Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 5 of 182
Found at i:1485598 original size:9 final size:9
Alignment explanation
Indices: 1485575--1485741 Score: 154
Period size: 9 Copynumber: 17.6 Consensus size: 9
1485565 ATTGATCATT
*
1485575 ACTTAAATA
1 ACTTACATA
*
1485584 AATTACATA
1 ACTTACATA
1485593 ACTTACATA
1 ACTTACATA
* *
1485602 ACTCATATA
1 ACTTACATA
1485611 ACTTACATA
1 ACTTACATA
*
1485620 ATTTACATAACA
1 ACTTACAT---A
1485632 ACTTACATA
1 ACTTACATA
*
1485641 ACTCACATA
1 ACTTACATA
1485650 ACTTACATA
1 ACTTACATA
*
1485659 ATTTACATAACA
1 ACTTACAT---A
1485671 ACTTACATA
1 ACTTACATA
*
1485680 ACTCACATA
1 ACTTACATA
1485689 ACTTACATA
1 ACTTACATA
*
1485698 ATTTACATA
1 ACTTACATA
*
1485707 ACTCACATA
1 ACTTACATA
*
1485716 ACGTACATAACA
1 ACTTACAT---A
1485728 ACTTACATA
1 ACTTACATA
1485737 ACTTA
1 ACTTA
1485742 ACTAATACAT
Statistics
Matches: 128, Mismatches: 21, Indels: 18
0.77 0.13 0.11
Matches are distributed among these distances:
9 104 0.81
12 24 0.19
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.31
Consensus pattern (9 bp):
ACTTACATA
Found at i:1485644 original size:39 final size:39
Alignment explanation
Indices: 1485592--1485708 Score: 225
Period size: 39 Copynumber: 3.0 Consensus size: 39
1485582 TAAATTACAT
*
1485592 AACTTACATAACTCATATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1485631 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1485670 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
1485709 TCACATAACG
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:1485665 original size:48 final size:47
Alignment explanation
Indices: 1485586--1485741 Score: 186
Period size: 48 Copynumber: 3.3 Consensus size: 47
1485576 CTTAAATAAA
* * *
1485586 TTACATAACTTACATAACTCATATAACTTACATAATTTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAA-CTACATAACAAC
* * * * *
1485634 TTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAAC
1 TTACATAACTTACATAACTTACATAACTTACATAACTACATA-ACAAC
* * *
1485682 TCACATAACTTACATAATTTACATAACTCACATAACGTACATAACAAC
1 TTACATAACTTACATAACTTACATAACTTACATAAC-TACATAACAAC
1485730 TTACATAACTTA
1 TTACATAACTTA
1485742 ACTAATACAT
Statistics
Matches: 89, Mismatches: 17, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
47 4 0.04
48 81 0.91
49 4 0.04
ACGTcount: A:0.46, C:0.22, G:0.01, T:0.31
Consensus pattern (47 bp):
TTACATAACTTACATAACTTACATAACTTACATAACTACATAACAAC
Found at i:1485727 original size:57 final size:57
Alignment explanation
Indices: 1485575--1485739 Score: 192
Period size: 57 Copynumber: 2.9 Consensus size: 57
1485565 ATTGATCATT
* * * *
1485575 ACTTAAATAAATTACATAACTTACATAACT-CAT-ATAACTTACATAATTTACATAACA
1 ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAACTCACAT-A-A
* * *
1485632 ACTTACATAACTCACATAACTTACATAATTTACATAACAACTTACATAACTCACAT-A
1 ACTTACATAAATTACATAACTTACATAA-CTACATAACAACTTACATAACTCACATAA
* *
1485689 ACTTACATAATTTACATAACTCACATAACGTACATAACAACTTACATAACT
1 ACTTACATAAATTACATAACTTACATAAC-TACATAACAACTTACATAACT
1485740 TAACTAATAC
Statistics
Matches: 93, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
57 72 0.77
58 1 0.01
59 3 0.03
60 17 0.18
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.31
Consensus pattern (57 bp):
ACTTACATAAATTACATAACTTACATAACTACATAACAACTTACATAACTCACATAA
Found at i:1485737 original size:39 final size:37
Alignment explanation
Indices: 1485575--1485726 Score: 202
Period size: 39 Copynumber: 4.1 Consensus size: 37
1485565 ATTGATCATT
* * *
1485575 ACTTAAATAAATTACAT-AACTTACATAACTCATATA
1 ACTTACATAATTTACATAAACTTACATAACTCACATA
1485611 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
1485650 ACTTACATAATTTACATAACAACTTACATAACTCACATA
1 ACTTACATAATTTACAT-A-AACTTACATAACTCACATA
*
1485689 ACTTACATAATTTACAT-AACTCACATAACGT-ACATA
1 ACTTACATAATTTACATAAACTTACATAAC-TCACATA
1485725 AC
1 AC
1485727 AACTTACATA
Statistics
Matches: 108, Mismatches: 4, Indels: 8
0.90 0.03 0.07
Matches are distributed among these distances:
36 33 0.31
37 1 0.01
39 74 0.69
ACGTcount: A:0.47, C:0.22, G:0.01, T:0.31
Consensus pattern (37 bp):
ACTTACATAATTTACATAAACTTACATAACTCACATA
Found at i:1491313 original size:21 final size:21
Alignment explanation
Indices: 1491287--1491330 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1491277 TCAACTTAGA
1491287 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
1491308 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
1491329 GC
1 GC
1491331 AGAGAAGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.23, C:0.20, G:0.57, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:1492636 original size:8 final size:8
Alignment explanation
Indices: 1492625--1492672 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
1492615 CTTTATATAC
1492625 TAATAAAA
1 TAATAAAA
1492633 TAATAAAA
1 TAATAAAA
*
1492641 TAATAAAT
1 TAATAAAA
*
1492649 TATTAAAATA
1 TAAT-AAA-A
1492659 TTAATAAAA
1 -TAATAAAA
1492668 TAATA
1 TAATA
1492673 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
8 23 0.70
9 4 0.12
10 3 0.09
11 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (8 bp):
TAATAAAA
Found at i:1492693 original size:16 final size:16
Alignment explanation
Indices: 1492669--1492741 Score: 55
Period size: 16 Copynumber: 4.6 Consensus size: 16
1492659 TTAATAAAAT
*
1492669 AATATTTATCTAATTA
1 AATAATTATCTAATTA
*
1492685 AATAATTATACTTA-TA
1 AATAATTAT-CTAATTA
*
1492701 AA-AA-TAT-TAATAA
1 AATAATTATCTAATTA
1492714 AATAATATTTATCTAATTA
1 AAT-A-A-TTATCTAATTA
1492733 AATAATTAT
1 AATAATTAT
1492742 AAAATATCAA
Statistics
Matches: 44, Mismatches: 5, Indels: 16
0.68 0.08 0.25
Matches are distributed among these distances:
12 2 0.05
13 3 0.07
14 3 0.07
15 3 0.07
16 17 0.39
17 4 0.09
18 4 0.09
19 8 0.18
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (16 bp):
AATAATTATCTAATTA
Found at i:1492710 original size:48 final size:48
Alignment explanation
Indices: 1492648--1492742 Score: 181
Period size: 48 Copynumber: 2.0 Consensus size: 48
1492638 AAATAATAAA
*
1492648 TTATTAAAATATTAATAAAATAATATTTATCTAATTAAATAATTATAC
1 TTATAAAAATATTAATAAAATAATATTTATCTAATTAAATAATTATAC
1492696 TTATAAAAATATTAATAAAATAATATTTATCTAATTAAATAATTATA
1 TTATAAAAATATTAATAAAATAATATTTATCTAATTAAATAATTATA
1492743 AAATATCAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (48 bp):
TTATAAAAATATTAATAAAATAATATTTATCTAATTAAATAATTATAC
Found at i:1495940 original size:13 final size:13
Alignment explanation
Indices: 1495916--1495949 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
1495906 GGCCTTGTGT
1495916 CACACG-CCTAGA
1 CACACGCCCTAGA
1495928 CACACGCCCTAGA
1 CACACGCCCTAGA
1495941 CACACGCCC
1 CACACGCCC
1495950 GTGTGTCTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.29, C:0.50, G:0.15, T:0.06
Consensus pattern (13 bp):
CACACGCCCTAGA
Found at i:1496761 original size:47 final size:48
Alignment explanation
Indices: 1496692--1496826 Score: 166
Period size: 49 Copynumber: 2.8 Consensus size: 48
1496682 GGCGTAATGC
* * * * *
1496692 CGATGCCATTTCCCAAACATGGTCTTACACTGGCTCATC-CATCAAGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAAATCAAGG
* *
1496739 CGATGCCATGTCCTAGACATGGTCTTACATTGACT-ATCAAAATCAAGG
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATC-AAATCAAGG
*
1496787 CTGACGCCATGTCCCAGACATGGTCTTACACTGACTCATC
1 C-GATGCCATGTCCCAGACATGGTCTTACACTGACTCATC
1496827 TCGTAGCTGA
Statistics
Matches: 74, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
46 3 0.04
47 30 0.41
48 7 0.09
49 31 0.42
50 3 0.04
ACGTcount: A:0.27, C:0.30, G:0.17, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCATCAAATCAAGG
Found at i:1496806 original size:49 final size:47
Alignment explanation
Indices: 1496696--1496862 Score: 157
Period size: 49 Copynumber: 3.6 Consensus size: 47
1496686 TAATGCCGAT
* * * * * *
1496696 GCCATTTCCCAAACATGGTCTTACACTGGCTCATCCATCAAGTCGAT
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGGCGAC
* *
1496743 GCCATGTCCTAGACATGGTCTTACATTGACT-ATCAAAATCAAGGCTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATC--AATCAAGGC-GAC
*
1496792 GCCATGTCCCAGACATGGTCTTACACTGACTCATC--TCGTA-GCTGAC
1 GCCATGTCCCAGACATGGTCTTACACTGACTCATCAATC-AAGGC-GAC
*
1496838 G-CTTGTCCCAGACAT-GTCTTACACT
1 GCCATGTCCCAGACATGGTCTTACACT
1496863 AGCTTCATCA
Statistics
Matches: 103, Mismatches: 12, Indels: 13
0.80 0.09 0.10
Matches are distributed among these distances:
44 10 0.10
45 13 0.13
46 12 0.12
47 27 0.26
48 7 0.07
49 31 0.30
50 3 0.03
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (47 bp):
GCCATGTCCCAGACATGGTCTTACACTGACTCATCAATCAAGGCGAC
Found at i:1496871 original size:45 final size:45
Alignment explanation
Indices: 1496784--1497000 Score: 145
Period size: 45 Copynumber: 4.7 Consensus size: 45
1496774 ATCAAAATCA
*
1496784 AGGCTGACGCCATGTCCCAGACATGGTCTTACACT-GAC-TCATCTCG
1 AGGCTGACG-CATGTCCCAGACAT-GTCTTACACTAG-CTTCATCACG
*
1496830 TA-GCTGACGCTTGTCCCAGACATGTCTTACACTAGCTTCATCACG
1 -AGGCTGACGCATGTCCCAGACATGTCTTACACTAGCTTCATCACG
* * * ** * *
1496875 AGGCCGATGCATGTGCCAGACATGTCTTA-ACTAGCTCTTGTCTCA
1 AGGCTGACGCATGTCCCAGACATGTCTTACACTAGCT-TCATCACG
** * * * * *
1496920 ATCCCGATGCCATGTCCTAGACATGATCTTACACTAGCTCTCATAATG
1 AGGCTGACG-CATGTCCCAGACATG-TCTTACACTAGCT-TCATCACG
* * * * *
1496968 TGGCTGATGTAAGTCCTAGACATGTCTTACACT
1 AGGCTGACGCATGTCCCAGACATGTCTTACACT
1497001 GGCGCACGAA
Statistics
Matches: 137, Mismatches: 26, Indels: 15
0.77 0.15 0.08
Matches are distributed among these distances:
44 19 0.14
45 55 0.40
46 29 0.21
47 19 0.14
48 15 0.11
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.29
Consensus pattern (45 bp):
AGGCTGACGCATGTCCCAGACATGTCTTACACTAGCTTCATCACG
Found at i:1498515 original size:21 final size:21
Alignment explanation
Indices: 1498490--1498530 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1498480 TTAGAATGTA
1498490 AAAATTAAACTAAAAA-AAAAT
1 AAAATTAAA-TAAAAATAAAAT
*
1498511 AAAATTCAATAAAAATAAAA
1 AAAATTAAATAAAAATAAAA
1498531 GGCTAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.76, C:0.05, G:0.00, T:0.20
Consensus pattern (21 bp):
AAAATTAAATAAAAATAAAAT
Found at i:1499646 original size:30 final size:30
Alignment explanation
Indices: 1499605--1499682 Score: 111
Period size: 30 Copynumber: 2.6 Consensus size: 30
1499595 CATGGGCTAG
* *
1499605 CACATGGACATGTGGCCAGCCCATGTGGCT
1 CACACGGACATGTGGCCAGCCCATGTAGCT
**
1499635 CACACGGACATGAAGCCAGCCCATGTAGCT
1 CACACGGACATGTGGCCAGCCCATGTAGCT
*
1499665 CACACGGGCATGTGGCCA
1 CACACGGACATGTGGCCA
1499683 ACCCTTGAGG
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 41 1.00
ACGTcount: A:0.24, C:0.32, G:0.28, T:0.15
Consensus pattern (30 bp):
CACACGGACATGTGGCCAGCCCATGTAGCT
Found at i:1503761 original size:33 final size:33
Alignment explanation
Indices: 1503719--1503786 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
1503709 TTTAACCCTC
1503719 AGCTACCTTAGAAGATTAAACATGCACTGATTA
1 AGCTACCTTAGAAGATTAAACATGCACTGATTA
1503752 AGCTACCTTAGAAGATTAAACATGCACTGATTA
1 AGCTACCTTAGAAGATTAAACATGCACTGATTA
1503785 AG
1 AG
1503787 TATTGTATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (33 bp):
AGCTACCTTAGAAGATTAAACATGCACTGATTA
Found at i:1505744 original size:6 final size:6
Alignment explanation
Indices: 1505728--1505783 Score: 51
Period size: 6 Copynumber: 9.5 Consensus size: 6
1505718 GAAGTTTAAC
* * * * * *
1505728 AAAAA- AAAACT AAAACT AAAAAT AAAAGT ACAACT ACAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1505775 AAAAAT AAA
1 AAAAAT AAA
1505784 TACAAACAGA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
5 4 0.09
6 39 0.91
ACGTcount: A:0.75, C:0.09, G:0.02, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:1505754 original size:18 final size:18
Alignment explanation
Indices: 1505728--1505783 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
1505718 GAAGTTTAAC
*
1505728 AAAAA-AAAACTAAAACT
1 AAAAATAAAAATAAAACT
* *
1505745 AAAAATAAAAGTACAACT
1 AAAAATAAAAATAAAACT
* *
1505763 ACAAATAAAAATAAAAAT
1 AAAAATAAAAATAAAACT
1505781 AAA
1 AAA
1505784 TACAAACAGA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
17 5 0.16
18 26 0.84
ACGTcount: A:0.75, C:0.09, G:0.02, T:0.14
Consensus pattern (18 bp):
AAAAATAAAAATAAAACT
Found at i:1511014 original size:15 final size:15
Alignment explanation
Indices: 1510994--1511022 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1510984 ATGCCATACA
1510994 CACCGTGTTATCAAT
1 CACCGTGTTATCAAT
1511009 CACCGTGTTATCAA
1 CACCGTGTTATCAA
1511023 GCAACAATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.31
Consensus pattern (15 bp):
CACCGTGTTATCAAT
Found at i:1514116 original size:13 final size:13
Alignment explanation
Indices: 1514098--1514123 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1514088 CTGTGCACCC
1514098 TTAATTAGTTTAG
1 TTAATTAGTTTAG
1514111 TTAATTAGTTTAG
1 TTAATTAGTTTAG
1514124 ATAAACAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (13 bp):
TTAATTAGTTTAG
Found at i:1517314 original size:13 final size:13
Alignment explanation
Indices: 1517296--1517345 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
1517286 TACGGGAGGA
*
1517296 GACACGGTCGTGC
1 GACACGGCCGTGC
1517309 GACACGGCCGTGC
1 GACACGGCCGTGC
1517322 GACACGGCCGTGC
1 GACACGGCCGTGC
* *
1517335 AACACGACCGT
1 GACACGGCCGT
1517346 ATGAAAACAG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 34 1.00
ACGTcount: A:0.20, C:0.36, G:0.34, T:0.10
Consensus pattern (13 bp):
GACACGGCCGTGC
Found at i:1525836 original size:46 final size:46
Alignment explanation
Indices: 1525769--1525941 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
1525759 AACCCGCCCC
* * *
1525769 TAAGTGAACTCGGACTCAACTCAACAAGGTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
* *
1525815 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATACCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--A-C--GTTCGCATCCA
* * *
1525863 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
1525908 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1525942 TGCTCAACCA
Statistics
Matches: 106, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 3 0.03
46 60 0.57
47 28 0.26
48 2 0.02
49 1 0.01
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCATCCA
Found at i:1525902 original size:93 final size:93
Alignment explanation
Indices: 1525774--1525942 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 93
1525764 GCCCCTAAGT
* *
1525774 GAACTCGGACTCAACTCAACAAGGTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGGTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1525839 CGAGTTCGGATACCTAGTTACATTTCAC
66 CGAGTTCGGATACCTAGTTACATTTCAC
* *
1525867 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACAAGGTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1525932 CGAGTTCGGAT
66 CGAGTTCGGAT
1525943 GCTCAACCAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACAAGGTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATACCTAGTTACATTTCAC
Found at i:1529218 original size:46 final size:46
Alignment explanation
Indices: 1529151--1529371 Score: 293
Period size: 46 Copynumber: 4.8 Consensus size: 46
1529141 TGTAACCCGC
*
1529151 CCATAAGTGAACTTGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1529197 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* * *
1529243 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCGTTCGCAT
* *** * * *
1529289 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
1529336 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
1529372 ATATCCAAAT
Statistics
Matches: 153, Mismatches: 17, Indels: 10
0.85 0.09 0.06
Matches are distributed among these distances:
45 1 0.01
46 116 0.76
47 34 0.22
48 2 0.01
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:1529340 original size:93 final size:93
Alignment explanation
Indices: 1529205--1529373 Score: 302
Period size: 93 Copynumber: 1.8 Consensus size: 93
1529195 ATCCATAAGT
* *
1529205 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1529270 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
1529298 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
1529363 CGAGTTCGGAT
66 CGAGCTCGGAT
1529374 ATCCAAATAT
Statistics
Matches: 72, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:1543495 original size:6 final size:6
Alignment explanation
Indices: 1543473--1543560 Score: 74
Period size: 6 Copynumber: 14.3 Consensus size: 6
1543463 AATAAAGTTC
**
1543473 AAAATA GAAAA-A CAAAATA AAAATA AAAAT- AAAAGG AAAATA AAAATA
1 AAAATA -AAAATA -AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
* *
1543521 AAAATA AAGATAAA AAAATA AAAA-A AAACATA AAGATA AA
1 AAAATA AA-A-ATA AAAATA AAAATA AAA-ATA AAAATA AA
1543561 TAGACTCAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 13
0.77 0.08 0.15
Matches are distributed among these distances:
5 8 0.12
6 46 0.68
7 10 0.15
8 4 0.06
ACGTcount: A:0.80, C:0.02, G:0.06, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:1543512 original size:23 final size:22
Alignment explanation
Indices: 1543481--1543548 Score: 88
Period size: 23 Copynumber: 3.2 Consensus size: 22
1543471 TCAAAATAGA
*
1543481 AAAACAAAATAAAAATAAAAAT
1 AAAAGAAAATAAAAATAAAAAT
1543503 AAAAGGAAAATAAAAATAAAAAT
1 AAAA-GAAAATAAAAATAAAAAT
*
1543526 -AAAGATAA-AAAAATAAAAA-
1 AAAAGAAAATAAAAATAAAAAT
1543545 AAAA
1 AAAA
1543549 CATAAAGATA
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
20 14 0.33
21 4 0.10
22 7 0.17
23 17 0.40
ACGTcount: A:0.82, C:0.01, G:0.04, T:0.12
Consensus pattern (22 bp):
AAAAGAAAATAAAAATAAAAAT
Found at i:1543553 original size:26 final size:26
Alignment explanation
Indices: 1543486--1543560 Score: 98
Period size: 26 Copynumber: 2.8 Consensus size: 26
1543476 ATAGAAAAAC
*
1543486 AAAATAAAAATAAAAATAAAAGGAAAATA
1 AAAATAAAAATAAAGAT-AAA--AAAATA
1543515 AAAATAAAAATAAAGATAAAAAAATA
1 AAAATAAAAATAAAGATAAAAAAATA
1543541 AAAA-AAAACATAAAGATAAA
1 AAAATAAAA-ATAAAGATAAA
1543561 TAGACTCAAT
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
25 4 0.09
26 21 0.48
28 3 0.07
29 16 0.36
ACGTcount: A:0.80, C:0.01, G:0.05, T:0.13
Consensus pattern (26 bp):
AAAATAAAAATAAAGATAAAAAAATA
Found at i:1545290 original size:22 final size:22
Alignment explanation
Indices: 1545250--1545308 Score: 59
Period size: 23 Copynumber: 2.6 Consensus size: 22
1545240 GTAGAAGAGA
* *
1545250 AAATAAATAAACTAAAA-ATTTG
1 AAATAAATAAAATAAAATA-ATG
1545272 AAATAAAATAAAATAAAATAATG
1 AAAT-AAATAAAATAAAATAATG
1545295 AAATTAAA-AAAATA
1 AAA-TAAATAAAATA
1545309 CTAAACCAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
22 10 0.31
23 20 0.62
24 2 0.06
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.24
Consensus pattern (22 bp):
AAATAAATAAAATAAAATAATG
Found at i:1545463 original size:8 final size:8
Alignment explanation
Indices: 1545450--1545478 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
1545440 GCTTGTGCGT
1545450 GTGGGTGC
1 GTGGGTGC
1545458 GTGGGTGC
1 GTGGGTGC
1545466 GTGGGTGC
1 GTGGGTGC
1545474 GTGGG
1 GTGGG
1545479 AAAGGGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.10, G:0.66, T:0.24
Consensus pattern (8 bp):
GTGGGTGC
Found at i:1548486 original size:31 final size:31
Alignment explanation
Indices: 1548443--1548508 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
1548433 AACCCTTCCT
*
1548443 ACATTAAATCCAACCAAAAACAGCAAATATA
1 ACATGAAATCCAACCAAAAACAGCAAATATA
* *
1548474 ACATGAAATCCAACCAAAAATAGCAAATGTA
1 ACATGAAATCCAACCAAAAACAGCAAATATA
1548505 ACAT
1 ACAT
1548509 AAAAAATACA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.56, C:0.21, G:0.06, T:0.17
Consensus pattern (31 bp):
ACATGAAATCCAACCAAAAACAGCAAATATA
Found at i:1549229 original size:13 final size:14
Alignment explanation
Indices: 1549203--1549234 Score: 57
Period size: 13 Copynumber: 2.4 Consensus size: 14
1549193 ACTAACGACA
1549203 AATTAAACCATTAT
1 AATTAAACCATTAT
1549217 AATTAAA-CATTAT
1 AATTAAACCATTAT
1549230 AATTA
1 AATTA
1549235 TTTATAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.61
14 7 0.39
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:1552776 original size:7 final size:7
Alignment explanation
Indices: 1552764--1552834 Score: 65
Period size: 8 Copynumber: 9.9 Consensus size: 7
1552754 CCTCTCCATT
1552764 TTTTTTC
1 TTTTTTC
1552771 TTTTTTCTC
1 -TTTTT-TC
1552780 TTTTTTC
1 TTTTTTC
*
1552787 TTTTTATT
1 TTTTT-TC
1552795 TTTTTTC
1 TTTTTTC
1552802 TCTTTTTC
1 T-TTTTTC
*
1552810 TTTTCT-
1 TTTTTTC
1552816 TTTTTTC
1 TTTTTTC
*
1552823 -CTTTTC
1 TTTTTTC
1552829 TTTTTT
1 TTTTTT
1552835 TTGAAATAGA
Statistics
Matches: 52, Mismatches: 6, Indels: 11
0.75 0.09 0.16
Matches are distributed among these distances:
6 10 0.19
7 17 0.33
8 23 0.44
9 2 0.04
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTTC
Found at i:1552776 original size:9 final size:9
Alignment explanation
Indices: 1552762--1552836 Score: 59
Period size: 9 Copynumber: 8.4 Consensus size: 9
1552752 GGCCTCTCCA
1552762 TTTTTTTTC
1 TTTTTTTTC
1552771 --TTTTTTC
1 TTTTTTTTC
*
1552778 TCTTTTTTC
1 TTTTTTTTC
*
1552787 TTTTTATT-
1 TTTTTTTTC
*
1552795 TTTTTTCTC
1 TTTTTTTTC
1552804 TTTTTCTTTTC
1 -TTTT-TTTTC
*
1552815 TTTTTTTCC
1 TTTTTTTTC
1552824 TTTTCTTTT-
1 TTTT-TTTTC
1552833 TTTT
1 TTTT
1552837 GAAATAGAAG
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
7 7 0.13
8 6 0.11
9 25 0.47
10 11 0.21
11 4 0.08
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:1552790 original size:6 final size:6
Alignment explanation
Indices: 1552781--1552833 Score: 54
Period size: 6 Copynumber: 8.8 Consensus size: 6
1552771 TTTTTTCTCT
* * * *
1552781 TTTTTC TTTTTA TTTTT- TTTCTC TTTTTC TTTTCTT TTTTTC CTTTTC
1 TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTT-TC TTTTTC TTTTTC
1552829 TTTTT
1 TTTTT
1552834 TTTGAAATAG
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
5 4 0.11
6 29 0.76
7 5 0.13
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:1552790 original size:14 final size:13
Alignment explanation
Indices: 1552763--1552835 Score: 71
Period size: 13 Copynumber: 5.5 Consensus size: 13
1552753 GCCTCTCCAT
1552763 TTTTTTTCTTTTTTC
1 TTTTTTTC--TTTTC
1552778 TCTTTTTTC-TTT-
1 T-TTTTTTCTTTTC
*
1552790 TTATTTT-TTTTC
1 TTTTTTTCTTTTC
*
1552802 TCTTTTTCTTTTC
1 TTTTTTTCTTTTC
1552815 TTTTTTTCCTTTTC
1 TTTTTTT-CTTTTC
1552829 TTTTTTT
1 TTTTTTT
1552836 TGAAATAGAA
Statistics
Matches: 49, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
11 8 0.16
12 6 0.12
13 14 0.29
14 13 0.27
15 1 0.02
16 7 0.14
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.84
Consensus pattern (13 bp):
TTTTTTTCTTTTC
Found at i:1552835 original size:22 final size:21
Alignment explanation
Indices: 1552762--1552835 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 21
1552752 GGCCTCTCCA
1552762 TTTTTTTTC-TTTTTTCTCTTT
1 TTTTTTTTCTTTTTTTC-CTTT
* *
1552783 TTTCTTTTTATTTTTTTTCTCTT
1 TTT-TTTTTCTTTTTTTCCT-TT
*
1552806 TTTCTTTTCTTTTTTTCCTTT
1 TTTTTTTTCTTTTTTTCCTTT
1552827 TCTTTTTTT
1 T-TTTTTTT
1552836 TGAAATAGAA
Statistics
Matches: 43, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
21 6 0.14
22 26 0.60
23 11 0.26
ACGTcount: A:0.01, C:0.15, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTTTTTCTTTTTTTCCTTT
Found at i:1557996 original size:17 final size:17
Alignment explanation
Indices: 1557976--1558008 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
1557966 AGATTACAAA
1557976 ATCATATCTAAGATTGT
1 ATCATATCTAAGATTGT
1557993 ATCATATCTAAGATTG
1 ATCATATCTAAGATTG
1558009 CATATCATTG
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:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (17 bp):
ATCATATCTAAGATTGT
Found at i:1558014 original size:14 final size:15
Alignment explanation
Indices: 1557977--1558014 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
1557967 GATTACAAAA
1557977 TCATATCTAAGATTG
1 TCATATCTAAGATTG
1557992 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
1558009 -CATATC
1 TCATATC
1558015 ATTGAAGATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 6 0.29
17 15 0.71
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:1558173 original size:20 final size:21
Alignment explanation
Indices: 1558135--1558174 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
1558125 TTGGACTTCG
**
1558135 TTTTTTTTTTGGGGTTTATTA
1 TTTTTTTTTTGGGACTTATTA
1558156 TTTTTTTTTT-GGACTTATT
1 TTTTTTTTTTGGGACTTATT
1558175 TCTGGGCCCG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.10, C:0.03, G:0.15, T:0.72
Consensus pattern (21 bp):
TTTTTTTTTTGGGACTTATTA
Found at i:1560584 original size:39 final size:39
Alignment explanation
Indices: 1560482--1560584 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 39
1560472 CTTTTAGCAA
*
1560482 CGTTTTTACAAAAGCGCCACTAAATCTCAATCTTTTGCGG
1 CGTTTTTACAAAAGCGCCACTAATTCTCAATCTTTT-CGG
* *
1560522 CGTTTTTACAAAAGCGCCCCTAATTCTCGATCTTTAT-GG
1 CGTTTTTACAAAAGCGCCACTAATTCTCAATCTTT-TCGG
* * *
1560561 CGTTTTTAGAAAAACGCCGCTAAT
1 CGTTTTTACAAAAGCGCCACTAAT
1560585 GCCTCTAGAG
Statistics
Matches: 56, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
39 23 0.41
40 32 0.57
41 1 0.02
ACGTcount: A:0.27, C:0.24, G:0.16, T:0.33
Consensus pattern (39 bp):
CGTTTTTACAAAAGCGCCACTAATTCTCAATCTTTTCGG
Found at i:1561701 original size:38 final size:36
Alignment explanation
Indices: 1561631--1561710 Score: 117
Period size: 38 Copynumber: 2.2 Consensus size: 36
1561621 CCCAGCCCAT
*
1561631 ACCATAAACTTAACATACTATACCATTGAACCCTAA
1 ACCATAAACTTAAAATACTATACCATTGAACCCTAA
1561667 ACCATAAACTTAAAATA-TATTCTACCATTGAACCCTAA
1 ACCATAAACTTAAAATACTA---TACCATTGAACCCTAA
1561705 ACCATA
1 ACCATA
1561711 GGCCTTAAAC
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
35 2 0.05
36 16 0.40
38 22 0.55
ACGTcount: A:0.45, C:0.26, G:0.03, T:0.26
Consensus pattern (36 bp):
ACCATAAACTTAAAATACTATACCATTGAACCCTAA
Found at i:1561921 original size:14 final size:14
Alignment explanation
Indices: 1561904--1561945 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
1561894 ATGTTTTAAA
1561904 ATTTAGGGTTTAGT
1 ATTTAGGGTTTAGT
**
1561918 ATTTAATGTTTAGT
1 ATTTAGGGTTTAGT
1561932 ATTTAAGGGTTTAG
1 ATTT-AGGGTTTAG
1561946 AGAAAGCCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 16 0.70
15 7 0.30
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (14 bp):
ATTTAGGGTTTAGT
Found at i:1561929 original size:21 final size:21
Alignment explanation
Indices: 1561882--1561930 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
1561872 TATAGATTAG
1561882 TGTTTAGGGTTTATGTTTTAA
1 TGTTTAGGGTTTATGTTTTAA
**
1561903 AATTTAGGGTTTA-GTATTTAA
1 TGTTTAGGGTTTATGT-TTTAA
1561924 TGTTTAG
1 TGTTTAG
1561931 TATTTAAGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 21 0.91
ACGTcount: A:0.24, C:0.00, G:0.22, T:0.53
Consensus pattern (21 bp):
TGTTTAGGGTTTATGTTTTAA
Found at i:1562830 original size:47 final size:45
Alignment explanation
Indices: 1562751--1562838 Score: 115
Period size: 47 Copynumber: 1.9 Consensus size: 45
1562741 ATTGCATAAT
* * *
1562751 ATACATTAACATTTCATGCTGATATAATCATAAATAACATAATATAC
1 ATACATTAACATTTCATGCTAAAATAAACATAAA-AA-ATAATATAC
1562798 ATACATTAACATTTCATG-TAAAATACAACATAAAAAATAAT
1 ATACATTAACATTTCATGCTAAAATA-AACATAAAAAATAAT
1562839 GAATATAACA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
45 5 0.14
46 7 0.19
47 25 0.68
ACGTcount: A:0.51, C:0.14, G:0.03, T:0.32
Consensus pattern (45 bp):
ATACATTAACATTTCATGCTAAAATAAACATAAAAAATAATATAC
Found at i:1563350 original size:14 final size:14
Alignment explanation
Indices: 1563331--1563372 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
1563321 ATTTTAAAAT
1563331 TATACATAATATAA
1 TATACATAATATAA
*
1563345 TATAC--AATAAAA
1 TATACATAATATAA
*
1563357 TATAAATAATATAA
1 TATACATAATATAA
1563371 TA
1 TA
1563373 GATAATACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 10 0.43
14 13 0.57
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (14 bp):
TATACATAATATAA
Found at i:1563379 original size:26 final size:27
Alignment explanation
Indices: 1563325--1563379 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
1563315 TTACAAATTT
* *
1563325 TAAAATTATACATAATATAATATACAA
1 TAAAATTATAAATAATATAATAGACAA
*
1563352 TAAAA-TATAAATAATATAATAGATAA
1 TAAAATTATAAATAATATAATAGACAA
1563378 TA
1 TA
1563380 CAAAAAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (27 bp):
TAAAATTATAAATAATATAATAGACAA
Found at i:1563446 original size:25 final size:26
Alignment explanation
Indices: 1563418--1563467 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
1563408 AAGTTTAAAG
1563418 TAAAATAAAT-AA-TATACAAAATATT
1 TAAAATAAATAAATTATA-AAAATATT
1563443 TAAAATAAATAAATTATAAAAATAT
1 TAAAATAAATAAATTATAAAAATAT
1563468 GTATATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.43
26 9 0.39
27 4 0.17
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (26 bp):
TAAAATAAATAAATTATAAAAATATT
Found at i:1565045 original size:45 final size:45
Alignment explanation
Indices: 1564992--1565417 Score: 270
Period size: 45 Copynumber: 9.5 Consensus size: 45
1564982 ACAGAGATGC
1564992 CAAATCTGCTATCTTCGATCTGCTTCGATGTAAACACACGAATGT
1 CAAATCTGCTATCTTCGATCTGCTTCGATGTAAACACACGAATGT
* * * *** *
1565037 CAGATCTGCTATCTTCGATCTGCTCCCCG-TCTAATATGGA-GACA--C
1 CAAATCTGCTATCTTCGATCTGCT--TCGATGTAA-ACACACGA-ATGT
*
1565082 CAAATCTG-TCATCTTCGATCTGTTTCGATGTAAACACACGAATGT
1 CAAATCTGCT-ATCTTCGATCTGCTTCGATGTAAACACACGAATGT
* * * * * * ** * *
1565127 CAGATCTGCTATCTTTGACCTGCTCCCCG-TCT-AATA-TGGAGACGC
1 CAAATCTGCTATCTTCGATCTGCT--TCGATGTAAACACACGA-ATGT
* *
1565172 CAAATCT-ATCATTTTCGATCTGCTTCGATGTAAACACACGAATGT
1 CAAATCTGCT-ATCTTCGATCTGCTTCGATGTAAACACACGAATGT
** * * *
1565217 CAAATCTGCTATCTTCGATCTGC-TCCCTGTCTAATACA-GAGATGC
1 CAAATCTGCTATCTTCGATCTGCTTCGATGT-AAACACACGA-ATGT
* *
1565262 CAAATCT-ATCATCTTCGATCTGCTTCGATGTAAACACATGAATGT
1 CAAATCTGCT-ATCTTCGATCTGCTTCGATGTAAACACACGAATGT
* * ** * * * **
1565307 CAGATCTACTATCTTCGATCTGC-TCCCTGTCTAATAC-GGAGATAC
1 CAAATCTGCTATCTTCGATCTGCTTCGATGT-AAACACACGA-ATGT
1565352 CAAATCTG-TCATCTTCGATCTGCTTCGATGTAAACACACGAATGT
1 CAAATCTGCT-ATCTTCGATCTGCTTCGATGTAAACACACGAATGT
* *
1565397 CAGATCTGTTATCTTCGATCT
1 CAAATCTGCTATCTTCGATCT
1565418 ACTCCCCGTC
Statistics
Matches: 281, Mismatches: 70, Indels: 60
0.68 0.17 0.15
Matches are distributed among these distances:
43 7 0.02
44 28 0.10
45 211 0.75
46 28 0.10
47 7 0.02
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (45 bp):
CAAATCTGCTATCTTCGATCTGCTTCGATGTAAACACACGAATGT
Found at i:1565111 original size:90 final size:90
Alignment explanation
Indices: 1564991--1565459 Score: 690
Period size: 90 Copynumber: 5.2 Consensus size: 90
1564981 TACAGAGATG
1564991 CCAAATCTG-CTATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGA
1 CCAAATCTGTC-ATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGA
*
1565055 TCTGCTCCCCGTCTAATATGGAGACA
65 TCTGCTCCCCGTCTAATACGGAGACA
* * *
1565081 CCAAATCTGTCATCTTCGATCTGTTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTTGAC
1 CCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGAT
* *
1565146 CTGCTCCCCGTCTAATATGGAGACG
66 CTGCTCCCCGTCTAATACGGAGACA
* * *
1565171 CCAAATCTATCATTTTCGATCTGCTTCGATGTAAACACACGAATGTCAAATCTGCTATCTTCGAT
1 CCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGAT
* * **
1565236 CTGCTCCCTGTCTAATACAGAGATG
66 CTGCTCCCCGTCTAATACGGAGACA
* * *
1565261 CCAAATCTATCATCTTCGATCTGCTTCGATGTAAACACATGAATGTCAGATCTACTATCTTCGAT
1 CCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGAT
* *
1565326 CTGCTCCCTGTCTAATACGGAGATA
66 CTGCTCCCCGTCTAATACGGAGACA
*
1565351 CCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGTTATCTTCGAT
1 CCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGAT
* ** **
1565416 CTACTCCCCGTCTAATACAAAGATG
66 CTGCTCCCCGTCTAATACGGAGACA
*
1565441 CCAAATCTG-CTTCTTCGAT
1 CCAAATCTGTCATCTTCGAT
1565460 TTGTTCCCTA
Statistics
Matches: 348, Mismatches: 30, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
89 9 0.03
90 338 0.97
91 1 0.00
ACGTcount: A:0.26, C:0.27, G:0.15, T:0.32
Consensus pattern (90 bp):
CCAAATCTGTCATCTTCGATCTGCTTCGATGTAAACACACGAATGTCAGATCTGCTATCTTCGAT
CTGCTCCCCGTCTAATACGGAGACA
Found at i:1565449 original size:45 final size:45
Alignment explanation
Indices: 1564969--1565497 Score: 229
Period size: 45 Copynumber: 11.8 Consensus size: 45
1564959 CTTTGATTTA
* * *
1564969 CTCCTCGTCAAATACAGAGATGCCAAATCTGCTATCTTCGATCTG
1 CTCCCCGTCTAATACAAAGATGCCAAATCTGCTATCTTCGATCTG
* * * * *
1565014 CT--TCGATGTAA-ACACACGAATGTCAGATCTGCTATCTTCGATCTG
1 CTCCCCG-TCTAATACA-AAG-ATGCCAAATCTGCTATCTTCGATCTG
*** **
1565059 CTCCCCGTCTAATATGGAGACACCAAATCTG-TCATCTTCGATCTG
1 CTCCCCGTCTAATACAAAGATGCCAAATCTGCT-ATCTTCGATCTG
** * * * * * *
1565104 -T-TTCGATGTAA-ACACACGAATGTCAGATCTGCTATCTTTGACCTG
1 CTCCCCG-TCTAATACA-AAG-ATGCCAAATCTGCTATCTTCGATCTG
*** * * *
1565149 CTCCCCGTCTAATATGGAGACGCCAAATCT-ATCATTTTCGATCTG
1 CTCCCCGTCTAATACAAAGATGCCAAATCTGCT-ATCTTCGATCTG
* * * *
1565194 CT--TCGATGTAA-ACACACGAATGTCAAATCTGCTATCTTCGATCTG
1 CTCCCCG-TCTAATACA-AAG-ATGCCAAATCTGCTATCTTCGATCTG
* * *
1565239 CTCCCTGTCTAATACAGAGATGCCAAATCT-ATCATCTTCGATCTG
1 CTCCCCGTCTAATACAAAGATGCCAAATCTGCT-ATCTTCGATCTG
* * * * * *
1565284 CT--TCGATGTAA-ACACATGAATGTCAGATCTACTATCTTCGATCTG
1 CTCCCCG-TCTAATACA-AAG-ATGCCAAATCTGCTATCTTCGATCTG
* ** *
1565329 CTCCCTGTCTAATACGGAGATACCAAATCTG-TCATCTTCGATCTG
1 CTCCCCGTCTAATACAAAGATGCCAAATCTGCT-ATCTTCGATCTG
* * * * * * *
1565374 CT--TCGATGTAA-ACACACGAATGTCAGATCTGTTATCTTCGATCTA
1 CTCCCCG-TCTAATACA-AAG-ATGCCAAATCTGCTATCTTCGATCTG
*
1565419 CTCCCCGTCTAATACAAAGATGCCAAATCTGCT-TCTTCGATTTG
1 CTCCCCGTCTAATACAAAGATGCCAAATCTGCTATCTTCGATCTG
* ** *
1565463 TTCCCTATC-AAT-CAGAGATGCCAAATCTGCTATCT
1 CTCCCCGTCTAATACAAAGATGCCAAATCTGCTATCT
1565498 ACATTGTCCC
Statistics
Matches: 345, Mismatches: 100, Indels: 80
0.66 0.19 0.15
Matches are distributed among these distances:
42 18 0.05
43 25 0.07
44 44 0.13
45 209 0.61
46 31 0.09
47 18 0.05
ACGTcount: A:0.27, C:0.27, G:0.15, T:0.31
Consensus pattern (45 bp):
CTCCCCGTCTAATACAAAGATGCCAAATCTGCTATCTTCGATCTG
Found at i:1577050 original size:116 final size:111
Alignment explanation
Indices: 1576828--1577038 Score: 251
Period size: 116 Copynumber: 1.9 Consensus size: 111
1576818 AAACTACATG
* * * * * * * *
1576828 ATACATACTTTAACATTTCATGCATATATAATATAGAAAATGATAAATAACGACATAAATTGCAT
1 ATACATACATTAACATTTCATGAAAATACAACATAGAAAATAATAAATAACAACATAAATTACAT
* **
1576893 AATATACATTAACATTTCATGCTGATATAATCATAAATAACATAAT
66 AATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAT
*
1576939 ATACATACATTAACATTTCATGTAAAATACAACATAGAAAATAATGAATATAACAATATAAATTA
1 ATACATACATTAACATTTCATG-AAAATACAACATAGAAAATAAT-AA-ATAACAACATAAATTA
* *
1577004 CATAGTATATATAATAATATTTCATGCAAATATAA
63 CATA--ATATACAATAACATTTCATGCAAATATAA
1577039 CTTAAAATAA
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
111 21 0.26
112 17 0.21
113 2 0.02
114 17 0.21
116 24 0.30
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (111 bp):
ATACATACATTAACATTTCATGAAAATACAACATAGAAAATAATAAATAACAACATAAATTACAT
AATATACAATAACATTTCATGCAAATATAATCATAAATAACATAAT
Found at i:1577488 original size:14 final size:14
Alignment explanation
Indices: 1577469--1577510 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
1577459 ATTTTAAAAT
1577469 TATACATAATATAA
1 TATACATAATATAA
*
1577483 TATAC--AATAAAA
1 TATACATAATATAA
*
1577495 TATAAATAATATAA
1 TATACATAATATAA
1577509 TA
1 TA
1577511 GATAATACAA
Statistics
Matches: 23, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
12 10 0.43
14 13 0.57
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (14 bp):
TATACATAATATAA
Found at i:1577509 original size:31 final size:31
Alignment explanation
Indices: 1577474--1577583 Score: 75
Period size: 31 Copynumber: 3.5 Consensus size: 31
1577464 AAAATTATAC
1577474 ATAATATAATATACAATAAAATATAAATAAT
1 ATAATATAATATACAATAAAATATAAATAAT
* * *
1577505 ATAATA-GATAATACAAAAAAAAATAAAATCAAT
1 ATAATATAAT-ATACAATAAAATAT-AAAT-AAT
* * * * *
1577538 AT-TTTTACATATA-AATAAAGTTTAAAGTAAA
1 ATAATATA-ATATACAATAAAATATAAA-TAAT
1577569 ATAA-ATAATATACAA
1 ATAATATAATATACAA
1577584 AATATTTAAA
Statistics
Matches: 58, Mismatches: 13, Indels: 16
0.67 0.15 0.18
Matches are distributed among these distances:
30 7 0.12
31 29 0.50
32 12 0.21
33 8 0.14
34 2 0.03
ACGTcount: A:0.63, C:0.05, G:0.03, T:0.30
Consensus pattern (31 bp):
ATAATATAATATACAATAAAATATAAATAAT
Found at i:1577517 original size:26 final size:27
Alignment explanation
Indices: 1577463--1577517 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
1577453 TTACAGATTT
* *
1577463 TAAAATTATACATAATATAATATACAA
1 TAAAATTATAAATAATATAATAGACAA
*
1577490 TAAAA-TATAAATAATATAATAGATAA
1 TAAAATTATAAATAATATAATAGACAA
1577516 TA
1 TA
1577518 CAAAAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.33
Consensus pattern (27 bp):
TAAAATTATAAATAATATAATAGACAA
Found at i:1577593 original size:25 final size:26
Alignment explanation
Indices: 1577565--1577614 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
1577555 AAGTTTAAAG
1577565 TAAAATAAAT-AA-TATACAAAATATT
1 TAAAATAAATAAATTATA-AAAATATT
1577590 TAAAATAAATAAATTATAAAAATAT
1 TAAAATAAATAAATTATAAAAATAT
1577615 GTGTATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
25 10 0.43
26 9 0.39
27 4 0.17
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (26 bp):
TAAAATAAATAAATTATAAAAATATT
Found at i:1579194 original size:41 final size:40
Alignment explanation
Indices: 1579149--1579306 Score: 174
Period size: 41 Copynumber: 3.9 Consensus size: 40
1579139 TTTTTGCGGT
* *
1579149 GTTTGGACCACAAACGCCGCTACTGCTCAGTTTTTAGTGGC
1 GTTT-GACCAAAAACGCCGCTATTGCTCAGTTTTTAGTGGC
*
1579190 GTTTGACATAAAAACGCCGCTATT-CATCAGTTTTTAGTGGC
1 GTTTGAC-CAAAAACGCCGCTATTGC-TCAGTTTTTAGTGGC
* * * *
1579231 GTTTTAGCTAAAAACACCGCTATTGATCAGTTTTTAGTGGC
1 GTTTGA-CCAAAAACGCCGCTATTGCTCAGTTTTTAGTGGC
* * *
1579272 GTTTTGGCCAAAAAGGCCGCTATTGTTCAGTTTTT
1 G-TTTGACCAAAAACGCCGCTATTGCTCAGTTTTT
1579307 TGCAACGCCG
Statistics
Matches: 100, Mismatches: 12, Indels: 10
0.82 0.10 0.08
Matches are distributed among these distances:
40 4 0.04
41 92 0.92
42 4 0.04
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (40 bp):
GTTTGACCAAAAACGCCGCTATTGCTCAGTTTTTAGTGGC
Found at i:1581744 original size:28 final size:28
Alignment explanation
Indices: 1581713--1581768 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
1581703 TTTCTAATTA
* * *
1581713 AATTCAATTTTAATCCTTTTTATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
* *
1581741 AATTTACTTTAAATACTTTATATATTTT
1 AATTCAATTTAAATACTTTATATATTTT
1581769 TTTGTAAATA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.00, T:0.59
Consensus pattern (28 bp):
AATTCAATTTAAATACTTTATATATTTT
Found at i:1581915 original size:20 final size:21
Alignment explanation
Indices: 1581873--1581915 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
1581863 ATTTTATTTC
*
1581873 TTTATATATTTTTTATAAAAT
1 TTTATATATTATTTATAAAAT
1581894 TTTAT-TATTATTTA-AAAGAT
1 TTTATATATTATTTATAAA-AT
1581914 TT
1 TT
1581916 GTAAATGGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 3 0.15
20 12 0.60
21 5 0.25
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTATATATTATTTATAAAAT
Found at i:1582107 original size:17 final size:17
Alignment explanation
Indices: 1582087--1582120 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
1582077 TATATTACTA
1582087 TTATTATCCAT-TATTTT
1 TTATTAT-CATATATTTT
1582104 TTATTATCATATATTTT
1 TTATTATCATATATTTT
1582121 ATCTATAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 3 0.19
17 13 0.81
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (17 bp):
TTATTATCATATATTTT
Found at i:1582157 original size:14 final size:14
Alignment explanation
Indices: 1582102--1582178 Score: 57
Period size: 14 Copynumber: 5.3 Consensus size: 14
1582092 ATCCATTATT
*
1582102 TTTTATTATCATATA
1 TTTTATT-TTATATA
* *
1582117 TTTTATCTATAAATTA
1 TTTTAT-TTTATA-TA
* *
1582133 TATTATATTATATA
1 TTTTATTTTATATA
1582147 TTTTATTTTATATA
1 TTTTATTTTATATA
*
1582161 TTTCT-TTATATATA
1 TTT-TATTTTATATA
1582175 TTTT
1 TTTT
1582179 TTTAAAATTA
Statistics
Matches: 49, Mismatches: 10, Indels: 8
0.73 0.15 0.12
Matches are distributed among these distances:
13 1 0.02
14 28 0.57
15 12 0.24
16 8 0.16
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTATTTTATATA
Found at i:1582182 original size:14 final size:14
Alignment explanation
Indices: 1582141--1582182 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
1582131 TATATTATAT
1582141 TATATATTTTATTT-
1 TATATATTTT-TTTA
*
1582155 TATATATTTCTTTA
1 TATATATTTTTTTA
1582169 TATATATTTTTTTA
1 TATATATTTTTTTA
1582183 AAATTATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 3 0.12
14 22 0.88
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (14 bp):
TATATATTTTTTTA
Found at i:1582197 original size:28 final size:29
Alignment explanation
Indices: 1582104--1582197 Score: 88
Period size: 28 Copynumber: 3.2 Consensus size: 29
1582094 CCATTATTTT
*
1582104 TTATTATCATATATTTTATCTATAAATTATA
1 TTATTAT-ATATATTTTATTTA-AAATTATA
* *
1582135 TTA-TATTATATATTTTATTTTATA-TAT-
1 TTATTA-TATATATTTTATTTAAAATTATA
*
1582162 TTCTTTATATATATTTT-TTTAAAATTATA
1 TT-ATTATATATATTTTATTTAAAATTATA
1582191 TTATTAT
1 TTATTAT
1582198 TTACTAGATT
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
27 7 0.14
28 20 0.39
29 6 0.12
30 14 0.27
31 4 0.08
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (29 bp):
TTATTATATATATTTTATTTAAAATTATA
Found at i:1582624 original size:14 final size:14
Alignment explanation
Indices: 1582605--1582634 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1582595 TCTATCTTTC
*
1582605 TTATATATTTTTTA
1 TTATATATTATTTA
1582619 TTATATATTATTTA
1 TTATATATTATTTA
1582633 TT
1 TT
1582635 TTGTTTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (14 bp):
TTATATATTATTTA
Found at i:1598707 original size:89 final size:89
Alignment explanation
Indices: 1598556--1598734 Score: 331
Period size: 89 Copynumber: 2.0 Consensus size: 89
1598546 TATATATATA
*
1598556 TTACAGGCTGAGGGTGGACAAGAGGAAACTCATCCTCTTTAAATATCAATTACAAGTAACATGAA
1 TTACAGGCTGAGAGTGGACAAGAGGAAACTCATCCTCTTTAAATATCAATTACAAGTAACATGAA
1598621 CTTGATTTGGATCTACAAAAATGT
66 CTTGATTTGGATCTACAAAAATGT
* *
1598645 TTACAGGCTGAGAGTGGACAAGAGGAATCTTATCCTCTTTAAATATCAATTACAAGTAACATGAA
1 TTACAGGCTGAGAGTGGACAAGAGGAAACTCATCCTCTTTAAATATCAATTACAAGTAACATGAA
1598710 CTTGATTTGGATCTACAAAAATGT
66 CTTGATTTGGATCTACAAAAATGT
1598734 T
1 T
1598735 CATGTGTTGT
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
89 87 1.00
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (89 bp):
TTACAGGCTGAGAGTGGACAAGAGGAAACTCATCCTCTTTAAATATCAATTACAAGTAACATGAA
CTTGATTTGGATCTACAAAAATGT
Found at i:1602363 original size:43 final size:42
Alignment explanation
Indices: 1602315--1602545 Score: 173
Period size: 43 Copynumber: 5.4 Consensus size: 42
1602305 TTAAAAAAAT
1602315 GCCGCTAAAGGTCATGATCTTTAACGACGCTTTATCCACAAAC
1 GCCGCTAAAGGTCATGA-CTTTAACGACGCTTTATCCACAAAC
* *
1602358 GCCGCTAAA-GTCCATGACTTTTA-GCAGCGCTTTATCTACAAAC
1 GCCGCTAAAGGT-CATGACTTTAACG-A-CGCTTTATCCACAAAC
* * * * * *
1602401 GCCACTAAAAGTCCATGGAATTTAACGGCGCTTTTTTCACAAAC
1 GCCGCTAAAGGT-CAT-GACTTTAACGACGCTTTATCCACAAAC
** * * * *
1602445 GCCGCTAAAGACCATGGCCTTTAGCAACGCTTTTTCCACAAAC
1 GCCGCTAAAGGTCAT-GACTTTAACGACGCTTTATCCACAAAC
* * * * *
1602488 GTCC-CTAAAAGTCATTGCCTTTAGCGGCGCTTT-TCCCAAAAAC
1 G-CCGCTAAAGGTCA-TGACTTTAACGACGCTTTAT-CCACAAAC
1602531 GCCGCTAAAGGTCAT
1 GCCGCTAAAGGTCAT
1602546 AAAATTTAAA
Statistics
Matches: 152, Mismatches: 26, Indels: 21
0.76 0.13 0.11
Matches are distributed among these distances:
41 1 0.01
42 12 0.08
43 102 0.67
44 30 0.20
45 6 0.04
46 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (42 bp):
GCCGCTAAAGGTCATGACTTTAACGACGCTTTATCCACAAAC
Found at i:1602442 original size:87 final size:86
Alignment explanation
Indices: 1602334--1602540 Score: 254
Period size: 87 Copynumber: 2.4 Consensus size: 86
1602324 GGTCATGATC
* * * * * *
1602334 TTTAACGACGCTTTATCCACAAACGCCGCTAAAGTCCATGACTTTTAGCAGCGCTTTATCTACAA
1 TTTAACGGCGCTTTTTCCACAAACGCCGCTAAAGACCATGACCTTTAGCAACGCTTTATCCACAA
1602399 ACG-CCACTAAAAGTCCATGGAA
66 ACGTCC-CTAAAAGT-CATGGAA
* * *
1602421 TTTAACGGCGCTTTTTTCACAAACGCCGCTAAAGACCATGGCCTTTAGCAACGCTTTTTCCACAA
1 TTTAACGGCGCTTTTTCCACAAACGCCGCTAAAGACCATGACCTTTAGCAACGCTTTATCCACAA
* **
1602486 ACGTCCCTAAAAGTCATTGCC
66 ACGTCCCTAAAAGTCATGGAA
* * *
1602507 TTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAG
1 TTTAACGGCGCTTTTTCCACAAACGCCGCTAAAG
1602541 GTCATAAAAT
Statistics
Matches: 103, Mismatches: 16, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
86 34 0.33
87 67 0.65
88 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (86 bp):
TTTAACGGCGCTTTTTCCACAAACGCCGCTAAAGACCATGACCTTTAGCAACGCTTTATCCACAA
ACGTCCCTAAAAGTCATGGAA
Found at i:1602564 original size:15 final size:16
Alignment explanation
Indices: 1602544--1602577 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
1602534 GCTAAAGGTC
1602544 ATAAAAT-TTAAAAAA
1 ATAAAATATTAAAAAA
*
1602559 ATAAAATATTATAAAA
1 ATAAAATATTAAAAAA
1602575 ATA
1 ATA
1602578 TTATAAAGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
ATAAAATATTAAAAAA
Found at i:1602617 original size:28 final size:31
Alignment explanation
Indices: 1602561--1602617 Score: 75
Period size: 29 Copynumber: 1.9 Consensus size: 31
1602551 TTAAAAAAAT
*
1602561 AAAATATTATAAAAATATTATAAAGTCATGA
1 AAAATATTATAAAAAAATTATAAAGTCATGA
*
1602592 AAAATA-TA-AAAAAAATTA-AAATTCAT
1 AAAATATTATAAAAAAATTATAAAGTCAT
1602618 TATCAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.29
29 9 0.38
30 2 0.08
31 6 0.25
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (31 bp):
AAAATATTATAAAAAAATTATAAAGTCATGA
Found at i:1602707 original size:7 final size:6
Alignment explanation
Indices: 1602686--1602733 Score: 53
Period size: 6 Copynumber: 7.7 Consensus size: 6
1602676 ATTCATTATT
*
1602686 AAATAA AAATAA AAATATA AAATCAA AACT-A AAATAA ATAATAA AAAT
1 AAATAA AAATAA AAATA-A AAAT-AA AAATAA AAATAA A-AATAA AAAT
1602734 TAGATTAAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
5 4 0.11
6 16 0.44
7 15 0.42
8 1 0.03
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (6 bp):
AAATAA
Found at i:1602732 original size:19 final size:19
Alignment explanation
Indices: 1602686--1602733 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
1602676 ATTCATTATT
1602686 AAATAAAAATAAAAATATA
1 AAATAAAAATAAAAATATA
*
1602705 AAATCAAAACT-AAAATA-A
1 AAAT-AAAAATAAAAATATA
1602723 ATAATAAAAAT
1 A-AATAAAAAT
1602734 TAGATTAAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
18 7 0.28
19 13 0.52
20 5 0.20
ACGTcount: A:0.75, C:0.04, G:0.00, T:0.21
Consensus pattern (19 bp):
AAATAAAAATAAAAATATA
Found at i:1603516 original size:15 final size:15
Alignment explanation
Indices: 1603496--1603524 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1603486 AAAAGAATAT
1603496 TAGCAACAAATTATG
1 TAGCAACAAATTATG
1603511 TAGCAACAAATTAT
1 TAGCAACAAATTAT
1603525 AAATTGAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.14, G:0.10, T:0.28
Consensus pattern (15 bp):
TAGCAACAAATTATG
Found at i:1608045 original size:8 final size:8
Alignment explanation
Indices: 1608034--1608120 Score: 74
Period size: 8 Copynumber: 10.9 Consensus size: 8
1608024 ATATTAAATA
1608034 TTAAATTT
1 TTAAATTT
*
1608042 TTAAGTTT
1 TTAAATTT
*
1608050 TTTAATTT
1 TTAAATTT
1608058 TT-AA-TT
1 TTAAATTT
1608064 TTAAA-TT
1 TTAAATTT
1608071 TTAAATTT
1 TTAAATTT
1608079 TTAAA-TT
1 TTAAATTT
*
1608086 TTAATTTTT
1 TTAA-ATTT
1608095 TTGAAGATTT
1 TT-AA-ATTT
*
1608105 TTATAACTT
1 TTA-AATTT
1608114 TTAAATT
1 TTAAATT
1608121 ATTGTATAAA
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
6 4 0.06
7 17 0.26
8 25 0.38
9 11 0.17
10 8 0.12
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.62
Consensus pattern (8 bp):
TTAAATTT
Found at i:1608070 original size:14 final size:15
Alignment explanation
Indices: 1608034--1608094 Score: 81
Period size: 14 Copynumber: 4.1 Consensus size: 15
1608024 ATATTAAATA
1608034 TTAAATTTTTAAGTTT
1 TTAAATTTTTAA-TTT
*
1608050 TTTAATTTTTAA-TT
1 TTAAATTTTTAATTT
*
1608064 TTAAATTTTAAATTT
1 TTAAATTTTTAATTT
1608079 TTAAA-TTTTAATTT
1 TTAAATTTTTAATTT
1608093 TT
1 TT
1608095 TTGAAGATTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
14 22 0.55
15 7 0.17
16 11 0.28
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
TTAAATTTTTAATTT
Found at i:1608077 original size:21 final size:22
Alignment explanation
Indices: 1608035--1608095 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
1608025 TATTAAATAT
* *
1608035 TAAATTTTTAAGTTTTTTAATTT
1 TAAA-TTTTAAATTTTTAAATTT
*
1608058 TTAATTTTAAA-TTTTAAATTTT
1 TAAATTTTAAATTTTTAAA-TTT
*
1608080 TAAATTTTAATTTTTT
1 TAAATTTTAAATTTTT
1608096 TGAAGATTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
21 6 0.19
22 18 0.58
23 7 0.23
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (22 bp):
TAAATTTTAAATTTTTAAATTT
Found at i:1608094 original size:7 final size:7
Alignment explanation
Indices: 1608037--1608094 Score: 71
Period size: 7 Copynumber: 8.0 Consensus size: 7
1608027 TTAAATATTA
1608037 AATTTTT
1 AATTTTT
1608044 AAGTTTTTT
1 AA--TTTTT
1608053 AATTTTT
1 AATTTTT
*
1608060 AATTTTA
1 AATTTTT
*
1608067 AATTTTA
1 AATTTTT
1608074 AATTTTT
1 AATTTTT
*
1608081 AAATTTT
1 AATTTTT
1608088 AATTTTT
1 AATTTTT
1608095 TTGAAGATTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
7 38 0.84
9 7 0.16
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.66
Consensus pattern (7 bp):
AATTTTT
Found at i:1608095 original size:15 final size:15
Alignment explanation
Indices: 1608034--1608095 Score: 74
Period size: 15 Copynumber: 4.1 Consensus size: 15
1608024 ATATTAAATA
1608034 TTAAATTTTTAAGTTTT
1 TTAAA-TTTTAA-TTTT
*
1608051 TTAATTTTTAA--TT
1 TTAAATTTTAATTTT
*
1608064 TTAAATTTTAAATTT
1 TTAAATTTTAATTTT
1608079 TTAAATTTTAATTTT
1 TTAAATTTTAATTTT
1608094 TT
1 TT
1608096 TGAAGATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
13 12 0.30
15 18 0.45
16 6 0.15
17 4 0.10
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (15 bp):
TTAAATTTTAATTTT
Found at i:1608464 original size:37 final size:36
Alignment explanation
Indices: 1608406--1608536 Score: 208
Period size: 37 Copynumber: 3.6 Consensus size: 36
1608396 CTATGCAGCA
*
1608406 GATGCACAGGGCGAAGGCGATGGAGGAGATGGGTTGC
1 GATGCACGGGGCGAAGGCGATGGAGG-GATGGGTTGC
*
1608443 GACGCACGGGGCGAAGGCGATGGAGGGGATGGGTTGC
1 GATGCACGGGGCGAAGGCGATGGA-GGGATGGGTTGC
*
1608480 GATGCACGGGGCGAAGGCGATGGAAGGGATGGGTTAC
1 GATGCACGGGGCGAAGGCGATGG-AGGGATGGGTTGC
1608517 GATGCACGGGGCGAAGGCGA
1 GATGCACGGGGCGAAGGCGA
1608537 CAAACGAAAA
Statistics
Matches: 88, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
37 85 0.97
38 3 0.03
ACGTcount: A:0.23, C:0.15, G:0.50, T:0.11
Consensus pattern (36 bp):
GATGCACGGGGCGAAGGCGATGGAGGGATGGGTTGC
Found at i:1608651 original size:15 final size:14
Alignment explanation
Indices: 1608632--1608671 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
1608622 CCATGGCCAT
1608632 TAAACCTTAAACCA
1 TAAACCTTAAACCA
*
1608646 TAAAACCCTAAACCA
1 T-AAACCTTAAACCA
*
1608661 TAGACCTTAAA
1 TAAACCTTAAA
1608672 TCTTAAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.50, C:0.28, G:0.03, T:0.20
Consensus pattern (14 bp):
TAAACCTTAAACCA
Found at i:1608923 original size:46 final size:46
Alignment explanation
Indices: 1608794--1608925 Score: 149
Period size: 48 Copynumber: 2.8 Consensus size: 46
1608784 TCAACATCCA
* *** *
1608794 TATGATGTTTTTTGGGGTTTAGGGTTTTAAAAGTTATAGATTAGTGTT
1 TATGAT-TTTTTT-GGGTTTAGGATTTTAGGGGTTATAAATTAGTGTT
* *
1608842 TAGTG-TTTTTTAGGGGGTTAGGGATTTTAGGGGTTATAAATTAGTGTT
1 TA-TGATTTTTT-TGGGTTTA-GGATTTTAGGGGTTATAAATTAGTGTT
1608890 TATGATTTTTTTGGGTTTAGGATTTTAGGGGTTATA
1 TATGATTTTTTTGGGTTTAGGATTTTAGGGGTTATA
1608926 TGACTTTTTG
Statistics
Matches: 71, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
46 17 0.24
47 19 0.27
48 33 0.46
49 2 0.03
ACGTcount: A:0.21, C:0.00, G:0.30, T:0.49
Consensus pattern (46 bp):
TATGATTTTTTTGGGTTTAGGATTTTAGGGGTTATAAATTAGTGTT
Found at i:1608975 original size:41 final size:41
Alignment explanation
Indices: 1608930--1609066 Score: 206
Period size: 41 Copynumber: 3.4 Consensus size: 41
1608920 GTTATATGAC
* *
1608930 TTTTT-GCGGCGTTTTGAGCAAAAACGCCGCTATTGCTCAGT
1 TTTTTAGCGGCG-TTTGACCAAAAACGCCGCTATTGCTCTGT
*
1608971 TTTTTAGCGGCGTTTGACCAAAAACGCCACTATTGCTCTGT
1 TTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTGT
*
1609012 TTTTTAGCGGCGTTTGACCAAAAACGCCGTTATTGCTCTG-
1 TTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTGT
*
1609052 TTTTTAACGGCGTTT
1 TTTTTAGCGGCGTTT
1609067 TTGGTCAAAC
Statistics
Matches: 89, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
40 14 0.16
41 69 0.78
42 6 0.07
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (41 bp):
TTTTTAGCGGCGTTTGACCAAAAACGCCGCTATTGCTCTGT
Found at i:1609127 original size:12 final size:12
Alignment explanation
Indices: 1609112--1609138 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1609102 GTTTTTTGAT
1609112 AAAACGCCGCTA
1 AAAACGCCGCTA
1609124 AAAACGCCGCTA
1 AAAACGCCGCTA
1609136 AAA
1 AAA
1609139 CCCTATTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.30, G:0.15, T:0.07
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:1614823 original size:13 final size:13
Alignment explanation
Indices: 1614782--1614823 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
1614772 ATACTTATTC
1614782 TTGTTCTTAATTAT
1 TTGTTCTTAATT-T
*
1614796 GTGTTCTTAATTT
1 TTGTTCTTAATTT
1614809 TTGTT-TTAATATT
1 TTGTTCTTAAT-TT
1614822 TT
1 TT
1614824 CAGAATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 5 0.20
13 9 0.36
14 11 0.44
ACGTcount: A:0.19, C:0.05, G:0.10, T:0.67
Consensus pattern (13 bp):
TTGTTCTTAATTT
Found at i:1625270 original size:93 final size:93
Alignment explanation
Indices: 1625143--1625313 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
1625133 CCCATAAGCA
* * *
1625143 AACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACCCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCAAC
1625208 GAGCTCGGATGCCTAGTTACATCTCTCG
66 GAGCTCGGATGCCTAGTTACATCTCTCG
* *
1625236 AACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAAC
1 AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCAAC
*
1625301 GAGTTCGGATGCC
66 GAGCTCGGATGCC
1625314 CAAATATCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.27, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
AACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCCGGACTCAACTCAAC
GAGCTCGGATGCCTAGTTACATCTCTCG
Found at i:1625309 original size:46 final size:46
Alignment explanation
Indices: 1625134--1625309 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
1625124 TGTAACCCGC
** * * *
1625134 CCATAAGCAAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
1625180 CCATAAGTGAACCCGGACTCAACTCAACGAGCTCGG--ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** *
1625226 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
*
1625273 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1625310 TGCCCAAATA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 66 0.62
47 31 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:1625328 original size:46 final size:44
Alignment explanation
Indices: 1625185--1625328 Score: 107
Period size: 46 Copynumber: 3.1 Consensus size: 44
1625175 CGCATCCATA
* * *
1625185 AGTGAACCCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * *
1625234 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC--ATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
1625277 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
1625324 AGTGA
1 AGTGA
1625329 CATGTCACTT
Statistics
Matches: 76, Mismatches: 9, Indels: 23
0.70 0.08 0.21
Matches are distributed among these distances:
42 1 0.01
43 4 0.05
44 4 0.05
46 33 0.43
47 27 0.36
48 4 0.05
49 3 0.04
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:1627739 original size:30 final size:30
Alignment explanation
Indices: 1627695--1627783 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
1627685 CAAAGATAAC
1627695 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
1627724 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
1627754 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
1627784 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:1627743 original size:15 final size:15
Alignment explanation
Indices: 1627695--1627774 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
1627685 CAAAGATAAC
*
1627695 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
1627709 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
1627724 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
1627739 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
1627754 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
1627769 AAGAAA
1 AAGAAA
1627775 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:1627783 original size:15 final size:15
Alignment explanation
Indices: 1627706--1627783 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
1627696 AGAAAACCGA
1627706 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
1627721 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
1627735 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
1627750 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
1627766 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
1627781 ATA
1 ATA
1627784 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:1630834 original size:93 final size:93
Alignment explanation
Indices: 1630722--1630893 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
1630712 GCCCATAAGT
* * *
1630722 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCGGACTCAACTCAA
1630787 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
*
1630815 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
1630880 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
1630894 CAAATATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.27, C:0.31, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:1630889 original size:46 final size:46
Alignment explanation
Indices: 1630714--1630889 Score: 219
Period size: 46 Copynumber: 3.8 Consensus size: 46
1630704 TGTAACCCGC
* * *
1630714 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCACAT
* **
1630760 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC-ACAT
* *** *
1630806 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACGCTCACAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGACGCTCACAT
*
1630853 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1630890 TGCCCAAATA
Statistics
Matches: 109, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
45 1 0.01
46 71 0.65
47 36 0.33
48 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCACAT
Found at i:1635602 original size:43 final size:43
Alignment explanation
Indices: 1635500--1635625 Score: 118
Period size: 43 Copynumber: 3.0 Consensus size: 43
1635490 AAGGAATGTT
* *
1635500 GACATC-TATCTGATATATCGTGTAAGACCGTGTCTGGGACACA
1 GACATCGTATCTGATTTA-CGTGTAAGACCATGTCTGGGACACA
* * *
1635543 GGCATCG-AT-TAAGATTTACATATAAGACCATGTCTGGGACATC-
1 GACATCGTATCT--GATTTACGTGTAAGACCATGTCTGGGACA-CA
* *
1635586 GACATCGTATCTGATTT-CGTGTACGACCCTGTCTGGGACA
1 GACATCGTATCTGATTTACGTGTAAGACCATGTCTGGGACA
1635626 GAGGGATTGA
Statistics
Matches: 67, Mismatches: 10, Indels: 13
0.74 0.11 0.14
Matches are distributed among these distances:
42 20 0.30
43 38 0.57
44 8 0.12
45 1 0.01
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (43 bp):
GACATCGTATCTGATTTACGTGTAAGACCATGTCTGGGACACA
Found at i:1635654 original size:85 final size:86
Alignment explanation
Indices: 1635500--1635667 Score: 200
Period size: 85 Copynumber: 2.0 Consensus size: 86
1635490 AAGGAATGTT
* *
1635500 GACATCTATCTGATATATCGTGTAAGACCGTGTCTGGGACACAGGCATCGATTAAGATTTACATA
1 GACATCTATCTGATATATCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTAAGAATTACATA
1635565 TAAGACCA-TGTCTGGGACATC
66 TAAGACCACT-TCTGGGACATC
* * * * * *
1635586 GACATCGTATCTGAT-T-TCGTGTACGACCCTGTCTGGGACAGAGGGATTGA-TATTGAATTGCA
1 GACATC-TATCTGATATATCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTA-AGAATTACA
*
1635648 TGTAAGACCACTTCTGGGAC
64 TATAAGACCACTTCTGGGAC
1635668 GTCAGCATTA
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
84 2 0.03
85 52 0.74
86 8 0.11
87 8 0.11
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (86 bp):
GACATCTATCTGATATATCGTGTAAGACCCTGTCTGGGACACAGGCATCGATTAAGAATTACATA
TAAGACCACTTCTGGGACATC
Found at i:1635835 original size:20 final size:20
Alignment explanation
Indices: 1635810--1635850 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
1635800 TGAATTATTC
1635810 TATGAAATGGCTATGAATCT
1 TATGAAATGGCTATGAATCT
1635830 TATGAAATGGCTATGAATCT
1 TATGAAATGGCTATGAATCT
1635850 T
1 T
1635851 TATGGTTGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.34, C:0.10, G:0.20, T:0.37
Consensus pattern (20 bp):
TATGAAATGGCTATGAATCT
Found at i:1639141 original size:6 final size:6
Alignment explanation
Indices: 1639110--1639202 Score: 82
Period size: 6 Copynumber: 15.3 Consensus size: 6
1639100 ATTGAGTCTA
* * * *
1639110 TTTATC TTTATG TTTATT TTTATT TTTGTTT TTTATC TTTATT TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTT-ATT TTTATT TTTATT TTTATT
** *
1639159 TTTA-T TTTCCT TTGATT TTTATT TTTATT TTGT-TT TTCTATT TT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT TT-TATT TT
1639203 GAACTTTATT
Statistics
Matches: 71, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
5 4 0.06
6 57 0.80
7 10 0.14
ACGTcount: A:0.13, C:0.05, G:0.04, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:1639176 original size:23 final size:22
Alignment explanation
Indices: 1639122--1639189 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 22
1639112 TATCTTTATG
* *
1639122 TTTATTTTTATTTTTGTTTTTTATC
1 TTTATTTTTA-TTTT-TATTTT-CC
1639147 TTTATTTTTATTTTTATTTTCC
1 TTTATTTTTATTTTTATTTTCC
1639169 TTTGATTTTTATTTTTATTTT
1 TTT-ATTTTTATTTTTATTTT
1639190 GTTTTTCTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.10
23 22 0.55
24 4 0.10
25 10 0.25
ACGTcount: A:0.13, C:0.04, G:0.03, T:0.79
Consensus pattern (22 bp):
TTTATTTTTATTTTTATTTTCC
Found at i:1639195 original size:29 final size:26
Alignment explanation
Indices: 1639114--1639197 Score: 98
Period size: 25 Copynumber: 3.1 Consensus size: 26
1639104 AGTCTATTTA
* *
1639114 TCTTTATGTTTATTTTTATTTTTGTT
1 TCTTTATCTTTATTTTTATTTTTTTT
1639140 T-TTTATCTTTATTTTTATTTTTATTT
1 TCTTTATCTTTATTTTTATTTTT-TTT
*
1639166 TCCTTTGATTTTTATTTTTATTTTGTTTT
1 T-CTTT-ATCTTTATTTTTATTTT-TTTT
1639195 TCT
1 TCT
1639198 ATTTTGAACT
Statistics
Matches: 50, Mismatches: 3, Indels: 8
0.82 0.05 0.13
Matches are distributed among these distances:
25 20 0.40
26 4 0.08
28 5 0.10
29 20 0.40
30 1 0.02
ACGTcount: A:0.12, C:0.06, G:0.05, T:0.77
Consensus pattern (26 bp):
TCTTTATCTTTATTTTTATTTTTTTT
Found at i:1651577 original size:40 final size:44
Alignment explanation
Indices: 1651481--1651580 Score: 127
Period size: 40 Copynumber: 2.4 Consensus size: 44
1651471 TTTTAACATC
* * **
1651481 CGCACACTTAGTGCCATCTCAATTAACCGAAGCTATTTCGGTAT
1 CGCACACTTAGTGCCATCTCAAGTAACCGAAGCTAATTCGAAAT
*
1651525 CGCACACTTAGTGCC-T-T-AAGTAGCCGAAGCTAATTC-AAAT
1 CGCACACTTAGTGCCATCTCAAGTAACCGAAGCTAATTCGAAAT
1651565 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
1651581 AATACCATTG
Statistics
Matches: 50, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
40 17 0.34
41 16 0.32
42 1 0.02
43 1 0.02
44 15 0.30
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (44 bp):
CGCACACTTAGTGCCATCTCAAGTAACCGAAGCTAATTCGAAAT
Found at i:1657767 original size:11 final size:11
Alignment explanation
Indices: 1657749--1657778 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1657739 ATTATTTATC
1657749 TATTTATTTCT
1 TATTTATTTCT
*
1657760 TTTTTATTTCT
1 TATTTATTTCT
1657771 TATTTATT
1 TATTTATT
1657779 CTTCCATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.17, C:0.07, G:0.00, T:0.77
Consensus pattern (11 bp):
TATTTATTTCT
Found at i:1661863 original size:5 final size:5
Alignment explanation
Indices: 1661855--1661880 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
1661845 CTTTTCTTTC
1661855 TTTAT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTAT TTTAT TTTAT T
1661881 AGTTGTTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:1661982 original size:15 final size:15
Alignment explanation
Indices: 1661962--1661991 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
1661952 TAGTAGTAGA
*
1661962 TTTTTATTTTTTATT
1 TTTTTATGTTTTATT
1661977 TTTTTATGTTTTATT
1 TTTTTATGTTTTATT
1661992 ATTATGTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.83
Consensus pattern (15 bp):
TTTTTATGTTTTATT
Found at i:1664925 original size:15 final size:15
Alignment explanation
Indices: 1664905--1664933 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1664895 GTATTGTTGC
1664905 TTGATAACACGGTGA
1 TTGATAACACGGTGA
1664920 TTGATAACACGGTG
1 TTGATAACACGGTG
1664934 TGTGTGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.28
Consensus pattern (15 bp):
TTGATAACACGGTGA
Found at i:1672264 original size:39 final size:39
Alignment explanation
Indices: 1672201--1672336 Score: 209
Period size: 39 Copynumber: 3.5 Consensus size: 39
1672191 GCTCTGATGA
1672201 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* * *
1672240 GCTTCAGTTAGCCTTTGGGGTTCCGTTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
1672279 GCTTCAATTAGCCTTCGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
* *
1672318 GCTTCAGCTAGACTTCGGG
1 GCTTCAGTTAGCCTTCGGG
1672337 TTTCAGACCA
Statistics
Matches: 86, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 86 1.00
ACGTcount: A:0.13, C:0.24, G:0.25, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCGTTTAGCACTTGTGT
Found at i:1679587 original size:39 final size:39
Alignment explanation
Indices: 1679544--1679644 Score: 130
Period size: 39 Copynumber: 2.6 Consensus size: 39
1679534 GCTCTGATGA
* ** *
1679544 GCTTCAGTTAACCTTCGGGCTTCTGTTTAGCACTTGCAT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAACACTTGCAT
* * **
1679583 GCTTCAATTAGCCTTTGGGCTTCCATTTAACACTTGTGT
1 GCTTCAGTTAGCCTTCGGGCTTCCATTTAACACTTGCAT
1679622 GCTTCAGTTAGCCTTCGGGCTTC
1 GCTTCAGTTAGCCTTCGGGCTTC
1679645 AGATCACGAT
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.15, C:0.26, G:0.21, T:0.39
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGGGCTTCCATTTAACACTTGCAT
Found at i:1679645 original size:18 final size:18
Alignment explanation
Indices: 1679544--1679646 Score: 64
Period size: 20 Copynumber: 5.4 Consensus size: 18
1679534 GCTCTGATGA
*
1679544 GCTTCAGTTAACCTTCGG
1 GCTTCAGTTAGCCTTCGG
* **
1679562 GCTTCTGTTTAGCACTTGCAT
1 GCTTCAG-TTAGC-CTT-CGG
* *
1679583 GCTTCAATTAGCCTTTGG
1 GCTTCAGTTAGCCTTCGG
* *
1679601 GCTTCCATTTAACACTT-GTG
1 GCTT-CAGTTAGC-CTTCG-G
1679621 TGCTTCAGTTAGCCTTCGG
1 -GCTTCAGTTAGCCTTCGG
1679640 GCTTCAG
1 GCTTCAG
1679647 ATCACGATGT
Statistics
Matches: 64, Mismatches: 13, Indels: 16
0.69 0.14 0.17
Matches are distributed among these distances:
18 17 0.27
19 18 0.28
20 19 0.30
21 10 0.16
ACGTcount: A:0.16, C:0.25, G:0.21, T:0.38
Consensus pattern (18 bp):
GCTTCAGTTAGCCTTCGG
Found at i:1684535 original size:22 final size:22
Alignment explanation
Indices: 1684510--1684554 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
1684500 AAAAAGTTAG
*
1684510 TAAATTATAATAAAAATAAAAA
1 TAAATTACAATAAAAATAAAAA
*
1684532 TAAATTGCAATAAAAATAAAAA
1 TAAATTACAATAAAAATAAAAA
1684554 T
1 T
1684555 GGCTAAAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.27
Consensus pattern (22 bp):
TAAATTACAATAAAAATAAAAA
Found at i:1686909 original size:14 final size:14
Alignment explanation
Indices: 1686890--1686918 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1686880 TTTTCACTTC
1686890 TTTCCCTAGTCTTA
1 TTTCCCTAGTCTTA
1686904 TTTCCCTAGTCTTA
1 TTTCCCTAGTCTTA
1686918 T
1 T
1686919 GTCGCCCTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.14, C:0.28, G:0.07, T:0.52
Consensus pattern (14 bp):
TTTCCCTAGTCTTA
Found at i:1699187 original size:28 final size:28
Alignment explanation
Indices: 1699147--1699202 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 28
1699137 GATATCAGCC
1699147 AACTAGTTTTGTGAGCTGC-AATGGATAA
1 AACTAGTTTTGTGAGCT-CTAATGGATAA
*
1699175 AACTGGTTTTGTGAGCTCTAATGGATAA
1 AACTAGTTTTGTGAGCTCTAATGGATAA
1699203 GGCTGATTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 1 0.04
28 25 0.96
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.34
Consensus pattern (28 bp):
AACTAGTTTTGTGAGCTCTAATGGATAA
Found at i:1710569 original size:18 final size:18
Alignment explanation
Indices: 1710546--1710580 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1710536 GGGAGGTGCT
1710546 TGGGTTCAAGGCACGGTA
1 TGGGTTCAAGGCACGGTA
*
1710564 TGGGTTTAAGGCACGGT
1 TGGGTTCAAGGCACGGT
1710581 GCGCGCAAAA
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:0.20, C:0.14, G:0.40, T:0.26
Consensus pattern (18 bp):
TGGGTTCAAGGCACGGTA
Found at i:1713050 original size:28 final size:27
Alignment explanation
Indices: 1712959--1713059 Score: 87
Period size: 28 Copynumber: 3.4 Consensus size: 27
1712949 ACTTGTTATA
*
1712959 GGGCTACGGCCCAAATTGATACTGATAT
1 GGGCTA-GGCCCAAATTGATATTGATAT
*
1712987 GGGCTAGGCCCAGTATACTCTGATATTG-TAAG
1 GGGCTAGGCCCA--A-A-T-TGATATTGAT-AT
*
1713019 GGGCTATGGCCCAAATTAATATTGATAT
1 GGGCTA-GGCCCAAATTGATATTGATAT
1713047 GGGCTAAGGCCCA
1 GGGCT-AGGCCCA
1713060 GTTAACTATG
Statistics
Matches: 60, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
27 6 0.10
28 25 0.42
29 4 0.07
30 2 0.03
31 3 0.05
32 14 0.23
33 6 0.10
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.26
Consensus pattern (27 bp):
GGGCTAGGCCCAAATTGATATTGATAT
Found at i:1716241 original size:18 final size:18
Alignment explanation
Indices: 1716218--1716260 Score: 86
Period size: 18 Copynumber: 2.4 Consensus size: 18
1716208 AGGAGGCTAG
1716218 TATGTAGTTTGTTTTTTA
1 TATGTAGTTTGTTTTTTA
1716236 TATGTAGTTTGTTTTTTA
1 TATGTAGTTTGTTTTTTA
1716254 TATGTAG
1 TATGTAG
1716261 ACTAACATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.63
Consensus pattern (18 bp):
TATGTAGTTTGTTTTTTA
Found at i:1717148 original size:60 final size:61
Alignment explanation
Indices: 1717084--1717197 Score: 140
Period size: 60 Copynumber: 1.9 Consensus size: 61
1717074 GACTTGTTAT
* * *
1717084 AGGGCTACGGCCCAAATTGATACTGATATGGGCT-AGGCCCAGTAAACTCTGATATTGTAA
1 AGGGCTACGGCCCAAATTAATACTAATATAGGCTAAGGCCCAGTAAACTCTGATATTGTAA
* * * * * *
1717144 AGGGCTATGGCCTAGATTAATATTAATATAGGCTAAGGCCTAGTTAACTCTGAT
1 AGGGCTACGGCCCAAATTAATACTAATATAGGCTAAGGCCCAGTAAACTCTGAT
1717198 TTCTGAATAG
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
60 27 0.61
61 17 0.39
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.28
Consensus pattern (61 bp):
AGGGCTACGGCCCAAATTAATACTAATATAGGCTAAGGCCCAGTAAACTCTGATATTGTAA
Found at i:1719283 original size:104 final size:106
Alignment explanation
Indices: 1719166--1719355 Score: 280
Period size: 105 Copynumber: 1.8 Consensus size: 106
1719156 ATTTTTTCTT
* * *
1719166 TTTTTTTGGTTAAGAATATATTGAACCTTTTGACACG-AAGAGAGAT-GCAACCAAGCACCCCGC
1 TTTTTTTGCTTAAGAATATATTGAACCTTTTGAC-CGAAAGAGAGATAACAACCAAGCACCCCAC
*
1719229 -CATGGTTATTCAGCCCAACATACTCGTAATTTATTATATTTA
65 TC-TGGTTACTCAGCCCAACATACTCGTAATTTATTATATTTA
* *
1719271 TTTTTTT-CTTAAGAATATATTGAACCTTTTGACGGAAAGAGAGATAACAGCCAAGCACCCCACT
1 TTTTTTTGCTTAAGAATATATTGAACCTTTTGACCGAAAGAGAGATAACAACCAAGCACCCCACT
1719335 CTGGTTACTCAGCCCAACATA
66 CTGGTTACTCAGCCCAACATA
1719356 TTCTTAAAAA
Statistics
Matches: 76, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
103 1 0.01
104 34 0.45
105 40 0.53
106 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (106 bp):
TTTTTTTGCTTAAGAATATATTGAACCTTTTGACCGAAAGAGAGATAACAACCAAGCACCCCACT
CTGGTTACTCAGCCCAACATACTCGTAATTTATTATATTTA
Found at i:1720166 original size:20 final size:19
Alignment explanation
Indices: 1720141--1720179 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
1720131 AAGGAAATAG
1720141 AAAATATAAATATAAATAAA
1 AAAATATAAATA-AAATAAA
1720161 AAAATATAAATAAAATAAA
1 AAAATATAAATAAAATAAA
1720180 TTTTGGTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAATATAAATAAAATAAA
Found at i:1720167 original size:14 final size:15
Alignment explanation
Indices: 1720146--1720180 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
1720136 AATAGAAAAT
1720146 ATAAATATAAATAAA
1 ATAAATATAAATAAA
1720161 A-AAATATAAATAAA
1 ATAAATATAAATAAA
1720175 ATAAAT
1 ATAAAT
1720181 TTTGGTTGCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 14 0.74
15 5 0.26
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (15 bp):
ATAAATATAAATAAA
Found at i:1721545 original size:43 final size:43
Alignment explanation
Indices: 1721498--1721594 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
1721488 TGAGATTATA
1721498 TGTAAGACCATGCCT-GAGACATTGGCATCATTATATGATTACG
1 TGTAAGACCATGCCTGGA-ACATTGGCATCATTATATGATTACG
* * * **
1721541 TGTAAGACCATGTCTGGAACATTGGCATCGTTATTTGATTTTG
1 TGTAAGACCATGCCTGGAACATTGGCATCATTATATGATTACG
1721584 TGTAAGACCAT
1 TGTAAGACCAT
1721595 AGCTGGGCTA
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
43 46 0.96
44 2 0.04
ACGTcount: A:0.28, C:0.16, G:0.22, T:0.34
Consensus pattern (43 bp):
TGTAAGACCATGCCTGGAACATTGGCATCATTATATGATTACG
Found at i:1721611 original size:43 final size:43
Alignment explanation
Indices: 1721498--1721643 Score: 118
Period size: 43 Copynumber: 3.4 Consensus size: 43
1721488 TGAGATTATA
* * *
1721498 TGTAAGACCATGCCT-GAGACATTGGCATCATTATATGATTACG
1 TGTAAGACCATGTCTGGA-ACATCGGCATCGTTATATGATTACG
* * **
1721541 TGTAAGACCATGTCTGGAACATTGGCATCGTTATTTGATTTTG
1 TGTAAGACCATGTCTGGAACATCGGCATCGTTATATGATTACG
* * * * *
1721584 TGTAAGACCATAG-CTGG-GCTATCGGCATCGATATGTGATAACA
1 TGTAAGACCAT-GTCTGGAAC-ATCGGCATCGTTATATGATTACG
* *
1721627 TGTAAGACTATATCTGG
1 TGTAAGACCATGTCTGG
1721644 GAAAGTACGT
Statistics
Matches: 84, Mismatches: 15, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
42 1 0.01
43 80 0.95
44 3 0.04
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.32
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGAACATCGGCATCGTTATATGATTACG
Found at i:1726256 original size:37 final size:37
Alignment explanation
Indices: 1726206--1726284 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
1726196 TTATTACGAA
* * *
1726206 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
* *
1726243 GTCTTACCCGGACAAAATCCCCATACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
1726280 GTCTT
1 GTCTT
1726285 TAGAGCTCGG
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:1727482 original size:47 final size:47
Alignment explanation
Indices: 1726403--1727475 Score: 1993
Period size: 47 Copynumber: 22.8 Consensus size: 47
1726393 CCCTTCGGGA
* * * * * * *
1726403 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
* * *
1726450 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
*
1726497 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
* *
1726544 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGACCATTAGGC
1726593 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1726640 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1726687 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1726734 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1726781 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1726828 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1726875 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1726922 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1726969 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1727016 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1727063 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1727110 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1727157 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1727204 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1727251 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1727298 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
*
1727345 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
*
1727392 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
1727439 CTTATCACATATATACACTTTCACATTCATCACATCG
1 CTTATCACATATATACACTTTCACATTCATCACATCG
1727476 GTCATTACGC
Statistics
Matches: 1010, Mismatches: 14, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
47 964 0.95
49 46 0.05
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGACCATTAGGC
Found at i:1736432 original size:8 final size:8
Alignment explanation
Indices: 1736419--1736453 Score: 52
Period size: 8 Copynumber: 4.1 Consensus size: 8
1736409 AAGATTCAAT
1736419 AAATTAAA
1 AAATTAAA
1736427 AAATTAAA
1 AAATTAAA
1736435 AAATTAAATA
1 AAATT-AA-A
1736445 AAATTAAA
1 AAATTAAA
1736453 A
1 A
1736454 TTTAGGAGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 15 0.60
9 4 0.16
10 6 0.24
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (8 bp):
AAATTAAA
Done.