Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 29 of 150
Found at i:7652674 original size:29 final size:30
Alignment explanation
Indices: 7652640--7652703 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
7652630 TAATCCACCA
*
7652640 CCCAAATTTTTG-AAAATTACAATTTTGCC
1 CCCAAACTTTTGCAAAATTACAATTTTGCC
* * *
7652669 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCCAAACTTTTGCAAAATTACAATTTTGCC
7652699 CCCAA
1 CCCAA
7652704 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 11 0.37
30 19 0.63
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.36
Consensus pattern (30 bp):
CCCAAACTTTTGCAAAATTACAATTTTGCC
Found at i:7660392 original size:29 final size:29
Alignment explanation
Indices: 7660359--7660422 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
7660349 TAATCCACCA
7660359 CCCAACTTTTTG-AAAATTACAATTTTGCC
1 CCCAAC-TTTTGCAAAATTACAATTTTGCC
* * *
7660388 CCCAAACTTTTGCATAATTACACTTTTGTC
1 CCC-AACTTTTGCAAAATTACAATTTTGCC
7660418 CCCAA
1 CCCAA
7660423 GCTCGGAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 10 0.33
30 20 0.67
ACGTcount: A:0.30, C:0.28, G:0.06, T:0.36
Consensus pattern (29 bp):
CCCAACTTTTGCAAAATTACAATTTTGCC
Found at i:7660396 original size:30 final size:30
Alignment explanation
Indices: 7660366--7660422 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
7660356 CCACCCAACT
7660366 TTTTG-AAAATTACAATTTTGCCCCCAAAC
1 TTTTGCAAAATTACAATTTTGCCCCCAAAC
* * *
7660395 TTTTGCATAATTACACTTTTGTCCCCAA
1 TTTTGCAAAATTACAATTTTGCCCCCAA
7660423 GCTCGGAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 5 0.21
30 19 0.79
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
TTTTGCAAAATTACAATTTTGCCCCCAAAC
Found at i:7664757 original size:17 final size:18
Alignment explanation
Indices: 7664725--7664759 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7664715 CCAAGAAGTT
*
7664725 CACTCGTGTGGGCCCACA
1 CACTCGAGTGGGCCCACA
7664743 CACTCGAGT-GGCCCACA
1 CACTCGAGTGGGCCCACA
7664760 TGGCCCAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.20, C:0.40, G:0.26, T:0.14
Consensus pattern (18 bp):
CACTCGAGTGGGCCCACA
Found at i:7667080 original size:36 final size:36
Alignment explanation
Indices: 7667033--7667114 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
7667023 TTCTGAACCA
* * * *
7667033 TGTTAACTTGGTGAAT-TATATTATTATGGCAAACTG
1 TGTTAATTTGGTG-ATCTATATTAATACGGAAAACTG
*
7667069 TGTTAATTTGGTGATCTGTATTAATACGGAAAACTG
1 TGTTAATTTGGTGATCTATATTAATACGGAAAACTG
*
7667105 TATTAATTTG
1 TGTTAATTTG
7667115 TCAAACTATG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
35 2 0.05
36 37 0.95
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (36 bp):
TGTTAATTTGGTGATCTATATTAATACGGAAAACTG
Found at i:7667820 original size:51 final size:51
Alignment explanation
Indices: 7667765--7667864 Score: 119
Period size: 51 Copynumber: 2.0 Consensus size: 51
7667755 GCATGAGCTG
* ** *
7667765 TTATTTTGAATGAATTGTTATTCAGTATGAACTGATATTTCATATGAACTA
1 TTATTTTGAATGAACTGCCATTCAGTAAGAACTGATATTTCATATGAACTA
* * ** *
7667816 TTATTTTGCATGAGCTGCCATTTGGTAAGAACTGTTATTTCATATGAAC
1 TTATTTTGAATGAACTGCCATTCAGTAAGAACTGATATTTCATATGAAC
7667865 AGATGTTTGG
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 40 1.00
ACGTcount: A:0.30, C:0.11, G:0.16, T:0.43
Consensus pattern (51 bp):
TTATTTTGAATGAACTGCCATTCAGTAAGAACTGATATTTCATATGAACTA
Found at i:7667864 original size:17 final size:17
Alignment explanation
Indices: 7667774--7667864 Score: 58
Period size: 17 Copynumber: 5.4 Consensus size: 17
7667764 GTTATTTTGA
*
7667774 ATGAATTGTTA-TTCAGT
1 ATGAACTGTTATTTCA-T
*
7667791 ATGAACTGATATTTCAT
1 ATGAACTGTTATTTCAT
* ***
7667808 ATGAACTATTATTTTGC
1 ATGAACTGTTATTTCAT
* ** **
7667825 ATGAGCTGCCATTTGGT
1 ATGAACTGTTATTTCAT
*
7667842 AAGAACTGTTATTTCAT
1 ATGAACTGTTATTTCAT
7667859 ATGAAC
1 ATGAAC
7667865 AGATGTTTGG
Statistics
Matches: 53, Mismatches: 20, Indels: 2
0.71 0.27 0.03
Matches are distributed among these distances:
17 49 0.92
18 4 0.08
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (17 bp):
ATGAACTGTTATTTCAT
Found at i:7668906 original size:16 final size:16
Alignment explanation
Indices: 7668885--7668916 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
7668875 TAAATATTTC
7668885 ATGATTAATTGTATGG
1 ATGATTAATTGTATGG
7668901 ATGATTAATTGTATGG
1 ATGATTAATTGTATGG
7668917 TGTGAGTCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (16 bp):
ATGATTAATTGTATGG
Found at i:7671321 original size:22 final size:22
Alignment explanation
Indices: 7671293--7671342 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
7671283 GGCTTGAAGT
7671293 TGGATGCCGTGACTTTGGCTTG
1 TGGATGCCGTGACTTTGGCTTG
*
7671315 TGGATGCTGTGACTTTGGCTTG
1 TGGATGCCGTGACTTTGGCTTG
7671337 TGGATG
1 TGGATG
7671343 TCACAACATC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.10, C:0.14, G:0.38, T:0.38
Consensus pattern (22 bp):
TGGATGCCGTGACTTTGGCTTG
Found at i:7677344 original size:51 final size:51
Alignment explanation
Indices: 7677284--7677497 Score: 293
Period size: 51 Copynumber: 4.2 Consensus size: 51
7677274 AGGGCGGTCA
* *
7677284 ATTATGTAAAGCTCTATGTATGAACTGTGAATGCAAGATATGTGCGTACTG
1 ATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCATACTG
* *
7677335 ATTATGTAAAGTTCTATATATGAATTGTGAATGCAAGATATGTGCATACTG
1 ATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCATACTG
* * * ** *
7677386 ATTTTGTAAAGTTCTATGTGTGAACTGTGAATGCAAGATATGCGTGTACTA
1 ATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCATACTG
* * * * *
7677437 ATTATGTAAAGTTCTATCTCTCAATTGTGAATGCAAGGTATGTGCATACTG
1 ATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCATACTG
7677488 ATTATGTAAA
1 ATTATGTAAA
7677498 AATTTTATGT
Statistics
Matches: 141, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
51 141 1.00
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.36
Consensus pattern (51 bp):
ATTATGTAAAGTTCTATGTATGAACTGTGAATGCAAGATATGTGCATACTG
Found at i:7677410 original size:102 final size:102
Alignment explanation
Indices: 7677284--7677511 Score: 339
Period size: 102 Copynumber: 2.2 Consensus size: 102
7677274 AGGGCGGTCA
* * * *
7677284 ATTATGTAAAGCTCTATGTATGAACTGTGAATGCAAGATATGTGCGTACTGATTATGTAAAGTTC
1 ATTATGTAAAGTTCTATGTGTGAACTGTGAATGCAAGATATGCGCGTACTAATTATGTAAAGTTC
*
7677349 TATATATGAATTGTGAATGCAAGATATGTGCATACTG
66 TATATATCAATTGTGAATGCAAGATATGTGCATACTG
* *
7677386 ATTTTGTAAAGTTCTATGTGTGAACTGTGAATGCAAGATATGCGTGTACTAATTATGTAAAGTTC
1 ATTATGTAAAGTTCTATGTGTGAACTGTGAATGCAAGATATGCGCGTACTAATTATGTAAAGTTC
* * *
7677451 TATCTCTCAATTGTGAATGCAAGGTATGTGCATACTG
66 TATATATCAATTGTGAATGCAAGATATGTGCATACTG
* *
7677488 ATTATGTAAAAATTTTATGTGTGA
1 ATTATGT-AAAGTTCTATGTGTGA
7677512 TCTGGCATTG
Statistics
Matches: 112, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
102 98 0.88
103 14 0.12
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.37
Consensus pattern (102 bp):
ATTATGTAAAGTTCTATGTGTGAACTGTGAATGCAAGATATGCGCGTACTAATTATGTAAAGTTC
TATATATCAATTGTGAATGCAAGATATGTGCATACTG
Found at i:7677833 original size:32 final size:32
Alignment explanation
Indices: 7677786--7677909 Score: 151
Period size: 32 Copynumber: 3.8 Consensus size: 32
7677776 GTCGTATCGT
* * *
7677786 TGTGCAAGTTGTTCAATATGCGTGCCGTAAAA
1 TGTGCGAGTTGTTCAATATGCGTGCCATAGAA
* *
7677818 TGTGTGAGTTGTTCAATATGCATGCCATAGAA
1 TGTGCGAGTTGTTCAATATGCGTGCCATAGAA
* * *
7677850 TGTGCGAGTTATTCAA-ATTGTGTGTCATAGAA
1 TGTGCGAGTTGTTCAATA-TGCGTGCCATAGAA
7677882 TGTGCGAGTTGTTCAAATATGCGTGCCA
1 TGTGCGAGTTGTTC-AATATGCGTGCCA
7677910 AATAGTGCGA
Statistics
Matches: 76, Mismatches: 13, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
31 1 0.01
32 65 0.86
33 9 0.12
34 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (32 bp):
TGTGCGAGTTGTTCAATATGCGTGCCATAGAA
Found at i:7678263 original size:18 final size:18
Alignment explanation
Indices: 7678210--7678263 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
7678200 ATTCACCTAA
*
7678210 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCAAACCCAATT
* *
7678229 ATCCAACCCAACCCAATT
1 ACCCAACCAAACCCAATT
*
7678247 ACCCAACCTAACCCAAT
1 ACCCAACCAAACCCAAT
7678264 CATAAAAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
18 25 0.83
19 5 0.17
ACGTcount: A:0.41, C:0.44, G:0.02, T:0.13
Consensus pattern (18 bp):
ACCCAACCAAACCCAATT
Found at i:7678467 original size:37 final size:37
Alignment explanation
Indices: 7678426--7678500 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
7678416 TGTTAATTTC
*
7678426 AAGACTTATGTAATTTTTTTAATTATGTACTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTACTGATTCA
7678463 AAGACTTATGTAATGTTTTTAATTATGTACTGATTCA
1 AAGACTTATGTAATGTTTTTAATTATGTACTGATTCA
7678500 A
1 A
7678501 TTTGGTTAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (37 bp):
AAGACTTATGTAATGTTTTTAATTATGTACTGATTCA
Found at i:7678490 original size:17 final size:17
Alignment explanation
Indices: 7678431--7678491 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 17
7678421 ATTTCAAGAC
*
7678431 TTATGTAATTTTTTTAA
1 TTATGTAATGTTTTTAA
* ***
7678448 TTATGTACTGATTCAAAGA
1 TTATGTAATG-TTTTTA-A
7678467 CTTATGTAATGTTTTTAA
1 -TTATGTAATGTTTTTAA
7678485 TTATGTA
1 TTATGTA
7678492 CTGATTCAAT
Statistics
Matches: 32, Mismatches: 9, Indels: 6
0.68 0.19 0.13
Matches are distributed among these distances:
17 15 0.47
18 4 0.12
19 4 0.12
20 9 0.28
ACGTcount: A:0.31, C:0.05, G:0.11, T:0.52
Consensus pattern (17 bp):
TTATGTAATGTTTTTAA
Found at i:7678534 original size:27 final size:27
Alignment explanation
Indices: 7678499--7678568 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
7678489 GTACTGATTC
* *
7678499 AATTTGGTTAATTCGGGTAATTC-AGGT
1 AATTCGGTTAATTCGGGTAATTCGA-CT
7678526 AATTCGGTTAATTCGGGTAATTCGACT
1 AATTCGGTTAATTCGGGTAATTCGACT
7678553 AATTCGGTTAATTCGG
1 AATTCGGTTAATTCGG
7678569 TTAACCGACC
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.26, C:0.11, G:0.24, T:0.39
Consensus pattern (27 bp):
AATTCGGTTAATTCGGGTAATTCGACT
Found at i:7678569 original size:9 final size:9
Alignment explanation
Indices: 7678499--7678572 Score: 87
Period size: 9 Copynumber: 8.2 Consensus size: 9
7678489 GTACTGATTC
*
7678499 AATTTGGTT
1 AATTCGGTT
*
7678508 AATTCGGGT
1 AATTCGGTT
7678517 AATTCAGG-T
1 AATTC-GGTT
7678526 AATTCGGTT
1 AATTCGGTT
*
7678535 AATTCGGGT
1 AATTCGGTT
**
7678544 AATTCGACT
1 AATTCGGTT
7678553 AATTCGGTT
1 AATTCGGTT
7678562 AATTCGGTT
1 AATTCGGTT
7678571 AA
1 AA
7678573 CCGACCGAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
8 2 0.04
9 52 0.93
10 2 0.04
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (9 bp):
AATTCGGTT
Found at i:7678583 original size:27 final size:27
Alignment explanation
Indices: 7678499--7678583 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
7678489 GTACTGATTC
* * *
7678499 AATTTGGTTAATTCGGGTAATTC-AGG
1 AATTCGGTTAATTCGGGTAATCCGACG
* *
7678525 TAATTCGGTTAATTCGGGTAATTCGACT
1 -AATTCGGTTAATTCGGGTAATCCGACG
*
7678553 AATTCGGTTAATTCGGTTAA-CCGACCG
1 AATTCGGTTAATTCGGGTAATCCGA-CG
7678580 AATT
1 AATT
7678584 AACCGAAAAA
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
26 3 0.06
27 46 0.92
28 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.22, T:0.36
Consensus pattern (27 bp):
AATTCGGTTAATTCGGGTAATCCGACG
Found at i:7679025 original size:23 final size:23
Alignment explanation
Indices: 7678999--7679045 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
7678989 TTCTATACAT
7678999 GTACATATTTGGG-CAGCACGCAG
1 GTACATA-TTGGGACAGCACGCAG
*
7679022 GTACATATTGGGATAGCACGCAG
1 GTACATATTGGGACAGCACGCAG
7679045 G
1 G
7679046 CTTGACCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.28, C:0.19, G:0.32, T:0.21
Consensus pattern (23 bp):
GTACATATTGGGACAGCACGCAG
Found at i:7683629 original size:13 final size:13
Alignment explanation
Indices: 7683611--7683669 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
7683601 CTCAAAATTT
*
7683611 TCAAAAGTACTTC
1 TCAAAAGCACTTC
*
7683624 TCAAAAGCACTTT
1 TCAAAAGCACTTC
* *
7683637 TCCATAGCACTTC
1 TCAAAAGCACTTC
* *
7683650 TCAAAAACACTTT
1 TCAAAAGCACTTC
7683663 TCAAAAG
1 TCAAAAG
7683670 TAATGAAGAA
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.39, C:0.25, G:0.07, T:0.29
Consensus pattern (13 bp):
TCAAAAGCACTTC
Found at i:7683637 original size:26 final size:26
Alignment explanation
Indices: 7683608--7683671 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
7683598 ACACTCAAAA
*
7683608 TTTTCAAAAGTACTTCTCAAAAGCAC
1 TTTTCAAAAGTACTTCTCAAAAACAC
* * *
7683634 TTTTCCATAGCACTTCTCAAAAACAC
1 TTTTCAAAAGTACTTCTCAAAAACAC
7683660 TTTTCAAAAGTA
1 TTTTCAAAAGTA
7683672 ATGAAGAACT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.38, C:0.23, G:0.06, T:0.33
Consensus pattern (26 bp):
TTTTCAAAAGTACTTCTCAAAAACAC
Found at i:7684646 original size:22 final size:21
Alignment explanation
Indices: 7684604--7684646 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
7684594 TATCATTGAG
7684604 AGCTAAACTTTAATAAAAAAA
1 AGCTAAACTTTAATAAAAAAA
7684625 AGCTAAACTTTAATAAAAAAA
1 AGCTAAACTTTAATAAAAAAA
7684646 A
1 A
7684647 TTTACAGGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.63, C:0.09, G:0.05, T:0.23
Consensus pattern (21 bp):
AGCTAAACTTTAATAAAAAAA
Found at i:7692490 original size:29 final size:28
Alignment explanation
Indices: 7692456--7692546 Score: 71
Period size: 29 Copynumber: 3.2 Consensus size: 28
7692446 TTGTTTAAAG
7692456 AAGCCCTTATACTATTTTCGTAGTTTAAT
1 AAGCCCTTATACTATTTT-GTAGTTTAAT
* ** *
7692485 AAGCCCCTAGCCTATAATTT-T--TTTAAAG
1 AAGCCCTTATACTAT--TTTGTAGTTT-AAT
*
7692513 AAGCCCTTATACTATTTTTGTAGTTAAAT
1 AAGCCCTTATACTA-TTTTGTAGTTTAAT
7692542 AAGCC
1 AAGCC
7692547 TCTAACCTAT
Statistics
Matches: 46, Mismatches: 9, Indels: 14
0.67 0.13 0.20
Matches are distributed among these distances:
27 6 0.13
28 14 0.30
29 21 0.46
30 2 0.04
31 3 0.07
ACGTcount: A:0.31, C:0.19, G:0.11, T:0.40
Consensus pattern (28 bp):
AAGCCCTTATACTATTTTGTAGTTTAAT
Found at i:7692537 original size:57 final size:57
Alignment explanation
Indices: 7692449--7692559 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 57
7692439 ATACTCTTTG
* *
7692449 TTTAAAGAAGCCCTTATACTATTTTCGTAGTTTAATAAGCCCCTAGCCTATAATTTT
1 TTTAAAGAAGCCCTTATACTATTTTCGTAGTTAAATAAGCCCCTAACCTATAATTTT
* *
7692506 TTTAAAGAAGCCCTTATACTATTTTTGTAGTTAAATAAGCCTCTAACCTATAAT
1 TTTAAAGAAGCCCTTATACTATTTTCGTAGTTAAATAAGCCCCTAACCTATAAT
7692560 GTTTACCCAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (57 bp):
TTTAAAGAAGCCCTTATACTATTTTCGTAGTTAAATAAGCCCCTAACCTATAATTTT
Found at i:7702950 original size:10 final size:11
Alignment explanation
Indices: 7702901--7702949 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
7702891 TAAACACCAA
7702901 AAAAATATTTT
1 AAAAATATTTT
***
7702912 AAAAATAAAAAT
1 AAAAAT-ATTTT
7702924 AAAAATATTTT
1 AAAAATATTTT
7702935 AAAAATATTTT
1 AAAAATATTTT
7702946 AAAA
1 AAAA
7702950 TTAAAAAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
11 23 0.74
12 8 0.26
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
AAAAATATTTT
Found at i:7703745 original size:10 final size:9
Alignment explanation
Indices: 7703720--7703936 Score: 68
Period size: 10 Copynumber: 22.2 Consensus size: 9
7703710 AAAGAAGAAG
*
7703720 ATAAAAATCA
1 ATAAAAAT-T
*
7703730 ATAAAAGTT
1 ATAAAAATT
7703739 ATAAAAATT
1 ATAAAAATT
**
7703748 ATTAAATTTT
1 A-TAAAAATT
*
7703758 AATAAAAAAT
1 -ATAAAAATT
7703768 ATAAAAA-T
1 ATAAAAATT
7703776 ATCAAAAATCGT
1 AT-AAAAAT--T
*
7703788 AAAAAAATT
1 ATAAAAATT
7703797 ATAAAAAATT
1 AT-AAAAATT
* *
7703807 GTAAAATTTT
1 ATAAAA-ATT
7703817 ATAAAAATCGT
1 ATAAAAAT--T
*
7703828 AAAATAAATT
1 ATAA-AAATT
7703838 -TATAAAATAT
1 ATA-AAAAT-T
*
7703848 ATAGAAA-T
1 ATAAAAATT
7703856 ATAGAAAAGTT
1 ATA-AAAA-TT
*
7703867 -TATAAATT
1 ATAAAAATT
7703875 CATAAGAAAATT
1 -AT-A-AAAATT
7703887 ATAGAAAATCT
1 ATA-AAAAT-T
7703898 A-AAGAAA-T
1 ATAA-AAATT
*
7703906 ATAAAACTT
1 ATAAAAATT
*
7703915 GTAATAAAATT
1 AT-A-AAAATT
7703926 ATAAAAATT
1 ATAAAAATT
7703935 AT
1 AT
7703937 CGTACCAAAA
Statistics
Matches: 156, Mismatches: 24, Indels: 55
0.66 0.10 0.23
Matches are distributed among these distances:
8 13 0.08
9 52 0.33
10 55 0.35
11 25 0.16
12 11 0.07
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.31
Consensus pattern (9 bp):
ATAAAAATT
Found at i:7703795 original size:20 final size:19
Alignment explanation
Indices: 7703770--7703836 Score: 62
Period size: 21 Copynumber: 3.3 Consensus size: 19
7703760 TAAAAAATAT
7703770 AAAAATATCAAAAATCGTAA
1 AAAAATAT-AAAAATCGTAA
*
7703790 AAAAATTATAAAAAATTGTAA
1 AAAAA-TAT-AAAAATCGTAA
***
7703811 AATTTTATAAAAATCGTAA
1 AAAAATATAAAAATCGTAA
7703830 AATAAAT
1 AA-AAAT
7703837 TTATAAAATA
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
19 12 0.33
20 9 0.25
21 15 0.42
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (19 bp):
AAAAATATAAAAATCGTAA
Found at i:7703832 original size:19 final size:20
Alignment explanation
Indices: 7703759--7703833 Score: 68
Period size: 19 Copynumber: 3.9 Consensus size: 20
7703749 TTAAATTTTA
*
7703759 ATAAAAAAT-ATAAAA-A-T
1 ATAAAAAATCGTAAAATATT
* *
7703776 ATCAAAAATCGTAAAAAAATT
1 ATAAAAAATCGT-AAAATATT
* *
7703797 ATAAAAAATTGTAAAATTTT
1 ATAAAAAATCGTAAAATATT
7703817 AT-AAAAATCGTAAAATA
1 ATAAAAAATCGTAAAATA
7703834 AATTTATAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
17 8 0.17
18 1 0.02
19 17 0.37
20 9 0.20
21 11 0.24
ACGTcount: A:0.64, C:0.04, G:0.04, T:0.28
Consensus pattern (20 bp):
ATAAAAAATCGTAAAATATT
Found at i:7703868 original size:29 final size:31
Alignment explanation
Indices: 7703836--7703894 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
7703826 GTAAAATAAA
7703836 TTTATAAAAT-ATATAG-AAA-TATAGAAAAG
1 TTTATAAAATCATA-AGAAAATTATAGAAAAG
*
7703865 TTTATAAATTCATAAGAAAATTATAGAAAA
1 TTTATAAAATCATAAGAAAATTATAGAAAA
7703895 TCTAAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 11 0.42
30 6 0.23
31 9 0.35
ACGTcount: A:0.58, C:0.02, G:0.08, T:0.32
Consensus pattern (31 bp):
TTTATAAAATCATAAGAAAATTATAGAAAAG
Found at i:7715670 original size:28 final size:28
Alignment explanation
Indices: 7715629--7715696 Score: 93
Period size: 28 Copynumber: 2.5 Consensus size: 28
7715619 GCGAAGTGTC
7715629 AAGT-GCAAGATGCAAGCTGACTCCACA
1 AAGTGGCAAGATGCAAGCTGACTCCACA
* **
7715656 AAGTGGCAAGGTGCAAGCTGACTCTGCA
1 AAGTGGCAAGATGCAAGCTGACTCCACA
*
7715684 AAGAGGCAAGATG
1 AAGTGGCAAGATG
7715697 TGAGATGGCA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
27 4 0.11
28 31 0.89
ACGTcount: A:0.35, C:0.21, G:0.29, T:0.15
Consensus pattern (28 bp):
AAGTGGCAAGATGCAAGCTGACTCCACA
Found at i:7715716 original size:56 final size:56
Alignment explanation
Indices: 7715656--7715845 Score: 263
Period size: 56 Copynumber: 3.2 Consensus size: 56
7715646 TGACTCCACA
* * *
7715656 AAGTGGCAAGGTGCAAGCTGACTCTGCAAAGAGGCAAGATGTGAGATGGCACCGCG
1 AAGTGGCAGGGTGCAAGCTGACTCTGTAAAGAGGCAAGATGCGAGATGGCACCGCG
*
7715712 AAGTGGCAGGGTGTGAGCTGACGAGCTGACTTTGTAAAGAGGCAAGATGCGAGATGGCACCGCG
1 AAGTGGCA-GG-GT--GC--A--AGCTGACTCTGTAAAGAGGCAAGATGCGAGATGGCACCGCG
*
7715776 AAGTGGCAGGGTGCGAGCTGACTCTGTAAAGAGGCAAGATGCGAGATGGCACCGCG
1 AAGTGGCAGGGTGCAAGCTGACTCTGTAAAGAGGCAAGATGCGAGATGGCACCGCG
7715832 AAGTGGCAGGGTGC
1 AAGTGGCAGGGTGC
7715846 GAACTGCAGC
Statistics
Matches: 120, Mismatches: 6, Indels: 16
0.85 0.04 0.11
Matches are distributed among these distances:
56 62 0.52
57 1 0.01
58 2 0.02
60 4 0.03
62 3 0.03
63 2 0.02
64 46 0.38
ACGTcount: A:0.27, C:0.18, G:0.39, T:0.15
Consensus pattern (56 bp):
AAGTGGCAGGGTGCAAGCTGACTCTGTAAAGAGGCAAGATGCGAGATGGCACCGCG
Found at i:7715790 original size:28 final size:28
Alignment explanation
Indices: 7715759--7715847 Score: 97
Period size: 28 Copynumber: 3.2 Consensus size: 28
7715749 AGAGGCAAGA
7715759 TGCGAGATGGCACCGCGAAGTGGCAGGG
1 TGCGAGATGGCACCGCGAAGTGGCAGGG
* * * * ** * * *
7715787 TGCGAGCTGACTCTGTAAAGAGGCAAGA
1 TGCGAGATGGCACCGCGAAGTGGCAGGG
7715815 TGCGAGATGGCACCGCGAAGTGGCAGGG
1 TGCGAGATGGCACCGCGAAGTGGCAGGG
7715843 TGCGA
1 TGCGA
7715848 ACTGCAGCTG
Statistics
Matches: 43, Mismatches: 18, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.25, C:0.20, G:0.42, T:0.13
Consensus pattern (28 bp):
TGCGAGATGGCACCGCGAAGTGGCAGGG
Found at i:7727192 original size:6 final size:6
Alignment explanation
Indices: 7727173--7727209 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
7727163 TAGGTTTCCT
* *
7727173 TATCTG TATCTA TATTTA TATCTA TATCTA TATCTA T
1 TATCTA TATCTA TATCTA TATCTA TATCTA TATCTA T
7727210 GGTTGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.30, C:0.14, G:0.03, T:0.54
Consensus pattern (6 bp):
TATCTA
Found at i:7728680 original size:27 final size:27
Alignment explanation
Indices: 7728624--7728680 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
7728614 TTTTATTTCG
* *
7728624 ATTTAGTTATTTTTTTAATCTTTTATT
1 ATTTAGTTATTTTTTTAATCTATTAAT
7728651 ATTTAGTTAATTATTTTTAA-C-ATTAAT
1 ATTTAGTT-ATT-TTTTTAATCTATTAAT
7728678 ATT
1 ATT
7728681 ATTATTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 15 0.58
28 4 0.15
29 7 0.27
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (27 bp):
ATTTAGTTATTTTTTTAATCTATTAAT
Found at i:7734450 original size:29 final size:29
Alignment explanation
Indices: 7734418--7734477 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 29
7734408 CAGTCAGGCG
*
7734418 CCTAAACTTTCCAAAAATTACATTTTTGC
1 CCTAAACTTTCCAAAAATCACATTTTTGC
* * * * *
7734447 CCTATATTTTCCTAACATCGCATTTTTGC
1 CCTAAACTTTCCAAAAATCACATTTTTGC
7734476 CC
1 CC
7734478 CAGAAACTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.27, C:0.28, G:0.05, T:0.40
Consensus pattern (29 bp):
CCTAAACTTTCCAAAAATCACATTTTTGC
Found at i:7734923 original size:19 final size:19
Alignment explanation
Indices: 7734899--7734937 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
7734889 AAAAGTAGTG
7734899 GCCAAGAATCAAGTTTTGA
1 GCCAAGAATCAAGTTTTGA
7734918 GCCAAGAATCAAGTTTTGA
1 GCCAAGAATCAAGTTTTGA
7734937 G
1 G
7734938 GAGGGAAACT
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:0.36, C:0.15, G:0.23, T:0.26
Consensus pattern (19 bp):
GCCAAGAATCAAGTTTTGA
Found at i:7735679 original size:20 final size:20
Alignment explanation
Indices: 7735654--7735691 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7735644 TAAAATATTC
7735654 AAAAATCCTCGTATTTTAAT
1 AAAAATCCTCGTATTTTAAT
* *
7735674 AAAAATTCTCGTGTTTTA
1 AAAAATCCTCGTATTTTA
7735692 TTAGAATCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAAATCCTCGTATTTTAAT
Found at i:7735838 original size:17 final size:17
Alignment explanation
Indices: 7735811--7735856 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
7735801 AGAAAAATCG
7735811 TGTTTCAAAAATTT-TCA
1 TGTTTC-AAAATTTCTCA
*
7735828 TGTTTTCAAAATTTCTCG
1 TG-TTTCAAAATTTCTCA
7735846 TGTTTCAAAAT
1 TGTTTCAAAAT
7735857 AATAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
17 18 0.69
18 8 0.31
ACGTcount: A:0.30, C:0.13, G:0.09, T:0.48
Consensus pattern (17 bp):
TGTTTCAAAATTTCTCA
Found at i:7735867 original size:28 final size:27
Alignment explanation
Indices: 7735835--7735887 Score: 88
Period size: 28 Copynumber: 1.9 Consensus size: 27
7735825 TCATGTTTTC
*
7735835 AAAATTTCTCGTGTTTCAAAATAATAAT
1 AAAATTTCCCGTGTTTCAAAA-AATAAT
7735863 AAAATTTCCCGTGTTTCAAAAAATA
1 AAAATTTCCCGTGTTTCAAAAAATA
7735888 TATTCGTGTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 4 0.17
28 20 0.83
ACGTcount: A:0.43, C:0.13, G:0.08, T:0.36
Consensus pattern (27 bp):
AAAATTTCCCGTGTTTCAAAAAATAAT
Found at i:7736125 original size:20 final size:20
Alignment explanation
Indices: 7736087--7736142 Score: 89
Period size: 19 Copynumber: 2.9 Consensus size: 20
7736077 TGTTTCTAAT
7736087 ATTCTCGTATTTC-AAAAAA
1 ATTCTCGTATTTCAAAAAAA
*
7736106 ATTC-CGTATTTTAAAAAAA
1 ATTCTCGTATTTCAAAAAAA
7736125 ATTCTCGTATTTCAAAAA
1 ATTCTCGTATTTCAAAAA
7736143 TTGTCATGTT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 7 0.21
19 14 0.42
20 12 0.36
ACGTcount: A:0.43, C:0.14, G:0.05, T:0.38
Consensus pattern (20 bp):
ATTCTCGTATTTCAAAAAAA
Found at i:7736223 original size:51 final size:52
Alignment explanation
Indices: 7736155--7736252 Score: 139
Period size: 52 Copynumber: 1.9 Consensus size: 52
7736145 GTCATGTTTA
*
7736155 GAAAAAAATTTGTCGTGTTTT-TAAAATCTTC-GTGTTTTCAAAAATTCCGAC
1 GAAAAAAATTTGTCGTGTTTTCTAAAAACTTCTGT-TTTTCAAAAATTCCGAC
*
7736206 GAAAAAAATTT-TCCGTGTTTTCTAAAAACTTCTGTTTTTCATAAATT
1 GAAAAAAATTTGT-CGTGTTTTCTAAAAACTTCTGTTTTTCAAAAATT
7736253 TTCGTGTTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
50 1 0.02
51 19 0.45
52 20 0.48
53 2 0.05
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (52 bp):
GAAAAAAATTTGTCGTGTTTTCTAAAAACTTCTGTTTTTCAAAAATTCCGAC
Found at i:7736245 original size:52 final size:51
Alignment explanation
Indices: 7736155--7736252 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
7736145 GTCATGTTTA
*
7736155 GAAAAAAATTTGTCGTGTTTTTAAAATCTTCGTGTTTTCAAAAATTCCGAC
1 GAAAAAAATTTGTCGTGTTTTTAAAAACTTCGTGTTTTCAAAAATTCCGAC
*
7736206 GAAAAAAATTT-TCCGTGTTTTCTAAAAACTTC-TGTTTTTCATAAATT
1 GAAAAAAATTTGT-CGTGTTTT-TAAAAACTTCGTG-TTTTCAAAAATT
7736253 TTCGTGTTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 5
0.86 0.04 0.10
Matches are distributed among these distances:
50 1 0.02
51 21 0.50
52 20 0.48
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (51 bp):
GAAAAAAATTTGTCGTGTTTTTAAAAACTTCGTGTTTTCAAAAATTCCGAC
Found at i:7736291 original size:36 final size:34
Alignment explanation
Indices: 7736177--7736342 Score: 156
Period size: 36 Copynumber: 4.7 Consensus size: 34
7736167 TCGTGTTTTT
* * *
7736177 AAAATCTTCGTGTTTTCAAAAATTCCGACGA-AA
1 AAAATTTTCGTGTTTTCAAAAATTCCGATGATCA
* * **
7736210 AAAATTTTCCGTGTTTTCTAAAAACTTCTGTTTTTCA
1 AAAATTTT-CGTGTTTTC-AAAAA-TTCCGATGATCA
* *
7736247 TAAATTTTCGTGTTCTCAAAAATTCCGATGATCAA
1 AAAATTTTCGTGTTTTCAAAAATTCCGATGATC-A
*
7736282 AAAATTTTTCGTGTTTTCTAAAAACTTCCG-TGTTTCA
1 AAAA-TTTTCGTGTTTTC-AAAAA-TTCCGATG-ATCA
7736319 AAAATTTTCGTGTTTTCAAAAATT
1 AAAATTTTCGTGTTTTCAAAAATT
7736343 TTCGTGATTT
Statistics
Matches: 108, Mismatches: 16, Indels: 17
0.77 0.11 0.12
Matches are distributed among these distances:
33 7 0.06
34 18 0.17
35 19 0.18
36 37 0.34
37 20 0.19
38 7 0.06
ACGTcount: A:0.33, C:0.16, G:0.10, T:0.42
Consensus pattern (34 bp):
AAAATTTTCGTGTTTTCAAAAATTCCGATGATCA
Found at i:7736295 original size:72 final size:69
Alignment explanation
Indices: 7736170--7736342 Score: 249
Period size: 72 Copynumber: 2.5 Consensus size: 69
7736160 AAATTTGTCG
*
7736170 TGTTTTT-AAAATCTTCGTGTTTTCAAAAATTCCGACGAAAAAAATTTTCCGTGTTTTCTAAAAA
1 TGTTTTTCAAAATTTTCGTGTTTTCAAAAATTCCGACGAAAAAAATTTTCCGTGTTTTCTAAAAA
7736234 CTTC
66 CTTC
* * *
7736238 TGTTTTTCATAAATTTTCGTGTTCTCAAAAATTCCGATGATCAAAAAATTTTTCGTGTTTTCTAA
1 TGTTTTTCA-AAATTTTCGTGTTTTCAAAAATTCCGACGA--AAAAAATTTTCCGTGTTTTCTAA
7736303 AAACTTC
63 AAACTTC
* *
7736310 CGTGTTTCAAAAATTTTCGTGTTTTCAAAAATT
1 TGTTTTTC-AAAATTTTCGTGTTTTCAAAAATT
7736343 TTCGTGATTT
Statistics
Matches: 93, Mismatches: 7, Indels: 6
0.88 0.07 0.06
Matches are distributed among these distances:
68 7 0.08
69 1 0.01
70 27 0.29
72 57 0.61
73 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.43
Consensus pattern (69 bp):
TGTTTTTCAAAATTTTCGTGTTTTCAAAAATTCCGACGAAAAAAATTTTCCGTGTTTTCTAAAAA
CTTC
Found at i:7736366 original size:36 final size:35
Alignment explanation
Indices: 7736209--7736495 Score: 147
Period size: 36 Copynumber: 8.0 Consensus size: 35
7736199 TTCCGACGAA
* * *
7736209 AAAAATTTTCCGTGTTTTCTAAAAA-CTTCTGTTTTTC
1 AAAAATTCT-CGTGTTTTC-AAAAATTTTC-GTGTTTC
* * * * *
7736246 ATAAATTTTCGTGTTCTCAAAAA-TTCCGATG-ATC
1 AAAAATTCTCGTGTTTTCAAAAATTTTCG-TGTTTC
* * *
7736280 AAAAAATTTTTCGTGTTTTCTAAAAACTTCCGTGTTTC
1 -AAAAA-TTCTCGTGTTTTC-AAAAATTTTCGTGTTTC
* *
7736318 AAAAATTTTCGTGTTTTCAAAAATTTTCGTGATTTT
1 AAAAATTCTCGTGTTTTCAAAAATTTTCGTG-TTTC
* * * *
7736354 AACAATTCTCGTG-TTTCATAAATATTCGCGTTTC
1 AAAAATTCTCGTGTTTTCAAAAATTTTCGTGTTTC
** * *
7736388 AAAAA-AATCGTGTTTTCAAAAAAAAATTCTCGTATTTC
1 AAAAATTCTCGTGTTTTC----AAAAATTTTCGTGTTTC
* * *
7736426 AAAAATTTTTGTG-TTTCAAAAATTTTCGTGTTTTT
1 AAAAATTCTCGTGTTTTCAAAAATTTTCGTG-TTTC
* * *
7736461 AAGAAATTGC-CGTGTCTTCAAAAATTCTAGTGTTT
1 AA-AAATT-CTCGTGTTTTCAAAAATTTTCGTGTTT
7736496 TTTTAAACAA
Statistics
Matches: 196, Mismatches: 37, Indels: 35
0.73 0.14 0.13
Matches are distributed among these distances:
33 5 0.03
34 25 0.13
35 42 0.21
36 58 0.30
37 34 0.17
38 28 0.14
39 4 0.02
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (35 bp):
AAAAATTCTCGTGTTTTCAAAAATTTTCGTGTTTC
Found at i:7736446 original size:16 final size:17
Alignment explanation
Indices: 7736209--7736486 Score: 159
Period size: 17 Copynumber: 15.4 Consensus size: 17
7736199 TTCCGACGAA
7736209 AAAAATTTTCCGTGTTTTC
1 AAAAATTTT-CGTG-TTTC
* *
7736228 TAAAAA-CTTCTGTTTTTC
1 -AAAAATTTTC-GTGTTTC
*
7736246 ATAAATTTTCGTGTTCTC
1 AAAAATTTTCGTGTT-TC
* *
7736264 AAAAA-TTCCGATG-ATC
1 AAAAATTTTCG-TGTTTC
7736280 AAAAAATTTTTCGTGTTTTC
1 -AAAAA-TTTTCGTG-TTTC
* *
7736300 TAAAAACTTCCGTGTTTC
1 -AAAAATTTTCGTGTTTC
7736318 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
*
7736336 AAAAATTTTCGTGATTTT
1 AAAAATTTTCGTG-TTTC
* *
7736354 AACAATTCTCGTGTTTC
1 AAAAATTTTCGTGTTTC
* * *
7736371 ATAAATATTCGCGTTTC
1 AAAAATTTTCGTGTTTC
**
7736388 AAAAA-AATCGTGTTTTC
1 AAAAATTTTCGTG-TTTC
* *
7736405 AAAAAAAAATTCTCGTATTTC
1 ----AAAAATTTTCGTGTTTC
*
7736426 AAAAATTTTTGTGTTTC
1 AAAAATTTTCGTGTTTC
*
7736443 AAAAATTTTCGTGTTTTT
1 AAAAATTTTCGTG-TTTC
**
7736461 AAGAAATTGCCGTGTCTTC
1 AA-AAATTTTCGTGT-TTC
7736480 AAAAATT
1 AAAAATT
7736487 CTAGTGTTTT
Statistics
Matches: 200, Mismatches: 39, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
16 7 0.04
17 77 0.38
18 64 0.32
19 27 0.14
20 12 0.06
21 9 0.05
22 4 0.02
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (17 bp):
AAAAATTTTCGTGTTTC
Found at i:7742277 original size:12 final size:12
Alignment explanation
Indices: 7742260--7742302 Score: 63
Period size: 12 Copynumber: 3.7 Consensus size: 12
7742250 AAAACAAAAC
7742260 AAAGAAAAGAAA
1 AAAGAAAAGAAA
7742272 AAAGAAAA-AAA
1 AAAGAAAAGAAA
7742283 CAAAGAAAAG-AA
1 -AAAGAAAAGAAA
7742295 AAAGAAAA
1 AAAGAAAA
7742303 ATCAAGATGA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
11 11 0.38
12 18 0.62
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (12 bp):
AAAGAAAAGAAA
Found at i:7742280 original size:29 final size:28
Alignment explanation
Indices: 7742222--7742303 Score: 91
Period size: 29 Copynumber: 3.0 Consensus size: 28
7742212 TATTATGCCT
* *
7742222 AAAAAAACAAAAC-AA-AAAAG-GAACA
1 AAAAAAACAAAACAAAGAAAAGAAAAAA
7742247 AAAAAAACAAAACAAAGAAAAGAAAAAA
1 AAAAAAACAAAACAAAGAAAAGAAAAAA
7742275 GAAAAAAACAAAGA-AAAGAAAAAGAAAAA
1 -AAAAAAACAAA-ACAAAG-AAAAGAAAAA
7742304 TCAAGATGAA
Statistics
Matches: 49, Mismatches: 2, Indels: 7
0.84 0.03 0.12
Matches are distributed among these distances:
25 13 0.27
26 2 0.04
27 5 0.10
28 3 0.06
29 15 0.31
30 11 0.22
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (28 bp):
AAAAAAACAAAACAAAGAAAAGAAAAAA
Found at i:7742303 original size:24 final size:24
Alignment explanation
Indices: 7742222--7742302 Score: 103
Period size: 24 Copynumber: 3.3 Consensus size: 24
7742212 TATTATGCCT
*
7742222 AAAAAAACAAAACAAA-AAAGGAACA
1 AAAAAAACAAAACAAAGAAAAG-A-A
7742247 AAAAAAACAAAACAAAGAAAAGAA
1 AAAAAAACAAAACAAAGAAAAGAA
7742271 AAAAGAAA-AAAACAAAGAAAAGAA
1 AAAA-AAACAAAACAAAGAAAAGAA
7742295 AAAGAAAA
1 AAA-AAAA
7742303 ATCAAGATGA
Statistics
Matches: 52, Mismatches: 1, Indels: 7
0.87 0.02 0.12
Matches are distributed among these distances:
24 27 0.52
25 21 0.40
26 4 0.08
ACGTcount: A:0.83, C:0.07, G:0.10, T:0.00
Consensus pattern (24 bp):
AAAAAAACAAAACAAAGAAAAGAA
Found at i:7743280 original size:76 final size:76
Alignment explanation
Indices: 7743154--7744153 Score: 1045
Period size: 76 Copynumber: 13.1 Consensus size: 76
7743144 TCAAGAATTA
7743154 TATTTTTAAATTTC-TGC-TTTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
1 TATTTTTAAATTTCAT-CTTTTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCG
* *
7743217 GGTCACGCTGAGG
64 GGTCATGCCGAGG
**
7743230 TATTTTT-AATTTCAGTCTTTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
1 TATTTTTAAATTTCA-TCTTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
* *
7743294 GTCACGCTGAGG
65 GTCATGCCGAGG
* * *
7743306 TATTTTT-AATTTCAGTCTTTTTTT-TAAAATCAACTCATAATACAGATGTGAGTTGAGCCTCCG
1 TATTTTTAAATTTCA-TCTTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
* *
7743369 GTCACGCTGAGG
65 GTCATGCCGAGG
* *
7743381 TATTTTTTAATTT-ATGTTTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
1 TATTTTTAAATTTCAT-CTTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGG
7743445 GTCATGCCGAGG
65 GTCATGCCGAGG
*
7743457 TATTTCTTTCAAATTTC--C-GTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
1 TA-TT-TTT-AAATTTCATCTTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
7743519 GGGTCATGCCGAGG
63 GGGTCATGCCGAGG
7743533 TATTTCTTTTAAATTTC--C-TTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCC
1 TA--T-TTTTAAATTTCATCTTTTTTTC--AAAAATCAACTCATAATACAGAGGTGAGTTGAGCC
7743595 TCGGGTCATGCCGAGG
61 TCGGGTCATGCCGAGG
* *
7743611 TATTTCTTTCAAACTT--TC-GTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
1 TA-TT-TTT-AAATTTCATCTTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
7743673 GGGTCATGCCGAGG
63 GGGTCATGCCGAGG
* *
7743687 TATTTCTTTCAAATTT--TC-GTTTTTCAAAAATCAACTCATAATACATAGGTGAGTTGAGCCTC
1 TA-TT-TTT-AAATTTCATCTTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
7743749 GGGTCATGCCGAGG
63 GGGTCATGCCGAGG
* * *
7743763 TATTTCTTTTAAATTTC-TGTTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
1 TA--T-TTTTAAATTTCATCTTTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCT
7743827 CGGGTCAT-CCTGAGG
62 CGGGTCATGCC-GAGG
* * * * *
7743842 TATTTTTCAATTTC--CGTGTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
1 TATTTTTAAATTTCATCTTTTTTTC-----AAAAATCAACTCATAATAC-AGAGGTGAGTTGAGC
* ***
7743905 CTCGAGTCACATCGAGG
60 CTCGGGTCATGCCGAGG
* * ** ** * *
7743922 TATTTTTCAATTT-TTGGTTTTCACAAAAATGAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
1 TATTTTTAAATTTCATCTTTTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGG
7743986 GTCAT-CCTGAGG
65 GTCATGCC-GAGG
* * * *
7743998 T-CTTTTCAATTTC-T-ATTTTTTCAAAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTC
1 TATTTTTAAATTTCATCTTTTTTTC--AAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTC
7744060 GGGTCATGCCGAGG
63 GGGTCATGCCGAGG
* *
7744074 TATTTCTTTTAAA---CTTCTGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
1 TA--T-TTTTAAATTTCATCTTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC
7744136 -GGTCATGCCGAGG
63 GGGTCATGCCGAGG
7744149 TATTT
1 TATTT
7744154 CTTTTAAATT
Statistics
Matches: 832, Mismatches: 50, Indels: 88
0.86 0.05 0.09
Matches are distributed among these distances:
72 2 0.00
73 1 0.00
74 6 0.01
75 103 0.12
76 464 0.56
77 47 0.06
78 96 0.12
79 41 0.05
80 66 0.08
81 6 0.01
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (76 bp):
TATTTTTAAATTTCATCTTTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGG
TCATGCCGAGG
Found at i:7743613 original size:154 final size:153
Alignment explanation
Indices: 7743172--7744166 Score: 1174
Period size: 152 Copynumber: 6.5 Consensus size: 153
7743162 AATTTCTGCT
* *
7743172 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-T-TT
1 TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTCTT
***
7743235 TT-AATTTCAGTCTTTTTT-TTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCA
65 TTAAATTTC---CTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCA
* * *
7743298 CGCTGAGGTA-TT-TTT--AATTTCAGTCT
127 TGCCGAGGTATTTCTTTCAAATTTC---CG
** * * * *
7743324 TTTTTTTAAAATCAACTCATAATACAGATGTGAGTTGAGCCTCCGGTCACGCTGAGGTATT-TTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTCTTT
* **
7743388 TAATTTATGTTTTTTTTC--AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATG
66 TAAATT-T-CCTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATG
7743451 CCGAGGTATTTCTTTCAAATTTCCG
129 CCGAGGTATTTCTTTCAAATTTCCG
7743476 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTA-TTCTT
7743541 TTAAATTTCCTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGC
65 TTAAATTTCCTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGC
7743606 CGAGGTATTTCTTTCAAACTTT-CG
130 CGAGGTATTTCTTTCAAA-TTTCCG
7743630 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTA-TTCTT
* * * *
7743695 TCAAATTTTCGTTTTTC--AAAAATCAACTCATAATACATAGGTGAGTTGAGCCTCGGGTCATGC
65 TTAAATTTCCTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGC
* *
7743758 CGAGGTATTTCTTTTAAATTTCTG
130 CGAGGTATTTCTTTCAAATTTCCG
* *
7743782 TTTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCAT-CCTGAGGTA-T
1 --TTTTTCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCC-GAGGTATT
* * * *
7743845 -TTTTCAATTTCCGTGTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCG
62 CTTTTAAATTTCC-TTTTTTC---AAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCG
* *** * **
7743909 AGTCACATCGAGGTA-TT-TTTCAATTTTTGG
122 GGTCATGCCGAGGTATTTCTTTCAAATTTCCG
* * *
7743939 TTTTCACAAAAATGAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCAT-CCTGAGG---TC
1 TTTT-TCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCC-GAGGTATTC
* * *
7744000 TTTTCAATTTCTATTTTTTCAAAAAAATCAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTC
63 TTTTAAATTTC-CTTTTTTCAAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTC
* * *
7744065 ATGCCGAGGTATTTCTTTTAAACTTCTG
126 ATGCCGAGGTATTTCTTTCAAATTTCCG
7744093 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC-GGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTA-TTCTT
7744157 TTAAATTTCC
65 TTAAATTTCC
7744167 ACGCCTAATA
Statistics
Matches: 742, Mismatches: 65, Indels: 70
0.85 0.07 0.08
Matches are distributed among these distances:
151 113 0.15
152 221 0.30
153 35 0.05
154 192 0.26
155 73 0.10
156 51 0.07
157 9 0.01
158 19 0.03
159 29 0.04
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (153 bp):
TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTCTTT
TAAATTTCCTTTTTTCAAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCC
GAGGTATTTCTTTCAAATTTCCG
Found at i:7743675 original size:230 final size:228
Alignment explanation
Indices: 7743172--7744166 Score: 1199
Period size: 230 Copynumber: 4.3 Consensus size: 228
7743162 AATTTCTGCT
* *
7743172 TTTTTCAAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA-TT-T
1 TTTTTC-AAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCT
* **
7743235 TT--AATTTCAGTCTTTTTTTTTAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCA
65 TTCAAATTTC---C-GTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCA
* * ** *
7743298 CGCTGAGGTAT-TTTT-AATTTCAGTCTTTTTT-TTAAAATCAACTCATAATAC-AGATGTGAGT
126 TGCCGAGGTATCTTTTAAATTTC--TCTTTTTTCAAAAAATCAACTCATAATACGAGAGGTGAGT
* * * ** **
7743359 TGAGCCTCCGGTCACGCTGAGGTATTTTTT-AATTTATGTTT
189 TGAGCCTCGGGTCATGCCGAGGTATTTTTTCAAACT-T-TCG
7743400 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
7743465 TCAAATTTCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCG
66 TCAAATTTCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCG
7743530 AGGTATTTCTTTTAAATTTC-CTTTTTTCAAAAAAATCAACTCATAATAC-AGAGGTGAGTTGAG
131 AGGTA--TCTTTTAAATTTCTCTTTTTTC-AAAAAATCAACTCATAATACGAGAGGTGAGTTGAG
7743593 CCTCGGGTCATGCCGAGGTATTTCTTTCAAACTTTCG
193 CCTCGGGTCATGCCGAGGTATTT-TTTCAAACTTTCG
7743630 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
* *
7743695 TCAAATTTTCGTTTTTCAAAAATCAACTCATAATACATAGGTGAGTTGAGCCTCGGGTCATGCCG
66 TCAAATTTCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCG
* * *
7743760 AGGTATTTCTTTTAAATTTCTGTTTTTTTC-AAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
131 AGGTA--TCTTTTAAATTTCT-CTTTTTTCAAAAAATCAACTCATAATACGAGAGGTGAGTTGAG
7743824 CCTCGGGTCAT-CCTGAGGTA-TTTTTC-AA-TTTCCG
193 CCTCGGGTCATGCC-GAGGTATTTTTTCAAACTTT-CG
* * * ***
7743858 TGTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGAGTCACATCGAGGT
1 T-TTTTC-----AAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGT
* ** * * *
7743923 A-TT-TTTCAATTTTTGGTTTTCACAAAAATGAACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
59 ATTTCTTTCAAATTTCCGTTTT-TCAAAAATCAACTCATAATAC-AGAGGTGAGTTGAGCCTCGG
* * *
7743986 GTCAT-CCTGAGG--TCTTTTCAATTTCTATTTTTTCAAAAAAATCAACTCATAATTCGAGAGGT
122 GTCATGCC-GAGGTATCTTTTAAATTTCTCTTTTTTC-AAAAAATCAACTCATAATACGAGAGGT
*
7744048 GAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTTTTAAAC-TTCTG
185 GAGTTGAGCCTCGGGTCATGCCGAGGTATTT-TTTCAAACTTTC-G
7744093 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTC-GGTCATGCCGAGGTATTTCTT
1 TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
*
7744157 TTAAATTTCC
66 TCAAATTTCC
7744167 ACGCCTAATA
Statistics
Matches: 681, Mismatches: 49, Indels: 73
0.85 0.06 0.09
Matches are distributed among these distances:
227 120 0.18
228 41 0.06
229 38 0.06
230 232 0.34
231 60 0.09
232 59 0.09
233 19 0.03
234 48 0.07
235 64 0.09
ACGTcount: A:0.28, C:0.18, G:0.19, T:0.35
Consensus pattern (228 bp):
TTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCGAGGTATTTCTT
TCAAATTTCCGTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCATGCCG
AGGTATCTTTTAAATTTCTCTTTTTTCAAAAAATCAACTCATAATACGAGAGGTGAGTTGAGCCT
CGGGTCATGCCGAGGTATTTTTTCAAACTTTCG
Found at i:7744892 original size:13 final size:14
Alignment explanation
Indices: 7744870--7744908 Score: 53
Period size: 13 Copynumber: 2.8 Consensus size: 14
7744860 AGAAGAAGGG
7744870 AGAAAGAAAGAAAA
1 AGAAAGAAAGAAAA
7744884 AGAAA-AAAGAAAA
1 AGAAAGAAAGAAAA
*
7744897 AAATAAGAAAGA
1 AGA-AAGAAAGA
7744909 TAGCAAGCCA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 10 0.45
14 7 0.32
15 5 0.23
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (14 bp):
AGAAAGAAAGAAAA
Found at i:7744892 original size:17 final size:18
Alignment explanation
Indices: 7744872--7744906 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7744862 AAGAAGGGAG
*
7744872 AAAGAAAGAAA-AAGAAA
1 AAAGAAAAAAATAAGAAA
7744889 AAAGAAAAAAATAAGAAA
1 AAAGAAAAAAATAAGAAA
7744907 GATAGCAAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (18 bp):
AAAGAAAAAAATAAGAAA
Found at i:7745477 original size:20 final size:20
Alignment explanation
Indices: 7745452--7745489 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7745442 AAAAATATTC
7745452 AAAAATCCTCGTATTTTAAT
1 AAAAATCCTCGTATTTTAAT
* *
7745472 AAAAATTCTCGTGTTTTA
1 AAAAATCCTCGTATTTTA
7745490 TTAGAATCCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (20 bp):
AAAAATCCTCGTATTTTAAT
Found at i:7745638 original size:17 final size:17
Alignment explanation
Indices: 7745616--7745654 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
7745606 TCGTGTCTCA
7745616 AAAATTT-TCATGTTTTC
1 AAAATTTCTCATG-TTTC
*
7745633 AAAATTTCTCGTGTTTC
1 AAAATTTCTCATGTTTC
7745650 AAAAT
1 AAAAT
7745655 AATAATAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 16 0.80
18 4 0.20
ACGTcount: A:0.33, C:0.13, G:0.08, T:0.46
Consensus pattern (17 bp):
AAAATTTCTCATGTTTC
Found at i:7745980 original size:18 final size:18
Alignment explanation
Indices: 7745959--7746299 Score: 188
Period size: 18 Copynumber: 18.9 Consensus size: 18
7745949 ATGTTTAGAA
7745959 AAAAATTTGTCGTG-TTTC
1 AAAAATTT-TCGTGTTTTC
*
7745977 AAAAATCTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* * **
7745995 AAAAA-TTCCGACG---AA
1 AAAAATTTTCG-TGTTTTC
7746010 AAAAAGTTTTCGTGTTTTC
1 AAAAA-TTTTCGTGTTTTC
*
7746029 TAAAAA-CTTC-TGTTTTTC
1 -AAAAATTTTCGTG-TTTTC
* *
7746047 ATAAATTTTCGTGTTCTC
1 AAAAATTTTCGTGTTTTC
* ****
7746065 AAAAA-TTCCGATGATCAAA
1 AAAAATTTTCG-TG-TTTTC
7746084 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
7746102 TAAAAA-CTTCGATG-TTTC
1 -AAAAATTTTCG-TGTTTTC
7746120 AAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
*
7746138 AAAAATTTTCGTGATTTC
1 AAAAATTTTCGTGTTTTC
* *
7746156 AACAATTCTCGTG-TTTC
1 AAAAATTTTCGTGTTTTC
* *
7746173 ATAAATTTTCGCG-TTTC
1 AAAAATTTTCGTGTTTTC
***
7746190 AAAAAAAATCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* *
7746208 AAAAAAAAATTCTCGT-ATTTC
1 ----AAAAATTTTCGTGTTTTC
*
7746229 AAAAATTTTTGTG-TTTC
1 AAAAATTTTCGTGTTTTC
*
7746246 AAAAATTTTCGTGTTTTT
1 AAAAATTTTCGTGTTTTC
** *
7746264 AATAAATTGCCGTGTCTTC
1 AA-AAATTTTCGTGTTTTC
*
7746283 AAAAATTCTCGTGTTTT
1 AAAAATTTTCGTGTTTT
7746300 TTTTAAACAA
Statistics
Matches: 243, Mismatches: 54, Indels: 52
0.70 0.15 0.15
Matches are distributed among these distances:
15 5 0.02
16 1 0.00
17 80 0.33
18 104 0.43
19 31 0.13
20 9 0.04
21 4 0.02
22 9 0.04
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.42
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:7746026 original size:51 final size:52
Alignment explanation
Indices: 7745956--7746053 Score: 132
Period size: 52 Copynumber: 1.9 Consensus size: 52
7745946 GTCATGTTTA
7745956 GAAAAAAATTTGTCGTG-TTTC-AAAAATCTTC-GTGTTTTCAAAAATTCCGAC
1 GAAAAAAATTTGTCGTGTTTTCTAAAAA-CTTCTGT-TTTTCAAAAATTCCGAC
*
7746007 GAAAAAAAGTTT-TCGTGTTTTCTAAAAACTTCTGTTTTTCATAAATT
1 GAAAAAAA-TTTGTCGTGTTTTCTAAAAACTTCTGTTTTTCAAAAATT
7746054 TTCGTGTTCT
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
51 13 0.31
52 22 0.52
53 7 0.17
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (52 bp):
GAAAAAAATTTGTCGTGTTTTCTAAAAACTTCTGTTTTTCAAAAATTCCGAC
Found at i:7746034 original size:73 final size:73
Alignment explanation
Indices: 7745958--7746144 Score: 226
Period size: 73 Copynumber: 2.6 Consensus size: 73
7745948 CATGTTTAGA
* *
7745958 AAAAAATTTGTCGTGTTTCAAAAATCTTCGTGTTTTCAAAAATTCCGACG-AAAAAAAGTTTTCG
1 AAAAAATTTGTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAATTCCGACGAAAAAAAAATTTTCG
7746022 TGTTTTCT
66 TGTTTTCT
* * * *
7746030 AAAAACTTCTGT--T-TTTCATAAATTTTCGTGTTCTCAAAAATTCCGATGATCAAAAAAAATTT
1 AAAAAATT-TGTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAATTCCGACGA--AAAAAAAATTT
7746092 TCGTGTTTTCT
63 TCGTGTTTTCT
*
7746103 -AAAAA-CT-TCGATGTTTCAAAAATTTTCGTGTTTTCAAAAATT
1 AAAAAATTTGTCG-TGTTTCAAAAATTTTCGTGTTTTCAAAAATT
7746145 TTCGTGATTT
Statistics
Matches: 97, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
69 1 0.01
70 32 0.33
71 1 0.01
72 12 0.12
73 51 0.53
ACGTcount: A:0.34, C:0.14, G:0.11, T:0.41
Consensus pattern (73 bp):
AAAAAATTTGTCGTGTTTCAAAAATTTTCGTGTTTTCAAAAATTCCGACGAAAAAAAAATTTTCG
TGTTTTCT
Found at i:7746197 original size:73 final size:70
Alignment explanation
Indices: 7746084--7746261 Score: 171
Period size: 73 Copynumber: 2.5 Consensus size: 70
7746074 GATGATCAAA
* * * *** *
7746084 AAAAATTTTCGTGTTTTCTAAAAA-CTTCGATGTTTCAAAAATTTTCGTGTTTTC-AAAAATTTT
1 AAAAATTCTCGTG-TTTC-AAAAATTTTCG-CGTTTCAAAAAAAATCGTGTTTTCAAAAAATTCT
7746147 CGTGATTTC
63 CGT-ATTTC
* *
7746156 AACAATTCTCGTGTTTCATAAATTTTCGCGTTTCAAAAAAAATCGTGTTTTCAAAAAAAAATTCT
1 AAAAATTCTCGTGTTTCAAAAATTTTCGCGTTTCAAAAAAAATCGTGTTTTC---AAAAAATTCT
7746221 CGTATTTC
63 CGTATTTC
* * *
7746229 AAAAATTTTTGTGTTTCAAAAATTTTCGTGTTT
1 AAAAATTCTCGTGTTTCAAAAATTTTCGCGTTT
7746262 TTAATAAATT
Statistics
Matches: 87, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
70 24 0.28
71 8 0.09
72 11 0.13
73 33 0.38
74 11 0.13
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.44
Consensus pattern (70 bp):
AAAAATTCTCGTGTTTCAAAAATTTTCGCGTTTCAAAAAAAATCGTGTTTTCAAAAAATTCTCGT
ATTTC
Found at i:7746202 original size:34 final size:35
Alignment explanation
Indices: 7746128--7746212 Score: 91
Period size: 35 Copynumber: 2.4 Consensus size: 35
7746118 TCAAAAATTT
* * ***
7746128 TCGTGTTTTCAAAAATTTTCGTGATTTCAACAATTC
1 TCGTG-TTTCAAAAATTTTCGCGATTTCAAAAAAAA
*
7746164 TCGTGTTTCATAAATTTTCGCG-TTTCAAAAAAAA
1 TCGTGTTTCAAAAATTTTCGCGATTTCAAAAAAAA
7746198 TCGTGTTTTCAAAAA
1 TCGTG-TTTCAAAAA
7746213 AAAATTCTCG
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
34 13 0.32
35 23 0.56
36 5 0.12
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (35 bp):
TCGTGTTTCAAAAATTTTCGCGATTTCAAAAAAAA
Found at i:7746249 original size:16 final size:17
Alignment explanation
Indices: 7745840--7746298 Score: 185
Period size: 18 Copynumber: 25.2 Consensus size: 17
7745830 TTTTCGCGTT
7745840 TTTCAAATAATTTTCGTG
1 TTTCAAA-AATTTTCGTG
7745858 TTCTCAAAAAATTTATTTTCGTG
1 TT-TC--AAAA---ATTTTCGTG
* * * *
7745881 TTTCTAATATTCTCGTA
1 TTTCAAAAATTTTCGTG
* * *
7745898 TTTCAAAAAAATTCCGTAT
1 TTTC-AAAAATTTTCGT-G
* * *
7745917 TTTAAAAAAATTCTCGTA
1 TTT-CAAAAATTTTCGTG
* *
7745935 TTTCAAAAATTGTCATG
1 TTTCAAAAATTTTCGTG
*
7745952 TTTAGAAAAAAATTTGTCGTG
1 TTT---CAAAAATTT-TCGTG
*
7745973 TTTCAAAAATCTTCGTG
1 TTTCAAAAATTTTCGTG
* *
7745990 TTTTCAAAAA-TTCCGACG
1 -TTTCAAAAATTTTCG-TG
**
7746008 --AAAAAAAGTTTTCGTG
1 TTTCAAAAA-TTTTCGTG
* *
7746024 TTTTCTAAAAA-CTTCTGTT
1 -TTTC-AAAAATTTTC-GTG
*
7746043 TTTCATAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
*
7746060 TTCTCAAAAA-TTCCGATG
1 TT-TCAAAAATTTTCG-TG
*
7746078 -ATCAAAAAAAATTTTCGTG
1 TTTC---AAAAATTTTCGTG
*
7746097 TTTTCTAAAAA-CTTCGATG
1 -TTTC-AAAAATTTTCG-TG
7746116 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
7746133 TTTTCAAAAATTTTCGTG
1 -TTTCAAAAATTTTCGTG
* *
7746151 ATTTCAACAATTCTCGTG
1 -TTTCAAAAATTTTCGTG
* *
7746169 TTTCATAAATTTTCGCG
1 TTTCAAAAATTTTCGTG
***
7746186 TTTCAAAAAAAATCGTG
1 TTTCAAAAATTTTCGTG
* *
7746203 TTTTCAAAAAAAAATTCTCGTA
1 -TTTC----AAAAATTTTCGTG
*
7746225 TTTCAAAAATTTTTGTG
1 TTTCAAAAATTTTCGTG
7746242 TTTCAAAAATTTTCGTG
1 TTTCAAAAATTTTCGTG
* **
7746259 TTTTTAATAAATTGCCGTG
1 -TTTCAA-AAATTTTCGTG
*
7746278 TCTTCAAAAATTCTCGTG
1 T-TTCAAAAATTTTCGTG
7746296 TTT
1 TTT
7746299 TTTTTAAACA
Statistics
Matches: 327, Mismatches: 72, Indels: 85
0.68 0.15 0.18
Matches are distributed among these distances:
15 5 0.02
16 3 0.01
17 108 0.33
18 111 0.34
19 43 0.13
20 19 0.06
21 16 0.05
22 11 0.03
23 11 0.03
ACGTcount: A:0.33, C:0.14, G:0.11, T:0.43
Consensus pattern (17 bp):
TTTCAAAAATTTTCGTG
Found at i:7746287 original size:73 final size:71
Alignment explanation
Indices: 7746084--7746295 Score: 162
Period size: 73 Copynumber: 2.9 Consensus size: 71
7746074 GATGATCAAA
* * * *** * *
7746084 AAAAATTTTCGTGTTTTCTAAAAA-CTTCGATGTTTCAAAAATTTTCGTGTTTTC-AAAAATTTT
1 AAAAATTCTCGTG-TTTC-AAAAATTTTCG-CGTTTCAAAAAAAATCGTGTCTTCAAAAAATTCT
7746147 CGTGATTTC
63 CGTGATTTC
* * *
7746156 AACAATTCTCGTGTTTCATAAATTTTCGCGTTTCAAAAAAAATCGTGTTTTCAAAAAAAAATTCT
1 AAAAATTCTCGTGTTTCAAAAATTTTCGCGTTTCAAAAAAAATCGTGTCTTC---AAAAAATTCT
7746221 CGT-ATTTC
63 CGTGATTTC
* * * ** * *
7746229 AAAAATTTTTGTGTTTCAAAAATTTTCGTGTTTTTAATAAATTGCCGTGTCTTC-AAAAATTCTC
1 AAAAATTCTCGTGTTTCAAAAATTTTCGCGTTTCAAAAAAAAT--CGTGTCTTCAAAAAATTCTC
7746293 GTG
64 GTG
7746296 TTTTTTTTAA
Statistics
Matches: 113, Mismatches: 19, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
70 24 0.21
71 20 0.18
72 11 0.10
73 39 0.35
74 11 0.10
75 8 0.07
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (71 bp):
AAAAATTCTCGTGTTTCAAAAATTTTCGCGTTTCAAAAAAAATCGTGTCTTCAAAAAATTCTCGT
GATTTC
Found at i:7753940 original size:50 final size:49
Alignment explanation
Indices: 7753860--7754331 Score: 315
Period size: 50 Copynumber: 9.5 Consensus size: 49
7753850 TACAATTCAA
*
7753860 AGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGC-ATGCAGCGGAGC
* * * * **** *
7753910 AGATTGAAGCTACAATGGCGAAT-TTCACTTCCCTGACATTGCAATTCA-A
1 AGATTGAAGCCACAACGGCGAATCTT-ACTTCCCAGGCA-TGCAGCGGAGC
*
7753959 AGATTGAAGCCACAACGGTGAATCTTAC-TCCCAGGCGATGCAGCGGAGC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGC-ATGCAGCGGAGC
* * * * * **** *
7754008 AGATTGAAGCTACAACGACGAATCTCACTTCCCTGACATTGCAATTCA-A
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCA-TGCAGCGGAGC
** *
7754057 AGATTGAAGCCACAACGATGAATCTTACTTCCCAGGTAATGCAGCGGAGC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGG-CATGCAGCGGAGC
* * * * * **** **
7754107 AGATTGAAGCTACAACGACGAATCTCACTTCCCCGACATTGCAATTCAAA
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCA-TGCAGCGGAGC
*
7754157 AGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGC
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGC-ATGCAGCGGAGC
* * * * * * **** *
7754207 AAATTGAAGCTACAAAGGCGAATCTCACTTCCCTGACATTGCAATTCA-A
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCA-TGCAGCGGAGC
* * * * **
7754256 AGATTGAAGCCACAACGGCGAGTCTTACTTGCCAGGCGATGTAGTGGAAT
1 AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGC-ATGCAGCGGAGC
* * *
7754306 AGGTTGAAGCTACGACGGCGAATCTT
1 AGATTGAAGCCACAACGGCGAATCTT
7754332 GTTTCCTTGA
Statistics
Matches: 313, Mismatches: 95, Indels: 28
0.72 0.22 0.06
Matches are distributed among these distances:
48 11 0.04
49 123 0.39
50 178 0.57
51 1 0.00
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (49 bp):
AGATTGAAGCCACAACGGCGAATCTTACTTCCCAGGCATGCAGCGGAGC
Found at i:7754145 original size:99 final size:99
Alignment explanation
Indices: 7753852--7754330 Score: 762
Period size: 99 Copynumber: 4.8 Consensus size: 99
7753842 CCATAGTTTA
7753852 CAATTCAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGA
1 CAATTCAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGA
* * *
7753917 AGCTACAATGGCGAATTTCACTTCCCTGACATTG
66 AGCTACAACGACGAATCTCACTTCCCTGACATTG
7753951 CAATTCAAAGATTGAAGCCACAACGGTGAATCTTAC-TCCCAGGCGATGCAGCGGAGCAGATTGA
1 CAATTCAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGA
7754015 AGCTACAACGACGAATCTCACTTCCCTGACATTG
66 AGCTACAACGACGAATCTCACTTCCCTGACATTG
* **
7754049 CAATTCAAAGATTGAAGCCACAACGATGAATCTTACTTCCCAGGTAATGCAGCGGAGCAGATTGA
1 CAATTCAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGA
*
7754114 AGCTACAACGACGAATCTCACTTCCCCGACATTG
66 AGCTACAACGACGAATCTCACTTCCCTGACATTG
*
7754148 CAATTCAAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAAATTG
1 CAATTC-AAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTG
* *
7754213 AAGCTACAAAGGCGAATCTCACTTCCCTGACATTG
65 AAGCTACAACGACGAATCTCACTTCCCTGACATTG
* * * * * ** *
7754248 CAATTCAAAGATTGAAGCCACAACGGCGAGTCTTACTTGCCAGGCGATGTAGTGGAATAGGTTGA
1 CAATTCAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGA
* *
7754313 AGCTACGACGGCGAATCT
66 AGCTACAACGACGAATCT
7754331 TGTTTCCTTG
Statistics
Matches: 353, Mismatches: 25, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
98 94 0.27
99 167 0.47
100 92 0.26
ACGTcount: A:0.32, C:0.25, G:0.22, T:0.22
Consensus pattern (99 bp):
CAATTCAAAGATTGAAGCCACAACGGTGAATCTTACTTCCCAGGCGATGCAGCGGAGCAGATTGA
AGCTACAACGACGAATCTCACTTCCCTGACATTG
Found at i:7755725 original size:27 final size:27
Alignment explanation
Indices: 7755669--7755725 Score: 64
Period size: 27 Copynumber: 2.1 Consensus size: 27
7755659 TTTTATTTCA
* *
7755669 ATTTAGTTATTTTTTTAATCTTTTATT
1 ATTTAGTTATTTTTTTAATCTATTAAT
7755696 ATTTAGTTAATTATTTTTAA-C-ATTAAT
1 ATTTAGTT-ATT-TTTTTAATCTATTAAT
7755723 ATT
1 ATT
7755726 ATTATTACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
27 15 0.58
28 4 0.15
29 7 0.27
ACGTcount: A:0.30, C:0.04, G:0.04, T:0.63
Consensus pattern (27 bp):
ATTTAGTTATTTTTTTAATCTATTAAT
Found at i:7755957 original size:2 final size:2
Alignment explanation
Indices: 7755950--7755988 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7755940 GACATACCTT
7755950 TA TA 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 T
7755989 TTAATTCATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:7761928 original size:35 final size:35
Alignment explanation
Indices: 7761889--7761961 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
7761879 TGCACATACT
7761889 TTTGTTGCAACATAGAACCTAAATTTGTGCATGTA
1 TTTGTTGCAACATAGAACCTAAATTTGTGCATGTA
*
7761924 TTTGTTGCAACATAGAACCTGAATTTGTGCATGTA
1 TTTGTTGCAACATAGAACCTAAATTTGTGCATGTA
7761959 TTT
1 TTT
7761962 TGTGAAGTGA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.40
Consensus pattern (35 bp):
TTTGTTGCAACATAGAACCTAAATTTGTGCATGTA
Found at i:7765276 original size:12 final size:12
Alignment explanation
Indices: 7765259--7765304 Score: 62
Period size: 11 Copynumber: 4.0 Consensus size: 12
7765249 AACTAATCCT
7765259 CTCTCAAATTTC
1 CTCTCAAATTTC
7765271 CTCTC-AATTTC
1 CTCTCAAATTTC
7765282 CTCTCAAA-TTC
1 CTCTCAAATTTC
7765293 CT-TCCAAATTTC
1 CTCT-CAAATTTC
7765305 TCTGAAATCC
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
10 1 0.03
11 20 0.65
12 10 0.32
ACGTcount: A:0.24, C:0.35, G:0.00, T:0.41
Consensus pattern (12 bp):
CTCTCAAATTTC
Found at i:7765307 original size:22 final size:21
Alignment explanation
Indices: 7765258--7765312 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 21
7765248 AAACTAATCC
7765258 TCTCTCAAATTTCCTCTCAATT
1 TCTCTCAAA-TTCCTCTCAATT
7765280 TCCTCTCAAATTCCT-TCCAAATT
1 T-CTCTCAAATTCCTCT-C-AATT
*
7765303 TCTCTGAAAT
1 TCTCTCAAAT
7765313 CCATATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
21 1 0.03
22 15 0.52
23 13 0.45
ACGTcount: A:0.25, C:0.31, G:0.02, T:0.42
Consensus pattern (21 bp):
TCTCTCAAATTCCTCTCAATT
Found at i:7765353 original size:51 final size:51
Alignment explanation
Indices: 7765272--7765371 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
7765262 TCAAATTTCC
7765272 TCTCAATTTCCTCTCAAATTCCTTCCAAATTTCTCTGAAATCCATATTTAA
1 TCTCAATTTCCTCTCAAATTCCTTCCAAATTTCTCTGAAATCCATATTTAA
* * * * *
7765323 TCTCAATTTGCTCTCAATTTCC-TCTTAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTCCTCTCAAATTCCTTC-CAAATTTCTCTGAAATCCATATTT
7765372 TTAAATAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 2 0.05
51 41 0.95
ACGTcount: A:0.26, C:0.27, G:0.02, T:0.45
Consensus pattern (51 bp):
TCTCAATTTCCTCTCAAATTCCTTCCAAATTTCTCTGAAATCCATATTTAA
Found at i:7769119 original size:12 final size:11
Alignment explanation
Indices: 7769102--7769146 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
7769092 TTTGGTTTTC
7769102 ATTAATTTTGAT
1 ATTAATTTT-AT
*
7769114 ATTAATTTTAA
1 ATTAATTTTAT
7769125 ATTAATTCTTAT
1 ATTAATT-TTAT
7769137 -TTAATTTTAT
1 ATTAATTTTAT
7769147 TATTTTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
10 4 0.13
11 14 0.47
12 12 0.40
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (11 bp):
ATTAATTTTAT
Found at i:7772604 original size:13 final size:13
Alignment explanation
Indices: 7772586--7772618 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
7772576 TTATTTGATT
7772586 TTTATTTTGTTTA
1 TTTATTTTGTTTA
7772599 TTTATTTTTGTTTA
1 TTTA-TTTTGTTTA
7772613 -TTATTT
1 TTTATTT
7772619 GGACTGGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 7 0.37
14 9 0.47
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (13 bp):
TTTATTTTGTTTA
Found at i:7772609 original size:14 final size:14
Alignment explanation
Indices: 7772586--7772618 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
7772576 TTATTTGATT
7772586 TTTA-TTTTGTTTA
1 TTTATTTTTGTTTA
7772599 TTTATTTTTGTTTA
1 TTTATTTTTGTTTA
7772613 -TTATTT
1 TTTATTT
7772619 GGACTGGATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (14 bp):
TTTATTTTTGTTTA
Found at i:7772851 original size:38 final size:38
Alignment explanation
Indices: 7772778--7772852 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
7772768 ATCGTAGAAT
* *
7772778 GGTTATCGACTGGCTCGCTAGAGCAACACCGTGACGAC
1 GGTTATCGACTGGCTCACTAGAGCAACACCATGACGAC
* *
7772816 GGTTATCGACTGGCTCACTAGAGCGACACTATGACGA
1 GGTTATCGACTGGCTCACTAGAGCAACACCATGACGA
7772853 TGATCTATCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.25, C:0.27, G:0.28, T:0.20
Consensus pattern (38 bp):
GGTTATCGACTGGCTCACTAGAGCAACACCATGACGAC
Found at i:7773889 original size:36 final size:37
Alignment explanation
Indices: 7773815--7773889 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 37
7773805 TCCTTAGATT
*
7773815 TTTTGGTATTCTTTCATGTTTTTAAAAAAATGTTAAAA
1 TTTTGGTATTCTTTCATGTTTTT-AAAAAATGTGAAAA
7773853 TTTTGGTATTCTTTCATGTTTTT-AAAAATGTGAAAA
1 TTTTGGTATTCTTTCATGTTTTTAAAAAATGTGAAAA
7773889 T
1 T
7773890 ATGAATAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 13 0.36
38 23 0.64
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (37 bp):
TTTTGGTATTCTTTCATGTTTTTAAAAAATGTGAAAA
Found at i:7773901 original size:18 final size:18
Alignment explanation
Indices: 7773878--7773918 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
7773868 ATGTTTTTAA
7773878 AAATGTGAAAATATGAAT
1 AAATGTGAAAATATGAAT
*
7773896 AAATGTGAAAATTTGAAT
1 AAATGTGAAAATATGAAT
7773914 AAATG
1 AAATG
7773919 AAATTTTTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
AAATGTGAAAATATGAAT
Found at i:7774056 original size:20 final size:20
Alignment explanation
Indices: 7774033--7774130 Score: 85
Period size: 20 Copynumber: 4.8 Consensus size: 20
7774023 TTCTCCATTT
*
7774033 TTTTTTGTATCTCCTCATAA
1 TTTTTTGTATTTCCTCATAA
*
7774053 TTTTTTGT-TTTCCATCATAC
1 TTTTTTGTATTTCC-TCATAA
*
7774073 TTTCTTTGTATTTCCT--TAGT
1 TTT-TTTGTATTTCCTCATA-A
*
7774093 TTTTTTGGTATTCCCTCATAA
1 TTTTTT-GTATTTCCTCATAA
*
7774114 TTTTTTTATATTTCCTC
1 -TTTTTTGTATTTCCTC
7774131 GAATGTGTTG
Statistics
Matches: 63, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
19 9 0.14
20 27 0.43
21 14 0.22
22 13 0.21
ACGTcount: A:0.15, C:0.18, G:0.06, T:0.60
Consensus pattern (20 bp):
TTTTTTGTATTTCCTCATAA
Found at i:7774488 original size:20 final size:19
Alignment explanation
Indices: 7774458--7774527 Score: 77
Period size: 20 Copynumber: 3.5 Consensus size: 19
7774448 TTTTTGTACT
7774458 TCATATGTTTTTGTATCCCC
1 TCATAT-TTTTTGTATCCCC
* *
7774478 TCATAATTTTTAGTATTCCC
1 TCAT-ATTTTTTGTATCCCC
**
7774498 TCATATTTTTCTGTATCCTT
1 TCATATTTTT-TGTATCCCC
7774518 TCATATTTTT
1 TCATATTTTT
7774528 GGTACTTATT
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
19 6 0.14
20 34 0.81
21 2 0.05
ACGTcount: A:0.19, C:0.20, G:0.06, T:0.56
Consensus pattern (19 bp):
TCATATTTTTTGTATCCCC
Found at i:7774545 original size:19 final size:20
Alignment explanation
Indices: 7774523--7774570 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
7774513 TCCTTTCATA
*
7774523 TTTTTGGTACTTAT-TTATT
1 TTTTTAGTACTTATCTTATT
*
7774542 TTTTTAGTA-TTCTCTTATT
1 TTTTTAGTACTTATCTTATT
*
7774561 TTTTTTGTAC
1 TTTTTAGTAC
7774571 ACCCTCGGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
18 3 0.12
19 21 0.88
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (20 bp):
TTTTTAGTACTTATCTTATT
Found at i:7775089 original size:21 final size:21
Alignment explanation
Indices: 7775065--7775132 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 21
7775055 TGAGCTAAGT
7775065 AAAAAAAAATGAGAGAATATC
1 AAAAAAAAATGAGAGAATATC
* * *
7775086 AAAAAAACATGAGAAAATACC
1 AAAAAAAAATGAGAGAATATC
* * * *
7775107 AAAAAAATATGAAAGAGTTTC
1 AAAAAAAAATGAGAGAATATC
7775128 AAAAA
1 AAAAA
7775133 TTACGAGGGA
Statistics
Matches: 38, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 38 1.00
ACGTcount: A:0.66, C:0.07, G:0.12, T:0.15
Consensus pattern (21 bp):
AAAAAAAAATGAGAGAATATC
Found at i:7777202 original size:26 final size:23
Alignment explanation
Indices: 7777146--7777203 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 23
7777136 AATTATAAAG
7777146 TATATAAAAAAATATATTTGCAT
1 TATATAAAAAAATATATTTGCAT
*
7777169 TTTA-AAAAAAATAAATATGTT-CAT
1 TATATAAAAAAAT--ATAT-TTGCAT
7777193 ATATATAAAAA
1 -TATATAAAAA
7777204 TTAGTTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
22 8 0.29
23 3 0.11
24 7 0.25
25 5 0.18
26 5 0.18
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.36
Consensus pattern (23 bp):
TATATAAAAAAATATATTTGCAT
Found at i:7777264 original size:22 final size:22
Alignment explanation
Indices: 7777244--7777297 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
7777234 ATATGTATAC
7777244 TAAAATAAAT-ATATACATATAGA
1 TAAAA-AAATAAT-TACATATAGA
*
7777267 TAAAAAAATAATTACATATAAA
1 TAAAAAAATAATTACATATAGA
7777289 TAAATAAAA
1 TAAA-AAAA
7777298 AATAATTATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
22 17 0.61
23 11 0.39
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (22 bp):
TAAAAAAATAATTACATATAGA
Found at i:7777274 original size:26 final size:25
Alignment explanation
Indices: 7777245--7777308 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 25
7777235 TATGTATACT
* * *
7777245 AAAATAAATATATACATATAGATAAA
1 AAAATAATTATATACAAATAAAT-AA
* *
7777271 AAAATAATTACATATAAATAAATAA
1 AAAATAATTATATACAAATAAATAA
7777296 AAAATAATTATAT
1 AAAATAATTATAT
7777309 TATATTACAA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
25 14 0.44
26 18 0.56
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.30
Consensus pattern (25 bp):
AAAATAATTATATACAAATAAATAA
Found at i:7777357 original size:21 final size:21
Alignment explanation
Indices: 7777318--7777358 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7777308 TTATATTACA
* *
7777318 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
7777339 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
7777359 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:7777951 original size:23 final size:22
Alignment explanation
Indices: 7777908--7777965 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
7777898 AAAGGGTATC
* *
7777908 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
7777929 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
7777952 TACATATCATATCT
1 TACAAATCATATCT
7777966 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:7777968 original size:19 final size:19
Alignment explanation
Indices: 7777921--7778018 Score: 115
Period size: 19 Copynumber: 4.8 Consensus size: 19
7777911 AAATTAAATC
*
7777921 TCTAAGATTACAAAATCATA
1 TCTAAGATTAC-ATATCATA
7777941 TCTTCTAAGATTACATATCATA
1 ---TCTAAGATTACATATCATA
*
7777963 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
7777984 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
7778003 TCTAAGATTACATATC
1 TCTAAGATTACATATC
7778019 CTCGAAGATT
Statistics
Matches: 68, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
19 32 0.47
21 18 0.26
22 7 0.10
23 11 0.16
ACGTcount: A:0.40, C:0.16, G:0.07, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:7777981 original size:21 final size:21
Alignment explanation
Indices: 7777955--7778017 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
7777945 CTAAGATTAC
7777955 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
7777976 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
*
7777995 ATATCATATCTAAGATTACAT
1 ATATCATATCTAAGATTGCAT
7778016 AT
1 AT
7778018 CCTCGAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 18 0.46
21 21 0.54
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:7778481 original size:128 final size:129
Alignment explanation
Indices: 7778301--7778552 Score: 294
Period size: 128 Copynumber: 2.0 Consensus size: 129
7778291 AGATAAATTT
* * * * *
7778301 GATGCGATCTGCTCTACTGTAATTTCAGAGAGATAAGATCCATCATTCTAATCCACTCCGCTACA
1 GATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
* * *
7778366 ACTTTAGGAAGATAGGATT-T-GTTTATTTAGTCTGCTCCACTGCAACTTCAGAGAGATAAGACT
66 ACTTCAGGAAGATAGGATTATCG--GATTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGACT
7778429 A
129 A
* ** * * * *
7778430 GATGCGTTCTACTCT-CTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTTCACTGCA
1 GATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
* * * *
7778494 ACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTTCACTGCAACTTCAGGGAGATAA
66 ACTTCAGGAAGATAGGATTATCGGATTTAATCTGCTCCACTGCAACTTCAGAGAGATAA
7778553 AATTTGCCAT
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
128 87 0.85
129 14 0.14
130 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.30
Consensus pattern (129 bp):
GATGCGATCTACTCTACTGCAACTTCAGAGAGATAAGATCCAACATTCTAATCCACTCCACTACA
ACTTCAGGAAGATAGGATTATCGGATTTAATCTGCTCCACTGCAACTTCAGAGAGATAAGACTA
Found at i:7778710 original size:40 final size:42
Alignment explanation
Indices: 7778651--7778770 Score: 129
Period size: 40 Copynumber: 2.8 Consensus size: 42
7778641 ATTGCGGCTT
7778651 TAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-CT-AGA-TG
1 TAATCTGCT-C-CTGCAACTTCAGGGAGATAAGATCTGAGATTG
* * *
7778692 TGATCTGCTCTCTGCAACTTCAGAGAGATAAGATCTGAGATTT
1 TAATCTGCTC-CTGCAACTTCAGGGAGATAAGATCTGAGATTG
* *
7778735 TAATCTGCTCCATTGCATCTTCAGGGAGATAGGATC
1 TAATCTGCTCC--TGCAACTTCAGGGAGATAAGATC
7778771 CCGGCCACTA
Statistics
Matches: 66, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
40 22 0.33
41 10 0.15
42 4 0.06
43 10 0.15
44 20 0.30
ACGTcount: A:0.28, C:0.21, G:0.22, T:0.29
Consensus pattern (42 bp):
TAATCTGCTCCTGCAACTTCAGGGAGATAAGATCTGAGATTG
Found at i:7789907 original size:24 final size:23
Alignment explanation
Indices: 7789853--7789908 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 23
7789843 AATTATAAAG
*
7789853 TATATAAAAAAATATATTTGCAT
1 TATATAAAAAAAAATATTTGCAT
*
7789876 TTTA-AAAAAAAAATATGTT-CAT
1 TATATAAAAAAAAATAT-TTGCAT
7789898 ATATATAAAAA
1 -TATATAAAAA
7789909 TTAGTTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 14 0.52
23 8 0.30
24 5 0.19
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (23 bp):
TATATAAAAAAAAATATTTGCAT
Found at i:7789979 original size:26 final size:26
Alignment explanation
Indices: 7789950--7790035 Score: 76
Period size: 22 Copynumber: 3.4 Consensus size: 26
7789940 TATGTATACT
7789950 AAAATAAATATATACATATAGATAAA
1 AAAATAAATATATACATATAGATAAA
*
7789976 AAAAT--A-AT-TACATATAAATAAA
1 AAAATAAATATATACATATAGATAAA
* *
7789998 TAAATAAATA-AT-TATATTAGACTACAA
1 AAAATAAATATATACATA-TAGA-TA-AA
7790025 AAAATAAATAT
1 AAAATAAATAT
7790036 GCGTATATGA
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
22 17 0.36
23 2 0.04
24 5 0.11
25 5 0.11
26 7 0.15
27 11 0.23
ACGTcount: A:0.64, C:0.05, G:0.02, T:0.29
Consensus pattern (26 bp):
AAAATAAATATATACATATAGATAAA
Found at i:7790013 original size:22 final size:22
Alignment explanation
Indices: 7789951--7790007 Score: 78
Period size: 22 Copynumber: 2.6 Consensus size: 22
7789941 ATGTATACTA
* *
7789951 AAATAAATATATACATATAGAT
1 AAATAAATAAATACATATAAAT
* *
7789973 AAAAAAATAATTACATATAAAT
1 AAATAAATAAATACATATAAAT
7789995 AAATAAATAAATA
1 AAATAAATAAATA
7790008 ATTATATTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.28
Consensus pattern (22 bp):
AAATAAATAAATACATATAAAT
Found at i:7790063 original size:21 final size:21
Alignment explanation
Indices: 7790024--7790064 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7790014 TTAGACTACA
* *
7790024 AAAAATAAATATGCGTATATG
1 AAAAATAAATATACATATATG
*
7790045 AAAAATATATATACATATAT
1 AAAAATAAATATACATATAT
7790065 TTTTTTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (21 bp):
AAAAATAAATATACATATATG
Found at i:7790655 original size:19 final size:19
Alignment explanation
Indices: 7790631--7790705 Score: 114
Period size: 19 Copynumber: 3.8 Consensus size: 19
7790621 AACCATATCT
7790631 TCTAAGATTACATATCATA
1 TCTAAGATTACATATCATA
*
7790650 TCTAAGATTGCATATATCATA
1 TCTAAGATT--ACATATCATA
*
7790671 TCTAAGATTGCATATCATA
1 TCTAAGATTACATATCATA
7790690 TCTAAGATTACATATC
1 TCTAAGATTACATATC
7790706 CTCGAAGATT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
19 32 0.64
21 18 0.36
ACGTcount: A:0.39, C:0.16, G:0.08, T:0.37
Consensus pattern (19 bp):
TCTAAGATTACATATCATA
Found at i:7790668 original size:21 final size:21
Alignment explanation
Indices: 7790642--7790704 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
7790632 CTAAGATTAC
7790642 ATATCATATCTAAGATTGCAT
1 ATATCATATCTAAGATTGCAT
7790663 ATATCATATCTAAGATTGC--
1 ATATCATATCTAAGATTGCAT
*
7790682 ATATCATATCTAAGATTACAT
1 ATATCATATCTAAGATTGCAT
7790703 AT
1 AT
7790705 CCTCGAAGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
19 18 0.46
21 21 0.54
ACGTcount: A:0.40, C:0.14, G:0.08, T:0.38
Consensus pattern (21 bp):
ATATCATATCTAAGATTGCAT
Found at i:7791317 original size:81 final size:80
Alignment explanation
Indices: 7791183--7791339 Score: 253
Period size: 81 Copynumber: 1.9 Consensus size: 80
7791173 CTCATTTTAG
*
7791183 TAAAATGTTAGACTTATTAAAACAATACTTTTCGATCTACAAAATCCAAGAAATGGGA-TCGGGA
1 TAAAATGTTAGACTTATTAAAAAAATACTTTTCGATCTACAAAATCCAAGAAAT-GGATTCGGGA
7791247 GTCAGTTACGCATTAA
65 GTCAGTTACGCATTAA
* *
7791263 TAAAATGTTAGACTTATTAAAAAAAATACTTTTCGATCTACAAAATCCAGGAAATTGATTCGGGA
1 TAAAATGTTAGACTTATT-AAAAAAATACTTTTCGATCTACAAAATCCAAGAAATGGATTCGGGA
*
7791328 GTCGGTTACGCA
65 GTCAGTTACGCA
7791340 CGAGGAAGGA
Statistics
Matches: 71, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
80 20 0.28
81 51 0.72
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (80 bp):
TAAAATGTTAGACTTATTAAAAAAATACTTTTCGATCTACAAAATCCAAGAAATGGATTCGGGAG
TCAGTTACGCATTAA
Found at i:7792180 original size:3 final size:3
Alignment explanation
Indices: 7792167--7792200 Score: 59
Period size: 3 Copynumber: 11.0 Consensus size: 3
7792157 TATAAAAAAG
7792167 TAA TAAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7792201 AGACATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
3 27 0.90
4 3 0.10
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:7793208 original size:25 final size:23
Alignment explanation
Indices: 7793163--7793209 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
7793153 TTTCTTTTGA
*
7793163 ACTTTTTCTTTTCTATTTTTTTT
1 ACTTTTTCTTTTCTATGTTTTTT
*
7793186 ACTTTTTCGTATTTCTCTGTTTTT
1 ACTTTTTC-T-TTTCTATGTTTTT
7793210 CTCCCCCCCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 8 0.40
24 1 0.05
25 11 0.55
ACGTcount: A:0.09, C:0.15, G:0.04, T:0.72
Consensus pattern (23 bp):
ACTTTTTCTTTTCTATGTTTTTT
Found at i:7793824 original size:44 final size:44
Alignment explanation
Indices: 7793750--7794259 Score: 317
Period size: 44 Copynumber: 11.7 Consensus size: 44
7793740 TCATTCTAAC
* * * * * *
7793750 CCACTGTAACTTC-AGGGGTATAGGAATTGTAATTTCAATATGTT
1 CCACTGCAACTTCAAGGAG-ATAAGATTTGTAATTTCAATCTGCT
* *
7793794 CCACTGCAACTTCAAGGAGATAAGATTTGTACCTTT-AATCTACT
1 CCACTGCAACTTCAAGGAGATAAGATTTGTA-ATTTCAATCTGCT
* * *
7793838 CCGCTGCAGCTTCAGGGAGATAAGATTTGCT-ATCTTCAATCTGCT
1 CCACTGCAACTTCAAGGAGATAAGATTTG-TAAT-TTCAATCTGCT
* * * * * **
7793883 CCACTGTAAATTTAGGGAGATAAGATTTGCAGCTTCAATCTGCT
1 CCACTGCAACTTCAAGGAGATAAGATTTGTAATTTCAATCTGCT
* * *
7793927 CTACTGCAACTTCAAAGAGATAAGA--T-TCA---CAATCTGCT
1 CCACTGCAACTTCAAGGAGATAAGATTTGTAATTTCAATCTGCT
* * * *
7793965 CTACTACAATTTCAAGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTT
1 CCACTGCAACTTCAAGGAGATAAGATTTGTAA-TT-T--C---AATCTGCT
* **
7794016 CCACTGCAACTTCAGGGAGATAAGATTTGTAGCTTCAATCTGCT
1 CCACTGCAACTTCAAGGAGATAAGATTTGTAATTTCAATCTGCT
* ** *
7794060 CTACTGCAACTTC-AGAGAGAT-A-A---G-AATCACAATATGCT
1 CCACTGCAACTTCAAG-GAGATAAGATTTGTAATTTCAATCTGCT
* *
7794098 CCACTGCAACTTC-AGAGAGGTAAGGTTTGTAACTTT-AATCTGCT
1 CCACTGCAACTTCAAG-GAGATAAGATTTGTAA-TTTCAATCTGCT
** * *
7794142 TTACTGCAACTT-TAGAGAGATAAGATTTGCT-ATCTTCAATCTGTT
1 CCACTGCAACTTCAAG-GAGATAAGATTTG-TAAT-TTCAATCTGCT
* * * *
7794187 CCACTGCAATTTTAAGGAGATAAGATTTGTAGCTTT-AATTTGCT
1 CCACTGCAACTTCAAGGAGATAAGATTTGTA-ATTTCAATCTGCT
7794231 CCACTGCAACTTC-AGAGAGATAAGATTTG
1 CCACTGCAACTTCAAG-GAGATAAGATTTG
7794260 CCACAATAAC
Statistics
Matches: 362, Mismatches: 69, Indels: 70
0.72 0.14 0.14
Matches are distributed among these distances:
38 59 0.16
39 2 0.01
40 1 0.00
41 2 0.01
42 2 0.01
43 7 0.02
44 176 0.49
45 72 0.20
46 3 0.01
47 1 0.00
48 1 0.00
49 1 0.00
50 1 0.00
51 34 0.09
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (44 bp):
CCACTGCAACTTCAAGGAGATAAGATTTGTAATTTCAATCTGCT
Found at i:7793909 original size:89 final size:88
Alignment explanation
Indices: 7793809--7794259 Score: 297
Period size: 89 Copynumber: 5.2 Consensus size: 88
7793799 GCAACTTCAA
* * *
7793809 GGAGATAAGATTTGTACCTTTAATCTACTCCGCTGCAGCTTCAGGGAGATAAGATTTGCTATCTT
1 GGAGATAAGATTTGTACCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTA-CTT
*
7793874 CAATCTGCTCCACTGTAAATTTAG
65 CAATCTGCTCTACTGTAAATTTAG
* * * * **
7793898 GGAGATAAGATTTGCAGCTTCAATCTGCTCTACTGCAACTTCAAAGAGATAAGA-TT-C-A---C
1 GGAGATAAGATTTGTACCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTACTTC
*
7793957 AATCTGCTCTAC--TACAATTTCAA
66 AATCTGCTCTACTGTA-AATTT-AG
*
7793980 GGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTG
1 GGAGATAAGATTTGT-AC------CTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTG
* * *
7794045 -TAGCTTCAATCTGCTCTACTGCAACTTCAG
59 CTA-CTTCAATCTGCTCTACTGTAAATTTAG
* * * * * * *
7794075 AGAGATAAGA-AT-CA-C---AATATGCTCCACTGCAACTTCAGAGAGGTAAGGTTTG-TAACTT
1 GGAGATAAGATTTGTACCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCT-ACTT
* * * *
7794133 TAATCTGCTTTACTGCAACTTTAG
65 CAATCTGCTCTACTGTAAATTTAG
* * * * * * *
7794157 AGAGATAAGATTTGCTATCTTCAATCTGTTCCACTGCAATTTTAAGGAGATAAGATTTG-TAGCT
1 GGAGATAAGATTTG-TACCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTA-CT
* * * * * *
7794221 TTAATTTGCTCCACTGCAACTTCAG
64 TCAATCTGCTCTACTGTAAATTTAG
*
7794246 AGAGATAAGATTTG
1 GGAGATAAGATTTG
7794260 CCACAATAAC
Statistics
Matches: 288, Mismatches: 47, Indels: 54
0.74 0.12 0.14
Matches are distributed among these distances:
80 2 0.01
81 5 0.02
82 94 0.33
83 3 0.01
85 2 0.01
86 2 0.01
87 1 0.00
88 3 0.01
89 144 0.50
90 2 0.01
91 1 0.00
92 1 0.00
94 1 0.00
95 23 0.08
96 3 0.01
97 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (88 bp):
GGAGATAAGATTTGTACCTTTAATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCTACTTC
AATCTGCTCTACTGTAAATTTAG
Found at i:7793969 original size:38 final size:38
Alignment explanation
Indices: 7793918--7793991 Score: 121
Period size: 38 Copynumber: 1.9 Consensus size: 38
7793908 TTTGCAGCTT
*
7793918 CAATCTGCTCTACTGCAACTTCAAAGAGATAAGATTCA
1 CAATCTGCTCTACTACAACTTCAAAGAGATAAGATTCA
* *
7793956 CAATCTGCTCTACTACAATTTCAAGGAGATAAGATT
1 CAATCTGCTCTACTACAACTTCAAAGAGATAAGATT
7793992 TGTAACTTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.28
Consensus pattern (38 bp):
CAATCTGCTCTACTACAACTTCAAAGAGATAAGATTCA
Found at i:7794012 original size:133 final size:126
Alignment explanation
Indices: 7793847--7794259 Score: 405
Period size: 133 Copynumber: 3.2 Consensus size: 126
7793837 TCCGCTGCAG
* * * * * *
7793847 CTTCAGGGAGATAAGATTTGCTATCTTCAATCTGCTCCACTGTAAATTTAGGGAGATAAGATTTG
1 CTTCAGAGAGATAAGGTTTG-TAACTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTG
* *
7793912 CAGCTTCAATCTGCTCTACTGCAACTTCAAAGAGATAAGATTCACAATCTGCTCTACTACAA
65 CAGCTTCAATCTGCTCTACTGCAACTTCAAAGAGATAAGATTCACAATATGCTCCACTACAA
* * * *
7793974 TTTCA-AGGAGATAAGATTTGTAACTTGTAGCTTTAATCTGTTCCACTGCAACTTCAGGGAGATA
1 CTTCAGA-GAGATAAG----GT---TTGTAACTTTAATCTGCTCCACTGCAACTTTAGGGAGATA
* * *
7794038 AGATTTGTAGCTTCAATCTGCTCTACTGCAACTTCAGAGAGATAAGAATCACAATATGCTCCACT
58 AGATTTGCAGCTTCAATCTGCTCTACTGCAACTTCAAAGAGATAAGATTCACAATATGCTCCACT
*
7794103 GCAA
123 ACAA
* ** *
7794107 CTTCAGAGAGGTAAGGTTTGTAACTTTAATCTGCTTTACTGCAACTTTAGAGAGATAAGATTTGC
1 CTTCAGAGAGATAAGGTTTGTAACTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGC
* * * * * * * * *
7794172 TATCTTCAATCTGTTCCACTGCAATTTTAAGGAGATAAGATTTGTAGCTTTAATTTGCTCCACTG
66 -AGCTTCAATCTGCTCTACTGCAACTTCAAAGAGATAAGA-TT-CA-C---AATATGCTCCACTA
7794237 CAA
124 CAA
*
7794240 CTTCAGAGAGATAAGATTTG
1 CTTCAGAGAGATAAGGTTTG
7794260 CCACAATAAC
Statistics
Matches: 234, Mismatches: 36, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
126 41 0.18
127 44 0.19
128 1 0.00
129 3 0.01
130 1 0.00
131 1 0.00
133 139 0.59
134 4 0.02
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.33
Consensus pattern (126 bp):
CTTCAGAGAGATAAGGTTTGTAACTTTAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTTGC
AGCTTCAATCTGCTCTACTGCAACTTCAAAGAGATAAGATTCACAATATGCTCCACTACAA
Found at i:7796372 original size:79 final size:80
Alignment explanation
Indices: 7796236--7796392 Score: 246
Period size: 79 Copynumber: 2.0 Consensus size: 80
7796226 AAACTCATTT
*
7796236 TAATAAAATGTTAGACTTATTAAAACGATACTTTTCGATCTACAAAATCTAGAAAATGAG-TCGG
1 TAATAAAATGTTAGACTTATTAAAACGATACTTTTCGATCTACAAAATCTAGAAAATGAGTTCAG
7796300 GAGTCGGTTACGCAG
66 GAGTCGGTTACGCAG
* * * *
7796315 TAATAAAATGTTAGACTTATTAAAACGATACTTTTTGATCTACAAAAT-TCAGGAAATGGGTTTA
1 TAATAAAATGTTAGACTTATTAAAACGATACTTTTCGATCTACAAAATCT-AGAAAATGAGTTCA
7796379 GGAGTCGGTTACGC
65 GGAGTCGGTTACGC
7796393 GCGAGGAAGG
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
78 1 0.01
79 55 0.77
80 15 0.21
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (80 bp):
TAATAAAATGTTAGACTTATTAAAACGATACTTTTCGATCTACAAAATCTAGAAAATGAGTTCAG
GAGTCGGTTACGCAG
Found at i:7796966 original size:14 final size:14
Alignment explanation
Indices: 7796917--7796995 Score: 54
Period size: 14 Copynumber: 5.5 Consensus size: 14
7796907 TGTAGGTAGA
7796917 ATAATAAATAATAAGT
1 ATAAT-AATAATAA-T
*
7796933 A-AATAAATGAATACT
1 ATAAT-AAT-AATAAT
*
7796948 GTAATAATAATAAT
1 ATAATAATAATAAT
*
7796962 ATAATAATAATCAT
1 ATAATAATAATAAT
* * *
7796976 ATTATAGTAATGAT
1 ATAATAATAATAAT
7796990 A-AATAA
1 ATAATAA
7796996 ATAAAGTGAC
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
13 3 0.06
14 29 0.57
15 11 0.22
16 8 0.16
ACGTcount: A:0.58, C:0.03, G:0.06, T:0.33
Consensus pattern (14 bp):
ATAATAATAATAAT
Found at i:7796969 original size:17 final size:17
Alignment explanation
Indices: 7796949--7796991 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
7796939 ATGAATACTG
7796949 TAATAATAATAATATAA
1 TAATAATAATAATATAA
* * *
7796966 TAATAATCATATTATAG
1 TAATAATAATAATATAA
*
7796983 TAATGATAA
1 TAATAATAA
7796992 ATAAATAAAG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (17 bp):
TAATAATAATAATATAA
Found at i:7797301 original size:27 final size:27
Alignment explanation
Indices: 7797243--7797295 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
7797233 ACTAAAAGAG
* *
7797243 AAAAATAAAATAAAATAAATTCTCAAT
1 AAAAAGAAAATAAAATAAATTCTAAAT
7797270 AAAAAGAAAATAAAA-AAATT-TAAAT
1 AAAAAGAAAATAAAATAAATTCTAAAT
7797295 A
1 A
7797296 TTAAAAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 5 0.21
26 5 0.21
27 14 0.58
ACGTcount: A:0.72, C:0.04, G:0.02, T:0.23
Consensus pattern (27 bp):
AAAAAGAAAATAAAATAAATTCTAAAT
Found at i:7797570 original size:16 final size:16
Alignment explanation
Indices: 7797549--7797583 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
7797539 GAAATGCGCG
7797549 AAAAGAATTAGAGACT
1 AAAAGAATTAGAGACT
*
7797565 AAAAGAATTAGGGACT
1 AAAAGAATTAGAGACT
7797581 AAA
1 AAA
7797584 TGGGACATTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (16 bp):
AAAAGAATTAGAGACT
Found at i:7798183 original size:13 final size:13
Alignment explanation
Indices: 7798165--7798191 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
7798155 ATAGTTAATC
7798165 TAATGGTGCAAAA
1 TAATGGTGCAAAA
7798178 TAATGGTGCAAAA
1 TAATGGTGCAAAA
7798191 T
1 T
7798192 TATCATTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.44, C:0.07, G:0.22, T:0.26
Consensus pattern (13 bp):
TAATGGTGCAAAA
Found at i:7814348 original size:15 final size:15
Alignment explanation
Indices: 7814328--7814359 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
7814318 ATAAATTTTC
*
7814328 ATTTTATTTTTACAT
1 ATTTTATTTTTAAAT
7814343 ATTTTATTTTTAAAT
1 ATTTTATTTTTAAAT
7814358 AT
1 AT
7814360 GTTTTACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTTATTTTTAAAT
Found at i:7818925 original size:14 final size:16
Alignment explanation
Indices: 7818906--7818938 Score: 52
Period size: 14 Copynumber: 2.2 Consensus size: 16
7818896 GGCCCGTATT
7818906 AATTTTT-TTA-ATAA
1 AATTTTTATTATATAA
7818920 AATTTTTATTATATAA
1 AATTTTTATTATATAA
7818936 AAT
1 AAT
7818939 AAATTTAAGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 3 0.18
16 7 0.41
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (16 bp):
AATTTTTATTATATAA
Found at i:7826743 original size:18 final size:18
Alignment explanation
Indices: 7826717--7826751 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7826707 ATTGTATTTT
*
7826717 TATCGATACCATCTTTGA
1 TATCAATACCATCTTTGA
*
7826735 TATCAATACCATTTTTG
1 TATCAATACCATCTTTG
7826752 CATTCTTACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.20, G:0.09, T:0.43
Consensus pattern (18 bp):
TATCAATACCATCTTTGA
Found at i:7826833 original size:20 final size:21
Alignment explanation
Indices: 7826784--7826838 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
7826774 AAACAATCAT
* *
7826784 AAAAAGTATCGATATCTTTTC
1 AAAAGGTATCGATACCTTTTC
7826805 AAAAGGTATCGATACCTTTT-
1 AAAAGGTATCGATACCTTTTC
**
7826825 ACCAGGTATCGATA
1 AAAAGGTATCGATA
7826839 AAATGTCTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 12 0.40
21 18 0.60
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.33
Consensus pattern (21 bp):
AAAAGGTATCGATACCTTTTC
Found at i:7832758 original size:17 final size:17
Alignment explanation
Indices: 7832736--7832768 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
7832726 TATATTTTTA
7832736 TTTTTAATCAAATATAC
1 TTTTTAATCAAATATAC
7832753 TTTTTAATCAAATATA
1 TTTTTAATCAAATATA
7832769 TATTAAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.42, C:0.09, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTAATCAAATATAC
Found at i:7834761 original size:24 final size:25
Alignment explanation
Indices: 7834708--7834761 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 25
7834698 AAAATTAAAA
* *
7834708 ATAAAAAGGTTCTAATGCACGATTT
1 ATAATAAGGTTCTAATGCAAGATTT
*
7834733 CTAATAAGGTT-TAAT-CAAGATTAT
1 ATAATAAGGTTCTAATGCAAGATT-T
7834757 ATAAT
1 ATAAT
7834762 TGTGTTGGAT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
23 6 0.25
24 9 0.38
25 9 0.38
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (25 bp):
ATAATAAGGTTCTAATGCAAGATTT
Found at i:7836285 original size:13 final size:13
Alignment explanation
Indices: 7836251--7836287 Score: 65
Period size: 14 Copynumber: 2.8 Consensus size: 13
7836241 TGTAATTTGA
7836251 AATTTGAAAACTT
1 AATTTGAAAACTT
7836264 AAGTTTGAAAACTT
1 AA-TTTGAAAACTT
7836278 AATTTGAAAA
1 AATTTGAAAA
7836288 TTTGGAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 10 0.43
14 13 0.57
ACGTcount: A:0.49, C:0.05, G:0.11, T:0.35
Consensus pattern (13 bp):
AATTTGAAAACTT
Found at i:7836568 original size:34 final size:34
Alignment explanation
Indices: 7836525--7836734 Score: 314
Period size: 34 Copynumber: 6.1 Consensus size: 34
7836515 TTACTTGTCT
7836525 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
* * *
7836559 TTTCTTGCAGGGAATCTTTCCTTTTCACGCATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
* * * *
7836593 TTTCTTGCAGGGAATAATC-CCTATTCACGCATTA
1 TTTCTTGCAGGGAAT-CTCTCCTGTTCACACATCA
*
7836627 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCA
1 -TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
7836662 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
*
7836696 TTTCTTGCAGGGAATCTCTCCTGTTCATACATCA
1 TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
7836730 TTTCT
1 TTTCT
7836735 GGTATTATTT
Statistics
Matches: 159, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
34 132 0.83
35 27 0.17
ACGTcount: A:0.20, C:0.27, G:0.15, T:0.38
Consensus pattern (34 bp):
TTTCTTGCAGGGAATCTCTCCTGTTCACACATCA
Found at i:7836708 original size:103 final size:103
Alignment explanation
Indices: 7836524--7836710 Score: 338
Period size: 103 Copynumber: 1.8 Consensus size: 103
7836514 TTTACTTGTC
* * *
7836524 TTTTCTTGCAGGGAATCTCTCCTGTTCACACATCATTTCTTGCAGGGAATCTTTCCTTTTCACGC
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACACATCATTTCTTGCAGGGAATCTCTCCTGTTCACAC
7836589 ATCATTTCTTGCAGGGAATAATCCCTATTCACGCATTA
66 ATCATTTCTTGCAGGGAATAATCCCTATTCACGCATTA
*
7836627 TTTTGTTGCAGGGAATCTCTCCTGTTCACACATCATTTCTTGCAGGGAATCTCTCCTGTTCACAC
1 TTTTCTTGCAGGGAATCTCTCCTGTTCACACATCATTTCTTGCAGGGAATCTCTCCTGTTCACAC
7836692 ATCATTTCTTGCAGGGAAT
66 ATCATTTCTTGCAGGGAAT
7836711 CTCTCCTGTT
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
103 80 1.00
ACGTcount: A:0.21, C:0.26, G:0.16, T:0.37
Consensus pattern (103 bp):
TTTTCTTGCAGGGAATCTCTCCTGTTCACACATCATTTCTTGCAGGGAATCTCTCCTGTTCACAC
ATCATTTCTTGCAGGGAATAATCCCTATTCACGCATTA
Found at i:7839580 original size:20 final size:23
Alignment explanation
Indices: 7839545--7839589 Score: 69
Period size: 20 Copynumber: 2.1 Consensus size: 23
7839535 GAACAAATTG
7839545 TTGATTCTATTTCTTTTTTG-AT
1 TTGATTCTATTTCTTTTTTGTAT
7839567 TTGA-TCTA-TTCTTTTTTGTAT
1 TTGATTCTATTTCTTTTTTGTAT
7839588 TT
1 TT
7839590 CTCTTTTTCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 10 0.45
21 8 0.36
22 4 0.18
ACGTcount: A:0.13, C:0.09, G:0.09, T:0.69
Consensus pattern (23 bp):
TTGATTCTATTTCTTTTTTGTAT
Found at i:7839645 original size:21 final size:23
Alignment explanation
Indices: 7839621--7839663 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 23
7839611 TTAATTTTTT
*
7839621 AAAACATATTT-CTTCT-TTTAG
1 AAAACAGATTTGCTTCTGTTTAG
*
7839642 AAAAGAGATTTGCTTCTGTTTA
1 AAAACAGATTTGCTTCTGTTTA
7839664 TAATTAATTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 9 0.50
22 5 0.28
23 4 0.22
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.44
Consensus pattern (23 bp):
AAAACAGATTTGCTTCTGTTTAG
Done.