Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 193 of 213
Found at i:57903499 original size:15 final size:14
Alignment explanation
Indices: 57903472--57903502 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
57903462 GGGCTCACAA
57903472 AAAAATAATAAACC
1 AAAAATAATAAACC
*
57903486 AAAAATAATAAAAC
1 AAAAATAATAAACC
57903500 AAA
1 AAA
57903503 GTCCAAGTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.10, G:0.00, T:0.13
Consensus pattern (14 bp):
AAAAATAATAAACC
Found at i:57903637 original size:19 final size:19
Alignment explanation
Indices: 57903613--57903668 Score: 85
Period size: 19 Copynumber: 2.9 Consensus size: 19
57903603 ATAATCTTCA
*
57903613 ATGATATGCAATCATAGGT
1 ATGATATGCAATCATAGAT
*
57903632 ATGATATGCAATCTTAGAT
1 ATGATATGCAATCATAGAT
*
57903651 ATGATATGCAATCTTAGA
1 ATGATATGCAATCATAGA
57903669 AGATATGATT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.38, C:0.11, G:0.18, T:0.34
Consensus pattern (19 bp):
ATGATATGCAATCATAGAT
Found at i:57905466 original size:20 final size:20
Alignment explanation
Indices: 57905437--57905474 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
57905427 TTTTAAACTC
*
57905437 TTTAACTCGATTGAAACATT
1 TTTAAATCGATTGAAACATT
57905457 TTTAAATCGATTGAAACA
1 TTTAAATCGATTGAAACA
57905475 CTGCTCCTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (20 bp):
TTTAAATCGATTGAAACATT
Found at i:57906543 original size:23 final size:23
Alignment explanation
Indices: 57906500--57906543 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
57906490 TGACCATTAT
* *
57906500 ATAAAAGAGATCAAGTTAGGTAG
1 ATAAAAGAGATCAAATCAGGTAG
57906523 ATAAAAGAGATCAAATCAGGT
1 ATAAAAGAGATCAAATCAGGT
57906544 GAACAGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (23 bp):
ATAAAAGAGATCAAATCAGGTAG
Found at i:57907617 original size:101 final size:101
Alignment explanation
Indices: 57907474--57907676 Score: 406
Period size: 101 Copynumber: 2.0 Consensus size: 101
57907464 AAACCCTTGG
57907474 TGGCCATGATGGATTGTAGAACAAAAGGACCATTTTTCAGTTCTTGAACTAAAAAAGATTATTAA
1 TGGCCATGATGGATTGTAGAACAAAAGGACCATTTTTCAGTTCTTGAACTAAAAAAGATTATTAA
57907539 CGGAGCCCATTTTTCATTACTGGACAGTTTGTATTA
66 CGGAGCCCATTTTTCATTACTGGACAGTTTGTATTA
57907575 TGGCCATGATGGATTGTAGAACAAAAGGACCATTTTTCAGTTCTTGAACTAAAAAAGATTATTAA
1 TGGCCATGATGGATTGTAGAACAAAAGGACCATTTTTCAGTTCTTGAACTAAAAAAGATTATTAA
57907640 CGGAGCCCATTTTTCATTACTGGACAGTTTGTATTA
66 CGGAGCCCATTTTTCATTACTGGACAGTTTGTATTA
57907676 T
1 T
57907677 ATTATAAGGG
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 102 1.00
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.34
Consensus pattern (101 bp):
TGGCCATGATGGATTGTAGAACAAAAGGACCATTTTTCAGTTCTTGAACTAAAAAAGATTATTAA
CGGAGCCCATTTTTCATTACTGGACAGTTTGTATTA
Found at i:57921751 original size:15 final size:15
Alignment explanation
Indices: 57921727--57921757 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
57921717 GTTAATTGTG
*
57921727 ATTAAGGTTTAATTA
1 ATTAAAGTTTAATTA
57921742 ATTAAAGTTTAATTA
1 ATTAAAGTTTAATTA
57921757 A
1 A
57921758 GTGATTAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (15 bp):
ATTAAAGTTTAATTA
Found at i:57928829 original size:18 final size:18
Alignment explanation
Indices: 57928808--57928850 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
57928798 AATGAGATAA
57928808 AGATGAAGATGAAGATGG
1 AGATGAAGATGAAGATGG
* *
57928826 AGATGGAGATGAAGGTGG
1 AGATGAAGATGAAGATGG
*
57928844 AGGTGAA
1 AGATGAA
57928851 TGTAATATCC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.00, G:0.44, T:0.16
Consensus pattern (18 bp):
AGATGAAGATGAAGATGG
Found at i:57928844 original size:12 final size:12
Alignment explanation
Indices: 57928808--57928850 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
57928798 AATGAGATAA
*
57928808 AGATGAAGATGA
1 AGATGAAGATGG
*
57928820 AGATGGAGATGG
1 AGATGAAGATGG
*
57928832 AGATGAAGGTGG
1 AGATGAAGATGG
*
57928844 AGGTGAA
1 AGATGAA
57928851 TGTAATATCC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.40, C:0.00, G:0.44, T:0.16
Consensus pattern (12 bp):
AGATGAAGATGG
Found at i:57928935 original size:27 final size:27
Alignment explanation
Indices: 57928905--57928992 Score: 104
Period size: 27 Copynumber: 3.2 Consensus size: 27
57928895 TTGGTATTTT
* **
57928905 CCAGTAGGCTTGGCGAGCAGGGGTTCG
1 CCAGAAGGCTTGGTAAGCAGGGGTTCG
* *
57928932 CCAGAAGGCTTAGTAAGCAGAGGTTCG
1 CCAGAAGGCTTGGTAAGCAGGGGTTCG
* *
57928959 CTAGAAGGCTTGGTAAGTAGGGGGTTCG
1 CCAGAAGGCTTGGTAAGCA-GGGGTTCG
57928987 CCAGAA
1 CCAGAA
57928993 AGCCTAGCGA
Statistics
Matches: 50, Mismatches: 10, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 38 0.76
28 12 0.24
ACGTcount: A:0.24, C:0.18, G:0.39, T:0.19
Consensus pattern (27 bp):
CCAGAAGGCTTGGTAAGCAGGGGTTCG
Found at i:57932690 original size:19 final size:19
Alignment explanation
Indices: 57932639--57932690 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
57932629 TTATGGTACA
* *
57932639 GATACTCTTTTATAAGTATC
1 GATACTATTTT-TTAGTATC
**
57932659 GATACTAAATTTTAGTATC
1 GATACTATTTTTTAGTATC
57932678 GATACTATTTTTT
1 GATACTATTTTTT
57932691 GATTCTGTTT
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
19 18 0.69
20 8 0.31
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.48
Consensus pattern (19 bp):
GATACTATTTTTTAGTATC
Found at i:57932754 original size:19 final size:21
Alignment explanation
Indices: 57932730--57932780 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
57932720 AAAGCCATGT
*
57932730 GTATCGATAC-CT-TTGTAAA
1 GTATCGATACTCTGATGTAAA
57932749 GTATCGATACTCTGATGTAAA
1 GTATCGATACTCTGATGTAAA
*
57932770 GTACCGATACT
1 GTATCGATACT
57932781 TTAGTCCTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 10 0.36
20 2 0.07
21 16 0.57
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.33
Consensus pattern (21 bp):
GTATCGATACTCTGATGTAAA
Found at i:57934717 original size:51 final size:51
Alignment explanation
Indices: 57934658--57935000 Score: 367
Period size: 50 Copynumber: 6.8 Consensus size: 51
57934648 TATCGATGAA
* *
57934658 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
* * * * * * *
57934709 CACATGTGTAGTACTAAGTGAAGGCTA-TAATGTGTATTGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACT-ACGTGAATCGATAA-ATGTTGGT
* *
57934760 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
* * * * *
57934811 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTA-CCA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATG--TTGGT
* * ** *
57934861 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-CCATAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
* ** *
57934911 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAATCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
*
57934961 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
57935001 ATGATAAAAG
Statistics
Matches: 245, Mismatches: 37, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.00
49 3 0.01
50 128 0.52
51 111 0.45
52 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
Found at i:57934834 original size:102 final size:101
Alignment explanation
Indices: 57934658--57935000 Score: 485
Period size: 102 Copynumber: 3.4 Consensus size: 101
57934648 TATCGATGAA
*
57934658 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
57934723 TAAGTGAAGGCTA-TAATGTGTATTGAGAAGCTTTGGT
66 TAAGTGAAGGCTACT-ATGTGTATCGA-AAGCTTTGGT
*
57934760 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* *
57934825 TAAGTGAAGGCTACTATGTGTACCAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTATCGAAAGCTTTGGT
* * *** * *
57934861 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-CCATAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * * *
57934925 TATGTGAAGGCTACTATGTGAATCGTAAAAC-TTGAT
66 TAAGTGAAGGCTACTATGTGTATCG-AAAGCTTTGGT
*
57934961 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
57935001 ATGATAAAAG
Statistics
Matches: 218, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
100 81 0.37
101 50 0.23
102 86 0.39
103 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTATCGAAAGCTTTGGT
Found at i:57937722 original size:51 final size:51
Alignment explanation
Indices: 57937663--57938005 Score: 367
Period size: 50 Copynumber: 6.8 Consensus size: 51
57937653 TATCGATGAA
* *
57937663 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
* * * * * * *
57937714 CACATGTGTAGTACTAAGTGAAGGCTA-TAATGTGTATTGAGAAGCT-TTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACT-ACGTGAATCGATAA-ATGTTGGT
* *
57937765 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
* * * * *
57937816 CACATGTGTAGTACTAAGTGAAGGCTACTATGTGTA-CCA-AAA-GCTTTGGT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATG--TTGGT
* * ** *
57937866 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-CCATAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
* ** *
57937916 CACGTGTGTAGTACTATGTGAAGGCTACTATGTGAATCG-TAAAACTTGAT
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
*
57937966 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
57938006 ATGATAAAAG
Statistics
Matches: 245, Mismatches: 37, Indels: 20
0.81 0.12 0.07
Matches are distributed among these distances:
48 1 0.00
49 3 0.01
50 128 0.52
51 111 0.45
52 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (51 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGTTGGT
Found at i:57937839 original size:102 final size:101
Alignment explanation
Indices: 57937663--57938005 Score: 485
Period size: 102 Copynumber: 3.4 Consensus size: 101
57937653 TATCGATGAA
*
57937663 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
*
57937728 TAAGTGAAGGCTA-TAATGTGTATTGAGAAGCTTTGGT
66 TAAGTGAAGGCTACT-ATGTGTATCGA-AAGCTTTGGT
*
57937765 CACGTGTGTAGTACTGTGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* *
57937830 TAAGTGAAGGCTACTATGTGTACCAAAAGCTTTGGT
66 TAAGTGAAGGCTACTATGTGTATCGAAAGCTTTGGT
* * *** * *
57937866 CATGTGTGTAGTACTATGTGAAGGCTACTACGTGAA-CCATAAAACTTGATCACGTGTGTAGTAC
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
* * * *
57937930 TATGTGAAGGCTACTATGTGAATCGTAAAAC-TTGAT
66 TAAGTGAAGGCTACTATGTGTATCG-AAAGCTTTGGT
*
57937966 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGTATCGA
1 CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGA
57938006 ATGATAAAAG
Statistics
Matches: 218, Mismatches: 20, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
100 81 0.37
101 50 0.23
102 86 0.39
103 1 0.00
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.31
Consensus pattern (101 bp):
CACGTGTGTAGTACTATGTGAAGGCTACTACGTGAATCGATAAATGATGGTCACATGTGTAGTAC
TAAGTGAAGGCTACTATGTGTATCGAAAGCTTTGGT
Found at i:57961366 original size:41 final size:41
Alignment explanation
Indices: 57961316--57961402 Score: 165
Period size: 41 Copynumber: 2.1 Consensus size: 41
57961306 TTTTAAATCC
57961316 AGTTAAAATTTAAATTACATTTTAATCATTCAACTTTAAAA
1 AGTTAAAATTTAAATTACATTTTAATCATTCAACTTTAAAA
*
57961357 AGTTAAAATTTAAATTACATTTTAATCATTCAATTTTAAAA
1 AGTTAAAATTTAAATTACATTTTAATCATTCAACTTTAAAA
57961398 AGTTA
1 AGTTA
57961403 TGATATAATT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 45 1.00
ACGTcount: A:0.46, C:0.08, G:0.03, T:0.43
Consensus pattern (41 bp):
AGTTAAAATTTAAATTACATTTTAATCATTCAACTTTAAAA
Found at i:57961926 original size:20 final size:18
Alignment explanation
Indices: 57961903--57961955 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 18
57961893 GATAAAATAA
57961903 AGTTAAAATTGTTTCAATTG
1 AGTTAAAA-TGTTTCAA-TG
57961923 AGTTAAACAT-TTTCAATG
1 AGTTAAA-ATGTTTCAATG
57961941 ATGTTAAAACTGTTT
1 A-GTTAAAA-TGTTT
57961956 TTAAACAAGT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
18 4 0.14
19 13 0.45
20 11 0.38
21 1 0.03
ACGTcount: A:0.36, C:0.08, G:0.13, T:0.43
Consensus pattern (18 bp):
AGTTAAAATGTTTCAATG
Found at i:57965437 original size:25 final size:25
Alignment explanation
Indices: 57965409--57965467 Score: 82
Period size: 25 Copynumber: 2.4 Consensus size: 25
57965399 ACACGGGAAC
57965409 AATGCTCACACAAGCTGGGACAGTA
1 AATGCTCACACAAGCTGGGACAGTA
* * *
57965434 AATGCTCACACTAGCTGTGACTGTA
1 AATGCTCACACAAGCTGGGACAGTA
*
57965459 AATGTTCAC
1 AATGCTCAC
57965468 GAGATGTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.32, C:0.24, G:0.20, T:0.24
Consensus pattern (25 bp):
AATGCTCACACAAGCTGGGACAGTA
Found at i:57967793 original size:21 final size:22
Alignment explanation
Indices: 57967769--57967813 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 22
57967759 TGTATTAAAA
*
57967769 TTATCAAATTAATTTTT-AATT
1 TTATAAAATTAATTTTTAAATT
57967790 TTATAAAATTAATTTTTAAATT
1 TTATAAAATTAATTTTTAAATT
57967812 TT
1 TT
57967814 TATGTTTTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 16 0.73
22 6 0.27
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (22 bp):
TTATAAAATTAATTTTTAAATT
Found at i:57968915 original size:38 final size:36
Alignment explanation
Indices: 57968862--57968937 Score: 116
Period size: 38 Copynumber: 2.1 Consensus size: 36
57968852 ACCTTACAAC
*
57968862 CTCCCTTAAGATTTCTACCCCAAACCTTAAGATTGCAA
1 CTCCCTTAAGATTTCTA-CCAAAACCTTAAGATT-CAA
*
57968900 CTCCCTTAAGGTTTCTACCAAAACCTTAAGATTCAA
1 CTCCCTTAAGATTTCTACCAAAACCTTAAGATTCAA
57968936 CT
1 CT
57968938 TTCTCAAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
36 5 0.14
37 15 0.42
38 16 0.44
ACGTcount: A:0.32, C:0.30, G:0.08, T:0.30
Consensus pattern (36 bp):
CTCCCTTAAGATTTCTACCAAAACCTTAAGATTCAA
Found at i:57970205 original size:10 final size:10
Alignment explanation
Indices: 57970184--57970225 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
57970174 CATACGAACC
57970184 AGAAAG-AAA
1 AGAAAGAAAA
57970193 AGAAAGAAAA
1 AGAAAGAAAA
*
57970203 AGAAAAAAAA
1 AGAAAGAAAA
57970213 AGAAAGAAGAA
1 AGAAAGAA-AA
57970224 AG
1 AG
57970226 GAGAAAGACG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
9 6 0.21
10 19 0.66
11 4 0.14
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AGAAAGAAAA
Found at i:57970222 original size:7 final size:7
Alignment explanation
Indices: 57970192--57970233 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
57970182 CCAGAAAGAA
57970192 AAGAAAG
1 AAGAAAG
57970199 AA-AAAG
1 AAGAAAG
* *
57970205 AAAAAAA
1 AAGAAAG
57970212 AAGAAAG
1 AAGAAAG
57970219 AAGAAAG
1 AAGAAAG
*
57970226 GAGAAAG
1 AAGAAAG
57970233 A
1 A
57970234 CGCAAGGCTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (7 bp):
AAGAAAG
Found at i:57978956 original size:46 final size:46
Alignment explanation
Indices: 57978887--57978981 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
57978877 ACAAAGATAG
*
57978887 AAACCAAAATATTATCTCTTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
*
57978933 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTTATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
57978979 AAA
1 AAA
57978982 AGAAAAGAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.40, C:0.22, G:0.02, T:0.36
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:57983478 original size:22 final size:22
Alignment explanation
Indices: 57983453--57983529 Score: 68
Period size: 22 Copynumber: 3.4 Consensus size: 22
57983443 CCAAAATATT
57983453 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
* * * *
57983475 ATCTCCT-AA-TTAAACCAAAATATT
1 ATCTCCTAAACTT-TAGC---ATCTA
57983499 ATCTCCTAAACTTTAGCATCTA
1 ATCTCCTAAACTTTAGCATCTA
57983521 ATCTCCTAA
1 ATCTCCTAA
57983530 TTAAAAAAAA
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
20 2 0.05
21 4 0.10
22 19 0.46
24 10 0.24
25 4 0.10
26 2 0.05
ACGTcount: A:0.36, C:0.26, G:0.03, T:0.35
Consensus pattern (22 bp):
ATCTCCTAAACTTTAGCATCTA
Found at i:57983492 original size:46 final size:46
Alignment explanation
Indices: 57983440--57983534 Score: 190
Period size: 46 Copynumber: 2.1 Consensus size: 46
57983430 ACAAAGATAG
57983440 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
57983486 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
1 AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
57983532 AAA
1 AAA
57983535 AAAAAAAGGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 49 1.00
ACGTcount: A:0.41, C:0.23, G:0.02, T:0.34
Consensus pattern (46 bp):
AAACCAAAATATTATCTCCTAAACTTTAGCATCTAATCTCCTAATT
Found at i:57990598 original size:33 final size:33
Alignment explanation
Indices: 57990551--57990791 Score: 212
Period size: 33 Copynumber: 6.7 Consensus size: 33
57990541 TTATCCGTTA
*
57990551 TCGGTGGATTCAGCACTTAGCAACCACCAATGAG
1 TCGG-GGAATCAGCACTTAGCAACCACCAATGAG
* *
57990585 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAG
1 TCGGGGAATCAGCACTTAGCAACCAC---CA-A--TGAG
* *
57990624 ATACGGTGGGATCAGCACTTAGCAACCACCAATGAT
1 -T-CGG-GGAATCAGCACTTAGCAACCACCAATGAG
57990660 TCGGGGAATCAGCACTTAGCAACCACCAATGAG
1 TCGGGGAATCAGCACTTAGCAACCACCAATGAG
* * * *
57990693 TCGGGGAATCAACACTTAGCAACCCTTTTCGCATTTAAG
1 TCGGGGAATCAGCACTTAGCAA-CC---AC-CA-ATGAG
*
57990732 ATACGGTGGAATCAGCACTTAGCAACCACCAATGAA
1 -T-CGG-GGAATCAGCACTTAGCAACCACCAATGAG
*
57990768 TCGGGGAATCAACACTTAGCAACC
1 TCGGGGAATCAGCACTTAGCAACC
57990792 CCTTGGGGGA
Statistics
Matches: 170, Mismatches: 19, Indels: 37
0.75 0.08 0.16
Matches are distributed among these distances:
33 87 0.51
34 12 0.07
35 2 0.01
36 6 0.04
37 4 0.02
38 4 0.02
39 8 0.05
40 2 0.01
41 8 0.05
42 37 0.22
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.21
Consensus pattern (33 bp):
TCGGGGAATCAGCACTTAGCAACCACCAATGAG
Found at i:57990694 original size:108 final size:108
Alignment explanation
Indices: 57990550--57990824 Score: 418
Period size: 108 Copynumber: 2.6 Consensus size: 108
57990540 GTTATCCGTT
* *
57990550 ATCGGTGGATTCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAGCACTTAGCAACCCCTTTC
1 ATCGG-GGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTC
*
57990615 ACATTTAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGA
65 ACATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGA
* * *
57990659 TTCGGGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCTTTTCG
1 ATCGGGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCA
57990724 CATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGA
66 CATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGA
* *
57990767 ATCGGGGAATCAACACTTAGCAACC-CC--T---TGGGGGAATCAACACTTAGCAAGCCCCTTT
1 ATCGGGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAA-CCCCTTT
57990825 ATATTCAATG
Statistics
Matches: 155, Mismatches: 10, Indels: 8
0.90 0.06 0.05
Matches are distributed among these distances:
102 21 0.14
103 6 0.04
105 1 0.01
107 2 0.01
108 121 0.78
109 4 0.03
ACGTcount: A:0.31, C:0.27, G:0.21, T:0.21
Consensus pattern (108 bp):
ATCGGGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCA
CATTTAAGATACGGTGGAATCAGCACTTAGCAACCACCAATGA
Found at i:57990807 original size:27 final size:28
Alignment explanation
Indices: 57990770--57990823 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 28
57990760 CCAATGAATC
57990770 GGGGAATCAACACTTAGCAA-CCCCTTG
1 GGGGAATCAACACTTAGCAAGCCCCTTG
57990797 GGGGAATCAACACTTAGCAAGCCCCTT
1 GGGGAATCAACACTTAGCAAGCCCCTT
57990824 TATATTCAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.19
Consensus pattern (28 bp):
GGGGAATCAACACTTAGCAAGCCCCTTG
Found at i:57997741 original size:26 final size:26
Alignment explanation
Indices: 57997712--57997763 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
57997702 CACCAATGAT
57997712 TCGGGGAATCAACACTTAGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
*
57997738 TCGGGGAATCAGCACTTAGCAACCCC
1 TCGGGGAATCAACACTTAGCAACCCC
57997764 CTTCACATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.35, G:0.21, T:0.15
Consensus pattern (26 bp):
TCGGGGAATCAACACTTAGCAACCCC
Found at i:57997754 original size:101 final size:101
Alignment explanation
Indices: 57997637--57997839 Score: 354
Period size: 101 Copynumber: 2.0 Consensus size: 101
57997627 CACCAATGAG
* * * *
57997637 TCGGGGGATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGGTGGGATCAGCACTTAGCAAC
1 TCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGATGGAATCAGCACTTAGCAAC
57997702 CACCAATGA-TTCGGGGAATCAACACTTAGCAACCCC
66 CACCAATGAGTT-GGGGAATCAACACTTAGCAACCCC
57997738 TCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGATGGAATCAGCACTTAGCAAC
1 TCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGATGGAATCAGCACTTAGCAAC
57997803 CACCAATGAGTTGGGGAATCAACACTTAGCAACCCC
66 CACCAATGAGTTGGGGAATCAACACTTAGCAACCCC
57997839 T
1 T
57997840 TTCACATTTA
Statistics
Matches: 97, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
101 95 0.98
102 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.21
Consensus pattern (101 bp):
TCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGATGGAATCAGCACTTAGCAAC
CACCAATGAGTTGGGGAATCAACACTTAGCAACCCC
Found at i:57997801 original size:42 final size:41
Alignment explanation
Indices: 57997742--57997878 Score: 137
Period size: 42 Copynumber: 3.5 Consensus size: 41
57997732 AACCCCTCGG
57997742 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGAT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACG-T
* * * *
57997784 GGAATCAGCACTTAGCAA-CCAC--CA-A--TGAG-T-TGG
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGT
* *
57997817 GGAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGT
1 GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATAC-GT
*
57997859 GAAATCAGCACTTAGCAACC
1 GGAATCAGCACTTAGCAACC
57997879 ACCAATGAAT
Statistics
Matches: 74, Mismatches: 12, Indels: 18
0.71 0.12 0.17
Matches are distributed among these distances:
33 17 0.23
34 3 0.04
35 1 0.01
36 5 0.07
37 1 0.01
38 1 0.01
39 5 0.07
40 1 0.01
41 3 0.04
42 37 0.50
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (41 bp):
GGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGT
Found at i:57997865 original size:75 final size:75
Alignment explanation
Indices: 57997738--57997915 Score: 293
Period size: 75 Copynumber: 2.4 Consensus size: 75
57997728 TAGCAACCCC
* *
57997738 TCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGATGGAATCAGCACTTAGCAAC
1 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGATGAAATCAGCACTTAGCAAC
*
57997803 CACCAATGAG
66 CACCAATGAA
* * *
57997813 TTGGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGATACGGTGAAATCAGCACTTAGCAAC
1 TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGATGAAATCAGCACTTAGCAAC
57997878 CACCAATGAA
66 CACCAATGAA
*
57997888 TCGGGGAATCAGCACTTAGCAACTCCTT
1 TCGGGGAATCAGCACTTAGCAACCCCTT
57997916 GGGGGAATCA
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
75 94 1.00
ACGTcount: A:0.33, C:0.27, G:0.18, T:0.22
Consensus pattern (75 bp):
TCGGGGAATCAGCACTTAGCAACCCCTTTCACATTTAAGATACGATGAAATCAGCACTTAGCAAC
CACCAATGAA
Found at i:57997906 original size:176 final size:177
Alignment explanation
Indices: 57997607--57997940 Score: 562
Period size: 176 Copynumber: 1.9 Consensus size: 177
57997597 CCGTTATCGG
* * *
57997607 TGGATTCAGCACTTAGCAACCACCAATGAGTCGGGGGATCAGCACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATT
** *
57997672 TAAGATACGGTGGGATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAAC-C
66 TAAGATACGGTGAAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACTC
*
57997736 CCTCGGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAGATACGA
131 CCTCGGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGA
*
57997783 TGGAATCAGCACTTAGCAACCACCAATGAGTTGGGGAATCAACACTTAGCAACCCCTTTCACATT
1 TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATT
*
57997848 TAAGATACGGTGAAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAGCACTTAGCAACTC
66 TAAGATACGGTGAAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACTC
* *
57997913 CTTGGGGGAATCAACACTTAGCAACCCC
131 CCTCGGGGAATCAACACTTAGCAACCCC
57997941 GTTTATATTC
Statistics
Matches: 146, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
176 120 0.82
177 26 0.18
ACGTcount: A:0.32, C:0.28, G:0.19, T:0.21
Consensus pattern (177 bp):
TGGAATCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATT
TAAGATACGGTGAAATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACTC
CCTCGGGGAATCAACACTTAGCAACCCCCTTCACATTTAAGATACGA
Found at i:57998826 original size:79 final size:79
Alignment explanation
Indices: 57998726--57998887 Score: 252
Period size: 79 Copynumber: 2.1 Consensus size: 79
57998716 GATGGCCTTA
* * *
57998726 AGATTGCTTGGAACTAAGGATATAGACAAGTTGCAACGGTAGTTGACTGCTTGTAGGCTATTAAT
1 AGATGGCTTGGAACAAAGGATATAGACAAGTTGCAACGGTAGTTGACTACTTGTAGGCTATTAAT
57998791 TTGATTACTACACT
66 TTGATTACTACACT
** *
57998805 AGATGGCTTGGAACAAAGGATATAGACAAGTTGCAGTGGTAGTTGACTACTTGTAGGCTATTTAT
1 AGATGGCTTGGAACAAAGGATATAGACAAGTTGCAACGGTAGTTGACTACTTGTAGGCTATTAAT
**
57998870 TTGATTGGTACACT
66 TTGATTACTACACT
57998884 AGAT
1 AGAT
57998888 ACGCATAGAA
Statistics
Matches: 75, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (79 bp):
AGATGGCTTGGAACAAAGGATATAGACAAGTTGCAACGGTAGTTGACTACTTGTAGGCTATTAAT
TTGATTACTACACT
Found at i:58004936 original size:18 final size:18
Alignment explanation
Indices: 58004913--58004949 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
58004903 ACTTTTAGTC
58004913 CTACTCTTAAAAAATTAT
1 CTACTCTTAAAAAATTAT
58004931 CTACTCTTAAAAAATTAT
1 CTACTCTTAAAAAATTAT
58004949 C
1 C
58004950 CTAAATTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.38
Consensus pattern (18 bp):
CTACTCTTAAAAAATTAT
Found at i:58005153 original size:14 final size:14
Alignment explanation
Indices: 58005108--58005162 Score: 60
Period size: 14 Copynumber: 4.0 Consensus size: 14
58005098 GGATGTGTCG
58005108 GGCCTAACATATCT
1 GGCCTAACATATCT
** *
58005122 GGCGGATA-AT-TTT
1 GGCCTA-ACATATCT
58005135 GGCCTAACATATCT
1 GGCCTAACATATCT
58005149 GGCCTAACATATCT
1 GGCCTAACATATCT
58005163 TTGTGGGTGC
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
12 1 0.03
13 8 0.25
14 22 0.69
15 1 0.03
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (14 bp):
GGCCTAACATATCT
Found at i:58015346 original size:20 final size:20
Alignment explanation
Indices: 58015321--58015384 Score: 101
Period size: 20 Copynumber: 3.1 Consensus size: 20
58015311 ATGCGACTAC
*
58015321 AATAATACCAATTTTATAAT
1 AATAATATCAATTTTATAAT
58015341 AATAATATCAATTTTATAAT
1 AATAATATCAATTTTATAAT
*
58015361 AATAATATCGATTTTAATAAT
1 AATAATATCAATTTT-ATAAT
58015382 AAT
1 AAT
58015385 GGTATTAATC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 33 0.80
21 8 0.20
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (20 bp):
AATAATATCAATTTTATAAT
Found at i:58015582 original size:6 final size:6
Alignment explanation
Indices: 58015571--58015636 Score: 55
Period size: 6 Copynumber: 10.8 Consensus size: 6
58015561 GAGTACTATA
* * *
58015571 ATAATG ATAATG -TAATT ATAATG ATAATG ATAATA ATAA-G ATTAATA
1 ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG ATAATG A-TAATG
*
58015618 ATCACATC ATAATG ATAAT
1 AT-A-ATG ATAATG ATAAT
58015637 AAAATAAATA
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
5 5 0.10
6 36 0.75
7 3 0.06
8 4 0.08
ACGTcount: A:0.52, C:0.05, G:0.09, T:0.35
Consensus pattern (6 bp):
ATAATG
Found at i:58015593 original size:17 final size:18
Alignment explanation
Indices: 58015568--58015636 Score: 70
Period size: 17 Copynumber: 3.8 Consensus size: 18
58015558 AAGGAGTACT
58015568 ATAATAATGATAATG-TA
1 ATAATAATGATAATGATA
*
58015585 ATTATAATGATAATGATA
1 ATAATAATGATAATGATA
*
58015603 ATAATAA-GATTAATAATCA
1 ATAATAATGA-TAATGAT-A
*
58015622 CATCATAATGATAAT
1 -ATAATAATGATAAT
58015637 AAAATAAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
17 16 0.37
18 14 0.33
19 1 0.02
20 10 0.23
21 2 0.05
ACGTcount: A:0.52, C:0.04, G:0.09, T:0.35
Consensus pattern (18 bp):
ATAATAATGATAATGATA
Found at i:58015740 original size:20 final size:20
Alignment explanation
Indices: 58015715--58015757 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
58015705 AAAGTGCTAA
58015715 AAAATAATAAA-AGCAATAAT
1 AAAATAATAAAGA-CAATAAT
*
58015735 AAAATAATAATGACAATAAT
1 AAAATAATAAAGACAATAAT
58015755 AAA
1 AAA
58015758 TGAACAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAATAATAAAGACAATAAT
Found at i:58023201 original size:8 final size:8
Alignment explanation
Indices: 58023188--58023214 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
58023178 TAATGAAGAC
58023188 AAAGAAAT
1 AAAGAAAT
58023196 AAAGAAAT
1 AAAGAAAT
58023204 AAAGAAAT
1 AAAGAAAT
58023212 AAA
1 AAA
58023215 TATGTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAGAAAT
Found at i:58023379 original size:13 final size:14
Alignment explanation
Indices: 58023321--58023380 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
58023311 ATACATAAAC
58023321 AAATAGTAATAATAA
1 AAATAGTAA-AATAA
*
58023336 TAGATA-TAATAATAA
1 -AAATAGTAA-AATAA
* *
58023351 ATATAGTAAAAGAA
1 AAATAGTAAAATAA
58023365 AAATAG-AAAATAA
1 AAATAGTAAAATAA
58023378 AAA
1 AAA
58023381 AACAAAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
13 9 0.24
14 13 0.34
15 12 0.32
16 4 0.11
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.23
Consensus pattern (14 bp):
AAATAGTAAAATAA
Found at i:58023412 original size:18 final size:18
Alignment explanation
Indices: 58023391--58023425 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
58023381 AACAAAAAAA
58023391 TATAAATATAAATAAATG
1 TATAAATATAAATAAATG
58023409 TATAAATATAAATAAAT
1 TATAAATATAAATAAAT
58023426 AAATACAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
TATAAATATAAATAAATG
Found at i:58024850 original size:44 final size:43
Alignment explanation
Indices: 58024736--58024890 Score: 163
Period size: 44 Copynumber: 3.6 Consensus size: 43
58024726 CTTCAATCTA
* * * *
58024736 CTCTACTGCAACTTCAGAGAGATGAGATTTGTAATTTCAACCTA
1 CTCTACTGCAACTTCAGAGAGATAAGGTTTGT-ATTTCAACTTG
* *
58024780 CT-TCACTGCAACTTCAGGGAGATAAGGCTTGTAGTTTCAACTTG
1 CTCT-ACTGCAACTTCAGAGAGATAAGGTTTGTA-TTTCAACTTG
* * * *
58024824 CTCTACTGCAACTTCAAAGAGATAAGGTTTG-ATAT-GATTTG
1 CTCTACTGCAACTTCAGAGAGATAAGGTTTGTATTTCAACTTG
*
58024865 CTCTACTACAACTTCAGAGAGATAAG
1 CTCTACTGCAACTTCAGAGAGATAAG
58024891 ATCTGTAATT
Statistics
Matches: 94, Mismatches: 14, Indels: 9
0.80 0.12 0.08
Matches are distributed among these distances:
41 28 0.30
42 2 0.02
43 3 0.03
44 60 0.64
45 1 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (43 bp):
CTCTACTGCAACTTCAGAGAGATAAGGTTTGTATTTCAACTTG
Found at i:58024884 original size:129 final size:136
Alignment explanation
Indices: 58024736--58024987 Score: 322
Period size: 137 Copynumber: 1.9 Consensus size: 136
58024726 CTTCAATCTA
* * *
58024736 CTCTACTGCAACTTCAGAGAGATGAGATTTGTAATTTCA-A-C-CT-A-C-TT-CACTGCAACTT
1 CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTT-ATAGCTCTAATCGTTCCACTGCAACTT
* * * * *
58024794 CAGGGAGATAAGGCTT-GTAGTTTCAACTTGCTCTACTGCAACTTCAAAGAGATAAGGTTTGATA
65 CAGGGAAATAAGACTTGGTAATTTCAACCTGCTCCACTGCAACTTCAAAGAGATAAGGTTTGATA
58024858 TGATTTG
130 TGATTTG
* *
58024865 CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTATAGCTTTAATCTGTTCCACTGCAGCTT
1 CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTATAGCTCTAATC-GTTCCACTGCAACTT
* *
58024930 CAGGGAAATAAGATTTGGTAATTTCAACCTGCTCCACTGCAACTTCAAGGAGATAAGG
65 CAGGGAAATAAGACTTGGTAATTTCAACCTGCTCCACTGCAACTTCAAAGAGATAAGG
58024988 ATTGTGGCTT
Statistics
Matches: 102, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
128 1 0.01
129 35 0.34
130 1 0.01
131 1 0.01
132 1 0.01
133 1 0.01
135 2 0.02
136 23 0.23
137 37 0.36
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (136 bp):
CTCTACTACAACTTCAGAGAGATAAGATCTGTAATTTATAGCTCTAATCGTTCCACTGCAACTTC
AGGGAAATAAGACTTGGTAATTTCAACCTGCTCCACTGCAACTTCAAAGAGATAAGGTTTGATAT
GATTTG
Found at i:58036523 original size:8 final size:8
Alignment explanation
Indices: 58036510--58036536 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
58036500 TAATGAAGAC
58036510 AAAGAAAT
1 AAAGAAAT
58036518 AAAGAAAT
1 AAAGAAAT
58036526 AAAGAAAT
1 AAAGAAAT
58036534 AAA
1 AAA
58036537 TATGTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.11, T:0.11
Consensus pattern (8 bp):
AAAGAAAT
Found at i:58036731 original size:18 final size:18
Alignment explanation
Indices: 58036705--58036739 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
58036695 AAACAAAAAA
58036705 TATAAATATAAATAAATT
1 TATAAATATAAATAAATT
*
58036723 TATATATATAAATAAAT
1 TATAAATATAAATAAAT
58036740 ACAAAGAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TATAAATATAAATAAATT
Found at i:58039096 original size:39 final size:39
Alignment explanation
Indices: 58038993--58039272 Score: 192
Period size: 41 Copynumber: 6.8 Consensus size: 39
58038983 TACTGGATTC
* * * *
58038993 AATCTGCTCCACTGTAACCTCAGGGAGATAAGA-CCTGAT
1 AATCCGCTCCACTGTAATCTCAGAGAGATAAGATCCT-TT
* *
58039032 ACGATCCACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTT
1 A--ATCCGCTCCACTGTAATC-TCAGAGAGATAAGATCCTTT
*
58039073 AATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTATCTTT
1 AATCCGCTCCACTGTAATCTCAGAGAGATAAGA-T-C---CTTT
* * *
58039117 GATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTT
1 AATCCGCTCCACTGTAATCTCAGAGAGATAAGATC--C--TTT
* * * *
58039160 -TTCTGTCTGCTCCACTGTAATCTCAGGGAGATAA-AACCTGAT
1 AATC---C-GCTCCACTGTAATCTCAGAGAGATAAGATCCT-TT
* *
58039202 ACGATCCACTCTACTGTAA-CTTCAGAGAGATAAGATCCTTT
1 A--ATCCGCTCCACTGTAATC-TCAGAGAGATAAGATCCTTT
58039243 AATCCGCTCCACTGTAATCTCAGAGAGATA
1 AATCCGCTCCACTGTAATCTCAGAGAGATA
58039273 GGATTACTAT
Statistics
Matches: 192, Mismatches: 26, Indels: 46
0.73 0.10 0.17
Matches are distributed among these distances:
39 53 0.28
40 5 0.03
41 54 0.28
42 12 0.06
43 5 0.03
44 33 0.17
45 4 0.02
46 26 0.14
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (39 bp):
AATCCGCTCCACTGTAATCTCAGAGAGATAAGATCCTTT
Found at i:58039126 original size:44 final size:44
Alignment explanation
Indices: 58039069--58039365 Score: 208
Period size: 44 Copynumber: 6.8 Consensus size: 44
58039059 AGATAAGATC
* * *
58039069 CTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAT
1 CTTTGATCTGCTCCACTGTAATCTCAGAGAGATAAGATTACTAT
* * *
58039113 CTTTGATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATT
1 CTTTGATCTGCTCCACTGTAATCTCAGAGAGATAAGAT-TACTA-T
* *
58039159 TTTCTG-TCTGCTCCACTGTAATCTCAGGGAGATAA-A--ACCTGAT
1 CTT-TGATCTGCTCCACTGTAATCTCAGAGAGATAAGATTA-CT-AT
** *
58039202 AC---GATCCACTCTACTGTAA-CTTCAGAGAGATAAGA-T-C---
1 -CTTTGATCTGCTCCACTGTAATC-TCAGAGAGATAAGATTACTAT
* * *
58039239 CTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTAT
1 CTTTGATCTGCTCCACTGTAATCTCAGAGAGATAAGATTACTAT
** * * * *
58039283 CTTTGATCTGCTCTGCTGTAATCTTAGGGAGATAAGATCTGCAATT
1 CTTTGATCTGCTCCACTGTAATCTCAGAGAGATAAGAT-TACTA-T
* *
58039329 CTTCGGTCTGCTCCACTGTAATCTCA-AGGAGATAAGA
1 CTTTGATCTGCTCCACTGTAATCTCAGA-GAGATAAGA
58039366 CCTGATACGA
Statistics
Matches: 198, Mismatches: 33, Indels: 42
0.73 0.12 0.15
Matches are distributed among these distances:
36 1 0.01
39 27 0.14
40 4 0.02
41 25 0.13
42 1 0.01
43 2 0.01
44 66 0.33
45 7 0.04
46 63 0.32
47 2 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
CTTTGATCTGCTCCACTGTAATCTCAGAGAGATAAGATTACTAT
Found at i:58039183 original size:46 final size:45
Alignment explanation
Indices: 58038994--58039365 Score: 206
Period size: 46 Copynumber: 8.7 Consensus size: 45
58038984 ACTGGATTCA
* * *
58038994 ATCTGCTCCACTGTAACCTCAGGGAGATAAGACCTG-A--TAC-G
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGCATCTTCTG
** * * *
58039035 ATCCACTCTACTGTAA-CTTCAGAGAGATAAGA--T-C--CTT-TA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGCATCTTCTG
* * * *
58039074 ATCCGCTCCACTGTAATCTCAGAGAGATAGGAT-TACTATCTT-TG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGC-ATCTTCTG
*
58039118 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGCAATTTTTCTG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGC-A-TCTTCTG
* * *
58039165 -TCTGCTCCACTGTAATCTCAGGGAGATAAAACCTG-A--TAC-G
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGCATCTTCTG
** * * *
58039205 ATCCACTCTACTGTAA-CTTCAGAGAGATAAGA--T-C--CTT-TA
1 ATCTGCTCCACTGTAATC-TCAGGGAGATAAGATCTGCATCTTCTG
* * * *
58039244 ATCCGCTCCACTGTAATCTCAGAGAGATAGGAT-TACTATCTT-TG
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGC-ATCTTCTG
** *
58039288 ATCTGCTCTGCTGTAATCTTAGGGAGATAAGATCTGCAATTCTTC-G
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGC-A-TCTTCTG
* *
58039334 GTCTGCTCCACTGTAATCTCAAGGAGATAAGA
1 ATCTGCTCCACTGTAATCTCAGGGAGATAAGA
58039366 CCTGATACGA
Statistics
Matches: 261, Mismatches: 43, Indels: 49
0.74 0.12 0.14
Matches are distributed among these distances:
39 58 0.22
40 7 0.03
41 54 0.21
44 66 0.25
45 6 0.02
46 68 0.26
47 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (45 bp):
ATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGCATCTTCTG
Found at i:58039277 original size:170 final size:170
Alignment explanation
Indices: 58038995--58039407 Score: 754
Period size: 170 Copynumber: 2.4 Consensus size: 170
58038985 CTGGATTCAA
*
58038995 TCTGCTCCACTGTAACCTCAGGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGAGA
58039060 GATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTATCTTTGATCTGCT
66 GATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTATCTTTGATCTGCT
* *
58039125 CCACTGTAATCTCAGGGAGATAAGATCTGCAATTTTTCTG
131 CCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGG
*
58039165 TCTGCTCCACTGTAATCTCAGGGAGATAAAACCTGATACGATCCACTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGAGA
58039230 GATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTATCTTTGATCTGCT
66 GATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTATCTTTGATCTGCT
** *
58039295 CTGCTGTAATCTTAGGGAGATAAGATCTGCAATTCTTCGG
131 CCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGG
*
58039335 TCTGCTCCACTGTAATCTCAAGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGAGA
1 TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGAGA
58039400 GATAAGAT
66 GATAAGAT
58039408 TTGAAATTCT
Statistics
Matches: 234, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
170 234 1.00
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (170 bp):
TCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGAGA
GATAAGATCCTTTAATCCGCTCCACTGTAATCTCAGAGAGATAGGATTACTATCTTTGATCTGCT
CCACTGTAATCTCAGGGAGATAAGATCTGCAATTCTTCGG
Found at i:58039418 original size:87 final size:87
Alignment explanation
Indices: 58039293--58039453 Score: 236
Period size: 87 Copynumber: 1.9 Consensus size: 87
58039283 CTTTGATCTG
* * * * *
58039293 CTCTGCTGTAATCTTAGGGAGATAAGATCTGCAATTCTTCGGTCTGCTCCACTGTAATCTCA-AG
1 CTCTACTGTAATCTTAGAGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAATCTCATA-
58039357 GAGATAAGACCTGATACGATCCA
65 GAGATAAGACCTGATACGATCCA
*
58039380 CTCTACTGTAA-CTTCAGAGAGATAAGATTTGAAATTCTTCGGTCTACTCCACTATAATCTCATA
1 CTCTACTGTAATCTT-AGAGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAATCTCATA
58039444 GAGATAAGAC
65 GAGATAAGAC
58039454 TTGTATAATG
Statistics
Matches: 66, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
86 3 0.05
87 62 0.94
88 1 0.02
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (87 bp):
CTCTACTGTAATCTTAGAGAGATAAGATCTGAAATTCTTCGGTCTACTCCACTATAATCTCATAG
AGATAAGACCTGATACGATCCA
Found at i:58062257 original size:63 final size:62
Alignment explanation
Indices: 58062188--58062363 Score: 198
Period size: 60 Copynumber: 2.8 Consensus size: 62
58062178 ATAACAGCTT
* * *
58062188 ATAGAACTCAAAACATACATTCGGCTGACATATATATATAATTTATAAAATTTCTTTCAACTC
1 ATAGAACTCAAAACATACATTCGGCTAACATAT-TATATAATTCATAAAATTACTTTCAACTC
* * * *
58062251 ATAGAACTCAAAACATACACT-GGCTAACATATT-TATAATTCATACAATTAGTTTCAACTT
1 ATAGAACTCAAAACATACATTCGGCTAACATATTATATAATTCATAAAATTACTTTCAACTC
* * *
58062311 ATCA-AACTTAAAACATACATTTC-GCTAACACATTTATATCATTCATAAAATTA
1 AT-AGAACTCAAAACATACA-TTCGGCTAACATA-TTATATAATTCATAAAATTA
58062364 AATTCATATT
Statistics
Matches: 96, Mismatches: 12, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
60 38 0.40
61 11 0.11
62 12 0.12
63 35 0.36
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (62 bp):
ATAGAACTCAAAACATACATTCGGCTAACATATTATATAATTCATAAAATTACTTTCAACTC
Found at i:58070408 original size:63 final size:60
Alignment explanation
Indices: 58070256--58070413 Score: 187
Period size: 59 Copynumber: 2.6 Consensus size: 60
58070246 AGATAAGATA
*
58070256 TATATAATTCATACAATTAAATTCAGCTTATAGAACTCAAAACATACACTGGTAACATAT
1 TATATAATTCATACAATTAAATTCAGCTTATAGAACTCAAAACACACACTGGTAACATAT
** * * *
58070316 T-TATAATTCATACAATTAGTTTC-GACTTATCA-AATTTAAAACACACATTTGGCTAACATATT
1 TATATAATTCATACAATTAAATTCAG-CTTAT-AGAACTCAAAACACACA-CTGG-TAACATA-T
*
58070378 TATATAATTCATAAAATTAAATTCAGCTTATAGAAC
1 TATATAATTCATACAATTAAATTCAGCTTATAGAAC
58070414 ATATATATAT
Statistics
Matches: 80, Mismatches: 10, Indels: 13
0.78 0.10 0.13
Matches are distributed among these distances:
58 1 0.01
59 37 0.46
60 5 0.06
61 7 0.09
62 3 0.04
63 26 0.32
64 1 0.01
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.35
Consensus pattern (60 bp):
TATATAATTCATACAATTAAATTCAGCTTATAGAACTCAAAACACACACTGGTAACATAT
Found at i:58072313 original size:28 final size:29
Alignment explanation
Indices: 58072272--58072331 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
58072262 ACAAAACTCC
*
58072272 TCTCGTCAAAATTACTTCTTCAGAACCCA
1 TCTCGTCAAAATTACTTCTTAAGAACCCA
* *
58072301 TCTC-TCAAAATTATTTTTTAAGAACCCA
1 TCTCGTCAAAATTACTTCTTAAGAACCCA
58072329 TCT
1 TCT
58072332 TGTACAAATT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
28 24 0.86
29 4 0.14
ACGTcount: A:0.32, C:0.27, G:0.05, T:0.37
Consensus pattern (29 bp):
TCTCGTCAAAATTACTTCTTAAGAACCCA
Found at i:58072426 original size:31 final size:33
Alignment explanation
Indices: 58072377--58072438 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
58072367 TAATTAATAA
58072377 ACTTAAAAATAAATAAAACCCTAAA-CCTAAAC
1 ACTTAAAAATAAATAAAACCCTAAATCCTAAAC
* * *
58072409 ACTTAAAATTTAA-AAAACCTTAAATCCTAA
1 ACTTAAAAATAAATAAAACCCTAAATCCTAA
58072439 CCCTAATTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
31 10 0.38
32 16 0.62
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.24
Consensus pattern (33 bp):
ACTTAAAAATAAATAAAACCCTAAATCCTAAAC
Found at i:58075736 original size:16 final size:18
Alignment explanation
Indices: 58075705--58075747 Score: 63
Period size: 16 Copynumber: 2.4 Consensus size: 18
58075695 ATTTGATAAA
58075705 AAATATAAATTAAAAAATT
1 AAATA-AAATTAAAAAATT
58075724 AAA-AAAATT-AAAAATT
1 AAATAAAATTAAAAAATT
58075740 AAATAAAA
1 AAATAAAA
58075748 GACTAAAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 10 0.43
17 9 0.39
18 1 0.04
19 3 0.13
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATAAAATTAAAAAATT
Found at i:58078024 original size:16 final size:15
Alignment explanation
Indices: 58078003--58078032 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
58077993 AATTAAATAC
58078003 AACAACATTTATTAAT
1 AACAACATTT-TTAAT
58078019 AACAACATTTTTAA
1 AACAACATTTTTAA
58078033 GTTGAAACAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (15 bp):
AACAACATTTTTAAT
Found at i:58081357 original size:16 final size:17
Alignment explanation
Indices: 58081326--58081358 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
58081316 ACACACACAG
58081326 AAACAACAGCAAATAGAA
1 AAACAACAGC-AATAGAA
58081344 AAACAACAGC-ATAGA
1 AAACAACAGCAATAGA
58081359 GTAGACCTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.64, C:0.18, G:0.12, T:0.06
Consensus pattern (17 bp):
AAACAACAGCAATAGAA
Found at i:58081676 original size:59 final size:59
Alignment explanation
Indices: 58081613--58081782 Score: 304
Period size: 59 Copynumber: 2.9 Consensus size: 59
58081603 TCAAGTTTGT
*
58081613 TTTACTAATCAAATGTTAGATTTTGTTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
*
58081672 TTTACTAATCAGATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
* *
58081731 TTTATTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAGTAATT
1 TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATT
58081783 AATAATTTGA
Statistics
Matches: 106, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
59 106 1.00
ACGTcount: A:0.44, C:0.08, G:0.06, T:0.42
Consensus pattern (59 bp):
TTTACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAATAATTTGATAAA
Found at i:58081753 original size:29 final size:29
Alignment explanation
Indices: 58081662--58081753 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
58081652 ACAATTAATA
* *
58081662 ATTTGATAAATTTACTAATCAGATGTTAG
1 ATTTGATAAATTTATTAATCAAATGTTAG
* ** * **
58081691 ATTTTATTACAA-CAATTAATACAATTAATA-
1 ATTTGA-TA-AATTTATTAAT-CAAATGTTAG
58081721 ATTTGATAAATTTATTAATCAAATGTTAG
1 ATTTGATAAATTTATTAATCAAATGTTAG
58081750 ATTT
1 ATTT
58081754 TATTACAACA
Statistics
Matches: 44, Mismatches: 14, Indels: 10
0.65 0.21 0.15
Matches are distributed among these distances:
28 8 0.18
29 17 0.39
30 12 0.27
31 7 0.16
ACGTcount: A:0.42, C:0.07, G:0.08, T:0.43
Consensus pattern (29 bp):
ATTTGATAAATTTATTAATCAAATGTTAG
Found at i:58081814 original size:16 final size:16
Alignment explanation
Indices: 58081793--58081834 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
58081783 AATAATTTGA
*
58081793 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
58081809 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
58081825 TAGTTTTAAT
1 TAATTTTAAT
58081835 TTTATTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:58081818 original size:22 final size:23
Alignment explanation
Indices: 58081808--58081869 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
58081798 TTACTAACAA
* * *
58081808 TTAATTTTAAT-AACAATTAGTT
1 TTAATTTTAATAAAAAAATAATT
*
58081830 TTAATTTTATTAAAAAAATAATT
1 TTAATTTTAATAAAAAAATAATT
*
58081853 TTAATTTTAATTAAAAA
1 TTAATTTTAATAAAAAA
58081870 CGGGCCGGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 10 0.30
23 23 0.70
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
TTAATTTTAATAAAAAAATAATT
Found at i:58084365 original size:10 final size:10
Alignment explanation
Indices: 58084334--58084424 Score: 61
Period size: 9 Copynumber: 9.6 Consensus size: 10
58084324 TTTTTACAAA
*
58084334 TTTTATATTT
1 TTTTATATAT
*
58084344 CTTTTCTATAT
1 -TTTTATATAT
*
58084355 TTCTATATA-
1 TTTTATATAT
58084364 TTTTATA-AT
1 TTTTATATAT
58084373 TTTTA-ATAT
1 TTTTATATAT
58084382 TTTTA-ATA-
1 TTTTATATAT
* *
58084390 TTTTATTAAAA
1 TTTTA-TATAT
*
58084401 TTTAATA-AT
1 TTTTATATAT
58084410 TTTTATA-AT
1 TTTTATATAT
58084419 TTTTAT
1 TTTTAT
58084425 TGAATTTTAT
Statistics
Matches: 66, Mismatches: 9, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
8 7 0.11
9 36 0.55
10 11 0.17
11 12 0.18
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (10 bp):
TTTTATATAT
Found at i:58084383 original size:27 final size:28
Alignment explanation
Indices: 58084351--58084421 Score: 85
Period size: 27 Copynumber: 2.6 Consensus size: 28
58084341 TTTCTTTTCT
* **
58084351 ATATTTCTATATATTTTA-TAATTTTTA
1 ATATTTTTATATATTTTATTAAAATTTA
58084378 ATATTTTTA-ATATTTTATTAAAATTTA
1 ATATTTTTATATATTTTATTAAAATTTA
58084405 ATAATTTTTATA-ATTTT
1 AT-ATTTTTATATATTTT
58084422 TATTGAATTT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
26 8 0.21
27 17 0.45
28 12 0.32
29 1 0.03
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (28 bp):
ATATTTTTATATATTTTATTAAAATTTA
Found at i:58084430 original size:28 final size:27
Alignment explanation
Indices: 58084373--58084448 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 27
58084363 ATTTTATAAT
58084373 TTTTAATATTTT-TAATATTTTATTAAAA
1 TTTTAAT-TTTTATAAT-TTTTATTAAAA
*
58084401 TTTAATAATTTTTATAATTTTTATT-GAA
1 TTT--TAATTTTTATAATTTTTATTAAAA
* *
58084429 TTTTATTTTTTACAATTTTT
1 TTTTAATTTTTATAATTTTT
58084449 TTCCATATGT
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
26 15 0.36
28 8 0.19
29 11 0.26
30 8 0.19
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTTAATTTTTATAATTTTTATTAAAA
Found at i:58089915 original size:31 final size:31
Alignment explanation
Indices: 58089848--58089921 Score: 121
Period size: 31 Copynumber: 2.4 Consensus size: 31
58089838 TTCGGGCCAA
*
58089848 AACGCGGGGATCCTCCCCTCCGGGTCGGGTT
1 AACGCGGGGATCCTCCCCTCCGGGTCGGGTC
*
58089879 GACGCGGGGATCCTCCCCTCCGGGTCGGGTC
1 AACGCGGGGATCCTCCCCTCCGGGTCGGGTC
*
58089910 AACGCGCGGATC
1 AACGCGGGGATC
58089922 TCGCCCTTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 39 1.00
ACGTcount: A:0.11, C:0.36, G:0.36, T:0.16
Consensus pattern (31 bp):
AACGCGGGGATCCTCCCCTCCGGGTCGGGTC
Found at i:58090186 original size:9 final size:9
Alignment explanation
Indices: 58090166--58090215 Score: 66
Period size: 10 Copynumber: 5.4 Consensus size: 9
58090156 ATTTTAAATG
58090166 AAAAAT-AA
1 AAAAATAAA
*
58090174 ATAAATAAA
1 AAAAATAAA
58090183 ATAAAATAAA
1 A-AAAATAAA
58090193 AAAAATAGAA
1 AAAAATA-AA
58090203 AAAAATAAA
1 AAAAATAAA
58090212 AAAA
1 AAAA
58090216 GACACGATTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
8 5 0.14
9 15 0.41
10 17 0.46
ACGTcount: A:0.84, C:0.00, G:0.02, T:0.14
Consensus pattern (9 bp):
AAAAATAAA
Found at i:58090188 original size:19 final size:19
Alignment explanation
Indices: 58090161--58090215 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
58090151 TTTATATTTT
*
58090161 AAATGAAAAATAAATAAATA
1 AAAT-AAAAATAAAAAAATA
58090181 AAAT-AAAATAAAAAAAATA
1 AAATAAAAAT-AAAAAAATA
*
58090200 GAA-AAAAATAAAAAAA
1 AAATAAAAATAAAAAAA
58090216 GACACGATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
18 12 0.39
19 15 0.48
20 4 0.13
ACGTcount: A:0.82, C:0.00, G:0.04, T:0.15
Consensus pattern (19 bp):
AAATAAAAATAAAAAAATA
Found at i:58090189 original size:14 final size:14
Alignment explanation
Indices: 58090167--58090212 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
58090157 TTTTAAATGA
58090167 AAAAT-AAATAAAT
1 AAAATAAAATAAAT
*
58090180 AAAATAAAATAAAA
1 AAAATAAAATAAAT
*
58090194 AAAATAGAAAAAAAT
1 AAAATA-AAATAAAT
58090209 AAAA
1 AAAA
58090213 AAAGACACGA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
13 5 0.18
14 13 0.46
15 10 0.36
ACGTcount: A:0.83, C:0.00, G:0.02, T:0.15
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:58090755 original size:45 final size:45
Alignment explanation
Indices: 58090691--58090784 Score: 188
Period size: 45 Copynumber: 2.1 Consensus size: 45
58090681 AAAGATACGG
58090691 GCAAACAAACAATCTGGTTTCATAATTAACCTCCAACCTTGTTTT
1 GCAAACAAACAATCTGGTTTCATAATTAACCTCCAACCTTGTTTT
58090736 GCAAACAAACAATCTGGTTTCATAATTAACCTCCAACCTTGTTTT
1 GCAAACAAACAATCTGGTTTCATAATTAACCTCCAACCTTGTTTT
58090781 GCAA
1 GCAA
58090785 GCAACACTAT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 49 1.00
ACGTcount: A:0.34, C:0.24, G:0.10, T:0.32
Consensus pattern (45 bp):
GCAAACAAACAATCTGGTTTCATAATTAACCTCCAACCTTGTTTT
Found at i:58090922 original size:32 final size:32
Alignment explanation
Indices: 58090881--58090944 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
58090871 TGAATTCCCT
58090881 TTCCTATTTTAGAATTTCTCCACTAAAATTTA
1 TTCCTATTTTAGAATTTCTCCACTAAAATTTA
58090913 TTCCTATTTTAGAATTTCTCCACTAAAATTTA
1 TTCCTATTTTAGAATTTCTCCACTAAAATTTA
58090945 CTAATAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.31, C:0.19, G:0.03, T:0.47
Consensus pattern (32 bp):
TTCCTATTTTAGAATTTCTCCACTAAAATTTA
Found at i:58098914 original size:14 final size:14
Alignment explanation
Indices: 58098886--58098928 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
58098876 CATTATAATA
58098886 TTATTTTCATTTTTC
1 TTATTTTC-TTTTTC
58098901 TTATTTTCTTTTTC
1 TTATTTTCTTTTTC
* *
58098915 TAATTAT-TTTTTC
1 TTATTTTCTTTTTC
58098928 T
1 T
58098929 AATAATATTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 7 0.27
14 11 0.42
15 8 0.31
ACGTcount: A:0.14, C:0.12, G:0.00, T:0.74
Consensus pattern (14 bp):
TTATTTTCTTTTTC
Found at i:58101405 original size:563 final size:563
Alignment explanation
Indices: 58100339--58101467 Score: 2240
Period size: 563 Copynumber: 2.0 Consensus size: 563
58100329 AATCAAATTA
58100339 ATGTGCGCACAAAATATGAGAAACATCAAACTTAACATAGTTTCTTTATTATCGTTCTTACAACA
1 ATGTGCGCACAAAATATGAGAAACATCAAACTTAACATAGTTTCTTTATTATCGTTCTTACAACA
58100404 AAAATTTACAAGGTGGGAACAAGTCCCATAGTGCCAACATGATCCTTAAATTTGTGTGTCTGGCA
66 AAAATTTACAAGGTGGGAACAAGTCCCATAGTGCCAACATGATCCTTAAATTTGTGTGTCTGGCA
58100469 TGCCTTTAGTCAAAGGATCAGCTAACATCTACTCGGTGTTAATGTGCTTAATGACCACTTTCTTT
131 TGCCTTTAGTCAAAGGATCAGCTAACATCTACTCGGTGTTAATGTGCTTAATGACCACTTTCTTT
58100534 TCTTTAACACGTTCCCTTATGGCTAGATACTTAATGTCGATATGTTTACTTCGAATTCGAATTTT
196 TCTTTAACACGTTCCCTTATGGCTAGATACTTAATGTCGATATGTTTACTTCGAATTCGAATTTT
58100599 GTTATTTTTAGCCATAAAGACAGCAGTTGAATTGTCACAATATATCATCAACGGTTGATCTGTCA
261 GTTATTTTTAGCCATAAAGACAGCAGTTGAATTGTCACAATATATCATCAACGGTTGATCTGTCA
58100664 TAATACAGTGTAGCATATTTAACTAGTTTTCGTACTTTAGGAGCTTGAATACAAGCATTTTTATT
326 TAATACAGTGTAGCATATTTAACTAGTTTTCGTACTTTAGGAGCTTGAATACAAGCATTTTTATT
58100729 ATGTTTTAGTTTAATTTTTCCATATTTGTTTTGAATTCAATAAAAAGTGTATTTTGAGTCTTTTT
391 ATGTTTTAGTTTAATTTTTCCATATTTGTTTTGAATTCAATAAAAAGTGTATTTTGAGTCTTTTT
58100794 ATGACCTTAGGGGTCGAATGGGGCCTAAGGGTAAGCTAACATACTTAGTGAGTGTGCAAGACACC
456 ATGACCTTAGGGGTCGAATGGGGCCTAAGGGTAAGCTAACATACTTAGTGAGTGTGCAAGACACC
58100859 ATTCCAAGGCATAAGAACTCATGGCTGGTCGTTGTGTTGCAAC
521 ATTCCAAGGCATAAGAACTCATGGCTGGTCGTTGTGTTGCAAC
*
58100902 ATGTGCGCACAAAATATGAGAAACATCAAACTTAACATAGTTTTTTTATTATCGTTCTTACAACA
1 ATGTGCGCACAAAATATGAGAAACATCAAACTTAACATAGTTTCTTTATTATCGTTCTTACAACA
58100967 AAAATTTACAAGGTGGGAACAAGTCCCATAGTGCCAACATGATCCTTAAATTTGTGTGTCTGGCA
66 AAAATTTACAAGGTGGGAACAAGTCCCATAGTGCCAACATGATCCTTAAATTTGTGTGTCTGGCA
58101032 TGCCTTTAGTCAAAGGATCAGCTAACATCTACTCGGTGTTAATGTGCTTAATGACCACTTTCTTT
131 TGCCTTTAGTCAAAGGATCAGCTAACATCTACTCGGTGTTAATGTGCTTAATGACCACTTTCTTT
*
58101097 TCTTTAACACGTTCCCTTATGGCTAGATACTTAATGTCGATATGTTTACTTCGAATTCGACTTTT
196 TCTTTAACACGTTCCCTTATGGCTAGATACTTAATGTCGATATGTTTACTTCGAATTCGAATTTT
58101162 GTTATTTTTAGCCATAAAGACAGCAGTTGAATTGTCACAATATATCATCAACGGTTGATCTGTCA
261 GTTATTTTTAGCCATAAAGACAGCAGTTGAATTGTCACAATATATCATCAACGGTTGATCTGTCA
58101227 TAATACAGTGTAGCATATTTAACTAGTTTTCGTACTTTAGGAGCTTGAATACAAGCATTTTTATT
326 TAATACAGTGTAGCATATTTAACTAGTTTTCGTACTTTAGGAGCTTGAATACAAGCATTTTTATT
58101292 ATGTTTTAGTTTAATTTTTCCATATTTGTTTTGAATTCAATAAAAAGTGTATTTTGAGTCTTTTT
391 ATGTTTTAGTTTAATTTTTCCATATTTGTTTTGAATTCAATAAAAAGTGTATTTTGAGTCTTTTT
58101357 ATGACCTTAGGGGTCGAATGGGGCCTAAGGGTAAGCTAACATACTTAGTGAGTGTGCAAGACACC
456 ATGACCTTAGGGGTCGAATGGGGCCTAAGGGTAAGCTAACATACTTAGTGAGTGTGCAAGACACC
58101422 ATTCCAAGGCATAAGAACTCATGGCTGGTCGTTGTGTTGCAAC
521 ATTCCAAGGCATAAGAACTCATGGCTGGTCGTTGTGTTGCAAC
58101465 ATG
1 ATG
58101468 GGAAGCTTAA
Statistics
Matches: 564, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
563 564 1.00
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.36
Consensus pattern (563 bp):
ATGTGCGCACAAAATATGAGAAACATCAAACTTAACATAGTTTCTTTATTATCGTTCTTACAACA
AAAATTTACAAGGTGGGAACAAGTCCCATAGTGCCAACATGATCCTTAAATTTGTGTGTCTGGCA
TGCCTTTAGTCAAAGGATCAGCTAACATCTACTCGGTGTTAATGTGCTTAATGACCACTTTCTTT
TCTTTAACACGTTCCCTTATGGCTAGATACTTAATGTCGATATGTTTACTTCGAATTCGAATTTT
GTTATTTTTAGCCATAAAGACAGCAGTTGAATTGTCACAATATATCATCAACGGTTGATCTGTCA
TAATACAGTGTAGCATATTTAACTAGTTTTCGTACTTTAGGAGCTTGAATACAAGCATTTTTATT
ATGTTTTAGTTTAATTTTTCCATATTTGTTTTGAATTCAATAAAAAGTGTATTTTGAGTCTTTTT
ATGACCTTAGGGGTCGAATGGGGCCTAAGGGTAAGCTAACATACTTAGTGAGTGTGCAAGACACC
ATTCCAAGGCATAAGAACTCATGGCTGGTCGTTGTGTTGCAAC
Found at i:58107182 original size:39 final size:39
Alignment explanation
Indices: 58107127--58107204 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
58107117 TATTATACAC
*
58107127 ATTAACTAATTAAACTAATTAGTCTACAATTACGAATAA
1 ATTAACTAATTAAACTAATTAGTCTACAATTAAGAATAA
*
58107166 ATTAACTAATTGAACTAATTAGTCTACAATTAAGAATAA
1 ATTAACTAATTAAACTAATTAGTCTACAATTAAGAATAA
58107205 GAAATTATCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.49, C:0.12, G:0.06, T:0.33
Consensus pattern (39 bp):
ATTAACTAATTAAACTAATTAGTCTACAATTAAGAATAA
Found at i:58109367 original size:16 final size:16
Alignment explanation
Indices: 58109338--58109371 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
58109328 AAAAATACTA
* *
58109338 TATAACTAATTAAATT
1 TATAAATAAATAAATT
58109354 TATAAATAAATAAATT
1 TATAAATAAATAAATT
58109370 TA
1 TA
58109372 AAAACTTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (16 bp):
TATAAATAAATAAATT
Found at i:58109633 original size:14 final size:13
Alignment explanation
Indices: 58109607--58109640 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
58109597 TCATTTTGAT
58109607 TTTCTAAACAAAA
1 TTTCTAAACAAAA
*
58109620 TTTCTGAACAAAA
1 TTTCTAAACAAAA
*
58109633 ATTCTAAA
1 TTTCTAAA
58109641 AAATTAATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.32
Consensus pattern (13 bp):
TTTCTAAACAAAA
Found at i:58111299 original size:20 final size:19
Alignment explanation
Indices: 58111276--58111314 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
58111266 AAATAACTCA
*
58111276 TATTATTTACAATTAAAAAT
1 TATTAATTACAA-TAAAAAT
*
58111296 TATTAATTAGAATAAAAAT
1 TATTAATTACAATAAAAAT
58111315 AATTTATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.54, C:0.03, G:0.03, T:0.41
Consensus pattern (19 bp):
TATTAATTACAATAAAAAT
Found at i:58112001 original size:16 final size:16
Alignment explanation
Indices: 58111980--58112040 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
58111970 GGTAAGACGA
58111980 AAATTTAAATTTTTTT
1 AAATTTAAATTTTTTT
* ** *
58111996 AAATTTCAATAATGTT
1 AAATTTAAATTTTTTT
*
58112012 AATTTTAAA-TTTTTT
1 AAATTTAAATTTTTTT
58112027 -AATTTGAAATTTTT
1 AAATTT-AAATTTTT
58112041 ATTATGTAAA
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
14 4 0.12
15 6 0.18
16 23 0.70
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (16 bp):
AAATTTAAATTTTTTT
Found at i:58112041 original size:14 final size:15
Alignment explanation
Indices: 58112010--58112040 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58112000 TTCAATAATG
*
58112010 TTAATTTTAAATTTT
1 TTAATTTGAAATTTT
58112025 TTAATTTGAAATTTT
1 TTAATTTGAAATTTT
58112040 T
1 T
58112041 ATTATGTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TTAATTTGAAATTTT
Found at i:58114003 original size:27 final size:26
Alignment explanation
Indices: 58113888--58114006 Score: 98
Period size: 27 Copynumber: 4.3 Consensus size: 26
58113878 ATATTTACAA
*
58113888 AATATATAAAAAAATGTAA-ATATAT
1 AATATATAAAAAAATGAAATATATAT
58113913 AATATATAAATAAACTATGAAGATATGTATAT
1 AATATATAAA-AAA--ATGAA-ATA--TATAT
* * *
58113945 ATATATGTAAAAAATATG-TATGTATAT
1 A-ATATATAAAAAA-ATGAAATATATAT
58113972 AAATATATATAAAAAATGAAATATATAT
1 -AATATATA-AAAAAATGAAATATATAT
58114000 AATATAT
1 AATATAT
58114007 GTATATATAA
Statistics
Matches: 76, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
25 10 0.13
26 3 0.04
27 21 0.28
28 17 0.22
29 3 0.04
30 1 0.01
31 4 0.05
32 9 0.12
33 8 0.11
ACGTcount: A:0.57, C:0.01, G:0.07, T:0.35
Consensus pattern (26 bp):
AATATATAAAAAAATGAAATATATAT
Found at i:58114043 original size:87 final size:91
Alignment explanation
Indices: 58113887--58114108 Score: 214
Period size: 87 Copynumber: 2.5 Consensus size: 91
58113877 TATATTTACA
* * *
58113887 AAATATATA-AAAAAATGTAAATATATAATATA--TAAATA-AACTATGAAGATATGTATATATA
1 AAATATATATAAAAAATGAAAATATATAATATATGTATATATAACTATGAAGATATGTATATACA
* ***
58113948 TATGTAAAAAATATGTATGTAT-A-T
66 TATATAAAAAATAAAAATGTATAAGT
*
58113972 AAATATATATAAAAAATGAAATATATATAATATATGTATATATAA-TATAGAA-A-ATGTATATG
1 AAATATATATAAAAAATGAAA-ATATATAATATATGTATATATAACTAT-GAAGATATGTATATA
58114034 CAT-TATAAAAAATAAAAATGTATAAGT
64 CATATATAAAAAATAAAAATGTATAAGT
**
58114061 ATAATATATTAGTAAATTATGAAAATATGGAT-ATATATGTATATATAA
1 A-AATATA-TA-TAAAAAATGAAAATAT--ATAATATATGTATATATAA
58114109 AAAAATGCGG
Statistics
Matches: 114, Mismatches: 10, Indels: 19
0.80 0.07 0.13
Matches are distributed among these distances:
85 9 0.08
86 10 0.09
87 28 0.25
88 11 0.10
89 11 0.10
90 11 0.10
91 6 0.05
92 26 0.23
93 2 0.02
ACGTcount: A:0.55, C:0.01, G:0.09, T:0.36
Consensus pattern (91 bp):
AAATATATATAAAAAATGAAAATATATAATATATGTATATATAACTATGAAGATATGTATATACA
TATATAAAAAATAAAAATGTATAAGT
Found at i:58114441 original size:3 final size:3
Alignment explanation
Indices: 58114433--58114465 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
58114423 TTTATGGTTG
58114433 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
58114466 ACAAACTAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:58118904 original size:29 final size:30
Alignment explanation
Indices: 58118850--58118915 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
58118840 CTTTCAAAAT
*
58118850 ACCCTAATCCCTAAAAAACCATAAACCCTA
1 ACCCTAATCCCTAAAAAACCAAAAACCCTA
* *
58118880 ACCCTAA-CCCTAATAAAA-TAAAAACTCTA
1 ACCCTAATCCCTAA-AAAACCAAAAACCCTA
58118909 ACCCTAA
1 ACCCTAA
58118916 AAAAAAGCCC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 21 0.66
30 11 0.34
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.18
Consensus pattern (30 bp):
ACCCTAATCCCTAAAAAACCAAAAACCCTA
Found at i:58119944 original size:2 final size:2
Alignment explanation
Indices: 58119939--58119984 Score: 83
Period size: 2 Copynumber: 23.0 Consensus size: 2
58119929 CCTCTCACCG
*
58119939 TC TC TC TC TC TC TC TC TC TC TC TC TC TC AC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
58119981 TC TC
1 TC TC
58119985 CAGTCTCCAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.02, C:0.50, G:0.00, T:0.48
Consensus pattern (2 bp):
TC
Found at i:58120209 original size:2 final size:2
Alignment explanation
Indices: 58120202--58120240 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
58120192 TGAACGACAA
58120202 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
58120241 TTTCCTTTTT
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:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:58126302 original size:44 final size:46
Alignment explanation
Indices: 58126250--58126345 Score: 142
Period size: 44 Copynumber: 2.1 Consensus size: 46
58126240 ATTATAACAC
*
58126250 CTATTCCATTAAACCAAAC-ATAAAAATACT-ATTATAATTTTATT
1 CTATTCCATTAAACCAAACAATAAAAATACTAATTACAATTTTATT
* *
58126294 CTATTCCATTAAACCAAACAATTAAATTACTAATTACAATTTTATT
1 CTATTCCATTAAACCAAACAATAAAAATACTAATTACAATTTTATT
*
58126340 CCATTC
1 CTATTC
58126346 ACCTCAACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
44 19 0.41
45 9 0.20
46 18 0.39
ACGTcount: A:0.43, C:0.19, G:0.00, T:0.39
Consensus pattern (46 bp):
CTATTCCATTAAACCAAACAATAAAAATACTAATTACAATTTTATT
Found at i:58126452 original size:16 final size:16
Alignment explanation
Indices: 58126431--58126483 Score: 88
Period size: 16 Copynumber: 3.3 Consensus size: 16
58126421 TTAGTTCGCT
*
58126431 GTAATGGAATAGAGGC
1 GTAATGGAATAGAGAC
58126447 GTAATGGAATAGAGAC
1 GTAATGGAATAGAGAC
*
58126463 GTAATGGAATAGAGAT
1 GTAATGGAATAGAGAC
58126479 GTAAT
1 GTAAT
58126484 AGGTAATTCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.42, C:0.04, G:0.32, T:0.23
Consensus pattern (16 bp):
GTAATGGAATAGAGAC
Found at i:58126719 original size:17 final size:17
Alignment explanation
Indices: 58126679--58126712 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
58126669 TTGTTATAGA
58126679 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
58126696 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
58126713 TGTTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:58126784 original size:20 final size:21
Alignment explanation
Indices: 58126745--58126784 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
58126735 AATTTACTAA
*
58126745 TAAAATCATAATATATAATAC
1 TAAAATCATAATATAAAATAC
*
58126766 TAAAAT-ATAATTTAAAATA
1 TAAAATCATAATATAAAATA
58126785 ATTATTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
TAAAATCATAATATAAAATAC
Found at i:58126797 original size:26 final size:28
Alignment explanation
Indices: 58126752--58126831 Score: 92
Period size: 28 Copynumber: 2.8 Consensus size: 28
58126742 TAATAAAATC
58126752 ATAATATATAATACTAAAATATAATTTAA-A
1 ATAATATATAAT--T-AAATATAATTTAATA
*
58126782 ATAAT-TATTATTAAATATAATTTAATA
1 ATAATATATAATTAAATATAATTTAATA
* *
58126809 ATAATATATAATTTAATAAAATT
1 ATAATATATAATTAAATATAATT
58126832 CTTATTCTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 6
0.81 0.07 0.11
Matches are distributed among these distances:
26 13 0.30
27 7 0.16
28 14 0.32
29 5 0.11
30 5 0.11
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
ATAATATATAATTAAATATAATTTAATA
Found at i:58126864 original size:44 final size:41
Alignment explanation
Indices: 58126763--58126864 Score: 98
Period size: 44 Copynumber: 2.3 Consensus size: 41
58126753 TAATATATAA
58126763 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
1 TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
* * **
58126804 TAATAATAATATATAATTTAATAA-AATTCTTATTCTTATATGAATT
1 TACT-A-AA-ATATAATTTAA-AATAATTATTATT-AAATAT-AATT
58126850 TACTAAAATCATAAT
1 TACTAAAAT-ATAAT
58126865 ATATAATACT
Statistics
Matches: 49, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
41 3 0.06
42 1 0.02
43 4 0.08
44 27 0.55
45 7 0.14
46 7 0.14
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.44
Consensus pattern (41 bp):
TACTAAAATATAATTTAAAATAATTATTATTAAATATAATT
Found at i:58126874 original size:108 final size:113
Alignment explanation
Indices: 58126659--58126918 Score: 358
Period size: 117 Copynumber: 2.3 Consensus size: 113
58126649 TTAATCATAT
* *
58126659 TTTAACATAATTGTTA-TAGAATATAATTTAATAA-AATATATAATTTAATAAAATTGTTAATAA
1 TTTAAAATAATTATTATTA-AATATAATTTAATAATAATATATAATTTAATAAAA-T-TTAAT--
58126722 ATATTCTTATATGAATTTACTAATAAAATCATAATATATAATAC-TAAAATATAA
61 ATATTCTTATATGAATTTAC--ATAAAATCATAATATATAATACATAAAATATAA
*
58126776 TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAA-TT-CT-TATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTTAATATATT
58126838 CTTATATGAATTTAC-TAAAATCATAATATATAATACTATAAAATATAA
66 CTTATATGAATTTACATAAAATCATAATATATAATAC-ATAAAATATAA
58126886 TTT-AAATAATTATTATTAAATATAATTT-ATAAT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAT
58126919 CTACTTTATT
Statistics
Matches: 136, Mismatches: 3, Indels: 17
0.87 0.02 0.11
Matches are distributed among these distances:
108 26 0.19
109 25 0.18
110 13 0.10
111 19 0.14
114 1 0.01
115 2 0.01
117 29 0.21
118 21 0.15
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (113 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAATAATATATAATTTAATAAAATTTAATATATT
CTTATATGAATTTACATAAAATCATAATATATAATACATAAAATATAA
Found at i:58126910 original size:32 final size:32
Alignment explanation
Indices: 58126874--58126938 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
58126864 TATATAATAC
*
58126874 TATAAAATATAATTTAAATAATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
** ** *
58126906 TATAATTTATAATCTACTTTATTATTATTAAA
1 TATAAAATATAATCTAAATAATTATTATTAAA
58126938 T
1 T
58126939 TGCAATACAT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (32 bp):
TATAAAATATAATCTAAATAATTATTATTAAA
Found at i:58128440 original size:15 final size:15
Alignment explanation
Indices: 58128420--58128454 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
58128410 GTCTGCTTCC
58128420 AAATTAATTCACTGT
1 AAATTAATTCACTGT
58128435 AAATTAATTCACTGT
1 AAATTAATTCACTGT
58128450 AAATT
1 AAATT
58128455 CAGTGACTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.43, C:0.11, G:0.06, T:0.40
Consensus pattern (15 bp):
AAATTAATTCACTGT
Found at i:58132600 original size:26 final size:28
Alignment explanation
Indices: 58132560--58132620 Score: 81
Period size: 26 Copynumber: 2.2 Consensus size: 28
58132550 TAATTAGATT
* **
58132560 TATTTAAAATAAAAATATTAAATT-TAA
1 TATTAAAAATAAAAATAAAAAATTATAA
58132587 -ATTAAAAATAAAAATAAAAAATTATAA
1 TATTAAAAATAAAAATAAAAAATTATAA
58132614 TATTAAA
1 TATTAAA
58132621 TATTTAAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
26 20 0.69
27 3 0.10
28 6 0.21
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (28 bp):
TATTAAAAATAAAAATAAAAAATTATAA
Found at i:58133039 original size:22 final size:22
Alignment explanation
Indices: 58133013--58133059 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
58133003 AAAGTCCTTC
*
58133013 TAAAAATTATTAA-AAAAATCT
1 TAAAAATTATAAACAAAAATCT
*
58133034 TAAAAATTATAAACAAAAATTT
1 TAAAAATTATAAACAAAAATCT
58133056 TAAA
1 TAAA
58133060 GCTATAGAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 12 0.52
22 11 0.48
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAAATTATAAACAAAAATCT
Found at i:58136767 original size:101 final size:99
Alignment explanation
Indices: 58136661--58136964 Score: 305
Period size: 91 Copynumber: 3.1 Consensus size: 99
58136651 ATTTAATATT
58136661 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
1 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
58136726 ATCATTATTAAAT-TA--T-AT-TTAA-TA--TT-
66 AT-ATTATTAAATATATTTAATATTAATTATTTTA
58136752 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
1 AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
*
58136817 ATTATTATTAAATTATATTTAATAATAATTATTTTA
66 A-TATTATTAAA-TATATTTAATATTAATTATTTTA
** * * * *
58136853 AATTA-TACAAATTCATATAAGAAAATTTAT-TAGGTATAA-TTATTAT--A-AATTTTATTAAA
1 AATTATTTTAAATT-ATAT----AAATTCATATAAG-AAAATTTATTATCAAGAATTTTATGAAA
* * *
58136912 TCATATATTTTAATTAAAATATATTTAATATTAATTATTTCA
60 TTATATATATT-ATT-AAATATATTTAATATTAATTATTTTA
58136954 AATTATATTTA
1 AATTAT-TTTA
58136965 TAGTATCATA
Statistics
Matches: 179, Mismatches: 13, Indels: 30
0.81 0.06 0.14
Matches are distributed among these distances:
91 75 0.42
92 2 0.01
93 2 0.01
95 1 0.01
96 2 0.01
97 3 0.02
98 2 0.01
100 11 0.06
101 55 0.31
102 4 0.02
103 2 0.01
104 10 0.06
105 10 0.06
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.48
Consensus pattern (99 bp):
AATTATTTTAAATTATATAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATAT
ATATTATTAAATATATTTAATATTAATTATTTTA
Found at i:58136903 original size:91 final size:91
Alignment explanation
Indices: 58136626--58136884 Score: 491
Period size: 91 Copynumber: 2.8 Consensus size: 91
58136616 TTAAATGTAT
58136626 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
58136691 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
58136717 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
58136782 GAAAATTTATTATCAAGAATTTTATG
66 GAAAATTTATTATCAAGAATTTTATG
* * *
58136808 AAATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAAATTATACAAATTCATATAA
1 AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
58136873 GAAAATTTATTA
66 GAAAATTTATTA
58136885 GGTATAATTA
Statistics
Matches: 165, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
91 165 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (91 bp):
AAATTATATATCATTATTAAATTATATTTAATATTAATTATTTTAAATTATATAAATTCATATAA
GAAAATTTATTATCAAGAATTTTATG
Found at i:58137054 original size:16 final size:16
Alignment explanation
Indices: 58137033--58137074 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
58137023 TTATTAAATT
*
58137033 ATATATTTTAATTATA
1 ATATATTTTAATAATA
58137049 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
58137064 AT-TATGTTTAA
1 ATATAT-TTTAA
58137075 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:58137059 original size:15 final size:15
Alignment explanation
Indices: 58137024--58137065 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
58137014 TTAAGAATTT
*
58137024 TATTAAATTAT-ATA
1 TATTTAATTATAATA
58137038 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
58137052 TATTTAATAATAAT
1 TATTTAATTATAAT
58137066 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:58137311 original size:16 final size:16
Alignment explanation
Indices: 58137290--58137357 Score: 127
Period size: 16 Copynumber: 4.2 Consensus size: 16
58137280 GATTTGCTAT
58137290 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58137306 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
58137322 TACATCTCTAATCCAA
1 TACACCTCTAATCCAA
58137338 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
58137354 TACA
1 TACA
58137358 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 50 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:58148090 original size:76 final size:76
Alignment explanation
Indices: 58147881--58148162 Score: 311
Period size: 76 Copynumber: 3.8 Consensus size: 76
58147871 GTATGTGATT
* * * * *
58147881 GTCAGTTTATCTGACTAGCGCTGGGCGCAAATCTTTGTCGATTTATTTGACTAGTGCTAGGCACA
1 GTCAGTTTATCTGACTAGCGTTGGACGCAAATATTTGTCGATTTATTCGACTAGTGCTGGGCACA
58147946 CAGTTAATATC
66 CAGTTAATATC
* * * * * *
58147957 GTTAGTTTATCCGACTAGCG-TGGA--CAAATCTTTGTCGATTTATTCAACTAGGGCTGGGCACC
1 GTCAGTTTATCTGACTAGCGTTGGACGCAAATATTTGTCGATTTATTCGACTAGTGCTGGGCACA
*
58148019 CAGTTAATAAC
66 CAGTTAATATC
* * * * * *
58148030 GTCGGTTTATCTGGCTAGCGTTGGATGCAAATATTTGTCGATTTATTCGACCAATGCTGGGCACG
1 GTCAGTTTATCTGACTAGCGTTGGACGCAAATATTTGTCGATTTATTCGACTAGTGCTGGGCACA
*
58148095 CAATTAATATC
66 CAGTTAATATC
* * * * *
58148106 GTCAGTTAATCTGATTAGTGTTGGGCGCAAATCA-TTGTCGATTTATTCTACTAGTGC
1 GTCAGTTTATCTGACTAGCGTTGGACGCAAAT-ATTTGTCGATTTATTCGACTAGTGC
58148163 AGTGCACATC
Statistics
Matches: 171, Mismatches: 31, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
73 59 0.35
74 4 0.02
75 3 0.02
76 104 0.61
77 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.34
Consensus pattern (76 bp):
GTCAGTTTATCTGACTAGCGTTGGACGCAAATATTTGTCGATTTATTCGACTAGTGCTGGGCACA
CAGTTAATATC
Found at i:58159973 original size:33 final size:32
Alignment explanation
Indices: 58159901--58160012 Score: 91
Period size: 33 Copynumber: 3.4 Consensus size: 32
58159891 CATAGTCCAA
* ** *
58159901 CTATGGTCTTACA-CATGCATTGCCATGGCCCTG
1 CTATGGTCTTACATCA-G-AATGCCATAACCCAG
* ** *
58159934 CCATGGTCTTACATTTGTAGTGCCATAACCCAG
1 CTATGGTCTTACATCAG-AATGCCATAACCCAG
* *
58159967 TTATGGTCTTATCATCAGAATGCCATAGCCCAG
1 CTATGGTCTTA-CATCAGAATGCCATAACCCAG
58160000 CTATGGTCTTACA
1 CTATGGTCTTACA
58160013 CATGTATCTA
Statistics
Matches: 62, Mismatches: 15, Indels: 5
0.76 0.18 0.06
Matches are distributed among these distances:
32 2 0.03
33 56 0.90
34 4 0.06
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (32 bp):
CTATGGTCTTACATCAGAATGCCATAACCCAG
Found at i:58162796 original size:4 final size:4
Alignment explanation
Indices: 58162787--58162811 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
58162777 ACATGTGTAG
58162787 TAAT TAAT TAAT TAAT TAAT TAAT T
1 TAAT TAAT TAAT TAAT TAAT TAAT T
58162812 TATGAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (4 bp):
TAAT
Found at i:58163291 original size:8 final size:8
Alignment explanation
Indices: 58163278--58163303 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
58163268 AGTTTCACAT
58163278 ATCAATTC
1 ATCAATTC
58163286 ATCAATTC
1 ATCAATTC
58163294 ATCAATTC
1 ATCAATTC
58163302 AT
1 AT
58163304 ATCTCATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.38, C:0.23, G:0.00, T:0.38
Consensus pattern (8 bp):
ATCAATTC
Found at i:58163367 original size:15 final size:14
Alignment explanation
Indices: 58163309--58163367 Score: 50
Period size: 13 Copynumber: 4.1 Consensus size: 14
58163299 TTCATATCTC
58163309 ATTTCTCATCTCAT
1 ATTTCTCATCTCAT
* *
58163323 A-ATCAT-TTCTCAT
1 ATTTC-TCATCTCAT
*
58163336 ATTTCTCATTTCAAT
1 ATTTCTCATCTC-AT
58163351 ATTTGCTCATCTCAT
1 ATTT-CTCATCTCAT
58163366 AT
1 AT
58163368 CGTTTATCAT
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
13 10 0.29
14 7 0.21
15 10 0.29
16 7 0.21
ACGTcount: A:0.25, C:0.24, G:0.02, T:0.49
Consensus pattern (14 bp):
ATTTCTCATCTCAT
Found at i:58163393 original size:42 final size:42
Alignment explanation
Indices: 58163309--58163394 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 42
58163299 TTCATATCTC
*
58163309 ATTTCTCATCTCATAATCATTTCTCATATTTCTCATTTCAAT
1 ATTTCTCATCTCATAATCATTTATCATATTTCTCATTTCAAT
* * *
58163351 ATTTGCTCATCTCAT-ATCGTTTATCATCTTTTTCATTTCAAT
1 ATTT-CTCATCTCATAATCATTTATCATATTTCTCATTTCAAT
58163393 AT
1 AT
58163395 CAATCAGATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
42 29 0.74
43 10 0.26
ACGTcount: A:0.24, C:0.22, G:0.02, T:0.51
Consensus pattern (42 bp):
ATTTCTCATCTCATAATCATTTATCATATTTCTCATTTCAAT
Found at i:58164628 original size:9 final size:9
Alignment explanation
Indices: 58164592--58164648 Score: 50
Period size: 9 Copynumber: 6.7 Consensus size: 9
58164582 ACTTTATTTC
58164592 TATT-TCTT
1 TATTATCTT
*
58164600 TATTATGTT
1 TATTATCTT
*
58164609 T-TCAT-TT
1 TATTATCTT
58164616 TATTATCTT
1 TATTATCTT
58164625 TATTAT-TAT
1 TATTATCT-T
*
58164634 TATTATCAT
1 TATTATCTT
58164643 TATTAT
1 TATTAT
58164649 TAAAGTTACT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
7 3 0.08
8 11 0.28
9 26 0.65
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.67
Consensus pattern (9 bp):
TATTATCTT
Found at i:58166757 original size:25 final size:26
Alignment explanation
Indices: 58166710--58166758 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
58166700 CATGTACTAT
*
58166710 TTATTTAATATTTTTTTACATATCAC
1 TTATTTAATATTGTTTTACATATCAC
*
58166736 TTATTTAA-ATTGTTTTATATATC
1 TTATTTAATATTGTTTTACATATC
58166759 TATTCTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 13 0.62
26 8 0.38
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.59
Consensus pattern (26 bp):
TTATTTAATATTGTTTTACATATCAC
Found at i:58166825 original size:12 final size:12
Alignment explanation
Indices: 58166808--58166840 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
58166798 CAATTTTTTG
58166808 TATATATTATTA
1 TATATATTATTA
58166820 TATATATTATTA
1 TATATATTATTA
*
58166832 TTTATATTA
1 TATATATTA
58166841 GGATTACCAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TATATATTATTA
Found at i:58168312 original size:13 final size:13
Alignment explanation
Indices: 58168286--58168321 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
58168276 GCGCATGAAT
58168286 ATAAAAATAA-AA
1 ATAAAAATAATAA
58168298 ATAAAAATAATAA
1 ATAAAAATAATAA
*
58168311 ATAATAATAAT
1 ATAAAAATAAT
58168322 GATACAAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 10 0.45
13 12 0.55
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (13 bp):
ATAAAAATAATAA
Found at i:58168321 original size:6 final size:6
Alignment explanation
Indices: 58168286--58168320 Score: 52
Period size: 6 Copynumber: 5.7 Consensus size: 6
58168276 GCGCATGAAT
*
58168286 ATAAAA ATAAAA ATAAAA ATAATAA ATAATA ATAA
1 ATAAAA ATAAAA ATAAAA ATAA-AA ATAAAA ATAA
58168321 TGATACAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (6 bp):
ATAAAA
Found at i:58168549 original size:23 final size:23
Alignment explanation
Indices: 58168523--58168567 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
58168513 AAGAAATTTA
* *
58168523 AAATCAACAATATACAAATCAAT
1 AAATAAACAATACACAAATCAAT
**
58168546 AAATAAATTATACACAAATCAA
1 AAATAAACAATACACAAATCAA
58168568 CAAAATAAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.22
Consensus pattern (23 bp):
AAATAAACAATACACAAATCAAT
Found at i:58168797 original size:19 final size:19
Alignment explanation
Indices: 58168773--58168826 Score: 99
Period size: 19 Copynumber: 2.8 Consensus size: 19
58168763 AATCATATCT
58168773 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
58168792 TCTAAGATTACATATCATA
1 TCTAAGATTGCATATCATA
58168811 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
58168827 CTTGAAGATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.37, C:0.17, G:0.09, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:58168822 original size:38 final size:40
Alignment explanation
Indices: 58168750--58168826 Score: 113
Period size: 38 Copynumber: 1.9 Consensus size: 40
58168740 AAATTAAATC
58168750 TCTAAGATTACAAAATCATATCTTCTAAGATTGCATATCATA
1 TCTAAGATTACAAAATCATA--TTCTAAGATTGCATATCATA
*
58168792 TCTAAGATTAC-ATATCATA-TCTAAGATTGCATATC
1 TCTAAGATTACAAAATCATATTCTAAGATTGCATATC
58168827 CTTGAAGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
38 16 0.47
41 7 0.21
42 11 0.32
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (40 bp):
TCTAAGATTACAAAATCATATTCTAAGATTGCATATCATA
Found at i:58169755 original size:88 final size:88
Alignment explanation
Indices: 58169486--58170153 Score: 718
Period size: 88 Copynumber: 7.6 Consensus size: 88
58169476 ATAAGATTGA
* ** * * * * * * *
58169486 TGTCTTCGATCTGCTTCATTGCCAGTATAGGAAGGTAAGATCTACTATTTTGAACCTACTCCACT
1 TGTCTTTGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCT
** * * *
58169551 GC-TGCTCAGGGAGACAAGGCCGA
66 GCAACCT-AGGGAGGCAAGGCTGG
* * * * ** * *
58169574 AGT-TTTCGATCTACTTCGCTGCCGGTACAGGAAGGCAAGATCTGCAATCTTCAGTCTG-TTCAC
1 TGTCTTT-GATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGC
**
58169637 TGCAACCTAGGGAGGCAAGATTGG
65 TGCAACCTAGGGAGGCAAGGCTGG
* * *
58169661 TGTCTTTGATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCT
1 TGTCTTTGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCT
58169726 GCAACCTAGGGAGGCAAGGCTGG
66 GCAACCTAGGGAGGCAAGGCTGG
* * * * **
58169749 TGTCTTTGATCTGCTTCGTTG-CTGATACAAGAAGGCAAGACCTGCTATCTTCAGTCTGCTCCGC
1 TGTCTTTGATCTGCTTCGCTGCCAG-TACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGC
*
58169813 TGCAACCTAGGGAGGCAAGACTGG
65 TGCAACCTAGGGAGGCAAGGCTGG
* * * * ** *
58169837 TGTATTTGATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTGCTATTTTCAAATTGCCCCGCT
1 TGTCTTTGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCT
* *
58169902 GTAACCTAGGGAGGCAAGGCTAG
66 GCAACCTAGGGAGGCAAGGCTGG
* * * **
58169925 TGTATTTGATCTGCTTCGTTG-CAGGTACAAGAAGGCAAGATCTGCTATCTTCAGTCTGCTCCGC
1 TGTCTTTGATCTGCTTCGCTGCCA-GTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGC
*
58169989 TGCAACCTAGGGAGGCAAGACTGG
65 TGCAACCTAGGGAGGCAAGGCTGG
* * *
58170013 TGTCTTTGATCTACTTCGCTGTCAGTACAGGAAGGCAAGATCTACTA-CTTTCAACCTGCTCCGC
1 TGTCTTTGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATC-TTCAACCTGCTCCGC
* * **
58170077 TGCAACCCAAGGAAACAAGGCTGG
65 TGCAACCTAGGGAGGCAAGGCTGG
* *
58170101 TGTCTTTGATCTGCTTCACTGCCTGTACAGGAAGGCAAGATCTGCTATCTTCA
1 TGTCTTTGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCA
58170154 CTGATCTATT
Statistics
Matches: 483, Mismatches: 87, Indels: 20
0.82 0.15 0.03
Matches are distributed among these distances:
87 70 0.14
88 408 0.84
89 5 0.01
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (88 bp):
TGTCTTTGATCTGCTTCGCTGCCAGTACAGGAAGGCAAGATCTGCTATCTTCAACCTGCTCCGCT
GCAACCTAGGGAGGCAAGGCTGG
Found at i:58169868 original size:176 final size:176
Alignment explanation
Indices: 58169486--58170153 Score: 885
Period size: 176 Copynumber: 3.8 Consensus size: 176
58169476 ATAAGATTGA
* ** * * * * *
58169486 TGTCTTCGATCTGCTTCATTGCCAGTATAGGAAGGTAAGATCTACTATTTTGAACCTACTCCACT
1 TGTCTTTGATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTACTATTTTCAACCTGCTCCGCT
** * ** * * *
58169551 GC-TGCTCAGGGAGACAAGGCCGAAGT-TTTCGATCTACTTCGCTGCCGGTACAGGAAGGCAAGA
66 GCAACCT-AGGGAGACAAGGCTGGTGTCTTT-GATCTGCTTCGCTGCTGGTACAAGAAGGCAAGA
* * * *
58169614 TCTGCAATCTTCAGTCTG-TTCACTGCAACCTAGGGAGGCAAGATTGG
129 TCTGCTATCTTCAGTCTGCTCCGCTGCAACCTAGGGAGGCAAGACTGG
*
58169661 TGTCTTTGATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTGCTATTTTCAACCTGCTCCGCT
1 TGTCTTTGATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTACTATTTTCAACCTGCTCCGCT
* * * *
58169726 GCAACCTAGGGAGGCAAGGCTGGTGTCTTTGATCTGCTTCGTTGCTGATACAAGAAGGCAAGACC
66 GCAACCTAGGGAGACAAGGCTGGTGTCTTTGATCTGCTTCGCTGCTGGTACAAGAAGGCAAGATC
58169791 TGCTATCTTCAGTCTGCTCCGCTGCAACCTAGGGAGGCAAGACTGG
131 TGCTATCTTCAGTCTGCTCCGCTGCAACCTAGGGAGGCAAGACTGG
* * ** *
58169837 TGTATTTGATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTGCTATTTTCAAATTGCCCCGCT
1 TGTCTTTGATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTACTATTTTCAACCTGCTCCGCT
* * * * * *
58169902 GTAACCTAGGGAGGCAAGGCTAGTGTATTTGATCTGCTTCGTTGCAGGTACAAGAAGGCAAGATC
66 GCAACCTAGGGAGACAAGGCTGGTGTCTTTGATCTGCTTCGCTGCTGGTACAAGAAGGCAAGATC
58169967 TGCTATCTTCAGTCTGCTCCGCTGCAACCTAGGGAGGCAAGACTGG
131 TGCTATCTTCAGTCTGCTCCGCTGCAACCTAGGGAGGCAAGACTGG
* * *
58170013 TGTCTTTGATCTACTTCGCTGTCAGTACAGGAAGGCAAGATCTACTACTTTCAACCTGCTCCGCT
1 TGTCTTTGATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTACTATTTTCAACCTGCTCCGCT
* * * * *
58170078 GCAACCCAAGGAAACAAGGCTGGTGTCTTTGATCTGCTTCACTGCCT-GTACAGGAAGGCAAGAT
66 GCAACCTAGGGAGACAAGGCTGGTGTCTTTGATCTGCTTCGCTG-CTGGTACAAGAAGGCAAGAT
58170142 CTGCTATCTTCA
130 CTGCTATCTTCA
58170154 CTGATCTATT
Statistics
Matches: 435, Mismatches: 54, Indels: 7
0.88 0.11 0.01
Matches are distributed among these distances:
175 117 0.27
176 317 0.73
177 1 0.00
ACGTcount: A:0.23, C:0.24, G:0.25, T:0.28
Consensus pattern (176 bp):
TGTCTTTGATCTGCTTCGCTGTCAGTATAGGAAGGCAAGATCTACTATTTTCAACCTGCTCCGCT
GCAACCTAGGGAGACAAGGCTGGTGTCTTTGATCTGCTTCGCTGCTGGTACAAGAAGGCAAGATC
TGCTATCTTCAGTCTGCTCCGCTGCAACCTAGGGAGGCAAGACTGG
Found at i:58176626 original size:3 final size:3
Alignment explanation
Indices: 58176618--58176655 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
58176608 GCGCATGATT
58176618 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
58176656 GATACAAGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:58176886 original size:23 final size:23
Alignment explanation
Indices: 58176860--58176904 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
58176850 AAGAAATTTG
* *
58176860 AAATCAACAATATACAAATCAAT
1 AAATAAACAATACACAAATCAAT
**
58176883 AAATAAATTATACACAAATCAA
1 AAATAAACAATACACAAATCAA
58176905 CAAAATAAGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.62, C:0.16, G:0.00, T:0.22
Consensus pattern (23 bp):
AAATAAACAATACACAAATCAAT
Done.