size:18 final size:19
Alignment explanation
Indices: 96898710--96898748 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
96898700 ATATATAGAT
96898710 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
96898728 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
96898747 AT
1 AT
96898749 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:96899099 original size:39 final size:39
Alignment explanation
Indices: 96898989--96899123 Score: 103
Period size: 39 Copynumber: 3.4 Consensus size: 39
96898979 GACCTCGAGT
* * * *
96898989 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** * ** * *
96899030 CGATGAGGTACTAGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
96899068 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
96899107 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
96899124 CCATATTGGT
Statistics
Matches: 71, Mismatches: 21, Indels: 6
0.72 0.21 0.06
Matches are distributed among these distances:
38 17 0.24
39 35 0.49
40 4 0.06
41 15 0.21
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:96899269 original size:18 final size:19
Alignment explanation
Indices: 96899246--96899286 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
96899236 AATGAAATGA
96899246 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
96899264 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
96899283 GAAA
1 GAAA
96899287 ACATGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:96902000 original size:12 final size:12
Alignment explanation
Indices: 96901979--96902024 Score: 76
Period size: 12 Copynumber: 3.9 Consensus size: 12
96901969 TTTGATGCAA
96901979 AAAATAAAAAAT
1 AAAATAAAAAAT
*
96901991 AAAAT-GAAAAT
1 AAAATAAAAAAT
96902002 AAAATAAAAAAT
1 AAAATAAAAAAT
96902014 AAAATAAAAAA
1 AAAATAAAAAA
96902025 ATGAAGTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
11 10 0.32
12 21 0.68
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (12 bp):
AAAATAAAAAAT
Found at i:96902005 original size:23 final size:23
Alignment explanation
Indices: 96901979--96902023 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
96901969 TTTGATGCAA
*
96901979 AAAATAAAAAATAAAATGAAAAT
1 AAAATAAAAAATAAAATAAAAAT
96902002 AAAATAAAAAATAAAATAAAAA
1 AAAATAAAAAATAAAATAAAAA
96902024 AATGAAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.82, C:0.00, G:0.02, T:0.16
Consensus pattern (23 bp):
AAAATAAAAAATAAAATAAAAAT
Found at i:96903836 original size:5 final size:5
Alignment explanation
Indices: 96903810--96903867 Score: 62
Period size: 5 Copynumber: 10.8 Consensus size: 5
96903800 ATGTGTTAAA
* *
96903810 ATATAT ATATT AAATT ATTATT ATATT ATAGT ATATT ATATTAT ATATT
1 ATAT-T ATATT ATATT A-TATT ATATT ATATT ATATT ATA-T-T ATATT
96903859 ATATT ATAT
1 ATATT ATAT
96903868 AAATAAGTAA
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
5 31 0.69
6 10 0.22
7 4 0.09
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (5 bp):
ATATT
Found at i:96903846 original size:10 final size:9
Alignment explanation
Indices: 96903811--96903868 Score: 61
Period size: 8 Copynumber: 6.7 Consensus size: 9
96903801 TGTGTTAAAA
96903811 TATATATAT
1 TATATATAT
*
96903820 TAAAT-TAT
1 TATATATAT
96903828 TAT-TATAT
1 TATATATAT
96903836 TATAGTATAT
1 TATA-TATAT
96903846 TATAT-TA-
1 TATATATAT
96903853 TATATTATAT
1 TATA-TATAT
96903863 TATATA
1 TATATA
96903869 AATAAGTAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
7 5 0.12
8 14 0.34
9 9 0.22
10 13 0.32
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (9 bp):
TATATATAT
Found at i:96903858 original size:12 final size:12
Alignment explanation
Indices: 96903813--96903868 Score: 69
Period size: 12 Copynumber: 4.5 Consensus size: 12
96903803 TGTTAAAATA
*
96903813 TATATATTAAAT
1 TATATATTATAT
96903825 TAT-TATTATATT
1 TATATATTATA-T
96903837 ATAGTATATTATAT
1 -TA-TATATTATAT
96903851 TATATATTATAT
1 TATATATTATAT
96903863 TATATA
1 TATATA
96903869 AATAAGTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
11 6 0.15
12 20 0.51
13 4 0.10
14 2 0.05
15 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (12 bp):
TATATATTATAT
Found at i:96905206 original size:18 final size:19
Alignment explanation
Indices: 96905185--96905223 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
96905175 ATATATATAT
96905185 ATATATATTGAATA-TTGA
1 ATATATATTGAATATTTGA
*
96905203 ATATATATTGATTATTTGA
1 ATATATATTGAATATTTGA
96905222 AT
1 AT
96905224 TGAATTGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (19 bp):
ATATATATTGAATATTTGA
Found at i:96905574 original size:39 final size:39
Alignment explanation
Indices: 96905464--96905598 Score: 112
Period size: 39 Copynumber: 3.4 Consensus size: 39
96905454 GACCTCGAGT
* * * *
96905464 CGATGAGACACTGGGTGTCACTATATTTCTTCGGATAGATT
1 CGATGAGACACTGGGTGTCA-AATATTACTTCGGCTAG-TC
** ** * *
96905505 CGATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGGC
1 CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
* *
96905543 CGATGAGACACTGGGTGTCAAATATTGCTTCGAACTA-TC
1 CGATGAGACACTGGGTGTCAAATATTACTTCG-GCTAGTC
*
96905582 CGATGAGGCACTGGGTG
1 CGATGAGACACTGGGTG
96905599 CCATATTGGT
Statistics
Matches: 73, Mismatches: 19, Indels: 6
0.74 0.19 0.06
Matches are distributed among these distances:
38 18 0.25
39 35 0.48
40 4 0.05
41 16 0.22
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.28
Consensus pattern (39 bp):
CGATGAGACACTGGGTGTCAAATATTACTTCGGCTAGTC
Found at i:96905744 original size:18 final size:19
Alignment explanation
Indices: 96905721--96905761 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
96905711 AATGAAATGA
96905721 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
96905739 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
96905758 GAAA
1 GAAA
96905762 ACAAGAACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:96920604 original size:13 final size:13
Alignment explanation
Indices: 96920586--96920623 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
96920576 GACCTGCCCG
*
96920586 TATTATTTTTTTA
1 TATTATTTTTTAA
96920599 TATTA-TTTTTAA
1 TATTATTTTTTAA
*
96920611 TATAATTTTTTAA
1 TATTATTTTTTAA
96920624 AAAAAAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTATTTTTTAA
Found at i:96920894 original size:21 final size:21
Alignment explanation
Indices: 96920870--96920909 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
96920860 AAAAAACAAG
96920870 AAAATAGCAACAAAATAGTAA
1 AAAATAGCAACAAAATAGTAA
* *
96920891 AAAATAGCTAGAAAATAGT
1 AAAATAGCAACAAAATAGT
96920910 TTTTTTTTTT
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:0.62, C:0.07, G:0.12, T:0.17
Consensus pattern (21 bp):
AAAATAGCAACAAAATAGTAA
Found at i:96925194 original size:27 final size:28
Alignment explanation
Indices: 96925118--96925198 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 28
96925108 GGAATTGAGT
*
96925118 TGAATCAAGTATAACACACATAAAGCAC
1 TGAATCAAATATAACACACATAAAGCAC
* *
96925146 TGAATCAAATATAATACACATAAAGCAT
1 TGAATCAAATATAACACACATAAAGCAC
* * *
96925174 TGGATC-CATATAACACGCATAAAGC
1 TGAATCAAATATAACACACATAAAGC
96925199 GTTAGATCTC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
27 16 0.35
28 30 0.65
ACGTcount: A:0.48, C:0.20, G:0.11, T:0.21
Consensus pattern (28 bp):
TGAATCAAATATAACACACATAAAGCAC
Found at i:96925206 original size:27 final size:27
Alignment explanation
Indices: 96925127--96925206 Score: 81
Period size: 27 Copynumber: 2.9 Consensus size: 27
96925117 TTGAATCAAG
* *
96925127 TATAACACACATAAAGCACT-GAATCAAA
1 TATAACACACATAAAGCATTAG-ATC-CA
* *
96925155 TATAATACACATAAAGCATTGGATCCA
1 TATAACACACATAAAGCATTAGATCCA
* *
96925182 TATAACACGCATAAAGCGTTAGATC
1 TATAACACACATAAAGCATTAGATC
96925207 TCCCTCCTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 22 0.50
28 21 0.48
29 1 0.02
ACGTcount: A:0.46, C:0.20, G:0.11, T:0.23
Consensus pattern (27 bp):
TATAACACACATAAAGCATTAGATCCA
Found at i:96925689 original size:2 final size:2
Alignment explanation
Indices: 96925682--96925716 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
96925672 TCAAGGTATC
*
96925682 AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
96925717 ATTCTCATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:96928325 original size:14 final size:16
Alignment explanation
Indices: 96928301--96928339 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
96928291 CAAATATAAA
96928301 AAAATTATTATAA-TT
1 AAAATTATTATAATTT
96928316 AAAATT-TTATAATTT
1 AAAATTATTATAATTT
96928331 AAAATTATT
1 AAAATTATT
96928340 TAAATCTGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.27
15 14 0.64
16 2 0.09
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
AAAATTATTATAATTT
Found at i:96933688 original size:13 final size:14
Alignment explanation
Indices: 96933670--96933699 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
96933660 GGCTACATTG
96933670 TTTC-TTTCTTTTT
1 TTTCTTTTCTTTTT
96933683 TTTCTTTTCTTTTT
1 TTTCTTTTCTTTTT
96933697 TTT
1 TTT
96933700 ATGGTAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTCTTTTCTTTTT
Found at i:96937877 original size:10 final size:10
Alignment explanation
Indices: 96937862--96937893 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
96937852 TAAATACATT
96937862 TAATTAAAGA
1 TAATTAAAGA
96937872 TAATTAAAGA
1 TAATTAAAGA
96937882 TAATTAAA-A
1 TAATTAAAGA
96937891 TAA
1 TAA
96937894 AATCCCAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:96937938 original size:15 final size:15
Alignment explanation
Indices: 96937918--96937947 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
96937908 ATAATCCTAA
*
96937918 TAATTATCTTAATAT
1 TAATTATCCTAATAT
96937933 TAATTATCCTAATAT
1 TAATTATCCTAATAT
96937948 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:96939359 original size:41 final size:41
Alignment explanation
Indices: 96939314--96939398 Score: 170
Period size: 41 Copynumber: 2.1 Consensus size: 41
96939304 TTAAAACACA
96939314 TAGTCCTCGATGTGGAATAAATAAAATAGGAGAAAAAGGTG
1 TAGTCCTCGATGTGGAATAAATAAAATAGGAGAAAAAGGTG
96939355 TAGTCCTCGATGTGGAATAAATAAAATAGGAGAAAAAGGTG
1 TAGTCCTCGATGTGGAATAAATAAAATAGGAGAAAAAGGTG
96939396 TAG
1 TAG
96939399 AGGAACTCCT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.44, C:0.07, G:0.27, T:0.22
Consensus pattern (41 bp):
TAGTCCTCGATGTGGAATAAATAAAATAGGAGAAAAAGGTG
Found at i:96939577 original size:5 final size:5
Alignment explanation
Indices: 96939567--96939628 Score: 58
Period size: 5 Copynumber: 12.4 Consensus size: 5
96939557 TTAATATCTG
* *
96939567 AATAA AATAA AAT-- AATAA GATAA AAT-A AATAAA AAGAAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AAT-AA AA-TAA AATAA AATAA
96939616 AATAAA AATAA AA
1 AAT-AA AATAA AA
96939629 ATTGGGTTAC
Statistics
Matches: 47, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
3 3 0.06
4 4 0.09
5 28 0.60
6 12 0.26
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AATAA
Found at i:96939598 original size:17 final size:17
Alignment explanation
Indices: 96939568--96939617 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
96939558 TAATATCTGA
*
96939568 ATAAAATAAAATAATAAG
1 ATAAAAT-AAATAAAAAG
96939586 ATAAAATAAATAAAAAG
1 ATAAAATAAATAAAAAG
96939603 A-AAAATAAAATAAAA
1 ATAAAAT-AAATAAAA
96939618 TAAAAATAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 5 0.17
17 18 0.60
18 7 0.23
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (17 bp):
ATAAAATAAATAAAAAG
Found at i:96939612 original size:6 final size:6
Alignment explanation
Indices: 96939593--96939630 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
96939583 AAGATAAAAT
*
96939593 AAATAA AAAGAA AAAT-A AAAT-A AAATAA AAATAA AAAT
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAAT
96939631 TGGGTTACCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
5 10 0.34
6 19 0.66
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:96939623 original size:22 final size:21
Alignment explanation
Indices: 96939567--96939630 Score: 76
Period size: 22 Copynumber: 2.9 Consensus size: 21
96939557 TTAATATCTG
*
96939567 AATAAAATAAAATAATAAGATAA
1 AATAAAATAAAA-AA-AAAATAA
96939590 AAT-AAATAAAAAGAAAAATAA
1 AATAAAATAAAAA-AAAAATAA
96939611 AATAAAATAAAAATAAAAAT
1 AATAAAATAAAAA-AAAAAT
96939631 TGGGTTACCT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
21 10 0.27
22 24 0.65
23 3 0.08
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.19
Consensus pattern (21 bp):
AATAAAATAAAAAAAAAATAA
Found at i:96939630 original size:17 final size:17
Alignment explanation
Indices: 96939570--96939628 Score: 70
Period size: 16 Copynumber: 3.5 Consensus size: 17
96939560 ATATCTGAAT
96939570 AAAATAAAATAATAAGAT-
1 AAAATAAAATAA-AA-ATA
*
96939588 AAAAT-AAATAAAAAGA
1 AAAATAAAATAAAAATA
96939604 AAAATAAAAT-AAAATA
1 AAAATAAAATAAAAATA
96939620 AAAATAAAA
1 AAAATAAAA
96939629 ATTGGGTTAC
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
15 1 0.03
16 21 0.57
17 10 0.27
18 5 0.14
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (17 bp):
AAAATAAAATAAAAATA
Found at i:96943343 original size:10 final size:10
Alignment explanation
Indices: 96943328--96943359 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
96943318 TAAATACATT
96943328 TAATTAAAGA
1 TAATTAAAGA
96943338 TAATTAAAGA
1 TAATTAAAGA
96943348 TAATTAAA-A
1 TAATTAAAGA
96943357 TAA
1 TAA
96943360 AATCCTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.18
10 18 0.82
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.31
Consensus pattern (10 bp):
TAATTAAAGA
Found at i:96943385 original size:27 final size:26
Alignment explanation
Indices: 96943355--96943417 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
96943345 AGATAATTAA
96943355 AATAAAATCCTAAAATTAAATAATCCT
1 AATAAAATCCTAAAATTAAAT-ATCCT
* * * *
96943382 AATAATTATCTTAATATTAAGTATCCT
1 AATAA-AATCCTAAAATTAAATATCCT
96943409 AATATAAAT
1 AATA-AAAT
96943418 AAAATGGAGT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
27 16 0.55
28 13 0.45
ACGTcount: A:0.51, C:0.11, G:0.02, T:0.37
Consensus pattern (26 bp):
AATAAAATCCTAAAATTAAATATCCT
Found at i:96947253 original size:30 final size:30
Alignment explanation
Indices: 96947161--96947230 Score: 140
Period size: 30 Copynumber: 2.3 Consensus size: 30
96947151 GGTGAATTAA
96947161 GTTGCTCACACAAGCTAACATTATATCAAG
1 GTTGCTCACACAAGCTAACATTATATCAAG
96947191 GTTGCTCACACAAGCTAACATTATATCAAG
1 GTTGCTCACACAAGCTAACATTATATCAAG
96947221 GTTGCTCACA
1 GTTGCTCACA
96947231 TAACCTAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 40 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.27
Consensus pattern (30 bp):
GTTGCTCACACAAGCTAACATTATATCAAG
Found at i:96947810 original size:21 final size:19
Alignment explanation
Indices: 96947774--96947814 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
96947764 TTTTACTTTG
*
96947774 ATATTAAATCATGCAATTA
1 ATATTAAATCAAGCAATTA
96947793 ATATATAAATGCAAGCAATTA
1 ATAT-TAAAT-CAAGCAATTA
96947814 A
1 A
96947815 ATTTATCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 5 0.26
21 10 0.53
ACGTcount: A:0.51, C:0.10, G:0.07, T:0.32
Consensus pattern (19 bp):
ATATTAAATCAAGCAATTA
Found at i:96961123 original size:37 final size:37
Alignment explanation
Indices: 96961073--96961147 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
96961063 GTCAGCCCTA
96961073 TCAATCCCCTTGGATTCACTTCTGTTTATTTGAAACT
1 TCAATCCCCTTGGATTCACTTCTGTTTATTTGAAACT
96961110 TCAATCCCCTTGGATTCACTTCTGTTTATTTGAAACT
1 TCAATCCCCTTGGATTCACTTCTGTTTATTTGAAACT
96961147 T
1 T
96961148 TCTTCACGCA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.21, C:0.24, G:0.11, T:0.44
Consensus pattern (37 bp):
TCAATCCCCTTGGATTCACTTCTGTTTATTTGAAACT
Found at i:96969293 original size:26 final size:24
Alignment explanation
Indices: 96969262--96969310 Score: 80
Period size: 26 Copynumber: 2.0 Consensus size: 24
96969252 AAATAAAAAT
96969262 TTTAAAAATATAATAAATCAAATATA
1 TTTAAAAATATAA-AAA-CAAATATA
96969288 TTTAAAAATATAAAAACAAATAT
1 TTTAAAAATATAAAAACAAATAT
96969311 TAAAAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (24 bp):
TTTAAAAATATAAAAACAAATATA
Found at i:96969318 original size:24 final size:26
Alignment explanation
Indices: 96969265--96969320 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
96969255 TAAAAATTTT
**
96969265 AAAAATATAATAAATCAAATATATTT
1 AAAAATATAATAAATCAAATATATAA
96969291 AAAAATATAA-AAA-CAAATAT-TAA
1 AAAAATATAATAAATCAAATATATAA
96969314 AAAAATA
1 AAAAATA
96969321 AAAATAATAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 8 0.29
24 7 0.25
25 3 0.11
26 10 0.36
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.27
Consensus pattern (26 bp):
AAAAATATAATAAATCAAATATATAA
Found at i:96969334 original size:20 final size:21
Alignment explanation
Indices: 96969290--96969334 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
96969280 CAAATATATT
* *
96969290 TAAAAATATAAAAACAAATAT
1 TAAAAAAATAAAAACAAATAC
*
96969311 TAAAAAAATAAAAA-TAATAC
1 TAAAAAAATAAAAACAAATAC
96969331 TAAA
1 TAAA
96969335 GCAATTCTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.22
Consensus pattern (21 bp):
TAAAAAAATAAAAACAAATAC
Found at i:97000187 original size:20 final size:21
Alignment explanation
Indices: 97000158--97000198 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
97000148 GGGACTTATT
97000158 TGTAAAAAGT-TAAA-AAATG
1 TGTAAAAAGTGTAAATAAATG
97000177 TGTAGAAAAGTGTAAATAAATG
1 TGTA-AAAAGTGTAAATAAATG
97000199 AAAAAAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.21
20 6 0.32
21 4 0.21
22 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.20, T:0.27
Consensus pattern (21 bp):
TGTAAAAAGTGTAAATAAATG
Found at i:97006885 original size:40 final size:40
Alignment explanation
Indices: 97006840--97007031 Score: 221
Period size: 40 Copynumber: 4.8 Consensus size: 40
97006830 ATAACCACAA
* * *
97006840 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGAAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGAAACTC
**
97006880 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGAAACTC
*
97006920 GCACAAATGCCTTCGGGTCTTAGCCCGGATA-A-AATCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGAA--ACTC
* * *
97006960 GCATAAATGCCTTCGGGACTTAGCCCGGATA-A-AATCACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGAA--ACTC
* *
97007000 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
97007032 CATTCAAATG
Statistics
Matches: 140, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
38 1 0.01
39 1 0.01
40 138 0.99
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGAAACTC
Found at i:97006924 original size:80 final size:80
Alignment explanation
Indices: 97006811--97007027 Score: 244
Period size: 80 Copynumber: 2.7 Consensus size: 80
97006801 ACCCAAGTTT
* * * * * * * *
97006811 CTTCGGAATTTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGA
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGG-ATAAA
*
97006875 A-ACTCGCACAAATGC
65 ACACTAGCACAAATGC
* * *
97006890 CTTCGGGTCTTAGCCCGGAT-ATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCC-GGATAAA
1 CTTCGGGACTTAGCCCGGATAAAATC-ACTAGCACAAATGCCTTCGGGTCTTAGCCCGGGATAAA
*
97006953 ATCACTAGCATAAATGC
65 A-CACTAGCACAAATGC
* *
97006970 CTTCGGGACTTAGCCCGGATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGG
97007028 ATATCATTCA
Statistics
Matches: 114, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
78 5 0.04
79 14 0.12
80 90 0.79
81 5 0.04
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATAAAATCACTAGCACAAATGCCTTCGGGTCTTAGCCCGGGATAAAA
CACTAGCACAAATGC
Found at i:97012086 original size:28 final size:29
Alignment explanation
Indices: 97012055--97012109 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
97012045 CCTGTTCAGT
* *
97012055 AACAATA-CAGTATGGGCTTTAGCCCTTA
1 AACAATAGCAGTATGGGCCTAAGCCCTTA
97012083 AACAATAGCAGTATGGGCCTAAGCCCT
1 AACAATAGCAGTATGGGCCTAAGCCCT
97012110 AATTCAGTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 7 0.29
29 17 0.71
ACGTcount: A:0.33, C:0.24, G:0.20, T:0.24
Consensus pattern (29 bp):
AACAATAGCAGTATGGGCCTAAGCCCTTA
Found at i:97012172 original size:31 final size:30
Alignment explanation
Indices: 97012123--97012205 Score: 123
Period size: 31 Copynumber: 2.7 Consensus size: 30
97012113 TCAGTCTCGA
*
97012123 CATATACTGGTCCGAAGCCTTTTCATAAAT
1 CATATACTGGGCCGAAGCCTTTTCATAAAT
*
97012153 CATATAACTGGGCCAAAGCCTTTTCATAAAT
1 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
97012184 CATATCACT-GGCCGAAGCCTTT
1 CATAT-ACTGGGCCGAAGCCTTT
97012206 ACTATAAGCG
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
30 17 0.35
31 31 0.65
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.30
Consensus pattern (30 bp):
CATATACTGGGCCGAAGCCTTTTCATAAAT
Found at i:97012462 original size:25 final size:26
Alignment explanation
Indices: 97012425--97012494 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 26
97012415 CTCTTTTAAT
*
97012425 AACTGGGGCAAAGCCCTTTTTGA-TA
1 AACTGGGGCAAAGCCCTTTTTCAGTA
*
97012450 AATTGGGGCAAAGCCC-TTTTCAGTA
1 AACTGGGGCAAAGCCCTTTTTCAGTA
*
97012475 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
97012495 AGCACTTCCT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
24 5 0.13
25 31 0.79
26 3 0.08
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCAGTA
Found at i:97013358 original size:27 final size:27
Alignment explanation
Indices: 97013295--97013372 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
97013285 GGGCATATTT
97013295 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
** *
97013322 GTCACATTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
* *
97013349 GTCTTTTTACC-TATTAGGGGTATT
1 GTCATTTTACCATA-CAGGGGTATT
97013373 TTAGTCATTT
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
26 3 0.07
27 37 0.90
28 1 0.02
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:97013443 original size:27 final size:27
Alignment explanation
Indices: 97013413--97013492 Score: 83
Period size: 27 Copynumber: 2.9 Consensus size: 27
97013403 GTAAATCTAC
97013413 AAACCAAGGGTATTTC-AGTAATTTTGT
1 AAACCAAGGGTATTTCTA-TAATTTTGT
*
97013440 AAACCAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
* *
97013466 AGAAAGTCAAGGGTATTTTTATAATTT
1 --AAA-CCAAGGGTATTTCTATAATTT
97013493 CATAAATTAG
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 1 0.02
27 22 0.49
28 4 0.09
29 18 0.40
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:97013517 original size:27 final size:27
Alignment explanation
Indices: 97013476--97013599 Score: 135
Period size: 27 Copynumber: 4.6 Consensus size: 27
97013466 AGAAAGTCAA
** * *
97013476 GGGTATTTTTATAATTTCATAAATTAG
1 GGGTATTTTGGTAATTTCACAAACTAG
*
97013503 GGGTATTTTGGTAATTTTC-CAAA-TTG
1 GGGTATTTTGGTAA-TTTCACAAACTAG
* *
97013529 AGGGTATTTCGGTAATTTCACAAACCAG
1 -GGGTATTTTGGTAATTTCACAAACTAG
* *
97013557 TGGTATTTTGGTAATTTTACAAACTAG
1 GGGTATTTTGGTAATTTCACAAACTAG
97013584 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
97013600 CTACCCTATA
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.07
27 70 0.86
28 5 0.06
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTCACAAACTAG
Found at i:97013615 original size:81 final size:81
Alignment explanation
Indices: 97013477--97013629 Score: 200
Period size: 81 Copynumber: 1.9 Consensus size: 81
97013467 GAAAGTCAAG
* * * * * *
97013477 GGTATTTTTATAATTTCATAAATTAGGGGTATTTTGGTAATTTTCCAAATTGAGGGTATTTCGGT
1 GGTATTTTGATAATTTCACAAACTAGGGGTATTTTGGTAATTTACCAAATAGAGGGTATTTCAGT
97013542 AATTTCACAAACCAGT
66 AATTTCACAAACCAGT
* * **
97013558 GGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTCTACCCTATAG-GGGTATTTCAG
1 GGTATTTTGATAATTTCACAAACTAGGGGTATTTTGGTAATT-TACCAAATAGAGGGTATTTCAG
97013622 TAATTTCA
65 TAATTTCA
97013630 TAATCGAGGG
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 55 0.90
82 6 0.10
ACGTcount: A:0.28, C:0.10, G:0.20, T:0.42
Consensus pattern (81 bp):
GGTATTTTGATAATTTCACAAACTAGGGGTATTTTGGTAATTTACCAAATAGAGGGTATTTCAGT
AATTTCACAAACCAGT
Found at i:97013693 original size:27 final size:27
Alignment explanation
Indices: 97013619--97013695 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
97013609 AGGGGTATTT
97013619 CAGTAATT-T-CATAATCGAGGGTAAAA
1 CAGTAATTCTACA-AATCGAGGGTAAAA
* * * * *
97013645 CGGTAATTTTGCAAGTCAAGGGTAAAA
1 CAGTAATTCTACAAATCGAGGGTAAAA
*
97013672 CAGTGATTCTACAAATCGAGGGTA
1 CAGTAATTCTACAAATCGAGGGTA
97013696 CTTTGGTAAT
Statistics
Matches: 40, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
26 7 0.17
27 31 0.77
28 2 0.05
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (27 bp):
CAGTAATTCTACAAATCGAGGGTAAAA
Found at i:97044134 original size:16 final size:17
Alignment explanation
Indices: 97044115--97044151 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
97044105 ATATTAATTT
97044115 ATATT-TTTATTTAAA-A
1 ATATTATTT-TTTAAATA
97044131 ATATTATTTTTTAAATA
1 ATATTATTTTTTAAATA
97044148 ATAT
1 ATAT
97044152 CGTATTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
ATATTATTTTTTAAATA
Found at i:97047625 original size:18 final size:17
Alignment explanation
Indices: 97047598--97047637 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
97047588 ATAAAATGAC
*
97047598 AATAATATAATGAGAACA
1 AATAAAATAATGA-AACA
*
97047616 AATAAAATAATGAAATA
1 AATAAAATAATGAAACA
97047633 AATAA
1 AATAA
97047638 TAAAATATTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 8 0.40
18 12 0.60
ACGTcount: A:0.68, C:0.03, G:0.07, T:0.23
Consensus pattern (17 bp):
AATAAAATAATGAAACA
Found at i:97048094 original size:25 final size:23
Alignment explanation
Indices: 97048057--97048108 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
97048047 TAATGAAATT
*
97048057 TAAAGTGTAAAATTTAAAAAAAAAA
1 TAAAGGGTAAAA-TT-AAAAAAAAA
* *
97048082 TAAAGGGTCAAATTAAAATAAAA
1 TAAAGGGTAAAATTAAAAAAAAA
97048105 TAAA
1 TAAA
97048109 ATAAACAAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 12 0.50
24 2 0.08
25 10 0.42
ACGTcount: A:0.65, C:0.02, G:0.10, T:0.23
Consensus pattern (23 bp):
TAAAGGGTAAAATTAAAAAAAAA
Found at i:97049375 original size:16 final size:17
Alignment explanation
Indices: 97049345--97049383 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 17
97049335 TTTATAAATC
97049345 TAAATATTATTATGTTA
1 TAAATATTATTATGTTA
97049362 TAAATATT-TTATGTTA
1 TAAATATTATTATGTTA
*
97049378 CAAATA
1 TAAATA
97049384 GGCGAATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.49
Consensus pattern (17 bp):
TAAATATTATTATGTTA
Found at i:97052010 original size:15 final size:15
Alignment explanation
Indices: 97051990--97052022 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
97051980 GCATTTTCAT
97051990 ACAACCAAAACATCC
1 ACAACCAAAACATCC
*
97052005 ACAACCAAGACATCC
1 ACAACCAAAACATCC
97052020 ACA
1 ACA
97052023 CATCATTCAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.52, C:0.39, G:0.03, T:0.06
Consensus pattern (15 bp):
ACAACCAAAACATCC
Found at i:97066132 original size:30 final size:29
Alignment explanation
Indices: 97066082--97066142 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
97066072 TTTGCAATTT
*
97066082 CATTTTATTTTAATATAATTTGGCCCTAA
1 CATTTTATTTTAATATAATTTAGCCCTAA
* *
97066111 CATTTTGATTTT-ATTTCAATTTAGTCCTAA
1 CATTTT-ATTTTAATAT-AATTTAGCCCTAA
97066141 CA
1 CA
97066143 GCTCCTTTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 9 0.33
30 18 0.67
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.49
Consensus pattern (29 bp):
CATTTTATTTTAATATAATTTAGCCCTAA
Found at i:97066415 original size:5 final size:5
Alignment explanation
Indices: 97066397--97066533 Score: 71
Period size: 5 Copynumber: 29.0 Consensus size: 5
97066387 TATTTTCAAG
* *
97066397 TATAT T-TA- TATAT TATAT TAT-T TAT-T AATA- TATAT TATTT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * * *
97066442 T-T-T TATAT TATTAT ATATAT TATAT TATCT TATGT TTTAA TATA- CAT-T
1 TATAT TATAT TA-TAT -TATAT TATAT TATAT TATAT TATAT TATAT TATAT
* * * *
97066490 ATATAT TATAT TATGT TATTT TATAT TTTAT CATA- TAT-T TATAT
1 -TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
97066534 CTTATTACAT
Statistics
Matches: 100, Mismatches: 19, Indels: 26
0.69 0.13 0.18
Matches are distributed among these distances:
3 3 0.03
4 23 0.23
5 65 0.65
6 7 0.07
7 2 0.02
ACGTcount: A:0.35, C:0.02, G:0.01, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:97066420 original size:52 final size:51
Alignment explanation
Indices: 97066362--97066474 Score: 124
Period size: 52 Copynumber: 2.2 Consensus size: 51
97066352 ATATAAAAAT
* *
97066362 TTATTTATT-TGTATATTATTTTTGTTATTTTCAAGTA-TATT-TATATATTATA
1 TTATTTATTATATATATTA-TTTT-ATATTTT-AA-TATTATTATATATATTATA
*
97066414 TTATTTATTAATATATATTATTTTATATTTTTATATTATTATATATATTATA
1 TTATTTATT-ATATATATTATTTTATATTTTAATATTATTATATATATTATA
97066466 TTATCTTAT
1 TTAT-TTAT
97066475 GTTTTAATAT
Statistics
Matches: 53, Mismatches: 3, Indels: 9
0.82 0.05 0.14
Matches are distributed among these distances:
50 2 0.04
51 5 0.09
52 30 0.57
53 8 0.15
54 8 0.15
ACGTcount: A:0.32, C:0.02, G:0.03, T:0.64
Consensus pattern (51 bp):
TTATTTATTATATATATTATTTTATATTTTAATATTATTATATATATTATA
Found at i:97066422 original size:32 final size:31
Alignment explanation
Indices: 97066367--97066525 Score: 112
Period size: 32 Copynumber: 5.4 Consensus size: 31
97066357 AAAATTTATT
* *
97066367 TATTTGTATATTAT-TTTTGTTATTTTCAAGTA
1 TATTTATATATTATATTATGTTATTTT-AA-TA
97066399 TATTTATATATTATATTAT-TTA--TTAATA
1 TATTTATATATTATATTATGTTATTTTAATA
*
97066427 TATATTAT-T-TTATATT-T-TTATATT-AT-
1 TAT-TTATATATTATATTATGTTATTTTAATA
*
97066453 TA--TATATATTATATTATCTTATGTTTTAATA
1 TATTTATATATTATATTATGTTA--TTTTAATA
*
97066484 TACATTATATATTATATTATGTTATTTT-ATA
1 TA-TTTATATATTATATTATGTTATTTTAATA
97066515 T-TTTATCATAT
1 TATTTAT-ATAT
97066526 ATTTATATCT
Statistics
Matches: 106, Mismatches: 5, Indels: 34
0.73 0.03 0.23
Matches are distributed among these distances:
23 3 0.03
24 1 0.01
25 7 0.07
26 7 0.07
27 12 0.11
28 8 0.08
29 13 0.12
30 8 0.08
31 6 0.06
32 20 0.19
33 3 0.03
34 18 0.17
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.62
Consensus pattern (31 bp):
TATTTATATATTATATTATGTTATTTTAATA
Done.