Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr2
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: 41236440
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 2030548 characters in sequence are not A, C, G, or T
File 67 of 106
Found at i:25507530 original size:9 final size:9
Alignment explanation
Indices: 25507501--25507557 Score: 60
Period size: 9 Copynumber: 5.9 Consensus size: 9
25507491 CTCTCCCCTC
*
25507501 TTTTTTCAT
1 TTTTTTTAT
25507510 TTCTTCTTTAT
1 TT-TT-TTTAT
25507521 TTTTTTTAT
1 TTTTTTTAT
*
25507530 TTTTATTAT
1 TTTTTTTAT
25507539 TTTTATTATAT
1 TTTT-TT-TAT
25507550 TTTTTTTA
1 TTTTTTTA
25507558 ATTCATTTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
9 21 0.51
10 7 0.17
11 13 0.32
ACGTcount: A:0.16, C:0.05, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTTTTTAT
Found at i:25507534 original size:15 final size:14
Alignment explanation
Indices: 25507516--25507569 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
25507506 TCATTTCTTC
25507516 TTTATTTTTTTTATT
1 TTTATTTTTTTTA-T
*
25507531 TTTATTATTTTTAT
1 TTTATTTTTTTTAT
* *
25507545 TATATTTTTTTTAA
1 TTTATTTTTTTTAT
*
25507559 TTCATTTTTTT
1 TTTATTTTTTT
25507570 GTTTATGATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 21 0.64
15 12 0.36
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTATTTTTTTTAT
Found at i:25509062 original size:2 final size:2
Alignment explanation
Indices: 25509057--25509102 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
25509047 ATTCTCTCAC
25509057 AT AT AT AT AT AT 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 AT AT AT AT AT AT
25509099 AT AT
1 AT AT
25509103 GTCAAGTTCA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25514307 original size:21 final size:21
Alignment explanation
Indices: 25514273--25514347 Score: 105
Period size: 21 Copynumber: 3.5 Consensus size: 21
25514263 AATCACCGTG
* *
25514273 TGACTAGTTTTTAGTCATTACG
1 TGACTAG-TTTTAGGCATTACA
*
25514295 TGATTAGTTTTAGGCATTACA
1 TGACTAGTTTTAGGCATTACA
*
25514316 TGATTAGTTTTAGGCATTACA
1 TGACTAGTTTTAGGCATTACA
25514337 TGACTAGTTTT
1 TGACTAGTTTT
25514348 TATACATTAC
Statistics
Matches: 49, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 43 0.88
22 6 0.12
ACGTcount: A:0.25, C:0.11, G:0.19, T:0.45
Consensus pattern (21 bp):
TGACTAGTTTTAGGCATTACA
Found at i:25514364 original size:22 final size:22
Alignment explanation
Indices: 25514330--25514371 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
25514320 TAGTTTTAGG
* *
25514330 CATTACATGACTAGTTTTTATA
1 CATTACATAACTAATTTTTATA
*
25514352 CATTACGTAACTAATTTTTA
1 CATTACATAACTAATTTTTA
25514372 AGCAATGCCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.33, C:0.14, G:0.07, T:0.45
Consensus pattern (22 bp):
CATTACATAACTAATTTTTATA
Found at i:25514416 original size:23 final size:23
Alignment explanation
Indices: 25514382--25514466 Score: 116
Period size: 23 Copynumber: 3.7 Consensus size: 23
25514372 AGCAATGCCT
*
25514382 AAGTCACACAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
* * * *
25514405 TAGTAATGCAATGCCTTATTAAC
1 AAGTCACGCAATGCCTTACTAAC
*
25514428 AAGTCGCGCAATGCCTTACTAAC
1 AAGTCACGCAATGCCTTACTAAC
25514451 AAGTCACGCAATGCCT
1 AAGTCACGCAATGCCT
25514467 ATCAACTAGT
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.25
Consensus pattern (23 bp):
AAGTCACGCAATGCCTTACTAAC
Found at i:25514499 original size:26 final size:26
Alignment explanation
Indices: 25514470--25514700 Score: 96
Period size: 26 Copynumber: 9.4 Consensus size: 26
25514460 AATGCCTATC
* *
25514470 AACTAGTCATGTAACGCCTTATCAGA
1 AACTAGTCACGTAACGCCTTATCAAA
* * *
25514496 AACTAATCACGTAATGCTTTATCAAA
1 AACTAGTCACGTAACGCCTTATCAAA
*
25514522 AACTAGTCACGCAA-----TACTC-AA
1 AACTAGTCACGTAACGCCTTA-TCAAA
** * **
25514543 AGTTAGTCACGCAATACC-TATC---
1 AACTAGTCACGTAACGCCTTATCAAA
* * *
25514565 AACTAGTCACGCAATGCCTTATCAGA
1 AACTAGTCACGTAACGCCTTATCAAA
* *
25514591 AACTAGTCACGCAATGCCTTATCAAA
1 AACTAGTCACGTAACGCCTTATCAAA
* ** *
25514617 AACTAGTCACGCAATACC-TAT---T
1 AACTAGTCACGTAACGCCTTATCAAA
* * * * *
25514639 AACTAGTTATGCAATGCCTTATCAGA
1 AACTAGTCACGTAACGCCTTATCAAA
* *
25514665 AACTAGTCACGCAATGCCTTATCAAA
1 AACTAGTCACGTAACGCCTTATCAAA
25514691 AA-TCAGTCAC
1 AACT-AGTCAC
25514701 ATAATGCCCA
Statistics
Matches: 169, Mismatches: 22, Indels: 28
0.77 0.10 0.13
Matches are distributed among these distances:
21 16 0.09
22 32 0.19
23 7 0.04
24 2 0.01
25 6 0.04
26 106 0.63
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (26 bp):
AACTAGTCACGTAACGCCTTATCAAA
Found at i:25514557 original size:95 final size:95
Alignment explanation
Indices: 25514452--25514633 Score: 301
Period size: 95 Copynumber: 1.9 Consensus size: 95
25514442 CTTACTAACA
* * * * *
25514452 AGTCACGCAATGCCTATCAACTAGTCATGTAACGCCTTATCAGAAACTAATCACGTAATGCTTTA
1 AGTCACGCAATACCTATCAACTAGTCACGCAACGCCTTATCAGAAACTAATCACGCAATGCCTTA
25514517 TCAAAAACTAGTCACGCAATACTCAAAGTT
66 TCAAAAACTAGTCACGCAATACTCAAAGTT
* *
25514547 AGTCACGCAATACCTATCAACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTTA
1 AGTCACGCAATACCTATCAACTAGTCACGCAACGCCTTATCAGAAACTAATCACGCAATGCCTTA
25514612 TCAAAAACTAGTCACGCAATAC
66 TCAAAAACTAGTCACGCAATAC
25514634 CTATTAACTA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
95 80 1.00
ACGTcount: A:0.37, C:0.26, G:0.13, T:0.24
Consensus pattern (95 bp):
AGTCACGCAATACCTATCAACTAGTCACGCAACGCCTTATCAGAAACTAATCACGCAATGCCTTA
TCAAAAACTAGTCACGCAATACTCAAAGTT
Found at i:25514643 original size:48 final size:47
Alignment explanation
Indices: 25514496--25514679 Score: 173
Period size: 48 Copynumber: 3.9 Consensus size: 47
25514486 CCTTATCAGA
* * *
25514496 AACTAATCACGTAATGCTTTATCAAAAACTAGTCACGCAATA-CTCA-
1 AACTAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATACCT-AT
* * *
25514542 AAGTTAGTCACGCAATACC-TATC---AACTAGTCACGCAATGCCTTAT
1 AA-CTAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATACC-TAT
25514587 CAGAAACTAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATACCTATT
1 ----AACTAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATACCTA-T
* * *
25514639 AACTAGTTATGCAATGCCTTATCAGAAACTAGTCACGCAAT
1 AACTAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAAT
25514680 GCCTTATCAA
Statistics
Matches: 113, Mismatches: 12, Indels: 24
0.76 0.08 0.16
Matches are distributed among these distances:
43 15 0.13
44 2 0.02
45 1 0.01
46 6 0.05
47 11 0.10
48 52 0.46
49 6 0.05
51 2 0.02
52 18 0.16
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.26
Consensus pattern (47 bp):
AACTAGTCACGCAATGCCTTATCAAAAACTAGTCACGCAATACCTAT
Found at i:25514653 original size:74 final size:73
Alignment explanation
Indices: 25514496--25514700 Score: 274
Period size: 74 Copynumber: 2.8 Consensus size: 73
25514486 CCTTATCAGA
* * * * * **
25514496 AACTAATCACGTAATGCTTTATCAAAAACTAGTCACGCAAT-AC---TCAAAGTTAGTCACGCAA
1 AACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTTATCAAAAATAGTCACGCAA
25514557 TACCTATC
66 TACCTATC
25514565 AACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTTATCAAAAACTAGTCACGCA
1 AACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTTATCAAAAA-TAGTCACGCA
*
25514630 ATACCTATT
65 ATACCTATC
* *
25514639 AACTAGTTATGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTTATCAAAAATCAGTCAC
1 AACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTTATCAAAAAT-AGTCAC
25514701 ATAATGCCCA
Statistics
Matches: 120, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
69 37 0.31
70 1 0.01
73 6 0.05
74 76 0.63
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (73 bp):
AACTAGTCACGCAATGCCTTATCAGAAACTAGTCACGCAATGCCTTATCAAAAATAGTCACGCAA
TACCTATC
Found at i:25514706 original size:26 final size:26
Alignment explanation
Indices: 25514565--25514708 Score: 136
Period size: 26 Copynumber: 5.7 Consensus size: 26
25514555 AATACCTATC
* *
25514565 AACTAGTCACGCAATGCCTTATCAGA
1 AACTAGTCACACAATGCCTTATCAAA
*
25514591 AACTAGTCACGCAATGCCTTATCAAA
1 AACTAGTCACACAATGCCTTATCAAA
* * *
25514617 AACTAGTCACGCAATACC-TAT---T
1 AACTAGTCACACAATGCCTTATCAAA
* ** *
25514639 AACTAGTTATGCAATGCCTTATCAGA
1 AACTAGTCACACAATGCCTTATCAAA
*
25514665 AACTAGTCACGCAATGCCTTATCAAA
1 AACTAGTCACACAATGCCTTATCAAA
*
25514691 AA-TCAGTCACATAATGCC
1 AACT-AGTCACACAATGCC
25514709 CAAATTCAGT
Statistics
Matches: 101, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
22 15 0.15
23 3 0.03
25 4 0.04
26 79 0.78
ACGTcount: A:0.37, C:0.26, G:0.12, T:0.25
Consensus pattern (26 bp):
AACTAGTCACACAATGCCTTATCAAA
Found at i:25523258 original size:2 final size:2
Alignment explanation
Indices: 25523251--25523282 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
25523241 TTAGAGTTAT
*
25523251 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25523283 GTAATATACA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25528563 original size:18 final size:15
Alignment explanation
Indices: 25528536--25528610 Score: 55
Period size: 16 Copynumber: 4.7 Consensus size: 15
25528526 TTTTTTTGTC
*
25528536 ATTTT-TTTATATTTA
1 ATTTTATTT-TATTTT
25528551 ATTATTATTTTATTTT
1 ATT-TTATTTTATTTT
*
25528567 ATTTTATTTATCATATT
1 ATTTTATTT-T-ATTTT
25528584 -TTTTATTTTATTTCTT
1 ATTTTATTTTA-TT-TT
25528600 ATTATTATTTT
1 ATT-TTATTTT
25528611 TTCATACTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
14 1 0.02
15 11 0.22
16 21 0.43
17 9 0.18
18 7 0.14
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTTATTTTATTTT
Found at i:25528574 original size:26 final size:26
Alignment explanation
Indices: 25528536--25528612 Score: 74
Period size: 26 Copynumber: 3.0 Consensus size: 26
25528526 TTTTTTTGTC
25528536 ATTTT-TTTATATTTA-ATTATTATTTT
1 ATTTTATTTATATTTATA-TATT-TTTT
25528562 ATTTTATTT-TATTTATCATATTTTTT
1 ATTTTATTTATATTTAT-ATATTTTTT
*
25528588 ATTTTATTTCT-TATTAT-TATTTTTT
1 ATTTTATTTATAT-TTATATATTTTTT
25528613 CATACTTTAC
Statistics
Matches: 46, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
25 8 0.17
26 25 0.54
27 12 0.26
28 1 0.02
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (26 bp):
ATTTTATTTATATTTATATATTTTTT
Found at i:25528590 original size:21 final size:20
Alignment explanation
Indices: 25528524--25528596 Score: 76
Period size: 21 Copynumber: 3.5 Consensus size: 20
25528514 TGCAATTATC
*
25528524 TATTTT-TTTGTCATTTTTT
1 TATTTTATTTATCATTTTTT
* *
25528543 TATATTTAATTATTATTTTATTT
1 TAT-TTTATTTATCA-TTT-TTT
25528566 TATTTTATTTATCATATTTTT
1 TATTTTATTTATCAT-TTTTT
25528587 TATTTTATTT
1 TATTTTATTT
25528597 CTTATTATTA
Statistics
Matches: 44, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
19 3 0.07
20 3 0.07
21 18 0.41
22 14 0.32
23 6 0.14
ACGTcount: A:0.22, C:0.03, G:0.01, T:0.74
Consensus pattern (20 bp):
TATTTTATTTATCATTTTTT
Found at i:25530839 original size:38 final size:38
Alignment explanation
Indices: 25530540--25530826 Score: 427
Period size: 37 Copynumber: 7.6 Consensus size: 38
25530530 AAGGTTTTTT
* * ** *
25530540 TTTTTAAAATAAACTCCTCAAAATTGAGGCAATGAAAC
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* * *
25530578 -CTGAAAAATGAACTCCTCAAAGCTGAGGTAACGAAAC
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
25530615 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
* *
25530653 TTTT-AAAATGAACTCCTCAAAGTTGAGGCAATGAAAC
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
25530690 TTTT-AAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
1 TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
25530727 TTTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
1 -TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
*
25530766 TTTTTAAAAATGAATTCCTCAAAGCTGAGGCAACGAAAC
1 -TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
*
25530805 TTTTAAAAATTAACTCCTCAAA
1 TTTTAAAAATGAACTCCTCAAA
25530827 ATTGAGGTAA
Statistics
Matches: 228, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
37 95 0.42
38 62 0.27
39 71 0.31
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.24
Consensus pattern (38 bp):
TTTTAAAAATGAACTCCTCAAAGCTGAGGCAACGAAAC
Found at i:25546268 original size:30 final size:29
Alignment explanation
Indices: 25546241--25546296 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
25546231 CTAGCTCCTT
25546241 AAGAGAGGGGAGCATCGACTGGTGCTCCC
1 AAGAGAGGGGAGCATCGACTGGTGCTCCC
* * *
25546270 AAGGGAGGGGAGCATTGATTGGTGCTC
1 AAGAGAGGGGAGCATCGACTGGTGCTC
25546297 TTTCTTTTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.23, C:0.18, G:0.41, T:0.18
Consensus pattern (29 bp):
AAGAGAGGGGAGCATCGACTGGTGCTCCC
Found at i:25569533 original size:2 final size:2
Alignment explanation
Indices: 25569528--25569590 Score: 81
Period size: 2 Copynumber: 31.5 Consensus size: 2
25569518 GTGTGTGTAG
* * * * *
25569528 AT AT AT AT GT AT AT AT AT AC AC AT AT AT AC AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
25569570 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
25569591 CATAGCCATG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (2 bp):
AT
Found at i:25571203 original size:13 final size:13
Alignment explanation
Indices: 25571185--25571210 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25571175 TTTCAGAAAA
25571185 TTTATAAAATCAT
1 TTTATAAAATCAT
25571198 TTTATAAAATCAT
1 TTTATAAAATCAT
25571211 AATTTCTCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:25572426 original size:28 final size:29
Alignment explanation
Indices: 25572385--25572444 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
25572375 GTCTATGGGC
*
25572385 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCAGTTTTAGGGGGCAAAAATGT
* * *
25572413 AATTTTTGATTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAGTTTTA-GGGGGCAAAAATGT
25572443 AA
1 AA
25572445 ATATCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (29 bp):
AATTTTTCAGTTTTAGGGGGCAAAAATGT
Found at i:25575051 original size:15 final size:15
Alignment explanation
Indices: 25575002--25575052 Score: 66
Period size: 15 Copynumber: 3.4 Consensus size: 15
25574992 TTTAAAGATC
*
25575002 AAAGATTTTGATTTT
1 AAAGTTTTTGATTTT
* * *
25575017 AAAGCTTTGGATTTC
1 AAAGTTTTTGATTTT
25575032 AAAGTTTTTGATTTT
1 AAAGTTTTTGATTTT
25575047 AAAGTT
1 AAAGTT
25575053 GTTTTAAGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.49
Consensus pattern (15 bp):
AAAGTTTTTGATTTT
Found at i:25575097 original size:5 final size:5
Alignment explanation
Indices: 25575087--25575126 Score: 55
Period size: 5 Copynumber: 8.2 Consensus size: 5
25575077 TGCGTGGCCC
* *
25575087 AAGTT AAGTT AAGTT AAG-T AAGTC AAGTT AAGTT AGGTT A
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT A
25575127 TATCGAGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
4 4 0.13
5 27 0.87
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.35
Consensus pattern (5 bp):
AAGTT
Found at i:25577554 original size:28 final size:29
Alignment explanation
Indices: 25577513--25577572 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
25577503 GTCTATGGGC
*
25577513 AATTTTTCAGTTTT-TGGGGCAAAAATGT
1 AATTTTTCAGTTTTAGGGGGCAAAAATGT
* * *
25577541 AATTTTTGATTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAGTTTTA-GGGGGCAAAAATGT
25577571 AA
1 AA
25577573 ATATCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.30, C:0.07, G:0.23, T:0.40
Consensus pattern (29 bp):
AATTTTTCAGTTTTAGGGGGCAAAAATGT
Found at i:25582818 original size:21 final size:22
Alignment explanation
Indices: 25582768--25582830 Score: 58
Period size: 21 Copynumber: 2.9 Consensus size: 22
25582758 CTTTCTATAA
25582768 TTTTTATATTTTCTATTCTATC
1 TTTTTATATTTTCTATTCTATC
***
25582790 TAAATATATTTGTCT-TT-TATC
1 TTTTTATATTT-TCTATTCTATC
* *
25582811 TTTTTATAATTCCTATTCTA
1 TTTTTATATTTTCTATTCTA
25582831 CTTAAATATG
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
20 2 0.07
21 13 0.43
22 12 0.40
23 3 0.10
ACGTcount: A:0.24, C:0.13, G:0.02, T:0.62
Consensus pattern (22 bp):
TTTTTATATTTTCTATTCTATC
Found at i:25583417 original size:20 final size:20
Alignment explanation
Indices: 25583392--25583434 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
25583382 TGACCTCATA
25583392 TGACTTATTGGAGTATAATT
1 TGACTTATTGGAGTATAATT
*
25583412 TGACTTATTGGAGTATGATT
1 TGACTTATTGGAGTATAATT
25583432 TGA
1 TGA
25583435 GGTTTAGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (20 bp):
TGACTTATTGGAGTATAATT
Found at i:25590412 original size:14 final size:13
Alignment explanation
Indices: 25590389--25590418 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
25590379 TTCTTTCTAA
25590389 TTTATTATTTTAT
1 TTTATTATTTTAT
25590402 TTTATTTATTTTAT
1 TTTA-TTATTTTAT
25590416 TTT
1 TTT
25590419 TAAAAACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:25591405 original size:22 final size:22
Alignment explanation
Indices: 25591380--25591447 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 22
25591370 TTTATCTTTC
25591380 TATAATTTTTATTCTATCTAAA
1 TATAATTTTTATTCTATCTAAA
* * ***
25591402 TAT-ATTTTTCTTTTATCTTTT
1 TATAATTTTTATTCTATCTAAA
*
25591423 TATAATTCTTATTCTA-CTTAAA
1 TATAATTTTTATTCTATC-TAAA
25591445 TAT
1 TAT
25591448 GTATTTTTTT
Statistics
Matches: 33, Mismatches: 11, Indels: 4
0.69 0.23 0.08
Matches are distributed among these distances:
21 17 0.52
22 16 0.48
ACGTcount: A:0.29, C:0.10, G:0.00, T:0.60
Consensus pattern (22 bp):
TATAATTTTTATTCTATCTAAA
Found at i:25591426 original size:21 final size:21
Alignment explanation
Indices: 25591369--25591435 Score: 53
Period size: 22 Copynumber: 3.1 Consensus size: 21
25591359 AAGCAGATAT
*
25591369 TTTTATCTTTCTATAATTTTTA
1 TTTTATCTTTATAT-ATTTTTA
* ** *
25591391 TTCTATCTAAATATATTTTTC
1 TTTTATCTTTATATATTTTTA
* *
25591412 TTTTATCTTTTTATAATTCTTA
1 TTTTATCTTTATAT-ATTTTTA
25591434 TT
1 TT
25591436 CTACTTAAAT
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
21 16 0.48
22 17 0.52
ACGTcount: A:0.24, C:0.10, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTATCTTTATATATTTTTA
Found at i:25591459 original size:43 final size:42
Alignment explanation
Indices: 25591368--25591459 Score: 123
Period size: 43 Copynumber: 2.1 Consensus size: 42
25591358 TAAGCAGATA
*
25591368 TTTTTATCTTTCTATAATTTTTATTCTATCTAAATATATTTT
1 TTTTTATCTTTCTATAATTCTTATTCTATCTAAATATATTTT
* *
25591410 TCTTTTATCTTTTTATAATTCTTATTCTA-CTTAAATATGTATTT
1 T-TTTTATCTTTCTATAATTCTTATTCTATC-TAAATATAT-TTT
25591454 TTTTTA
1 TTTTTA
25591460 CAACTAAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
42 2 0.05
43 38 0.86
44 4 0.09
ACGTcount: A:0.25, C:0.10, G:0.01, T:0.64
Consensus pattern (42 bp):
TTTTTATCTTTCTATAATTCTTATTCTATCTAAATATATTTT
Found at i:25591707 original size:157 final size:158
Alignment explanation
Indices: 25591398--25591714 Score: 600
Period size: 157 Copynumber: 2.0 Consensus size: 158
25591388 TTATTCTATC
* *
25591398 TAAATATATTTTTCTTTTATCTTTTTATAATTCTTATTCTACTTAAATATGTATTTTTTTTACAA
1 TAAATATATTTTTCGTTTATCTTTTTATAATTCTTATTCTACTTAAAAATGTATTTTTTTTACAA
25591463 CTAAATATTTTATACTTTTATAACTTTATTTTTACCTAAATATATTTCATAACCAACTATGTTAT
66 CTAAATATTTTATACTTTTATAACTTTATTTTTACCTAAATATATTTCATAACCAACTATGTTAT
25591528 CTTTGTTAATTTTTATTCTGCTGAAATA
131 CTTTGTTAATTTTTATTCTGCTGAAATA
25591556 TAAATATATTTTTCGTTTATCTTTTTATAATTCTTATTCTACTTAAAAATGTA-TTTTTTTACAA
1 TAAATATATTTTTCGTTTATCTTTTTATAATTCTTATTCTACTTAAAAATGTATTTTTTTTACAA
*
25591620 CTAAATATTTTATACTTTTATAACTTTATTTTTACCTAAATATATTTCATATCCAACTATGTTAT
66 CTAAATATTTTATACTTTTATAACTTTATTTTTACCTAAATATATTTCATAACCAACTATGTTAT
25591685 CTTTGTTAATTTTTATTCTGCTGAAATA
131 CTTTGTTAATTTTTATTCTGCTGAAATA
25591713 TA
1 TA
25591715 TTTTATAACT
Statistics
Matches: 156, Mismatches: 3, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
157 105 0.67
158 51 0.33
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.54
Consensus pattern (158 bp):
TAAATATATTTTTCGTTTATCTTTTTATAATTCTTATTCTACTTAAAAATGTATTTTTTTTACAA
CTAAATATTTTATACTTTTATAACTTTATTTTTACCTAAATATATTTCATAACCAACTATGTTAT
CTTTGTTAATTTTTATTCTGCTGAAATA
Found at i:25593815 original size:23 final size:24
Alignment explanation
Indices: 25593789--25593841 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
25593779 ATCTATAATT
*
25593789 ATAAAAATAATTATAACAAA-ACA
1 ATAAAAATAATAATAACAAATACA
* * *
25593812 ATAATAATAATAATATCAAATATA
1 ATAAAAATAATAATAACAAATACA
25593836 ATAAAA
1 ATAAAA
25593842 TTTAATATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (24 bp):
ATAAAAATAATAATAACAAATACA
Found at i:25594016 original size:22 final size:22
Alignment explanation
Indices: 25593968--25594024 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 22
25593958 TTATTACCTT
25593968 TATAATATTAAAAACTTATTAA
1 TATAATATTAAAAACTTATTAA
* * *
25593990 AATAATTATTTAAAA-TTATTTA
1 TATAA-TATTAAAAACTTATTAA
25594012 TATAA-AGTTAAAA
1 TATAATA-TTAAAA
25594025 TAATCTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
20 1 0.04
21 5 0.18
22 14 0.50
23 8 0.29
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.42
Consensus pattern (22 bp):
TATAATATTAAAAACTTATTAA
Found at i:25594123 original size:10 final size:10
Alignment explanation
Indices: 25594102--25594143 Score: 57
Period size: 10 Copynumber: 4.1 Consensus size: 10
25594092 CATGATTAAG
*
25594102 TAAACGTATT
1 TAAACGTGTT
*
25594112 TAAATGTGTT
1 TAAACGTGTT
25594122 TAAACGTGTTT
1 TAAACGTG-TT
25594133 TAAACGTGTT
1 TAAACGTGTT
25594143 T
1 T
25594144 GTAGTATCTG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
10 18 0.64
11 10 0.36
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (10 bp):
TAAACGTGTT
Found at i:25594136 original size:11 final size:11
Alignment explanation
Indices: 25594110--25594143 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
25594100 AGTAAACGTA
*
25594110 TTTAAATGTG-
1 TTTAAACGTGT
25594120 TTTAAACGTGT
1 TTTAAACGTGT
25594131 TTTAAACGTGT
1 TTTAAACGTGT
25594142 TT
1 TT
25594144 GTAGTATCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 9 0.41
11 13 0.59
ACGTcount: A:0.26, C:0.06, G:0.18, T:0.50
Consensus pattern (11 bp):
TTTAAACGTGT
Found at i:25594136 original size:21 final size:20
Alignment explanation
Indices: 25594102--25594143 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
25594092 CATGATTAAG
*
25594102 TAAACGTATTTAAATGTGTT
1 TAAACGTATTTAAACGTGTT
*
25594122 TAAACGTGTTTTAAACGTGTT
1 TAAACGT-ATTTAAACGTGTT
25594143 T
1 T
25594144 GTAGTATCTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.31, C:0.07, G:0.17, T:0.45
Consensus pattern (20 bp):
TAAACGTATTTAAACGTGTT
Found at i:25597390 original size:31 final size:31
Alignment explanation
Indices: 25597355--25597425 Score: 142
Period size: 31 Copynumber: 2.3 Consensus size: 31
25597345 ATTAACGACC
25597355 AAAACTGCCACTAAACTATTTCCAACAGTAA
1 AAAACTGCCACTAAACTATTTCCAACAGTAA
25597386 AAAACTGCCACTAAACTATTTCCAACAGTAA
1 AAAACTGCCACTAAACTATTTCCAACAGTAA
25597417 AAAACTGCC
1 AAAACTGCC
25597426 TAACACTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.45, C:0.27, G:0.07, T:0.21
Consensus pattern (31 bp):
AAAACTGCCACTAAACTATTTCCAACAGTAA
Found at i:25600874 original size:49 final size:49
Alignment explanation
Indices: 25600722--25600910 Score: 177
Period size: 49 Copynumber: 3.8 Consensus size: 49
25600712 TTATTAATAA
* * * * *
25600722 ATGATTTCAGATGATGTTATGAAGTTGATTATGTATGTTCCGTCCGTGG
1 ATGATTCCAGATGATGATATGATGTTGATTATGTATGTTCCATTCGTGG
* * * * * * **
25600771 ATGACTTCCGGACGATGATATGAT-ATGAGATATGTATGTT-TAGTTTGTAT
1 ATGA-TTCCAGATGATGATATGATGTTGA-TTATGTATGTTCCA-TTCGTGG
* *
25600821 ATGATTTCAGATGATGATATGATG-TGAGGTATGTATGTTCCATTCGTGG
1 ATGATTCCAGATGATGATATGATGTTGA-TTATGTATGTTCCATTCGTGG
*
25600870 ATGATTCCAGATGATGCTATGATGTTGATTATGTATGTTCC
1 ATGATTCCAGATGATGATATGATGTTGATTATGTATGTTCC
25600911 GTCTATAGAG
Statistics
Matches: 110, Mismatches: 24, Indels: 12
0.75 0.16 0.08
Matches are distributed among these distances:
49 75 0.68
50 35 0.32
ACGTcount: A:0.25, C:0.10, G:0.25, T:0.40
Consensus pattern (49 bp):
ATGATTCCAGATGATGATATGATGTTGATTATGTATGTTCCATTCGTGG
Found at i:25611375 original size:14 final size:15
Alignment explanation
Indices: 25611356--25611384 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
25611346 CATAGATTAC
25611356 ATTTCCTT-GATATT
1 ATTTCCTTGGATATT
25611370 ATTTCCTTGGATATT
1 ATTTCCTTGGATATT
25611385 TCTCCAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.21, C:0.14, G:0.10, T:0.55
Consensus pattern (15 bp):
ATTTCCTTGGATATT
Found at i:25616114 original size:37 final size:36
Alignment explanation
Indices: 25616065--25616186 Score: 190
Period size: 37 Copynumber: 3.3 Consensus size: 36
25616055 CATATACATA
25616065 CATCATCATCATGTGTGCACTCCTTACTCGCACACTT
1 CATCATCATCATGTGTGCACTCCTTACTCGCACAC-T
*
25616102 CATCATCGTCATGTGTGCACTCCTTACTCGCACACT
1 CATCATCATCATGTGTGCACTCCTTACTCGCACACT
*
25616138 CAATCATCATCATGTGTGCACTCCCTACTCGCACACCT
1 C-ATCATCATCATGTGTGCACTCCTTACTCGCACA-CT
*
25616176 CAACATCATCA
1 CATCATCATCA
25616187 GCCATCATCA
Statistics
Matches: 79, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
36 2 0.03
37 74 0.94
38 3 0.04
ACGTcount: A:0.24, C:0.37, G:0.11, T:0.29
Consensus pattern (36 bp):
CATCATCATCATGTGTGCACTCCTTACTCGCACACT
Found at i:25619883 original size:49 final size:50
Alignment explanation
Indices: 25619830--25620017 Score: 170
Period size: 49 Copynumber: 3.8 Consensus size: 50
25619820 TACGTCTGTA
* *
25619830 GATGATTCTGGACCATGTTATGATGTTGA-TTATGTATGTTTTGTCCGTG
1 GATGATTCTGGACGATGATATGATGTTGAGTTATGTATGTTTTGTCCGTG
* * * * * *
25619879 GATGATT-TCGAACGATGATATGAT-ATGAGATATATATGTTCTGTCCGTA
1 GATGATTCT-GGACGATGATATGATGTTGAGTTATGTATGTTTTGTCCGTG
* * * ** **
25619928 GATGATTCTGGATGATGATATGATG-AGAGGTATGTATGTTTCATCTATG
1 GATGATTCTGGACGATGATATGATGTTGAGTTATGTATGTTTTGTCCGTG
* * *
25619977 GATGATTCTAGATGATGTTATGATGTTGA-TTATGTATGTTT
1 GATGATTCTGGACGATGATATGATGTTGAGTTATGTATGTTT
25620018 CGTCTATGGA
Statistics
Matches: 111, Mismatches: 23, Indels: 10
0.77 0.16 0.07
Matches are distributed among these distances:
48 4 0.04
49 104 0.94
50 3 0.03
ACGTcount: A:0.25, C:0.07, G:0.26, T:0.42
Consensus pattern (50 bp):
GATGATTCTGGACGATGATATGATGTTGAGTTATGTATGTTTTGTCCGTG
Found at i:25620018 original size:49 final size:49
Alignment explanation
Indices: 25619928--25620038 Score: 143
Period size: 49 Copynumber: 2.2 Consensus size: 49
25619918 TCTGTCCGTA
*
25619928 GATGATTCTGGATGATGATATGATGAGAGGTATGTATGTTTCATCTATG
1 GATGATTCTAGATGATGATATGATGAGAGGTATGTATGTTTCATCTATG
* * * *
25619977 GATGATTCTAGATGATGTTATGATGTTGA-TTATGTATGTTTCGTCTATG
1 GATGATTCTAGATGATGATATGATG-AGAGGTATGTATGTTTCATCTATG
*
25620026 GAAGAATTCTAGA
1 GATG-ATTCTAGA
25620039 CAATGGATGT
Statistics
Matches: 54, Mismatches: 6, Indels: 3
0.86 0.10 0.05
Matches are distributed among these distances:
49 44 0.81
50 10 0.19
ACGTcount: A:0.27, C:0.06, G:0.26, T:0.41
Consensus pattern (49 bp):
GATGATTCTAGATGATGATATGATGAGAGGTATGTATGTTTCATCTATG
Found at i:25621846 original size:13 final size:13
Alignment explanation
Indices: 25621828--25621853 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25621818 TTTCTTTACA
25621828 CTTTTTTTTCTTT
1 CTTTTTTTTCTTT
25621841 CTTTTTTTTCTTT
1 CTTTTTTTTCTTT
25621854 TTCTCTTCTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (13 bp):
CTTTTTTTTCTTT
Found at i:25622817 original size:33 final size:33
Alignment explanation
Indices: 25622737--25622842 Score: 131
Period size: 33 Copynumber: 3.1 Consensus size: 33
25622727 TCAACTCAGC
* * * *
25622737 TCATATGCACTCCCACACTACACATAGCTAATA
1 TCATGTGCACTCCCACACCACACATGGCAAATA
25622770 TCCTTATGTGCACTCCCACACCACACATGGCAAATA
1 T-C--ATGTGCACTCCCACACCACACATGGCAAATA
* *
25622806 TCATGTGCACTCCCACACCGCACATGACAAATA
1 TCATGTGCACTCCCACACCACACATGGCAAATA
25622839 TCAT
1 TCAT
25622843 CATCGTGTGC
Statistics
Matches: 64, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
33 34 0.53
34 1 0.02
35 1 0.02
36 28 0.44
ACGTcount: A:0.33, C:0.35, G:0.09, T:0.23
Consensus pattern (33 bp):
TCATGTGCACTCCCACACCACACATGGCAAATA
Found at i:25626072 original size:26 final size:28
Alignment explanation
Indices: 25626007--25626076 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 28
25625997 ATTATTTAAA
25626007 ATTTTTAAAT-AAATTTTTATTTTTATC
1 ATTTTTAAATCAAATTTTTATTTTTATC
*
25626034 ATTATCTTCAATCAAATTTTTATATTTT-T-
1 ATT-T-TTAAATCAAATTTTTAT-TTTTATC
25626063 A-TTTTAAATCAAAT
1 ATTTTTAAATCAAAT
25626077 AAGTCTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
26 10 0.27
27 4 0.11
28 2 0.05
29 6 0.16
30 11 0.30
31 4 0.11
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (28 bp):
ATTTTTAAATCAAATTTTTATTTTTATC
Found at i:25628663 original size:32 final size:33
Alignment explanation
Indices: 25628627--25628690 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
25628617 AAAAATTTTA
*
25628627 AAAATAA-AAGTAAAATTAGAAAATTTTAAAAT
1 AAAATAATAAGAAAAATTAGAAAATTTTAAAAT
* * *
25628659 AAAATAATGAGAAAAATTATAAATTTTTAAAA
1 AAAATAATAAGAAAAATTAGAAAATTTTAAAA
25628691 ATTTGGGGGC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
32 7 0.26
33 20 0.74
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (33 bp):
AAAATAATAAGAAAAATTAGAAAATTTTAAAAT
Found at i:25646651 original size:11 final size:11
Alignment explanation
Indices: 25646635--25646668 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
25646625 CATATGCGAG
*
25646635 AAAATAATATT
1 AAAATAATAAT
*
25646646 AAAATATTAAT
1 AAAATAATAAT
25646657 AAAATAATAAT
1 AAAATAATAAT
25646668 A
1 A
25646669 TTTTATCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (11 bp):
AAAATAATAAT
Found at i:25647668 original size:59 final size:61
Alignment explanation
Indices: 25647593--25647707 Score: 144
Period size: 59 Copynumber: 1.9 Consensus size: 61
25647583 GAGAAAAAGC
* * *
25647593 TTGGTTCTTGAGAGGTTCCACCCAAAAAGAGAAGAAAAGAGAGG-A-AAAGAAAGAGGAAA
1 TTGGGTCTTGAAAGGTTCCACCCAAAAAGAAAAGAAAAGAGAGGAAGAAAGAAAGAGGAAA
* * * **
25647652 TTGGGTCTTGAAAGGTTTCACTCGAGGAGAAAAGAAAAGAGAGGAAGAAAGAAAGA
1 TTGGGTCTTGAAAGGTTCCACCCAAAAAGAAAAGAAAAGAGAGGAAGAAAGAAAGA
25647708 AAGTGGGGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
59 36 0.78
60 1 0.02
61 9 0.20
ACGTcount: A:0.46, C:0.09, G:0.30, T:0.15
Consensus pattern (61 bp):
TTGGGTCTTGAAAGGTTCCACCCAAAAAGAAAAGAAAAGAGAGGAAGAAAGAAAGAGGAAA
Found at i:25662665 original size:2 final size:2
Alignment explanation
Indices: 25662660--25662698 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
25662650 TTTATATGAA
25662660 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
25662699 TATATATATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:25670220 original size:20 final size:20
Alignment explanation
Indices: 25670136--25670201 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 20
25670126 AAGTTTGATG
25670136 AATATTAATATTTAACTTAA
1 AATATTAATATTTAACTTAA
* * *
25670156 AATATTAA-A--AAAATAAA
1 AATATTAATATTTAACTTAA
25670173 AATATTAATATTTAACTTAA
1 AATATTAATATTTAACTTAA
*
25670193 AAAATTAAT
1 AATATTAAT
25670202 TTAAAATATT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
17 13 0.36
18 1 0.03
19 1 0.03
20 21 0.58
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (20 bp):
AATATTAATATTTAACTTAA
Found at i:25672722 original size:2 final size:2
Alignment explanation
Indices: 25672715--25672741 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25672705 AACTTACAAA
25672715 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
25672742 ATCAGTGTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25673474 original size:30 final size:30
Alignment explanation
Indices: 25673439--25673499 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
25673429 AATATGAAAG
25673439 AATGAAACAACAAAACAAAGTATAAAATGA
1 AATGAAACAACAAAACAAAGTATAAAATGA
25673469 AATGAAACAACAAAACAAAGTATAAAATGA
1 AATGAAACAACAAAACAAAGTATAAAATGA
25673499 A
1 A
25673500 TGAGTAAAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.67, C:0.10, G:0.10, T:0.13
Consensus pattern (30 bp):
AATGAAACAACAAAACAAAGTATAAAATGA
Found at i:25673685 original size:36 final size:35
Alignment explanation
Indices: 25673615--25673717 Score: 89
Period size: 35 Copynumber: 2.9 Consensus size: 35
25673605 ACTATTAGCT
* * * *
25673615 TGCCTTTTGAACAGGATCAAGCGTAACTTTTACAATCC
1 TGCCTTTT--ACAAGATCAAGCATAACCTCTACAAT-C
* * *
25673653 TGTCTTTTACAAGATCAGGCATAACCTCTACAATG
1 TGCCTTTTACAAGATCAAGCATAACCTCTACAATC
** *
25673688 TGCCTTTTGTAGGATCAAGCATAACCTCTA
1 TGCCTTTTACAAGATCAAGCATAACCTCTA
25673718 TTAAGATACT
Statistics
Matches: 53, Mismatches: 12, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
35 25 0.47
36 21 0.40
38 7 0.13
ACGTcount: A:0.29, C:0.23, G:0.16, T:0.32
Consensus pattern (35 bp):
TGCCTTTTACAAGATCAAGCATAACCTCTACAATC
Found at i:25679196 original size:2 final size:2
Alignment explanation
Indices: 25679189--25679237 Score: 82
Period size: 2 Copynumber: 24.5 Consensus size: 2
25679179 TTTATTTACT
25679189 TA TA TA TA TA T- TA TA TA TA TA TA TA TA GTA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA
25679231 TA TA TA T
1 TA TA TA T
25679238 TCATTTATTT
Statistics
Matches: 45, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 1 0.02
2 42 0.93
3 2 0.04
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25679211 original size:17 final size:16
Alignment explanation
Indices: 25679189--25679237 Score: 82
Period size: 17 Copynumber: 3.1 Consensus size: 16
25679179 TTTATTTACT
25679189 TATATATATAT-TATA
1 TATATATATATATATA
25679204 TATATATATATAGTATA
1 TATATATATATA-TATA
25679221 TATATATATATATATA
1 TATATATATATATATA
25679237 T
1 T
25679238 TCATTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.34
16 5 0.16
17 16 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TATATATATATATATA
Found at i:25689478 original size:47 final size:47
Alignment explanation
Indices: 25689401--25689494 Score: 152
Period size: 47 Copynumber: 2.0 Consensus size: 47
25689391 ATCATCACAC
* * * *
25689401 ATATTGTTAGGCTTACCCTTGAAGTCAATCAAAGTTATTCAAATCAT
1 ATATTGTTAGGATTACCCTCGAAATAAATCAAAGTTATTCAAATCAT
25689448 ATATTGTTAGGATTACCCTCGAAATAAATCAAAGTTATTCAAATCAT
1 ATATTGTTAGGATTACCCTCGAAATAAATCAAAGTTATTCAAATCAT
25689495 TCTCCATGAC
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (47 bp):
ATATTGTTAGGATTACCCTCGAAATAAATCAAAGTTATTCAAATCAT
Found at i:25690923 original size:20 final size:20
Alignment explanation
Indices: 25690900--25690950 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
25690890 GCCAAATGTA
25690900 TTGATACATTTGCCCTAATT
1 TTGATACATTTGCCCTAATT
*
25690920 TTGATACATTTTCCCTAATT
1 TTGATACATTTGCCCTAATT
25690940 TTGATACATTT
1 TTGATACATTT
25690951 AAGGCAGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.08, T:0.49
Consensus pattern (20 bp):
TTGATACATTTGCCCTAATT
Found at i:25691937 original size:35 final size:35
Alignment explanation
Indices: 25691898--25692049 Score: 157
Period size: 35 Copynumber: 4.3 Consensus size: 35
25691888 TTAATTGTTT
* * *
25691898 AATTTAATCAATTAAGCTCAATAACTTAAATAAAC
1 AATTTAATCAATTAAGCCCAACAACTTAATTAAAC
* *
25691933 AATTTAATTAATT-AGCTCTAACAACTTAATTAAAC
1 AATTTAATCAATTAAGC-CCAACAACTTAATTAAAC
* **
25691968 AATTTTAATCAATTAGGCCCAATGA-TATAATTAAAC
1 AA-TTTAATCAATTAAGCCCAACAACT-TAATTAAAC
* *
25692004 AATTTAATTAATTAAGCCCAACAAC-TAACTAAAC
1 AATTTAATCAATTAAGCCCAACAACTTAATTAAAC
25692038 AATTTTAATCAA
1 AA-TTTAATCAA
25692050 GTAGTTGAGA
Statistics
Matches: 95, Mismatches: 16, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
34 13 0.14
35 55 0.58
36 25 0.26
37 2 0.02
ACGTcount: A:0.48, C:0.15, G:0.04, T:0.33
Consensus pattern (35 bp):
AATTTAATCAATTAAGCCCAACAACTTAATTAAAC
Found at i:25692003 original size:71 final size:70
Alignment explanation
Indices: 25691900--25692049 Score: 205
Period size: 71 Copynumber: 2.1 Consensus size: 70
25691890 AATTGTTTAA
* * *
25691900 TTTAATCAATTAAGCTCAATAACTTAAATAAACAATTTAATTAATT-AGCTCTAACAACTTAATT
1 TTTAATCAATTAAGCCCAATAACTTAAATAAACAATTTAATTAATTAAGC-CCAACAAC-TAACT
25691964 AAACAAT
64 AAACAAT
* * *
25691971 TTTAATCAATTAGGCCCAATGA-TATAATTAAACAATTTAATTAATTAAGCCCAACAACTAACTA
1 TTTAATCAATTAAGCCCAATAACT-TAAATAAACAATTTAATTAATTAAGCCCAACAACTAACTA
25692035 AACAAT
65 AACAAT
25692041 TTTAATCAA
1 TTTAATCAA
25692050 GTAGTTGAGA
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
70 21 0.30
71 47 0.66
72 3 0.04
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.33
Consensus pattern (70 bp):
TTTAATCAATTAAGCCCAATAACTTAAATAAACAATTTAATTAATTAAGCCCAACAACTAACTAA
ACAAT
Found at i:25694164 original size:40 final size:40
Alignment explanation
Indices: 25694045--25694213 Score: 181
Period size: 40 Copynumber: 4.3 Consensus size: 40
25694035 GAAAAGGTAA
* * *
25694045 AAAGGTTTTGCTTTAACCTTGAAAAGGCAAAGACTTTGTG
1 AAAGGTTATGCTTTAAACTTGAAAAGGCAGAGACTTTGTG
* *
25694085 AAAGATTATGCTTTAATCTT-AAAAGG--GTAGACTTTGTG
1 AAAGGTTATGCTTTAAACTTGAAAAGGCAG-AGACTTTGTG
* *
25694123 AAAGGTTGTAG-TTTAAACTTGAAAAGGCAGAGGCTTTGTG
1 AAAGGTTAT-GCTTTAAACTTGAAAAGGCAGAGACTTTGTG
* *
25694163 AAAAGTTATGCTTT-AACTTTGAAAAGGCAGTGACTTTGTG
1 AAAGGTTATGCTTTAAAC-TTGAAAAGGCAGAGACTTTGTG
25694203 --AGGTTATGCTT
1 AAAGGTTATGCTT
25694214 GTTGTTGGCT
Statistics
Matches: 109, Mismatches: 13, Indels: 16
0.79 0.09 0.12
Matches are distributed among these distances:
38 35 0.32
39 17 0.16
40 56 0.51
41 1 0.01
ACGTcount: A:0.32, C:0.09, G:0.24, T:0.34
Consensus pattern (40 bp):
AAAGGTTATGCTTTAAACTTGAAAAGGCAGAGACTTTGTG
Found at i:25694174 original size:78 final size:79
Alignment explanation
Indices: 25694056--25694203 Score: 205
Period size: 78 Copynumber: 1.9 Consensus size: 79
25694046 AAGGTTTTGC
*
25694056 TTTAACCTTGAAAAGGCAAAGACTTTGTGAAAGATTATGCTTTAA-TCTT-AAAAGG-GTAGACT
1 TTTAAACTTGAAAAGGCAAAGACTTTGTGAAAGATTATGCTTTAACT-TTGAAAAGGAGT-GACT
25694118 TTGTGAAAGGTTGTAG
64 TTGTGAAAGGTTGTAG
* *
25694134 TTTAAACTTGAAAAGGCAGAGGCTTTGTGAAA-AGTTATGCTTTAACTTTGAAAAGGCAGTGACT
1 TTTAAACTTGAAAAGGCAAAGACTTTGTGAAAGA-TTATGCTTTAACTTTGAAAAGG-AGTGACT
25694198 TTGTGA
64 TTGTGA
25694204 GGTTATGCTT
Statistics
Matches: 62, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
77 1 0.02
78 42 0.68
79 7 0.11
80 10 0.16
81 2 0.03
ACGTcount: A:0.34, C:0.09, G:0.24, T:0.33
Consensus pattern (79 bp):
TTTAAACTTGAAAAGGCAAAGACTTTGTGAAAGATTATGCTTTAACTTTGAAAAGGAGTGACTTT
GTGAAAGGTTGTAG
Found at i:25696779 original size:21 final size:21
Alignment explanation
Indices: 25696718--25696779 Score: 56
Period size: 21 Copynumber: 3.0 Consensus size: 21
25696708 AAAGAAATTT
*
25696718 TCTACAAATT-GAATTGGAGCAC
1 TCTA-AAATTAGAATTGGA-AAC
* * *
25696740 TC-AAAAATAGATTTTGAAAC
1 TCTAAAATTAGAATTGGAAAC
25696760 TCTAAAATTAGAATTGGAAA
1 TCTAAAATTAGAATTGGAAA
25696780 GCAAAACTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
20 8 0.26
21 21 0.68
22 2 0.06
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (21 bp):
TCTAAAATTAGAATTGGAAAC
Found at i:25700007 original size:40 final size:40
Alignment explanation
Indices: 25699952--25700037 Score: 154
Period size: 40 Copynumber: 2.1 Consensus size: 40
25699942 TAAAGAACAT
*
25699952 GTATGTCATTTTTCTTGAAGATCTTGAAGTAAATAGTGAA
1 GTATGTAATTTTTCTTGAAGATCTTGAAGTAAATAGTGAA
*
25699992 GTATGTAATTTTTCTTGAAGATCTTGAAGTAAATATTGAA
1 GTATGTAATTTTTCTTGAAGATCTTGAAGTAAATAGTGAA
25700032 GTATGT
1 GTATGT
25700038 CTTATTGCAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 44 1.00
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.42
Consensus pattern (40 bp):
GTATGTAATTTTTCTTGAAGATCTTGAAGTAAATAGTGAA
Found at i:25708210 original size:20 final size:20
Alignment explanation
Indices: 25708185--25708240 Score: 94
Period size: 20 Copynumber: 2.8 Consensus size: 20
25708175 TAGAATGGGT
25708185 AGAATGGGTGCAAGAACCAG
1 AGAATGGGTGCAAGAACCAG
* *
25708205 AGAATGGGTGCAGGGACCAG
1 AGAATGGGTGCAAGAACCAG
25708225 AGAATGGGTGCAAGAA
1 AGAATGGGTGCAAGAA
25708241 TTAAAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.38, C:0.12, G:0.39, T:0.11
Consensus pattern (20 bp):
AGAATGGGTGCAAGAACCAG
Found at i:25716852 original size:134 final size:134
Alignment explanation
Indices: 25716624--25717015 Score: 651
Period size: 134 Copynumber: 2.9 Consensus size: 134
25716614 GGATTTGAGT
*
25716624 TTGAGGAAGCTGGTGGTATATGCAGATTATGTTTAAATCATTCAAGAATTGAACTTGGCAAAATT
1 TTGAGGAAGTTGGTGGTATATGCAGATTATGTTTAAATCATTCAAGAATTGAACTTGGCAAAATT
* *
25716689 GATTAGAAAGGCTATCTGGTGCCAAGTCAGCATGTCTGCTGCAATTTTCT-ATAGCATTTGGATA
66 GATTAGAAATGCTATCTAGTGCCAAGTCAGCATGTCTGCTGCAATTTT-TGATAGCATTTGGATA
25716753 TGAAG
130 TGAAG
* * * *
25716758 TTGAGGAAGTTGGTGGTATATGCGGATTATTTTTGAATCATTCAACAATTGAACTTGGCAAAATT
1 TTGAGGAAGTTGGTGGTATATGCAGATTATGTTTAAATCATTCAAGAATTGAACTTGGCAAAATT
* *
25716823 GATTAGAAATGCTATCTAGTGCCAAGTCAGCATGTCTGCTGCAATTTTTGATAGCATTGGGATTT
66 GATTAGAAATGCTATCTAGTGCCAAGTCAGCATGTCTGCTGCAATTTTTGATAGCATTTGGATAT
*
25716888 GAAT
131 GAAG
* * *
25716892 TTGAGGAAGTTGGTGCTATGTGCAGATTATGTTTAAATCATTCAAGAATTGACCTTGGCAAAATT
1 TTGAGGAAGTTGGTGGTATATGCAGATTATGTTTAAATCATTCAAGAATTGAACTTGGCAAAATT
25716957 GATTAGAAATGCTATCTAGTGCCAAGTCAGCATGTCTGCTGCAATTTTTGATAGCATTT
66 GATTAGAAATGCTATCTAGTGCCAAGTCAGCATGTCTGCTGCAATTTTTGATAGCATTT
25717016 TTGGATTTCA
Statistics
Matches: 239, Mismatches: 18, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
133 1 0.00
134 238 1.00
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.35
Consensus pattern (134 bp):
TTGAGGAAGTTGGTGGTATATGCAGATTATGTTTAAATCATTCAAGAATTGAACTTGGCAAAATT
GATTAGAAATGCTATCTAGTGCCAAGTCAGCATGTCTGCTGCAATTTTTGATAGCATTTGGATAT
GAAG
Found at i:25725571 original size:15 final size:14
Alignment explanation
Indices: 25725540--25725581 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
25725530 TAGGAATATT
*
25725540 AAATAAAAAAATAA
1 AAATAAATAAATAA
25725554 AAA-AATATAAATAGA
1 AAATAA-ATAAATA-A
25725569 AAATAAATAAATA
1 AAATAAATAAATA
25725582 TATAGTTACA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
13 2 0.08
14 9 0.38
15 11 0.46
16 2 0.08
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (14 bp):
AAATAAATAAATAA
Found at i:25726043 original size:2 final size:2
Alignment explanation
Indices: 25726036--25726076 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
25726026 TATAACAGTA
25726036 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
25726077 GTTAGGATCC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:25734357 original size:2 final size:2
Alignment explanation
Indices: 25734352--25734441 Score: 141
Period size: 2 Copynumber: 45.5 Consensus size: 2
25734342 ATCATTAAAT
25734352 TA TA TA TA TA TA TA TA TA TA TA CTA TA TA -A T- TA TA TA T- TNA
1 TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA T-A
25734393 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
25734435 TA TA TA T
1 TA TA TA T
25734442 CCAATTTCAC
Statistics
Matches: 83, Mismatches: 0, Indels: 10
0.89 0.00 0.11
Matches are distributed among these distances:
1 3 0.04
2 77 0.93
3 3 0.04
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25744501 original size:43 final size:43
Alignment explanation
Indices: 25744445--25744557 Score: 147
Period size: 43 Copynumber: 2.6 Consensus size: 43
25744435 NNTTATGCAC
*
25744445 ACTCCCTACTCGCACATAACCGGGTCATCAC-CGGGTTATGCGT
1 ACTCCCTACTCGCACATAACCGGGTCATC-CTCGGCTTATGCGT
* *
25744488 ACTCCCTATTCGCACATAACCGGGTCATCCTTGGCTTATGCGT
1 ACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTTATGCGT
* * * *
25744531 ATTTCCTACTCTCACATAACCGAGTCA
1 ACTCCCTACTCGCACATAACCGGGTCA
25744558 ACATAATTAC
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 1 0.02
43 60 0.98
ACGTcount: A:0.22, C:0.34, G:0.17, T:0.27
Consensus pattern (43 bp):
ACTCCCTACTCGCACATAACCGGGTCATCCTCGGCTTATGCGT
Found at i:25751915 original size:3 final size:3
Alignment explanation
Indices: 25751907--25752046 Score: 217
Period size: 3 Copynumber: 46.7 Consensus size: 3
25751897 ACTTTATCTC
* * *
25751907 TAG TAG TAG TAG TAG TAA TAG TAG TAG TAG TAG TAG TAA TAG TAA TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
*
25751955 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAC TAG TAG TAG
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG
* * *
25752003 TAG TAG TAG TAA TAG TAG TAG TAG TAA TAG TAA TAG TAG TAG TA
1 TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TAG TA
25752047 CTAGGAGTAA
Statistics
Matches: 123, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 123 1.00
ACGTcount: A:0.38, C:0.01, G:0.28, T:0.34
Consensus pattern (3 bp):
TAG
Found at i:25753501 original size:14 final size:14
Alignment explanation
Indices: 25753482--25753508 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
25753472 CTATTTAATT
25753482 TTAGTTTTAATTTA
1 TTAGTTTTAATTTA
25753496 TTAGTTTTAATTT
1 TTAGTTTTAATTT
25753509 TTTTATTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.26, C:0.00, G:0.07, T:0.67
Consensus pattern (14 bp):
TTAGTTTTAATTTA
Found at i:25757122 original size:19 final size:19
Alignment explanation
Indices: 25757098--25757135 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
25757088 TCATTTGACT
25757098 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
25757117 TATTGGAGTATGATTTGAG
1 TATTGGAGTATGATTTGAG
25757136 GTTTAGAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.32, T:0.42
Consensus pattern (19 bp):
TATTGGAGTATGATTTGAG
Found at i:25763146 original size:21 final size:22
Alignment explanation
Indices: 25763121--25763161 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
25763111 CCTAGGTGGA
*
25763121 AAAATTCAAGGGAA-AAGTGTG
1 AAAATTCAAGGAAACAAGTGTG
25763142 AAAATTCAAGGAAACAAGTG
1 AAAATTCAAGGAAACAAGTG
25763162 AAAAAAGGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.51, C:0.07, G:0.24, T:0.17
Consensus pattern (22 bp):
AAAATTCAAGGAAACAAGTGTG
Found at i:25763162 original size:20 final size:21
Alignment explanation
Indices: 25763121--25763165 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
25763111 CCTAGGTGGA
*
25763121 AAAATTCAAGGGAAAAGTGTG
1 AAAATTCAAGGGAAAAGAGTG
25763142 AAAATTCAA-GGAAACA-AGTG
1 AAAATTCAAGGGAAA-AGAGTG
25763162 AAAA
1 AAAA
25763166 AAGGGTAAGA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.56, C:0.07, G:0.22, T:0.16
Consensus pattern (21 bp):
AAAATTCAAGGGAAAAGAGTG
Found at i:25763166 original size:21 final size:20
Alignment explanation
Indices: 25763119--25763166 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
25763109 ATCCTAGGTG
*
25763119 GAAAAATTCAAGGGAAAAGT
1 GAAAAATTCAAGGAAAAAGT
*
25763139 GTGAAAATTCAAGGAAACAAGT
1 G-AAAAATTCAAGGAAA-AAGT
25763161 GAAAAA
1 GAAAAA
25763167 AGGGTAAGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 1 0.04
21 17 0.74
22 5 0.22
ACGTcount: A:0.56, C:0.06, G:0.23, T:0.15
Consensus pattern (20 bp):
GAAAAATTCAAGGAAAAAGT
Found at i:25769136 original size:2 final size:2
Alignment explanation
Indices: 25769131--25769162 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
25769121 ATAGAAAACA
25769131 AT 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 AT
25769163 GTTTAGGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25769462 original size:2 final size:2
Alignment explanation
Indices: 25769455--25769482 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
25769445 ATAATAGTAA
25769455 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
25769483 TTGGGATCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:25773184 original size:17 final size:17
Alignment explanation
Indices: 25773162--25773215 Score: 81
Period size: 17 Copynumber: 3.2 Consensus size: 17
25773152 TTATGAGGAT
*
25773162 TGCTCCCTCTAAGTGAG
1 TGCTCCCTCTAAGTGTG
* *
25773179 TGCTCCCCCTTAGTGTG
1 TGCTCCCTCTAAGTGTG
25773196 TGCTCCCTCTAAGTGTG
1 TGCTCCCTCTAAGTGTG
25773213 TGC
1 TGC
25773216 ATATTCAGCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.11, C:0.31, G:0.24, T:0.33
Consensus pattern (17 bp):
TGCTCCCTCTAAGTGTG
Found at i:25788666 original size:17 final size:17
Alignment explanation
Indices: 25788631--25788664 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
25788621 ATAATGGCGT
*
25788631 ATCAAGCCATTTGCCAA
1 ATCAAGCCATTTACCAA
25788648 ATCAAGCCA-TTACCAA
1 ATCAAGCCATTTACCAA
25788664 A
1 A
25788665 ATTGGTAGTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.41, C:0.29, G:0.09, T:0.21
Consensus pattern (17 bp):
ATCAAGCCATTTACCAA
Found at i:25797650 original size:13 final size:13
Alignment explanation
Indices: 25797632--25797656 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25797622 AGGGAAATTG
25797632 TGATTTTATAAAA
1 TGATTTTATAAAA
25797645 TGATTTTATAAA
1 TGATTTTATAAA
25797657 TTTTCTGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:25799741 original size:33 final size:33
Alignment explanation
Indices: 25799699--25799763 Score: 103
Period size: 33 Copynumber: 2.0 Consensus size: 33
25799689 ATCTTTATCT
* *
25799699 TTGTATTTCAATAGGACATAAGCTCTTGGAGTA
1 TTGTATTTCAATAAGACATAAACTCTTGGAGTA
*
25799732 TTGTATTTCACTAAGACATAAACTCTTGGAGT
1 TTGTATTTCAATAAGACATAAACTCTTGGAGT
25799764 TAAGTACCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (33 bp):
TTGTATTTCAATAAGACATAAACTCTTGGAGTA
Found at i:25799808 original size:27 final size:25
Alignment explanation
Indices: 25799778--25799834 Score: 62
Period size: 25 Copynumber: 2.2 Consensus size: 25
25799768 TACCTGAAAT
25799778 ATGGC-TTGTAACAACCTTTATTTCAAC
1 ATGGCGTT-TAACAA-CTTT-TTTCAAC
* *
25799805 ATGGCGTTTAATAACTTTTTTTAAC
1 ATGGCGTTTAACAACTTTTTTCAAC
25799830 ATGGC
1 ATGGC
25799835 ATGCGACAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
25 11 0.41
26 4 0.15
27 10 0.37
28 2 0.07
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (25 bp):
ATGGCGTTTAACAACTTTTTTCAAC
Found at i:25799972 original size:97 final size:99
Alignment explanation
Indices: 25799865--25800066 Score: 246
Period size: 97 Copynumber: 2.1 Consensus size: 99
25799855 GAATATGGTG
* * * * *
25799865 TGTAACTTGGTCCCTATCTTTGTATTTCATTAGAATATAAAGGCTTAGAGTTAAGCACTTTAAAC
1 TGTAATTTGGTCCCTATCTTTGTATTTCACTAGAATATAAACGCTTAGAGTTAAACACCTTAAAC
*
25799930 ATAACATGTAACAACTTTA-T-TTCAACATGGCA
66 ATAACATGTAACAACTTTATTCTTCAACATGACA
** * * * *
25799962 TGTAATTTGGTCTTTATCTTTTTATTTCACTAGGATATAAACTCTTAGAGTTAAACACCTTGAAC
1 TGTAATTTGGTCCCTATCTTTGTATTTCACTAGAATATAAACGCTTAGAGTTAAACACCTTAAAC
** * *
25800027 ATGGCGTGTAACAACTTTATTCTTCAACATGACG
66 ATAACATGTAACAACTTTATTCTTCAACATGACA
25800061 TGTAAT
1 TGTAAT
25800067 AATATTTTTT
Statistics
Matches: 87, Mismatches: 16, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
97 70 0.80
98 1 0.01
99 16 0.18
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (99 bp):
TGTAATTTGGTCCCTATCTTTGTATTTCACTAGAATATAAACGCTTAGAGTTAAACACCTTAAAC
ATAACATGTAACAACTTTATTCTTCAACATGACA
Found at i:25800111 original size:29 final size:29
Alignment explanation
Indices: 25800021--25800122 Score: 111
Period size: 27 Copynumber: 3.6 Consensus size: 29
25800011 GTTAAACACC
* * *
25800021 TTGAACATGGCGTGTAACAACTTTA-TTC
1 TTGAACATGACGTGTAACAACATTATTTT
* * *
25800049 TTCAACATGACGTGTAATAATA-T-TTTT
1 TTGAACATGACGTGTAACAACATTATTTT
* *
25800076 TTGAACATGGCATGTAACAACATTATTTT
1 TTGAACATGACGTGTAACAACATTATTTT
25800105 TTGAACATGACGTGTAAC
1 TTGAACATGACGTGTAAC
25800123 TTGGTTTCTA
Statistics
Matches: 58, Mismatches: 13, Indels: 5
0.76 0.17 0.07
Matches are distributed among these distances:
27 20 0.34
28 18 0.31
29 20 0.34
ACGTcount: A:0.32, C:0.15, G:0.16, T:0.37
Consensus pattern (29 bp):
TTGAACATGACGTGTAACAACATTATTTT
Found at i:25800191 original size:252 final size:250
Alignment explanation
Indices: 25799735--25800209 Score: 600
Period size: 252 Copynumber: 1.9 Consensus size: 250
25799725 TGGAGTATTG
* ** * *
25799735 TATTTCACTAAGACATAAACTCTTGGAGTTAAGTACCTGAAATATGGCTTGTAACAACCTTTATT
1 TATTTCACTAAGACATAAACTCTTAGAGTTAAACACCTGAAACATGGCGTGTAACAACCTTTATT
* * * * * **
25799800 TCAACATGGCGTTTAATAACTTTTTTTAACATGGCATGCGACAACAAAATTTTTTGAATATGGTG
66 TCAACATGACGTGTAATAAATTTTTTTAACATGGCATGCAACAACAAAATTTTTTGAACATGACG
* * *
25799865 TGTAACTTGGTCCCTATCTTTGTATTTCATTAGAATATAAAGGCTTAGAGTTAAGCACTTTAAAC
131 TGTAACTTGGTCCCTATCTTTGTATTTCATTAGAATATAAACGCTTAGAGTTAAACACCTTAAAC
25799930 ATAACATGTAACAAC-TTTATTT-CAACATGGCATGTAATTTGGTCTTTATCTTTT
196 ATAACATGTAACAACATTT-TTTCCAACATGGCATGTAATTTGGTCTTTATCTTTT
* *
25799984 TATTTCACTAGGATATAAACTCTTAGAGTTAAACACCTTG-AACATGGCGTGTAACAA-CTTTAT
1 TATTTCACTAAGACATAAACTCTTAGAGTTAAACACC-TGAAACATGGCGTGTAACAACCTTTA-
* **
25800047 TCTTCAACATGACGTGTAATAATATTTTTTTGAACATGGCATGTAACAACATTATTTTTTGAACA
64 T-TTCAACATGACGTGTAATAA-ATTTTTTT-AACATGGCATGCAACAACAAAATTTTTTGAACA
** * * * *
25800112 TGACGTGTAACTTGGTTTCTATTTTTGTATTTTATTA-AGATATAAACTCTTGGAGTTAAACACC
126 TGACGTGTAACTTGGTCCCTATCTTTGTATTTCATTAGA-ATATAAACGCTTAGAGTTAAACACC
* *
25800176 TTAAATATGACATGTAACAACATTTTTTCCAACA
190 TTAAACATAACATGTAACAACATTTTTTCCAACA
25800210 CATGTGCTTG
Statistics
Matches: 190, Mismatches: 28, Indels: 12
0.83 0.12 0.05
Matches are distributed among these distances:
248 5 0.03
249 48 0.25
250 20 0.11
251 8 0.04
252 101 0.53
253 8 0.04
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.39
Consensus pattern (250 bp):
TATTTCACTAAGACATAAACTCTTAGAGTTAAACACCTGAAACATGGCGTGTAACAACCTTTATT
TCAACATGACGTGTAATAAATTTTTTTAACATGGCATGCAACAACAAAATTTTTTGAACATGACG
TGTAACTTGGTCCCTATCTTTGTATTTCATTAGAATATAAACGCTTAGAGTTAAACACCTTAAAC
ATAACATGTAACAACATTTTTTCCAACATGGCATGTAATTTGGTCTTTATCTTTT
Found at i:25800902 original size:18 final size:19
Alignment explanation
Indices: 25800881--25800919 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
25800871 CAAGATAAAT
25800881 TTTTAGAAAT-AAATAATA
1 TTTTAGAAATAAAATAATA
**
25800899 TTTTATTAATAAAATAATA
1 TTTTAGAAATAAAATAATA
25800918 TT
1 TT
25800920 AAAATATTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (19 bp):
TTTTAGAAATAAAATAATA
Found at i:25802753 original size:13 final size:13
Alignment explanation
Indices: 25802735--25802759 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25802725 AGAGAAATTG
25802735 TGATTTTATAAAA
1 TGATTTTATAAAA
25802748 TGATTTTATAAA
1 TGATTTTATAAA
25802760 TTTTCTGGAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TGATTTTATAAAA
Found at i:25807407 original size:207 final size:207
Alignment explanation
Indices: 25807046--25807458 Score: 686
Period size: 207 Copynumber: 2.0 Consensus size: 207
25807036 TTTATGATAT
*
25807046 TTTAAGGTCTAAAAAGGCATAAGACTGCATAAATGACGTGTAATGATGAAAACATGAAGAAAAAC
1 TTTAAGGTCTAAAAAGGCATAAGACTGCATAAATGACGTGTAATGATGAAAACACGAAGAAAAAC
25807111 TAGAAATGACAATAATTTTCACGATAGGGGCAAAACGATCATTTTTCACTTCGGGTTAAAATTTT
66 TAGAAATGACAATAATTTTCACGATAGGGGCAAAACGATCATTTTTCACTTCGGGTTAAAATTTT
*
25807176 AAGTTTTATGAACCCAAACATGTCTAGACCATTATGGACCATGTCCCAGTGTCAAAAGAGT-AAA
131 AAGTTTTATGAACCCAAACATGTCTAGACCATTATAGACCATGTCCCAGTGTCAAAAGAGTAAAA
25807240 AGATTACACAAG
196 AGATTACACAAG
* * *
25807252 NTTTAAGGTCTAAATAGGCATAAGACTGTATAAATGGCGTGTAATGATGAAAACACGAA-AAAAA
1 -TTTAAGGTCTAAAAAGGCATAAGACTGCATAAATGACGTGTAATGATGAAAACACGAAGAAAAA
25807316 CTAGAAATGACAATAATTTTCACGATAGGGGCAAAACGATCATTTTTCACTTCGGGTTAAAATTT
65 CTAGAAATGACAATAATTTTCACGATAGGGGCAAAACGATCATTTTTCACTTCGGGTTAAAATTT
** * * * * *
25807381 TAAGTTTTTATGAACCTGAGCATGTCTAGACCATTATAGATCTTGTCCCGGTGTCAAATGAGTAA
130 TAAG-TTTTATGAACCCAAACATGTCTAGACCATTATAGACCATGTCCCAGTGTCAAAAGAGTAA
25807446 AAAGATTACACAA
194 AAAGATTACACAA
25807459 AGGGTTGCAT
Statistics
Matches: 192, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
206 74 0.39
207 104 0.54
208 14 0.07
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (207 bp):
TTTAAGGTCTAAAAAGGCATAAGACTGCATAAATGACGTGTAATGATGAAAACACGAAGAAAAAC
TAGAAATGACAATAATTTTCACGATAGGGGCAAAACGATCATTTTTCACTTCGGGTTAAAATTTT
AAGTTTTATGAACCCAAACATGTCTAGACCATTATAGACCATGTCCCAGTGTCAAAAGAGTAAAA
AGATTACACAAG
Found at i:25808214 original size:43 final size:42
Alignment explanation
Indices: 25808143--25808257 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 42
25808133 GTAATTATAT
* * * *
25808143 TGACTCGGCTATGTGCGAGTAAGAAGTGCGCATAAGCCGAGG
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGG
* * *
25808185 ATGACCCGGTTATGTGCAAGTAGGGAGTGCGCATAACCCGATG
1 -TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGG
* *
25808228 TGACCCAGCCATGTGCGAGTAGGGAGTGCG
1 TGACCCGGCTATGTGCGAGTAGGGAGTGCG
25808258 TATGAGCTAG
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
42 26 0.43
43 35 0.57
ACGTcount: A:0.24, C:0.21, G:0.36, T:0.19
Consensus pattern (42 bp):
TGACCCGGCTATGTGCGAGTAGGGAGTGCGCATAACCCGAGG
Found at i:25808709 original size:39 final size:39
Alignment explanation
Indices: 25808623--25808712 Score: 94
Period size: 39 Copynumber: 2.3 Consensus size: 39
25808613 AGTGAAAAGG
**
25808623 AATCTCGCTGCAGCGAGAAACTCTCTGTTTCATCAGCTG
1 AATCTCGCTGCAGCGAGAAACTCTCTGTTTCATCAGCAC
* * **
25808662 AATTTCGCTGCAGCTAGAAAC-CTTCTGTTTC-TGGGTCAC
1 AATCTCGCTGCAGCGAGAAACTC-TCTGTTTCATCAG-CAC
25808701 AATCTCGCTGCA
1 AATCTCGCTGCA
25808713 ACAAAACACC
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
38 3 0.07
39 39 0.93
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (39 bp):
AATCTCGCTGCAGCGAGAAACTCTCTGTTTCATCAGCAC
Found at i:25814340 original size:19 final size:20
Alignment explanation
Indices: 25814316--25814360 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
25814306 TTACAAAATG
25814316 ATTATTCTCAACGAAATT-C
1 ATTATTCTCAACGAAATTAC
* * *
25814335 ATTATTTTCATCGGAATTAC
1 ATTATTCTCAACGAAATTAC
25814355 ATTATT
1 ATTATT
25814361 ATTTTGTGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (20 bp):
ATTATTCTCAACGAAATTAC
Found at i:25814855 original size:14 final size:14
Alignment explanation
Indices: 25814836--25814865 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
25814826 TTTTCATATT
*
25814836 TTTTTCCTTATTTC
1 TTTTTCCTTATCTC
25814850 TTTTTCCTTATCTC
1 TTTTTCCTTATCTC
25814864 TT
1 TT
25814866 CATCCCCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (14 bp):
TTTTTCCTTATCTC
Found at i:25818871 original size:18 final size:16
Alignment explanation
Indices: 25818827--25818873 Score: 60
Period size: 15 Copynumber: 2.9 Consensus size: 16
25818817 CAAATCAACC
25818827 ATTATATTTTTTATAT
1 ATTATATTTTTTATAT
*
25818843 -TTATAATTTTTACTAT
1 ATTATATTTTTTA-TAT
25818859 ATTATATTCTTTTAT
1 ATTATATT-TTTTAT
25818874 TTTCTACATG
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 11 0.42
16 3 0.12
17 7 0.27
18 5 0.19
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (16 bp):
ATTATATTTTTTATAT
Found at i:25818911 original size:2 final size:2
Alignment explanation
Indices: 25818906--25818931 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25818896 TCTCTCTCTC
25818906 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
25818932 ATTTTGTGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25818983 original size:2 final size:2
Alignment explanation
Indices: 25818978--25819003 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
25818968 TCTCTCTCTC
25818978 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
25819004 AAATTTGTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:25819779 original size:23 final size:23
Alignment explanation
Indices: 25819749--25819794 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
25819739 CTCCCTAAGA
*
25819749 TTTTTTTCT-TCTTTTTCTTCTTT
1 TTTTTTTCTCTCTTTCTC-TCTTT
25819772 TTTTTTTCTCTCTTTCTCTCTTT
1 TTTTTTTCTCTCTTTCTCTCTTT
25819795 CTTGGCTCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (23 bp):
TTTTTTTCTCTCTTTCTCTCTTT
Found at i:25821353 original size:60 final size:60
Alignment explanation
Indices: 25821260--25821380 Score: 242
Period size: 60 Copynumber: 2.0 Consensus size: 60
25821250 TATTTATGTG
25821260 GAGTTTCTTGAATACCTCTAAGAATTTTTGGAAATGGGAATCTAATTGCTGCTTTTTGAA
1 GAGTTTCTTGAATACCTCTAAGAATTTTTGGAAATGGGAATCTAATTGCTGCTTTTTGAA
25821320 GAGTTTCTTGAATACCTCTAAGAATTTTTGGAAATGGGAATCTAATTGCTGCTTTTTGAA
1 GAGTTTCTTGAATACCTCTAAGAATTTTTGGAAATGGGAATCTAATTGCTGCTTTTTGAA
25821380 G
1 G
25821381 CGTTGAGGGA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 61 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (60 bp):
GAGTTTCTTGAATACCTCTAAGAATTTTTGGAAATGGGAATCTAATTGCTGCTTTTTGAA
Found at i:25822254 original size:40 final size:40
Alignment explanation
Indices: 25822199--25822277 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
25822189 TTGTCAAAGA
*
25822199 CACCAATCGTGGCAAGGTT-AGAAACCCCACTAAGGTGAAT
1 CACCAATCGTGGCAAGGTTGA-AAACCACACTAAGGTGAAT
*
25822239 CACCAATCTTGGCAAGGTTGAAAACCACACTAAGGTGAA
1 CACCAATCGTGGCAAGGTTGAAAACCACACTAAGGTGAA
25822278 AAATAGTTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 35 0.97
41 1 0.03
ACGTcount: A:0.37, C:0.24, G:0.22, T:0.18
Consensus pattern (40 bp):
CACCAATCGTGGCAAGGTTGAAAACCACACTAAGGTGAAT
Found at i:25823641 original size:19 final size:19
Alignment explanation
Indices: 25823617--25823715 Score: 65
Period size: 19 Copynumber: 5.1 Consensus size: 19
25823607 TGCCCGTGTG
*
25823617 CACGATGTGGGGGGATGTA
1 CACGATGTGCGGGGATGTA
*** *
25823636 CACGATG-GCACTGATTGTG
1 CACGATGTGCGGGGA-TGTA
* *
25823655 CACGATGTGAGGGGATGCA
1 CACGATGTGCGGGGATGTA
** *
25823674 CACGATGGTGCCGGCTATGTG
1 CACGAT-GTG-CGGGGATGTA
*
25823695 CACGATGTGGGGGGATGTA
1 CACGATGTGCGGGGATGTA
25823714 CA
1 CA
25823716 TGAGCCAGGT
Statistics
Matches: 56, Mismatches: 20, Indels: 8
0.67 0.24 0.10
Matches are distributed among these distances:
18 3 0.05
19 33 0.59
20 9 0.16
21 11 0.20
ACGTcount: A:0.21, C:0.17, G:0.40, T:0.21
Consensus pattern (19 bp):
CACGATGTGCGGGGATGTA
Found at i:25823655 original size:38 final size:40
Alignment explanation
Indices: 25823613--25823715 Score: 140
Period size: 38 Copynumber: 2.6 Consensus size: 40
25823603 ATAGTGCCCG
*
25823613 TGTGCACGATGTGGGGGGATGTACACGAT-G-GCACTGAT-
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGC-CGGATA
* * *
25823651 TGTGCACGATGTGAGGGGATGCACACGATGGTGCCGGCTA
1 TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
25823691 TGTGCACGATGTGGGGGGATGTACA
1 TGTGCACGATGTGGGGGGATGTACA
25823716 TGAGCCAGGT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
38 27 0.48
39 4 0.07
40 25 0.45
ACGTcount: A:0.20, C:0.17, G:0.41, T:0.22
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGTACACGATGGTGCCGGATA
Found at i:25830286 original size:3 final size:3
Alignment explanation
Indices: 25830278--25830310 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
25830268 ATAATTCCTA
*
25830278 AAT AAT AAT AAT AAT AAT AAT AAT -TT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
25830311 TACTCTTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
2 1 0.04
3 26 0.96
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:25832024 original size:13 final size:13
Alignment explanation
Indices: 25832006--25832030 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25831996 TTTCATAAAA
25832006 TTTATAAAATCAT
1 TTTATAAAATCAT
25832019 TTTATAAAATCA
1 TTTATAAAATCA
25832031 CAATTTCTCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTTATAAAATCAT
Found at i:25833142 original size:28 final size:29
Alignment explanation
Indices: 25833084--25833147 Score: 94
Period size: 29 Copynumber: 2.2 Consensus size: 29
25833074 GTAAAGTTTT
* *
25833084 AAAAATTACACTTTTGCCCCTATAAAGTG
1 AAAAATTACACTTTTGCCCCTAAAAACTG
*
25833113 AAAAATTACATTTTTGCCCC-AAAAACTG
1 AAAAATTACACTTTTGCCCCTAAAAACTG
25833141 AAAAATT
1 AAAAATT
25833148 GCCCATAGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
28 13 0.41
29 19 0.59
ACGTcount: A:0.44, C:0.19, G:0.08, T:0.30
Consensus pattern (29 bp):
AAAAATTACACTTTTGCCCCTAAAAACTG
Found at i:25838737 original size:13 final size:13
Alignment explanation
Indices: 25838721--25838745 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
25838711 ATGAAAATAG
25838721 AATATTTTTATTC
1 AATATTTTTATTC
25838734 AATATTTTTATT
1 AATATTTTTATT
25838746 TAGTTTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (13 bp):
AATATTTTTATTC
Found at i:25839490 original size:20 final size:20
Alignment explanation
Indices: 25839435--25839492 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
25839425 CTCCTACAAA
*
25839435 AATATAAAAATAAATATAAAT
1 AATAT-AAAATAAATATTAAT
*
25839456 AATATAAAACT-AATATTATT
1 AATATAAAA-TAAATATTAAT
25839476 AACT-TAAAATAAATATT
1 AA-TATAAAATAAATATT
25839493 TAAACGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 7
0.78 0.05 0.17
Matches are distributed among these distances:
19 1 0.03
20 24 0.75
21 7 0.22
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.34
Consensus pattern (20 bp):
AATATAAAATAAATATTAAT
Found at i:25862001 original size:2 final size:2
Alignment explanation
Indices: 25861994--25862020 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
25861984 GTAATGATGN
25861994 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
25862021 GAGGTTTCGG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25868659 original size:20 final size:20
Alignment explanation
Indices: 25868634--25868679 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
25868624 CTTCTAAACC
25868634 TCAAATCATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
*
25868654 TCAAATTATACTCCAATAAG
1 TCAAATCATACTCCAATAAG
25868674 TCAAAT
1 TCAAAT
25868680 GGGGTCAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (20 bp):
TCAAATCATACTCCAATAAG
Found at i:25874425 original size:42 final size:42
Alignment explanation
Indices: 25874363--25874443 Score: 119
Period size: 42 Copynumber: 1.9 Consensus size: 42
25874353 ATGATAATTA
*
25874363 TGACCCAGCCATGTGCGGTGTAGG-AGTGCCCATGAGTTGTGC
1 TGACCCAGCCATGTGCGGTGT-GGTAGTGCACATGAGTTGTGC
* *
25874405 TGACCCAGCCATGTGTGGTGTGGTTGTGCACATGAGTTG
1 TGACCCAGCCATGTGCGGTGTGGTAGTGCACATGAGTTG
25874444 AGACAGAGTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
41 2 0.06
42 33 0.94
ACGTcount: A:0.16, C:0.21, G:0.36, T:0.27
Consensus pattern (42 bp):
TGACCCAGCCATGTGCGGTGTGGTAGTGCACATGAGTTGTGC
Found at i:25881567 original size:22 final size:23
Alignment explanation
Indices: 25881518--25881570 Score: 65
Period size: 22 Copynumber: 2.3 Consensus size: 23
25881508 TTTATAATAT
*
25881518 ATAGTTATTTAGGCTTAATTTTG
1 ATAGTAATTTAGGCTTAATTTTG
*
25881541 ATAGTAATTTA-GCTTAGTTCTTG
1 ATAGTAATTTAGGCTTAATT-TTG
25881564 -TAGTAAT
1 ATAGTAAT
25881571 GCATAGAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
22 14 0.52
23 13 0.48
ACGTcount: A:0.28, C:0.06, G:0.17, T:0.49
Consensus pattern (23 bp):
ATAGTAATTTAGGCTTAATTTTG
Found at i:25885084 original size:42 final size:42
Alignment explanation
Indices: 25885025--25885148 Score: 194
Period size: 42 Copynumber: 3.0 Consensus size: 42
25885015 TGTTGATTTG
25885025 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* * *
25885067 GACCCGACTATGTGCGAGTAGGAGTGTATATAAGCCGTTGCT
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* * *
25885109 GACTCGGCTATGTGTGAGTGGGAGTGCACATAAGCCGTTG
1 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTG
25885149 TTGCCCCCAT
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 73 1.00
ACGTcount: A:0.22, C:0.20, G:0.34, T:0.24
Consensus pattern (42 bp):
GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:25885444 original size:26 final size:26
Alignment explanation
Indices: 25885383--25885444 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
25885373 TTGCATATGA
*
25885383 GATGATGATAATGGGATGATGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
25885409 GATGATGATGATGGGATGGTGTGCAT
1 GATGATGATGATGGGATGATGTGCAT
*
25885435 GTTGATGATG
1 GATGATGATG
25885445 GGTATATGGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.26, C:0.03, G:0.39, T:0.32
Consensus pattern (26 bp):
GATGATGATGATGGGATGATGTGCAT
Found at i:25887639 original size:11 final size:11
Alignment explanation
Indices: 25887609--25887654 Score: 53
Period size: 10 Copynumber: 4.4 Consensus size: 11
25887599 TTTATTTAGT
*
25887609 ATTAATTTTGA
1 ATTAATTTTTA
25887620 ATT-ATTTTTA
1 ATTAATTTTTA
25887630 ATTAATTTTTA
1 ATTAATTTTTA
25887641 A--AATTTTTTA
1 ATTAA-TTTTTA
25887651 ATTA
1 ATTA
25887655 CTTAAATAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
9 2 0.07
10 16 0.53
11 11 0.37
12 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
ATTAATTTTTA
Found at i:25891573 original size:25 final size:25
Alignment explanation
Indices: 25891522--25891576 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
25891512 CGTCATGTCT
* *
25891522 GCATGTAACAACTCTAATGCAATTA
1 GCATGTAACAAATATAATGCAATTA
*
25891547 GCATGTAACAAATATATTG-AATATA
1 GCATGTAACAAATATAATGCAAT-TA
25891572 GCATG
1 GCATG
25891577 GTTTAAACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (25 bp):
GCATGTAACAAATATAATGCAATTA
Found at i:25892047 original size:127 final size:127
Alignment explanation
Indices: 25891802--25892040 Score: 273
Period size: 127 Copynumber: 1.9 Consensus size: 127
25891792 CTTTTTAAAT
* * *
25891802 ATGGTGTGTAACTTGGCCTTTATCTTTGTATTTCATTAAAACAAAAACTCTTGGAGTTAAATACC
1 ATGGCGTGTAACTTGGCCTTTATCTTTGTATTTCACTAAAACAAAAACTCTTGGAGTTAAACACC
* * * * * * * *
25891867 TTCAACATCGCGTATAATAATTTTTTTTTTAATATGGCATGTAATAACTTTTTTCTTTCGAC
66 TTAAACATCGCATATAACAAATTTTTTTTCAACATAGAATGTAATAACTTTTTTCTTTCGAC
** * * * ** **
25891929 ATGGCGTGTAACTTGGTTTTTATTTTTGTATTTCACTAGAATATCAACTCTTGGAGTTAAACATT
1 ATGGCGTGTAACTTGGCCTTTATCTTTGTATTTCACTAAAACAAAAACTCTTGGAGTTAAACACC
*
25891994 TTAAACA-CTGCATGTAACAAATTTTTTTTCAACATAGAATGTAATAA
66 TTAAACATC-GCATATAACAAATTTTTTTTCAACATAGAATGTAATAA
25892041 TATTTTTTTG
Statistics
Matches: 90, Mismatches: 21, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
126 1 0.01
127 89 0.99
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.42
Consensus pattern (127 bp):
ATGGCGTGTAACTTGGCCTTTATCTTTGTATTTCACTAAAACAAAAACTCTTGGAGTTAAACACC
TTAAACATCGCATATAACAAATTTTTTTTCAACATAGAATGTAATAACTTTTTTCTTTCGAC
Found at i:25892088 original size:29 final size:27
Alignment explanation
Indices: 25891992--25892094 Score: 102
Period size: 27 Copynumber: 3.7 Consensus size: 27
25891982 GAGTTAAACA
25891992 TTTTAAACACT-GCATGTAACAA-ATTTT
1 TTTTAAACA-TGGCATGTAACAATA-TTT
* * * *
25892019 TTTTCAACATAGAATGTAATAATATTT
1 TTTTAAACATGGCATGTAACAATATTT
* *
25892046 TTTTGAATATGGCATGTAACAATATTAT
1 TTTTAAACATGGCATGTAACAATATT-T
25892074 CTTTTAAACATGGCATGTAAC
1 -TTTTAAACATGGCATGTAAC
25892095 TTGGTCTTAT
Statistics
Matches: 62, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
26 1 0.02
27 41 0.66
28 2 0.03
29 18 0.29
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.41
Consensus pattern (27 bp):
TTTTAAACATGGCATGTAACAATATTT
Found at i:25892163 original size:153 final size:153
Alignment explanation
Indices: 25891881--25892174 Score: 369
Period size: 153 Copynumber: 1.9 Consensus size: 153
25891871 ACATCGCGTA
* * * * * ** *
25891881 TAATAATTTTTTTTTTAATATGGCATGTAATAACTTTTTTCTTTCGACATGGCGTGTAACTTGGT
1 TAATAATATTTTTTTGAATATGGCATGTAACAACTATTATCTTTAAACATGGCATGTAACTTGGT
* * * * * *
25891946 TTTTATTTTTGTATTTCACTAGAATATCAACTCTTGGAGTTAAACATTTTAAACACTGCATGTAA
66 TCTTATCTTTGTATTTCACTAGAACATAAACTCTTAGAGTTAAACACTTTAAACACTGCATGTAA
25892011 CAAATTTTTTTTCAACATAGAATG
131 -AAATTTTTTTTCAACATAGAATG
25892035 TAATAATATTTTTTTGAATATGGCATGTAACAA-TATTATCTTTTAAACATGGCATGTAACTTGG
1 TAATAATATTTTTTTGAATATGGCATGTAACAACTATTATC-TTTAAACATGGCATGTAACTTGG
* * * *
25892099 -TCTTATCTTTGTATTTTATTAGAACATAAACTCTTATAGTTAAACACTTTAAACA-TGACGTGT
65 TTCTTATCTTTGTATTTCACTAGAACATAAACTCTTAGAGTTAAACACTTTAAACACTG-CATGT
*
25892162 AATAATTTTTTTT
129 AAAAATTTTTTTT
25892175 AACTTGGCGT
Statistics
Matches: 119, Mismatches: 19, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
152 12 0.10
153 57 0.48
154 50 0.42
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.45
Consensus pattern (153 bp):
TAATAATATTTTTTTGAATATGGCATGTAACAACTATTATCTTTAAACATGGCATGTAACTTGGT
TCTTATCTTTGTATTTCACTAGAACATAAACTCTTAGAGTTAAACACTTTAAACACTGCATGTAA
AAATTTTTTTTCAACATAGAATG
Found at i:25892211 original size:25 final size:25
Alignment explanation
Indices: 25892157--25892228 Score: 83
Period size: 25 Copynumber: 2.8 Consensus size: 25
25892147 TTAAACATGA
* *
25892157 CGTGTAATAATTTTTTTTAACTTGG
1 CGTGTAATAATTTTTTTCAACTAGG
25892182 CGTGTAATAATTTTTTTCAACATAGG
1 CGTGTAATAATTTTTTTCAAC-TAGG
*
25892208 -GTGTAACAACATTTTTTTCAA
1 CGTGTAA-TA-ATTTTTTTCAA
25892229 TACGTGTGCT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
25 26 0.63
26 4 0.10
27 11 0.27
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (25 bp):
CGTGTAATAATTTTTTTCAACTAGG
Found at i:25895109 original size:20 final size:20
Alignment explanation
Indices: 25895084--25895121 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
25895074 TTTTGGCCCC
25895084 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
25895104 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
25895122 GGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:25895127 original size:20 final size:20
Alignment explanation
Indices: 25895084--25895129 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
25895074 TTTTGGCCCC
*
25895084 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTAGA
*
25895104 ATTTGACTTATTGGAGTAGG
1 ATTTGACTTATTGGAGTAGA
25895124 ATTTGA
1 ATTTGA
25895130 GGTTTAGAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.28, C:0.04, G:0.24, T:0.43
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTAGA
Found at i:25912579 original size:2 final size:2
Alignment explanation
Indices: 25912530--25912564 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
25912520 AATCGTCCAT
25912530 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
25912565 NNNNNNTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:25914959 original size:18 final size:19
Alignment explanation
Indices: 25914936--25914976 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
25914926 AACATAACCT
* *
25914936 AAAATATTAAACA-AAATA
1 AAAATATAAAAAATAAATA
25914954 AAAATATAAAAAATAAATA
1 AAAATATAAAAAATAAATA
25914973 AAAA
1 AAAA
25914977 ATTGAAGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 11 0.55
19 9 0.45
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (19 bp):
AAAATATAAAAAATAAATA
Done.