Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 150 of 175
Found at i:45483589 original size:22 final size:23
Alignment explanation
Indices: 45483502--45483616 Score: 94
Period size: 23 Copynumber: 5.0 Consensus size: 23
45483492 ATATTTAAGC
* * *
45483502 TTAACATTGTTTTAAATTTATCA
1 TTAATATTATTTTAAATTTATTA
* *
45483525 TTAGTATTATTTTAATATTTAATA
1 TTAATATTATTTTAA-ATTTATTA
*
45483549 -TACTATTATTTTAAA-TTATTA
1 TTAATATTATTTTAAATTTATTA
*
45483570 TTAATATTA-TTTAAATTTATCA
1 TTAATATTATTTTAAATTTATTA
* *
45483592 -TATATCAATATTTTAAATTCATTA
1 TTA-AT-ATTATTTTAAATTTATTA
45483616 T
1 T
45483617 GTACTATTTT
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
21 13 0.18
22 15 0.21
23 28 0.38
24 17 0.23
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (23 bp):
TTAATATTATTTTAAATTTATTA
Found at i:45483595 original size:45 final size:43
Alignment explanation
Indices: 45483511--45483630 Score: 118
Period size: 45 Copynumber: 2.7 Consensus size: 43
45483501 CTTAACATTG
* * *
45483511 TTTTAAATTTATCATTAGTATTATTTTAATATTTAATATA-CTATTA
1 TTTTAAA-TTATTATTAATATTA-TTTAA-ATTTAATATATC-AATA
45483557 TTTTAAATTATTATTAATATTATTTAAATTTATCATATATCAATA
1 TTTTAAATTATTATTAATATTATTTAAATTTA--ATATATCAATA
*
45483602 TTTTAAATTCATTATGTACTATT-TTTAAA
1 TTTTAAATT-ATTAT-TAATATTATTTAAA
45483631 AAAAAACTTA
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
43 5 0.08
44 5 0.08
45 30 0.46
46 19 0.29
47 6 0.09
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.55
Consensus pattern (43 bp):
TTTTAAATTATTATTAATATTATTTAAATTTAATATATCAATA
Found at i:45483630 original size:22 final size:20
Alignment explanation
Indices: 45483557--45483630 Score: 58
Period size: 24 Copynumber: 3.4 Consensus size: 20
45483547 TATACTATTA
*
45483557 TTTTAAATTATTATTAATAT
1 TTTTAAATTATTATTACTAT
* *
45483577 TATTTAAATTTATCATATATCAAT
1 T-TTTAAA-TTATTAT-TA-CTAT
45483601 ATTTTAAATTCATTATGTACTAT
1 -TTTTAAATT-ATTAT-TACTAT
45483624 TTTTAAA
1 TTTTAAA
45483631 AAAAAACTTA
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
20 1 0.02
21 6 0.14
22 13 0.31
23 7 0.17
24 14 0.33
25 1 0.02
ACGTcount: A:0.39, C:0.05, G:0.01, T:0.54
Consensus pattern (20 bp):
TTTTAAATTATTATTACTAT
Found at i:45484057 original size:14 final size:14
Alignment explanation
Indices: 45484022--45484058 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
45484012 TCGATCTTTT
45484022 TATATATA-TA-TA
1 TATATATATTAGTA
45484034 TATATATATTAGTA
1 TATATATATTAGTA
*
45484048 TATATGTATTA
1 TATATATATTA
45484059 TTACTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 8 0.36
13 2 0.09
14 12 0.55
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.51
Consensus pattern (14 bp):
TATATATATTAGTA
Found at i:45485365 original size:12 final size:12
Alignment explanation
Indices: 45485334--45485359 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
45485324 TTCAACTAAT
45485334 AAAGCAAACAAA
1 AAAGCAAACAAA
45485346 AAAGCAAACAAA
1 AAAGCAAACAAA
45485358 AA
1 AA
45485360 CTCAAATGGA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.77, C:0.15, G:0.08, T:0.00
Consensus pattern (12 bp):
AAAGCAAACAAA
Found at i:45485605 original size:56 final size:56
Alignment explanation
Indices: 45485501--45485615 Score: 148
Period size: 55 Copynumber: 2.1 Consensus size: 56
45485491 TTAATGTGAT
45485501 AAAGTAGGTGTCGACCATCGATGTCCCAAAACAAAAAAACAATTTCGGGACCCGAA
1 AAAGTAGGTGTCGACCATCGATGTCCCAAAACAAAAAAACAATTTCGGGACCCGAA
**
45485557 AAAGTA-GTGTC-AGCCATC-AGTGTCCCAAAGTAAAAAAA-AATTCCTCGGGACCCGAA
1 AAAGTAGGTGTCGA-CCATCGA-TGTCCCAAAACAAAAAAACAATT--TCGGGACCCGAA
45485613 AAA
1 AAA
45485616 TGTACTTGGT
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
54 6 0.11
55 26 0.49
56 21 0.40
ACGTcount: A:0.42, C:0.23, G:0.19, T:0.17
Consensus pattern (56 bp):
AAAGTAGGTGTCGACCATCGATGTCCCAAAACAAAAAAACAATTTCGGGACCCGAA
Found at i:45492913 original size:19 final size:20
Alignment explanation
Indices: 45492868--45492920 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
45492858 CATATACGAA
*
45492868 ATATAAATTTTAATTTAAAT
1 ATATAAATTATAATTTAAAT
* *
45492888 ATATAAATTATATTTTAAGT
1 ATATAAATTATAATTTAAAT
*
45492908 AT-TAAAATATAAT
1 ATATAAATTATAAT
45492921 AATTACAAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.32
20 19 0.68
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (20 bp):
ATATAAATTATAATTTAAAT
Found at i:45493342 original size:31 final size:32
Alignment explanation
Indices: 45493304--45493370 Score: 102
Period size: 31 Copynumber: 2.1 Consensus size: 32
45493294 CTTTAAATCC
45493304 ATACATTTGAA-TCAAAATCAAAATTT-TATGT
1 ATACATTTGAACT-AAAATCAAAATTTATATGT
45493335 ATACATTTGAACTAAAATCAAAATTTAATATGT
1 ATACATTTGAACTAAAATCAAAATTT-ATATGT
45493368 ATA
1 ATA
45493371 ATTGCAAAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
31 24 0.73
32 1 0.03
33 8 0.24
ACGTcount: A:0.48, C:0.09, G:0.06, T:0.37
Consensus pattern (32 bp):
ATACATTTGAACTAAAATCAAAATTTATATGT
Found at i:45497005 original size:15 final size:15
Alignment explanation
Indices: 45496979--45497034 Score: 55
Period size: 15 Copynumber: 3.8 Consensus size: 15
45496969 AAGTTCAAAT
45496979 TTTTTAAA--TTTAA
1 TTTTTAAATTTTTAA
*
45496992 TTTTTATATTTTT-A
1 TTTTTAAATTTTTAA
*
45497006 TTTTTAAGAATTTTTAT
1 TTTTT-A-AATTTTTAA
45497023 TTTTTAAATTTT
1 TTTTTAAATTTT
45497035 AACAACTAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
13 7 0.20
14 6 0.17
15 10 0.29
16 7 0.20
17 5 0.14
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.70
Consensus pattern (15 bp):
TTTTTAAATTTTTAA
Found at i:45497034 original size:24 final size:24
Alignment explanation
Indices: 45496990--45497036 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
45496980 TTTTAAATTT
*
45496990 AATTTTTATATTTTTATTTTTAAG
1 AATTTTTATATTTTTAATTTTAAG
45497014 AATTTTTAT-TTTTTAAATTTTAA
1 AATTTTTATATTTTT-AATTTTAA
45497037 CAACTAGTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (24 bp):
AATTTTTATATTTTTAATTTTAAG
Found at i:45502424 original size:15 final size:15
Alignment explanation
Indices: 45502404--45502455 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
45502394 AATAATTAGT
45502404 AAAAATTATAAATTA
1 AAAAATTATAAATTA
*
45502419 AAAAATTATTAA--A
1 AAAAATTATAAATTA
*
45502432 AAAAAGTATAAATTA
1 AAAAATTATAAATTA
*
45502447 TAAAATTAT
1 AAAAATTAT
45502456 TAATACTTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
13 11 0.37
15 19 0.63
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (15 bp):
AAAAATTATAAATTA
Found at i:45502441 original size:28 final size:28
Alignment explanation
Indices: 45502404--45502458 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
45502394 AATAATTAGT
*
45502404 AAAAATTATAAATTAAAAAATTATTAAA
1 AAAAAGTATAAATTAAAAAATTATTAAA
*
45502432 AAAAAGTATAAATTATAAAATTATTAA
1 AAAAAGTATAAATTAAAAAATTATTAA
45502459 TACTTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (28 bp):
AAAAAGTATAAATTAAAAAATTATTAAA
Found at i:45504703 original size:18 final size:17
Alignment explanation
Indices: 45504680--45504714 Score: 61
Period size: 17 Copynumber: 2.0 Consensus size: 17
45504670 TGTGTGAACT
45504680 AATTAATTAATTAAATTA
1 AATTAATT-ATTAAATTA
45504698 AATTAATTATTAAATTA
1 AATTAATTATTAAATTA
45504715 GTACTTATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AATTAATTATTAAATTA
Found at i:45511911 original size:95 final size:99
Alignment explanation
Indices: 45511702--45511933 Score: 339
Period size: 95 Copynumber: 2.4 Consensus size: 99
45511692 AATAAAGTAA
*
45511702 TGGCGCTATTTAGAATGACTCCACCAAATAAAATATTATTTTTTAAAAAATTTTAAATATAAAAA
1 TGGCGCCATTTAGAATGACTCCACCAAATAAAATATTATTTTTTAAAAAATTTTAAATATAAAAA
**
45511767 AATAGATTTTTTTTAAAAAGTCTTAAAATGAATTGG
66 AATAGA--TTTTAAAAAAAGTCTTAAAATGAATTGG
* *
45511803 TGACGCCATTTAGAATGGCTCCACCAAATAAAATATTA-TTTTT-AAAAATTTTAAATAT-AAAA
1 TGGCGCCATTTAGAATGACTCCACCAAATAAAATATTATTTTTTAAAAAATTTTAAATATAAAAA
45511865 AATAGA-TTTAAAAAAAGTCTTAAAATGAATTGG
66 AATAGATTTTAAAAAAAGTCTTAAAATGAATTGG
* *
45511898 TGGCGCCATTTAGAATAACTCTACCAAA-AAGAATAT
1 TGGCGCCATTTAGAATGACTCCACCAAATAA-AATAT
45511934 ACATTTAAAA
Statistics
Matches: 121, Mismatches: 9, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
94 2 0.02
95 54 0.45
98 10 0.08
99 15 0.12
100 5 0.04
101 35 0.29
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (99 bp):
TGGCGCCATTTAGAATGACTCCACCAAATAAAATATTATTTTTTAAAAAATTTTAAATATAAAAA
AATAGATTTTAAAAAAAGTCTTAAAATGAATTGG
Found at i:45517165 original size:22 final size:22
Alignment explanation
Indices: 45517136--45517227 Score: 87
Period size: 22 Copynumber: 4.0 Consensus size: 22
45517126 TGCACTAATG
45517136 AACAGAGAGCACTGAAGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
* * * *
45517158 TACAGAGAGTACAGATGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
*
45517180 AACAGAGAGCACTGACGTGCTA
1 AACAGAGAGCACTGAAGTGCTA
*
45517202 GTAATCAAAGAGCACT-AACGTGCTA
1 --AA-CAGAGAGCACTGAA-GTGCTA
45517227 A
1 A
45517228 TAATGAGAGA
Statistics
Matches: 56, Mismatches: 10, Indels: 7
0.77 0.14 0.10
Matches are distributed among these distances:
22 36 0.64
23 1 0.02
24 3 0.05
25 16 0.29
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.17
Consensus pattern (22 bp):
AACAGAGAGCACTGAAGTGCTA
Found at i:45517215 original size:25 final size:25
Alignment explanation
Indices: 45517182--45517263 Score: 119
Period size: 25 Copynumber: 3.3 Consensus size: 25
45517172 ATGTGCTAAA
* *
45517182 CAGAGAGCACTGACGTGCTAGTAAT
1 CAGAGAGCACTAACGTGCTAATAAT
*
45517207 CAAAGAGCACTAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCTAATAAT
* *
45517232 GAGAGAGCACCAACGTGCTAATAAT
1 CAGAGAGCACTAACGTGCTAATAAT
45517257 CAGAGAG
1 CAGAGAG
45517264 TGCGCTAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 50 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (25 bp):
CAGAGAGCACTAACGTGCTAATAAT
Found at i:45518216 original size:5 final size:5
Alignment explanation
Indices: 45518208--45518250 Score: 86
Period size: 5 Copynumber: 8.6 Consensus size: 5
45518198 CTTTTTCTTT
45518208 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
1 TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TAT
45518251 TTATACTTAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 38 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TATAA
Found at i:45525178 original size:24 final size:24
Alignment explanation
Indices: 45525150--45525201 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
45525140 TTAGTAAATC
*
45525150 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
45525174 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
45525198 AAAT
1 AAAT
45525202 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:45526486 original size:47 final size:47
Alignment explanation
Indices: 45526432--45526526 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
45526422 GATCATGCGA
45526432 AACGTAAATAGACGTTGTTTTAACACTAAACGGTTAGCCAGAGACTT
1 AACGTAAATAGACGTTGTTTTAACACTAAACGGTTAGCCAGAGACTT
45526479 AACGTAAATAGACGTTGTTTTAACACTAAACGGTTAGCCAGAGACTT
1 AACGTAAATAGACGTTGTTTTAACACTAAACGGTTAGCCAGAGACTT
45526526 A
1 A
45526527 GTCGCATCAA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (47 bp):
AACGTAAATAGACGTTGTTTTAACACTAAACGGTTAGCCAGAGACTT
Found at i:45527192 original size:24 final size:24
Alignment explanation
Indices: 45527165--45527216 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
45527155 TTAGTAAGTC
*
45527165 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
45527189 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
45527213 AAAT
1 AAAT
45527217 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:45537511 original size:16 final size:16
Alignment explanation
Indices: 45537486--45537519 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
45537476 AACATATTAT
*
45537486 ATTATTAATTAATAAA
1 ATTATAAATTAATAAA
*
45537502 ATTATAAATTTATAAA
1 ATTATAAATTAATAAA
45537518 AT
1 AT
45537520 CATTGAAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTATAAATTAATAAA
Found at i:45539059 original size:29 final size:29
Alignment explanation
Indices: 45539027--45539092 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 29
45539017 ACCAATAAAA
45539027 GCCGTTTTTTTCAAAATTTACCGAAATGG
1 GCCGTTTTTTTCAAAATTTACCGAAATGG
* * ** *
45539056 GCCGATTTTTTGATTATTTACCGGAATGG
1 GCCGTTTTTTTCAAAATTTACCGAAATGG
*
45539085 GCCATTTT
1 GCCGTTTT
45539093 CCGTGAAATC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.41
Consensus pattern (29 bp):
GCCGTTTTTTTCAAAATTTACCGAAATGG
Found at i:45540902 original size:54 final size:54
Alignment explanation
Indices: 45540820--45540925 Score: 176
Period size: 54 Copynumber: 2.0 Consensus size: 54
45540810 ACCAAACCCT
* *
45540820 TATATTACTCGTTTTGGTCCATCTATTGTGTTAAATATTGAGATTTAATGGATC
1 TATATTACTCATTTTGATCCATCTATTGTGTTAAATATTGAGATTTAATGGATC
* *
45540874 TATATTACTCATTTTGATCTATCTATTGTGTTAAATTTTGAGATTTAATGGA
1 TATATTACTCATTTTGATCCATCTATTGTGTTAAATATTGAGATTTAATGGA
45540926 GCAATTAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 48 1.00
ACGTcount: A:0.27, C:0.09, G:0.15, T:0.48
Consensus pattern (54 bp):
TATATTACTCATTTTGATCCATCTATTGTGTTAAATATTGAGATTTAATGGATC
Found at i:45540942 original size:128 final size:124
Alignment explanation
Indices: 45540716--45540996 Score: 402
Period size: 128 Copynumber: 2.2 Consensus size: 124
45540706 TTGATATATT
* *
45540716 TATTGTGTTAAATATTGAGATTTAATGGATCCATATTACTCGATTGATTTATCTATTTTGTTAAA
1 TATTGTGTTAAATATTGAGATTTAATGGATCCATATTACTCGATTGATCTATCTATTGTGTTAAA
* * **
45540781 ATTTGAGATTTAATGGAGCAATTAAATTAACCAAACCCTTATATTACTCGTTTTGGTCCATC
66 ATTTGAGATTTAATGGAGCAATTAAATCAACCAAACCC-CA-A-TACTCGTTTTCATCCATC
*
45540843 TATTGTGTTAAATATTGAGATTTAATGGATCTATATTACTC-ATTTTGATCTATCTATTGTGTTA
1 TATTGTGTTAAATATTGAGATTTAATGGATCCATATTACTCGA--TTGATCTATCTATTGTGTTA
* * *
45540907 AATTTTGAGATTTAATGGAGCAATTAAATCCACCAAACCCCAATACTCGTTTTCATCTATC
64 AAATTTGAGATTTAATGGAGCAATTAAATCAACCAAACCCCAATACTCGTTTTCATCCATC
* *
45540968 TATTGTGTTAAATTTTGAGATTTTATGGA
1 TATTGTGTTAAATATTGAGATTTAATGGA
45540997 GCGGTTAAAT
Statistics
Matches: 140, Mismatches: 12, Indels: 6
0.89 0.08 0.04
Matches are distributed among these distances:
125 42 0.30
126 2 0.01
127 41 0.29
128 55 0.39
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (124 bp):
TATTGTGTTAAATATTGAGATTTAATGGATCCATATTACTCGATTGATCTATCTATTGTGTTAAA
ATTTGAGATTTAATGGAGCAATTAAATCAACCAAACCCCAATACTCGTTTTCATCCATC
Found at i:45541061 original size:76 final size:76
Alignment explanation
Indices: 45540876--45541142 Score: 418
Period size: 76 Copynumber: 3.6 Consensus size: 76
45540866 AATGGATCTA
* * * **
45540876 TATTACTCATTTTGATCTATCTATTGTGTTAAATTTTGAGATTTAATGGAGCAATTAAATCCACC
1 TATTACTCGTTTTCATCTATCTATTGTGTTAAATTTTGAGATTTTATGGAGCGGTTAAATCCACC
45540941 AAA--CC-CC-
66 AAACCCCGCCG
*
45540948 -AATACTCGTTTTCATCTATCTATTGTGTTAAATTTTGAGATTTTATGGAGCGGTTAAATCCACC
1 TATTACTCGTTTTCATCTATCTATTGTGTTAAATTTTGAGATTTTATGGAGCGGTTAAATCCACC
45541012 AAACCCCGCCG
66 AAACCCCGCCG
45541023 TATTACTCGTTTTCATCTATCTATTGTGTTAAATTTTGAGATTTTATGGAGCGGTTAAATCCACC
1 TATTACTCGTTTTCATCTATCTATTGTGTTAAATTTTGAGATTTTATGGAGCGGTTAAATCCACC
45541088 AAACCCCGCCG
66 AAACCCCGCCG
* * *
45541099 TATTACTCGTTTTGATCTATCTAATGTGTTGAATTTTGAGATTT
1 TATTACTCGTTTTCATCTATCTATTGTGTTAAATTTTGAGATTT
45541143 AATTTTTAAG
Statistics
Matches: 180, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
71 61 0.34
73 2 0.01
74 2 0.01
76 115 0.64
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (76 bp):
TATTACTCGTTTTCATCTATCTATTGTGTTAAATTTTGAGATTTTATGGAGCGGTTAAATCCACC
AAACCCCGCCG
Found at i:45544450 original size:20 final size:19
Alignment explanation
Indices: 45544418--45544489 Score: 65
Period size: 19 Copynumber: 3.7 Consensus size: 19
45544408 TCCCTCTAAA
45544418 AAAAAGATT-AAAATAATATT
1 AAAAA-ATTCAAAATAATA-T
* **
45544438 TAAAAATTCAAAATTTTAT
1 AAAAAATTCAAAATAATAT
**
45544457 AAAAAATTCAAAATTTTAT
1 AAAAAATTCAAAATAATAT
45544476 AAAAAATTCTAAAA
1 AAAAAATTC-AAAA
45544490 ATTTATAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 4
0.85 0.07 0.07
Matches are distributed among these distances:
19 31 0.67
20 15 0.33
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.33
Consensus pattern (19 bp):
AAAAAATTCAAAATAATAT
Found at i:45544461 original size:39 final size:39
Alignment explanation
Indices: 45544418--45544501 Score: 100
Period size: 39 Copynumber: 2.2 Consensus size: 39
45544408 TCCCTCTAAA
* *
45544418 AAAAAGATT-AAAATAATATTTAAAAATTC-AAAATTTTAT
1 AAAAA-ATTCAAAATAATA-TAAAAAATTCTAAAAATTTAT
**
45544457 AAAAAATTCAAAATTTTATAAAAAATTCTAAAAATTTAT
1 AAAAAATTCAAAATAATATAAAAAATTCTAAAAATTTAT
45544496 AAAAAA
1 AAAAAA
45544502 AATATTATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
38 12 0.31
39 27 0.69
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.33
Consensus pattern (39 bp):
AAAAAATTCAAAATAATATAAAAAATTCTAAAAATTTAT
Found at i:45544494 original size:20 final size:19
Alignment explanation
Indices: 45544439--45544501 Score: 108
Period size: 19 Copynumber: 3.3 Consensus size: 19
45544429 AATAATATTT
45544439 AAAAATTCAAAATTTTATA
1 AAAAATTCAAAATTTTATA
45544458 AAAAATTCAAAATTTTATA
1 AAAAATTCAAAATTTTATA
*
45544477 AAAAATTCTAAAAATTTATA
1 AAAAATTC-AAAATTTTATA
45544497 AAAAA
1 AAAAA
45544502 AATATTATTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
19 27 0.64
20 15 0.36
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (19 bp):
AAAAATTCAAAATTTTATA
Found at i:45547224 original size:16 final size:16
Alignment explanation
Indices: 45547200--45547243 Score: 61
Period size: 17 Copynumber: 2.7 Consensus size: 16
45547190 TTTGTTATTT
*
45547200 AAAACGAAATAAAAGA
1 AAAAAGAAATAAAAGA
*
45547216 AAAAAGAAAATAAAATA
1 AAAAAG-AAATAAAAGA
45547233 AAAAAGAAATA
1 AAAAAGAAATA
45547244 TATGTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 10 0.40
17 15 0.60
ACGTcount: A:0.80, C:0.02, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAAAGAAATAAAAGA
Found at i:45547226 original size:17 final size:17
Alignment explanation
Indices: 45547206--45547241 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
45547196 ATTTAAAACG
45547206 AAATAAAAGAAAAAAGA
1 AAATAAAAGAAAAAAGA
*
45547223 AAATAAAATAAAAAAGA
1 AAATAAAAGAAAAAAGA
45547240 AA
1 AA
45547242 TATATGTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.83, C:0.00, G:0.08, T:0.08
Consensus pattern (17 bp):
AAATAAAAGAAAAAAGA
Found at i:45548124 original size:30 final size:31
Alignment explanation
Indices: 45548074--45548139 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 31
45548064 TTGTATCTTC
*
45548074 GATCTACTTCACTGCCAATACAGGAAGACAA
1 GATCTACTTCACTACCAATACAGGAAGACAA
*
45548105 GATCTACTTCAC-ACCAATACATGAAGACAA
1 GATCTACTTCACTACCAATACAGGAAGACAA
45548135 GATCT
1 GATCT
45548140 GCTTTCTCCG
Statistics
Matches: 33, Mismatches: 2, Indels: 1
0.92 0.06 0.03
Matches are distributed among these distances:
30 21 0.64
31 12 0.36
ACGTcount: A:0.39, C:0.26, G:0.14, T:0.21
Consensus pattern (31 bp):
GATCTACTTCACTACCAATACAGGAAGACAA
Found at i:45548242 original size:44 final size:44
Alignment explanation
Indices: 45548105--45548853 Score: 666
Period size: 44 Copynumber: 16.9 Consensus size: 44
45548095 AGGAAGACAA
* * *
45548105 GATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTCC
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTC
* *** * * *
45548149 GATCTACTTCGC-CATCAGTATGGGAAGACAAGATCTGGTATCTTT
1 GATCTACTTCACGC--CAGTACATGAAGACAAGATCTGCTTTCTTC
* *
45548194 GATCTACTTCACGCCAGTACATGAAGATAAGATATGCTTTCTTC
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTC
* * *** * * *
45548238 GATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGGTATCTTT
1 GATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTTTCTTC
*
45548283 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTTC
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTC
* *** * * *
45548327 GATCTACTTCACCACCAGTATGGGAAGACAAGATCTGGTATCTTT
1 GATCTACTTCA-CGCCAGTACATGAAGACAAGATCTGCTTTCTTC
* *
45548372 GATCTACTTCAAGCCAGTACATGAAGATAAGATCTGCTTTCTTC
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTC
* **
45548416 GATCTACTTCACGCCAATACATGAAGACAAGATCTG-TTGGTTC
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTC
* * * * *
45548459 TGATCCACTTCATGTCAGTACATGAAGACAAGATCTG-TCATCTTT
1 -GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT-TTCTTC
* * * * * *
45548504 GATCTACTTCATGCCAATACATGAAGATAAGATCTGCTATATTT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTC
* * * *
45548548 GATCAACTTCGCTGCCAGTACAGGAAGACAAGATCTACTTTCTTC
1 GATCTACTTCAC-GCCAGTACATGAAGACAAGATCTGCTTTCTTC
* * * *** *
45548593 AATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTTTCTTC
1 GATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTTTCTTC
* *
45548638 GATCTACTTCACGCCAATACATAAAGACAAGATCTGCTTTCTTC
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTC
* * **
45548682 GATCTACTTCACGCCAATACATGAAGACAAGATCT-ATTGGTTC
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTC
* * * *
45548725 TGATCCACTTCATGTCAGTACATGAAGACAAGATCTG-TCATCTTC
1 -GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT-TTCTTC
* * * * * *
45548770 GATCTACTTCATGCCAATA-ATGAAGATAAGATCTGCTATATTT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTC
* ** * *
45548813 GATCAACTTCGTTGCCAGTACAGGAAGATAAGATCTG-TTTC
1 GATCTACTTC-ACGCCAGTACATGAAGACAAGATCTGCTTTC
45548854 CTTTTCAACC
Statistics
Matches: 569, Mismatches: 120, Indels: 32
0.79 0.17 0.04
Matches are distributed among these distances:
43 39 0.07
44 333 0.59
45 195 0.34
46 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (44 bp):
GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTC
Found at i:45548257 original size:89 final size:89
Alignment explanation
Indices: 45548105--45548779 Score: 735
Period size: 89 Copynumber: 7.6 Consensus size: 89
45548095 AGGAAGACAA
* * * *
45548105 GATCTACTTCACACCAATACATGAAGACAAGATCTGCTTTCTCCGATCTACTTCGCCATCAGTAT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
45548170 GGGAAGACAAGATCTGGTATCTTT
66 GGGAAGACAAGATCTGGTATCTTT
* *
45548194 GATCTACTTCACGCCAGTACATGAAGATAAGATATGCTTTCTTCGATCTACTTCGCCACCAGTAT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
45548259 GGGAAGACAAGATCTGGTATCTTT
66 GGGAAGACAAGATCTGGTATCTTT
* *
45548283 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTTCGATCTACTTCACCACCAGTAT
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
45548348 GGGAAGACAAGATCTGGTATCTTT
66 GGGAAGACAAGATCTGGTATCTTT
* * * * * *
45548372 GATCTACTTCAAGCCAGTACATGAAGATAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATAC
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
** *
45548436 ATGAAGACAAGATCT-GT-TGGTTCT
66 GGGAAGACAAGATCTGGTAT-CTT-T
* * * * *
45548460 GATCCACTTCATGTCAGTACATGAAGACAAGATCTG-TCATCTTTGATCTACTTCATGCCA--A-
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT-TTCTTCGATCTACTTC--GCCACCAG
*** * * *
45548521 TACATGAAGATAAGATCTGCTATATTT
63 TATGGGAAGACAAGATCTGGTATCTTT
* * * * *
45548548 GATCAACTTCGCTGCCAGTACAGGAAGACAAGATCTACTTTCTTCAATCTACTTCGCCACCAGTA
1 GATCTACTTCAC-GCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTA
** * *
45548613 TGGGAAGACAAGATCTACTTTCTTC
65 TGGGAAGACAAGATCTGGTATCTTT
* * * * * *
45548638 GATCTACTTCACGCCAATACATAAAGACAAGATCTGCTTTCTTCGATCTACTTC-ACGCCAATAC
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
**
45548702 ATGAAGACAAGATCTATTGGT-TC--T
66 GGGAAGACAAGATC---TGGTATCTTT
* * * *
45548726 GATCCACTTCATGTCAGTACATGAAGACAAGATCTG-TCATCTTCGATCTACTTC
1 GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCT-TTCTTCGATCTACTTC
45548780 ATGCCAATAA
Statistics
Matches: 499, Mismatches: 70, Indels: 35
0.83 0.12 0.06
Matches are distributed among these distances:
86 1 0.00
87 10 0.02
88 157 0.31
89 295 0.59
90 33 0.07
91 3 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.30
Consensus pattern (89 bp):
GATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCGCCACCAGTAT
GGGAAGACAAGATCTGGTATCTTT
Found at i:45548580 original size:266 final size:265
Alignment explanation
Indices: 45548105--45548853 Score: 1009
Period size: 266 Copynumber: 2.8 Consensus size: 265
45548095 AGGAAGACAA
*
45548105 GATCTACTTCACA-CCAATACATGAAGACAAGATCTGCTTTCTCCGATCTACTT--CGCC-ATCA
1 GATCTACTTCA-AGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAAT-A
* * * * * * *
45548166 GTATGGGAAGACAAGATCTGGTAT-CTT-TGATCTACTTCACGCCAGTACATGAAGATAAGATAT
64 -CAT--GAAGACAAGATCT-GT-TGGTTCTGATCCACTTCATGTCAGTACATGAAGACAAGATCT
* * * * *
45548229 G-CTTTCTTCGATCTACTTC--GCCACCAGT-ATGGGAAGACAAGATCTGGTATCTTTGATCTAC
124 GTC-ATCTTCGATCTACTTCATGCCA--A-TAAT--GAAGATAAGATCTGCTATATTTGATCAAC
* * * *
45548290 TTCAC-GCCAGTACATGAAGACAAGATCTGCTTTTTTCGATCTACTTCACCACCAGTATGGGAAG
183 TTCGCTGCCAGTACAGGAAGACAAGATCTGCTTTCTTCAATCTACTTCACCACCAGTATGGGAAG
** *
45548354 ACAAGATCTGGTATCTTT
248 ACAAGATCTACTATCTTC
* *
45548372 GATCTACTTCAAGCCAGTACATGAAGATAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACA
1 GATCTACTTCAAGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACA
45548437 TGAAGACAAGATCTGTTGGTTCTGATCCACTTCATGTCAGTACATGAAGACAAGATCTGTCATCT
66 TGAAGACAAGATCTGTTGGTTCTGATCCACTTCATGTCAGTACATGAAGACAAGATCTGTCATCT
*
45548502 TTGATCTACTTCATGCCAATACATGAAGATAAGATCTGCTATATTTGATCAACTTCGCTGCCAGT
131 TCGATCTACTTCATGCCAATA-ATGAAGATAAGATCTGCTATATTTGATCAACTTCGCTGCCAGT
* *
45548567 ACAGGAAGACAAGATCTACTTTCTTCAATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACT
195 ACAGGAAGACAAGATCTGCTTTCTTCAATCTACTTCACCACCAGTATGGGAAGACAAGATCTACT
*
45548632 TTCTTC
260 ATCTTC
* *
45548638 GATCTACTTCACGCCAATACATAAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACA
1 GATCTACTTCAAGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACA
*
45548703 TGAAGACAAGATCTATTGGTTCTGATCCACTTCATGTCAGTACATGAAGACAAGATCTGTCATCT
66 TGAAGACAAGATCTGTTGGTTCTGATCCACTTCATGTCAGTACATGAAGACAAGATCTGTCATCT
*
45548768 TCGATCTACTTCATGCCAATAATGAAGATAAGATCTGCTATATTTGATCAACTTCGTTGCCAGTA
131 TCGATCTACTTCATGCCAATAATGAAGATAAGATCTGCTATATTTGATCAACTTCGCTGCCAGTA
*
45548833 CAGGAAGATAAGATCTG-TTTC
196 CAGGAAGACAAGATCTGCTTTC
45548854 CTTTTCAACC
Statistics
Matches: 435, Mismatches: 35, Indels: 27
0.88 0.07 0.05
Matches are distributed among these distances:
264 5 0.01
265 92 0.21
266 274 0.63
267 51 0.12
268 6 0.01
269 5 0.01
270 2 0.00
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (265 bp):
GATCTACTTCAAGCCAATACATGAAGACAAGATCTGCTTTCTTCGATCTACTTCACGCCAATACA
TGAAGACAAGATCTGTTGGTTCTGATCCACTTCATGTCAGTACATGAAGACAAGATCTGTCATCT
TCGATCTACTTCATGCCAATAATGAAGATAAGATCTGCTATATTTGATCAACTTCGCTGCCAGTA
CAGGAAGACAAGATCTGCTTTCTTCAATCTACTTCACCACCAGTATGGGAAGACAAGATCTACTA
TCTTC
Found at i:45553418 original size:16 final size:16
Alignment explanation
Indices: 45553399--45553433 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
45553389 TTTTTACTGC
45553399 TTTTATTTTTATTTTG
1 TTTTATTTTTATTTTG
* *
45553415 TTTTTTTTTTCTTTTG
1 TTTTATTTTTATTTTG
45553431 TTT
1 TTT
45553434 CTTAAAACAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.06, C:0.03, G:0.06, T:0.86
Consensus pattern (16 bp):
TTTTATTTTTATTTTG
Found at i:45553929 original size:3 final size:3
Alignment explanation
Indices: 45553921--45553971 Score: 50
Period size: 3 Copynumber: 16.0 Consensus size: 3
45553911 TGTTAAATGG
*
45553921 TTA TTA TTA CTGTA TTA TTA TTA GTA TTTA TTA TTA TTA TGT- TTA TTA
1 TTA TTA TTA -T-TA TTA TTA TTA TTA -TTA TTA TTA TTA T-TA TTA TTA
45553969 TTA
1 TTA
45553972 CCATTTTAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
2 1 0.02
3 33 0.80
4 5 0.12
5 2 0.05
ACGTcount: A:0.29, C:0.02, G:0.06, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:45553967 original size:19 final size:15
Alignment explanation
Indices: 45553933--45553971 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
45553923 ATTATTACTG
45553933 TATTATTATTAGTATT
1 TATTATTATTAGTA-T
45553949 TATTATTATTATGT-T
1 TATTATTATTA-GTAT
45553964 TATTATTA
1 TATTATTA
45553972 CCATTTTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
16 11 0.50
17 2 0.09
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (15 bp):
TATTATTATTAGTAT
Found at i:45557171 original size:29 final size:30
Alignment explanation
Indices: 45557120--45557177 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
45557110 ATGTTGGTTG
*
45557120 TGATTTTGATTTTTGCTGTTAATGGTGTTC
1 TGATTTTGATTTTTGCTGTTAATGCTGTTC
45557150 TGATTTTGA-TTTTGCTGTTAATGCTGTT
1 TGATTTTGATTTTTGCTGTTAATGCTGTT
45557178 AATGGTTGTG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.14, C:0.07, G:0.22, T:0.57
Consensus pattern (30 bp):
TGATTTTGATTTTTGCTGTTAATGCTGTTC
Found at i:45557191 original size:29 final size:29
Alignment explanation
Indices: 45557120--45557192 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
45557110 ATGTTGGTTG
* * *
45557120 TGATTTTGATTTTTGCTGTTAATGGTGTTC
1 TGATTGTGA-TTTTGCTGTTAATGCTGTTA
*
45557150 TGATTTTGATTTTGCTGTTAATGCTGTTAA
1 TGATTGTGATTTTGCTGTTAATGCTGTT-A
* *
45557180 TGGTTGTGTTTTT
1 TGATTGTGATTTT
45557193 TATTTTTGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 18 0.49
30 19 0.51
ACGTcount: A:0.14, C:0.05, G:0.23, T:0.58
Consensus pattern (29 bp):
TGATTGTGATTTTGCTGTTAATGCTGTTA
Found at i:45557208 original size:37 final size:38
Alignment explanation
Indices: 45557133--45557214 Score: 105
Period size: 37 Copynumber: 2.2 Consensus size: 38
45557123 TTTTGATTTT
45557133 TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
1 TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
* * *
45557171 TGCTGTTAAT-G-GTTGTGTTTTTTATTTTTGCTGTTAA
1 TGCTGTTAATGGTGTTCTGATTTTGA-TTTTGCTGTTAA
*
45557208 TGGTGTT
1 TGCTGTT
45557215 CTGTTAATGT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
36 10 0.26
37 19 0.49
38 10 0.26
ACGTcount: A:0.13, C:0.06, G:0.24, T:0.56
Consensus pattern (38 bp):
TGCTGTTAATGGTGTTCTGATTTTGATTTTGCTGTTAA
Found at i:45558457 original size:13 final size:13
Alignment explanation
Indices: 45558439--45558547 Score: 128
Period size: 13 Copynumber: 8.2 Consensus size: 13
45558429 ATAAAATTTG
45558439 TAATATACTGTTT
1 TAATATACTGTTT
45558452 TAATATACTGTTT
1 TAATATACTGTTT
*
45558465 TAATATACTATTAT
1 TAATATACTGTT-T
* *
45558479 AAATATACTTTTT
1 TAATATACTGTTT
*
45558492 TAATATATTGTTT
1 TAATATACTGTTT
* *
45558505 TAATATACTATTA
1 TAATATACTGTTT
*
45558518 TAATTATATTGTTT
1 TAA-TATACTGTTT
*
45558532 TAATATAATGTTT
1 TAATATACTGTTT
45558545 TAA
1 TAA
45558548 CTTTTAACTT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
13 60 0.74
14 21 0.26
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (13 bp):
TAATATACTGTTT
Found at i:45558458 original size:27 final size:26
Alignment explanation
Indices: 45558428--45558547 Score: 105
Period size: 27 Copynumber: 4.5 Consensus size: 26
45558418 AATATACTGT
*
45558428 TATAAAATTTGTAATATACTGTTTTAA
1 TATAATATTT-TAATATACTGTTTTAA
* * * *
45558455 TATACTGTTTTAATATACTATTATAAA
1 TATAATATTTTAATATACTGTT-TTAA
* * *
45558482 TATACTTTTTTAATATATTGTTTTAA
1 TATAATATTTTAATATACTGTTTTAA
* * *
45558508 TATACTATTATAATTATATTGTTTTAA
1 TATAATATTTTAA-TATACTGTTTTAA
*
45558535 TATAATGTTTTAA
1 TATAATATTTTAA
45558548 CTTTTAACTT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
26 25 0.32
27 52 0.68
ACGTcount: A:0.38, C:0.04, G:0.05, T:0.53
Consensus pattern (26 bp):
TATAATATTTTAATATACTGTTTTAA
Found at i:45558484 original size:40 final size:40
Alignment explanation
Indices: 45558440--45558547 Score: 171
Period size: 40 Copynumber: 2.7 Consensus size: 40
45558430 TAAAATTTGT
*
45558440 AATATACTGTTTTAATATACTGTTTTAATATACTATTATA
1 AATATACTGTTTTAATATAATGTTTTAATATACTATTATA
* *
45558480 AATATACTTTTTTAATATATTGTTTTAATATACTATTATA
1 AATATACTGTTTTAATATAATGTTTTAATATACTATTATA
* *
45558520 ATTATATTGTTTTAATATAATGTTTTAA
1 AATATACTGTTTTAATATAATGTTTTAA
45558548 CTTTTAACTT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 62 1.00
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (40 bp):
AATATACTGTTTTAATATAATGTTTTAATATACTATTATA
Found at i:45558734 original size:13 final size:13
Alignment explanation
Indices: 45558716--45558846 Score: 126
Period size: 13 Copynumber: 10.2 Consensus size: 13
45558706 ATTTTTAATG
*
45558716 TAATATACTATTT
1 TAATATACTGTTT
45558729 TAATATACTGTTT
1 TAATATACTGTTT
*
45558742 TAA-A-A-T-TTA
1 TAATATACTGTTT
*
45558751 TAATATATTGTTT
1 TAATATACTGTTT
*
45558764 TAATATACTATTAT
1 TAATATACTGTT-T
* *
45558778 AAATATACTTTTT
1 TAATATACTGTTT
*
45558791 TAATATATTGTTT
1 TAATATACTGTTT
*
45558804 TAATATACTGTTA
1 TAATATACTGTTT
*
45558817 TAATTATATTGTTT
1 TAA-TATACTGTTT
*
45558831 TAATATAATGTTT
1 TAATATACTGTTT
45558844 TAA
1 TAA
45558847 CTTTTAAATT
Statistics
Matches: 97, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
9 5 0.05
10 2 0.02
11 2 0.02
12 2 0.02
13 64 0.66
14 22 0.23
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (13 bp):
TAATATACTGTTT
Found at i:45558806 original size:40 final size:40
Alignment explanation
Indices: 45558751--45558846 Score: 149
Period size: 40 Copynumber: 2.4 Consensus size: 40
45558741 TTAAAATTTA
45558751 TAATATATTGTTTTAATATACTATTATAAATATACTT-TTT
1 TAATATATTGTTTTAATATACTATTATAAATATA-TTGTTT
* *
45558791 TAATATATTGTTTTAATATACTGTTATAATTATATTGTTT
1 TAATATATTGTTTTAATATACTATTATAAATATATTGTTT
*
45558831 TAATATAATGTTTTAA
1 TAATATATTGTTTTAA
45558847 CTTTTAAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
39 2 0.04
40 50 0.96
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.55
Consensus pattern (40 bp):
TAATATATTGTTTTAATATACTATTATAAATATATTGTTT
Found at i:45558832 original size:27 final size:27
Alignment explanation
Indices: 45558779--45558878 Score: 105
Period size: 27 Copynumber: 3.7 Consensus size: 27
45558769 TACTATTATA
* *
45558779 AATATACTTTTTTAA-TATATTGTTTT
1 AATATACTGTTATAATTATATTGTTTT
45558805 AATATACTGTTATAATTATATTGTTTT
1 AATATACTGTTATAATTATATTGTTTT
* * * **
45558832 AATATAATGTTTTAACTTTTA-AATTTT
1 AATATACTGTTATAA-TTATATTGTTTT
*
45558859 AATATACTGTTATAAATATA
1 AATATACTGTTATAATTATA
45558879 CATTTAATTT
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
26 16 0.26
27 41 0.67
28 4 0.07
ACGTcount: A:0.37, C:0.04, G:0.05, T:0.54
Consensus pattern (27 bp):
AATATACTGTTATAATTATATTGTTTT
Found at i:45558836 original size:299 final size:299
Alignment explanation
Indices: 45558298--45558902 Score: 1050
Period size: 299 Copynumber: 2.0 Consensus size: 299
45558288 TAACAAAATG
*
45558298 ATTAAATTTTAGTTTCCATACTTTATTTTTTAACATAAATTGGTGCTTATATTTTTATAATGTTA
1 ATTAAATTTTAGTTTCCATACTTTATTTTTTAACATAAAATGGTGCTTATATTTTTATAATGTTA
* *
45558363 TTAACTAAATAATTAATATTGTTAATTTTTTTATTAAAACAATAATTTTTAATGTAATATACTGT
66 TTAACTAAATAATTAATATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTAT
* * * *
45558428 TATAAAATTTGTAATATACTGTTTTAATATACTGTTTTAATATACTATTATAAATATACTTTTTT
131 TATAAAATCTGTAATAAAATGTTATAATATACTGTTTTAATATACTATTATAAATATACTTTTTT
*
45558493 AATATATTGTTTTAATATACTATTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAACTT
196 AATATATTGTTTTAATATACTATTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAAATT
*
45558558 TTAGTATACTGTTATAAATATACATTTAATTTGTAACAC
261 TTAATATACTGTTATAAATATACATTTAATTTGTAACAC
*
45558597 ATTAAATTTTAGTTTCTATACTTTATTTTTTAACATAAAATGGTGCTTATATTTTTATAATGTTA
1 ATTAAATTTTAGTTTCCATACTTTATTTTTTAACATAAAATGGTGCTTATATTTTTATAATGTTA
45558662 TTAACTAAATAATTAATATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTAT
66 TTAACTAAATAATTAATATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTAT
* * ** *
45558727 TTTAATATACTGTTTTAAAAT-TTATAATATATTGTTTTAATATACTATTATAAATATACTTTTT
131 TATAAAAT-CTGTAATAAAATGTTATAATATACTGTTTTAATATACTATTATAAATATACTTTTT
*
45558791 TAATATATTGTTTTAATATACTGTTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAAAT
195 TAATATATTGTTTTAATATACTATTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAAAT
45558856 TTTAATATACTGTTATAAATATACATTTAATTTGTAACAC
260 TTTAATATACTGTTATAAATATACATTTAATTTGTAACAC
45558896 ATTAAAT
1 ATTAAAT
45558903 GTTGATGTCC
Statistics
Matches: 289, Mismatches: 16, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
299 282 0.98
300 7 0.02
ACGTcount: A:0.37, C:0.06, G:0.05, T:0.52
Consensus pattern (299 bp):
ATTAAATTTTAGTTTCCATACTTTATTTTTTAACATAAAATGGTGCTTATATTTTTATAATGTTA
TTAACTAAATAATTAATATTGTTAATTTTTTGATTAAAACAATAATTTTTAATGTAATATACTAT
TATAAAATCTGTAATAAAATGTTATAATATACTGTTTTAATATACTATTATAAATATACTTTTTT
AATATATTGTTTTAATATACTATTATAATTATATTGTTTTAATATAATGTTTTAACTTTTAAATT
TTAATATACTGTTATAAATATACATTTAATTTGTAACAC
Found at i:45561336 original size:9 final size:9
Alignment explanation
Indices: 45561302--45561327 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
45561292 TTGCAAAAAG
45561302 GACGATGAC
1 GACGATGAC
45561311 GACGATGAC
1 GACGATGAC
45561320 GACGATGA
1 GACGATGA
45561328 GGATGATGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.19, G:0.35, T:0.12
Consensus pattern (9 bp):
GACGATGAC
Found at i:45570102 original size:116 final size:116
Alignment explanation
Indices: 45569898--45570126 Score: 386
Period size: 116 Copynumber: 2.0 Consensus size: 116
45569888 GCAGGCTGGG
* *
45569898 GTTAATCCTTTGGCAGGTATCCTTTTGATTAATTACTTCAGATTGCATGTTTATTTTTCAGGTTT
1 GTTAATCCTATGGCAGGTATCCTTTTGATTAATTACTTCAGATTGCATGGTTATTTTTCAGGTTT
* *
45569963 AATTAAATTTTGTTTCTTTTGAATGATGGGTTTTTGCTTCGTTGGTATGAT
66 AATTAAATTTAGGTTCTTTTGAATGATGGGTTTTTGCTTCGTTGGTATGAT
* * * *
45570014 GTTAATCCTATGGCAGGTATCCTTTTGATTAATTATTTTAGATTGTATGGTTATTTTTCATGTTT
1 GTTAATCCTATGGCAGGTATCCTTTTGATTAATTACTTCAGATTGCATGGTTATTTTTCAGGTTT
45570079 AATTAAATTTAGGTTCTTTTGAATGATGGGTTTTTGCTTCGTTGGTAT
66 AATTAAATTTAGGTTCTTTTGAATGATGGGTTTTTGCTTCGTTGGTAT
45570127 CTAGCTTATA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
116 105 1.00
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (116 bp):
GTTAATCCTATGGCAGGTATCCTTTTGATTAATTACTTCAGATTGCATGGTTATTTTTCAGGTTT
AATTAAATTTAGGTTCTTTTGAATGATGGGTTTTTGCTTCGTTGGTATGAT
Found at i:45579446 original size:3 final size:3
Alignment explanation
Indices: 45579440--45579481 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
45579430 TGTTGTTTAG
* *
45579440 TAT TAT TAT TAT TAT TAT TAT TAC TAT TAT TAT TAC TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45579482 CCTTACTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:45579457 original size:12 final size:12
Alignment explanation
Indices: 45579440--45579497 Score: 80
Period size: 12 Copynumber: 4.8 Consensus size: 12
45579430 TGTTGTTTAG
*
45579440 TATTATTATTAT
1 TATTATTATTAC
45579452 TATTATTATTAC
1 TATTATTATTAC
45579464 TATTATTATTAC
1 TATTATTATTAC
**
45579476 TATTATCCTTAC
1 TATTATTATTAC
*
45579488 TATTACTATT
1 TATTATTATT
45579498 TTTACATTCA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (12 bp):
TATTATTATTAC
Found at i:45579493 original size:6 final size:6
Alignment explanation
Indices: 45579440--45579497 Score: 55
Period size: 6 Copynumber: 9.7 Consensus size: 6
45579430 TGTTGTTTAG
* * * * *
45579440 TATTAT TATTAT TATTAT TATTAC TATTAT TATTAC TATTA- TCCTTAC
1 TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC TATTAC T-ATTAC
45579488 TATTAC TATT
1 TATTAC TATT
45579498 TTTACATTCA
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
5 1 0.02
6 43 0.96
7 1 0.02
ACGTcount: A:0.31, C:0.10, G:0.00, T:0.59
Consensus pattern (6 bp):
TATTAC
Found at i:45579742 original size:15 final size:15
Alignment explanation
Indices: 45579719--45579750 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
45579709 TGTTTATATA
*
45579719 TTATGTTATTTTATT
1 TTATCTTATTTTATT
45579734 TTATCTTATTTTATT
1 TTATCTTATTTTATT
45579749 TT
1 TT
45579751 CCATATATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.19, C:0.03, G:0.03, T:0.75
Consensus pattern (15 bp):
TTATCTTATTTTATT
Found at i:45599963 original size:24 final size:24
Alignment explanation
Indices: 45599935--45599986 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
45599925 TTAGTAAGTC
*
45599935 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
45599959 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
45599983 AAAT
1 AAAT
45599987 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:45601935 original size:24 final size:24
Alignment explanation
Indices: 45601907--45601958 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
45601897 TTAGTAAGTC
*
45601907 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
45601931 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
45601955 AAAT
1 AAAT
45601959 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:45602753 original size:29 final size:30
Alignment explanation
Indices: 45602699--45602755 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
45602689 TATTATTTTA
**
45602699 ATTTTTTTTAAAATTCTTAACCATAATTCT
1 ATTTTTTTTAAAATTCTTAAAAATAATTCT
*
45602729 ATTTTTTTTTAAA-TCTTAAAAATAATT
1 ATTTTTTTTAAAATTCTTAAAAATAATT
45602756 ATAAATTATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 12 0.50
30 12 0.50
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (30 bp):
ATTTTTTTTAAAATTCTTAAAAATAATTCT
Found at i:45606600 original size:11 final size:11
Alignment explanation
Indices: 45606584--45606608 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
45606574 ATTGATAAAA
45606584 ATAAGGATGAC
1 ATAAGGATGAC
45606595 ATAAGGATGAC
1 ATAAGGATGAC
45606606 ATA
1 ATA
45606609 GAATGGACTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.08, G:0.24, T:0.20
Consensus pattern (11 bp):
ATAAGGATGAC
Found at i:45626211 original size:18 final size:17
Alignment explanation
Indices: 45626172--45626215 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
45626162 CATTGTGTAA
45626172 TTTGATTTTC--TTTCT
1 TTTGATTTTCTTTTTCT
45626187 TTT--TTTTCTTTTTACT
1 TTTGATTTTCTTTTT-CT
45626203 TTTGATTTTCTTT
1 TTTGATTTTCTTT
45626216 GTGACCCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 5 0.21
15 6 0.25
16 5 0.21
18 8 0.33
ACGTcount: A:0.07, C:0.11, G:0.05, T:0.77
Consensus pattern (17 bp):
TTTGATTTTCTTTTTCT
Found at i:45627115 original size:52 final size:52
Alignment explanation
Indices: 45627055--45627158 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 52
45627045 ATAAAATAGG
*
45627055 TAATGTGTAAACATCAAGGATTACATTTTTAAAAATTAAGAGTAAATTGACA
1 TAATGTGTAAACATCAAGGATTAAATTTTTAAAAATTAAGAGTAAATTGACA
** *** * *
45627107 TAATGTGTAAGTATTGGGGGTTAAATTTTTAAAAATTAAGATTAAATTGACA
1 TAATGTGTAAACATCAAGGATTAAATTTTTAAAAATTAAGAGTAAATTGACA
45627159 CTATGTAAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
52 44 1.00
ACGTcount: A:0.43, C:0.05, G:0.16, T:0.36
Consensus pattern (52 bp):
TAATGTGTAAACATCAAGGATTAAATTTTTAAAAATTAAGAGTAAATTGACA
Found at i:45630331 original size:30 final size:31
Alignment explanation
Indices: 45630263--45630322 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
45630253 GACTTAAATA
* *
45630263 AAAACTTTTGAATAGTTCAATGGCTTGAATG
1 AAAACTTTCGAATAGTTCAATGGATTGAATG
45630294 AAAACTTTCGAATAGTTCAAT-GATTGAAT
1 AAAACTTTCGAATAGTTCAATGGATTGAAT
45630323 TGTAACTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 7 0.26
31 20 0.74
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (31 bp):
AAAACTTTCGAATAGTTCAATGGATTGAATG
Found at i:45636446 original size:23 final size:23
Alignment explanation
Indices: 45636420--45636463 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
45636410 ATGATATCTG
45636420 TCAACATCATCAACTATCCACTA
1 TCAACATCATCAACTATCCACTA
*
45636443 TCAACATCATCCACTATCCAC
1 TCAACATCATCAACTATCCAC
45636464 ATTTAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.36, C:0.39, G:0.00, T:0.25
Consensus pattern (23 bp):
TCAACATCATCAACTATCCACTA
Found at i:45636456 original size:16 final size:16
Alignment explanation
Indices: 45636435--45636465 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
45636425 ATCATCAACT
45636435 ATCCACTATCAACATC
1 ATCCACTATCAACATC
*
45636451 ATCCACTATCCACAT
1 ATCCACTATCAACAT
45636466 TTAATTAAAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.39, G:0.00, T:0.26
Consensus pattern (16 bp):
ATCCACTATCAACATC
Found at i:45641084 original size:11 final size:11
Alignment explanation
Indices: 45641070--45641096 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
45641060 TTATGTGTAA
45641070 ATTATTTATTT
1 ATTATTTATTT
45641081 ATTATTTATTT
1 ATTATTTATTT
45641092 ATTAT
1 ATTAT
45641097 ACTTTTTAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
ATTATTTATTT
Found at i:45644766 original size:5 final size:5
Alignment explanation
Indices: 45644756--45644780 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
45644746 TTGCCCCCTC
45644756 CTTTT CTTTT CTTTT CTTTT CTTTT
1 CTTTT CTTTT CTTTT CTTTT CTTTT
45644781 TCTCTCTGCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
CTTTT
Found at i:45646860 original size:22 final size:21
Alignment explanation
Indices: 45646835--45646880 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
45646825 AAATTGTTGC
* *
45646835 ATTTGTTTTGATATTGGTCTTG
1 ATTTGTTCTGAAATT-GTCTTG
*
45646857 ATTTGTTCTGAAATTGTTTTG
1 ATTTGTTCTGAAATTGTCTTG
45646878 ATT
1 ATT
45646881 GTCTGCTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.17, C:0.04, G:0.20, T:0.59
Consensus pattern (21 bp):
ATTTGTTCTGAAATTGTCTTG
Found at i:45646894 original size:23 final size:23
Alignment explanation
Indices: 45646866--45646949 Score: 123
Period size: 23 Copynumber: 3.7 Consensus size: 23
45646856 GATTTGTTCT
45646866 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
* * *
45646889 GAAATTGGTATGATTGGCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
*
45646912 AAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
*
45646935 GAAATTGTGTTGATT
1 GAAATTGTTTTGATT
45646950 TGTTTATGTT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 52 1.00
ACGTcount: A:0.21, C:0.07, G:0.27, T:0.44
Consensus pattern (23 bp):
GAAATTGTTTTGATTGTCTGCTG
Found at i:45651514 original size:28 final size:27
Alignment explanation
Indices: 45651483--45651555 Score: 62
Period size: 28 Copynumber: 2.7 Consensus size: 27
45651473 ATTTATTAGT
45651483 TATAATTATTTTAAATTTTATGTAATCA
1 TATAATTATTTTAAATTTTATGTAAT-A
* * *
45651511 TAT-ATT-TTAATTAAAATATATTTAATA
1 TATAATTATT--TTAAATTTTATGTAATA
*
45651538 T-TAATTATTTCAAATTTT
1 TATAATTATTTTAAATTTT
45651556 CATTTATAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 10
0.69 0.12 0.20
Matches are distributed among these distances:
26 9 0.26
27 8 0.23
28 18 0.51
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (27 bp):
TATAATTATTTTAAATTTTATGTAATA
Found at i:45651648 original size:119 final size:120
Alignment explanation
Indices: 45651496--45651730 Score: 361
Period size: 119 Copynumber: 2.0 Consensus size: 120
45651486 AATTATTTTA
*
45651496 AATTTTATGTAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATGTAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTAT-AT
* *
45651558 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATAATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
45651616 AATTTTAT-TAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATGTAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
45651680 ACAGTATCATGTATAATGATTTGAGTAAATTCATATAAGAATATTAATTAT
66 ACAGTATCATATATAATGATTTGAGTAAATTCATATAAGAATATTAATTAT
45651731 AATATATTTA
Statistics
Matches: 106, Mismatches: 6, Indels: 7
0.89 0.05 0.06
Matches are distributed among these distances:
118 6 0.06
119 90 0.85
120 10 0.09
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (120 bp):
AATTTTATGTAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATAATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:45651655 original size:15 final size:15
Alignment explanation
Indices: 45651623--45651671 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
45651613 AAGAATTTTA
45651623 TTAATTAT-ATAT-T
1 TTAATTATAATATAT
45651636 TTAATTATAATATAT
1 TTAATTATAATATAT
*
45651651 TTAATAATAAT-TAT
1 TTAATTATAATATAT
45651665 GTTAATT
1 -TTAATT
45651672 TATATTTTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
13 8 0.26
14 7 0.23
15 16 0.52
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
TTAATTATAATATAT
Found at i:45651766 original size:16 final size:16
Alignment explanation
Indices: 45651723--45651757 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
45651713 TATAAGAATA
*
45651723 TTAATTATAA-TATAT
1 TTAATAATAATTATAT
45651738 TTAATAATAATTATAT
1 TTAATAATAATTATAT
45651754 TTAA
1 TTAA
45651758 ATATGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATAATAATTATAT
Found at i:45651789 original size:119 final size:119
Alignment explanation
Indices: 45651496--45651761 Score: 301
Period size: 119 Copynumber: 2.2 Consensus size: 119
45651486 AATTATTTTA
* * * * * *
45651496 AATTTTATGTAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTA-ATAATAATATATTTTAAATATAATATAATTAATAATAATTATATT--AATTTAT-AT
* *
45651558 TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
62 TTTACAGTATCATATATAATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * * * *
45651616 AATTTTATTAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTA
1 AATTTTAATAATAATATATTTTAAATATAATATAATTAATAATAATTATATTAATTTATATTTTA
*
45651681 CAGTATCATGTATAATGATTTGAGTAAATTCATATAAGAATATTAATTA-TAA-
66 CAGTATCATATATAATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
45651733 TATATTTAATAATAAT-TATATTTAAATAT
1 AAT-TTTAATAATAATATAT-TTTAAATAT
45651762 GATTAAATTA
Statistics
Matches: 130, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
117 5 0.04
118 27 0.21
119 89 0.68
120 9 0.07
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (119 bp):
AATTTTAATAATAATATATTTTAAATATAATATAATTAATAATAATTATATTAATTTATATTTTA
CAGTATCATATATAATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:45651913 original size:16 final size:16
Alignment explanation
Indices: 45651892--45651926 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
45651882 ATATATTAAA
45651892 TAACAATAACAATATT
1 TAACAATAACAATATT
45651908 TAACAATAACAATATT
1 TAACAATAACAATATT
45651924 TAA
1 TAA
45651927 TAATTTACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (16 bp):
TAACAATAACAATATT
Found at i:45651991 original size:18 final size:17
Alignment explanation
Indices: 45651963--45651997 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45651953 ATTATTAAGA
*
45651963 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
45651980 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
45651998 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:45652248 original size:16 final size:16
Alignment explanation
Indices: 45652227--45652262 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
45652217 GATTTGCTAT
45652227 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45652243 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45652259 TACA
1 TACA
45652263 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45659460 original size:21 final size:21
Alignment explanation
Indices: 45659436--45659476 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45659426 ATCTCACCTC
*
45659436 TACAGTATCCAATCTCACTGT
1 TACAGTAACCAATCTCACTGT
*
45659457 TACAGTAACTAATCTCACTG
1 TACAGTAACCAATCTCACTG
45659477 CCACCGCTGT
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:0.32, C:0.27, G:0.10, T:0.32
Consensus pattern (21 bp):
TACAGTAACCAATCTCACTGT
Found at i:45660310 original size:26 final size:26
Alignment explanation
Indices: 45660281--45660330 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
45660271 AATTTGACAA
* *
45660281 AAAAAACGTTAAGGGCCAAAGTGATC
1 AAAAAACATAAAGGGCCAAAGTGATC
* *
45660307 AAAAAATATAAAGGGTCAAAGTGA
1 AAAAAACATAAAGGGCCAAAGTGA
45660331 CCTAACAACT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.52, C:0.10, G:0.22, T:0.16
Consensus pattern (26 bp):
AAAAAACATAAAGGGCCAAAGTGATC
Found at i:45664326 original size:44 final size:44
Alignment explanation
Indices: 45664260--45664359 Score: 164
Period size: 44 Copynumber: 2.2 Consensus size: 44
45664250 GCCGACTACT
*
45664260 GTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTA-CGATTCAGCACTTTGTGTGTCGAATACTGTTACC
* *
45664305 GTTACTGTTACGATTCAGCACTTTGTGTGTTGAATACTGTTACT
1 GTTACTGTTACGATTCAGCACTTTGTGTGTCGAATACTGTTACC
45664349 GTTACTGTTAC
1 GTTACTGTTAC
45664360 TGTTATCGTT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 42 0.81
45 10 0.19
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (44 bp):
GTTACTGTTACGATTCAGCACTTTGTGTGTCGAATACTGTTACC
Found at i:45664350 original size:6 final size:6
Alignment explanation
Indices: 45664339--45664387 Score: 64
Period size: 6 Copynumber: 7.8 Consensus size: 6
45664329 GTGTGTTGAA
45664339 TACTGT TACTGT TACTGT TACTGT TA-TCGT TACTGAT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACT-GT TACTG-T TACTG-T TACTG
45664388 GTGTGTTTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
5 1 0.03
6 25 0.64
7 13 0.33
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
TACTGT
Found at i:45669361 original size:23 final size:23
Alignment explanation
Indices: 45669291--45669372 Score: 102
Period size: 21 Copynumber: 3.8 Consensus size: 23
45669281 CCTGATCAGT
45669291 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
** *
45669312 A-ACGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
45669332 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
45669355 ATACGACACATAAAGTGC
1 ATACGACACATAAAGTGC
45669373 TTGGTCGGCA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
20 9 0.18
21 23 0.45
23 19 0.37
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:45681269 original size:5 final size:5
Alignment explanation
Indices: 45681257--45681289 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
45681247 AAAAGTTAAG
45681257 TATA- TATAT TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATAT TATAT TATA
45681290 ATAACTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
TATAT
Found at i:45682429 original size:5 final size:5
Alignment explanation
Indices: 45682419--45682444 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
45682409 CAACTCTCTT
45682419 TTTTC TTTTC TTTTC TTTTC TTTTC T
1 TTTTC TTTTC TTTTC TTTTC TTTTC T
45682445 AACTCTCTTT
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:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTC
Found at i:45684338 original size:22 final size:21
Alignment explanation
Indices: 45684313--45684358 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
45684303 AAATTGTTGC
* *
45684313 ATTTGTTTTGATATTGGTCTTG
1 ATTTGTTCTGAAATT-GTCTTG
*
45684335 ATTTGTTCTGAAATTGTTTTG
1 ATTTGTTCTGAAATTGTCTTG
45684356 ATT
1 ATT
45684359 GTCTGCTGGA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 8 0.38
22 13 0.62
ACGTcount: A:0.17, C:0.04, G:0.20, T:0.59
Consensus pattern (21 bp):
ATTTGTTCTGAAATTGTCTTG
Found at i:45684372 original size:23 final size:23
Alignment explanation
Indices: 45684344--45684427 Score: 132
Period size: 23 Copynumber: 3.7 Consensus size: 23
45684334 GATTTGTTCT
45684344 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
* * *
45684367 GAAATTGGTATGATTGGCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
45684390 GAAATTGTTTTGATTGTCTGCTG
1 GAAATTGTTTTGATTGTCTGCTG
*
45684413 GAAATTGTGTTGATT
1 GAAATTGTTTTGATT
45684428 TGTTTATGTT
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 54 1.00
ACGTcount: A:0.20, C:0.07, G:0.29, T:0.44
Consensus pattern (23 bp):
GAAATTGTTTTGATTGTCTGCTG
Found at i:45688650 original size:119 final size:118
Alignment explanation
Indices: 45688524--45688756 Score: 332
Period size: 119 Copynumber: 2.0 Consensus size: 118
45688514 AATTATTTTA
*
45688524 AATTTTATGT-AATCATATATTTTAATTAAAATATATTTAAT-ATTATTAT-TTCAAATTT-TCA
1 AATTTTAT-TAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTT--AATTTAT-A
*
45688585 -TTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
62 TTTTACAGTATCATATA-TATGATTTGAGT-AATTCATATAAGAATATTAATTATTAAG
* *
45688643 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
*
45688708 ACAGTATCATGTATATGATTTGAGTAATTCATATAAGAATATTAATTAT
66 ACAGTATCATATATATGATTTGAGTAATTCATATAAGAATATTAATTAT
45688757 AATATATTTA
Statistics
Matches: 104, Mismatches: 5, Indels: 11
0.87 0.04 0.09
Matches are distributed among these distances:
118 25 0.24
119 55 0.53
120 22 0.21
121 2 0.02
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.49
Consensus pattern (118 bp):
AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATATGATTTGAGTAATTCATATAAGAATATTAATTATTAAG
Found at i:45688683 original size:15 final size:15
Alignment explanation
Indices: 45688648--45688699 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
45688638 TTAAGAATTT
*
45688648 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45688662 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45688676 TATTTAATAATAAT-
1 TATTTAATTATAATA
45688690 TATGTTAATT
1 TAT-TTAATT
45688700 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45688792 original size:16 final size:16
Alignment explanation
Indices: 45688749--45688783 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
45688739 TATAAGAATA
*
45688749 TTAATTATAA-TATAT
1 TTAATAATAATTATAT
45688764 TTAATAATAATTATAT
1 TTAATAATAATTATAT
45688780 TTAA
1 TTAA
45688784 ATATGATTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.50
16 9 0.50
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (16 bp):
TTAATAATAATTATAT
Found at i:45688932 original size:16 final size:16
Alignment explanation
Indices: 45688911--45688942 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
45688901 ATATATTAAA
45688911 TAACAATAACAATATT
1 TAACAATAACAATATT
45688927 TAACAATAACAATATT
1 TAACAATAACAATATT
45688943 AATAATTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (16 bp):
TAACAATAACAATATT
Found at i:45689009 original size:18 final size:17
Alignment explanation
Indices: 45688981--45689015 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
45688971 ATTATTAAGA
*
45688981 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
45688998 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
45689016 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:45689259 original size:16 final size:16
Alignment explanation
Indices: 45689238--45689273 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
45689228 GATTTGCTAT
45689238 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45689254 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
45689270 TACA
1 TACA
45689274 GCGAACCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.36, G:0.00, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:45696468 original size:21 final size:21
Alignment explanation
Indices: 45696444--45696484 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
45696434 ATCTCACCTC
*
45696444 TACAGTATCCAATCTCACTGT
1 TACAGTAACCAATCTCACTGT
*
45696465 TACAGTAACTAATCTCACTG
1 TACAGTAACCAATCTCACTG
45696485 CCACCGCTGT
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:0.32, C:0.27, G:0.10, T:0.32
Consensus pattern (21 bp):
TACAGTAACCAATCTCACTGT
Found at i:45697331 original size:27 final size:27
Alignment explanation
Indices: 45697301--45697352 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
45697291 AATTTGACAA
* *
45697301 AAAAAAACGTTAAGGGCCAAAGTGATC
1 AAAAAAACATAAAGGGCCAAAGTGATC
* *
45697328 AAAAAAATATAAAGGGTCAAAGTGA
1 AAAAAAACATAAAGGGCCAAAGTGA
45697353 CCTAACAACT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.54, C:0.10, G:0.21, T:0.15
Consensus pattern (27 bp):
AAAAAAACATAAAGGGCCAAAGTGATC
Found at i:45701416 original size:44 final size:44
Alignment explanation
Indices: 45701350--45701449 Score: 164
Period size: 44 Copynumber: 2.2 Consensus size: 44
45701340 GCCGACTACT
*
45701350 GTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATACTGTTACC
1 GTTACTGTTA-CGATTCAGCACTTTGTGTGTCGAATACTGTTACC
* *
45701395 GTTACTGTTACGATTCAGCACTTTGTGTGTTGAATACTGTTACT
1 GTTACTGTTACGATTCAGCACTTTGTGTGTCGAATACTGTTACC
45701439 GTTACTGTTAC
1 GTTACTGTTAC
45701450 TGTTATCGTT
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
44 42 0.81
45 10 0.19
ACGTcount: A:0.19, C:0.19, G:0.21, T:0.41
Consensus pattern (44 bp):
GTTACTGTTACGATTCAGCACTTTGTGTGTCGAATACTGTTACC
Found at i:45701440 original size:6 final size:6
Alignment explanation
Indices: 45701429--45701477 Score: 64
Period size: 6 Copynumber: 7.8 Consensus size: 6
45701419 GTGTGTTGAA
45701429 TACTGT TACTGT TACTGT TACTGT TA-TCGT TACTGAT TACTGTT TACTG
1 TACTGT TACTGT TACTGT TACTGT TACT-GT TACTG-T TACTG-T TACTG
45701478 GTGTGTTTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
5 1 0.03
6 25 0.64
7 13 0.33
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.49
Consensus pattern (6 bp):
TACTGT
Found at i:45703724 original size:33 final size:33
Alignment explanation
Indices: 45703687--45703830 Score: 138
Period size: 33 Copynumber: 4.5 Consensus size: 33
45703677 AATCTATTGA
*
45703687 GACAATAAACATAGAATAGAGATAGTTCGTTGG
1 GACAATAAACACAGAATAGAGATAGTTCGTTGG
*
45703720 GACAAT-AACACAGAAT--AGATAGTCCGCTT-G
1 GACAATAAACACAGAATAGAGATAGTTCG-TTGG
* * * * *
45703750 GACAGTAAATACAGAACAAAGATAG-TCTGTTAG
1 GACAATAAACACAGAATAGAGATAGTTC-GTTGG
*
45703783 GAAAATAAACACAGAATAGAGATAGTAT-GTTGG
1 GACAATAAACACAGAATAGAGATAGT-TCGTTGG
*
45703816 GACAGTAAACACAGA
1 GACAATAAACACAGA
45703831 TAAAGTCCAC
Statistics
Matches: 89, Mismatches: 14, Indels: 16
0.75 0.12 0.13
Matches are distributed among these distances:
30 15 0.17
31 10 0.11
32 12 0.13
33 51 0.57
35 1 0.01
ACGTcount: A:0.45, C:0.12, G:0.22, T:0.20
Consensus pattern (33 bp):
GACAATAAACACAGAATAGAGATAGTTCGTTGG
Found at i:45703805 original size:96 final size:95
Alignment explanation
Indices: 45703642--45703830 Score: 249
Period size: 96 Copynumber: 2.0 Consensus size: 95
45703632 ACATTCAAAG
* * *
45703642 AGATAGTCCGCTAGAACAGTAAATACAAAAGAGATAATCTATTGAGACAATAAACATAGAATAGA
1 AGATAGTCCGCTAGAACAGTAAATACAAAAAAGATAATCTATTGAGAAAATAAACACAGAATAGA
45703707 GATAGT-TCGTTGGGACAAT-AACACAGAAT
66 GATAGTAT-GTTGGGACAATAAACACAGAAT
* * * *
45703736 AGATAGTCCGCTTGGACAGTAAATACAGAACAAAGATAGTCTGTT-AGGAAAATAAACACAGAAT
1 AGATAGTCCGCTAGAACAGTAAATACA-AA-AAAGATAATCTATTGA-GAAAATAAACACAGAAT
*
45703800 AGAGATAGTATGTTGGGACAGTAAACACAGA
63 AGAGATAGTATGTTGGGACAATAAACACAGA
45703831 TAAAGTCCAC
Statistics
Matches: 82, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
94 25 0.30
95 3 0.04
96 45 0.55
97 9 0.11
ACGTcount: A:0.46, C:0.13, G:0.21, T:0.21
Consensus pattern (95 bp):
AGATAGTCCGCTAGAACAGTAAATACAAAAAAGATAATCTATTGAGAAAATAAACACAGAATAGA
GATAGTATGTTGGGACAATAAACACAGAAT
Found at i:45706515 original size:23 final size:23
Alignment explanation
Indices: 45706445--45706526 Score: 102
Period size: 21 Copynumber: 3.8 Consensus size: 23
45706435 CCTGATCAGT
45706445 ATACGACACAT-AAGTGCCTGA-
1 ATACGACACATAAAGTGCCTGAG
** *
45706466 A-ACGACACACGAGGTGCCT--G
1 ATACGACACATAAAGTGCCTGAG
45706486 ATACGACACATAAAGTGCCTGAG
1 ATACGACACATAAAGTGCCTGAG
45706509 ATACGACACATAAAGTGC
1 ATACGACACATAAAGTGC
45706527 TTGGTCGGCA
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
20 9 0.18
21 23 0.45
23 19 0.37
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.16
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAG
Found at i:45713095 original size:17 final size:18
Alignment explanation
Indices: 45713075--45713139 Score: 60
Period size: 20 Copynumber: 3.4 Consensus size: 18
45713065 AATAATTGCT
45713075 TTATT-TATATAAAATAA
1 TTATTATATATAAAATAA
* *
45713092 TTATTATTTATTAATAATTA
1 TTATTATATA-TAA-AATAA
45713112 TATATTAAATATATAAAATAA
1 T-TATT--ATATATAAAATAA
45713133 TTATTAT
1 TTATTAT
45713140 TTATTAATAG
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
17 5 0.13
18 5 0.13
19 3 0.08
20 9 0.24
21 9 0.24
22 3 0.08
23 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TTATTATATATAAAATAA
Found at i:45713111 original size:14 final size:14
Alignment explanation
Indices: 45713089--45713167 Score: 54
Period size: 14 Copynumber: 5.7 Consensus size: 14
45713079 TTATATAAAA
* *
45713089 TAATTATTATTTAT
1 TAATAATTATATAT
45713103 TAATAATTATATAT
1 TAATAATTATATAT
* *
45713117 T-A-AATATATAAAA
1 TAATAAT-TATATAT
* *
45713130 TAATTATTATTTAT
1 TAATAATTATATAT
*
45713144 TAATAGTTATATAT
1 TAATAATTATATAT
* *
45713158 AAATATTTAT
1 TAATAATTAT
45713168 TTTCTTCACG
Statistics
Matches: 49, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
12 3 0.06
13 7 0.14
14 37 0.76
15 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (14 bp):
TAATAATTATATAT
Found at i:45713118 original size:24 final size:24
Alignment explanation
Indices: 45713091--45713168 Score: 62
Period size: 24 Copynumber: 3.5 Consensus size: 24
45713081 ATATAAAATA
45713091 ATTATTATTTATTAATAATTATAT
1 ATTATTATTTATTAATAATTATAT
* *
45713115 ATTA--A-ATA-T-ATAA-AATA-
1 ATTATTATTTATTAATAATTATAT
*
45713132 ATTATTATTTATTAATAGTTATAT
1 ATTATTATTTATTAATAATTATAT
* *
45713156 ATAAATATTTATT
1 ATTATTATTTATT
45713169 TTCTTCACGG
Statistics
Matches: 40, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
17 4 0.10
18 3 0.08
19 5 0.12
20 3 0.08
21 3 0.08
22 4 0.10
23 3 0.08
24 15 0.38
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (24 bp):
ATTATTATTTATTAATAATTATAT
Found at i:45713135 original size:41 final size:40
Alignment explanation
Indices: 45713080--45713163 Score: 150
Period size: 41 Copynumber: 2.1 Consensus size: 40
45713070 TTGCTTTATT
45713080 TATATAAAATAATTATTATTTATTAATAATTATATATTAAA
1 TATATAAAATAATTATTATTTATTAATAATTATATA-TAAA
*
45713121 TATATAAAATAATTATTATTTATTAATAGTTATATATAAA
1 TATATAAAATAATTATTATTTATTAATAATTATATATAAA
45713161 TAT
1 TAT
45713164 TTATTTTCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 7 0.17
41 35 0.83
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (40 bp):
TATATAAAATAATTATTATTTATTAATAATTATATATAAA
Found at i:45719046 original size:23 final size:24
Alignment explanation
Indices: 45718995--45719041 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
45718985 TTCGAACCAT
*
45718995 GTAACGGGAAGCTCATGTGAGCTAA
1 GTAACGGGAAGCTCATGAGAGC-AA
45719020 GTAACGGGAAGCTCATGAGAGC
1 GTAACGGGAAGCTCATGAGAGC
45719042 CGTAAATCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.32, C:0.17, G:0.34, T:0.17
Consensus pattern (24 bp):
GTAACGGGAAGCTCATGAGAGCAA
Found at i:45719078 original size:50 final size:49
Alignment explanation
Indices: 45719024--45719141 Score: 129
Period size: 50 Copynumber: 2.4 Consensus size: 49
45719014 AGCTAAGTAA
45719024 CGGGAAGCTCATGAGAGCCGTAAA-TCA-GATAGCT-AAGGAGAG-CTATTAAT
1 CGGGAAGCTCATGAGAGCC--AAAGTCAGGA-AGCTCAA-GAGAGTC-ATTAAT
45719074 CGGGAAGCTCAT-ACGAGCCAAATGTCAGGAAGCTCAAGAGAGTCATTAAT
1 CGGGAAGCTCATGA-GAGCCAAA-GTCAGGAAGCTCAAGAGAGTCATTAAT
*
45719124 CAGGAAGCTCATGAGAGC
1 CGGGAAGCTCATGAGAGC
45719142 TCTGGTGCGT
Statistics
Matches: 60, Mismatches: 1, Indels: 14
0.80 0.01 0.19
Matches are distributed among these distances:
48 3 0.05
49 1 0.02
50 50 0.83
51 6 0.10
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.18
Consensus pattern (49 bp):
CGGGAAGCTCATGAGAGCCAAAGTCAGGAAGCTCAAGAGAGTCATTAAT
Found at i:45722498 original size:19 final size:20
Alignment explanation
Indices: 45722476--45722523 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
45722466 AAAAGTATAT
*
45722476 AAATATAAAAAATT-CAAAA
1 AAATATAAAAAATTGAAAAA
**
45722495 AAATATAAAATTTTGAAAAA
1 AAATATAAAAAATTGAAAAA
45722515 AAATATAAA
1 AAATATAAA
45722524 TTTTAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 12 0.48
20 13 0.52
ACGTcount: A:0.71, C:0.02, G:0.02, T:0.25
Consensus pattern (20 bp):
AAATATAAAAAATTGAAAAA
Found at i:45722516 original size:20 final size:20
Alignment explanation
Indices: 45722491--45722543 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
45722481 TAAAAAATTC
*
45722491 AAAAAAATATAAAATTTTGA
1 AAAAAAATATAAAATTTTAA
45722511 AAAAAAATAT-AAATTTTAA
1 AAAAAAATATAAAATTTTAA
45722530 AAATAAAAT-TAAAA
1 AAA-AAAATATAAAA
45722544 AAATGTGATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (20 bp):
AAAAAAATATAAAATTTTAA
Found at i:45722524 original size:19 final size:19
Alignment explanation
Indices: 45722491--45722542 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
45722481 TAAAAAATTC
*
45722491 AAAAAAATATAAAATTTTGA
1 AAAAAAATAT-AAATTTTAA
45722511 AAAAAAATATAAATTTTAA
1 AAAAAAATATAAATTTTAA
45722530 AAATAAAAT-TAAA
1 AAA-AAAATATAAA
45722543 AAAATGTGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 15 0.50
20 15 0.50
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAAAATATAAATTTTAA
Found at i:45722896 original size:32 final size:31
Alignment explanation
Indices: 45722862--45722923 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 31
45722852 TATTTAAATA
*
45722862 TTTAATATTATAATTTTTTATTTTTATTTTTATT
1 TTTAAT-TTA-AATTTTATATTTTTATTTTTA-T
45722896 TTTAATTTAAATTTTATATTTTTATTTT
1 TTTAATTTAAATTTTATATTTTTATTTT
45722924 AAATAAACTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
32 18 0.67
33 3 0.11
34 6 0.22
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (31 bp):
TTTAATTTAAATTTTATATTTTTATTTTTAT
Found at i:45722915 original size:20 final size:19
Alignment explanation
Indices: 45722887--45722927 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
45722877 TTTTATTTTT
45722887 ATTTTTATTTTTAATTTAA
1 ATTTTTATTTTTAATTTAA
*
45722906 ATTTTATATTTTTATTTTAA
1 ATTTT-TATTTTTAATTTAA
45722926 AT
1 AT
45722928 AAACTTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
ATTTTTATTTTTAATTTAA
Found at i:45722924 original size:5 final size:6
Alignment explanation
Indices: 45722876--45722923 Score: 60
Period size: 6 Copynumber: 7.7 Consensus size: 6
45722866 ATATTATAAT
**
45722876 TTTTTA TTTTTA TTTTTA TTTTTAA TTTAAA TTTTATA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTT-A TTTTTA TTTT-TA TTTTTA TTTT
45722924 AAATAAACTT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
6 27 0.75
7 9 0.25
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTTTA
Found at i:45722924 original size:13 final size:12
Alignment explanation
Indices: 45722876--45722923 Score: 60
Period size: 13 Copynumber: 3.8 Consensus size: 12
45722866 ATATTATAAT
45722876 TTTTTATTTTTA
1 TTTTTATTTTTA
45722888 TTTTTATTTTTAA
1 TTTTTATTTTT-A
**
45722901 TTTAAATTTTATA
1 TTTTTATTTT-TA
45722914 TTTTTATTTT
1 TTTTTATTTT
45722924 AAATAAACTT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
12 11 0.37
13 18 0.60
14 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (12 bp):
TTTTTATTTTTA
Found at i:45724778 original size:125 final size:125
Alignment explanation
Indices: 45724506--45724884 Score: 598
Period size: 125 Copynumber: 3.0 Consensus size: 125
45724496 TTAGGGTTTT
* *** * *
45724506 TAGGTCCTGGAAGAAATAATTTCGAGTTGACGTTTCTTATCAAATAGTATAAAATCACTTCTAGC
1 TAGGTCATGGAAGAAATAATTT-TTTTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGC
* *
45724571 AGGATGCTATTTGAGAAGAATTTGTG-AAATCGCGCCTTAGTGGACGCGCTTTTGCTACAG
65 AGGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
*
45724631 TAGGTCATGGAAGAAATAAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTACC
1 TAGGTCATGGAAGAAAT-AATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGC
* *
45724696 AGAATGCTATTTGAGAAGAATTTGTGAAAATAGCGCCCTCGTGGACGCGCTTTTGCTACAG
65 AGGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* *
45724757 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGCTTCTAGGA
1 TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCA
* *
45724822 GGATGCTATTTGAGAAGAATTTGTGAAAATCGCACCCTCGTGGACGCACTTTTGCTACAG
66 GGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
45724882 TAG
1 TAG
45724885 CATGTTTGAG
Statistics
Matches: 234, Mismatches: 18, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
125 181 0.77
126 53 0.23
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.32
Consensus pattern (125 bp):
TAGGTCATGGAAGAAATAATTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCACTTCTAGCA
GGATGCTATTTGAGAAGAATTTGTGAAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
Found at i:45728038 original size:17 final size:17
Alignment explanation
Indices: 45727971--45728038 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
45727961 TATGTGAATG
*
45727971 TAAAATTATTAATT-GA
1 TAAAATTATTAATTATA
* *
45727987 TAAATTGTATTAATGATTA
1 TAAAAT-TATTAATTA-TA
*
45728006 GTAAAATTATCAAATTATA
1 -TAAAATTAT-TAATTATA
45728025 TAAAATTATTAATT
1 TAAAATTATTAATT
45728039 GTTAGTACCA
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
16 5 0.12
17 11 0.28
18 9 0.22
19 6 0.15
20 9 0.22
ACGTcount: A:0.49, C:0.01, G:0.06, T:0.44
Consensus pattern (17 bp):
TAAAATTATTAATTATA
Found at i:45728134 original size:23 final size:23
Alignment explanation
Indices: 45728106--45728522 Score: 451
Period size: 23 Copynumber: 18.8 Consensus size: 23
45728096 TTAATTTCGT
*
45728106 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
*
45728129 TTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAAGTTAATTAGG
***
45728150 TTAGGGTTTTTAAGTTAAGGGGG
1 TTAGGGTTTTTAAGTTAATTAGG
* **
45728173 TTAAGGTTTTTAAG-TAA-CGGG
1 TTAGGGTTTTTAAGTTAATTAGG
45728194 TTAGGGTTTTTAAG-T--TTAGGG
1 TTAGGGTTTTTAAGTTAATTA-GG
45728215 TTTAGGGTTTTTAA-TTAAATTAGG
1 -TTAGGGTTTTTAAGTT-AATTAGG
*
45728239 TTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAAGTTAATTAGG
* *
45728260 TTAGAG-TTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
45728282 TTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
*
45728305 TTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAAGTTAATTAGG
45728326 TTAGGGTTTTTAAGTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
* *
45728349 TTAGAGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAAGTTAATTAGG
* *
45728370 TTAGGGTTTTTAATTTAATTAAG
1 TTAGGGTTTTTAAGTTAATTAGG
*
45728393 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
*
45728416 TTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAAGTTAATTAGG
*
45728437 TTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAATTAGG
*
45728460 TTAGGGTTTTTAAGTTAA--GGG
1 TTAGGGTTTTTAAGTTAATTAGG
* *
45728481 TTTAAGGTTTTTAA-TTAATTTAGT
1 -TTAGGGTTTTTAAGTTAA-TTAGG
45728505 TTAGGGTTTTTAAGTTAA
1 TTAGGGTTTTTAAGTTAA
45728523 GGGTATTAAT
Statistics
Matches: 338, Mismatches: 32, Indels: 47
0.81 0.08 0.11
Matches are distributed among these distances:
20 10 0.03
21 109 0.32
22 36 0.11
23 171 0.51
24 9 0.03
25 3 0.01
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (23 bp):
TTAGGGTTTTTAAGTTAATTAGG
Found at i:45728175 original size:44 final size:44
Alignment explanation
Indices: 45728106--45728525 Score: 426
Period size: 44 Copynumber: 9.5 Consensus size: 44
45728096 TTAATTTCGT
* ** *
45728106 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAA-GGGGTTAGGGTTTTTAAGTTAATAGG
* **
45728150 TTAGGGTTTTTAAGTTAAGGGGGTTAAGGTTTTTAAG-TAACGGG
1 TTAGGGTTTTTAAGTTAA-GGGGTTAGGGTTTTTAAGTTAATAGG
* *
45728194 TTAGGGTTTTTAAGTTTAGGGTTTAGGGTTTTTAA-TTAAATTAGG
1 TTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAAGTT-AA-TAGG
* *
45728239 TTAGGGTTTTTAAGTTAA-GGGTTAGAG-TTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAAGTTAA-TAGG
** *
45728282 TTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAA-GGGGTTAGGGTTTTTAAGTTAATAGG
** * *
45728326 TTAGGGTTTTTAAGTTAATTAGGTTAGAGTTTTTAAGTTAA-GGG
1 TTAGGGTTTTTAAGTTAA-GGGGTTAGGGTTTTTAAGTTAATAGG
* *** *
45728370 TTAGGGTTTTTAATTTAATTAAGTTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAA-GGGGTTAGGGTTTTTAAGTTAA-TAGG
*
45728416 TTAGGGTTTTTAAGTTAA-GGGTTAGGGTTTTTAATTTAATTAGG
1 TTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAAGTTAA-TAGG
* * *
45728460 TTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAA-TTAATTTAGT
1 TTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAAGTTAA--TAGG
45728505 TTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAAGTTAAGGG
45728526 TATTAATTGT
Statistics
Matches: 335, Mismatches: 29, Indels: 23
0.87 0.07 0.06
Matches are distributed among these distances:
43 50 0.15
44 191 0.57
45 65 0.19
46 29 0.09
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (44 bp):
TTAGGGTTTTTAAGTTAAGGGGTTAGGGTTTTTAAGTTAATAGG
Found at i:45728396 original size:67 final size:67
Alignment explanation
Indices: 45728106--45728477 Score: 426
Period size: 67 Copynumber: 5.6 Consensus size: 67
45728096 TTAATTTCGT
*
45728106 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTTAAGTTAAG
1 TTAGGGTTTTTAATTTAA-TAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA-
*
45728169 GGGG
64 TGGG
* * **
45728173 TTAAGGTTTTTAA-GTAACGGGTTAGGGTTTTTAAG-T--TTAGGGTTTAGGGTTTTTAA-TTAA
1 TTAGGGTTTTTAATTTAATAGGTTAGGGTTTTTAAGTTAATTA-GG-TTAGGGTTTTTAAGTT-A
*
45728233 ATTAGG
63 A-TGGG
* * * *
45728239 TTAGGGTTTTTAAGTTAA-GGGTTAGAG-TTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAATT
1 TTAGGGTTTTTAATTTAATAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAA-T
*
45728302 AGG
65 GGG
* * *
45728305 TTAGGGTTTTTAAGTTAA-GGGTTAGGGTTTTTAAGTTAATTAGGTTAGAGTTTTTAAGTTAA-G
1 TTAGGGTTTTTAATTTAATAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAATG
45728368 GG
66 GG
* *
45728370 TTAGGGTTTTTAATTTAATTAAGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA-
1 TTAGGGTTTTTAATTTAA-TAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAT
45728434 GGG
65 GGG
45728437 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA
1 TTAGGGTTTTTAATTTAA-TAGGTTAGGGTTTTTAAGTTAA
45728478 GGGTTTAAGG
Statistics
Matches: 269, Mismatches: 23, Indels: 26
0.85 0.07 0.08
Matches are distributed among these distances:
64 1 0.00
65 45 0.17
66 87 0.32
67 133 0.49
68 3 0.01
ACGTcount: A:0.26, C:0.00, G:0.27, T:0.47
Consensus pattern (67 bp):
TTAGGGTTTTTAATTTAATAGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAATG
GG
Found at i:45728397 original size:111 final size:111
Alignment explanation
Indices: 45728106--45728522 Score: 626
Period size: 111 Copynumber: 3.8 Consensus size: 111
45728096 TTAATTTCGT
* ***
45728106 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGG
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTA
* * ** *
45728171 GGTTAAGGTTTTTAAG-TAA-CGGGTTAGGGTTTTTAAGTTTAGGG
66 AGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGG
* *
45728215 TTTAGGGTTTTTAATTAAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGAG-TTTTAATTTAATT
1 -TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATT
*
45728279 AGGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGG
65 AAGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGG
* *
45728326 TTAGGGTTTTTAAGTTAATTAGGTTAGAGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTA
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTA
*
45728391 AGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGG
66 AGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGG
*
45728437 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAA-TTAATT
1 TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGG-TTAGGGTTTTTAATTTAATT
*
45728501 TAGTTTAGGGTTTTTAAGTTAA
65 AAG-TTAGGGTTTTTAAGTTAA
45728523 GGGTATTAAT
Statistics
Matches: 281, Mismatches: 21, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
109 25 0.09
110 97 0.35
111 130 0.46
112 29 0.10
ACGTcount: A:0.26, C:0.00, G:0.26, T:0.47
Consensus pattern (111 bp):
TTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAATTA
AGTTAGGGTTTTTAAGTTAATTAGGTTAGGGTTTTTAAGTTAAGGG
Found at i:45728612 original size:25 final size:25
Alignment explanation
Indices: 45728583--45728630 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
45728573 ATTCAAAAAT
45728583 TTCTATTTTATTACATCAAATAAAC
1 TTCTATTTTATTACATCAAATAAAC
45728608 TTCTATTTTATTACATCAAATAA
1 TTCTATTTTATTACATCAAATAA
45728631 TATCAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.15, G:0.00, T:0.46
Consensus pattern (25 bp):
TTCTATTTTATTACATCAAATAAAC
Found at i:45729681 original size:7 final size:7
Alignment explanation
Indices: 45729671--45729695 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
45729661 TTATATACAT
45729671 AATACTA
1 AATACTA
45729678 AATACTA
1 AATACTA
45729685 AATACTA
1 AATACTA
45729692 AATA
1 AATA
45729696 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:45731518 original size:45 final size:45
Alignment explanation
Indices: 45731468--45731558 Score: 173
Period size: 45 Copynumber: 2.0 Consensus size: 45
45731458 TTGTCATGTA
*
45731468 AGTTACCTTGCTTAAAAGATTAACATTTTAATTAATACTCTTATG
1 AGTTACCTTGCTTAAAAAATTAACATTTTAATTAATACTCTTATG
45731513 AGTTACCTTGCTTAAAAAATTAACATTTTAATTAATACTCTTATG
1 AGTTACCTTGCTTAAAAAATTAACATTTTAATTAATACTCTTATG
45731558 A
1 A
45731559 AAAAAATTCA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (45 bp):
AGTTACCTTGCTTAAAAAATTAACATTTTAATTAATACTCTTATG
Found at i:45737048 original size:28 final size:28
Alignment explanation
Indices: 45737016--45737077 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
45737006 AGTCGGTTTT
* *
45737016 TTTTTTTA-AATTTACCGAAATGGGTCGA
1 TTTTTTGATAATTTACCGAAAT-GGTCCA
*
45737044 TTTTTTGATTATTTACCGAAATGGTCCA
1 TTTTTTGATAATTTACCGAAATGGTCCA
45737072 TTTTTT
1 TTTTTT
45737078 AGGAAATCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.24, C:0.11, G:0.15, T:0.50
Consensus pattern (28 bp):
TTTTTTGATAATTTACCGAAATGGTCCA
Found at i:45737432 original size:126 final size:125
Alignment explanation
Indices: 45737198--45737432 Score: 389
Period size: 126 Copynumber: 1.9 Consensus size: 125
45737188 CCCAACGGTT
*
45737198 AAAAATTATTTCTTACATAACCTACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATT
1 AAAAATTATTTCTTACATAACATACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATT
* * *
45737263 TCTACTCAAATAGCATCCTTGTAGAAGCAATTTTATACTATTTGCTTAGAAACGTCAAAA
66 TCTACTCAAATAACATCCTGGTAGAAGCAATTTTATACAATTTGCTTAGAAACGTCAAAA
* *
45737323 AAAATATTATTTCTTACATGACATACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAAT
1 AAAA-ATTATTTCTTACATAACATACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAAT
* *
45737388 TTCTTCTCAAATAACATCCTGGTAGAAGCGATTTTATACAATTTG
65 TTCTACTCAAATAACATCCTGGTAGAAGCAATTTTATACAATTTG
45737433 ACCAGAAAAC
Statistics
Matches: 101, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
125 4 0.04
126 97 0.96
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (125 bp):
AAAAATTATTTCTTACATAACATACTGTAGCAAAATCGCATCCACGAGGGCGCGATTTCACAATT
TCTACTCAAATAACATCCTGGTAGAAGCAATTTTATACAATTTGCTTAGAAACGTCAAAA
Done.