Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D12
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: 58873029
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 639818 characters in sequence are not A, C, G, or T
File 174 of 196
Found at i:50798175 original size:39 final size:39
Alignment explanation
Indices: 50798095--50798267 Score: 143
Period size: 45 Copynumber: 4.2 Consensus size: 39
50798085 ATTTGCCGGC
* * *
50798095 TTACTGA-TCAGGCAC-TTATGTGCCGACTACTGTTACTG
1 TTACTGATTC-GGCACTTTGTGTGTCGAATACTGTTACTG
50798133 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
1 TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
* *
50798172 TTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGTTACCG
1 TTAC---T---GATTCGGCACTTTGTGTGTCGAATACTGTTACTG
* * *
50798217 TTACTGTTACAGGTTCAGCACTTTGTGCGTTGAATACTGTTACTG
1 TTACTG----A--TTCGGCACTTTGTGTGTCGAATACTGTTACTG
50798262 TTACTG
1 TTACTG
50798268 CTATTGTTAT
Statistics
Matches: 111, Mismatches: 10, Indels: 21
0.78 0.07 0.15
Matches are distributed among these distances:
38 12 0.11
39 27 0.24
42 2 0.02
43 1 0.01
45 69 0.62
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (39 bp):
TTACTGATTCGGCACTTTGTGTGTCGAATACTGTTACTG
Found at i:50798190 original size:45 final size:45
Alignment explanation
Indices: 50798122--50798267 Score: 220
Period size: 45 Copynumber: 3.2 Consensus size: 45
50798112 ATGTGCCGAC
*
50798122 TACTGTTACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* *
50798167 TACTGTTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
* * * * *
50798212 TACCGTTACTGTTACAGGTTCAGCACTTTGTGCGTTGAATACTGT
1 TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
50798257 TACTGTTACTG
1 TACTGTTACTG
50798268 CTATTGTTAT
Statistics
Matches: 91, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 91 1.00
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (45 bp):
TACTGTTACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGT
Found at i:50799591 original size:10 final size:10
Alignment explanation
Indices: 50799562--50799593 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
50799552 ATATTATTCA
*
50799562 TATAAAAAGC
1 TATAAAAAGT
50799572 TATAAAAAGT
1 TATAAAAAGT
50799582 TATAAAAAGT
1 TATAAAAAGT
50799592 TA
1 TA
50799594 AGTGGATCTC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.59, C:0.03, G:0.09, T:0.28
Consensus pattern (10 bp):
TATAAAAAGT
Found at i:50801000 original size:30 final size:30
Alignment explanation
Indices: 50800966--50801026 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
50800956 CTAACTTTTT
50800966 TTGAAATTATATTTCAACCACTAAAATTTC
1 TTGAAATTATATTTCAACCACTAAAATTTC
* * *
50800996 TTGAAATTATATTTTAACCCCTAAACTTTC
1 TTGAAATTATATTTCAACCACTAAAATTTC
50801026 T
1 T
50801027 CAAAATTAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.18, G:0.03, T:0.43
Consensus pattern (30 bp):
TTGAAATTATATTTCAACCACTAAAATTTC
Found at i:50801033 original size:30 final size:30
Alignment explanation
Indices: 50800969--50801034 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
50800959 ACTTTTTTTG
**
50800969 AAATTATATTTCAACCACTAAAATTTCTTG
1 AAATTATATTTCAACCACTAAAATTTCTCA
* * *
50800999 AAATTATATTTTAACCCCTAAACTTTCTCA
1 AAATTATATTTCAACCACTAAAATTTCTCA
50801029 AAATTA
1 AAATTA
50801035 AGTTTTGGCC
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.41, C:0.18, G:0.02, T:0.39
Consensus pattern (30 bp):
AAATTATATTTCAACCACTAAAATTTCTCA
Found at i:50801539 original size:19 final size:18
Alignment explanation
Indices: 50801511--50801578 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 18
50801501 GCTATTGCCG
50801511 AAGG-AGAAGAAAAAAAA
1 AAGGAAGAAGAAAAAAAA
50801528 GAAGGAAGAAGAAAGAAAAA
1 -AAGGAAGAAGAAA-AAAAA
**
50801548 AAGGGGGAAAGAAAAAAAA
1 AAGGAAG-AAGAAAAAAAA
*
50801567 AA-GAAAAAGAAA
1 AAGGAAGAAGAAA
50801579 GATTTTTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
17 6 0.14
18 5 0.12
19 20 0.48
20 11 0.26
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (18 bp):
AAGGAAGAAGAAAAAAAA
Found at i:50801785 original size:23 final size:23
Alignment explanation
Indices: 50801756--50801799 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
50801746 GGCCCAGCAG
50801756 AGAAGAA-AAAAAAGAAGAAAAAA
1 AGAAGAACAAAAAA-AAGAAAAAA
*
50801779 AGAAGAACGAAAAAAAGAAAA
1 AGAAGAACAAAAAAAAGAAAA
50801800 GGGTTCAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 14 0.74
24 5 0.26
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (23 bp):
AGAAGAACAAAAAAAAGAAAAAA
Found at i:50802146 original size:19 final size:18
Alignment explanation
Indices: 50802123--50802198 Score: 73
Period size: 20 Copynumber: 4.0 Consensus size: 18
50802113 TAAAAGTTTT
50802123 CGTGTTTCAAAAAAATTC
1 CGTGTTTCAAAAAAATTC
*
50802141 CAGTGTTTC-AAAAATTTC
1 C-GTGTTTCAAAAAAATTC
**
50802159 CGTGTCTTCAAAAATTTTTC
1 CGTGT-TTCAAAAA-AATTC
50802179 TCGTGTTTCAAAAAATATTC
1 -CGTGTTTCAAAAAA-ATTC
50802199 TTGTTTTGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 10
0.77 0.06 0.16
Matches are distributed among these distances:
17 4 0.08
18 13 0.27
19 11 0.23
20 15 0.31
21 5 0.10
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (18 bp):
CGTGTTTCAAAAAAATTC
Found at i:50802153 original size:18 final size:17
Alignment explanation
Indices: 50802123--50802194 Score: 72
Period size: 18 Copynumber: 3.9 Consensus size: 17
50802113 TAAAAGTTTT
50802123 CGTGTTTCAAAAAAATTC
1 CGTGTTTC-AAAAAATTC
*
50802141 CAGTGTTTCAAAAATTTC
1 C-GTGTTTCAAAAAATTC
*
50802159 CGTGTCTTCAAAAATTTTTC
1 CGTGT-TTCAAAAA--ATTC
50802179 TCGTGTTTCAAAAAAT
1 -CGTGTTTCAAAAAAT
50802195 ATTCTTGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
17 4 0.09
18 19 0.40
19 7 0.15
20 12 0.26
21 5 0.11
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (17 bp):
CGTGTTTCAAAAAATTC
Found at i:50802418 original size:18 final size:18
Alignment explanation
Indices: 50802397--50802635 Score: 67
Period size: 18 Copynumber: 13.3 Consensus size: 18
50802387 AAAAGAATCC
50802397 GTTTTTCAAAATTCTCGT
1 GTTTTTCAAAATTCTCGT
*
50802415 GTTTTTAAAAAAATTCCATTCCGT
1 GTTTTT--CAAAATT-C--T-CGT
*
50802439 G-TTTTCAAAAATT-T-TT
1 GTTTTTC-AAAATTCTCGT
*
50802455 GTATTTTCAAAAATTTTCGT
1 GT-TTTTC-AAAATTCTCGT
* * *
50802475 G-TTTTAAAAATTTTTGT
1 GTTTTTCAAAATTCTCGT
* ** *
50802492 ATTTTAAAAAATTCTTGT
1 GTTTTTCAAAATTCTCGT
***
50802510 GTTTCAAAAAATT-TC--
1 GTTTTTCAAAATTCTCGT
*
50802525 GTATTTCAAAAATTC-CGT
1 GTTTTTC-AAAATTCTCGT
*
50802543 G-TTTTCAAAAATCTTCGT
1 GTTTTTCAAAATTC-TCGT
50802561 G-TTTTCAAGAATTCTCGT
1 GTTTTTCAA-AATTCTCGT
50802579 G--TTTCAAAAACTT-TCGT
1 GTTTTTC-AAAA-TTCTCGT
* ***
50802596 GTTTTTAAAAAAAAT--T
1 GTTTTTCAAAATTCTCGT
*
50802612 GTGTTTCAAAATTCTCGT
1 GTTTTTCAAAATTCTCGT
50802630 GTTTTT
1 GTTTTT
50802636 TTTAAATTCT
Statistics
Matches: 167, Mismatches: 28, Indels: 52
0.68 0.11 0.21
Matches are distributed among these distances:
15 3 0.02
16 26 0.16
17 26 0.16
18 80 0.48
19 8 0.05
20 8 0.05
21 1 0.01
22 6 0.04
23 5 0.03
24 4 0.02
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (18 bp):
GTTTTTCAAAATTCTCGT
Found at i:50802487 original size:35 final size:35
Alignment explanation
Indices: 50802436--50802606 Score: 168
Period size: 35 Copynumber: 4.9 Consensus size: 35
50802426 AATTCCATTC
*
50802436 CGTGTTTTCAAAAATTTTTGTATTTTCAAAAATTTT
1 CGTGTTTT-AAAAATTTTCGTATTTTCAAAAATTTT
* *
50802472 CGTGTTTTAAAAATTTTTGTATTTTAAAAAATTCTT
1 CGTGTTTTAAAAATTTTCGTATTTTCAAAAATT-TT
* * *
50802508 -GTGTTTCAAAAAATTTCGTA-TTTCAAAAA-TTC
1 CGTGTTTTAAAAATTTTCGTATTTTCAAAAATTTT
* * * *
50802540 CGTGTTTTCAAAAATCTTCGTGTTTTCAAGAATTCT
1 CGTGTTTT-AAAAATTTTCGTATTTTCAAAAATTTT
* * * *
50802576 CGTGTTTCAAAAACTTTCGTGTTTTTAAAAA
1 CGTGTTTTAAAAATTTTCGTATTTTCAAAAA
50802607 AAATTGTGTT
Statistics
Matches: 112, Mismatches: 18, Indels: 11
0.79 0.13 0.08
Matches are distributed among these distances:
32 1 0.01
33 7 0.06
34 18 0.16
35 68 0.61
36 18 0.16
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.47
Consensus pattern (35 bp):
CGTGTTTTAAAAATTTTCGTATTTTCAAAAATTTT
Found at i:50802757 original size:27 final size:27
Alignment explanation
Indices: 50802719--50802772 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
50802709 AACATGCGTT
*
50802719 TAACGAGATACCAATTTTGGTCGTCGC
1 TAACGAGATACCAATTTTGGTCATCGC
50802746 TAACGAGATACCAATTTTGGTCATCGC
1 TAACGAGATACCAATTTTGGTCATCGC
50802773 AAGGGTGCTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (27 bp):
TAACGAGATACCAATTTTGGTCATCGC
Found at i:50804380 original size:17 final size:17
Alignment explanation
Indices: 50804358--50804391 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
50804348 CAACTCTTTC
50804358 TTTTTTTGAAAACACGA
1 TTTTTTTGAAAACACGA
* *
50804375 TTTTTTTTAAAATACGA
1 TTTTTTTGAAAACACGA
50804392 GAATTTTAGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.09, G:0.09, T:0.47
Consensus pattern (17 bp):
TTTTTTTGAAAACACGA
Found at i:50804441 original size:37 final size:33
Alignment explanation
Indices: 50804361--50804790 Score: 198
Period size: 38 Copynumber: 11.7 Consensus size: 33
50804351 CTCTTTCTTT
* * *
50804361 TTTTGAAAACACGATTTTTTTTAAAATACGAGAA
1 TTTTG-AAACACGAATTTTTTTAAAACACGAAAA
50804395 TTTTAGAAACACGAATTGTTTTTAAAAAAACACGAAAA
1 TTTT-GAAACACGAATT-TTTTT---AAAACACGAAAA
* *
50804433 TTTTGAAACACGGGATTTTTTTTGAAACACGAAAA
1 TTTTGAAACAC--GAATTTTTTTAAAACACGAAAA
*
50804468 TTTATGAAACACGATCAATTTTTTAAAACACGAAAAAA
1 TTT-TGAAACACGA--ATTTTTTTAAAACACG--AAAA
* *
50804506 TTTTGAAAAACAAGAATTTTTTTTTGAAAACACGGAAA
1 TTTTG--AAACACGAA--TTTTTTT-AAAACACGAAAA
* *
50804544 TTTATGAAACATGAATTTTTTTTTTTTGAAAACAAGAAAA
1 TTT-TGAAACACGAA-----TTTTTTT-AAAACACGAAAA
* * *
50804584 TTTTCGATATACAAGAA-TTTTTAAAAACACAGGAAATTT
1 TTTT-GA-A-ACACGAATTTTTTTAAAACAC--GAAA--A
* ** * * *
50804623 TTTTGAAAACACAAAAATTTTTGAAACACTGGAAT
1 TTTTG-AAACACGAATTTTTTTAAAACAC-GAAAA
* ** * *
50804658 TTTTAAAACACGAAGATTTTTGAAACATGAAAA
1 TTTTGAAACACGAATTTTTTTAAAACACGAAAA
50804691 TTTTTGAAAACACGAAAATTTTTTTTAAAACACGAAAA
1 -TTTTG-AAACACG--AA-TTTTTTTAAAACACGAAAA
*
50804729 TTTTTGAAACACGAGAAATTTTTTTTGAAAACATGAAAA
1 -TTTTGAAACAC--G-AA-TTTTTTT-AAAACACGAAAA
*
50804768 TTTTTGAAACCCG-ATTTTTTTAA
1 -TTTTGAAACACGAATTTTTTTAA
50804791 GAACTACCGT
Statistics
Matches: 320, Mismatches: 38, Indels: 77
0.74 0.09 0.18
Matches are distributed among these distances:
33 5 0.02
34 47 0.15
35 39 0.12
36 26 0.08
37 39 0.12
38 76 0.24
39 48 0.15
40 33 0.10
41 1 0.00
42 6 0.02
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (33 bp):
TTTTGAAACACGAATTTTTTTAAAACACGAAAA
Found at i:50804452 original size:35 final size:36
Alignment explanation
Indices: 50804413--50804480 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 36
50804403 ACACGAATTG
50804413 TTTTTAAAAAAACACGAAAATTT-TGAAACACGGGA
1 TTTTTAAAAAAACACGAAAATTTATGAAACACGGGA
****
50804448 TTTTTTTTGAAACACGAAAATTTATGAAACACG
1 TTTTTAAAAAAACACGAAAATTTATGAAACACG
50804481 ATCAATTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 19 0.68
36 9 0.32
ACGTcount: A:0.44, C:0.12, G:0.13, T:0.31
Consensus pattern (36 bp):
TTTTTAAAAAAACACGAAAATTTATGAAACACGGGA
Found at i:50804470 original size:73 final size:69
Alignment explanation
Indices: 50804361--50804790 Score: 194
Period size: 72 Copynumber: 5.8 Consensus size: 69
50804351 CTCTTTCTTT
* * *
50804361 TTTTGAAAACAC-GATTTTTTTTAAAATACGAGAATTT-TAGAAACACGAATTGTTTTTAAAAAA
1 TTTTG-AAACACGGATTTTTTTTGAAACACGAAAATTTAT-GAAACACGAATT-TTTTT---AAA
50804424 ACACG-AAAA
60 ACACGAAAAA
*
50804433 TTTTGAAACACGGGATTTTTTTTGAAACACGAAAATTTATGAAACACGATCAATTTTTTAAAACA
1 TTTTGAAACAC-GGATTTTTTTTGAAACACGAAAATTTATGAAACACGA--ATTTTTTTAAAACA
50804498 CGAAAAAA
63 CG-AAAAA
* * * *
50804506 TTTTGAAAAACAAGAATTTTTTTTTGAAAACACGGAAATTTATGAAACATGAATTTTTTTTTTTT
1 TTTTG--AAACACGGA-TTTTTTTTG-AAACACGAAAATTTATGAAACACGAA-----TTTTTTT
*
50804571 GAAAACAAG-AAAA
57 -AAAACACGAAAAA
* * ** * * * ** *
50804584 TTTTCGATATACA-AGA-ATTTTTAAAAACACAGGAAATTTTTTTGAAAACACAAAAATTTTTGA
1 TTTT-GA-A-ACACGGATTTTTTTTGAAACAC--GAAA-ATTTATG-AAACACGAATTTTTTTAA
* *
50804647 AACACTG-GAAT
59 AACAC-GAAAAA
* *** * *
50804658 TTTTAAAACAC-GAAGATTTTTGAAACATGAAAATTTTTGAAAACACGAAAATTTTTTTTAAAAC
1 TTTTGAAACACGGATTTTTTTTGAAACACGAAAATTTATG-AAACACG--AA-TTTTTTTAAAAC
*
50804722 ACGAAAAT
62 ACGAAAAA
* * *
50804730 TTTTGAAACACGAGAAATTTTTTTTGAAAACATGAAAATTTTTGAAACCCG-ATTTTTTTAA
1 TTTTGAAACACG-G--ATTTTTTTTG-AAACACGAAAATTTATGAAACACGAATTTTTTTAA
50804791 GAACTACCGT
Statistics
Matches: 279, Mismatches: 43, Indels: 72
0.71 0.11 0.18
Matches are distributed among these distances:
69 13 0.05
70 4 0.01
71 22 0.08
72 48 0.17
73 47 0.17
74 22 0.08
75 22 0.08
76 41 0.15
77 21 0.08
78 15 0.05
79 17 0.06
80 7 0.03
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (69 bp):
TTTTGAAACACGGATTTTTTTTGAAACACGAAAATTTATGAAACACGAATTTTTTTAAAACACGA
AAAA
Found at i:50804477 original size:17 final size:16
Alignment explanation
Indices: 50804422--50804513 Score: 58
Period size: 19 Copynumber: 5.2 Consensus size: 16
50804412 GTTTTTAAAA
50804422 AAACACGAAAATTTTG
1 AAACACGAAAATTTTG
***
50804438 AAACACGGGATTTTTTTTG
1 AAACAC--GA-AAATTTTG
50804457 AAACACGAAAATTTATG
1 AAACACGAAAATTT-TG
* *
50804474 AAACACGATCAATTTTTTA
1 AAACACGA--AA-ATTTTG
50804493 AAACACGAAAAAATTTTG
1 AAACACG--AAAATTTTG
50804511 AAA
1 AAA
50804514 AACAAGAATT
Statistics
Matches: 57, Mismatches: 10, Indels: 16
0.69 0.12 0.19
Matches are distributed among these distances:
16 9 0.16
17 12 0.21
18 9 0.16
19 23 0.40
20 3 0.05
21 1 0.02
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (16 bp):
AAACACGAAAATTTTG
Found at i:50804509 original size:19 final size:18
Alignment explanation
Indices: 50804451--50804526 Score: 50
Period size: 19 Copynumber: 4.3 Consensus size: 18
50804441 CACGGGATTT
*
50804451 TTTTTGAAACACG-AAAA
1 TTTTTAAAACACGAAAAA
* * * *
50804468 TTTATGAAACACGATCAAT
1 TTTTTAAAACACGA-AAAA
50804487 TTTTTAAAACACGAAAAAA
1 TTTTTAAAACACG-AAAAA
* *
50804506 TTTTGAAAA-AC-AAGAA
1 TTTTTAAAACACGAAAAA
50804522 TTTTT
1 TTTTT
50804527 TTTTGAAAAC
Statistics
Matches: 46, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
16 8 0.17
17 12 0.26
18 2 0.04
19 23 0.50
20 1 0.02
ACGTcount: A:0.47, C:0.11, G:0.09, T:0.33
Consensus pattern (18 bp):
TTTTTAAAACACGAAAAA
Found at i:50804568 original size:39 final size:38
Alignment explanation
Indices: 50804375--50804605 Score: 142
Period size: 40 Copynumber: 6.1 Consensus size: 38
50804365 GAAAACACGA
* * *
50804375 TTTTTTTT-AAAATACGAGAATTT-TAGAAACACGAATT
1 TTTTTTTTGAAAACACGAAAATTTAT-GAAACAAGAATT
* *** * *
50804412 GTTTTTAAAAAAACACGAAAATTT-TGAAACACGGGA--
1 TTTTTTTTGAAAACACGAAAATTTATGAAACA-AGAATT
* *
50804448 TTTTTTTTG-AAACACGAAAATTTATGAAACACG-ATC
1 TTTTTTTTGAAAACACGAAAATTTATGAAACAAGAATT
**
50804484 AATTTTTT-AAAACACGAAAAAATTT-TGAAAAACAAGAA-T
1 TTTTTTTTGAAAACACG--AAAATTTATG--AAACAAGAATT
* *
50804523 TTTTTTTTGAAAACACGGAAATTTATGAAACATGAATTTT
1 TTTTTTTTGAAAACACGAAAATTTATGAAACAAGAA--TT
*
50804563 TTTTTTTTGAAAACAAGAAAATTT-TCGATATACAAGAATT
1 TTTTTTTTGAAAACACGAAAATTTAT-GA-A-ACAAGAATT
50804603 TTT
1 TTT
50804606 AAAAACACAG
Statistics
Matches: 152, Mismatches: 23, Indels: 35
0.72 0.11 0.17
Matches are distributed among these distances:
34 1 0.01
35 15 0.10
36 25 0.16
37 21 0.14
38 29 0.19
39 15 0.10
40 39 0.26
41 1 0.01
42 6 0.04
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (38 bp):
TTTTTTTTGAAAACACGAAAATTTATGAAACAAGAATT
Found at i:50804777 original size:17 final size:17
Alignment explanation
Indices: 50804422--50804777 Score: 153
Period size: 17 Copynumber: 19.2 Consensus size: 17
50804412 GTTTTTAAAA
50804422 AAACACGAAAA-TTTTG
1 AAACACGAAAATTTTTG
***
50804438 AAACACGGGATTTTTTTTG
1 AAACAC--GAAAATTTTTG
*
50804457 AAACACGAAAATTTATG
1 AAACACGAAAATTTTTG
* *
50804474 AAACACGATCAATTTTTTA
1 AAACACGA--AAATTTTTG
*
50804493 AAACACGAAAAAATTTTG
1 AAACACG-AAAATTTTTG
*
50804511 AAAAAC-AAGAATTTTTTTTTG
1 AAACACGAA-AA----TTTTTG
* *
50804532 AAAACACGGAAATTTATG
1 -AAACACGAAAATTTTTG
* **
50804550 AAACATGAATTTTTTTTTTTTG
1 AAACACGAA-----AATTTTTG
* *
50804572 AAAACAAGAAAATTTTCG
1 -AAACACGAAAATTTTTG
* * *
50804590 ATATAC-AAGAATTTTTAA
1 AAACACGAA-AATTTTT-G
*
50804608 AAACACAGGAAATTTTTTTG
1 AAACAC--GAAA-ATTTTTG
*
50804628 AAAACACAAAAATTTTTG
1 -AAACACGAAAATTTTTG
* *
50804646 AAACACTG-GAATTTTTA
1 AAACAC-GAAAATTTTTG
*
50804663 AAACACGAAGATTTTTG
1 AAACACGAAAATTTTTG
*
50804680 AAACATGAAAATTTTTG
1 AAACACGAAAATTTTTG
*
50804697 AAAACACGAAAATTTTTTTTA
1 -AAACACGAAAA---TTTTTG
50804718 AAACACGAAAATTTTTG
1 AAACACGAAAATTTTTG
50804735 AAACACGAGAAATTTTTTTTG
1 AAACACGA-AAA---TTTTTG
*
50804756 AAAACATGAAAATTTTTG
1 -AAACACGAAAATTTTTG
50804774 AAAC
1 AAAC
50804778 CCGATTTTTT
Statistics
Matches: 253, Mismatches: 50, Indels: 73
0.67 0.13 0.19
Matches are distributed among these distances:
16 11 0.04
17 90 0.36
18 52 0.21
19 27 0.11
20 13 0.05
21 32 0.13
22 19 0.08
23 9 0.04
ACGTcount: A:0.45, C:0.10, G:0.11, T:0.34
Consensus pattern (17 bp):
AAACACGAAAATTTTTG
Found at i:50805266 original size:1 final size:1
Alignment explanation
Indices: 50805262--50805334 Score: 65
Period size: 1 Copynumber: 73.0 Consensus size: 1
50805252 CCATTTTTCC
* * * * * * * * *
50805262 TTTTTTTTTTCTTTTTTTCTTTTTTTCTTTTTTCTTTTTTCTTTTTTTTTCTTTTTTTCTCTTCT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
50805327 TTTTTTTT
1 TTTTTTTT
50805335 GGCCTGCTGC
Statistics
Matches: 54, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:50805276 original size:8 final size:8
Alignment explanation
Indices: 50805265--50805334 Score: 90
Period size: 8 Copynumber: 8.6 Consensus size: 8
50805255 TTTTTCCTTT
50805265 TTTTTTTC
1 TTTTTTTC
50805273 TTTTTTTC
1 TTTTTTTC
50805281 TTTTTTTC
1 TTTTTTTC
50805289 -TTTTTTC
1 TTTTTTTC
*
50805296 TTTTTTCTT
1 TTTTTT-TC
50805305 TTTTTTTC
1 TTTTTTTC
50805313 TTTTTTTC
1 TTTTTTTC
50805321 TCTTCTTTT-
1 T-TT-TTTTC
50805330 TTTTT
1 TTTTT
50805335 GGCCTGCTGC
Statistics
Matches: 56, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
7 9 0.16
8 33 0.59
9 10 0.18
10 4 0.07
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (8 bp):
TTTTTTTC
Found at i:50805326 original size:23 final size:21
Alignment explanation
Indices: 50805262--50805334 Score: 87
Period size: 22 Copynumber: 3.5 Consensus size: 21
50805252 CCATTTTTCC
50805262 TTTTTTTTTTCTTTTTTTCTT
1 TTTTTTTTTTCTTTTTTTCTT
50805283 TTTTTCTTTTT-TCTTTTTTCTT
1 TTTTT-TTTTTCT-TTTTTTCTT
* *
50805305 TTTTTTTCTT-TTTTTCTCTT
1 TTTTTTTTTTCTTTTTTTCTT
*
50805325 CTTTTTTTTT
1 TTTTTTTTTT
50805335 GGCCTGCTGC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
20 16 0.35
21 11 0.24
22 19 0.41
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (21 bp):
TTTTTTTTTTCTTTTTTTCTT
Found at i:50805375 original size:15 final size:15
Alignment explanation
Indices: 50805335--50805375 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
50805325 CTTTTTTTTT
50805335 GGCCTGCTGCCTTTGG
1 GGCCTGCTG-CTTTGG
50805351 GGCCTG-TGCTATT-G
1 GGCCTGCTGCT-TTGG
50805365 GGCCTGCTGCT
1 GGCCTGCTGCT
50805376 GGCGTTGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 9 0.39
15 8 0.35
16 6 0.26
ACGTcount: A:0.02, C:0.29, G:0.37, T:0.32
Consensus pattern (15 bp):
GGCCTGCTGCTTTGG
Found at i:50805605 original size:13 final size:13
Alignment explanation
Indices: 50805583--50805617 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
50805573 AAAATATATT
*
50805583 TTCTTTTTCTTCC
1 TTCTTCTTCTTCC
50805596 TTCTTCTTCTTCC
1 TTCTTCTTCTTCC
50805609 TTCCTTCTT
1 TT-CTTCTT
50805618 TCTCTTTTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 14 0.70
14 6 0.30
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (13 bp):
TTCTTCTTCTTCC
Found at i:50806180 original size:30 final size:30
Alignment explanation
Indices: 50806145--50806269 Score: 144
Period size: 30 Copynumber: 4.2 Consensus size: 30
50806135 GGCTGAAACA
* *
50806145 TAATTTCGAGAAAGTTTAGGGGTCCAAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
* *
50806175 TAATTTTGAGAAAGTTTAGGGGTCAAAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
* *
50806205 TAGTTTC-AAAAAGTTTAGGGGTAAAAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
* ** *
50806234 TAGTTTTAAAAAAATTTAGGGGTCAAAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
*
50806264 CAATTT
1 TAATTT
50806270 TTTTTAAAAC
Statistics
Matches: 83, Mismatches: 11, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
29 26 0.31
30 57 0.69
ACGTcount: A:0.38, C:0.06, G:0.23, T:0.33
Consensus pattern (30 bp):
TAATTTCGAAAAAGTTTAGGGGTCAAAATG
Found at i:50806587 original size:76 final size:75
Alignment explanation
Indices: 50806448--50807129 Score: 938
Period size: 76 Copynumber: 8.8 Consensus size: 75
50806438 GTGTGGCCCA
* * *
50806448 AGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTTG-AAAAACAGAAATTGAAAAATACCTC
1 AGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAATACCTC
50806511 AGCGTGACCCG
65 AGCGTGACCCG
*
50806522 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAGAAAGCAGAAATTTAAAAATACCTC
1 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAA-AAAACAGAAATTTAAAAATACCTC
50806587 AGCGTGACCCG
65 AGCGTGACCCG
*
50806598 AGGCTCAACTCACCTCAGTATTATGAGTTGATTTTTTTGAAAAAACAGAAATTAGATTAGAAAAA
1 AGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTTGAAAAAACAGAAA-T---TT--AAAAA
*
50806663 TACCTCAGCATGACCCG
59 TACCTCAGCGTGACCCG
*
50806680 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAAGCATAAATTTAAAAAGTACC
1 AGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTTGAAAAAA-CAGAAATTTAAAAA-TACC
50806745 TCAGCGTGACCCG
63 TCAGCGTGACCCG
* *
50806758 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAATAGAAATTAAAAAAATACCTC
1 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATT-TAAAAATACCTC
50806823 AGCGTGACCCG
65 AGCGTGACCCG
* **** *
50806834 AGGCTCAACTCACCTCTGTATTATGAGTTTATTTGAAAAAAAAAGACATAAA-TTAAAAATACCT
1 AGGCTCAACTCACCTCTGTATTATGAGTTGATTT-TTTGAAAAA-ACAGAAATTTAAAAATACCT
*
50806898 CAGCGTGACCTG
64 CAGCGTGACCCG
* *
50806910 AGGCTCAACTCACCTCTGTATTATGAGTTGACTTTTTGAAAAAAAGCAAAAATTTAAAAAAATAC
1 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTG-AAAAAA-CAGAAATTT--AAAAATAC
*
50806975 ATCAGCGTGACCCG
62 CTCAGCGTGACCCG
50806989 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTAAATTAAAAAAAT
1 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAA-T---TT--AAAAAT
50807054 ACCTCAGCGTGACCCG
60 ACCTCAGCGTGACCCG
*
50807070 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAATTTTAAAAATA
1 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAATA
50807130 TTTCTTGAAA
Statistics
Matches: 549, Mismatches: 35, Indels: 47
0.87 0.06 0.07
Matches are distributed among these distances:
73 12 0.02
74 23 0.04
75 9 0.02
76 191 0.35
77 48 0.09
78 59 0.11
79 59 0.11
80 3 0.01
81 74 0.13
82 66 0.12
83 5 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (75 bp):
AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTTAAAAATACCTCA
GCGTGACCCG
Found at i:50807057 original size:236 final size:233
Alignment explanation
Indices: 50806448--50807103 Score: 935
Period size: 236 Copynumber: 2.8 Consensus size: 233
50806438 GTGTGGCCCA
* * * *
50806448 AGGCTCAACTCACCTCTAGCAATATGAGTTGATTTTTG-AAAAA-CAGAAA-TTGAAAAATACCT
1 AGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTGAAAAAAGCAAAAATTTAAAAAATACCT
*
50806510 CAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAGAAAGCAGAAAT-
65 CAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAA-AAAACAGAAATA
* *
50806574 --TT--AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCAGTATTATGAGTTGATTTTTT
129 AATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGA---G-TTTATT
* *
50806635 TGAAAAAACAGAAATTAGATTAGAAAAATACCTCAGCATGACCCG
190 TGAAAAAAAAGAAATTAAATTA-AAAAATACCTCAGCATGACCCG
* *
50806680 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTTGAAAAAAGCATAAATTTAAAAAGTACC
1 AGGCTCAACTCACCTCTGTATTATGAGTTGA--TTTTTGAAAAAAGCAAAAATTTAAAAAATACC
*
50806745 TCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAATAG----A
64 TCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATA
50806806 AATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTTATTTGAA
129 AATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTTATTTG-A
* * *
50806871 AAAAAAAGACA-TAAATT-AAAAATACCTCAGCGTGACCTG
193 AAAAAAAGAAATTAAATTAAAAAATACCTCAGCATGACCCG
50806910 AGGCTCAACTCACCTCTGTATTATGAGTTGACTTTTTGAAAAAAAGCAAAAATTTAAAAAAATAC
1 AGGCTCAACTCACCTCTGTATTATGAGTTGA-TTTTTG-AAAAAAGCAAAAATTT-AAAAAATAC
*
50806975 ATCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAAT
63 CTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAA-
*
50807040 TAAATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTT
127 TAAATTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTTATTT
50807104 TTTGAAAAAA
Statistics
Matches: 386, Mismatches: 20, Indels: 32
0.88 0.05 0.07
Matches are distributed among these distances:
229 6 0.02
230 66 0.17
231 79 0.20
232 29 0.08
233 17 0.04
234 7 0.02
235 10 0.03
236 172 0.45
ACGTcount: A:0.36, C:0.19, G:0.16, T:0.29
Consensus pattern (233 bp):
AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTGAAAAAAGCAAAAATTTAAAAAATACCTC
AGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATAAA
TTAAAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTTATTTGAAAA
AAAAGAAATTAAATTAAAAAATACCTCAGCATGACCCG
Found at i:50807059 original size:312 final size:310
Alignment explanation
Indices: 50806448--50807129 Score: 1020
Period size: 312 Copynumber: 2.2 Consensus size: 310
50806438 GTGTGGCCCA
* * *
50806448 AGGCTCAACTCACCTCTAGCAATATGAGTTGA-TTTTTG-AAAAACAGAAATTGAAAAATACCTC
1 AGGCTCAACTCACCTCT-GTATTATGAGTTGATTTTTTGAAAAAACAGAAATTAAAAAATACCTC
**** *
50806511 AGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAGAAAGCAGAAATTT
65 AGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTGAAAAAAAAAGCAGAAATTT
*
50806576 AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCAGTATTATGAGTTGATTTTTTTGAAAA
130 AAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCAGTATTATGAGTTGATCTTTTTGAAAA
* *
50806641 AACAGAAATTAGATTAGAAAAATACCTCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGA
195 AACAGAAA-TAGATTAAAAAAATACATCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGA
* * *
50806706 GTTGATTTTTTTGAAAAAAGCATAAATTTAAAAAGTACCTCAGCGTGACCCG
259 GTTGATTTTTTTGAAAAAAGAATAAATTAAAAAAATACCTCAGCGTGACCCG
*
50806758 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAATAGAAATTAAAAAAATACCTC
1 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATT-AAAAAATACCTC
* *
50806823 AGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTTATTTGAAAAAAAAAGACATAAA-T
65 AGCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTGAAAAAAAAAG-CAGAAATT
* *
50806887 TAAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTGTATTATGAGTTGA-CTTTTTGAAA
129 TAAAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCAGTATTATGAGTTGATCTTTTTGAAA
*
50806951 AAA-AGCAAA-A-ATTTAAAAAAATACATCAGCGTGACCCGAGGCTCAACTCACCTCTGTATTAT
194 AAACAG-AAATAGA-TTAAAAAAATACATCAGCATGACCCGAGGCTCAACTCACCTCTGTATTAT
50807013 GAGTTGA-TTTTTTGAAAAAACAGAAATTAAATTAAAAAAATACCTCAGCGTGACCCG
257 GAGTTGATTTTTTTG-AAAAA-AG-AA-TAAATTAAAAAAATACCTCAGCGTGACCCG
* *
50807070 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAATTTTAAAAATA
1 AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTAAAAAATA
50807130 TTTCTTGAAA
Statistics
Matches: 339, Mismatches: 23, Indels: 19
0.89 0.06 0.05
Matches are distributed among these distances:
308 8 0.02
309 72 0.21
310 27 0.08
311 35 0.10
312 192 0.57
313 5 0.01
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.29
Consensus pattern (310 bp):
AGGCTCAACTCACCTCTGTATTATGAGTTGATTTTTTGAAAAAACAGAAATTAAAAAATACCTCA
GCGTGACCCGAGGCTCAACTCACCTCTGTATTATGAGTTGATTTGAAAAAAAAAGCAGAAATTTA
AAAATACCTCAGCGTGACCCGAGGCTCAACTCACCTCAGTATTATGAGTTGATCTTTTTGAAAAA
ACAGAAATAGATTAAAAAAATACATCAGCATGACCCGAGGCTCAACTCACCTCTGTATTATGAGT
TGATTTTTTTGAAAAAAGAATAAATTAAAAAAATACCTCAGCGTGACCCG
Found at i:50807157 original size:30 final size:29
Alignment explanation
Indices: 50807100--50807157 Score: 71
Period size: 30 Copynumber: 2.0 Consensus size: 29
50807090 TTATGAGTTG
* *
50807100 ATTTTTTGAAAAAACAGAATTTTAAAAAT
1 ATTTCTTGAAAAAACAGAATTTCAAAAAT
**
50807129 ATTTCTTGAAAGAAACAGGGTTTCAAAAA
1 ATTTCTTGAAA-AAACAGAATTTCAAAAA
50807158 CATCTAGTGG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.48, C:0.07, G:0.12, T:0.33
Consensus pattern (29 bp):
ATTTCTTGAAAAAACAGAATTTCAAAAAT
Found at i:50807987 original size:9 final size:9
Alignment explanation
Indices: 50807975--50808078 Score: 73
Period size: 9 Copynumber: 10.8 Consensus size: 9
50807965 GGTTTTCATC
50807975 TTTTTTTTG
1 TTTTTTTTG
* *
50807984 TTTTGTCTG
1 TTTTTTTTG
* *
50807993 TCTTTTCTG
1 TTTTTTTTG
*
50808002 TTTTTTTTC
1 TTTTTTTTG
*
50808011 TTTTTGTTTT
1 TTTTT-TTTG
50808021 TTGTTTTGTCTG
1 TT-TTTT-T-TG
50808033 TTTTTTTCTG
1 TTTTTTT-TG
*
50808043 TTTTTTCTTT
1 TTTTTT-TTG
50808053 TTTTTTTCTG
1 TTTTTTT-TG
*
50808063 TTTTTTTTA
1 TTTTTTTTG
50808072 TTTTTTT
1 TTTTTTT
50808079 AAGCATAATA
Statistics
Matches: 77, Mismatches: 12, Indels: 12
0.76 0.12 0.12
Matches are distributed among these distances:
9 34 0.44
10 31 0.40
11 9 0.12
12 3 0.04
ACGTcount: A:0.01, C:0.08, G:0.10, T:0.82
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:50808049 original size:39 final size:38
Alignment explanation
Indices: 50807975--50808066 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 38
50807965 GGTTTTCATC
50807975 TTTTTTTTGTTTTGTCTGTCTTTTCTGTTTTTTTTCTTT
1 TTTTTTTTGTTTTGTCTGTCTTTTCTG-TTTTTTTCTTT
*
50808014 TTGTTTTTTGTTTTGTCTGTTTTTTTCTG-TTTTTTCTTT
1 TT-TTTTTTGTTTTGTCTG-TCTTTTCTGTTTTTTTCTTT
50808053 TTTTTTTCTGTTTT
1 TTTTTTT-TGTTTT
50808067 TTTTATTTTT
Statistics
Matches: 49, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
38 5 0.10
39 20 0.41
40 16 0.33
41 8 0.16
ACGTcount: A:0.00, C:0.09, G:0.11, T:0.80
Consensus pattern (38 bp):
TTTTTTTTGTTTTGTCTGTCTTTTCTGTTTTTTTCTTT
Found at i:50808067 original size:20 final size:20
Alignment explanation
Indices: 50808004--50808078 Score: 93
Period size: 20 Copynumber: 3.8 Consensus size: 20
50807994 CTTTTCTGTT
50808004 TTTTTTCTTTTTGTTTTT-TG
1 TTTTTTCTTTTT-TTTTTCTG
* *
50808024 TTTTGTC-TGTTTTTTTCTG
1 TTTTTTCTTTTTTTTTTCTG
50808043 TTTTTTCTTTTTTTTTTCTG
1 TTTTTTCTTTTTTTTTTCTG
50808063 TTTTTT-TTATTTTTTT
1 TTTTTTCTT-TTTTTTT
50808079 AAGCATAATA
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
18 5 0.10
19 13 0.27
20 30 0.62
ACGTcount: A:0.01, C:0.07, G:0.08, T:0.84
Consensus pattern (20 bp):
TTTTTTCTTTTTTTTTTCTG
Found at i:50808076 original size:39 final size:40
Alignment explanation
Indices: 50807977--50808078 Score: 120
Period size: 39 Copynumber: 2.6 Consensus size: 40
50807967 TTTTCATCTT
* *
50807977 TTTTTTGTTTTGTCT-GTCTTTTCTGTTTTTTTTCTTTTTG
1 TTTTTTGTTTTGTCTATTTTTTTCTG-TTTTTTTCTTTTTG
*
50808017 TTTTTTGTTTTGTCTGTTTTTTTCTG-TTTTTTCTTTTT-
1 TTTTTTGTTTTGTCTATTTTTTTCTGTTTTTTTCTTTTTG
* *
50808055 TTTTTCTGTTTTTTTTATTTTTTT
1 TTTTT-TGTTTTGTCTATTTTTTT
50808079 AAGCATAATA
Statistics
Matches: 55, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
38 5 0.09
39 27 0.49
40 15 0.27
41 8 0.15
ACGTcount: A:0.01, C:0.08, G:0.10, T:0.81
Consensus pattern (40 bp):
TTTTTTGTTTTGTCTATTTTTTTCTGTTTTTTTCTTTTTG
Found at i:50808077 original size:11 final size:11
Alignment explanation
Indices: 50807995--50808078 Score: 62
Period size: 11 Copynumber: 7.1 Consensus size: 11
50807985 TTTGTCTGTC
*
50807995 TTTTCTGTTTT
1 TTTTCTTTTTT
50808006 TTTTCTTTTTGT
1 TTTTCTTTTT-T
50808018 TTTT-TGTTTTGT
1 TTTTCT-TTTT-T
*
50808030 CTGTTTTTTTCTGTT
1 -T-TTTCTTT-T-TT
50808045 TTTTCTTTTTT
1 TTTTCTTTTTT
*
50808056 TTTTCTGTTTT
1 TTTTCTTTTTT
*
50808067 TTTTATTTTTT
1 TTTTCTTTTTT
50808078 T
1 T
50808079 AAGCATAATA
Statistics
Matches: 61, Mismatches: 5, Indels: 14
0.76 0.06 0.17
Matches are distributed among these distances:
11 32 0.52
12 12 0.20
13 7 0.11
14 6 0.10
15 3 0.05
16 1 0.02
ACGTcount: A:0.01, C:0.07, G:0.08, T:0.83
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:50808077 original size:30 final size:29
Alignment explanation
Indices: 50807975--50808078 Score: 102
Period size: 31 Copynumber: 3.5 Consensus size: 29
50807965 GGTTTTCATC
* * * *
50807975 TTTTTTTTGTTTTGTCTGTCTTTTCTGTT
1 TTTTTTTTTTTTTTTTTGTTTTTTCTGTT
*
50808004 TTTTTTCTTTTTGTTTTTTGTTTTGTCTGTT
1 TTTTTT-TTTTT-TTTTTTGTTTTTTCTGTT
*
50808035 TTTTTCTGTTTTTTCTTTT-TTTTTTCTGTT
1 TTTTT-T-TTTTTTTTTTTGTTTTTTCTGTT
*
50808065 TTTTTTATTTTTTT
1 TTTTTTTTTTTTTT
50808079 AAGCATAATA
Statistics
Matches: 62, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
28 6 0.10
29 7 0.11
30 19 0.31
31 24 0.39
32 6 0.10
ACGTcount: A:0.01, C:0.08, G:0.10, T:0.82
Consensus pattern (29 bp):
TTTTTTTTTTTTTTTTTGTTTTTTCTGTT
Found at i:50811707 original size:4 final size:4
Alignment explanation
Indices: 50811661--50811697 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
50811651 ATGTACATGC
*
50811661 AATG AATG AATG AATG AATG AATA AATG AATG AATG A
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG A
50811698 CCAATGAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.22, T:0.24
Consensus pattern (4 bp):
AATG
Found at i:50813456 original size:18 final size:17
Alignment explanation
Indices: 50813435--50813540 Score: 56
Period size: 19 Copynumber: 5.9 Consensus size: 17
50813425 AATACGAGAA
50813435 TTTTAGAAACACGAATTGT
1 TTTTAGAAACACGAA-T-T
* **
50813454 TTTTAAAAAAACACGAAAA
1 TTTT--AGAAACACGAATT
50813473 TTTT-GAAACACGAGATT
1 TTTTAGAAACACGA-ATT
* *
50813490 TTTTTGAAACACGAA-A
1 TTTTAGAAACACGAATT
*
50813506 ATTTATGAAACACGATCAATT
1 TTTTA-GAAACACG---AATT
50813527 TTTTA-AAACACGAA
1 TTTTAGAAACACGAA
50813541 AAATTTTTGA
Statistics
Matches: 67, Mismatches: 11, Indels: 21
0.68 0.11 0.21
Matches are distributed among these distances:
16 13 0.19
17 14 0.21
18 9 0.13
19 15 0.22
20 2 0.03
21 14 0.21
ACGTcount: A:0.45, C:0.12, G:0.11, T:0.31
Consensus pattern (17 bp):
TTTTAGAAACACGAATT
Found at i:50813529 original size:72 final size:72
Alignment explanation
Indices: 50813400--50813812 Score: 217
Period size: 72 Copynumber: 5.6 Consensus size: 72
50813390 ACTTTTTCTT
* * * * **
50813400 TTTTTGAAAACACGA-TTTTTTTTAAAATACGAGAATTT-TAGAAACACGAATTGTTTTTAAAAA
1 TTTTTG-AAACACGAGATTTTTTTGAAACACGAAAATTTAT-GAAACACGAATAATTTTT--AAA
50813463 AACACG-AAAA
62 AACACGAAAAA
*
50813473 -TTTTGAAACACGAGATTTTTTTGAAACACGAAAATTTATGAAACACG-ATCAATTTTTTAAAAC
1 TTTTTGAAACACGAGATTTTTTTGAAACACGAAAATTTATGAAACACGAAT-AATTTTTAAAAAC
50813536 ACGAAAAA
65 ACGAAAAA
* * * * ** *
50813544 TTTTTGAAAAACGGGAATTTTTTTTGAAAACACGGAAATTTATGAAACATGAAATTTTTTTTTGA
1 TTTTTGAAACACGAG-A-TTTTTTTG-AAACACGAAAATTTATGAAACACG-AA-TAATTTTTAA
*
50813609 AAACAAG-AAAA
61 AAACACGAAAAA
* ** ** * *
50813620 TTTTTGATATACA-G-GAATTTTTAAAAACACGGGAATTTTTTTTGAAAACAC-AAAAATTTTT-
1 TTTTTGA-A-ACACGAGATTTTTTTGAAACAC--GAA-AATTTATG-AAACACGAATAATTTTTA
* *
50813681 GAAACACTG--GAA
60 AAAACAC-GAAAAA
* * * ** *
50813693 TTTTTAAAACACGAAGA--TTTTTGAAACATGAAAATTTTTGAAAACACGAATTTTTTTTTTAAA
1 TTTTTGAAACACG-AGATTTTTTTGAAACACGAAAATTTATG-AAACACGAA-TAATTTTTAAAA
*
50813756 ACACG-GAAA
63 ACACGAAAAA
* *
50813765 TTTTTGAAACACGAGAAATTTTTTTGAAAACATGAAAATTTTTGAAAC
1 TTTTTGAAACACGAG--ATTTTTTTG-AAACACGAAAATTTATGAAAC
50813813 CCGATTTTTT
Statistics
Matches: 268, Mismatches: 42, Indels: 58
0.73 0.11 0.16
Matches are distributed among these distances:
69 13 0.05
70 13 0.05
71 25 0.09
72 80 0.30
73 22 0.08
74 21 0.08
75 37 0.14
76 34 0.13
77 20 0.07
78 3 0.01
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.35
Consensus pattern (72 bp):
TTTTTGAAACACGAGATTTTTTTGAAACACGAAAATTTATGAAACACGAATAATTTTTAAAAACA
CGAAAAA
Found at i:50813537 original size:19 final size:19
Alignment explanation
Indices: 50813461--50813811 Score: 147
Period size: 17 Copynumber: 19.2 Consensus size: 19
50813451 TGTTTTTAAA
50813461 AAAACACG-AAAA-TTTTG
1 AAAACACGAAAAATTTTTG
* **
50813478 -AAACACGAGATTTTTTTG
1 AAAACACGAAAAATTTTTG
*
50813496 -AAACACG-AAAATTTATG
1 AAAACACGAAAAATTTTTG
** *
50813513 -AAACACGATCAATTTTTT
1 AAAACACGAAAAATTTTTG
50813531 AAAACACGAAAAATTTTTG
1 AAAACACGAAAAATTTTTG
***
50813550 AAAA-ACGGGAATTTTTTTTG
1 AAAACAC--GAAAAATTTTTG
* *
50813570 AAAACACG-GAAATTTATG
1 AAAACACGAAAAATTTTTG
* **
50813588 -AAACATGAAATTTTTTTTTG
1 AAAACACGAAA--AATTTTTG
*
50813608 AAAACAAG-AAAATTTTTG
1 AAAACACGAAAAATTTTTG
* * *
50813626 ATATACA-G--GAATTTTTA
1 A-AAACACGAAAAATTTTTG
***
50813643 AAAACACGGGAATTTTTTTTG
1 AAAACAC--GAAAAATTTTTG
50813664 AAAACAC-AAAAATTTTTG
1 AAAACACGAAAAATTTTTG
*
50813682 -AAACACTG--GAATTTTT-
1 AAAACAC-GAAAAATTTTTG
*
50813698 AAAACACG-AAGATTTTTG
1 AAAACACGAAAAATTTTTG
*
50813716 -AAACATG-AAAATTTTTG
1 AAAACACGAAAAATTTTTG
*** *
50813733 AAAACACGAATTTTTTTTTT
1 AAAACACGAA-AAATTTTTG
*
50813753 AAAACACG-GAAATTTTTG
1 AAAACACGAAAAATTTTTG
*
50813771 -AAACACGAGAAATTTTTTTG
1 AAAACACGA-AAA-ATTTTTG
*
50813791 AAAACATG-AAAATTTTTG
1 AAAACACGAAAAATTTTTG
50813809 AAA
1 AAA
50813812 CCCGATTTTT
Statistics
Matches: 245, Mismatches: 60, Indels: 57
0.68 0.17 0.16
Matches are distributed among these distances:
16 12 0.05
17 75 0.31
18 62 0.25
19 31 0.13
20 39 0.16
21 26 0.11
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (19 bp):
AAAACACGAAAAATTTTTG
Found at i:50813567 original size:38 final size:37
Alignment explanation
Indices: 50813414--50813812 Score: 197
Period size: 38 Copynumber: 10.8 Consensus size: 37
50813404 TGAAAACACG
* * *
50813414 ATTTTTTTTAAAATACGAGAATTTTAGAAACAC--GA
1 ATTTTTTTTAAAACACGAAAATTTTTGAAACACGGGA
* *
50813449 ATTGTTTTTAAAAAAACACGAAAA-TTTTGAAACACGAG-
1 ATT-TTTTT--TAAAACACGAAAATTTTTGAAACACGGGA
* * **
50813487 A-TTTTTTTGAAACACGAAAATTTATGAAACACGATCA
1 ATTTTTTTTAAAACACGAAAATTTTTGAAACACG-GGA
*
50813524 A--TTTTTTAAAACACGAAAAATTTTTGAAAAACGGGA
1 ATTTTTTTTAAAACACG-AAAATTTTTGAAACACGGGA
* * * *
50813560 ATTTTTTTTGAAAACACGGAAATTTATGAAACA-TGAA
1 ATTTTTTTT-AAAACACGAAAATTTTTGAAACACGGGA
* * * *
50813597 ATTTTTTTTTGAAAACAAGAAAATTTTTGATATACAGGA
1 A-TTTTTTTT-AAAACACGAAAATTTTTGAAACACGGGA
* **
50813636 A--TTTTTAAAAACACGGGAATTTTTTTTGAAAACAC---A
1 ATTTTTTTTAAAACAC--GAA-AATTTTTG-AAACACGGGA
*** * * *
50813672 AAAATTTTTGAAACACTG-GAATTTTTAAAACAC--GA
1 ATTTTTTTTAAAACAC-GAAAATTTTTGAAACACGGGA
** * *
50813707 A-GATTTTTGAAACATGAAAATTTTTGAAAACAC--GA
1 ATTTTTTTTAAAACACGAAAATTTTTG-AAACACGGGA
* *
50813742 ATTTTTTTTTTAAAACACGGAAATTTTTGAAACACGAGAA
1 A--TTTTTTTTAAAACACGAAAATTTTTGAAACACG-GGA
* *
50813782 ATTTTTTTGAAAACATGAAAATTTTTGAAAC
1 ATTTTTTTTAAAACACGAAAATTTTTGAAAC
50813813 CCGATTTTTT
Statistics
Matches: 282, Mismatches: 53, Indels: 55
0.72 0.14 0.14
Matches are distributed among these distances:
33 1 0.00
34 36 0.13
35 36 0.13
36 32 0.11
37 40 0.14
38 119 0.42
39 16 0.06
40 2 0.01
ACGTcount: A:0.44, C:0.09, G:0.12, T:0.35
Consensus pattern (37 bp):
ATTTTTTTTAAAACACGAAAATTTTTGAAACACGGGA
Found at i:50813578 original size:21 final size:20
Alignment explanation
Indices: 50813544--50813584 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
50813534 ACACGAAAAA
*
50813544 TTTTTGAAAAACGGGAATTT
1 TTTTTGAAAAACGGAAATTT
50813564 TTTTTGAAAACACGGAAATTT
1 TTTTTGAAAA-ACGGAAATTT
50813585 ATGAAACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.37, C:0.07, G:0.17, T:0.39
Consensus pattern (20 bp):
TTTTTGAAAAACGGAAATTT
Found at i:50813626 original size:56 final size:54
Alignment explanation
Indices: 50813461--50813747 Score: 202
Period size: 56 Copynumber: 5.3 Consensus size: 54
50813451 TGTTTTTAAA
* * * * * *
50813461 AAAACACGAAAATTTTGAAACACGAGA-TTTTTTTG-AAACACGAAAATTTATG
1 AAAACACGGAATTTTTAAAACACGAAATTTTTTTTGAAAACAAGAAAATTTTTG
* ** ** **
50813513 -AAACACGATCAATTTTTTAAAACACGAAA-AATTTTTGAAAAACGGGAATTTTTTTTG
1 AAAACACG--GAA-TTTTTAAAACACGAAATTTTTTTTG-AAAACAAGAA-AATTTTTG
* * *
50813570 AAAACACGGAAATTTATGAAACATGAAATTTTTTTTTGAAAACAAGAAAATTTTTG
1 AAAACACGG-AATTTTTAAAACACGAAA-TTTTTTTTGAAAACAAGAAAATTTTTG
* *
50813626 ATATACA-GGAATTTTTAAAAACACGGGAATTTTTTTTGAAAACACA-AAAATTTTTG
1 A-AAACACGGAATTTTT-AAAACAC-GAAATTTTTTTTGAAAACA-AGAAAATTTTTG
*
50813682 -AAACACTGGAATTTTTAAAACACGAAGA---TTTTTG-AAACATGAAAATTTTTG
1 AAAACAC-GGAATTTTTAAAACACGAA-ATTTTTTTTGAAAACAAGAAAATTTTTG
50813733 AAAACAC-GAATTTTT
1 AAAACACGGAATTTTT
50813748 TTTTTAAAAC
Statistics
Matches: 187, Mismatches: 29, Indels: 40
0.73 0.11 0.16
Matches are distributed among these distances:
50 8 0.04
51 22 0.12
52 12 0.06
53 2 0.01
54 25 0.13
55 14 0.07
56 68 0.36
57 23 0.12
58 13 0.07
ACGTcount: A:0.44, C:0.10, G:0.13, T:0.33
Consensus pattern (54 bp):
AAAACACGGAATTTTTAAAACACGAAATTTTTTTTGAAAACAAGAAAATTTTTG
Found at i:50813768 original size:21 final size:20
Alignment explanation
Indices: 50813398--50813807 Score: 90
Period size: 17 Copynumber: 22.2 Consensus size: 20
50813388 CAACTTTTTC
50813398 TTTTTTTGAAAACACG--AT
1 TTTTTTTGAAAACACGAAAT
*
50813416 TTTTTTT-AAAATACGAGAA-
1 TTTTTTTGAAAACACGA-AAT
*
50813435 --TTTTAG-AAACACG-AAT
1 TTTTTTTGAAAACACGAAAT
**
50813451 TGTTTTTAAAAAAACACGAAA-
1 T-TTTTT-TGAAAACACGAAAT
* *
50813472 --ATTTTG-AAACACGAGA-
1 TTTTTTTGAAAACACGAAAT
50813488 TTTTTTTG-AAACACGAAA-
1 TTTTTTTGAAAACACGAAAT
* *
50813506 -ATTTATG-AAACACGATCAA-
1 TTTTTTTGAAAACACGA--AAT
50813525 -TTTTTT-AAAACACGAAA-
1 TTTTTTTGAAAACACGAAAT
** *
50813542 AATTTTTGAAAA-ACGGGAAT
1 TTTTTTTGAAAACAC-GAAAT
50813562 TTTTTTTGAAAACACGGAAA-
1 TTTTTTTGAAAACAC-GAAAT
* *
50813582 --TTTATG-AAACATGAAATT
1 TTTTTTTGAAAACACGAAA-T
*
50813600 TTTTTTTGAAAACAAGAAA-
1 TTTTTTTGAAAACACGAAAT
* * *
50813619 -ATTTTTGATATACA-GGAA-
1 TTTTTTTGA-AAACACGAAAT
* *
50813637 --TTTTTAAAAACACGGGAAT
1 TTTTTTTGAAAACAC-GAAAT
50813656 TTTTTTTGAAAACAC-AAA-
1 TTTTTTTGAAAACACGAAAT
** *
50813674 AATTTTTG-AAACACTGGAA-
1 TTTTTTTGAAAACAC-GAAAT
50813693 --TTTTT-AAAACACGAAGA-
1 TTTTTTTGAAAACACGAA-AT
*
50813710 --TTTTTG-AAACATGAAA-
1 TTTTTTTGAAAACACGAAAT
* *
50813726 -ATTTTTGAAAACACGAATT
1 TTTTTTTGAAAACACGAAAT
*
50813745 TTTTTTTTAAAACACGGAAA-
1 TTTTTTTGAAAACAC-GAAAT
*
50813765 --TTTTTG-AAACACGAGAAA
1 TTTTTTTGAAAACACGA-AAT
*
50813783 TTTTTTTGAAAACATGAAAAT
1 TTTTTTTGAAAACACG-AAAT
50813804 TTTT
1 TTTT
50813808 GAAACCCGAT
Statistics
Matches: 301, Mismatches: 43, Indels: 93
0.69 0.10 0.21
Matches are distributed among these distances:
15 2 0.01
16 22 0.07
17 88 0.29
18 69 0.23
19 33 0.11
20 35 0.12
21 49 0.16
22 3 0.01
ACGTcount: A:0.43, C:0.09, G:0.12, T:0.36
Consensus pattern (20 bp):
TTTTTTTGAAAACACGAAAT
Found at i:50814300 original size:7 final size:6
Alignment explanation
Indices: 50814289--50814384 Score: 85
Period size: 7 Copynumber: 15.8 Consensus size: 6
50814279 CAAATTGAAC
* *
50814289 CTTTTT CCTTTT -TTTTT CTTTTT -TTCTT CTTTTT CTTTTTT CTTTTTT
1 CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT CTTTTT C-TTTTT C-TTTTT
50814337 CTTTTTT CTTTTTT CTTTTT -TTTTT CTTTTT -TTCTCTT CTTTTT -TTTT
1 C-TTTTT C-TTTTT CTTTTT CTTTTT CTTTTT CTT-T-TT CTTTTT CTTTT
50814385 GGCCTGCTGC
Statistics
Matches: 79, Mismatches: 4, Indels: 15
0.81 0.04 0.15
Matches are distributed among these distances:
5 19 0.24
6 28 0.35
7 30 0.38
8 2 0.03
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
CTTTTT
Found at i:50814301 original size:1 final size:1
Alignment explanation
Indices: 50814297--50814384 Score: 68
Period size: 1 Copynumber: 88.0 Consensus size: 1
50814287 ACCTTTTTCC
* * * * * * * *
50814297 TTTTTTTTTCTTTTTTTCTTCTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTCTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * * *
50814362 CTTTTTTTCTCTTCTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTT
50814385 GGCCTGCTGC
Statistics
Matches: 63, Mismatches: 24, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (1 bp):
T
Found at i:50814322 original size:21 final size:21
Alignment explanation
Indices: 50814296--50814380 Score: 98
Period size: 22 Copynumber: 3.9 Consensus size: 21
50814286 AACCTTTTTC
50814296 CTTTTTTTTTCTTTTTTTCTT
1 CTTTTTTTTTCTTTTTTTCTT
*
50814317 CTTTTTCTTTTTTCTTTTTTCTT
1 CTTTTT-TTTTCT-TTTTTTCTT
* *
50814340 TTTTCTTTTTTCTTTTTTTTTT
1 CTTT-TTTTTTCTTTTTTTCTT
*
50814362 CTTTTTTTCTCTTCTTTTT
1 CTTTTTTTTTCTT-TTTTT
50814381 TTTTGGCCTG
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
21 14 0.26
22 21 0.39
23 17 0.31
24 2 0.04
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (21 bp):
CTTTTTTTTTCTTTTTTTCTT
Found at i:50814425 original size:15 final size:15
Alignment explanation
Indices: 50814385--50814425 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
50814375 CTTTTTTTTT
50814385 GGCCTGCTGCCTTTGG
1 GGCCTGCTG-CTTTGG
50814401 GGCCTG-TGCTATT-G
1 GGCCTGCTGCT-TTGG
50814415 GGCCTGCTGCT
1 GGCCTGCTGCT
50814426 GGCGTTGGGC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
14 9 0.39
15 8 0.35
16 6 0.26
ACGTcount: A:0.02, C:0.29, G:0.37, T:0.32
Consensus pattern (15 bp):
GGCCTGCTGCTTTGG
Found at i:50815218 original size:30 final size:30
Alignment explanation
Indices: 50815184--50815308 Score: 128
Period size: 30 Copynumber: 4.2 Consensus size: 30
50815174 GGCTGAAACA
** *
50815184 TAATTTCGAGGAAGTTTAGGTGTCAAAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
* * *
50815214 TAATTTTGAGAAAGTTTTGGGGTCAAAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
*
50815244 TAGTTTC-AAAAAGTTTAGGGGT-AGAAATG
1 TAATTTCGAAAAAGTTTAGGGGTCA-AAATG
* * *
50815273 TAGTTTTGAAAAAATTTAGGGGTCAAAATG
1 TAATTTCGAAAAAGTTTAGGGGTCAAAATG
*
50815303 AAATTT
1 TAATTT
50815309 TTTTTAAAGA
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
28 1 0.01
29 24 0.30
30 54 0.68
31 1 0.01
ACGTcount: A:0.37, C:0.04, G:0.25, T:0.34
Consensus pattern (30 bp):
TAATTTCGAAAAAGTTTAGGGGTCAAAATG
Found at i:50819213 original size:18 final size:17
Alignment explanation
Indices: 50819193--50819462 Score: 133
Period size: 17 Copynumber: 15.2 Consensus size: 17
50819183 AAGAATCTAT
50819193 TTTTCAAAATTCTCGTG
1 TTTTCAAAATTCTCGTG
*
50819210 TTTTTAAAAAAATTACATTCTGTG
1 -TTTT--CAAAATT-C--TC-GTG
* *
50819234 TTTTCAAAAATTTTCGTA
1 TTTTC-AAAATTCTCGTG
* *
50819252 TTTTCAAAAATTTTCATG
1 TTTTC-AAAATTCTCGTG
50819270 TTTTCAACAATTCTCGTG
1 TTTTCAA-AATTCTCGTG
*
50819288 -TTTCACAAATTTTCGTG
1 TTTTCA-AAATTCTCGTG
* * ** *
50819305 TTTTAAAAATTTTTTTA
1 TTTTCAAAATTCTCGTG
*
50819322 TTTTAAAAAATTCTCGT-
1 TTTT-CAAAATTCTCGTG
* *
50819339 CTTTCAAAAATTGTCGTG
1 TTTTC-AAAATTCTCGTG
50819357 -TTTCAAAAATTC-CGTG
1 TTTTC-AAAATTCTCGTG
*
50819373 TTTTCAAAAATCTTCGTG
1 TTTTCAAAATTC-TCGTG
*
50819391 TTTTCAAGAATTTTCGTG
1 TTTTCAA-AATTCTCGTG
*
50819409 -TTACAAAAACTT-TCGTG
1 TTTTC-AAAA-TTCTCGTG
* **
50819426 TTTTTAAAAAAAC-CGTG
1 -TTTTCAAAATTCTCGTG
50819443 -TTTCAAAATTCTCGTG
1 TTTTCAAAATTCTCGTG
50819459 TTTT
1 TTTT
50819463 TTTTAATTCT
Statistics
Matches: 197, Mismatches: 31, Indels: 49
0.71 0.11 0.18
Matches are distributed among these distances:
15 8 0.04
16 14 0.07
17 73 0.37
18 73 0.37
19 7 0.04
20 6 0.03
21 1 0.01
22 6 0.03
23 6 0.03
24 3 0.02
ACGTcount: A:0.30, C:0.14, G:0.10, T:0.46
Consensus pattern (17 bp):
TTTTCAAAATTCTCGTG
Found at i:50819333 original size:35 final size:36
Alignment explanation
Indices: 50819231--50819435 Score: 188
Period size: 35 Copynumber: 5.9 Consensus size: 36
50819221 ATTACATTCT
50819231 GTGTTTTCAAAAATTTTCGTATTTTCAAAAATTTTC
1 GTGTTTTCAAAAATTTTCGTATTTTCAAAAATTTTC
* * * * *
50819267 ATGTTTTCAACAATTCTCGT-GTTTCACAAATTTTC
1 GTGTTTTCAAAAATTTTCGTATTTTCAAAAATTTTC
** * *
50819302 GTGTTTT-AAAAATTTTTTTATTTTAAAAAATTCTC
1 GTGTTTTCAAAAATTTTCGTATTTTCAAAAATTTTC
* * * *
50819337 GT-CTTTCAAAAATTGTCGT-GTTTCAAAAA-TTCC
1 GTGTTTTCAAAAATTTTCGTATTTTCAAAAATTTTC
* * *
50819370 GTGTTTTCAAAAATCTTCGTGTTTTCAAGAATTTTC
1 GTGTTTTCAAAAATTTTCGTATTTTCAAAAATTTTC
* * * *
50819406 GTG-TTACAAAAACTTTCGTGTTTTTAAAAA
1 GTGTTTTCAAAAATTTTCGTATTTTCAAAAA
50819436 AACCGTGTTT
Statistics
Matches: 131, Mismatches: 33, Indels: 11
0.75 0.19 0.06
Matches are distributed among these distances:
33 4 0.03
34 33 0.25
35 71 0.54
36 23 0.18
ACGTcount: A:0.30, C:0.13, G:0.10, T:0.46
Consensus pattern (36 bp):
GTGTTTTCAAAAATTTTCGTATTTTCAAAAATTTTC
Found at i:50819336 original size:52 final size:52
Alignment explanation
Indices: 50819226--50819462 Score: 189
Period size: 52 Copynumber: 4.6 Consensus size: 52
50819216 AAAAAATTAC
* * * *
50819226 ATTCT-GTGTTTTCAAAAATTTTCGTATTTTCAAAAATTTTCATGTTTTCAACA
1 ATTCTCGTG-TTTCAAAAATTTTCGTGTTTT-AAAAATTTTCATATTTTAAAAA
* **
50819279 ATTCTCGTGTTTCACAAATTTTCGTGTTTTAAAAATTTTTTTATTTTAAAAA
1 ATTCTCGTGTTTCAAAAATTTTCGTGTTTTAAAAATTTTCATATTTTAAAAA
* * * * * * *
50819331 ATTCTCGTCTTTCAAAAATTGTCGTGTTTCAAAAA-TTCCGTGTTTTCAAAA
1 ATTCTCGTGTTTCAAAAATTTTCGTGTTTTAAAAATTTTCATATTTTAAAAA
* ** * * *
50819382 A-TCTTCGTGTTTTCAAGAATTTTCGTGTTACAAAAACTTTCGTGTTTTTAAAAA
1 ATTC-TCGTG-TTTCAAAAATTTTCGTGTTTTAAAAATTTTCAT-ATTTTAAAAA
* *
50819436 A-AC-CGTGTTTC-AAAATTCTCGTGTTTT
1 ATTCTCGTGTTTCAAAAATTTTCGTGTTTT
50819463 TTTTAATTCT
Statistics
Matches: 151, Mismatches: 28, Indels: 13
0.79 0.15 0.07
Matches are distributed among these distances:
50 14 0.09
51 20 0.13
52 75 0.50
53 29 0.19
54 13 0.09
ACGTcount: A:0.29, C:0.14, G:0.11, T:0.46
Consensus pattern (52 bp):
ATTCTCGTGTTTCAAAAATTTTCGTGTTTTAAAAATTTTCATATTTTAAAAA
Found at i:50819699 original size:15 final size:14
Alignment explanation
Indices: 50819671--50819699 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
50819661 TAGAAAAAAG
50819671 TAAAAATAAATTTT
1 TAAAAATAAATTTT
50819685 TAAAAATAAATTTT
1 TAAAAATAAATTTT
50819699 T
1 T
50819700 CTTCTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAAAATAAATTTT
Found at i:50826953 original size:19 final size:19
Alignment explanation
Indices: 50826913--50826951 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
50826903 AGCAGAAGAG
*
50826913 AAGAAAGAAGAAAGAAATA
1 AAGAAAGAAGAAAGAAAAA
*
50826932 AAGAAAGGAG-AAGAAAAA
1 AAGAAAGAAGAAAGAAAAA
50826950 AA
1 AA
50826952 AGGATAAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (19 bp):
AAGAAAGAAGAAAGAAAAA
Found at i:50827175 original size:105 final size:109
Alignment explanation
Indices: 50827053--50827302 Score: 346
Period size: 115 Copynumber: 2.3 Consensus size: 109
50827043 TTTTATGTTG
* *
50827053 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAA-CT-CTTAT-A-AATTGTTTGATTAGTTTAA
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAATCTGATTATAATAATTATTTGATTAGTTTAA
*
50827114 TGTTGATTGTGATTTGTTAGGGTATGAATGTAATCTTTTATTAT
66 TATTGATTGTGATTTGTTAGGGTATGAATGTAATCTTTTATTAT
* * *
50827158 TTTTTAATTTATCTTAAAGTTATTTTGTTAGTAATTTTTGTGATTATAGATTAATTATTTGTTTA
1 TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAA----TCTGATTATA-A-TAATTATTTGATTA
*
50827223 GTTTAATATTGATTGTGATTTGTTAGGGTATGAATGTAATTTTTTATTAT
60 GTTTAATATTGATTGTGATTTGTTAGGGTATGAATGTAATCTTTTATTAT
*
50827273 TTTTTAATTTATTTTAAAATTATTTTGTTA
1 TTTTTAATTTATTTTAAAGTTATTTTGTTA
50827303 ATCACTTGAT
Statistics
Matches: 126, Mismatches: 9, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
105 33 0.26
110 1 0.01
111 4 0.03
113 1 0.01
115 87 0.69
ACGTcount: A:0.27, C:0.02, G:0.14, T:0.58
Consensus pattern (109 bp):
TTTTTAATTTATTTTAAAGTTATTTTGTTAGTAATCTGATTATAATAATTATTTGATTAGTTTAA
TATTGATTGTGATTTGTTAGGGTATGAATGTAATCTTTTATTAT
Found at i:50830268 original size:19 final size:21
Alignment explanation
Indices: 50830231--50830271 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
50830221 ACCCTAGGCA
50830231 CCGCACCTAGGACCTTCTGCCG
1 CCGCACCTA-GACCTTCTGCCG
50830253 CCGCACCTA-ACC-TCTGCCG
1 CCGCACCTAGACCTTCTGCCG
50830272 ATGTCGCCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.37
20 3 0.16
22 9 0.47
ACGTcount: A:0.15, C:0.49, G:0.20, T:0.17
Consensus pattern (21 bp):
CCGCACCTAGACCTTCTGCCG
Found at i:50831124 original size:13 final size:13
Alignment explanation
Indices: 50831106--50831132 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
50831096 TATTTTAGTG
50831106 TTATTATTATTAT
1 TTATTATTATTAT
50831119 TTATTATTATTAT
1 TTATTATTATTAT
50831132 T
1 T
50831133 AGTTTCATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TTATTATTATTAT
Found at i:50835496 original size:17 final size:17
Alignment explanation
Indices: 50835470--50835507 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
50835460 GTTTAAGTTA
50835470 TATATATATATAAATAT
1 TATATATATATAAATAT
* *
50835487 TATATGTATATAATTAT
1 TATATATATATAAATAT
50835504 TATA
1 TATA
50835508 ATTATTATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (17 bp):
TATATATATATAAATAT
Found at i:50835507 original size:9 final size:9
Alignment explanation
Indices: 50835478--50835522 Score: 58
Period size: 9 Copynumber: 5.1 Consensus size: 9
50835468 TATATATATA
*
50835478 TATAAATAT
1 TATAATTAT
50835487 TAT-ATGTA-
1 TATAAT-TAT
50835495 TATAATTAT
1 TATAATTAT
50835504 TATAATTAT
1 TATAATTAT
50835513 TATAATTAT
1 TATAATTAT
50835522 T
1 T
50835523 TATTTAAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
8 6 0.19
9 26 0.81
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
TATAATTAT
Found at i:50836929 original size:32 final size:33
Alignment explanation
Indices: 50836883--50836953 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
50836873 ATTTGCCGGC
*
50836883 TTACTGATCAGGCAC-TTATGTGCCGACTACTG
1 TTACTGATCAGGCACTTTATGTGCCGAATACTG
* *
50836915 TTACTGATTC-GGCACTTTGTGTGTCGAATACTG
1 TTACTGA-TCAGGCACTTTATGTGCCGAATACTG
50836948 TTACTG
1 TTACTG
50836954 TTACCGACTC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
32 12 0.35
33 22 0.65
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.37
Consensus pattern (33 bp):
TTACTGATCAGGCACTTTATGTGCCGAATACTG
Found at i:50836952 original size:33 final size:32
Alignment explanation
Indices: 50836883--50836990 Score: 101
Period size: 39 Copynumber: 3.1 Consensus size: 32
50836873 ATTTGCCGGC
* * *
50836883 TTACTGATCAGGCAC-TTATGTGCCGACTACTG
1 TTACTGATC-GGCACTTTGTGTGTCGAATACTG
50836915 TTACTGATTCGGCACTTTGTGTGTCGAATACTG
1 TTACTGA-TCGGCACTTTGTGTGTCGAATACTG
50836948 TTACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTG
1 TTAC---T---GA-TCGGCACTTTGTGTGTCGAATACTG
50836987 TTAC
1 TTAC
50836991 CGTTACTGTT
Statistics
Matches: 64, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
32 12 0.19
33 20 0.31
36 1 0.02
39 31 0.48
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (32 bp):
TTACTGATCGGCACTTTGTGTGTCGAATACTG
Found at i:50836966 original size:39 final size:39
Alignment explanation
Indices: 50836910--50836996 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
50836900 ATGTGCCGAC
* *
50836910 TACTGTTACTGATTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
50836949 TACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
1 TACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
*
50836988 TACCGTTAC
1 TACTGTTAC
50836997 TGTTACAGGT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (39 bp):
TACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGT
Found at i:50836998 original size:45 final size:44
Alignment explanation
Indices: 50836910--50837034 Score: 136
Period size: 39 Copynumber: 3.0 Consensus size: 44
50836900 ATGTGCCGAC
*
50836910 TACTGTTACTGATTCGGCACTTTGTGTGTCGAATAC---T--GT
1 TACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTACGT
* *
50836949 TACTGTTACCGACTCGGCACTTTGTGTGTCGAATACTGTTACCGT
1 TACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTA-CGT
* ** *
50836994 TACTGTTACAGGTTTAGCACTTTGTGTGTTG-ATACTGTTAC
1 TACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTAC
50837035 TATTACTGAT
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
39 34 0.47
42 1 0.01
43 1 0.01
44 9 0.12
45 27 0.38
ACGTcount: A:0.18, C:0.19, G:0.22, T:0.40
Consensus pattern (44 bp):
TACTGTTACAGATTCGGCACTTTGTGTGTCGAATACTGTTACGT
Found at i:50837656 original size:9 final size:9
Alignment explanation
Indices: 50837642--50837670 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
50837632 GAATGTGAAA
50837642 TGAATTGGT
1 TGAATTGGT
50837651 TGAATTGGT
1 TGAATTGGT
50837660 TGAATTGGT
1 TGAATTGGT
50837669 TG
1 TG
50837671 TGATTTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (9 bp):
TGAATTGGT
Found at i:50848130 original size:27 final size:28
Alignment explanation
Indices: 50848094--50848156 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 28
50848084 CATTTTCATA
50848094 TATTTGATTTTG-ATACTCACTCAATTTTT
1 TATTT-ATTTTGAATACTCACT-AATTTTT
* *
50848123 T-TTTATTTTGAATATTTACTAATTTTT
1 TATTTATTTTGAATACTCACTAATTTTT
50848150 TATTTAT
1 TATTTAT
50848157 AAAAAATTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
27 14 0.47
28 15 0.50
29 1 0.03
ACGTcount: A:0.25, C:0.08, G:0.05, T:0.62
Consensus pattern (28 bp):
TATTTATTTTGAATACTCACTAATTTTT
Found at i:50848383 original size:28 final size:29
Alignment explanation
Indices: 50848318--50848384 Score: 77
Period size: 27 Copynumber: 2.4 Consensus size: 29
50848308 TCAATACAAA
50848318 TCCATATTATTCAGGTAAATAAAATTTTG
1 TCCATATTATTCAGGTAAATAAAATTTTG
* * * *
50848347 T--ATGTTATTTAGGTAAAT-ATATTTTT
1 TCCATATTATTCAGGTAAATAAAATTTTG
50848373 TCCATATTATTC
1 TCCATATTATTC
50848385 CATAAAAAGT
Statistics
Matches: 30, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
26 7 0.23
27 15 0.50
28 7 0.23
29 1 0.03
ACGTcount: A:0.33, C:0.09, G:0.09, T:0.49
Consensus pattern (29 bp):
TCCATATTATTCAGGTAAATAAAATTTTG
Found at i:50850947 original size:42 final size:42
Alignment explanation
Indices: 50850839--50850966 Score: 129
Period size: 42 Copynumber: 3.0 Consensus size: 42
50850829 AGTCCGTACA
*
50850839 ATGCCAACA-TCCCAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCC-ACAGTCCCAGACGTGGTCTTACACG-AATCACATATCG
* *
50850882 ATGCCACAGTCCCAGACAG-GGTCTTAAACGAGTCACA-AGTCG
1 ATGCCACAGTCCCAGAC-GTGGTCTTACACGAATCACATA-TCG
* *
50850924 ATGCCA-ATGTCCTAGACGTGGTCTTACACGAAAACACATATCG
1 ATGCCACA-GTCCCAGACGTGGTCTTACACG-AATCACATATCG
50850967 GAATCCTATT
Statistics
Matches: 71, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
41 3 0.04
42 36 0.51
43 30 0.42
44 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (42 bp):
ATGCCACAGTCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:50851864 original size:23 final size:23
Alignment explanation
Indices: 50851837--50851882 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 23
50851827 TAATTTTTTA
50851837 TATTAA-ACATATATTAACCTTAT
1 TATTAATAC-TATATTAACCTTAT
50851860 TATTAATTTACTATATTAACCTT
1 TATTAA--TACTATATTAACCTT
50851883 TACTAATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
23 6 0.30
25 12 0.60
26 2 0.10
ACGTcount: A:0.39, C:0.13, G:0.00, T:0.48
Consensus pattern (23 bp):
TATTAATACTATATTAACCTTAT
Found at i:50854715 original size:21 final size:21
Alignment explanation
Indices: 50854668--50854717 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
50854658 TTGTCTCTTT
* **
50854668 AATTTCCTCACTTTTTCTACC
1 AATTTCTTCACTTTCACTACC
* *
50854689 ATTTTCTTCACTTTCACTTCC
1 AATTTCTTCACTTTCACTACC
50854710 AATTTCTT
1 AATTTCTT
50854718 TCTTCCAAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.30, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTTCTTCACTTTCACTACC
Found at i:50856554 original size:21 final size:21
Alignment explanation
Indices: 50856496--50856582 Score: 104
Period size: 21 Copynumber: 4.1 Consensus size: 21
50856486 CCTGATCAGT
50856496 ATACGACACAT-AAGTGCCTG
1 ATACGACACATAAAGTGCCTG
* ** *
50856516 AAACGACACACGAGGTGCCTG
1 ATACGACACATAAAGTGCCTG
50856537 ATACGACACATAAAGTGCCTG
1 ATACGACACATAAAGTGCCTG
*
50856558 ATGTATGACACATAAAGTGCCTG
1 A--TACGACACATAAAGTGCCTG
50856581 AT
1 AT
50856583 CGGCAAGGCT
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
20 9 0.16
21 27 0.48
23 20 0.36
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.20
Consensus pattern (21 bp):
ATACGACACATAAAGTGCCTG
Found at i:50856580 original size:44 final size:41
Alignment explanation
Indices: 50856496--50856582 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 41
50856486 CCTGATCAGT
* *
50856496 ATACGACACATAAGTGCCTGAAACGACACACGAGGTGCCTG
1 ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
* * *
50856537 ATACGACACATAAAGTGCCTGATGTATGACACATAAAGTGCCTG
1 ATACGACACAT-AAGTGCCTGA--AACGACACACAAAGTGCCTG
50856581 AT
1 AT
50856583 CGGCAAGGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
41 11 0.29
42 10 0.26
44 17 0.45
ACGTcount: A:0.36, C:0.23, G:0.22, T:0.20
Consensus pattern (41 bp):
ATACGACACATAAGTGCCTGAAACGACACACAAAGTGCCTG
Found at i:50856806 original size:36 final size:37
Alignment explanation
Indices: 50856765--50856842 Score: 106
Period size: 36 Copynumber: 2.1 Consensus size: 37
50856755 ACACATACTT
*
50856765 TTCAAATTCACTTTTTCATTTTCAA-TCACA-ATTCAA
1 TTCAAATTCACTTTTCCATTTTCAAGTCA-ATATTCAA
* *
50856801 TTCAAATTTACTTTTCCATTTTCAAGTCAATATTCAT
1 TTCAAATTCACTTTTCCATTTTCAAGTCAATATTCAA
50856838 TTCAA
1 TTCAA
50856843 TTCCACACAT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 24 0.65
37 13 0.35
ACGTcount: A:0.32, C:0.21, G:0.01, T:0.46
Consensus pattern (37 bp):
TTCAAATTCACTTTTCCATTTTCAAGTCAATATTCAA
Found at i:50856916 original size:16 final size:16
Alignment explanation
Indices: 50856894--50856933 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
50856884 TTAATAATAA
50856894 TACTTACCTTA-TATT
1 TACTTACCTTATTATT
50856909 TCACTTACCTTATTATT
1 T-ACTTACCTTATTATT
50856926 TACTTACC
1 TACTTACC
50856934 ATACACATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 1 0.04
16 17 0.74
17 5 0.22
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.50
Consensus pattern (16 bp):
TACTTACCTTATTATT
Found at i:50857642 original size:14 final size:14
Alignment explanation
Indices: 50857600--50857634 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
50857590 GCCTCTGTTC
50857600 TTTCTTTCTTTT-T
1 TTTCTTTCTTTTGT
50857613 GTTTCTTTCTTTTGT
1 -TTTCTTTCTTTTGT
50857628 TTTCTTT
1 TTTCTTT
50857635 TATTTGTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 19 0.95
15 1 0.05
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (14 bp):
TTTCTTTCTTTTGT
Found at i:50857806 original size:14 final size:17
Alignment explanation
Indices: 50857787--50857824 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
50857777 ATTTATTTCT
50857787 TAATATAA-T-ATTT-A
1 TAATATAACTAATTTAA
50857801 TAATATAACTAATTTAA
1 TAATATAACTAATTTAA
50857818 TAATATA
1 TAATATA
50857825 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (17 bp):
TAATATAACTAATTTAA
Found at i:50857864 original size:21 final size:20
Alignment explanation
Indices: 50857816--50857865 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
50857806 TAACTAATTT
*
50857816 AATAATATACTTTATAATTA
1 AATAATATACTTTATAAATA
* * *
50857836 ATTTATATATTTATATAAATA
1 AATAATATACTT-TATAAATA
50857857 AATAATATA
1 AATAATATA
50857866 AAAATCTAAG
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 9 0.39
21 14 0.61
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAATATACTTTATAAATA
Found at i:50889181 original size:21 final size:21
Alignment explanation
Indices: 50889137--50889181 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
50889127 CTCAAAACTA
* * *
50889137 TAAATTTCAAACCCCAACTCT
1 TAAACTTCAAACCCCAAATAT
*
50889158 TAAACTTCAAACCCTAAATAT
1 TAAACTTCAAACCCCAAATAT
50889179 TAA
1 TAA
50889182 GTGCTAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.27, G:0.00, T:0.29
Consensus pattern (21 bp):
TAAACTTCAAACCCCAAATAT
Found at i:50891485 original size:10 final size:11
Alignment explanation
Indices: 50891470--50891515 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
50891460 AACTAAATCT
50891470 TTTCTCTC-AA
1 TTTCTCTCAAA
*
50891480 TTTCTCTCTAA
1 TTTCTCTCAAA
50891491 TATTCTCTCAAA
1 T-TTCTCTCAAA
*
50891503 TTCCTCTCAAA
1 TTTCTCTCAAA
50891514 TT
1 TT
50891516 CCTATTTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
10 8 0.25
11 14 0.44
12 10 0.31
ACGTcount: A:0.24, C:0.28, G:0.00, T:0.48
Consensus pattern (11 bp):
TTTCTCTCAAA
Found at i:50891496 original size:12 final size:10
Alignment explanation
Indices: 50891470--50891512 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
50891460 AACTAAATCT
50891470 TTTCTCTCAA
1 TTTCTCTCAA
50891480 TTTCTCTCTAA
1 TTTCTCTC-AA
50891491 TATTCTCTCAAA
1 T-TTCTCTC-AA
*
50891503 TTCCTCTCAA
1 TTTCTCTCAA
50891513 ATTCCTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 10 0.34
11 9 0.31
12 10 0.34
ACGTcount: A:0.23, C:0.30, G:0.00, T:0.47
Consensus pattern (10 bp):
TTTCTCTCAA
Found at i:50893369 original size:18 final size:18
Alignment explanation
Indices: 50893346--50893388 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
50893336 TGCCAGGTCC
* *
50893346 GTATCCTAGCCCTTTTAT
1 GTATCCTAACCCTTATAT
50893364 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
*
50893382 GTTTCCT
1 GTATCCT
50893389 TTTTCTAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.19, C:0.28, G:0.09, T:0.44
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:50893842 original size:34 final size:33
Alignment explanation
Indices: 50893802--50893897 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 33
50893792 GAATATTTTG
50893802 ATATTATTTGATGTAATAAAATAGAAATTCTTCT
1 ATATTATTT-ATGTAATAAAATAGAAATTCTTCT
* *
50893836 ATATTATTTCATGTACTAAAATAGAAATT-TACT
1 ATATTATTT-ATGTAATAAAATAGAAATTCTTCT
*
50893869 -TATATATTT-T-TAATATAATAGAAATTCTT
1 ATAT-TATTTATGTAATAAAATAGAAATTCTT
50893898 TTAAATAAGG
Statistics
Matches: 54, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
30 14 0.26
31 2 0.04
32 3 0.06
33 8 0.15
34 27 0.50
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.46
Consensus pattern (33 bp):
ATATTATTTATGTAATAAAATAGAAATTCTTCT
Found at i:50894065 original size:116 final size:117
Alignment explanation
Indices: 50893861--50894070 Score: 259
Period size: 116 Copynumber: 1.8 Consensus size: 117
50893851 CTAAAATAGA
* *
50893861 AATTTACTTATATATTTTTAATATAATAGAAATTCTTTTAAATAAGGCAATATGTTAAATATTTC
1 AATTTACTTATATATTTTTAATAAAATAGAAATTCTTCTAAATAAGGCAATATGTTAAATATTTC
*
50893926 TATATTATTTCATTTAATAAAATA-AAATGTTGTTTTGAATAAAGTAATTGT
66 TAAATTATTTCATTTAATAAAATATAAATGTTGTTTTGAATAAAGTAATTGT
** ** *
50893977 AATTTACTT-TAATATTTTTAATAAAATAGATTTTCTTCTAAATAAGTTAATAT-TCTGAATATT
1 AATTTACTTAT-ATATTTTTAATAAAATAGAAATTCTTCTAAATAAGGCAATATGT-TAAATATT
* *
50894040 TGTACCAATT-TTTGATTTAA-AAAATATAAAT
64 TCTA--AATTATTTCATTTAATAAAATATAAAT
50894071 AATACAAAGT
Statistics
Matches: 79, Mismatches: 10, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
115 2 0.03
116 61 0.77
117 13 0.16
118 3 0.04
ACGTcount: A:0.41, C:0.05, G:0.07, T:0.47
Consensus pattern (117 bp):
AATTTACTTATATATTTTTAATAAAATAGAAATTCTTCTAAATAAGGCAATATGTTAAATATTTC
TAAATTATTTCATTTAATAAAATATAAATGTTGTTTTGAATAAAGTAATTGT
Found at i:50897281 original size:126 final size:126
Alignment explanation
Indices: 50897056--50897472 Score: 674
Period size: 126 Copynumber: 3.3 Consensus size: 126
50897046 CCAAACATGC
* *
50897056 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTATTTCTGCTGATAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* * *
50897121 GATTAAAGCTTTTTTGACACTATTTGCTTAGAAACGTCTACTCGAAAATATTTTTTCAAGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAAATATTTTTTCAAGA
* * *
50897182 GCTACTATAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTTAGTACTTCTACTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
* * *
50897247 GCTTAAAGCGTTTTTGACATTATTTGCTCGGAAACGTCTACTCGAAATTATTTTTTCAAGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAAATATTTTTTCAAGA
*
50897308 GCTACTGTAGCAAAAGCGCGTCAACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
*
50897373 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACT-TAAAATTATTTTTTCAAGA
66 GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAAA-TATTTTTTCAAGA
* * *
50897434 GCTACTGCAGCAAAAGTGCATCCACGTGGGAGCTTCTTT
1 GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTT
50897473 AAATTAACAA
Statistics
Matches: 267, Mismatches: 23, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
125 3 0.01
126 264 0.99
ACGTcount: A:0.27, C:0.21, G:0.19, T:0.33
Consensus pattern (126 bp):
GCTACTGTAGCAAAAGCGCGTCCACGTGGGAGCTTCTTTCAGTACTTCTGCTGACAAAGCATCCT
GCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTACTCGAAAATATTTTTTCAAGA
Found at i:50897700 original size:94 final size:97
Alignment explanation
Indices: 50897505--50897778 Score: 283
Period size: 94 Copynumber: 2.9 Consensus size: 97
50897495 CGTAACCCTA
* * * * *
50897505 AACCCCAAACCCTAATTTATTTGAGTTCTTACTTAAAAACCCTAAACACTAAACCCTAATCTAAC
1 AACCCTAAACCCTAATTTATTTGACTTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAAA
*
50897570 TTTATAAAAATTTATAATTAATTTACTCAAGT
66 TTTATAAAAATTTATAATTAAATTACTCAAGT
* ** * *
50897602 AACCCTGAACCCTAATTTATTTGA-TTTTTTCTTAAAAACTTTTAACTCTAAACCCTAAT-TAAA
1 AACCCTAAACCCTAATTTATTTGACTTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAAA
* ** *
50897665 TTT-TTAATTTTTTTAATTAAATTACTCAAGT
66 TTTATAAAAATTTATAATTAAATTACTCAAGT
* * *** * *
50897696 AACCCTAAACCCTAATTTAATT-ACTTTTTTCTAAAAAAATATAAACACGAAA-CCAAATCT-AA
1 AACCCTAAACCCTAATTTATTTGACTTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAAA
*
50897758 TTT-TGAAAAAATTATAATTAA
66 TTTAT-AAAAATTTATAATTAA
50897779 TTTAATTGAC
Statistics
Matches: 146, Mismatches: 28, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
93 12 0.08
94 77 0.53
95 6 0.04
96 29 0.20
97 22 0.15
ACGTcount: A:0.42, C:0.18, G:0.03, T:0.38
Consensus pattern (97 bp):
AACCCTAAACCCTAATTTATTTGACTTTTTTCTTAAAAACCCTAAACACTAAACCCTAATCTAAA
TTTATAAAAATTTATAATTAAATTACTCAAGT
Found at i:50903673 original size:24 final size:24
Alignment explanation
Indices: 50903646--50903694 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
50903636 TGCCTCACCC
50903646 TTTTACGTAATAATATGCCATTAT
1 TTTTACGTAATAATATGCCATTAT
50903670 TTTTACGTAATAATATGCCATTAT
1 TTTTACGTAATAATATGCCATTAT
50903694 T
1 T
50903695 CAGATTAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (24 bp):
TTTTACGTAATAATATGCCATTAT
Found at i:50909234 original size:66 final size:66
Alignment explanation
Indices: 50909128--50909260 Score: 221
Period size: 66 Copynumber: 2.0 Consensus size: 66
50909118 TTATGTATTT
* * *
50909128 ACTTTAATTTAATCTTAATATAAATTGAGCTTGAATTATACCAGCATCACTTAGTATTCAATACT
1 ACTTTAATTTAATCCTAATATAAATTGAACTTGAATTATACCAGCATCACTTAATATTCAATACT
50909193 C
66 C
* *
50909194 ACTTTAATTTAATCCTAATATAACTTGAACTTGAATTATACTAGCATCACTTAATATTCAATACT
1 ACTTTAATTTAATCCTAATATAAATTGAACTTGAATTATACCAGCATCACTTAATATTCAATACT
50909259 C
66 C
50909260 A
1 A
50909261 GTGTATGATT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.39
Consensus pattern (66 bp):
ACTTTAATTTAATCCTAATATAAATTGAACTTGAATTATACCAGCATCACTTAATATTCAATACT
C
Found at i:50912952 original size:21 final size:23
Alignment explanation
Indices: 50912918--50912961 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 23
50912908 CAATCTTCAG
*
50912918 TTTAATTATAC-TTTATTTTTTC
1 TTTAAATATACTTTTATTTTTTC
*
50912940 TTTAAATA-ACTTTTCTTTTTTC
1 TTTAAATATACTTTTATTTTTTC
50912962 CAATTTTAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 2 0.11
22 17 0.89
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTAAATATACTTTTATTTTTTC
Found at i:50917958 original size:15 final size:15
Alignment explanation
Indices: 50917938--50917969 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
50917928 TCGGCCAAAG
50917938 CTATGTCGTCGCTGT
1 CTATGTCGTCGCTGT
50917953 CTATGTCGTCGCTGT
1 CTATGTCGTCGCTGT
50917968 CT
1 CT
50917970 CTACCCAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.06, C:0.28, G:0.25, T:0.41
Consensus pattern (15 bp):
CTATGTCGTCGCTGT
Found at i:50920028 original size:49 final size:50
Alignment explanation
Indices: 50919942--50920177 Score: 182
Period size: 49 Copynumber: 4.8 Consensus size: 50
50919932 TGCAATAAAT
* ** * * * *
50919942 AATAAAATGACCTTACTCCC-AGACGCATGGAGAAAGGCTTACGGAAGGT
1 AATAAAGTGACCTTACTCCCTAGACATATGGGGGAAGGCTTACGGAAAGC
* *
50919991 AATAAAGTGACCTTGCTCCCTA-ACATATGGGGGAAGGCTTATGGAAAGC
1 AATAAAGTGACCTTACTCCCTAGACATATGGGGGAAGGCTTACGGAAAGC
* * * *
50920040 AATAAACCG-GACC-TACT-CCTAGACTTATGGGGGGAGGCTTACGGAAGGT
1 AATAAA--GTGACCTTACTCCCTAGACATATGGGGGAAGGCTTACGGAAAGC
* * * * ** *
50920089 AATAAAGTGACCTTGCTTCC-AAACACATGAAGGAAGGCTTATGGAAAGC
1 AATAAAGTGACCTTACTCCCTAGACATATGGGGGAAGGCTTACGGAAAGC
* * * *
50920138 AATAAATTGGCCCTACTCCC-AGACGTATGGGGG-AGGCTTA
1 AATAAAGTGACCTTACTCCCTAGACATATGGGGGAAGGCTTA
50920178 TAGAAGGTGA
Statistics
Matches: 145, Mismatches: 35, Indels: 15
0.74 0.18 0.08
Matches are distributed among these distances:
47 1 0.01
48 15 0.10
49 121 0.83
50 7 0.05
51 1 0.01
ACGTcount: A:0.33, C:0.20, G:0.26, T:0.21
Consensus pattern (50 bp):
AATAAAGTGACCTTACTCCCTAGACATATGGGGGAAGGCTTACGGAAAGC
Found at i:50920094 original size:98 final size:97
Alignment explanation
Indices: 50919950--50920177 Score: 312
Period size: 98 Copynumber: 2.3 Consensus size: 97
50919940 ATAATAAAAT
* ** *
50919950 GACCTTACTCCCAGACGCATGGAGAAAGGCTTACGGAAGGTAATAAAGTGACCTTGCTCCCTAAC
1 GACC-TACTCCCAGACGTATGG-GGGAGGCTTACGGAAGGTAATAAAGTGACCTTGCTCCCAAAC
* **
50920015 ATATGGGGGAAGGCTTATGGAAAGCAATAAACCG
64 ACATGAAGGAAGGCTTATGGAAAGCAATAAACCG
* * *
50920049 GACCTACTCCTAGACTTATGGGGGGAGGCTTACGGAAGGTAATAAAGTGACCTTGCTTCCAAACA
1 GACCTACTCCCAGACGTAT-GGGGGAGGCTTACGGAAGGTAATAAAGTGACCTTGCTCCCAAACA
**
50920114 CATGAAGGAAGGCTTATGGAAAGCAATAAATTG
65 CATGAAGGAAGGCTTATGGAAAGCAATAAACCG
*
50920147 GCCCTACTCCCAGACGTATGGGGGAGGCTTA
1 GACCTACTCCCAGACGTATGGGGGAGGCTTA
50920178 TAGAAGGTGA
Statistics
Matches: 113, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
97 12 0.11
98 95 0.84
99 6 0.05
ACGTcount: A:0.32, C:0.21, G:0.27, T:0.21
Consensus pattern (97 bp):
GACCTACTCCCAGACGTATGGGGGAGGCTTACGGAAGGTAATAAAGTGACCTTGCTCCCAAACAC
ATGAAGGAAGGCTTATGGAAAGCAATAAACCG
Found at i:50920476 original size:53 final size:53
Alignment explanation
Indices: 50920317--50920489 Score: 131
Period size: 53 Copynumber: 3.2 Consensus size: 53
50920307 TGATGCACGA
** ** *
50920317 GGGAGGCTTACGGGCAAGGTTTAATGATAATATCTCCA--CTCCCAAACGCATAGG
1 GGGAGGCTTACGAACAAGGTTTAACAATAATA--TCCATTCTTCCAAACGCAT-GG
* *** * * *
50920371 GGTAGGCTTAC-AGATGGGGTTTAACAATAATGTCC-TTAC-TCTTAAACACATGG
1 GGGAGGCTTACGA-ACAAGGTTTAACAATAATATCCATT-CTTC-CAAACGCATGG
50920424 GGGAGGCTTACGAACAAGGTTTAACAATAATATCCATTCTTCCAAACGCATGG
1 GGGAGGCTTACGAACAAGGTTTAACAATAATATCCATTCTTCCAAACGCATGG
*
50920477 GGGAAGACTTACG
1 GGG-AGGCTTACG
50920490 GTAAGAAATC
Statistics
Matches: 90, Mismatches: 20, Indels: 18
0.70 0.16 0.14
Matches are distributed among these distances:
52 3 0.03
53 44 0.49
54 43 0.48
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (53 bp):
GGGAGGCTTACGAACAAGGTTTAACAATAATATCCATTCTTCCAAACGCATGG
Found at i:50938966 original size:19 final size:20
Alignment explanation
Indices: 50938927--50938976 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
50938917 ATGACAAAAT
50938927 AATTCAAAATAATTTTCAAA
1 AATTCAAAATAATTTTCAAA
50938947 AATTCAAAAT-ATTTAT-AAA
1 AATTCAAAATAATTT-TCAAA
50938966 AATTTCAAAAT
1 AA-TTCAAAAT
50938977 TTGTATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.32
20 19 0.68
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (20 bp):
AATTCAAAATAATTTTCAAA
Found at i:50938989 original size:24 final size:25
Alignment explanation
Indices: 50938956--50939002 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
50938946 AAATTCAAAA
*
50938956 TATTTATAAAAATT-TCAAAATTTG
1 TATTTATAAAAATTATAAAAATTTG
*
50938980 TATTTTTAAAAATTATAAAAATT
1 TATTTATAAAAATTATAAAAATT
50939003 AAAAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
TATTTATAAAAATTATAAAAATTTG
Found at i:50940807 original size:2 final size:2
Alignment explanation
Indices: 50940802--50940831 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
50940792 GAAAAATCTC
50940802 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
50940832 TAACTCCATG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:50942452 original size:18 final size:18
Alignment explanation
Indices: 50942416--50942454 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
50942406 TATCCATCTT
*
50942416 TTTAATACTTAAGTATTA
1 TTTAATACTTAACTATTA
* *
50942434 TTTAATACTTCACTTTTA
1 TTTAATACTTAACTATTA
50942452 TTT
1 TTT
50942455 TACATCCGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.31, C:0.10, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTAATACTTAACTATTA
Found at i:50951491 original size:23 final size:23
Alignment explanation
Indices: 50951465--50951512 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
50951455 GTTTTCCATA
*
50951465 TGGCATACTCATAGACTTTCATG
1 TGGCATACTAATAGACTTTCATG
*
50951488 TGGCATACTAATAGGCTTTCATG
1 TGGCATACTAATAGACTTTCATG
50951511 TG
1 TG
50951513 ACACCATTGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.35
Consensus pattern (23 bp):
TGGCATACTAATAGACTTTCATG
Found at i:50953051 original size:16 final size:18
Alignment explanation
Indices: 50953025--50953059 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
50953015 TGCATGTGAT
50953025 ATATAAATTTTTAT-TTA
1 ATATAAATTTTTATATTA
50953042 ATAT-AATTTTTATATTA
1 ATATAAATTTTTATATTA
50953059 A
1 A
50953060 GTTTTTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATAAATTTTTATATTA
Found at i:50964718 original size:3 final size:3
Alignment explanation
Indices: 50964691--50964732 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
50964681 AGCCTCAGAG
* * *
50964691 GAT GAA GAT GAT GAA GAT GAA GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
50964733 AGCGAAGATG
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.40, C:0.00, G:0.33, T:0.26
Consensus pattern (3 bp):
GAT
Found at i:50968027 original size:27 final size:27
Alignment explanation
Indices: 50967989--50968065 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
50967979 TAGTATTGGC
50967989 GCCTATCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
50968016 GCCTACCTGGGAGGCGCCAATGGTGGT
1 GCCTATCTGGGAGGCGCCAATGGTGGT
*
50968043 GCC-ATTCTGAGAGGCGCCAATGG
1 GCCTA-TCTGGGAGGCGCCAATGG
50968066 GCCGGGTCGG
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 45 0.98
ACGTcount: A:0.17, C:0.25, G:0.39, T:0.19
Consensus pattern (27 bp):
GCCTATCTGGGAGGCGCCAATGGTGGT
Found at i:50968307 original size:19 final size:19
Alignment explanation
Indices: 50968285--50968322 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
50968275 AATTTAATTT
*
50968285 ATTAGTAATAAATTACTAA
1 ATTACTAATAAATTACTAA
*
50968304 ATTACTAATAAGTTACTAA
1 ATTACTAATAAATTACTAA
50968323 TAAATTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (19 bp):
ATTACTAATAAATTACTAA
Found at i:50968477 original size:22 final size:26
Alignment explanation
Indices: 50968418--50968539 Score: 161
Period size: 22 Copynumber: 4.9 Consensus size: 26
50968408 ATATACCGAC
50968418 ATTACAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAA-TATAAT
50968445 ATTACAATATTCATACAAAA-A-AAT
1 ATTACAATATTCATACAAAATATAAT
50968469 -TT-CAATATTCATACAAAATTATAAT
1 ATTACAATATTCATACAAAA-TATAAT
50968494 ATTACAATATTCATAC-AAA-A-AA-
1 ATTACAATATTCATACAAAATATAAT
*
50968516 ATTACAATATTCATACTAAATATA
1 ATTACAATATTCATACAAAATATA
50968540 GATAATTTAT
Statistics
Matches: 87, Mismatches: 0, Indels: 18
0.83 0.00 0.17
Matches are distributed among these distances:
22 32 0.37
23 7 0.08
24 6 0.07
25 5 0.06
26 5 0.06
27 32 0.37
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.34
Consensus pattern (26 bp):
ATTACAATATTCATACAAAATATAAT
Found at i:50968485 original size:49 final size:49
Alignment explanation
Indices: 50968365--50968536 Score: 235
Period size: 49 Copynumber: 3.6 Consensus size: 49
50968355 AATTAATTAT
* *
50968365 AAAATAATTACAATATTCATACAAAAAATTACAATATTACAATA-T-ATAC
1 AAAAAAATTACAATATTCATAC--AAAATTATAATATTACAATATTCATAC
** *
50968414 --CGACATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
*
50968461 AAAAAAATTTCAATATTCATACAAAATTATAATATTACAATATTCATAC
1 AAAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
*
50968510 AAAAAAATTACAATATTCATACTAAAT
1 AAAAAAATTACAATATTCATACAAAAT
50968537 ATAGATAATT
Statistics
Matches: 108, Mismatches: 11, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
45 19 0.18
46 1 0.01
47 20 0.19
49 68 0.63
ACGTcount: A:0.53, C:0.13, G:0.01, T:0.33
Consensus pattern (49 bp):
AAAAAAATTACAATATTCATACAAAATTATAATATTACAATATTCATAC
Found at i:50968611 original size:27 final size:27
Alignment explanation
Indices: 50968579--50968650 Score: 117
Period size: 27 Copynumber: 2.7 Consensus size: 27
50968569 AAAATATTGC
* * *
50968579 AATTTTATATGAATATTGTAATTTTGT
1 AATTTTGTATGAATATTGTAATATTAT
50968606 AATTTTGTATGAATATTGTAATATTAT
1 AATTTTGTATGAATATTGTAATATTAT
50968633 AATTTTGTATGAATATTG
1 AATTTTGTATGAATATTG
50968651 AATGTCGGTA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 42 1.00
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (27 bp):
AATTTTGTATGAATATTGTAATATTAT
Found at i:50968778 original size:11 final size:11
Alignment explanation
Indices: 50968743--50968778 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
50968733 TTATGTTATA
50968743 AATTTATTAGT
1 AATTTATTAGT
*
50968754 AACTTATTAGT
1 AATTTATTAGT
*
50968765 AATTTATTACT
1 AATTTATTAGT
50968776 AAT
1 AAT
50968779 AAATTAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.50
Consensus pattern (11 bp):
AATTTATTAGT
Found at i:50968969 original size:22 final size:20
Alignment explanation
Indices: 50968941--50968985 Score: 72
Period size: 22 Copynumber: 2.1 Consensus size: 20
50968931 TATATTTTTA
50968941 TTTTTTATTTTTAAAATACTTT
1 TTTTTTATTTTTAAAA-A-TTT
50968963 TTTTTTATTTTTAAAAATTT
1 TTTTTTATTTTTAAAAATTT
50968983 TTT
1 TTT
50968986 GGTGTTTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 6 0.26
21 1 0.04
22 16 0.70
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTTTTTATTTTTAAAAATTT
Found at i:50969160 original size:27 final size:27
Alignment explanation
Indices: 50969088--50969145 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
50969078 GGTCTAGTAA
* *
50969088 TGGCGCCTCTCTATAAGGCACCTTCAT
1 TGGCACCTCTCTATGAGGCACCTTCAT
50969115 TGGCACCTCTCTATGAGGCACCTTCAT
1 TGGCACCTCTCTATGAGGCACCTTCAT
50969142 TGGC
1 TGGC
50969146 GCCTACCTGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.17, C:0.33, G:0.21, T:0.29
Consensus pattern (27 bp):
TGGCACCTCTCTATGAGGCACCTTCAT
Found at i:50969172 original size:5 final size:5
Alignment explanation
Indices: 50969162--50969189 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
50969152 CTGATAGGCG
50969162 CGACC CGACC CGACC CGACC CGACC CGA
1 CGACC CGACC CGACC CGACC CGACC CGA
50969190 TGACCGTATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.57, G:0.21, T:0.00
Consensus pattern (5 bp):
CGACC
Found at i:50969259 original size:18 final size:18
Alignment explanation
Indices: 50969238--50969273 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
50969228 TTAAAAAATA
50969238 TAAAAAAAATATT-TTATT
1 TAAAAAAAA-ATTATTATT
50969256 TAAAAAAAAATTATTATT
1 TAAAAAAAAATTATTATT
50969274 ATTATTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 14 0.82
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TAAAAAAAAATTATTATT
Found at i:50976688 original size:16 final size:16
Alignment explanation
Indices: 50976667--50976716 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
50976657 CTTTGAAACA
50976667 AAACTATTATTAATTT
1 AAACTATTATTAATTT
* **
50976683 AAACTATCCA-TAA-AA
1 AAACTAT-TATTAATTT
50976698 AAACTATTATTAATTT
1 AAACTATTATTAATTT
50976714 AAA
1 AAA
50976717 AGATAAATAT
Statistics
Matches: 25, Mismatches: 6, Indels: 6
0.68 0.16 0.16
Matches are distributed among these distances:
14 1 0.04
15 10 0.40
16 13 0.52
17 1 0.04
ACGTcount: A:0.52, C:0.10, G:0.00, T:0.38
Consensus pattern (16 bp):
AAACTATTATTAATTT
Found at i:50976739 original size:15 final size:16
Alignment explanation
Indices: 50976719--50976753 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
50976709 AATTTAAAAG
*
50976719 ATAAATATATTTTT-T
1 ATAAATACATTTTTAT
50976734 ATAAATACATTTTTAT
1 ATAAATACATTTTTAT
50976750 ATAA
1 ATAA
50976754 TTTCTTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 13 0.72
16 5 0.28
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (16 bp):
ATAAATACATTTTTAT
Found at i:50980338 original size:30 final size:31
Alignment explanation
Indices: 50980288--50980352 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
50980278 TTAGTAATTA
* *
50980288 ATAAAAATTAAATTAAATT-AAAATTTCATAT
1 ATAAAAATGAAATAAAATTAAAAATTT-ATAT
50980319 ATAAAAATGAAA-AAAATTAAAAATTTATAT
1 ATAAAAATGAAATAAAATTAAAAATTTATAT
50980349 ATAA
1 ATAA
50980353 TATTACACAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
30 13 0.42
31 18 0.58
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.34
Consensus pattern (31 bp):
ATAAAAATGAAATAAAATTAAAAATTTATAT
Found at i:50983339 original size:11 final size:11
Alignment explanation
Indices: 50983323--50983379 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
50983313 ATATATACTA
50983323 AATAAAATAAT
1 AATAAAATAAT
50983334 AATAAAATAAT
1 AATAAAATAAT
* *
50983345 ATTTAAA-AAT
1 AATAAAATAAT
*
50983355 CAAATAAAATATT
1 --AATAAAATAAT
*
50983368 AATAAACTAAT
1 AATAAAATAAT
50983379 A
1 A
50983380 TTTATTTAAT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
10 3 0.08
11 26 0.72
12 5 0.14
13 2 0.06
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:50992557 original size:22 final size:21
Alignment explanation
Indices: 50992518--50992566 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
50992508 CAAAAGTATT
50992518 TTTTAAAATACTAATTATAAA
1 TTTTAAAATACTAATTATAAA
* *
50992539 TATTTAAAATA-TAGTTTATATA
1 T-TTTAAAATACTA-ATTATAAA
50992561 TTTTAA
1 TTTTAA
50992567 TTAAATTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (21 bp):
TTTTAAAATACTAATTATAAA
Found at i:50992828 original size:13 final size:13
Alignment explanation
Indices: 50992812--50992863 Score: 61
Period size: 13 Copynumber: 4.1 Consensus size: 13
50992802 TTTAATCTAA
50992812 ATTTTTCAAAAAT
1 ATTTTTCAAAAAT
*
50992825 ATTTTTCAAAAGT
1 ATTTTTCAAAAAT
* *
50992838 ATTTTT-TACAAT
1 ATTTTTCAAAAAT
*
50992850 ATTTTTAAAAAAT
1 ATTTTTCAAAAAT
50992863 A
1 A
50992864 ATGAAGAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
12 9 0.28
13 23 0.72
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (13 bp):
ATTTTTCAAAAAT
Found at i:50996597 original size:45 final size:46
Alignment explanation
Indices: 50996485--50996607 Score: 132
Period size: 45 Copynumber: 2.7 Consensus size: 46
50996475 AGTTTTTTAT
*
50996485 TAAAATAAT-TAAAAGTGCAATATT---TTCAATTAAAATAATTAAAA
1 TAAAACAATGTAAAAGTGCAATATTAAATT--ATTAAAATAATTAAAA
50996529 TAAAACAATGTAAAAGTGCAATATTAAATTATTAAAAT-ATTAAAA
1 TAAAACAATGTAAAAGTGCAATATTAAATTATTAAAATAATTAAAA
* * **
50996574 TAAAACAAGTGTGACA-TTTAATATTAAATTATTA
1 TAAAACAA-TGTAAAAGTGCAATATTAAATTATTA
50996608 TTATAAAAAT
Statistics
Matches: 69, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
44 8 0.12
45 46 0.67
46 13 0.19
48 2 0.03
ACGTcount: A:0.54, C:0.05, G:0.07, T:0.34
Consensus pattern (46 bp):
TAAAACAATGTAAAAGTGCAATATTAAATTATTAAAATAATTAAAA
Found at i:50998368 original size:15 final size:15
Alignment explanation
Indices: 50998350--50998390 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
50998340 AAGTTTTTTA
* *
50998350 AATTATTATTTAATT
1 AATTATAATTAAATT
50998365 AATTATAATTAAATT
1 AATTATAATTAAATT
50998380 AATTAGTAATT
1 AATTA-TAATT
50998391 GTGAATCCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
AATTATAATTAAATT
Found at i:51003192 original size:17 final size:16
Alignment explanation
Indices: 51003170--51003232 Score: 54
Period size: 19 Copynumber: 3.6 Consensus size: 16
51003160 TTTTTAACTA
51003170 TAAAAATTAAAAATCTT
1 TAAAAATTAAAAAT-TT
51003187 TAAAAATATAAATAATATT
1 TAAAAAT-TAAA-AAT-TT
* *
51003206 AAAAATATTAAAACATTA
1 TAAAA-ATTAAAA-ATTT
51003224 TAAAAATTA
1 TAAAAATTA
51003233 TATAAAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
17 11 0.29
18 10 0.26
19 15 0.39
20 2 0.05
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAAATTAAAAATTT
Found at i:51003198 original size:18 final size:17
Alignment explanation
Indices: 51003170--51003228 Score: 57
Period size: 18 Copynumber: 3.4 Consensus size: 17
51003160 TTTTTAACTA
*
51003170 TAAAAAT-TAAAAATCTT
1 TAAAAATATAAAAAT-AT
51003187 TAAAAATATAAATAATAT
1 TAAAAATATAAA-AATAT
* *
51003205 TAAAAATATTAAAACAT
1 TAAAAATATAAAAATAT
51003222 TATAAAA
1 TA-AAAA
51003229 ATTATATAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 13 0.36
18 20 0.56
19 3 0.08
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.32
Consensus pattern (17 bp):
TAAAAATATAAAAATAT
Found at i:51018192 original size:25 final size:24
Alignment explanation
Indices: 51018122--51018201 Score: 72
Period size: 24 Copynumber: 3.3 Consensus size: 24
51018112 AACTAAATTC
* * *
51018122 TATTTTTTATTTAATATATAATTAA
1 TATTTTATATTTAAAATATAA-AAA
* * *
51018147 T-TTTAATTTTTAACATATAAAAA
1 TATTTTATATTTAAAATATAAAAA
51018170 TATTTTATATTTAAAATAGTAAAAA
1 TATTTTATATTTAAAATA-TAAAAA
*
51018195 TAATTTA
1 TATTTTA
51018202 AAAATTCTTG
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
23 3 0.07
24 28 0.64
25 13 0.30
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (24 bp):
TATTTTATATTTAAAATATAAAAA
Found at i:51018200 original size:26 final size:26
Alignment explanation
Indices: 51018134--51018200 Score: 75
Period size: 25 Copynumber: 2.6 Consensus size: 26
51018124 TTTTTTATTT
* * *
51018134 AATATATAATTAATTTTAATTTTTAA
1 AATATAAAAATAATTTTAATATTTAA
*
51018160 CATATAAAAAT-ATTTT-ATATTTAA
1 AATATAAAAATAATTTTAATATTTAA
51018184 AATAGTAAAAATAATTT
1 AATA-TAAAAATAATTT
51018201 AAAAATTCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
24 10 0.29
25 12 0.35
26 12 0.35
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.46
Consensus pattern (26 bp):
AATATAAAAATAATTTTAATATTTAA
Done.