Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 20 of 318
Found at i:5255939 original size:126 final size:126
Alignment explanation
Indices: 5255714--5256108 Score: 544
Period size: 126 Copynumber: 3.1 Consensus size: 126
5255704 AGCCAAACAG
* * * *
5255714 GAACTACTGTTGAAAAAGAGCGTCCACATGGGAGCTTTTTTTAGTAATTTTGCTGACAATGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
* *
5255779 CTGCTTAAAGTATTTTTTACACTTTTTTTTCAGAATCGTCTTCTTAAAATTATTTTTTTAT
66 CTGCTTAAAGCATTTTTTACACTATTTTTTCAGAATCGTCTTCTTAAAATTATTTTTTTAT
* **
5255840 GAACTACTATAGAAAAAGAGCGTCCATGTGGGAGCTTTTTTCAGTAATTTTGCTGACAGCGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
* * * * *
5255905 CTGCTTGAAGCATTTTTTAAACTATTTTTTCAGAATCGTCTTCTCAAAATTATTTTTTCAG
66 CTGCTTAAAGCATTTTTTACACTATTTTTTCAGAATCGTCTTCTTAAAATTATTTTTTTAT
* *
5255966 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAATAATTTTGCTGACAATGCATC
1 GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
* * * * * *
5256031 CTACTTTAAGCATTTTTTACATTATCTTTTT-AGAACCGTCTT-TTCAAAATTA-ATTTTTCT
66 CTGCTTAAAGCATTTTTTACACTAT-TTTTTCAGAATCGTCTTCTT-AAAATTATTTTTTTAT
5256091 GAAACTACTATAGAAAAA
1 G-AACTACTATAGAAAAA
5256109 AACAAAATCC
Statistics
Matches: 236, Mismatches: 30, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
125 6 0.03
126 225 0.95
127 5 0.02
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.39
Consensus pattern (126 bp):
GAACTACTATAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTAATTTTGCTGACAATGCATC
CTGCTTAAAGCATTTTTTACACTATTTTTTCAGAATCGTCTTCTTAAAATTATTTTTTTAT
Found at i:5256295 original size:28 final size:27
Alignment explanation
Indices: 5256234--5256304 Score: 79
Period size: 28 Copynumber: 2.5 Consensus size: 27
5256224 ATTTAATTAA
* *
5256234 TATTTTGAAAAAACCTTAAACCCTGATT
1 TATTTT-AAAAAACCTTAAACCCTCAAT
* *
5256262 TTTTTTAAAAAATTCTTAAACCCTCAAT
1 TATTTTAAAAAA-CCTTAAACCCTCAAT
5256290 TATTTTAACAAAACC
1 TATTTTAA-AAAACC
5256305 CTAGCACTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 6 0.17
28 25 0.71
29 4 0.11
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (27 bp):
TATTTTAAAAAACCTTAAACCCTCAAT
Found at i:5256717 original size:15 final size:15
Alignment explanation
Indices: 5256690--5256729 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
5256680 AGATTGATTG
*
5256690 TTATTTCTAATTAGAT
1 TTATTTTTAATTA-AT
5256706 TT-TTTTTAATTAAT
1 TTATTTTTAATTAAT
5256720 TTATTTTTAA
1 TTATTTTTAA
5256730 ACATCTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 16 0.73
16 2 0.09
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.65
Consensus pattern (15 bp):
TTATTTTTAATTAAT
Found at i:5260359 original size:46 final size:46
Alignment explanation
Indices: 5260307--5260666 Score: 488
Period size: 46 Copynumber: 7.8 Consensus size: 46
5260297 AGTGTGCTCT
*
5260307 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
5260353 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGAAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
5260399 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAG
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
5260445 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** * *
5260491 GTGATATGAAATGAATAAGACTATGGTTGAAAAATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
5260537 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
5260583 ATGACGGGAAAATGAATAACACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
5260630 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
5260667 TATGACATCA
Statistics
Matches: 288, Mismatches: 25, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
46 247 0.86
47 41 0.14
ACGTcount: A:0.40, C:0.14, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:5263237 original size:43 final size:44
Alignment explanation
Indices: 5263148--5263256 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 44
5263138 GACAGAACGA
*
5263148 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAGACAGG
* *
5263194 ATTGAGCCATGTAAGTCCATATT-ATTATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGG
* **
5263237 AATAATTCATGTAAGTCCAT
1 AATGAGCCATGTAAGTCCAT
5263257 GTCAAAGACA
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
43 34 0.61
46 22 0.39
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (44 bp):
AATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAGACAGG
Found at i:5268428 original size:29 final size:29
Alignment explanation
Indices: 5268380--5268453 Score: 86
Period size: 29 Copynumber: 2.7 Consensus size: 29
5268370 TCTTTCTCAC
*
5268380 ATATATATAAAAT-A-TATT-TTTTA-TT
1 ATATAAATAAAATAATTATTATTTTATTT
* *
5268405 ATAT-AATTACATAATTATTATTTTATTT
1 ATATAAATAAAATAATTATTATTTTATTT
5268433 ATATAAATAAAATAATTATTA
1 ATATAAATAAAATAATTATTA
5268454 ATTAAAAACA
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
24 5 0.13
25 5 0.13
26 4 0.10
27 5 0.13
28 6 0.15
29 14 0.36
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (29 bp):
ATATAAATAAAATAATTATTATTTTATTT
Found at i:5273784 original size:37 final size:39
Alignment explanation
Indices: 5273708--5273785 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 39
5273698 TAGAGACTGG
5273708 AACATCCACTAATTAAAAATTAAGGTCTTCTATAATTGAT
1 AACATCCACTAATTAAAAATTAAGG-CTTCTATAATTGAT
*
5273748 AACATCCACTAA-TAAAAGTCTAA-G-TTCTATAATTGAT
1 AACATCCACTAATTAAAAAT-TAAGGCTTCTATAATTGAT
5273785 A
1 A
5273786 CCTCGCATGG
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
37 14 0.39
39 7 0.19
40 15 0.42
ACGTcount: A:0.44, C:0.15, G:0.08, T:0.33
Consensus pattern (39 bp):
AACATCCACTAATTAAAAATTAAGGCTTCTATAATTGAT
Found at i:5275152 original size:40 final size:40
Alignment explanation
Indices: 5275097--5275178 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
5275087 AGATATAACC
5275097 CAGATAAGATAAGCATTAACTTATATATACAAGTAAAATT
1 CAGATAAGATAAGCATTAACTTATATATACAAGTAAAATT
5275137 CAGATAAGATAAGCATTAACTTATATATACAAGTAAAATT
1 CAGATAAGATAAGCATTAACTTATATATACAAGTAAAATT
5275177 CA
1 CA
5275179 AGAACATGCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.50, C:0.11, G:0.10, T:0.29
Consensus pattern (40 bp):
CAGATAAGATAAGCATTAACTTATATATACAAGTAAAATT
Found at i:5281269 original size:6 final size:6
Alignment explanation
Indices: 5281258--5281304 Score: 51
Period size: 6 Copynumber: 7.5 Consensus size: 6
5281248 CAACCAAAAC
*
5281258 TTAATT TTAA-T TTATTT TTATATTT TCTAATT TTAATT TTAATT TTA
1 TTAATT TTAATT TTAATT TTA-A-TT T-TAATT TTAATT TTAATT TTA
5281305 TTATACACGT
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
5 4 0.11
6 22 0.63
7 3 0.09
8 4 0.11
9 2 0.06
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (6 bp):
TTAATT
Found at i:5290950 original size:29 final size:29
Alignment explanation
Indices: 5290888--5290990 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
5290878 GTGACAAGAT
* * *
5290888 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
5290917 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
5290946 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
5290975 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
5290991 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:5293662 original size:42 final size:42
Alignment explanation
Indices: 5293603--5293688 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
5293593 GAAAAGTAAA
5293603 AATGTGTTTGGATGGTGGGATGAAATATCAACACTAATTTGG
1 AATGTGTTTGGATGGTGGGATGAAATATCAACACTAATTTGG
5293645 AATGTGTTTGGATGGTGGGATGAAATATCAACACTAATTTGG
1 AATGTGTTTGGATGGTGGGATGAAATATCAACACTAATTTGG
5293687 AA
1 AA
5293689 CTATGTATAT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.33
Consensus pattern (42 bp):
AATGTGTTTGGATGGTGGGATGAAATATCAACACTAATTTGG
Found at i:5306942 original size:3 final size:3
Alignment explanation
Indices: 5306934--5306969 Score: 72
Period size: 3 Copynumber: 12.0 Consensus size: 3
5306924 TTATCTCAAT
5306934 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5306970 GTAAATATCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:5310328 original size:12 final size:12
Alignment explanation
Indices: 5310311--5310335 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5310301 AAAATTATTT
5310311 TAATATGGACTA
1 TAATATGGACTA
5310323 TAATATGGACTA
1 TAATATGGACTA
5310335 T
1 T
5310336 TTTAAAAATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.36
Consensus pattern (12 bp):
TAATATGGACTA
Found at i:5314536 original size:29 final size:24
Alignment explanation
Indices: 5314474--5314523 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
5314464 TTCGTTTGTA
5314474 ATTTTTCACCTAAAAAACAAAACC
1 ATTTTTCACCTAAAAAACAAAACC
5314498 ATTTTTCACCTAAAAAACAAAACC
1 ATTTTTCACCTAAAAAACAAAACC
5314522 AT
1 AT
5314524 CTCTTATGTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (24 bp):
ATTTTTCACCTAAAAAACAAAACC
Found at i:5316755 original size:22 final size:22
Alignment explanation
Indices: 5316727--5316772 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
5316717 TAATGTGTTA
*
5316727 AACTCACGATAAACAAGAGCAT
1 AACTCACAATAAACAAGAGCAT
5316749 AACTCACAATAAACAAGAGCAT
1 AACTCACAATAAACAAGAGCAT
5316771 AA
1 AA
5316773 AATCTGTCAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.54, C:0.22, G:0.11, T:0.13
Consensus pattern (22 bp):
AACTCACAATAAACAAGAGCAT
Found at i:5318609 original size:43 final size:43
Alignment explanation
Indices: 5318538--5318788 Score: 261
Period size: 43 Copynumber: 5.8 Consensus size: 43
5318528 TTTGAGAAAG
* * * **
5318538 CGCCGCTAAAAAATGAGACCCTTTAGCGGTTCTTTTCACACAAA
1 CGCCGCTAAAGAACGTGA-CCTTTAGCGGCGCTTTTCACACAAA
* *
5318582 CGCCGTTAAA-AGATGTGACCTTTAGCGGCGCTTTTCACACAAA
1 CGCCGCTAAAGA-ACGTGACCTTTAGCGGCGCTTTTCACACAAA
* * * * * *
5318625 TGCCACTAAAGAACATGACCTTTAGCAGTGCCTTTCACACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCACACAAA
* * * * *
5318668 TGCTGCTAAAGAACGTGACGTTTAGCGGCACCTTTCACACAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCACACAAA
* *
5318711 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCTCAAAAA
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCACACAAA
* * * *
5318754 TGCCGTTAAAGAACATGACCTTTAGCGACGCTTTT
1 CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTT
5318789 ATGACCTTTA
Statistics
Matches: 175, Mismatches: 30, Indels: 5
0.83 0.14 0.02
Matches are distributed among these distances:
43 160 0.91
44 15 0.09
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.25
Consensus pattern (43 bp):
CGCCGCTAAAGAACGTGACCTTTAGCGGCGCTTTTCACACAAA
Found at i:5319652 original size:13 final size:14
Alignment explanation
Indices: 5319626--5319654 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
5319616 ACTAACGGCA
5319626 AATTAAACCATTAT
1 AATTAAACCATTAT
5319640 AATTAAA-CATTAT
1 AATTAAACCATTAT
5319653 AA
1 AA
5319655 ACATTTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:5323339 original size:15 final size:15
Alignment explanation
Indices: 5323319--5323359 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
5323309 TTACTTACTA
5323319 TAAAATAAATAAATT
1 TAAAATAAATAAATT
*
5323334 TAAAATTAAT--ATT
1 TAAAATAAATAAATT
5323347 TAAAAATAAATAA
1 T-AAAATAAATAA
5323360 CTTGAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 5
0.75 0.07 0.18
Matches are distributed among these distances:
13 4 0.19
14 8 0.38
15 9 0.43
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
TAAAATAAATAAATT
Found at i:5327487 original size:9 final size:9
Alignment explanation
Indices: 5327473--5327542 Score: 76
Period size: 9 Copynumber: 8.1 Consensus size: 9
5327463 TATTTATGTA
5327473 TTATGTAAG
1 TTATGTAAG
5327482 TTATGTAAG
1 TTATGTAAG
*
5327491 TTATGTGAG
1 TTATGTAAG
5327500 TTATGTAAG
1 TTATGTAAG
5327509 TTATG--A-
1 TTATGTAAG
*
5327515 TATATATAAG
1 T-TATGTAAG
*
5327525 TTAT-TGAG
1 TTATGTAAG
5327533 TTATGTAAG
1 TTATGTAAG
5327542 T
1 T
5327543 CATGATATGA
Statistics
Matches: 51, Mismatches: 5, Indels: 10
0.77 0.08 0.15
Matches are distributed among these distances:
6 1 0.02
7 4 0.08
8 7 0.14
9 38 0.75
10 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:5327496 original size:18 final size:18
Alignment explanation
Indices: 5327473--5327542 Score: 85
Period size: 18 Copynumber: 4.1 Consensus size: 18
5327463 TATTTATGTA
*
5327473 TTATGTAAGTTATGTAAG
1 TTATGTGAGTTATGTAAG
5327491 TTATGTGAGTTATGTAAG
1 TTATGTGAGTTATGTAAG
*
5327509 TTA--TGA-TATATATAAG
1 TTATGTGAGT-TATGTAAG
5327525 TTAT-TGAGTTATGTAAG
1 TTATGTGAGTTATGTAAG
5327542 T
1 T
5327543 CATGATATGA
Statistics
Matches: 46, Mismatches: 3, Indels: 7
0.82 0.05 0.12
Matches are distributed among these distances:
15 1 0.02
16 13 0.28
17 11 0.24
18 21 0.46
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (18 bp):
TTATGTGAGTTATGTAAG
Found at i:5327538 original size:33 final size:35
Alignment explanation
Indices: 5327487--5327555 Score: 115
Period size: 33 Copynumber: 2.0 Consensus size: 35
5327477 GTAAGTTATG
*
5327487 TAAGTTATGTGAGTTATGTAAGTTATGATAT-ATA
1 TAAGTTATGTGAGTTATGTAAGTCATGATATGATA
5327521 TAAGTTAT-TGAGTTATGTAAGTCATGATATGATA
1 TAAGTTATGTGAGTTATGTAAGTCATGATATGATA
5327555 T
1 T
5327556 GATATATATA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
33 21 0.64
34 12 0.36
ACGTcount: A:0.35, C:0.01, G:0.20, T:0.43
Consensus pattern (35 bp):
TAAGTTATGTGAGTTATGTAAGTCATGATATGATA
Found at i:5331598 original size:32 final size:32
Alignment explanation
Indices: 5331562--5331656 Score: 136
Period size: 32 Copynumber: 3.0 Consensus size: 32
5331552 CAATTGAATC
*
5331562 TCTGTACATACATGTACCATATTGTACCAATT
1 TCTGTACATACCTGTACCATATTGTACCAATT
5331594 TCTGTACATACCTGTACCATATTGTACCAATT
1 TCTGTACATACCTGTACCATATTGTACCAATT
* * * * *
5331626 TCCGTAGATACCTGTATCATCTCGTACCAAT
1 TCTGTACATACCTGTACCATATTGTACCAAT
5331657 CTCATACTCA
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 57 1.00
ACGTcount: A:0.28, C:0.25, G:0.11, T:0.36
Consensus pattern (32 bp):
TCTGTACATACCTGTACCATATTGTACCAATT
Found at i:5331748 original size:28 final size:28
Alignment explanation
Indices: 5331708--5331778 Score: 74
Period size: 28 Copynumber: 2.5 Consensus size: 28
5331698 AATGTATCAT
5331708 ACACT-AGATGCCATACCAGATACCTT-GC
1 ACACTAAG-TGCCATACCAGATA-CTTCGC
* *
5331736 ACACTAAGTGCCATCCCTGATACTTCGC
1 ACACTAAGTGCCATACCAGATACTTCGC
**
5331764 ACGTTAAGTGCCATA
1 ACACTAAGTGCCATA
5331779 TATAATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 3 0.08
28 31 0.86
29 2 0.06
ACGTcount: A:0.30, C:0.31, G:0.15, T:0.24
Consensus pattern (28 bp):
ACACTAAGTGCCATACCAGATACTTCGC
Found at i:5334183 original size:15 final size:15
Alignment explanation
Indices: 5334145--5334196 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
5334135 CAAAATCCTT
*
5334145 AACCCTTAAAACCATA
1 AACCC-TAAAACCCTA
* *
5334161 AACACTAAGACCCTA
1 AACCCTAAAACCCTA
5334176 AACCCTAAAACCACTA
1 AACCCTAAAACC-CTA
5334192 AACCC
1 AACCC
5334197 CAAACAACAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 18 0.60
16 12 0.40
ACGTcount: A:0.48, C:0.37, G:0.02, T:0.13
Consensus pattern (15 bp):
AACCCTAAAACCCTA
Found at i:5334292 original size:15 final size:15
Alignment explanation
Indices: 5334272--5334305 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
5334262 ACATACTAAT
5334272 CATAAAACCCTAAAC
1 CATAAAACCCTAAAC
5334287 CATAAAACCCTAAAC
1 CATAAAACCCTAAAC
5334302 CATA
1 CATA
5334306 GACTTTAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.53, C:0.32, G:0.00, T:0.15
Consensus pattern (15 bp):
CATAAAACCCTAAAC
Found at i:5334342 original size:14 final size:14
Alignment explanation
Indices: 5334276--5334342 Score: 53
Period size: 14 Copynumber: 4.7 Consensus size: 14
5334266 ACTAATCATA
*
5334276 AAACCCTAAACCATA
1 AAACCCTAAACC-TT
*
5334291 AAACCCTAAACCAT
1 AAACCCTAAACCTT
* **
5334305 AGACTTTAAACCTT
1 AAACCCTAAACCTT
***
5334319 AAATATTAAACCTT
1 AAACCCTAAACCTT
5334333 AAACCCTAAA
1 AAACCCTAAA
5334343 ATAAATTTAA
Statistics
Matches: 40, Mismatches: 12, Indels: 1
0.75 0.23 0.02
Matches are distributed among these distances:
14 28 0.70
15 12 0.30
ACGTcount: A:0.49, C:0.27, G:0.01, T:0.22
Consensus pattern (14 bp):
AAACCCTAAACCTT
Found at i:5335465 original size:14 final size:15
Alignment explanation
Indices: 5335416--5335465 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
5335406 TAAACGTTAT
*
5335416 TGAATTTGAATGTGTA
1 TGAATTT-AATATGTA
* *
5335432 TGATTTTTATATGT-
1 TGAATTTAATATGTA
5335446 TGAATTTAAT-TGTA
1 TGAATTTAATATGTA
5335460 TGAATT
1 TGAATT
5335466 CCTATGGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 3 0.11
14 14 0.50
15 5 0.18
16 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (15 bp):
TGAATTTAATATGTA
Found at i:5335664 original size:41 final size:42
Alignment explanation
Indices: 5335568--5335676 Score: 150
Period size: 41 Copynumber: 2.6 Consensus size: 42
5335558 TGACAGTGGT
* *
5335568 ATATCTGGCTTATTGCCTAGCAGACTTTGATGCCGGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
*
5335610 ATATCAGGCTTATTGCCTAGCAGGCTTT-ATGCTGGTGTATTG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTA-TG
* *
5335652 A-ATCAGGTTTATTACCTAGCAGGCT
1 ATATCAGGCTTATTGCCTAGCAGGCT
5335677 CTGTGCCAGT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
41 32 0.52
42 29 0.48
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (42 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGGTGTATG
Found at i:5336718 original size:24 final size:25
Alignment explanation
Indices: 5336682--5336730 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
5336672 AATTTTTGTA
*
5336682 TTGATATGTGTATATATATATATAT
1 TTGATATGAGTATATATATATATAT
*
5336707 TTGA-ATGAGTATATATATCTATAT
1 TTGATATGAGTATATATATATATAT
5336731 GTGGATAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 18 0.82
25 4 0.18
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (25 bp):
TTGATATGAGTATATATATATATAT
Found at i:5343253 original size:14 final size:15
Alignment explanation
Indices: 5343204--5343253 Score: 50
Period size: 14 Copynumber: 3.4 Consensus size: 15
5343194 TAAACGTTAT
*
5343204 TGAATTTGAATGTGTA
1 TGAATTT-AATATGTA
* *
5343220 TGATTTTTATATGT-
1 TGAATTTAATATGTA
5343234 TGAATTTAAT-TGTA
1 TGAATTTAATATGTA
5343248 TGAATT
1 TGAATT
5343254 CCTATGGTTA
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
13 3 0.11
14 14 0.50
15 5 0.18
16 6 0.21
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (15 bp):
TGAATTTAATATGTA
Found at i:5343412 original size:42 final size:42
Alignment explanation
Indices: 5343355--5343464 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 42
5343345 TAACAGTGAT
*
5343355 ATATCAGGCTTATTGCCTAGCAGGTTTTGATGCCGATGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGATGTATG
* *
5343397 ATATCAGGCTTATTGCCTAGCAGACTTTGATGCCGGTGTATG
1 ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGATGTATG
* *
5343439 ATATTAGGTTTATTGCCTAGCAGGCT
1 ATATCAGGCTTATTGCCTAGCAGGCT
5343465 CTGTGCCAGT
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 62 1.00
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.35
Consensus pattern (42 bp):
ATATCAGGCTTATTGCCTAGCAGGCTTTGATGCCGATGTATG
Found at i:5343493 original size:42 final size:40
Alignment explanation
Indices: 5343359--5343498 Score: 140
Period size: 42 Copynumber: 3.4 Consensus size: 40
5343349 AGTGATATAT
*
5343359 CAGGCTTATTGCCTAGCAGGTTTTGATGCCGATGTATGATA
1 CAGGCTTATTGCCTAGCAGGCTTTGATGCCG-TGTATGATA
*
5343400 TCAGGCTTATTGCCTAGCAGACTTTGATGCCGGTGTATGATA
1 -CAGGCTTATTGCCTAGCAGGCTTTGATGCC-GTGTATGATA
* * * * *
5343442 TTAGGTTTATTGCCTAGCAGGCTCTG-TGCCAGTGTTTTATA
1 -CAGGCTTATTGCCTAGCAGGCTTTGATGCC-GTGTATGATA
5343483 CAAGGCTT-TATGCCTA
1 C-AGGCTTAT-TGCCTA
5343499 ATGAATTTTA
Statistics
Matches: 84, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
40 1 0.01
41 23 0.27
42 59 0.70
43 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.36
Consensus pattern (40 bp):
CAGGCTTATTGCCTAGCAGGCTTTGATGCCGTGTATGATA
Found at i:5345356 original size:15 final size:15
Alignment explanation
Indices: 5345304--5345357 Score: 56
Period size: 15 Copynumber: 3.7 Consensus size: 15
5345294 TTTATGGATT
*
5345304 AGTGTTTAGGGTATA
1 AGTGTTTAGGGTTTA
* * **
5345319 TGTTTTTAGAATTTA
1 AGTGTTTAGGGTTTA
5345334 AG-GTTTAGGGTTTA
1 AGTGTTTAGGGTTTA
5345348 AGTGTTTAGG
1 AGTGTTTAGG
5345358 TTTTTAAAAT
Statistics
Matches: 29, Mismatches: 9, Indels: 2
0.73 0.22 0.05
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.24, C:0.00, G:0.30, T:0.46
Consensus pattern (15 bp):
AGTGTTTAGGGTTTA
Found at i:5345383 original size:14 final size:14
Alignment explanation
Indices: 5345337--5345391 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
5345327 GAATTTAAGG
*
5345337 TTTAGGGTTTAAGTG
1 TTTAGGGTTTAA-TA
* *
5345352 TTTAGGTTTTTAAAA
1 TTTAGG-GTTTAATA
5345367 TTTAGGGTTTAATA
1 TTTAGGGTTTAATA
*
5345381 TTTAAGGTTTA
1 TTTAGGGTTTA
5345392 GGGGATTAGA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
14 16 0.48
15 12 0.36
16 5 0.15
ACGTcount: A:0.27, C:0.00, G:0.22, T:0.51
Consensus pattern (14 bp):
TTTAGGGTTTAATA
Found at i:5345385 original size:37 final size:36
Alignment explanation
Indices: 5345320--5345393 Score: 94
Period size: 37 Copynumber: 2.0 Consensus size: 36
5345310 TAGGGTATAT
* * *
5345320 GTTTTTAGAATTTAAGGTTTAGGGTTTAAGTGTTTAG
1 GTTTTTAAAATTTAAGGTTTAAGATTTAAG-GTTTAG
* *
5345357 GTTTTTAAAATTTAGGGTTTAATATTTAAGGTTTAG
1 GTTTTTAAAATTTAAGGTTTAAGATTTAAGGTTTAG
5345393 G
1 G
5345394 GGATTAGAGA
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
36 7 0.22
37 25 0.78
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (36 bp):
GTTTTTAAAATTTAAGGTTTAAGATTTAAGGTTTAG
Found at i:5345736 original size:29 final size:29
Alignment explanation
Indices: 5345681--5345742 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
5345671 TTTTTGCGGC
* ** *
5345681 GTTTGGACCAGAAACGCCGTTATTGCTCA
1 GTTTGGACCAAAAACGCCGCAACTGCTCA
*
5345710 GTTTGGACCAAAAACGCCGCAACTGCTTA
1 GTTTGGACCAAAAACGCCGCAACTGCTCA
5345739 GTTT
1 GTTT
5345743 TTAACGGTGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (29 bp):
GTTTGGACCAAAAACGCCGCAACTGCTCA
Found at i:5345820 original size:38 final size:41
Alignment explanation
Indices: 5345710--5345864 Score: 183
Period size: 41 Copynumber: 3.9 Consensus size: 41
5345700 TTATTGCTCA
* * * * * *
5345710 GTTTGGACCAAAAACGCCGCAACTGCTTAGTTTTTAACGGT
1 GTTTGGACCAAAAACGCCGCTATTACTCAGTTTTTAGCGGC
* * *
5345751 GTTTGTACCAAAAACGCCGCTATTACACAGTTTTTAGTGGC
1 GTTTGGACCAAAAACGCCGCTATTACTCAGTTTTTAGCGGC
5345792 G-TTGGTACC-AAAA-G-CGCTATTACTCAGTTTTTAGCGGC
1 GTTTGG-ACCAAAAACGCCGCTATTACTCAGTTTTTAGCGGC
*
5345830 GTTTGGACCAAAAACGCCGCTATTGCTCAGTTTTT
1 GTTTGGACCAAAAACGCCGCTATTACTCAGTTTTT
5345865 TGTGTTTGCG
Statistics
Matches: 96, Mismatches: 13, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
38 26 0.27
39 9 0.09
40 8 0.08
41 53 0.55
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.32
Consensus pattern (41 bp):
GTTTGGACCAAAAACGCCGCTATTACTCAGTTTTTAGCGGC
Found at i:5349163 original size:33 final size:33
Alignment explanation
Indices: 5349126--5349194 Score: 129
Period size: 33 Copynumber: 2.1 Consensus size: 33
5349116 GTGTTTTCAT
5349126 TTGTTTTACGATCTAAGCATAATCCTATTCAGG
1 TTGTTTTACGATCTAAGCATAATCCTATTCAGG
*
5349159 TTGTTTTACGATCTAAGCATAATCCTGTTCAGG
1 TTGTTTTACGATCTAAGCATAATCCTATTCAGG
5349192 TTG
1 TTG
5349195 AGAGTAATAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.25, C:0.17, G:0.17, T:0.41
Consensus pattern (33 bp):
TTGTTTTACGATCTAAGCATAATCCTATTCAGG
Found at i:5352684 original size:3 final size:3
Alignment explanation
Indices: 5352676--5352713 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
5352666 CCAATAACGT
5352676 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5352714 TAAAATGGAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5353876 original size:22 final size:23
Alignment explanation
Indices: 5353851--5353896 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
5353841 AAGAGGGGGG
5353851 ATCGATGGTATTTTGAGGA-AGA
1 ATCGATGGTATTTTGAGGAGAGA
* * *
5353873 ATCGGTTGTATTTTGGGGAGAGA
1 ATCGATGGTATTTTGAGGAGAGA
5353896 A
1 A
5353897 GAGATTGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.28, C:0.04, G:0.35, T:0.33
Consensus pattern (23 bp):
ATCGATGGTATTTTGAGGAGAGA
Found at i:5354572 original size:40 final size:39
Alignment explanation
Indices: 5354486--5354638 Score: 236
Period size: 39 Copynumber: 3.9 Consensus size: 39
5354476 ATAAAGTATG
*
5354486 GTTTTAATTAATAATAAAAACAAAATAGTAT-GGGGAATG
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAATA
5354525 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGGAATA
1 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAATA
*
5354565 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAGTA
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
* * *
5354604 GTTTTAATTAAAAATAAAACAAAGTAGCATGGGGG
1 GTTTTAATTAATAATAAAACAAAATAGTATGGGGG
5354639 GAGTGGAATC
Statistics
Matches: 108, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
39 86 0.80
40 22 0.20
ACGTcount: A:0.48, C:0.03, G:0.20, T:0.29
Consensus pattern (39 bp):
GTTTTAATTAATAATAAAACAAAATAGTATGGGGGAATA
Found at i:5354640 original size:79 final size:79
Alignment explanation
Indices: 5354486--5354638 Score: 238
Period size: 79 Copynumber: 1.9 Consensus size: 79
5354476 ATAAAGTATG
* *
5354486 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATGGTTTTAATTAATAATAAAAACAAAAT
1 GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATAGTTTTAATTAAAAATAAAAACAAAAT
*
5354551 AGTATGGGGGAATA
66 AGCATGGGGGAATA
* *
5354565 GTTTTAATTAATAAT-AAAACAAAATAGTATGGGGGAGTAGTTTTAATTAAAAAT-AAAACAAAG
1 GTTTTAATTAATAATAAAAACAAAATAGTAT-GGGGAATAGTTTTAATTAAAAATAAAAACAAAA
5354628 TAGCATGGGGG
65 TAGCATGGGGG
5354639 GAGTGGAATC
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
78 33 0.49
79 35 0.51
ACGTcount: A:0.48, C:0.03, G:0.20, T:0.29
Consensus pattern (79 bp):
GTTTTAATTAATAATAAAAACAAAATAGTATGGGGAATAGTTTTAATTAAAAATAAAAACAAAAT
AGCATGGGGGAATA
Found at i:5356576 original size:41 final size:42
Alignment explanation
Indices: 5356531--5356610 Score: 117
Period size: 41 Copynumber: 1.9 Consensus size: 42
5356521 AAATACAAAC
* * *
5356531 ATTAAAACATATATTAAAATAACAAATAAATT-AAAAATTAT
1 ATTAAAACAAATATTAAAACAACAAACAAATTGAAAAATTAT
*
5356572 ATTAAAATAAATATTAAAACAACAAACAAATTGAAAAAT
1 ATTAAAACAAATATTAAAACAACAAACAAATTGAAAAAT
5356611 AACTATATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
41 28 0.82
42 6 0.18
ACGTcount: A:0.65, C:0.06, G:0.01, T:0.28
Consensus pattern (42 bp):
ATTAAAACAAATATTAAAACAACAAACAAATTGAAAAATTAT
Found at i:5358174 original size:2 final size:2
Alignment explanation
Indices: 5358167--5358191 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5358157 CTCCATTAAT
5358167 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 T
5358192 TAATAATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5364906 original size:3 final size:3
Alignment explanation
Indices: 5364893--5364978 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
5364883 GAGGGCATAT
5364893 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
5364937 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
5364979 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 9 0.13
3 48 0.71
4 9 0.13
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:5364917 original size:12 final size:12
Alignment explanation
Indices: 5364893--5364975 Score: 73
Period size: 12 Copynumber: 6.8 Consensus size: 12
5364883 GAGGGCATAT
5364893 ATAATAT-AATA
1 ATAATATAAATA
5364904 ATAATATAAATA
1 ATAATATAAATA
5364916 ATAATATATACATGA
1 ATAATATA-A-AT-A
5364931 GA-AATA-ATAATA
1 -ATAATATA-AATA
5364943 ATAATATAAATA
1 ATAATATAAATA
* *
5364955 ATAGTAAAAATA
1 ATAATATAAATA
*
5364967 ATAAAATAA
1 ATAATATAA
5364976 TAAAACAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.13
12 37 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:5364937 original size:21 final size:18
Alignment explanation
Indices: 5364898--5364978 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
5364888 CATATATAAT
*
5364898 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
5364916 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
5364937 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
* *
5364955 ATAGTAAAAATA-ATAA-A
1 ATAATAATAATAGA-AATA
5364972 ATAATAA
1 ATAATAA
5364979 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 8 0.15
18 24 0.44
19 5 0.09
20 5 0.09
21 12 0.22
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:5364966 original size:27 final size:27
Alignment explanation
Indices: 5364893--5364979 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
5364883 GAGGGCATAT
* *
5364893 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* *
5364919 AT-ATATACAT--GAG-AAATAATAATA
1 ATAATATAAATAATAGTAAA-AATAATA
5364943 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
5364970 A-AATAATAAA
1 ATAAT-ATAAA
5364980 ACAAAGCTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 7 0.15
27 15 0.31
28 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:5365330 original size:21 final size:21
Alignment explanation
Indices: 5365306--5365405 Score: 78
Period size: 21 Copynumber: 4.7 Consensus size: 21
5365296 CAACCTTCTT
*
5365306 TCCAAAAAAACAAAAAACACC
1 TCCAAAAAAACAAAAAACTCC
5365327 TCCAAAAAATA-AAAAAACCTCC
1 TCCAAAAAA-ACAAAAAA-CTCC
* **
5365349 TCCAAAACAAAGAACAATCCTCC
1 TCCAAAA-AAACAA-AAAACTCC
* *
5365372 TCC-AAAAAACCAAAAACCCC
1 TCCAAAAAAACAAAAAACTCC
**
5365392 TCCCTAAAAACAAA
1 TCCAAAAAAACAAA
5365406 GTCTTGAATG
Statistics
Matches: 63, Mismatches: 10, Indels: 12
0.74 0.12 0.14
Matches are distributed among these distances:
20 8 0.13
21 27 0.43
22 15 0.24
23 11 0.17
24 2 0.03
ACGTcount: A:0.57, C:0.32, G:0.01, T:0.10
Consensus pattern (21 bp):
TCCAAAAAAACAAAAAACTCC
Found at i:5365333 original size:19 final size:19
Alignment explanation
Indices: 5365310--5365348 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
5365300 CTTCTTTCCA
*
5365310 AAAAAACAAAAAACACCTCC
1 AAAAAATAAAAAA-ACCTCC
5365330 AAAAAATAAAAAAACCTCC
1 AAAAAATAAAAAAACCTCC
5365349 TCCAAAACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.67, C:0.26, G:0.00, T:0.08
Consensus pattern (19 bp):
AAAAAATAAAAAAACCTCC
Found at i:5365342 original size:22 final size:21
Alignment explanation
Indices: 5365306--5365355 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
5365296 CAACCTTCTT
*
5365306 TCCAAAAAAACAAAAAACACC
1 TCCAAAAAAAAAAAAAACACC
* *
5365327 TCCAAAAAATAAAAAAACCTCC
1 TCCAAAAAA-AAAAAAAACACC
5365349 TCCAAAA
1 TCCAAAA
5365356 CAAAGAACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 9 0.36
22 16 0.64
ACGTcount: A:0.62, C:0.28, G:0.00, T:0.10
Consensus pattern (21 bp):
TCCAAAAAAAAAAAAAACACC
Found at i:5366098 original size:132 final size:132
Alignment explanation
Indices: 5365980--5367251 Score: 2001
Period size: 132 Copynumber: 9.6 Consensus size: 132
5365970 TCTTCGATCC
*** * * * *
5365980 GTTCCCTATAAGCACAGGGATGCCAAAT-CTGTTGTTTTCAACTTG-TTCCCTATAAGCACAGGG
1 GTTCCCTATAAGCACAGGGATGCC--ATGCTGAAATTTTGAACTTGCTTCACTGTAAGCACAGGA
* * * * * * * *
5366043 ATGCCAAATCTGATGTTTTCAACTTGTTCCGTATAAGCACAGGGATGCCAAATCTGATGTTTTCA
64 ATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCA
5366108 ACTT
129 ACTT
* *
5366112 GTTCCCTATAAGCACAGGGATGCCATGATGAAATCTTTGATC-TGCTTCACTGTAAGCACAGGAA
1 GTTCCCTATAAGCACAGGGATGCCATGCTGAAAT-TTTGAACTTGCTTCACTGTAAGCACAGGAA
5366176 TGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAA
65 TGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAA
5366241 CTT
130 CTT
* *
5366244 GTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATC-TGCTTCACTGTAAGCACAGGAA
1 GTTCCCTATAAGCACAGGGATGCCATGCTGAAAT-TTTGAACTTGCTTCACTGTAAGCACAGGAA
5366308 TGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAA
65 TGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAA
5366373 CTT
130 CTT
* *
5366376 GTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTGGA-TCTGCTTCACTGTAAGCACAGGAA
1 GTTCCCTATAAGCACAGGGATGCCATGCTGAAATTTTGAACT-TGCTTCACTGTAAGCACAGGAA
* *
5366440 TGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAA
65 TGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAA
5366505 CTT
130 CTT
*
5366508 GTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC-TGCTTCACTGTAAGCACAGGAA
1 GTTCCCTATAAGCACAGGGATGCCATGCTGAAAT-TTTGAACTTGCTTCACTGTAAGCACAGGAA
*
5366572 TGTCAGATCTACTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAA
65 TGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAA
5366637 CTT
130 CTT
*
5366640 GTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC-TGCTTCACTGTAAGCACAGGAA
1 GTTCCCTATAAGCACAGGGATGCCATGCTGAAAT-TTTGAACTTGCTTCACTGTAAGCACAGGAA
*
5366704 TGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAA
65 TGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAA
5366769 CTT
130 CTT
* *
5366772 GTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATC-TGCTTCACTGTAAGCACAGGAA
1 GTTCCCTATAAGCACAGGGATGCCATGCTGAAAT-TTTGAACTTGCTTCACTGTAAGCACAGGAA
* *
5366836 TGTCAGATCTGCTATATTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAA
65 TGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAA
5366901 CTT
130 CTT
*
5366904 GTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC-TGCTTCACTGTAAGCACAGGAA
1 GTTCCCTATAAGCACAGGGATGCCATGCTGAAAT-TTTGAACTTGCTTCACTGTAAGCACAGGAA
*
5366968 TGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCATAGGGATGCCAAATCTGATGTTTTCAA
65 TGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAA
5367033 CTT
130 CTT
*
5367036 GTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATC-TGCTTCACTGTAAGCACAGGAA
1 GTTCCCTATAAGCACAGGGATGCCATGCTGAAAT-TTTGAACTTGCTTCACTGTAAGCACAGGAA
*
5367100 TGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATCCCAAATCT-ATTGTTTTCA
65 TGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGA-TGTTTTCA
5367164 ACTT
129 ACTT
* * * *
5367168 GTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTGGA-TCTGTTTCAATGTAAGCACAGGAA
1 GTTCCCTATAAGCACAGGGATGCCATGCTGAAATTTTGAACT-TGCTTCACTGTAAGCACAGGAA
5367232 TGTCAGATCTGCTATCTTCG
65 TGTCAGATCTGCTATCTTCG
5367252 GTCTGCTCCT
Statistics
Matches: 1082, Mismatches: 48, Indels: 20
0.94 0.04 0.02
Matches are distributed among these distances:
130 2 0.00
131 11 0.01
132 1066 0.99
133 3 0.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (132 bp):
GTTCCCTATAAGCACAGGGATGCCATGCTGAAATTTTGAACTTGCTTCACTGTAAGCACAGGAAT
GTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAAC
TT
Found at i:5366344 original size:264 final size:264
Alignment explanation
Indices: 5366066--5367251 Score: 2212
Period size: 264 Copynumber: 4.5 Consensus size: 264
5366056 TGTTTTCAAC
*
5366066 TTGTTCCGTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
*
5366131 ATGCCATGATGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
5366196 ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
131 ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
5366261 GGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTT
196 GGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTT
5366326 CGAT
261 CGAT
5366330 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
* *
5366395 ATGCCATGCTGAAATCTTGGATCTGCTTCACTGTAAGCACAGGAATGCCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
*
5366460 ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAG
131 ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
* *
5366525 GGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTACTATCTT
196 GGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTT
5366590 CGAT
261 CGAT
5366594 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
5366659 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
*
5366724 ATCTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
131 ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
*
5366789 GGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATATT
196 GGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTT
5366854 CGAT
261 CGAT
*
5366858 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGCTGTTTTCAACTTGTTCCCTATAAGCACAGGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
5366923 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
66 ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
*
5366988 ATTTGTTCCCTATAAGCATAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
131 ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
*
5367053 GGATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTT
196 GGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTT
5367118 CGAT
261 CGAT
*
5367122 TTGTTCCCTATAAGCACAGGGATCCCAAATCT-ATTGTTTTCAACTTGTTCCCTATAAGCACAGG
1 TTGTTCCCTATAAGCACAGGGATGCCAAATCTGA-TGTTTTCAACTTGTTCCCTATAAGCACAGG
* * *
5367186 GATGCCATGCTGAAATCTTGGATCTGTTTCAATGTAAGCACAGGAATGTCAGATCTGCTATCTTC
65 GATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTC
5367251 G
130 G
5367252 GTCTGCTCCT
Statistics
Matches: 897, Mismatches: 24, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
264 897 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.32
Consensus pattern (264 bp):
TTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGG
ATGCCATGCTGAAATCTTTGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCG
ATTTGTTCCCTATAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCCTATAAGCACAG
GGATGCCATGCTGAAATCTTCGATCTGCTTCACTGTAAGCACAGGAATGTCAGATCTGCTATCTT
CGAT
Found at i:5366589 original size:396 final size:396
Alignment explanation
Indices: 5366032--5367251 Score: 2235
Period size: 396 Copynumber: 3.1 Consensus size: 396
5366022 TTGTTCCCTA
* * * * * * * *
5366032 TAAGCACAGGGATGCCAAATCTGATGTTTTCAACTTGTTCCGTATAAGCACAGGGATGCCAAATC
1 TAAGCACAGGAATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATC
* *
5366097 TGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGATGAAATCTTTGATCTGCTTCAC
66 TGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCAC
5366162 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAA
131 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAA
*
5366227 TCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCTTC
196 TCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTC
5366292 ACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCA
261 ACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCA
5366357 AATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTGGATCTGCT
326 AATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTGGATCTGCT
5366422 TCACTG
391 TCACTG
5366428 TAAGCACAGGAATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATC
1 TAAGCACAGGAATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATC
5366493 TGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCAC
66 TGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCAC
*
5366558 TGTAAGCACAGGAATGTCAGATCTACTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAA
131 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAA
5366623 TCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTC
196 TCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTC
*
5366688 ACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATCTGTTCCCTATAAGCACAGGGATGCCA
261 ACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCA
*
5366753 AATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTCGATCTGCT
326 AATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTGGATCTGCT
5366818 TCACTG
391 TCACTG
* *
5366824 TAAGCACAGGAATGTCAGATCTGCTATATTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATC
1 TAAGCACAGGAATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATC
5366889 TGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCAC
66 TGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCAC
*
5366954 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCATAGGGATGCCAAA
131 TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAA
5367019 TCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTC
196 TCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTC
*
5367084 ACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATCCCA
261 ACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCA
*
5367149 AATCT-ATTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTGGATCTGT
326 AATCTGA-TGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTGGATCTGC
*
5367213 TTCAATG
390 TTCACTG
*
5367220 TAAGCACAGGAATGTCAGATCTGCTATCTTCG
1 TAAGCACAGGAATGCCAGATCTGCTATCTTCG
5367252 GTCTGCTCCT
Statistics
Matches: 799, Mismatches: 24, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
395 1 0.00
396 798 1.00
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (396 bp):
TAAGCACAGGAATGCCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAATC
TGCTGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTCAC
TGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCAAA
TCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTTGATCTGCTTC
ACTGTAAGCACAGGAATGTCAGATCTGCTATCTTCGATTTGTTCCCTATAAGCACAGGGATGCCA
AATCTGATGTTTTCAACTTGTTCCCTATAAGCACAGGGATGCCATGCTGAAATCTTGGATCTGCT
TCACTG
Found at i:5367389 original size:68 final size:69
Alignment explanation
Indices: 5367304--5367491 Score: 267
Period size: 68 Copynumber: 2.8 Consensus size: 69
5367294 TCTTCTTCCA
* * *
5367304 CTGAAACTTCAAGGAGATCTGCTTTGGCTTTTAGCCTCTCCAATGCCATTTCT-GGAAGAAGAGG
1 CTGAAACTTCAAGGAGATCTGCTTTGGCTTTTAGCCGCTCCAATGCCATTTCTAGGAAGAAAAGA
*
5367368 T-TT
66 TCCT
* *
5367371 GCTGAAACTTCAAAGAGATCTG-TTGTGGCTTTTAGCCGCTCCAACGCCATTT-TAGGAAGAAAA
1 -CTGAAACTTCAAGGAGATCTGCTT-TGGCTTTTAGCCGCTCCAATGCCATTTCTAGGAAGAAAA
5367434 GATCCT
64 GATCCT
*
5367440 CTGAAACTTCAAGGAGATCTGCTGTGGCTTTTAGCCGCTCCAATGCCATTTC
1 CTGAAACTTCAAGGAGATCTGCTTTGGCTTTTAGCCGCTCCAATGCCATTTC
5367492 AGGGAAAAAG
Statistics
Matches: 106, Mismatches: 9, Indels: 9
0.85 0.07 0.07
Matches are distributed among these distances:
67 3 0.03
68 101 0.95
69 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.22, T:0.30
Consensus pattern (69 bp):
CTGAAACTTCAAGGAGATCTGCTTTGGCTTTTAGCCGCTCCAATGCCATTTCTAGGAAGAAAAGA
TCCT
Found at i:5367702 original size:88 final size:88
Alignment explanation
Indices: 5367515--5367853 Score: 289
Period size: 88 Copynumber: 3.9 Consensus size: 88
5367505 TTTGTAATTT
* * * * * * * * *
5367515 TCAGCCTGTTACCCTACTACTTAGGGGTTTAAGGCCTAT-CATCCTC-GATCTATTTCCCAACTG
1 TCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAAT-TTCAG-TCTGTTACCCTACTG
5367578 CTTAAGGGG-TTAAGATCTGTAAAT-
64 CTT-AGGGGATTAAGATCTGTAAATC
* * * *
5367602 TCAACCTGTTACCCTACTGGTTAGGGGGTTAAGGTTTGTAAATCTTCAGCCTGTTACCCTACTGC
1 TCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAAT-TTCAGTCTGTTACCCTACTGC
* *
5367667 TTAGGGGTTTAAG-GCTTGTAAATC
65 TTAGGGGATTAAGATC-TGTAAATC
* * * *** ** * *
5367691 -CGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTTA-TCTGTTTCCCTACTGC
1 TCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGT-AAATTTCAGTCTGTTACCCTACTGC
*
5367754 TTAGGGGGTTAAGATCTGTAAATC
65 TTAGGGGATTAAGATCTGTAAATC
* * * *
5367778 TTCAGCCAGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAA-TTCGGTTTGTTACCCTACTGC
1 -TCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTTCAGTCTGTTACCCTACTGC
5367842 TTAGGGGATTAA
65 TTAGGGGATTAA
5367854 AGCCCATCAT
Statistics
Matches: 197, Mismatches: 45, Indels: 19
0.75 0.17 0.07
Matches are distributed among these distances:
87 74 0.38
88 90 0.46
89 33 0.17
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.35
Consensus pattern (88 bp):
TCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTTGTAAATTTCAGTCTGTTACCCTACTGCT
TAGGGGATTAAGATCTGTAAATC
Found at i:5367743 original size:132 final size:132
Alignment explanation
Indices: 5367607--5367902 Score: 493
Period size: 132 Copynumber: 2.2 Consensus size: 132
5367597 TAAATTCAAC
* * * * *
5367607 CTGTTACCCTACTGGTTAGGGGGTTAAGGTTTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCTACTGCTTAGG
* * **
5367672 GGTTTAAGGCTTGTAAATCCGGCTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTT
66 GGTTTAAGGCTTGTAAATCCGGCTTGTTACCCTACTGCTTAGGGGATTAAAGCCCATCATCTTCG
5367737 AT
131 AT
5367739 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCTACTGCTTAGG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCTACTGCTTAGG
* *
5367804 GGTTTAAGGCTTGTAAATTCGGTTTGTTACCCTACTGCTTAGGGGATTAAAGCCCATCATCTTCG
66 GGTTTAAGGCTTGTAAATCCGGCTTGTTACCCTACTGCTTAGGGGATTAAAGCCCATCATCTTCG
5367869 AT
131 AT
5367871 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT
5367903 TCATCTTCGA
Statistics
Matches: 153, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 153 1.00
ACGTcount: A:0.20, C:0.21, G:0.23, T:0.36
Consensus pattern (132 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCTACTGCTTAGG
GGTTTAAGGCTTGTAAATCCGGCTTGTTACCCTACTGCTTAGGGGATTAAAGCCCATCATCTTCG
AT
Found at i:5367834 original size:175 final size:174
Alignment explanation
Indices: 5367520--5368069 Score: 544
Period size: 175 Copynumber: 3.2 Consensus size: 174
5367510 AATTTTCAGC
* * * * * * *
5367520 CTGTTACCCTACTACTTAGGGGTTTAAGGCCTATCATCCTCGATCTATTTCCCAACTGCTTAAGG
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCTACTGCTTAGGG
* * *
5367585 GGTTAAGATCTGTAAA--TTCAACCTGTTACCCTACTGGTTAGGGGGTTAAGGTTTGTAAATCTT
66 GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTA-GGGGTTAAGGATTGTAAA--TT
* * *** *
5367648 CAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATC-CG-G
128 CGGTCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCAT-AATCTCGAT
* ** *
5367694 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTTATCTGTTTCCCTACTGCTTAGG
1 C-TGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCTACTGCTTAGG
* *
5367759 GGGTTAAGATCTGTAAATCTTCAGCCAGTTACCCTACTGCTTAGGGGTTTAAGGCTTGTAAATTC
65 GGGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGG-TTAAGGATTGTAAATTC
* * * *
5367824 GGTTTGTTACCCTACTGCTTAGGGGATTAAAGCCCATCATCTTCGAT
129 GGTCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATAATC-TCGAT
* ** * *
5367871 CTGTTTCCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGATCTATTTCCCTACTGCTTAGGT
1 CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCTACTGCTTAGGG
* * * * *
5367935 GGTTAAGATCT-T-CATCTTC-GATCTGTTTCCCTACTGCTTAGGGAGATAA-GATCTG-CAATT
66 GGTTAAGATCTGTAAATCTTCAG-CCTGTTACCCTACTGCTTAGGG-GTTAAGGAT-TGTAAATT
* * * * **
5367995 CGGTCTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
128 CGGTCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATAATC-TCGAT
*
5368043 CTGTTTCCCTACTGCTTAGGGGGTTAA
1 CTGTTACCCTACTGCTTAGGGGGTTAA
5368070 GATCTGTAAA
Statistics
Matches: 316, Mismatches: 49, Indels: 23
0.81 0.13 0.06
Matches are distributed among these distances:
172 72 0.23
173 31 0.10
174 6 0.02
175 143 0.45
176 29 0.09
177 35 0.11
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (174 bp):
CTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATCTTCGATCTATTTCCCTACTGCTTAGGG
GGTTAAGATCTGTAAATCTTCAGCCTGTTACCCTACTGCTTAGGGGTTAAGGATTGTAAATTCGG
TCTGTTACCCTACTGCTTAGGGGTTTAAGGCCCATAATCTCGAT
Found at i:5368071 original size:44 final size:43
Alignment explanation
Indices: 5367520--5368115 Score: 371
Period size: 43 Copynumber: 13.7 Consensus size: 43
5367510 AATTTTCAGC
* * * ** *
5367520 CTGTTACCCTACTACTTAGGGGTTTAAGGCCTATCATCCTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-TCATCTTCGAT
* * * ** * *
5367564 CTATTTCCCAACTGCTTAAGGGGTTAAGATCTGT-AAATTCAAC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-TCATCTTCGAT
* * * * * *
5367607 CTGTTACCCTACTGGTTAGGGGGTTAAGGTTTGTAAATCTTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-T
* * * * ** * *
5367652 CTGTTACCCTACTGCTTAGGGGTTTAAG-GCTTGTAAATCCG-G
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTT-CATCTTCGAT
* ** * * **
5367694 CTTGTTACCCTACTGCTTAGGGGGTTAAAGCCCATCATTTTTTAT
1 C-TGTTTCCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGAT
* *
5367739 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AGC
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGA-T
* * * * * ** *
5367784 CAGTTACCCTACTGCTTAGGGGTTTAAG-GCTTGTAAATTCGGT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTT-CATCTTCGAT
* * * ** *
5367827 TTGTTACCCTACTGCTTAGGGGATTAAAGCCCATCATCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTT-AAGATCTTCATCTTCGAT
5367871 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
* *
5367914 CTATTTCCCTACTGCTTAGGTGGTTAAGATCTTCATCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
* * * * *
5367957 CTGTTTCCCTACTGCTTAGGGAGATAAGATCTGCA-ATTCGGT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
* * * * * *
5367999 CTGTTACCCTACCGATTAGGGGTTTAAGACCCTTCGTCTTCGAT
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGA-TCTTCATCTTCGAT
* *
5368043 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTGTAAATCTTC-AG
1 CTGTTTCCCTACTGCTTAGGGGGTTAAGATCT-T-CATCTTCGAT
* * *
5368087 CTTGTTACCCTATTGCTTAGGGGCTTAAG
1 C-TGTTTCCCTACTGCTTAGGGGGTTAAG
5368116 GCTTGTGAAT
Statistics
Matches: 426, Mismatches: 107, Indels: 37
0.75 0.19 0.06
Matches are distributed among these distances:
42 29 0.07
43 180 0.42
44 123 0.29
45 94 0.22
ACGTcount: A:0.20, C:0.22, G:0.21, T:0.36
Consensus pattern (43 bp):
CTGTTTCCCTACTGCTTAGGGGGTTAAGATCTTCATCTTCGAT
Found at i:5369485 original size:6 final size:6
Alignment explanation
Indices: 5369472--5369501 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
5369462 TTTTTTTTTT
*
5369472 TTTGCC TTTACC TTTGCC TTTGCC TTTGCC
1 TTTGCC TTTGCC TTTGCC TTTGCC TTTGCC
5369502 ATATAACTCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.03, C:0.33, G:0.13, T:0.50
Consensus pattern (6 bp):
TTTGCC
Found at i:5372312 original size:19 final size:20
Alignment explanation
Indices: 5372288--5372334 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
5372278 AGTGAAAGTT
5372288 TAATGCAAATGT-TGCAATG
1 TAATGCAAATGTATGCAATG
*
5372307 TAATGCAAATGTATGGAATG
1 TAATGCAAATGTATGCAATG
5372327 -AATGCAAA
1 TAATGCAAA
5372335 AGAAAGGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 20 0.77
20 6 0.23
ACGTcount: A:0.43, C:0.09, G:0.21, T:0.28
Consensus pattern (20 bp):
TAATGCAAATGTATGCAATG
Found at i:5375047 original size:3 final size:3
Alignment explanation
Indices: 5375034--5375119 Score: 65
Period size: 3 Copynumber: 28.3 Consensus size: 3
5375024 GAGGGCATAT
5375034 ATA AT- ATA ATA ATA AT- ATAA ATA ATA ATA TATA CATGA GA-A ATA
1 ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA
* *
5375078 ATA ATA ATA AT- ATAA ATA ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
5375120 AACAAAGCTC
Statistics
Matches: 68, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
2 9 0.13
3 48 0.71
4 9 0.13
5 2 0.03
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:5375058 original size:12 final size:12
Alignment explanation
Indices: 5375034--5375116 Score: 73
Period size: 12 Copynumber: 6.8 Consensus size: 12
5375024 GAGGGCATAT
5375034 ATAATAT-AATA
1 ATAATATAAATA
5375045 ATAATATAAATA
1 ATAATATAAATA
5375057 ATAATATATACATGA
1 ATAATATA-A-AT-A
5375072 GA-AATA-ATAATA
1 -ATAATATA-AATA
5375084 ATAATATAAATA
1 ATAATATAAATA
* *
5375096 ATAGTAAAAATA
1 ATAATATAAATA
*
5375108 ATAAAATAA
1 ATAATATAA
5375117 TAAAACAAAG
Statistics
Matches: 60, Mismatches: 5, Indels: 13
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.13
12 37 0.62
13 4 0.07
14 5 0.08
15 5 0.08
16 1 0.02
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATATAAATA
Found at i:5375078 original size:21 final size:18
Alignment explanation
Indices: 5375039--5375119 Score: 76
Period size: 18 Copynumber: 4.4 Consensus size: 18
5375029 CATATATAAT
*
5375039 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
5375057 ATAATATATACATGAGAAATA
1 ATAATA-ATA-AT-AGAAATA
*
5375078 ATAATAATAATATAAATA
1 ATAATAATAATAGAAATA
* *
5375096 ATAGTAAAAATA-ATAA-A
1 ATAATAATAATAGA-AATA
5375113 ATAATAA
1 ATAATAA
5375120 AACAAAGCTC
Statistics
Matches: 54, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
17 8 0.15
18 24 0.44
19 5 0.09
20 5 0.09
21 12 0.22
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (18 bp):
ATAATAATAATAGAAATA
Found at i:5375107 original size:27 final size:27
Alignment explanation
Indices: 5375034--5375120 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 27
5375024 GAGGGCATAT
* *
5375034 ATAATAT-AATAATAATATAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
* *
5375060 AT-ATATACAT--GAG-AAATAATAATA
1 ATAATATAAATAATAGTAAA-AATAATA
5375084 ATAATATAAATAATAGTAAAAATAATA
1 ATAATATAAATAATAGTAAAAATAATA
5375111 A-AATAATAAA
1 ATAAT-ATAAA
5375121 ACAAAGCTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 13
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.04
24 10 0.21
25 11 0.23
26 7 0.15
27 15 0.31
28 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.03, T:0.30
Consensus pattern (27 bp):
ATAATATAAATAATAGTAAAAATAATA
Found at i:5375474 original size:21 final size:22
Alignment explanation
Indices: 5375450--5375546 Score: 78
Period size: 21 Copynumber: 4.5 Consensus size: 22
5375440 CTTCTTTCCA
5375450 AAAAAACAAAAAAA-CACCTCC
1 AAAAAACAAAAAAACCACCTCC
* *
5375471 AAAAAATAAAAAAACCTCCTCC
1 AAAAAACAAAAAAACCACCTCC
*
5375493 --AAAACAAAGAACAATCCTCCTCC
1 AAAAAACAAA-AA-AA-CCACCTCC
*
5375516 AAAAAAC-CAAAAACC-CCTCCC
1 AAAAAACAAAAAAACCACCT-CC
*
5375537 TAAAAACAAA
1 AAAAAACAAA
5375547 GTCTTGAATG
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
20 10 0.16
21 25 0.40
22 11 0.18
23 10 0.16
24 1 0.02
25 5 0.08
ACGTcount: A:0.59, C:0.31, G:0.01, T:0.09
Consensus pattern (22 bp):
AAAAAACAAAAAAACCACCTCC
Found at i:5375474 original size:22 final size:22
Alignment explanation
Indices: 5375446--5375546 Score: 91
Period size: 22 Copynumber: 4.6 Consensus size: 22
5375436 CAACCTTCTT
* *
5375446 TCCAAAAAAACAAAAAAACACC
1 TCCAAAAAAACAAAAAACCTCC
5375468 TCCAAAAAATA-AAAAAACCTCC
1 TCCAAAAAA-ACAAAAAACCTCC
* * *
5375490 TCCAAAACAAAGAACAATCCTCC
1 TCCAAAA-AAACAAAAAACCTCC
*
5375513 TCC-AAAAAACCAAAAACC-CC
1 TCCAAAAAAACAAAAAACCTCC
**
5375533 TCCCTAAAAACAAA
1 TCCAAAAAAACAAA
5375547 GTCTTGAATG
Statistics
Matches: 65, Mismatches: 10, Indels: 9
0.77 0.12 0.11
Matches are distributed among these distances:
20 5 0.08
21 16 0.25
22 29 0.45
23 15 0.23
ACGTcount: A:0.57, C:0.32, G:0.01, T:0.10
Consensus pattern (22 bp):
TCCAAAAAAACAAAAAACCTCC
Found at i:5376549 original size:46 final size:46
Alignment explanation
Indices: 5376467--5376680 Score: 233
Period size: 46 Copynumber: 4.6 Consensus size: 46
5376457 GTGCCAATGC
5376467 CATGTCCCAGACATGGTCTTACACT-GAC-TATCATCTCGTAGCCGATG
1 CATGTCCCAGACAT-GTCTTACACTAG-CTTA-CATCTCGTAGCCGATG
* * *
5376514 CATGTCCCAGACATGCCTTACACTGGCTTACATCTCG-AGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTA-GCCGATG
* *
5376560 CATGTCCCAGACATGTCTTACACTAGCACT-CGTCTCAGT-GCCGATG
1 CATGTCCCAGACATGTCTTACACTAGC-TTACATCTC-GTAGCCGATG
* * *
5376606 CCATGTCCCAGACATGGTCTTACACTAGCTTCCATAAT-GTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTTACAT-CTCGTAGCCGATG
5376654 CATGTCCCAGACATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
5376681 ACACACAAGT
Statistics
Matches: 146, Mismatches: 10, Indels: 23
0.82 0.06 0.13
Matches are distributed among these distances:
45 1 0.01
46 72 0.49
47 50 0.34
48 22 0.15
49 1 0.01
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTTACATCTCGTAGCCGATG
Found at i:5376667 original size:94 final size:93
Alignment explanation
Indices: 5376467--5376683 Score: 282
Period size: 94 Copynumber: 2.3 Consensus size: 93
5376457 GTGCCAATGC
5376467 CATGTCCCAGACATGGTCTTACACT-G-ACTATCATCTCGTAGCCGATGCATGTCCCAGACATGC
1 CATGTCCCAGACAT-GTCTTACACTAGCAC-ATCATCTCGTAGCCGATGCATGTCCCAGACATGC
* * *
5376530 CTTACACTGGCTTACATCTCGAGGCTGATG
64 CTTACACTAGCTTACATATCGAGGCCGATG
*
5376560 CATGTCCCAGACATGTCTTACACTAGCAC-TCGTCTCAGT-GCCGATGCCATGTCCCAGACATGG
1 CATGTCCCAGACATGTCTTACACTAGCACATCATCTC-GTAGCCGATG-CATGTCCCAGACAT-G
* * *
5376623 TCTTACACTAGCTTCCATAAT-GTGGCCGATG
63 CCTTACACTAGCTTACAT-ATCGAGGCCGATG
5376654 CATGTCCCAGACATGTCTTACACTAGCACA
1 CATGTCCCAGACATGTCTTACACTAGCACA
5376684 CACAAGTGAC
Statistics
Matches: 110, Mismatches: 7, Indels: 12
0.85 0.05 0.09
Matches are distributed among these distances:
92 23 0.21
93 31 0.28
94 55 0.50
95 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (93 bp):
CATGTCCCAGACATGTCTTACACTAGCACATCATCTCGTAGCCGATGCATGTCCCAGACATGCCT
TACACTAGCTTACATATCGAGGCCGATG
Found at i:5377037 original size:30 final size:30
Alignment explanation
Indices: 5376996--5377052 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
5376986 ATTCACATCT
*
5376996 TTGGTAAAATGACCATTTTGCCCCTAGACA
1 TTGGCAAAATGACCATTTTGCCCCTAGACA
*
5377026 TTGGCAAAATGACCATTTTGCTCCTAG
1 TTGGCAAAATGACCATTTTGCCCCTAG
5377053 GCTTGAAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.32
Consensus pattern (30 bp):
TTGGCAAAATGACCATTTTGCCCCTAGACA
Found at i:5384646 original size:19 final size:19
Alignment explanation
Indices: 5384622--5384660 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
5384612 AAGAACTTTC
5384622 CAGCAAGTTCATCCCATAT
1 CAGCAAGTTCATCCCATAT
5384641 CAGCAAGTTCATCCCATAT
1 CAGCAAGTTCATCCCATAT
5384660 C
1 C
5384661 GTGATAGATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.33, G:0.10, T:0.26
Consensus pattern (19 bp):
CAGCAAGTTCATCCCATAT
Found at i:5385611 original size:17 final size:18
Alignment explanation
Indices: 5385592--5385625 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
5385582 GGTTTTTATA
5385592 AAAATAAA-AA-TAAAAT
1 AAAATAAAGAACTAAAAT
5385608 AAAATAAAGAACTAAAAT
1 AAAATAAAGAACTAAAAT
5385626 TTGAGATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 2 0.12
18 6 0.38
ACGTcount: A:0.76, C:0.03, G:0.03, T:0.18
Consensus pattern (18 bp):
AAAATAAAGAACTAAAAT
Found at i:5391043 original size:18 final size:18
Alignment explanation
Indices: 5391020--5391058 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
5391010 TATTATTTTT
*
5391020 AAATATA-TATAATACATC
1 AAATATACTA-AAAACATC
5391038 AAATATACTAAAAACATC
1 AAATATACTAAAAACATC
5391056 AAA
1 AAA
5391059 AAATATTTCC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 17 0.89
19 2 0.11
ACGTcount: A:0.62, C:0.13, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATATACTAAAAACATC
Found at i:5391184 original size:30 final size:30
Alignment explanation
Indices: 5391143--5391201 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
5391133 TAACAAGCAA
5391143 ATGCCTCTAAAATAATAAAAAAATAAACAG
1 ATGCCTCTAAAATAATAAAAAAATAAACAG
* * * *
5391173 ATGCCTTTAAAATTATAACAAAATTAACA
1 ATGCCTCTAAAATAATAAAAAAATAAACA
5391202 ATAAAATAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.56, C:0.14, G:0.05, T:0.25
Consensus pattern (30 bp):
ATGCCTCTAAAATAATAAAAAAATAAACAG
Found at i:5393000 original size:42 final size:42
Alignment explanation
Indices: 5392935--5393029 Score: 163
Period size: 42 Copynumber: 2.2 Consensus size: 42
5392925 CAAAACTATT
5392935 TTAAACAAAGGAGATTAACAATTATGATGATCCACTTAAAGTG
1 TTAAACAAA-GAGATTAACAATTATGATGATCCACTTAAAGTG
*
5392978 TTAATCAAAGAGATTAACAATTATGATGATCCACTTAAAGTG
1 TTAAACAAAGAGATTAACAATTATGATGATCCACTTAAAGTG
*
5393020 TTAACCAAAG
1 TTAAACAAAG
5393030 TTTTTAAAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
42 42 0.84
43 8 0.16
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (42 bp):
TTAAACAAAGAGATTAACAATTATGATGATCCACTTAAAGTG
Found at i:5393210 original size:2 final size:2
Alignment explanation
Indices: 5393203--5393227 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5393193 ATAAAGACAT
5393203 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 T
5393228 TTCATGTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5399098 original size:2 final size:2
Alignment explanation
Indices: 5399091--5399115 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5399081 TGTACGTAAA
5399091 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 A
5399116 AATAGTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5399241 original size:19 final size:21
Alignment explanation
Indices: 5399202--5399241 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
5399192 TAATGTTAAA
*
5399202 ATATATATAATATATACATAT
1 ATATATATAATATATAAATAT
5399223 ATATATATAA-A-ATAAATAT
1 ATATATATAATATATAAATAT
5399242 TGAAAAATGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 1 0.06
21 10 0.56
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (21 bp):
ATATATATAATATATAAATAT
Found at i:5399589 original size:3 final size:3
Alignment explanation
Indices: 5399531--5399580 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
5399521 AAGTACCTAT
5399531 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
5399579 TA
1 TA
5399581 GCAATAATAG
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:5399835 original size:101 final size:101
Alignment explanation
Indices: 5399730--5400040 Score: 354
Period size: 101 Copynumber: 3.1 Consensus size: 101
5399720 ATATATAATA
*
5399730 AAAATATACACTAATATTTATAAATAATAATAGTAAATGTAATAATAATAATAATAATATAGAAA
1 AAAATATACACTAATATTTATAAATAATAATAGTAAATATAATAATAATAATAATAATATAGAAA
*
5399795 TTCAAAAAAGTAAACATAATATAATGATATTAAAAT
66 TTCAAAAAAATAAACATAATATAATGATATTAAAAT
*
5399831 AAAATATACACTAATATTTATAAATAATAATAGTAAATATAATAGTAATAATAATAATAATA-AT
1 AAAATATACACTAATATTTATAAATAATAATAGTAAATATAATAATAATAATAATAAT-ATAGA-
*
5399895 AA-T-AATAATGATAATAATA-ATAATATTAA-GTATAGTATAAAT
64 AATTCAA-AA--A-AATAA-ACATAATA-TAATG-ATATTA-AAAT
* * * * *
5399937 AATATGTACA-TAACAGTAAT-AATAAT-A-AGTAACA-ATAATAATAATAATAATAATATAGAA
1 AAAATATACACTAATATTTATAAATAATAATAGTAA-ATATAATAATAATAATAATAATATAGAA
*
5399997 ATTCAAAAAAACTAAACATAATATAATAATATTAAAAT
65 ATTCAAAAAAA-TAAACATAATATAATGATATTAAAAT
5400035 AAAATA
1 AAAATA
5400041 ATTTAAAAAA
Statistics
Matches: 179, Mismatches: 14, Indels: 37
0.78 0.06 0.16
Matches are distributed among these distances:
98 8 0.04
99 11 0.06
100 12 0.07
101 65 0.36
102 33 0.18
103 5 0.03
104 17 0.09
105 16 0.09
106 12 0.07
ACGTcount: A:0.60, C:0.04, G:0.05, T:0.32
Consensus pattern (101 bp):
AAAATATACACTAATATTTATAAATAATAATAGTAAATATAATAATAATAATAATAATATAGAAA
TTCAAAAAAATAAACATAATATAATGATATTAAAAT
Found at i:5399861 original size:3 final size:3
Alignment explanation
Indices: 5399853--5399991 Score: 122
Period size: 3 Copynumber: 45.3 Consensus size: 3
5399843 AATATTTATA
* *
5399853 AAT AAT AAT AGT AA- ATAT AAT AGT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
5399898 AAT AAT GAT AAT AAT AAT AAT ATT AAGT -AT AGT -AT AAAT AAT ATGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT -AAT AAT A-AT
* * *
5399944 ACAT AAC AGT AAT AAT AAT AAGT AAC AAT AAT AAT AAT AAT AAT AAT
1 A-AT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
5399991 A
1 A
5399992 TAGAAATTCA
Statistics
Matches: 109, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
2 3 0.03
3 95 0.87
4 11 0.10
ACGTcount: A:0.60, C:0.02, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5400049 original size:16 final size:16
Alignment explanation
Indices: 5400016--5400048 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
5400006 AACTAAACAT
*
5400016 AATATAATAATATTAA
1 AATAAAATAATATTAA
5400032 AATAAAATAAT-TTAA
1 AATAAAATAATATTAA
5400047 AA
1 AA
5400049 AATACTATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATAAAATAATATTAA
Found at i:5400617 original size:19 final size:20
Alignment explanation
Indices: 5400593--5400637 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
5400583 CATTTGGTGA
5400593 GGAGAGAAGGAA-AAAAAAG
1 GGAGAGAAGGAAGAAAAAAG
* *
5400612 GGAGAGAAGGAAGAGAGAAG
1 GGAGAGAAGGAAGAAAAAAG
5400632 GGAGAG
1 GGAGAG
5400638 GGAAGAGGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.52
20 11 0.48
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (20 bp):
GGAGAGAAGGAAGAAAAAAG
Found at i:5406852 original size:2 final size:2
Alignment explanation
Indices: 5406841--5406880 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
5406831 TCGGCCTGAT
5406841 TA TA -A 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 TA TA TA T
5406881 CTTTTTGACA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:5409801 original size:45 final size:43
Alignment explanation
Indices: 5409717--5409807 Score: 112
Period size: 45 Copynumber: 2.1 Consensus size: 43
5409707 AATTAATATT
*
5409717 TATTACTTAAAAATATTTAAAATTTATATTTTATATATTAAAA
1 TATTAATTAAAAATATTTAAAATTTATATTTTATATATTAAAA
* * *
5409760 TATTAATTAAAATATAGTTTATAATTTTTTATTTTCT-TATTAAAA
1 TATTAATTAAAA-ATA-TTTA-AAATTTATATTTTATATATTAAAA
5409805 TAT
1 TAT
5409808 AAAAATTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 11 0.27
44 3 0.07
45 15 0.37
46 12 0.29
ACGTcount: A:0.44, C:0.02, G:0.01, T:0.53
Consensus pattern (43 bp):
TATTAATTAAAAATATTTAAAATTTATATTTTATATATTAAAA
Found at i:5410212 original size:27 final size:27
Alignment explanation
Indices: 5410174--5410227 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
5410164 AAAATCTGAT
*
5410174 TTGTCATACAATCCTTTCTTATGTGCC
1 TTGTCATACAATCCTTTCTCATGTGCC
5410201 TTGTCATACAATCCTTTCTCATGTGCC
1 TTGTCATACAATCCTTTCTCATGTGCC
5410228 AACATGTTAG
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:0.19, C:0.28, G:0.11, T:0.43
Consensus pattern (27 bp):
TTGTCATACAATCCTTTCTCATGTGCC
Found at i:5411799 original size:42 final size:42
Alignment explanation
Indices: 5411735--5411834 Score: 114
Period size: 42 Copynumber: 2.4 Consensus size: 42
5411725 CTTTTCGTTT
* * * *
5411735 AGCTCTCACGAGCTTCTATTTAACTCATATGAG-TTTCCGTTC
1 AGCTCTTATGAGCTTCTATTTAACCCATATG-GTTTTCCATTC
* *
5411777 AGCTC-TATTGAGCTTCTGTTTAACCCTTATGGTTTTCCATTC
1 AGCTCTTA-TGAGCTTCTATTTAACCCATATGGTTTTCCATTC
5411819 AGCTCTTATGAGCTTC
1 AGCTCTTATGAGCTTC
5411835 AGTTCAACCC
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
41 2 0.04
42 45 0.92
43 2 0.04
ACGTcount: A:0.19, C:0.25, G:0.15, T:0.41
Consensus pattern (42 bp):
AGCTCTTATGAGCTTCTATTTAACCCATATGGTTTTCCATTC
Found at i:5411840 original size:21 final size:21
Alignment explanation
Indices: 5411816--5411872 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 21
5411806 TGGTTTTCCA
5411816 TTCAGCTCTTATGAGCTTCAG
1 TTCAGCTCTTATGAGCTTCAG
* * * * **
5411837 TTCAACCCTTATGGGTTTTTG
1 TTCAGCTCTTATGAGCTTCAG
*
5411858 TTTAGCTCTTATGAG
1 TTCAGCTCTTATGAG
5411873 ATTTTGTTTA
Statistics
Matches: 26, Mismatches: 10, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (21 bp):
TTCAGCTCTTATGAGCTTCAG
Found at i:5411844 original size:42 final size:43
Alignment explanation
Indices: 5411768--5411872 Score: 135
Period size: 42 Copynumber: 2.5 Consensus size: 43
5411758 CTCATATGAG
* *
5411768 TTTCCGTTCAGCTC-TATTGAGCTTCTGTTTAACCCTTAT-GGT
1 TTTCCGTTCAGCTCTTA-TGAGCTTCAGTTCAACCCTTATGGGT
*
5411810 TTTCCATTCAGCTCTTATGAGCTTCAGTTCAACCCTTATGGGT
1 TTTCCGTTCAGCTCTTATGAGCTTCAGTTCAACCCTTATGGGT
* *
5411853 TTT-TGTTTAGCTCTTATGAG
1 TTTCCGTTCAGCTCTTATGAG
5411873 ATTTTGTTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
42 47 0.85
43 8 0.15
ACGTcount: A:0.16, C:0.22, G:0.17, T:0.45
Consensus pattern (43 bp):
TTTCCGTTCAGCTCTTATGAGCTTCAGTTCAACCCTTATGGGT
Found at i:5411877 original size:21 final size:21
Alignment explanation
Indices: 5411844--5411884 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
5411834 CAGTTCAACC
* *
5411844 CTTATGGGTTTTTGTTTAGCT
1 CTTATGAGATTTTGTTTAGCT
5411865 CTTATGAGATTTTGTTTAGC
1 CTTATGAGATTTTGTTTAGC
5411885 CTTCAGGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.15, C:0.10, G:0.22, T:0.54
Consensus pattern (21 bp):
CTTATGAGATTTTGTTTAGCT
Found at i:5429186 original size:18 final size:18
Alignment explanation
Indices: 5429163--5429204 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
5429153 GGCAAGTGCA
5429163 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
5429181 TATCCTAACCTTTATATG
1 TATCCTAACCCTTATATG
*
5429199 TTTCCT
1 TATCCT
5429205 TTTCCTAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.24, C:0.26, G:0.05, T:0.45
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:5429639 original size:29 final size:29
Alignment explanation
Indices: 5429607--5429705 Score: 92
Period size: 32 Copynumber: 3.3 Consensus size: 29
5429597 TTTCATTTAA
*
5429607 TAAAACCTAATTTATTTATTTAAAACCTT
1 TAAAACCTAATTTATTTATTTAAAAACTT
* *
5429636 TAAAACCTAATTTAATTATTTTAAAAAAACTC
1 TAAAACCTAATTTATTTA-TTT--AAAAACTT
* * **
5429668 TAAACCCTAATTTGTTT-TTTAAAATTTT
1 TAAAACCTAATTTATTTATTTAAAAACTT
*
5429696 TAAACCCTAA
1 TAAAACCTAA
5429706 ATAAATAAAA
Statistics
Matches: 58, Mismatches: 9, Indels: 7
0.78 0.12 0.09
Matches are distributed among these distances:
28 15 0.26
29 17 0.29
30 6 0.10
32 20 0.34
ACGTcount: A:0.42, C:0.14, G:0.01, T:0.42
Consensus pattern (29 bp):
TAAAACCTAATTTATTTATTTAAAAACTT
Found at i:5435425 original size:13 final size:13
Alignment explanation
Indices: 5435409--5435436 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
5435399 TGCTGTGGAA
5435409 AAGTACTTTTGAG
1 AAGTACTTTTGAG
5435422 AAGTACTTTTGAG
1 AAGTACTTTTGAG
5435435 AA
1 AA
5435437 ATGCTTTGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (13 bp):
AAGTACTTTTGAG
Found at i:5436073 original size:19 final size:19
Alignment explanation
Indices: 5436045--5436117 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
5436035 AAGAATTAGA
* *
5436045 AAAAAAATATAAAAAAGGT
1 AAAAATATATAAAAAATGT
5436064 AAAAATATATATAAAAGATTGT
1 AAAAATATATA-AAAA-A-TGT
* * *
5436086 AAAATTTTATAAAAATTGT
1 AAAAATATATAAAAAATGT
5436105 AAAAAT-TATAAAA
1 AAAAATATATAAAA
5436118 TATATAGAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
18 7 0.16
19 18 0.40
20 4 0.09
21 5 0.11
22 11 0.24
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (19 bp):
AAAAATATATAAAAAATGT
Found at i:5436380 original size:18 final size:19
Alignment explanation
Indices: 5436339--5436394 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
5436329 GTCATCAATT
*
5436339 GTTTTATAATTTTTATAAA
1 GTTTTACAATTTTTATAAA
*
5436358 GTTTTACAATTTTT-TATA
1 GTTTTACAATTTTTATAAA
* *
5436376 TTTTTACGATTTTTATAAA
1 GTTTTACAATTTTTATAAA
5436395 AAATTTCTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
18 15 0.48
19 16 0.52
ACGTcount: A:0.32, C:0.04, G:0.05, T:0.59
Consensus pattern (19 bp):
GTTTTACAATTTTTATAAA
Found at i:5436484 original size:48 final size:48
Alignment explanation
Indices: 5436384--5436486 Score: 120
Period size: 48 Copynumber: 2.1 Consensus size: 48
5436374 TATTTTTACG
** * *
5436384 ATTTTTATAAAAAATTTCTAATTTTTCATAAATTTTAAATTTTTTTAT
1 ATTTTTATAAAAAATTAATAATTTTTCATAAAATTTAAATTTTTATAT
* *
5436432 ATTTTTATTAAAAATTAATAATTTTTC-TAAAATTTATGATTTATTATA-
1 ATTTTTATAAAAAATTAATAATTTTTCATAAAATTTA-AATTT-TTATAT
5436480 ATTTTTA
1 ATTTTTA
5436487 ATAAGAACAG
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
47 8 0.17
48 35 0.74
49 4 0.09
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (48 bp):
ATTTTTATAAAAAATTAATAATTTTTCATAAAATTTAAATTTTTATAT
Found at i:5436706 original size:7 final size:7
Alignment explanation
Indices: 5436694--5436723 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
5436684 ATTTTTTTAA
5436694 AAAGAAG
1 AAAGAAG
5436701 AAAGAAG
1 AAAGAAG
*
5436708 AAAGAAA
1 AAAGAAG
5436715 AAAGAAG
1 AAAGAAG
5436722 AA
1 AA
5436724 TTTTTACACC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (7 bp):
AAAGAAG
Found at i:5436968 original size:20 final size:20
Alignment explanation
Indices: 5436939--5436985 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
5436929 TTTTAAATAA
* *
5436939 TATATATATATATATATATT
1 TATATTTATATATATAAATT
*
5436959 TATATTTATATTTATAAATT
1 TATATTTATATATATAAATT
5436979 TATATTT
1 TATATTT
5436986 TATGAAGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATATTTATATATATAAATT
Found at i:5436979 original size:14 final size:13
Alignment explanation
Indices: 5436935--5436985 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 13
5436925 TGAATTTTAA
* *
5436935 ATAATATATATAT
1 ATAATTTATATTT
*
5436948 AT-ATATATATTT
1 ATAATTTATATTT
5436960 AT-ATTTATATTT
1 ATAATTTATATTT
5436972 ATAAATTTATATTT
1 AT-AATTTATATTT
5436986 TATGAAGCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
12 22 0.65
13 2 0.06
14 10 0.29
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (13 bp):
ATAATTTATATTT
Found at i:5436985 original size:6 final size:6
Alignment explanation
Indices: 5436941--5436985 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
5436931 TTAAATAATA
* *
5436941 TATATA TATATA TATATT TATATT TATATT TATAAATT TATATT T
1 TATATT TATATT TATATT TATATT TATATT TAT--ATT TATATT T
5436986 TATGAAGCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
6 30 0.83
8 6 0.17
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (6 bp):
TATATT
Found at i:5449060 original size:22 final size:22
Alignment explanation
Indices: 5449025--5449074 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
5449015 ACAGTTTCAA
* *
5449025 CACACGGGCGTGTGG-GAGTAGC
1 CACACAGGCATGTGGAG-GTAGC
5449047 CACACAGGCATGTGGAGGTAGC
1 CACACAGGCATGTGGAGGTAGC
5449069 CACACA
1 CACACA
5449075 CGGGCTAACC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.26, C:0.26, G:0.36, T:0.12
Consensus pattern (22 bp):
CACACAGGCATGTGGAGGTAGC
Found at i:5456652 original size:2 final size:2
Alignment explanation
Indices: 5456645--5456678 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5456635 TTTACAAGTA
5456645 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
5456679 TCTTATTCTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5456863 original size:16 final size:15
Alignment explanation
Indices: 5456844--5456895 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 15
5456834 GTCTTTTAAA
5456844 ATTTATATAATTTTAT
1 ATTTA-ATAATTTTAT
5456860 ATTTAGATAATTTTTCAT
1 ATTTA-ATAA-TTTT-AT
5456878 ATATTAATAA-TTTAT
1 AT-TTAATAATTTTAT
5456893 ATT
1 ATT
5456896 ATCAAGATTT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
14 1 0.03
15 4 0.12
16 12 0.38
17 4 0.12
18 8 0.25
19 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (15 bp):
ATTTAATAATTTTAT
Found at i:5456887 original size:18 final size:17
Alignment explanation
Indices: 5456844--5456890 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
5456834 GTCTTTTAAA
*
5456844 ATTTATATAA-TTTTAT
1 ATTTAGATAATTTTTAT
5456860 ATTTAGATAATTTTTCAT
1 ATTTAGATAATTTTT-AT
5456878 ATATTA-ATAATTT
1 AT-TTAGATAATTT
5456891 ATATTATCAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
16 9 0.33
17 4 0.15
18 11 0.41
19 3 0.11
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (17 bp):
ATTTAGATAATTTTTAT
Found at i:5463182 original size:3 final size:3
Alignment explanation
Indices: 5463174--5463217 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
5463164 TAACTTTCAT
5463174 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
5463218 TAAATACCTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:5463995 original size:19 final size:16
Alignment explanation
Indices: 5463971--5464009 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 16
5463961 TTTTGTTTCT
5463971 TTTTCAATTGTTTAATAAG
1 TTTTCAA-T-TTTAA-AAG
5463990 TTTTCAATTTTAAAAG
1 TTTTCAATTTTAAAAG
5464006 TTTT
1 TTTT
5464010 TGCCTCCTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 7 0.35
17 5 0.25
18 1 0.05
19 7 0.35
ACGTcount: A:0.31, C:0.05, G:0.08, T:0.56
Consensus pattern (16 bp):
TTTTCAATTTTAAAAG
Found at i:5464832 original size:21 final size:20
Alignment explanation
Indices: 5464808--5464857 Score: 64
Period size: 22 Copynumber: 2.4 Consensus size: 20
5464798 ATTTATAACA
* *
5464808 TATTCAATTCTCATCTCTTGC
1 TATTCAAATCTCAT-ACTTGC
5464829 TATTTCAAATCTCATACTTGC
1 TA-TTCAAATCTCATACTTGC
5464850 TATTCAAA
1 TATTCAAA
5464858 GAGCTTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 9 0.35
22 11 0.42
ACGTcount: A:0.28, C:0.24, G:0.04, T:0.44
Consensus pattern (20 bp):
TATTCAAATCTCATACTTGC
Found at i:5465069 original size:37 final size:40
Alignment explanation
Indices: 5464982--5465070 Score: 103
Period size: 40 Copynumber: 2.3 Consensus size: 40
5464972 GTTTGGTACT
* *
5464982 CAGTACCTCATCGGATAATTCAAAGTAATAATTTGACACC
1 CAGTGCCTCATCGGATAAATCAAAGTAATAATTTGACACC
* * * *
5465022 CAGTGTCTCATCGGCTAAATCGAAGT-A-AA-TTGGCACC
1 CAGTGCCTCATCGGATAAATCAAAGTAATAATTTGACACC
5465059 CAGTGCCTCATC
1 CAGTGCCTCATC
5465071 AAATTAATCT
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
37 18 0.43
38 2 0.05
39 1 0.02
40 21 0.50
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (40 bp):
CAGTGCCTCATCGGATAAATCAAAGTAATAATTTGACACC
Found at i:5466474 original size:14 final size:14
Alignment explanation
Indices: 5466426--5466476 Score: 59
Period size: 14 Copynumber: 3.5 Consensus size: 14
5466416 CATAAAATCA
*
5466426 AAAATAAAAATAAAT
1 AAAATAAATA-AAAT
5466441 AAAAATAAATAAAA-
1 -AAAATAAATAAAAT
5466455 ATAAATAAATAAAAT
1 A-AAATAAATAAAAT
5466470 AAAATAA
1 AAAATAA
5466477 GATTTTCCTA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
13 1 0.03
14 18 0.56
15 4 0.12
16 9 0.28
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAATAAATAAAAT
Found at i:5466474 original size:24 final size:25
Alignment explanation
Indices: 5466417--5466476 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
5466407 CTAATTTAAC
5466417 ATAAAATCAAAAATAAAAATAAATAAA
1 ATAAAAT-AAAAAT-AAAATAAATAAA
5466444 A-ATAAATAAAAAT-AAATAAATAAA
1 ATA-AAATAAAAATAAAATAAATAAA
5466468 ATAAAATAA
1 ATAAAATAA
5466477 GATTTTCCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
24 18 0.58
25 1 0.03
26 7 0.23
27 5 0.16
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (25 bp):
ATAAAATAAAAATAAAATAAATAAA
Found at i:5466476 original size:10 final size:10
Alignment explanation
Indices: 5466427--5466473 Score: 78
Period size: 10 Copynumber: 4.8 Consensus size: 10
5466417 ATAAAATCAA
5466427 AAATAAAAAT
1 AAATAAAAAT
5466437 AAATAAAAAT
1 AAATAAAAAT
5466447 AAATAAAAAT
1 AAATAAAAAT
*
5466457 AAATAAATA-
1 AAATAAAAAT
5466466 AAATAAAA
1 AAATAAAA
5466474 TAAGATTTTC
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
9 7 0.20
10 28 0.80
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (10 bp):
AAATAAAAAT
Found at i:5467334 original size:9 final size:9
Alignment explanation
Indices: 5467320--5467353 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
5467310 TAATTTCTTA
5467320 TTTCTTTTC
1 TTTCTTTTC
*
5467329 TTTCTTCTC
1 TTTCTTTTC
5467338 TTTCTTTTC
1 TTTCTTTTC
5467347 TTTCTTT
1 TTTCTTT
5467354 ATTTCATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTCTTTTC
Found at i:5468515 original size:5 final size:5
Alignment explanation
Indices: 5468505--5468536 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
5468495 TTGTGTGTTC
5468505 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
5468537 TCATAAATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:5468519 original size:9 final size:9
Alignment explanation
Indices: 5468505--5468535 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
5468495 TTGTGTGTTC
5468505 TTTATTTTA
1 TTTATTTTA
5468514 TTTATTTTA
1 TTTATTTTA
5468523 TTTTATTTTA
1 -TTTATTTTA
5468533 TTT
1 TTT
5468536 TTCATAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:5472953 original size:5 final size:5
Alignment explanation
Indices: 5472943--5472974 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
5472933 TTGTGTGTTC
5472943 TTTAT TTTA- TTTAT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTAT TTT
5472975 TCACAGTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:5472957 original size:9 final size:9
Alignment explanation
Indices: 5472943--5472973 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
5472933 TTGTGTGTTC
5472943 TTTATTTTA
1 TTTATTTTA
5472952 TTTATTTTA
1 TTTATTTTA
5472961 TTTTATTTTA
1 -TTTATTTTA
5472971 TTT
1 TTT
5472974 TTCACAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 12 0.57
10 9 0.43
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTATTTTA
Found at i:5474048 original size:158 final size:158
Alignment explanation
Indices: 5473532--5475023 Score: 1585
Period size: 144 Copynumber: 9.7 Consensus size: 158
5473522 AAATATTAAA
* * *
5473532 ATATTGTATCAACGGATACATATCGATACATA-CATATATAAATTGATATTGATAAAAACATATC
1 ATATTGTATCAACGGATACAGATCGATACATACCA-ATATAAATCGATATTGATCAAAACATATC
* * * *
5473596 AATAAATACATATCTCGAGATACGAGAATGATTTTTGTTCCCCGCATTTTCTCACCATTTTTTAT
65 AATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATCAATTTTT-T
*
5473661 TTTATTTTGAAAGATGTTTTGCATCATTTT
129 TTTATTTTGAAAGATGTTTCGCATCATTTT
* * * *
5473691 ATATTGTATAAATGGATACAGAT---T-GAT----ATAT--ACCGATATTGATCAAAACATATCA
1 ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAAACATATCA
**
5473746 ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCAT-AAAATTTTTT
66 ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATCAATTTTTTTT
*
5473810 TATTTTGTAAGATGTTTCGCATCATTTT
131 TATTTTGAAAGATGTTTCGCATCATTTT
* * * * * *
5473838 ATATTGTATTAACAGATATAGATTGATACATACCGATATAAATCGATATTGATCAAAACATATAA
1 ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAAACATATCA
* * *
5473903 ATAAATACATATCTCGAGATACGAAAATAATTTTTGTTCCCCGCATTTTTTCATCAATTTTTTTT
66 ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATCAATTTTTTTT
*
5473968 TATTTT-AAACGATGTTTCGCATGATTTT
131 TATTTTGAAA-GATGTTTCGCATCATTTT
* * * *
5473996 ATATTGTATCAATGGATATAGATTGGTACATACCAATATAAATCGATATTG--------------
1 ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAAACATATCA
* *
5474047 ATAAATACATATCTCGAGATACGAGAATGATTTTTGTTCCCTGCATTTTCTCATCATTTTTTTTT
66 ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATCAATTTTTTTT
*
5474112 TATTTTGAAAGATGTTTCGCATGATTTT
131 TATTTTGAAAGATGTTTCGCATCATTTT
* ** *
5474140 ATATTGTATCAACGGATACAGATTGATACATATAAATATAAATCGATATTGATCAAAACATATTA
1 ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAAACATATCA
* * * *
5474205 AAAAATACATATCTTGAGATACGAGAATAATTTTTGTTCTCTGCATTTCCTCATC-A-----TTT
66 ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATCAATTTTTTTT
*
5474264 T-TTTTGAAAGATGTTTTGCATCA-TTT
131 TATTTTGAAAGATGTTTCGCATCATTTT
* * **
5474290 ATATTGTATCAACGGATATAGATCAATACATACTGATATAAATCGATATTGAT-AAACACATATC
1 ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAA-ACATATC
* * * *
5474354 AATAAATACATATCTTGATATGCGAGAATAATTTTTGTTCTCTGCATTTTCTCATC-ATTTTTTA
65 AATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATCAATTTTTT-
*** * * *
5474418 AAAAAATTTTGAAAGATGTTTCACTTGATTTT
129 --TTTATTTTGAAAGATGTTTCGCATCATTTT
* * * * * * *
5474450 ATATTGTATCAACGGATACATATTGACAGATTCCGATATAAATCGATATTGATCAAAACATATTA
1 ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAAACATATCA
* *
5474515 ATAAATACATATCTTGAGATACGTGAATAATTTTTGTT--CT-CA-----TCAT---TTTTTTTT
66 ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATCAATTTTTTTT
*
5474569 TCATTTTGAAAGATGTTTCGCATCATTTC
131 T-ATTTTGAAAGATGTTTCGCATCATTTT
* * * * *
5474598 ATATTGTATCAACGAATAAAGATCAATACATATCGATATAAATCGATATTGAT-AAACACATATC
1 ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAA-ACATATC
* * * * * *
5474662 AATAAATACATACCTTGAGATACAAGAATGATTTTTGTTCCTTGCATTTTCTCATCTTTTTATTT
65 AATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATC----AATTT
* * *
5474727 TATTTTATTTTGAAAGATGTTTCGCATGATTTC
126 TTTTTTATTTTGAAAGATGTTTCGCATCATTTT
* * * * * *
5474760 ATATTGTATCAACAGATACAGATCGATCCATACCTATATAAATCAATATTGATCAAGACATATTA
1 ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAAACATATCA
*
5474825 ATAAATATCTATAT-T-GAGATACGAGAATAATTTTTGTTCCCTGCATTTTTCTCATAAATTTTT
66 ATAAATA-C-ATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCA-TTTTCTCATCAA-TTTT
*
5474888 TATTTTATTTTGAAAGATGTTTTGCATCATTTT
127 T-TTTTATTTTGAAAGATGTTTCGCATCATTTT
** * * * *
5474921 ATATTGTATCAATAGATACAGATCGATGCATACTAATATAAAAT-TATATTGATAAAAACATATC
1 ATATTGTATCAACGGATACAGATCGATACATACCAATAT-AAATCGATATTGATCAAAACATATC
* * *
5474985 AATAAATACATATATCGAGATATGAGAATGATTTTTGTT
65 AATAAATACATATCTCGAGATACGAGAATAATTTTTGTT
5475024 TTCCATATTT
Statistics
Matches: 1132, Mismatches: 136, Indels: 128
0.81 0.10 0.09
Matches are distributed among these distances:
144 130 0.11
145 3 0.00
147 51 0.05
148 112 0.10
149 75 0.07
150 117 0.10
151 28 0.02
152 8 0.01
155 7 0.01
156 5 0.00
157 77 0.07
158 129 0.11
159 43 0.04
160 96 0.08
161 111 0.10
162 116 0.10
163 21 0.02
164 3 0.00
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (158 bp):
ATATTGTATCAACGGATACAGATCGATACATACCAATATAAATCGATATTGATCAAAACATATCA
ATAAATACATATCTCGAGATACGAGAATAATTTTTGTTCCCTGCATTTTCTCATCAATTTTTTTT
TATTTTGAAAGATGTTTCGCATCATTTT
Found at i:5474504 original size:310 final size:309
Alignment explanation
Indices: 5473532--5475045 Score: 1583
Period size: 310 Copynumber: 4.9 Consensus size: 309
5473522 AAATATTAAA
* * ** * * *
5473532 ATATTGTATCAACGGATACATATCGATACATACATATATAAATTGATATTGATAAAAACATATCA
1 ATATTGTATCAACGGATACAGATTGATACATACCGATATAAATCGATATTGATCAAAACATATTA
* * * * *
5473597 ATAAATACATATCTCGAGATACGAGAATGATTTTTGTTCCCCGCATTTTCTCACCATTTTTTATT
66 ATAAATACATATCTTGAGATACGAGAATAATTTTTGTTCCCTGCA-TTTC-C-TCA----TCATT
* *
5473662 TTATTTTGAAAGATGTTTTGCATCATTTTATATTGTAT--A---A-AT-G---GATACAGATTGA
124 TTATTTTGAAAGATGTTTTGCATCATTTTATATTGTATCAACGGATATAGATCGATACATACTGA
* * *
5473717 TATATACCGATATTGATCAAAACATATCAATAAATACATATCTCGAGATACGAGAATAATTTTTG
189 TATAAATCGATATTGAT-AAAACATATCAATAAATACATATCTCGAGATACGAGAATGATTTTTG
*** * *
5473782 TTCCCTGCATTTTCTCAT-AAAATTTTTTTATTTTGTAAGATGTTTCGCATCATTTT
253 TTCCCTGCATTTTCTCATCATTTTTTTTTTATTTTGAAAGATGTTTCGCATGATTTT
* * * *
5473838 ATATTGTATTAACAGATATAGATTGATACATACCGATATAAATCGATATTGATCAAAACATATAA
1 ATATTGTATCAACGGATACAGATTGATACATACCGATATAAATCGATATTGATCAAAACATATTA
* * * **
5473903 ATAAATACATATCTCGAGATACGAAAATAATTTTTGTTCCCCGCATTTTTTCATCAATTTTTTTT
66 ATAAATACATATCTTGAGATACGAGAATAATTTTTGTTCCCTGCATTTCCTCATC-A-----TTT
* * * * * **
5473968 TATTTT-AAACGATGTTTCGCATGATTTTATATTGTATCAATGGATATAGATTGGTACATACCAA
125 TATTTTGAAA-GATGTTTTGCATCATTTTATATTGTATCAACGGATATAGATCGATACATACTGA
5474032 TATAAATCGATATTG-------------ATAAATACATATCTCGAGATACGAGAATGATTTTTGT
189 TATAAATCGATATTGATAAAACATATCAATAAATACATATCTCGAGATACGAGAATGATTTTTGT
5474084 TCCCTGCATTTTCTCATCATTTTTTTTTTATTTTGAAAGATGTTTCGCATGATTTT
254 TCCCTGCATTTTCTCATCATTTTTTTTTTATTTTGAAAGATGTTTCGCATGATTTT
***
5474140 ATATTGTATCAACGGATACAGATTGATACATATAAATATAAATCGATATTGATCAAAACATATTA
1 ATATTGTATCAACGGATACAGATTGATACATACCGATATAAATCGATATTGATCAAAACATATTA
* *
5474205 AAAAATACATATCTTGAGATACGAGAATAATTTTTGTTCTCTGCATTTCCTCATCATTTT-TTTT
66 ATAAATACATATCTTGAGATACGAGAATAATTTTTGTTCCCTGCATTTCCTCATCATTTTATTTT
*
5474269 GAAAGATGTTTTGCATCA-TTTATATTGTATCAACGGATATAGATCAATACATACTGATATAAAT
131 GAAAGATGTTTTGCATCATTTTATATTGTATCAACGGATATAGATCGATACATACTGATATAAAT
* * * * *
5474333 CGATATTGATAAACACATATCAATAAATACATATCTTGATATGCGAGAATAATTTTTGTTCTCTG
196 CGATATTGATAAA-ACATATCAATAAATACATATCTCGAGATACGAGAATGATTTTTGTTCCCTG
**** * *
5474398 CATTTTCTCATCATTTTTTAAAAAAATTTTGAAAGATGTTTCACTTGATTTT
260 CATTTTCTCATCATTTTTT--TTTTATTTTGAAAGATGTTTCGCATGATTTT
* * * *
5474450 ATATTGTATCAACGGATACATATTGACAGATTCCGATATAAATCGATATTGATCAAAACATATTA
1 ATATTGTATCAACGGATACAGATTGATACATACCGATATAAATCGATATTGATCAAAACATATTA
* * *
5474515 ATAAATACATATCTTGAGATACGTGAATAATTTTTGTTCTCAT-CATTT--T--T-TTTTTCATT
66 ATAAATACATATCTTGAGATACGAGAATAATTTTTGTTC-CCTGCATTTCCTCATCATTTT-ATT
* * * * *
5474574 TTGAAAGATGTTTCGCATCATTTCATATTGTATCAACGAATAAAGATCAATACATA-TCGATATA
129 TTGAAAGATGTTTTGCATCATTTTATATTGTATCAACGGATATAGATCGATACATACT-GATATA
* * *
5474638 AATCGATATTGATAAACACATATCAATAAATACATACCTTGAGATACAAGAATGATTTTTGTTCC
193 AATCGATATTGATAAA-ACATATCAATAAATACATATCTCGAGATACGAGAATGATTTTTGTTCC
* * *
5474703 TTGCATTTTCTCATCTTTTTATTTTATTTTATTTTGAAAGATGTTTCGCATGATTTC
257 CTGCATTTTCTCATC--ATT-TTTT-TTTTATTTTGAAAGATGTTTCGCATGATTTT
* * * * * *
5474760 ATATTGTATCAACAGATACAGATCGATCCATACCTATATAAATCAATATTGATCAAGACATATTA
1 ATATTGTATCAACGGATACAGATTGATACATACCGATATAAATCGATATTGATCAAAACATATTA
* * *
5474825 ATAAATATC-TATATTGAGATACGAGAATAATTTTTGTTCCCTGCATTTTTCTCATAAATTTTTT
66 ATAAATA-CATATCTTGAGATACGAGAATAATTTTTGTTCCCTGCA--TTTC-C-T-CA----TC
** * *
5474889 ATTTTATTTTGAAAGATGTTTTGCATCATTTTATATTGTATCAATAGATACAGATCGATGCATAC
121 ATTTTATTTTGAAAGATGTTTTGCATCATTTTATATTGTATCAACGGATATAGATCGATACATAC
* * * *
5474954 TAATATAAAAT-TATATTGATAAAAACATATCAATAAATACATATATCGAGATATGAGAATGATT
186 TGATAT-AAATCGATATTGAT-AAAACATATCAATAAATACATATCTCGAGATACGAGAATGATT
*
5475018 TTTGTTTTCCAT--ATTTTCTCATCATTTT
249 TTTG--TTCCCTGCATTTTCTCATCATTTT
5475046 ATATTATTGA
Statistics
Matches: 1018, Mismatches: 126, Indels: 114
0.81 0.10 0.09
Matches are distributed among these distances:
294 48 0.05
295 16 0.02
296 7 0.01
299 1 0.00
300 1 0.00
301 54 0.05
302 139 0.14
303 2 0.00
304 3 0.00
305 41 0.04
306 99 0.10
307 23 0.02
308 169 0.17
309 2 0.00
310 245 0.24
311 8 0.01
312 4 0.00
315 20 0.02
316 1 0.00
320 2 0.00
321 2 0.00
323 114 0.11
324 12 0.01
325 5 0.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (309 bp):
ATATTGTATCAACGGATACAGATTGATACATACCGATATAAATCGATATTGATCAAAACATATTA
ATAAATACATATCTTGAGATACGAGAATAATTTTTGTTCCCTGCATTTCCTCATCATTTTATTTT
GAAAGATGTTTTGCATCATTTTATATTGTATCAACGGATATAGATCGATACATACTGATATAAAT
CGATATTGATAAAACATATCAATAAATACATATCTCGAGATACGAGAATGATTTTTGTTCCCTGC
ATTTTCTCATCATTTTTTTTTTATTTTGAAAGATGTTTCGCATGATTTT
Found at i:5474602 original size:148 final size:152
Alignment explanation
Indices: 5473715--5475023 Score: 1026
Period size: 161 Copynumber: 8.5 Consensus size: 152
5473705 GATACAGATT
* * * *
5473715 GATATATACCGATATTGATCAAAACATATCAATAAATACATATCTCGAGATACGAGAATAATTTT
1 GATATAAATCGATATTGATCAAAACATATCAATAAATACATATATTGAGATACGAGAATAATTTT
*** * *
5473780 TGTTCCCTGCATTTTCTCATAAAATTT-TTTTATTTTGTAAGATGTTTCGCATCATTTTATATTG
66 TGTT-CCTGCA---T-TCAT-TTTTTTATTTTATTTTGAAAGATGTTTCGCATCATTTCATATTG
* * * *
5473844 TATTAACAGATATAGATTGATACATACC
125 TATCAACAGATACAGATCGACACATACC
* * * *
5473872 GATATAAATCGATATTGATCAAAACATATAAATAAATACATATCTCGAGATACGAAAATAATTTT
1 GATATAAATCGATATTGATCAAAACATATCAATAAATACATATATTGAGATACGAGAATAATTTT
* * * *
5473937 TGTTCCCCGCATTTTTTCATCAATTTTT-TTTTATTTT-AAACGATGTTTCGCATGATTTTATAT
66 TGTT-CCTGCA----TTCAT--TTTTTTATTTTATTTTGAAA-GATGTTTCGCATCATTTCATAT
** * * **
5474000 TGTATCAATGGATATAGATTGGTACATACC
123 TGTATCAACAGATACAGATCGACACATACC
* * *
5474030 AATATAAATCGATATTGAT---AA-ATA-C-AT--AT-C-----TCGAGATACGAGAATGATTTT
1 GATATAAATCGATATTGATCAAAACATATCAATAAATACATATATTGAGATACGAGAATAATTTT
* *
5474081 TGTTCCCTGCATTTTCTCATCATTTTTT-TTTTATTTTGAAAGATGTTTCGCATGATTTTATATT
66 TGTT-CCTGCA---T-TCAT--TTTTTTATTTTATTTTGAAAGATGTTTCGCATCATTTCATATT
* * * **
5474145 GTATCAACGGATACAGATTGATACATATA
124 GTATCAACAGATACAGATCGACACATACC
* * * *
5474174 AATATAAATCGATATTGATCAAAACATATTAAAAAATACATATCTTGAGATACGAGAATAATTTT
1 GATATAAATCGATATTGATCAAAACATATCAATAAATACATATATTGAGATACGAGAATAATTTT
* ** * *
5474239 TGTTCTCTGCATT--TCCTCATCATTTT-TTTTGAAAGATGTTTTGCATCATTT-ATATTGTATC
66 TGTTC-CTGCATTCAT-TTTTTTATTTTATTTTGAAAGATGTTTCGCATCATTTCATATTGTATC
* * * * *
5474300 AACGGATATAGATCAATACATACT
129 AACAGATACAGATCGACACATACC
* * *
5474324 GATATAAATCGATATTGAT-AAACACATATCAATAAATACATATCTTGATATGCGAGAATAATTT
1 GATATAAATCGATATTGATCAAA-ACATATCAATAAATACATATATTGAGATACGAGAATAATTT
**** * * * *
5474388 TTGTTCTCTGCATTTTCTCATCATTTTTTAAAAAAATTTTGAAAGATGTTTCACTTGATTTTATA
65 TTGTTC-CTGCA---T-TCAT--TTTTTT-ATTTTATTTTGAAAGATGTTTCGCATCATTTCATA
* * * * *
5474453 TTGTATCAACGGATACATATTGACAGATTCC
122 TTGTATCAACAGATACAGATCGACACATACC
* * *
5474484 GATATAAATCGATATTGATCAAAACATATTAATAAATACATATCTTGAGATACGTGAATAATTTT
1 GATATAAATCGATATTGATCAAAACATATCAATAAATACATATATTGAGATACGAGAATAATTTT
*
5474549 TGTT-CT-CA-TCATTTTTTT-TTTCATTTTGAAAGATGTTTCGCATCATTTCATATTGTATCAA
66 TGTTCCTGCATTCATTTTTTTATTTTATTTTGAAAGATGTTTCGCATCATTTCATATTGTATCAA
* * * *
5474610 C-GAATAAAGATCAATACATATC
131 CAG-ATACAGATCGACACATACC
** * *
5474632 GATATAAATCGATATTGAT-AAACACATATCAATAAATACATACCTTGAGATACAAGAATGATTT
1 GATATAAATCGATATTGATCAAA-ACATATCAATAAATACATATATTGAGATACGAGAATAATTT
*
5474696 TTGTTCCTTGCATTTTCTCATCTTTTTATTTTATTTTATTTTGAAAGATGTTTCGCATGATTTCA
65 TTGTTCC-TGCA---T-TCA----TTT-TTTTATTTTATTTTGAAAGATGTTTCGCATCATTTCA
5474761 TATTGTATCAACAGATACAGATCGATC-CATACC
120 TATTGTATCAACAGATACAGATCGA-CACATACC
* * * *
5474794 TATATAAATCAATATTGATCAAGACATATTAATAAATATC-TATATTGAGATACGAGAATAATTT
1 GATATAAATCGATATTGATCAAAACATATCAATAAATA-CATATATTGAGATACGAGAATAATTT
* *
5474858 TTGTTCCCTGCATTTTTCTCATAAATTTTTTATTTTATTTTGAAAGATGTTTTGCATCATTTTAT
65 TTGTT-CCTGCA----T-TCAT---TTTTTTATTTTATTTTGAAAGATGTTTCGCATCATTTCAT
* ** *
5474923 ATTGTATCAATAGATACAGATCGATGCATACT
121 ATTGTATCAACAGATACAGATCGACACATACC
* * * * * *
5474955 AATATAAAAT-TATATTGATAAAAACATATCAATAAATACATATATCGAGATATGAGAATGATTT
1 GATAT-AAATCGATATTGATCAAAACATATCAATAAATACATATATTGAGATACGAGAATAATTT
5475019 TTGTT
65 TTGTT
5475024 TTCCATATTT
Statistics
Matches: 972, Mismatches: 119, Indels: 118
0.80 0.10 0.10
Matches are distributed among these distances:
143 4 0.00
144 115 0.12
145 3 0.00
147 6 0.01
148 110 0.11
149 5 0.01
150 106 0.11
151 27 0.03
152 13 0.01
153 2 0.00
154 5 0.01
155 3 0.00
156 4 0.00
157 82 0.08
158 114 0.12
159 22 0.02
160 91 0.09
161 124 0.13
162 122 0.13
163 14 0.01
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.41
Consensus pattern (152 bp):
GATATAAATCGATATTGATCAAAACATATCAATAAATACATATATTGAGATACGAGAATAATTTT
TGTTCCTGCATTCATTTTTTTATTTTATTTTGAAAGATGTTTCGCATCATTTCATATTGTATCAA
CAGATACAGATCGACACATACC
Found at i:5474844 original size:162 final size:160
Alignment explanation
Indices: 5474551--5475053 Score: 594
Period size: 162 Copynumber: 3.1 Consensus size: 160
5474541 ATAATTTTTG
*
5474551 TTCTCATCA-TTT-TTTT-TTTCATTTTGAAAGATGTTTCGCATCATTTCATATTGTATCAAC-G
1 TTCTCATCATTTTATTTTATTTTATTTTGAAAGATGTTTCGCATCATTTCATATTGTATCAACAG
* * * * *
5474612 AATAAAGATCAATACATATCGATATAAATCGATATTGATAAACACATATCAATAAATAC-ATACC
66 -ATACAGATCGATACATA-CTATATAAATCAATATTGATAAAAACATATCAATAAATACTATA--
*
5474676 TTGAGATACAAGAATGATTTTTGTTCCTTGCATT
127 TTGAGATACGAGAATGATTTTTGTTCCTTGCATT
* *
5474710 TTCTCATCTTTTTATTTTATTTTATTTTGAAAGATGTTTCGCATGATTTCATATTGTATCAACAG
1 TTCTCATCATTTTATTTTATTTTATTTTGAAAGATGTTTCGCATCATTTCATATTGTATCAACAG
* * * *
5474775 ATACAGATCGATCCATACCTATATAAATCAATATTGATCAAGACATATTAATAAATATCTATATT
66 ATACAGATCGATACATA-CTATATAAATCAATATTGATAAAAACATATCAATAAATA-CTATATT
* *
5474840 GAGATACGAGAATAATTTTTGTTCCCTGCATTT
129 GAGATACGAGAATGATTTTTGTTCCTTGCA-TT
** * * *
5474873 TTCTCAT-AAATT-TTTTATTTTATTTTGAAAGATGTTTTGCATCATTTTATATTGTATCAATAG
1 TTCTCATCATTTTATTTTATTTTATTTTGAAAGATGTTTCGCATCATTTCATATTGTATCAACAG
* *
5474936 ATACAGATCGATGCATACTAATATAAAAT-TATATTGATAAAAACATATCAATAAATACATATAT
66 ATACAGATCGATACATACT-ATAT-AAATCAATATTGATAAAAACATATCAATAAATAC-TATAT
* * *
5475000 CGAGATATGAGAATGATTTTTGTT--TTCCATATT
128 TGAGATACGAGAATGATTTTTGTTCCTTGC--ATT
*
5475033 TTCTCATCATTTTATATTATT
1 TTCTCATCATTTTATTTTATT
5475054 GAATTTGGGG
Statistics
Matches: 295, Mismatches: 35, Indels: 25
0.83 0.10 0.07
Matches are distributed among these distances:
159 10 0.03
160 15 0.05
161 125 0.42
162 131 0.44
163 11 0.04
164 3 0.01
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.43
Consensus pattern (160 bp):
TTCTCATCATTTTATTTTATTTTATTTTGAAAGATGTTTCGCATCATTTCATATTGTATCAACAG
ATACAGATCGATACATACTATATAAATCAATATTGATAAAAACATATCAATAAATACTATATTGA
GATACGAGAATGATTTTTGTTCCTTGCATT
Done.