Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A11
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: 114316535
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4920000 characters in sequence are not A, C, G, or T
File 189 of 356
Found at i:61497510 original size:28 final size:28
Alignment explanation
Indices: 61497438--61497517 Score: 115
Period size: 29 Copynumber: 2.8 Consensus size: 28
61497428 CAATGAATGT
* *
61497438 GATTGGGCCTAATGGGCCATATGAATGT
1 GATTGGGCCTAATGGGCCATATGAAAGA
61497466 GATTTGGGCCTAATGGGCCATATGAAAGA
1 GA-TTGGGCCTAATGGGCCATATGAAAGA
* *
61497495 GATTGGGCCTAGTGGGCCTTATG
1 GATTGGGCCTAATGGGCCATATG
61497518 CATATATGTA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
28 21 0.45
29 26 0.55
ACGTcount: A:0.24, C:0.15, G:0.34, T:0.28
Consensus pattern (28 bp):
GATTGGGCCTAATGGGCCATATGAAAGA
Found at i:61514854 original size:17 final size:17
Alignment explanation
Indices: 61514828--61514866 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
61514818 AAACAGTCTA
* *
61514828 CCAAACCTTAAAGTTTG
1 CCAAAACTTAAAGTTCG
*
61514845 CCAAAACTTAGAGTTCG
1 CCAAAACTTAAAGTTCG
61514862 CCAAA
1 CCAAA
61514867 TAGAGAATCC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.26, G:0.13, T:0.23
Consensus pattern (17 bp):
CCAAAACTTAAAGTTCG
Found at i:61516571 original size:25 final size:23
Alignment explanation
Indices: 61516519--61516583 Score: 78
Period size: 25 Copynumber: 2.7 Consensus size: 23
61516509 TTGGAAAGAC
*
61516519 ATTT-TGGCTAATTCTCTAAAAG
1 ATTTGTGGTTAATTCTCTAAAAG
61516541 ATTTTGTGGTTAATTCTCTAAAAAG
1 A-TTTGTGGTTAATTCTCT-AAAAG
*
61516566 TATTTGTGGTAAATTCTC
1 -ATTTGTGGTTAATTCTC
61516584 CGAAAAGCCA
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
22 1 0.03
23 3 0.08
24 12 0.32
25 20 0.54
26 1 0.03
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (23 bp):
ATTTGTGGTTAATTCTCTAAAAG
Found at i:61516589 original size:25 final size:25
Alignment explanation
Indices: 61516543--61516590 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
61516533 TCTAAAAGAT
* *
61516543 TTTGTGGTTAATTCTCTAAAAAGTA
1 TTTGTGGTAAATTCTCCAAAAAGTA
*
61516568 TTTGTGGTAAATTCTCCGAAAAG
1 TTTGTGGTAAATTCTCCAAAAAG
61516591 CCATTGTGGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (25 bp):
TTTGTGGTAAATTCTCCAAAAAGTA
Found at i:61517062 original size:14 final size:14
Alignment explanation
Indices: 61517043--61517069 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
61517033 ACGCCATCCG
61517043 ATCAAATATAGAAA
1 ATCAAATATAGAAA
61517057 ATCAAATATAGAA
1 ATCAAATATAGAA
61517070 GGGTGAGGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.22
Consensus pattern (14 bp):
ATCAAATATAGAAA
Found at i:61520749 original size:48 final size:48
Alignment explanation
Indices: 61520678--61521015 Score: 604
Period size: 48 Copynumber: 7.0 Consensus size: 48
61520668 CAAGATAAAT
* * *
61520678 ATATATATGTGTGGTAAAGCCGAATGGGTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
61520726 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
61520774 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
61520822 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
61520870 ATATGCATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
61520918 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
*
61520966 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
61521014 AT
1 AT
61521016 GTGTGTATAT
Statistics
Matches: 280, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 280 1.00
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:61521206 original size:37 final size:37
Alignment explanation
Indices: 61521156--61521258 Score: 170
Period size: 37 Copynumber: 2.8 Consensus size: 37
61521146 GGAAATATAT
61521156 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
61521193 TCCGGGTAAGACCCAATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* *
61521230 TCTGGGTAAGACCCGATAACTACGTGTGG
1 TCCGGGTAAGACCCGATGACTACGTGTGG
61521259 GGACTATTCG
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 61 1.00
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:61527634 original size:28 final size:28
Alignment explanation
Indices: 61527600--61527653 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
61527590 CAATACAGTT
61527600 TGGGCCTAAGCCCA-TATCAGTAACAGAC
1 TGGGCCTAAGCCCATTA-CAGTAACAGAC
* *
61527628 TGGGCCTGAGCCTATTACAGTAACAG
1 TGGGCCTAAGCCCATTACAGTAACAG
61527654 TAATAGTGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 21 0.91
29 2 0.09
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (28 bp):
TGGGCCTAAGCCCATTACAGTAACAGAC
Found at i:61532807 original size:51 final size:50
Alignment explanation
Indices: 61532728--61532877 Score: 196
Period size: 49 Copynumber: 3.0 Consensus size: 50
61532718 TATTGTGAGG
*
61532728 TCACGTGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGATAACTTCGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-GATAACTTCGA
* * *
61532779 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACC-A-GACTGTTGA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGATAACT-TCGA
* * *
61532828 TCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAGCTTCG
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACC-GATAACTTCG
61532878 GCTACAAGTG
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
48 3 0.04
49 40 0.47
51 40 0.47
52 2 0.02
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.29
Consensus pattern (50 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCGATAACTTCGA
Found at i:61534263 original size:20 final size:20
Alignment explanation
Indices: 61534189--61534307 Score: 125
Period size: 20 Copynumber: 6.0 Consensus size: 20
61534179 TGTCAGTATA
61534189 TGGCACAAAGCCAT-AAGTAG
1 TGGCACAAAGCCATCAA-TAG
* * * *
61534209 CGGCTCGAAGCCATCAGTAG
1 TGGCACAAAGCCATCAATAG
*
61534229 CGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAG
61534249 TGGCACAAAGCCATCAATAG
1 TGGCACAAAGCCATCAATAG
** *
61534269 TGGCA-AATTTCCATGAATAG
1 TGGCACAA-AGCCATCAATAG
*
61534289 TGGCACAAAGCCATAAATA
1 TGGCACAAAGCCATCAATA
61534308 TCACAGTAAT
Statistics
Matches: 82, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
19 2 0.02
20 77 0.94
21 3 0.04
ACGTcount: A:0.38, C:0.24, G:0.22, T:0.17
Consensus pattern (20 bp):
TGGCACAAAGCCATCAATAG
Found at i:61535008 original size:8 final size:8
Alignment explanation
Indices: 61534995--61535021 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
61534985 AAGGCCATCC
61534995 TTTCGGCT
1 TTTCGGCT
61535003 TTTCGGCT
1 TTTCGGCT
61535011 TTTCGGCT
1 TTTCGGCT
61535019 TTT
1 TTT
61535022 GCGGATCTAT
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:0.00, C:0.22, G:0.22, T:0.56
Consensus pattern (8 bp):
TTTCGGCT
Found at i:61538941 original size:6 final size:6
Alignment explanation
Indices: 61538930--61538959 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
61538920 TTTTTTCTCG
*
61538930 TTTTGA TTTTGA TTTTGA TTTTCA TTTTGA
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA
61538960 GAAAACTACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.17, C:0.03, G:0.13, T:0.67
Consensus pattern (6 bp):
TTTTGA
Found at i:61542107 original size:51 final size:51
Alignment explanation
Indices: 61542029--61542132 Score: 190
Period size: 51 Copynumber: 2.0 Consensus size: 51
61542019 TCATGTTAAT
*
61542029 TGTATGCTTAACATTAATAAATGTAATTAGTAAGTTTTAACTCCTATTATA
1 TGTATGCTTAACATTAATAAATATAATTAGTAAGTTTTAACTCCTATTATA
*
61542080 TGTATGCTTAACATTAATAAATATAATTGGTAAGTTTTAACTCCTATTATA
1 TGTATGCTTAACATTAATAAATATAATTAGTAAGTTTTAACTCCTATTATA
61542131 TG
1 TG
61542133 AACTTACTAA
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.37, C:0.10, G:0.11, T:0.43
Consensus pattern (51 bp):
TGTATGCTTAACATTAATAAATATAATTAGTAAGTTTTAACTCCTATTATA
Found at i:61542641 original size:15 final size:15
Alignment explanation
Indices: 61542621--61542655 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
61542611 AGACAGAGGC
61542621 GTGTGTCTCAGCCGT
1 GTGTGTCTCAGCCGT
61542636 GTGTGTCTCAGCCGT
1 GTGTGTCTCAGCCGT
*
61542651 TTGTG
1 GTGTG
61542656 CTACATGGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.23, G:0.34, T:0.37
Consensus pattern (15 bp):
GTGTGTCTCAGCCGT
Found at i:61550469 original size:49 final size:50
Alignment explanation
Indices: 61550402--61550648 Score: 309
Period size: 49 Copynumber: 5.0 Consensus size: 50
61550392 AGCTATTGTG
* *
61550402 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * * *
61550452 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT-AGTT
* * * * *
61550502 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * *
61550552 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * *
61550602 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATAG
1 AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
61550649 CTTCGGCTAC
Statistics
Matches: 167, Mismatches: 28, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
49 81 0.49
50 48 0.29
51 38 0.23
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.29
Consensus pattern (50 bp):
AGGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:61550539 original size:28 final size:28
Alignment explanation
Indices: 61550507--61550590 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
61550497 AACTTCGATC
61550507 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
* * *
61550535 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGTGT-AGTACTAAGTGCAGGCTACT
61550557 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGTAGTACTAAGTGCAGGCTACT
61550585 ACGTGT
1 ACGTGT
61550591 ACCGGATAAT
Statistics
Matches: 42, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
21 2 0.05
22 8 0.19
23 2 0.05
24 3 0.07
25 6 0.14
26 3 0.07
27 2 0.05
28 14 0.33
29 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.30
Consensus pattern (28 bp):
ACGTGTGTAGTACTAAGTGCAGGCTACT
Found at i:61556143 original size:26 final size:26
Alignment explanation
Indices: 61556114--61556171 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 26
61556104 GAATTTTTGA
61556114 TGAAATGAGCTATTTG-GGG-TAAATTG
1 TGAAATGAG-T-TTTGAGGGATAAATTG
61556140 TGAAAATGAGTTTTGAGGGATTAAATTG
1 TG-AAATGAGTTTTGAGGGA-TAAATTG
61556168 TGAA
1 TGAA
61556172 TTAAATGAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
25 4 0.14
26 6 0.21
27 9 0.32
28 9 0.32
ACGTcount: A:0.34, C:0.02, G:0.29, T:0.34
Consensus pattern (26 bp):
TGAAATGAGTTTTGAGGGATAAATTG
Found at i:61556147 original size:27 final size:27
Alignment explanation
Indices: 61556116--61556171 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 27
61556106 ATTTTTGATG
61556116 AAATGAGCTATTTG-GGG-TAAATTGTGA
1 AAATGAG-T-TTTGAGGGATAAATTGTGA
61556143 AAATGAGTTTTGAGGGATTAAATTGTGA
1 AAATGAGTTTTGAGGGA-TAAATTGTGA
61556171 A
1 A
61556172 TTAAATGAGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 4 0.15
26 4 0.15
27 7 0.27
28 11 0.42
ACGTcount: A:0.36, C:0.02, G:0.29, T:0.34
Consensus pattern (27 bp):
AAATGAGTTTTGAGGGATAAATTGTGA
Found at i:61557777 original size:13 final size:13
Alignment explanation
Indices: 61557759--61557784 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
61557749 AGTATCATTG
61557759 TTATATAATATCT
1 TTATATAATATCT
61557772 TTATATAATATCT
1 TTATATAATATCT
61557785 GTGATTCTAT
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:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (13 bp):
TTATATAATATCT
Found at i:61567683 original size:38 final size:39
Alignment explanation
Indices: 61567631--61567839 Score: 172
Period size: 38 Copynumber: 5.0 Consensus size: 39
61567621 CGGAATGAAA
61567631 AACGTGGTGCTAAGTGGATATACCACGGTTATAA-ATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATAACATGT
* * *
61567669 AACGTGGTGGTAAGTGGATATACCACGATTACACATATTGATACATAT
1 AACGTGGTGCTAAGTGGATATACCACG-GT-----TA-T-A-ACATGT
* * *
61567717 AACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCGTT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATA-A--CA-T-G-T
61567764 AACGTGGTGCTAAGTGGATATACCACGGTTA-AACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATAACATGT
* *
61567802 AACGTGGTGCTATGTGGATATGCCACGGTTAT-ACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATAACATGT
61567840 TAGCCCAATA
Statistics
Matches: 139, Mismatches: 14, Indels: 36
0.74 0.07 0.19
Matches are distributed among these distances:
38 62 0.45
39 2 0.01
40 1 0.01
41 1 0.01
42 4 0.03
43 2 0.01
44 5 0.04
45 3 0.02
46 1 0.01
47 31 0.22
48 27 0.19
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (39 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATAACATGT
Found at i:61567790 original size:47 final size:48
Alignment explanation
Indices: 61567668--61567799 Score: 185
Period size: 48 Copynumber: 2.8 Consensus size: 48
61567658 GTTATAAATG
* *
61567668 TAACGTGGTGGTAAGTGGATATACCACGATTACACATATTGATACATA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATA
* * * * *
61567716 TAACATGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCGT-
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATA
*
61567763 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACACAT
61567800 GTAACGTGGT
Statistics
Matches: 73, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 33 0.45
48 40 0.55
ACGTcount: A:0.32, C:0.15, G:0.23, T:0.30
Consensus pattern (48 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACACATATTGATACATA
Found at i:61574135 original size:37 final size:36
Alignment explanation
Indices: 61574085--61574242 Score: 124
Period size: 37 Copynumber: 4.2 Consensus size: 36
61574075 AATCAAGTTA
*
61574085 AAATC-AGCAAACTGTAAAAATGATAGTCGCGATCTT
1 AAATCAAGCGAACTGTAAAAATGA-AGTCGCGATCTT
61574121 AAATCAAGCGAACTGTTAGAAAATTGAATGTCGCGATCTT
1 AAATCAAGCGAACTG-TA-AAAA-TGAA-GTCGCGATCTT
* * * * *
61574161 AAATC-AGTGAACTGTAAAAATAAAAGTTGTGATATT
1 AAATCAAGCGAACTGTAAAAAT-GAAGTCGCGATCTT
* * * *
61574197 AAAT-AGAGCGAACCGTAGAAATGACAGACGCAATCTT
1 AAATCA-AGCGAACTGTAAAAATGA-AGTCGCGATCTT
*
61574234 AAACCAAGC
1 AAATCAAGC
61574243 AACCTGTTAG
Statistics
Matches: 96, Mismatches: 16, Indels: 19
0.73 0.12 0.15
Matches are distributed among these distances:
36 19 0.20
37 40 0.42
38 5 0.05
39 13 0.14
40 19 0.20
ACGTcount: A:0.43, C:0.15, G:0.18, T:0.23
Consensus pattern (36 bp):
AAATCAAGCGAACTGTAAAAATGAAGTCGCGATCTT
Found at i:61574276 original size:77 final size:76
Alignment explanation
Indices: 61574189--61574763 Score: 321
Period size: 77 Copynumber: 7.5 Consensus size: 76
61574179 AATAAAAGTT
* * * ** *
61574189 GTGATATTAAAT-AGAGCGAACCGTAGAAATGACAGACGCAATCTTAAACCAAGCAACCTGTTAG
1 GTGATCTTAAATCA-AGCAAACCGTAAAAATGACAGTTGCAATCTTAAACCAAGCAAACTGTTAG
61574253 AATATCAAAGGTC
65 AATA-CAAAGGTC
** * * ** * ** *
61574266 GTGATCTTAAATTGAGCAAACCTTAAAAATAACAGTTGTGATATTAAACCGGGCAAATTGTTAGA
1 GTGATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCAATCTTAAACCAAGCAAACTGTTAGA
61574331 ATACTAAAGGTC
66 ATAC-AAAGGTC
*** * * * * * * ** *
61574343 ACAATCTTAAATCGAGAAAATCGTAAAAAGGACAGTTACAATCTTAAATCAATTAAACTATTAGA
1 GTGATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCAATCTTAAACCAAGCAAACTGTTAGA
*
61574408 ATAACGAAGGTC
66 AT-ACAAAGGTC
* ** * ** * *
61574420 GTGATCCTAAATCAAGCAAATAG-AAAAATGACAGTTGAAATCTTAAATAAATCAAACTATTAGA
1 GTGATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCAATCTTAAACCAAGCAAACTGTTAGA
61574484 ATATCAAAGGTC
66 ATA-CAAAGGTC
** * ** * *
61574496 -TCGATCTTAAATCAAGTGAACCTTAAAAATGACAGGCGCAATCTTAAATCGAA-TAAACTGTTA
1 GT-GATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCAATCTTAAA-CCAAGCAAACTGTTA
61574559 GAATACAAAGGTC
64 GAATACAAAGGTC
** * ** * * * ** *
61574572 ACGATCTTCAATCAAGTGAACCGTAAAAATGACAG-T-CATGATATTAAATCGAGTGAACTATTA
1 GTGATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCA--ATCTTAAACCAAGCAAACTGTTA
*
61574635 GAATACCAAAAGTC
64 GAATA-CAAAGGTC
* * * *
61574649 -TCGATCTTAAATCAAGCGAACCATAAAAAT-A-A-TAGCCATGATATTCAATA-C-AGCAAACT
1 GT-GATCTTAAATCAAGCAAACCGTAAAAATGACAGTTG-CA--ATCTT-AA-ACCAAGCAAACT
61574708 GTTAGAATACTAAAGGTC
60 GTTAGAATAC-AAAGGTC
** * *
61574726 ACGATCTTAAATTTAA-TAAACCGTAAAAATGACAGTTG
1 GTGATCTTAAA-TCAAGCAAACCGTAAAAATGACAGTTG
61574764 TGATTGATCG
Statistics
Matches: 386, Mismatches: 88, Indels: 45
0.74 0.17 0.09
Matches are distributed among these distances:
74 2 0.01
75 4 0.01
76 122 0.32
77 243 0.63
78 11 0.03
79 2 0.01
80 2 0.01
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.25
Consensus pattern (76 bp):
GTGATCTTAAATCAAGCAAACCGTAAAAATGACAGTTGCAATCTTAAACCAAGCAAACTGTTAGA
ATACAAAGGTC
Found at i:61574467 original size:76 final size:77
Alignment explanation
Indices: 61574367--61574664 Score: 245
Period size: 76 Copynumber: 3.9 Consensus size: 77
61574357 AGAAAATCGT
* *
61574367 AAAAAGGACAGTT-ACAATCTTAAATCAATTAAACTATTAGAATAACGAAGGTCGT-GATCCTAA
1 AAAAATGACAGTTGA-AATCTTAAATCAATTAAACTATTAGAATAACAAAGGTC-TCGATCCTAA
61574430 ATCAAG-CAA-ATAG
64 ATCAAGTCAACAT-G
* * * *
61574443 AAAAATGACAGTTGAAATCTTAAATAAATCAAACTATTAGAATATCAAAGGTCTCGATCTTAAAT
1 AAAAATGACAGTTGAAATCTTAAATCAATTAAACTATTAGAATAACAAAGGTCTCGATCCTAAAT
* * *
61574508 CAAGTGAACCTT
66 CAAGTCAACATG
** * * * * *
61574520 AAAAATGACAGGCGCAATCTTAAATCGAA-TAAACTGTTAGAAT-ACAAAGGTCACGATCTTCAA
1 AAAAATGACAGTTGAAATCTTAAATC-AATTAAACTATTAGAATAACAAAGGTCTCGATCCTAAA
* *
61574583 TCAAGTGAAC-CG
65 TCAAGTCAACATG
* * * * * * *
61574595 TAAAAATGACAGTCATG--ATATTAAATCGAGTGAACTATTAGAATACCAAAAGTCTCGATCTTA
1 -AAAAATGACAGT--TGAAATCTTAAATCAATTAAACTATTAGAATAACAAAGGTCTCGATCCTA
61574658 AATCAAG
63 AATCAAG
61574665 CGAACCATAA
Statistics
Matches: 182, Mismatches: 30, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
75 2 0.01
76 118 0.65
77 58 0.32
78 4 0.02
ACGTcount: A:0.45, C:0.15, G:0.14, T:0.25
Consensus pattern (77 bp):
AAAAATGACAGTTGAAATCTTAAATCAATTAAACTATTAGAATAACAAAGGTCTCGATCCTAAAT
CAAGTCAACATG
Found at i:61574523 original size:153 final size:151
Alignment explanation
Indices: 61574326--61574677 Score: 343
Period size: 153 Copynumber: 2.3 Consensus size: 151
61574316 GGGCAAATTG
* * * * * * **
61574326 TTAGAATACTAAAGGTCACAATCTTAAATCGAGAAAATCGTAAAAAGGACAGTTACAATCTTAAA
1 TTAGAATAC-AAAGGTCTCGATCTTAAATCAAGAGAACCATAAAAAGGACAGGCACAATCTTAAA
* ** *
61574391 TC-AATTAAACTATTAGAATAACGAAGGTCGTGATCCTAAATCAAGCAAATAG-AAAAATGACAG
65 TCGAA-TAAACTATTAGAAT-ACAAAGGTCACGATCCTAAATCAAGCAAACAGTAAAAATGACAG
*
61574454 T-TGAAATCTTAAAT-AAATCAAACTA
128 TATG--ATATTAAATCAAAT-AAACTA
* * * *
61574479 TTAGAATATCAAAGGTCTCGATCTTAAATCAAGTGAACCTTAAAAATGACAGGCGCAATCTTAAA
1 TTAGAATA-CAAAGGTCTCGATCTTAAATCAAGAGAACCATAAAAAGGACAGGCACAATCTTAAA
* * * ** *
61574544 TCGAATAAACTGTTAGAATACAAAGGTCACGATCTTCAATCAAGTGAACCGTAAAAATGACAGTC
65 TCGAATAAACTATTAGAATACAAAGGTCACGATCCTAAATCAAGCAAACAGTAAAAATGACAGT-
* * *
61574609 ATGATATTAAATCGAGTGAACTA
129 ATGATATTAAATCAAATAAACTA
* *
61574632 TTAGAATACCAAAAGTCTCGATCTTAAATCAAGCGAACCATAAAAA
1 TTAGAATA-CAAAGGTCTCGATCTTAAATCAAGAGAACCATAAAAA
61574678 TAATAGCCAT
Statistics
Matches: 164, Mismatches: 29, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
152 23 0.14
153 134 0.82
154 5 0.03
155 2 0.01
ACGTcount: A:0.45, C:0.16, G:0.14, T:0.25
Consensus pattern (151 bp):
TTAGAATACAAAGGTCTCGATCTTAAATCAAGAGAACCATAAAAAGGACAGGCACAATCTTAAAT
CGAATAAACTATTAGAATACAAAGGTCACGATCCTAAATCAAGCAAACAGTAAAAATGACAGTAT
GATATTAAATCAAATAAACTA
Found at i:61574678 original size:153 final size:153
Alignment explanation
Indices: 61574474--61574761 Score: 386
Period size: 153 Copynumber: 1.9 Consensus size: 153
61574464 AAATAAATCA
* * * * *
61574474 AACTATTAGAATATCAAAGGTCTCGATCTTAAATCAAGTGAACCTTAAAAATGACAGGCGCA-AT
1 AACTATTAGAATACCAAAAGTCTCGATCTTAAATCAAGCGAACCATAAAAATAACA-GC-CAGAT
* * * *
61574538 CTTAAAT-CGAATAAACTGTTAGAATAC-AAAGGTCACGATCTTCAA-TCAAGTGAACCGTAAAA
64 ATTAAATAC-AACAAACTGTTAGAATACTAAAGGTCACGATCTTAAATTCAA-TAAACCGTAAAA
61574600 ATGACAGTCATGATATTAAATCGAGTG
127 ATGACAGTCATGATATTAAATCGAGTG
*
61574627 AACTATTAGAATACCAAAAGTCTCGATCTTAAATCAAGCGAACCATAAAAATAATAGCCATGATA
1 AACTATTAGAATACCAAAAGTCTCGATCTTAAATCAAGCGAACCATAAAAATAACAGCCA-GATA
* * *
61574692 TTCAATACAGCAAACTGTTAGAATACTAAAGGTCACGATCTTAAATTTAATAAACCGTAAAAATG
65 TTAAATACAACAAACTGTTAGAATACTAAAGGTCACGATCTTAAATTCAATAAACCGTAAAAATG
61574757 ACAGT
130 ACAGT
61574762 TGTGATTGAT
Statistics
Matches: 117, Mismatches: 13, Indels: 9
0.84 0.09 0.06
Matches are distributed among these distances:
151 2 0.02
152 2 0.02
153 73 0.62
154 37 0.32
155 3 0.03
ACGTcount: A:0.44, C:0.17, G:0.14, T:0.25
Consensus pattern (153 bp):
AACTATTAGAATACCAAAAGTCTCGATCTTAAATCAAGCGAACCATAAAAATAACAGCCAGATAT
TAAATACAACAAACTGTTAGAATACTAAAGGTCACGATCTTAAATTCAATAAACCGTAAAAATGA
CAGTCATGATATTAAATCGAGTG
Found at i:61582391 original size:40 final size:40
Alignment explanation
Indices: 61582298--61582522 Score: 233
Period size: 40 Copynumber: 5.7 Consensus size: 40
61582288 GCTCCTCGTT
* * * *
61582298 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
61582338 C-AATGCCTTCGGGACTTAACCCAGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* *
61582377 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
61582417 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCA
** * * * *
61582457 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
61582498 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
61582523 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 22, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.24
40 104 0.66
41 15 0.10
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:61582531 original size:41 final size:41
Alignment explanation
Indices: 61582454--61582531 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61582444 TTTGTATCTC
* * *
61582454 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61582495 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61582532 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61585866 original size:40 final size:40
Alignment explanation
Indices: 61585780--61585877 Score: 117
Period size: 40 Copynumber: 2.5 Consensus size: 40
61585770 TTTATTAGTG
* *
61585780 ATCTTAAATCAAGTGAACTATTAGAATACCGAATGTCACA
1 ATCTTAAATCAAGTGAACTATTAGAATACAGAAGGTCACA
* * * *
61585820 ATCTTAAATCGAGTGAACTGTTAGAATATAGAAGGTCTCGA
1 ATCTTAAATCAAGTGAACTATTAGAATACAGAAGGTCAC-A
*
61585861 A-CTTAAATCAAGAGAAC
1 ATCTTAAATCAAGTGAAC
61585878 CTTAAAAATG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
40 47 0.96
41 2 0.04
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (40 bp):
ATCTTAAATCAAGTGAACTATTAGAATACAGAAGGTCACA
Found at i:61586218 original size:25 final size:25
Alignment explanation
Indices: 61586190--61586238 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
61586180 ATATTTTTTA
* *
61586190 TAGTATATCCTGAAACTGCTATAGG
1 TAGTATATACTGAAACTACTATAGG
*
61586215 TAGTATATACTGAGACTACTATAG
1 TAGTATATACTGAAACTACTATAG
61586239 ATAGACTGTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (25 bp):
TAGTATATACTGAAACTACTATAGG
Found at i:61617302 original size:20 final size:19
Alignment explanation
Indices: 61617276--61617334 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
61617266 AGCAATGAAT
*
61617276 CTGTTCACCAAGAGATATAA
1 CTGTTCA-CAAGAGATACAA
*
61617296 TTGTTCA-AA-AGATACAA
1 CTGTTCACAAGAGATACAA
*
61617313 CTGTTCATCAAGAGATAGAA
1 CTGTTCA-CAAGAGATACAA
61617333 CT
1 CT
61617335 ATTGTTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
17 13 0.41
18 2 0.06
19 2 0.06
20 15 0.47
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (19 bp):
CTGTTCACAAGAGATACAA
Found at i:61617878 original size:52 final size:52
Alignment explanation
Indices: 61617800--61617906 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
61617790 TAGGGACCTT
61617800 TGGTTGAGTCACTAATAATCAAGTGTTTTTTTTAAAATAATAAAATGAACTA
1 TGGTTGAGTCACTAATAATCAAGTGTTTTTTTTAAAATAATAAAATGAACTA
* *
61617852 TGGTTGAGTCACTAATAATCAAGTGTTTTTTTTTAAATGATAAAATGAACTA
1 TGGTTGAGTCACTAATAATCAAGTGTTTTTTTTAAAATAATAAAATGAACTA
61617904 TGG
1 TGG
61617907 ATCTTATAGG
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.37, C:0.07, G:0.16, T:0.39
Consensus pattern (52 bp):
TGGTTGAGTCACTAATAATCAAGTGTTTTTTTTAAAATAATAAAATGAACTA
Found at i:61618996 original size:27 final size:28
Alignment explanation
Indices: 61618933--61618998 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
61618923 TAAACGTGAG
*
61618933 TCTTATTTAGATATATTTCAATTATTAA
1 TCTTATTTATATATATTTCAATTATTAA
*
61618961 T-TTATTTATATATAATTT-AATT-TTTA
1 TCTTATTTATATAT-ATTTCAATTATTAA
61618987 TCTTATTTATAT
1 TCTTATTTATAT
61618999 GAATGTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
26 4 0.12
27 25 0.74
28 5 0.15
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.61
Consensus pattern (28 bp):
TCTTATTTATATATATTTCAATTATTAA
Found at i:61621380 original size:20 final size:19
Alignment explanation
Indices: 61621344--61621382 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
61621334 TGATTCATGT
61621344 TTTTAAAATTTAGTATTAA
1 TTTTAAAATTTAGTATTAA
* *
61621363 TTTTACAATTATATTATTAA
1 TTTTAAAATT-TAGTATTAA
61621383 AAAAATTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTTAAAATTTAGTATTAA
Found at i:61624130 original size:6 final size:6
Alignment explanation
Indices: 61624119--61624163 Score: 54
Period size: 6 Copynumber: 7.0 Consensus size: 6
61624109 GGTTAAACTA
*
61624119 TTTATT TTTATT TTTATT ATTTCTTT ATTTATT TTTATT TTTATT
1 TTTATT TTTATT TTTATT -TTT-ATT -TTTATT TTTATT TTTATT
61624164 ATTTCTTTCC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
6 24 0.69
7 5 0.14
8 6 0.17
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTATT
Found at i:61624140 original size:15 final size:15
Alignment explanation
Indices: 61624120--61624167 Score: 57
Period size: 15 Copynumber: 3.4 Consensus size: 15
61624110 GTTAAACTAT
61624120 TTATTTTTATTTTTA
1 TTATTTTTATTTTTA
* *
61624135 TTA--TTTCTTTAT-
1 TTATTTTTATTTTTA
61624147 TTATTTTTATTTTTA
1 TTATTTTTATTTTTA
61624162 TTATTT
1 TTATTT
61624168 CTTTCCCTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 6
0.72 0.11 0.17
Matches are distributed among these distances:
12 3 0.12
13 7 0.27
14 7 0.27
15 9 0.35
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (15 bp):
TTATTTTTATTTTTA
Found at i:61624155 original size:27 final size:27
Alignment explanation
Indices: 61624117--61624171 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
61624107 AGGGTTAAAC
61624117 TATTTATTTTTATTTTTATTATTTCTT
1 TATTTATTTTTATTTTTATTATTTCTT
61624144 TATTTATTTTTATTTTTATTATTTCTT
1 TATTTATTTTTATTTTTATTATTTCTT
61624171 T
1 T
61624172 CCCTATTATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.78
Consensus pattern (27 bp):
TATTTATTTTTATTTTTATTATTTCTT
Found at i:61624178 original size:27 final size:27
Alignment explanation
Indices: 61624121--61624187 Score: 89
Period size: 27 Copynumber: 2.4 Consensus size: 27
61624111 TTAAACTATT
**
61624121 TATTTTTATTTTTATTATTTCTTTATT
1 TATTTTTATTTTTATTATTTCTTTACC
*
61624148 TATTTTTATTTTTATTATTTCTTTCCC
1 TATTTTTATTTTTATTATTTCTTTACC
*
61624175 TATTATTTCTTTT
1 TATT-TTTATTTT
61624188 CTTTTTCTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
27 28 0.80
28 7 0.20
ACGTcount: A:0.16, C:0.09, G:0.00, T:0.75
Consensus pattern (27 bp):
TATTTTTATTTTTATTATTTCTTTACC
Found at i:61624202 original size:17 final size:17
Alignment explanation
Indices: 61624125--61624217 Score: 63
Period size: 17 Copynumber: 5.6 Consensus size: 17
61624115 ACTATTTATT
*
61624125 TTTATTTTTATTAT-TTC
1 TTTATTTTTCTT-TCTTC
*
61624142 TTTATTTATT-TTTATT-
1 TTTATTT-TTCTTTCTTC
*
61624158 TTTATTATTTCTTTC-CC
1 TTTATT-TTTCTTTCTTC
*
61624175 TATTATTTCT-TTTCTT-
1 T-TTATTTTTCTTTCTTC
*
61624191 TTTCTTTTTCTTTCTTC
1 TTTATTTTTCTTTCTTC
61624208 TTTATTTTTC
1 TTTATTTTTC
61624218 AGCAACCCCT
Statistics
Matches: 60, Mismatches: 7, Indels: 18
0.71 0.08 0.21
Matches are distributed among these distances:
15 6 0.10
16 20 0.33
17 27 0.45
18 7 0.12
ACGTcount: A:0.12, C:0.13, G:0.00, T:0.75
Consensus pattern (17 bp):
TTTATTTTTCTTTCTTC
Found at i:61625273 original size:13 final size:14
Alignment explanation
Indices: 61625245--61625292 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
61625235 CATAAAAGAG
*
61625245 ATAAATATCATAAA
1 ATAAATAACATAAA
61625259 ATAAATAAC-TAAA
1 ATAAATAACATAAA
61625272 ATAAATAAACAATAAA
1 ATAAAT-AAC-ATAAA
61625288 ATAAA
1 ATAAA
61625293 CAAACAACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
13 10 0.33
14 11 0.37
16 9 0.30
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (14 bp):
ATAAATAACATAAA
Found at i:61625289 original size:16 final size:16
Alignment explanation
Indices: 61625254--61625304 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
61625244 GATAAATATC
61625254 ATAAAATAAAT-AAC-
1 ATAAAATAAATAAACA
61625268 -TAAAATAAATAAACA
1 ATAAAATAAATAAACA
*
61625283 ATAAAATAAACAAACA
1 ATAAAATAAATAAACA
61625299 ACTAAA
1 A-TAAA
61625305 CCAATTAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
13 10 0.31
14 3 0.09
16 15 0.47
17 4 0.12
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.18
Consensus pattern (16 bp):
ATAAAATAAATAAACA
Found at i:61625930 original size:16 final size:16
Alignment explanation
Indices: 61625909--61625939 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
61625899 TAAAAGACGA
61625909 CCTAGTTACATCAAAT
1 CCTAGTTACATCAAAT
61625925 CCTAGTTACATCAAA
1 CCTAGTTACATCAAA
61625940 CCCTTAAGGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.39, C:0.26, G:0.06, T:0.29
Consensus pattern (16 bp):
CCTAGTTACATCAAAT
Found at i:61627931 original size:20 final size:20
Alignment explanation
Indices: 61627908--61627959 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
61627898 TTATAAAAAC
* *
61627908 AATTCAAATTGATTTTCAAA
1 AATTCAAAATAATTTTCAAA
61627928 AATTCAAAATAATTTTCAAA
1 AATTCAAAATAATTTTCAAA
*
61627948 AAGTTCTAAATA
1 AA-TTCAAAATA
61627960 TATATGAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 20 0.71
21 8 0.29
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (20 bp):
AATTCAAAATAATTTTCAAA
Found at i:61631119 original size:90 final size:90
Alignment explanation
Indices: 61631008--61631190 Score: 312
Period size: 90 Copynumber: 2.0 Consensus size: 90
61630998 GTTAAATAAT
* *
61631008 TAAATCATTAATTATACAAAAATATATAGAAGAGTACAAAATCATTTTTAACTTTAAAGTTTAAG
1 TAAATCATTAATTATACAAAAATATATAGAAGAGTACAAAACCATTTTTAACTTTAAAGTTTAAA
*
61631073 AACCAATTTAAAATGAGAATTACAG
66 AACCAATTTAAAATGAAAATTACAG
* *
61631098 TAAATTATTAATTATATAAAAATATATAGAAGAGTACAAAACCATTTTTAACTTTAAAGTTTAAA
1 TAAATCATTAATTATACAAAAATATATAGAAGAGTACAAAACCATTTTTAACTTTAAAGTTTAAA
*
61631163 AATCAATTTAAAATGAAAATTACAG
66 AACCAATTTAAAATGAAAATTACAG
61631188 TAA
1 TAA
61631191 TTAACTTTAA
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 87 1.00
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (90 bp):
TAAATCATTAATTATACAAAAATATATAGAAGAGTACAAAACCATTTTTAACTTTAAAGTTTAAA
AACCAATTTAAAATGAAAATTACAG
Found at i:61634464 original size:23 final size:22
Alignment explanation
Indices: 61634424--61634470 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
61634414 TGTCATTAAT
61634424 AAAAATTTAAAAATATATCTTA
1 AAAAATTTAAAAATATATCTTA
*
61634446 AAAAATTTGAATAAA-ATATTTTA
1 AAAAATTT-AA-AAATATATCTTA
61634469 AA
1 AA
61634471 TTTAATTAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 8 0.36
23 11 0.50
24 3 0.14
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
AAAAATTTAAAAATATATCTTA
Found at i:61634933 original size:21 final size:21
Alignment explanation
Indices: 61634895--61634934 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
61634885 TAAAAACATC
* * *
61634895 AAACCCGAAATTTGAAATTAG
1 AAACCCAAAATCTCAAATTAG
61634916 AAACCCAAAATCTCAAATT
1 AAACCCAAAATCTCAAATT
61634935 TAAACTTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.20, G:0.07, T:0.23
Consensus pattern (21 bp):
AAACCCAAAATCTCAAATTAG
Found at i:61636687 original size:6 final size:6
Alignment explanation
Indices: 61636676--61636701 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
61636666 TAATTTTTTT
61636676 AACCTA AACCTA AACCTA AACCTA AA
1 AACCTA AACCTA AACCTA AACCTA AA
61636702 TCTTAACCCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (6 bp):
AACCTA
Found at i:61636709 original size:18 final size:18
Alignment explanation
Indices: 61636676--61636714 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
61636666 TAATTTTTTT
*
61636676 AACCTAAACCTAAACCTA
1 AACCTAAACCTAAACCCA
* *
61636694 AACCTAAATCTTAACCCA
1 AACCTAAACCTAAACCCA
61636712 AAC
1 AAC
61636715 TCGAACCCCG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.49, C:0.33, G:0.00, T:0.18
Consensus pattern (18 bp):
AACCTAAACCTAAACCCA
Found at i:61636830 original size:29 final size:29
Alignment explanation
Indices: 61636767--61636832 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
61636757 AAAGTTCAAG
*
61636767 TTAAAAAATTATTAAAATTATGATAATGA
1 TTAAAAAATTATTAAAATTATGATAATAA
*
61636796 TATAAAAAA-TATTAAAA-TATTATTAAATAA
1 T-TAAAAAATTATTAAAATTATGA-T-AATAA
61636826 TTAAAAA
1 TTAAAAA
61636833 GAGATGTTGG
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
28 4 0.12
29 16 0.50
30 12 0.38
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (29 bp):
TTAAAAAATTATTAAAATTATGATAATAA
Found at i:61637333 original size:20 final size:21
Alignment explanation
Indices: 61637298--61637346 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
61637288 CACATTAATA
* *
61637298 TAATATTTAC-TTTTTATGAT
1 TAATATTTACAATTTAATGAT
*
61637318 TAATATTTACAATTTAATTAT
1 TAATATTTACAATTTAATGAT
61637339 TAA-ATTTA
1 TAATATTTA
61637347 TTAATATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 15 0.60
21 10 0.40
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (21 bp):
TAATATTTACAATTTAATGAT
Found at i:61638692 original size:12 final size:11
Alignment explanation
Indices: 61638675--61638719 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 11
61638665 ATTAGAGAAA
61638675 AATAAAATGAAT
1 AATAAAAT-AAT
61638687 AATAAAATAAAT
1 AATAAAAT-AAT
*
61638699 AATAACAATAAC
1 AATAA-AATAAT
61638711 AATAAAATA
1 AATAAAATA
61638720 GGCATCAATC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
11 4 0.13
12 23 0.77
13 3 0.10
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (11 bp):
AATAAAATAAT
Found at i:61639036 original size:3 final size:3
Alignment explanation
Indices: 61639028--61639057 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
61639018 AAAAGAAAGT
61639028 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
61639058 TCTAAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:61640914 original size:44 final size:45
Alignment explanation
Indices: 61640842--61640951 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 45
61640832 GTTCCAACCT
* * *
61640842 ACTGCAACTTCAAGGTTATAGGAATTGTTG-CTTTAATATGCTCC
1 ACTGCAACTTCAAGGATATAAGAATTGTTGTCTTTAACATGCTCC
* * * *
61640886 ACTGCATCTTCAAGGATATAAGACTTGTTGTTTTTAACCTGCTCC
1 ACTGCAACTTCAAGGATATAAGAATTGTTGTCTTTAACATGCTCC
* * *
61640931 ATTGTAACTTCAAGGAGATAA
1 ACTGCAACTTCAAGGATATAA
61640952 TGTTTGGCTT
Statistics
Matches: 54, Mismatches: 11, Indels: 1
0.82 0.17 0.02
Matches are distributed among these distances:
44 26 0.48
45 28 0.52
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (45 bp):
ACTGCAACTTCAAGGATATAAGAATTGTTGTCTTTAACATGCTCC
Found at i:61641196 original size:96 final size:96
Alignment explanation
Indices: 61640983--61641197 Score: 315
Period size: 96 Copynumber: 2.2 Consensus size: 96
61640973 ATCTGACATA
** * **
61640983 TTGCAACTTCAAAGAGATAAGATCCGTAACTTGTAGCTTCAATCTGCTCCACTGTAACTTTAGGG
1 TTGCAACTTCAGGGAGATAAGGTCCGTAACTTGTAGCTTCAATCTGCTCCACTACAACTTTAGGG
*
61641048 AAATGAAATTCATTATCTTCAGTCTGCTTTG
66 AAATGAAATTCACTATCTTCAGTCTGCTTTG
* * *
61641079 CTGCAACTTTAGGGAGATAAGGTCCGTAACTTGTAGCTTCAATTTGCTCCACTACAACTTTAGGG
1 TTGCAACTTCAGGGAGATAAGGTCCGTAACTTGTAGCTTCAATCTGCTCCACTACAACTTTAGGG
* *
61641144 AAATGAGATTCGCTATCTTCAGTCTGCTCTT-
66 AAATGAAATTCACTATCTTCAGTCTGCT-TTG
61641175 TTGCAACTTCAGGGAGATAAGGT
1 TTGCAACTTCAGGGAGATAAGGT
61641198 TGGTGGTTTC
Statistics
Matches: 105, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
96 103 0.98
97 2 0.02
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (96 bp):
TTGCAACTTCAGGGAGATAAGGTCCGTAACTTGTAGCTTCAATCTGCTCCACTACAACTTTAGGG
AAATGAAATTCACTATCTTCAGTCTGCTTTG
Found at i:61641468 original size:44 final size:45
Alignment explanation
Indices: 61641347--61641468 Score: 117
Period size: 45 Copynumber: 2.7 Consensus size: 45
61641337 AGGCTTTTGG
* * *
61641347 CTTCAATCTGCTCCACTGCAACTTCAG-GAAGATAAGATCCGCCAT
1 CTTCAATCTGCTCCACTGCTACTTCAGAG-AGATAAGATCCGACAA
* * * *
61641392 CTTCGATCTACTCCACTG-TAACTTTA-AGGAGATAAGAT-CTACAA
1 CTTCAATCTGCTCCACTGCT-ACTTCAGA-GAGATAAGATCCGACAA
*
61641436 CTTCAATTTGCTCCACTGCTACTTCAGAGAGAT
1 CTTCAATCTGCTCCACTGCTACTTCAGAGAGAT
61641469 GGGATTTGTG
Statistics
Matches: 61, Mismatches: 11, Indels: 11
0.73 0.13 0.13
Matches are distributed among these distances:
44 28 0.46
45 32 0.52
46 1 0.02
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.29
Consensus pattern (45 bp):
CTTCAATCTGCTCCACTGCTACTTCAGAGAGATAAGATCCGACAA
Found at i:61642068 original size:65 final size:65
Alignment explanation
Indices: 61641958--61642081 Score: 176
Period size: 65 Copynumber: 1.9 Consensus size: 65
61641948 AATGATGGAC
* * * * * * *
61641958 AAGAAGGAAATTGATTGAGAGTATAGCTCTAGACGAATAAGTTAATCAAAGATGGCAAATACAAT
1 AAGAAAGAAATTGATTGAGAGCATAGCTCGAAACGAACAAATTAATCAAAGATAGCAAATACAAT
*
61642023 AAGAAAGAAATTGATTGAGAGCATAGCTCGAAATGAACAAATTAATCAAAGATAGCAAA
1 AAGAAAGAAATTGATTGAGAGCATAGCTCGAAACGAACAAATTAATCAAAGATAGCAAA
61642082 CTTTGCTAAA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
65 51 1.00
ACGTcount: A:0.49, C:0.10, G:0.20, T:0.21
Consensus pattern (65 bp):
AAGAAAGAAATTGATTGAGAGCATAGCTCGAAACGAACAAATTAATCAAAGATAGCAAATACAAT
Found at i:61642534 original size:1 final size:1
Alignment explanation
Indices: 61642524--61642590 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
61642514 TGGCCTCTCC
* * * * * * * *
61642524 TTTTTCTTTTTTCTTTTTTTCTTTTCTTTTTCTTTTTTTTTCTTTTTTTCTTTTTTCTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
61642589 TT
1 TT
61642591 GAAGTGAAGT
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (1 bp):
T
Found at i:61642536 original size:7 final size:7
Alignment explanation
Indices: 61642524--61642590 Score: 77
Period size: 7 Copynumber: 9.4 Consensus size: 7
61642514 TGGCCTCTCC
61642524 TTTTTCT
1 TTTTTCT
61642531 TTTTTCTT
1 TTTTTC-T
61642539 TTTTTCT
1 TTTTTCT
61642546 TTTCTT-T
1 TTT-TTCT
61642553 TTCTTT-T
1 TT-TTTCT
61642560 TTTTTCTT
1 TTTTTC-T
61642568 TTTTTCT
1 TTTTTCT
61642575 TTTTTCT
1 TTTTTCT
61642582 TTTTT-T
1 TTTTTCT
61642588 TTT
1 TTT
61642591 GAAGTGAAGT
Statistics
Matches: 55, Mismatches: 0, Indels: 11
0.83 0.00 0.17
Matches are distributed among these distances:
6 7 0.13
7 31 0.56
8 17 0.31
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:61642572 original size:29 final size:27
Alignment explanation
Indices: 61642523--61642590 Score: 100
Period size: 29 Copynumber: 2.4 Consensus size: 27
61642513 TTGGCCTCTC
61642523 CTTTTTCTTTTTTCTTTTTTTCTTTTCTT
1 CTTTTT-TTTTTTCTTTTTTTCTTTT-TT
*
61642552 TTTCTTTTTTTTTCTTTTTTTCTTTTTT
1 CTT-TTTTTTTTTCTTTTTTTCTTTTTT
61642580 CTTTTTTTTTT
1 CTTTTTTTTTT
61642591 GAAGTGAAGT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
27 8 0.22
28 4 0.11
29 21 0.58
30 3 0.08
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (27 bp):
CTTTTTTTTTTTCTTTTTTTCTTTTTT
Found at i:61647621 original size:16 final size:15
Alignment explanation
Indices: 61647600--61647629 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
61647590 CAATTAGAGA
61647600 AAAATAAATGAATAAT
1 AAAATAAAT-AATAAT
61647616 AAAATAAATAATAA
1 AAAATAAATAATAA
61647630 CAATAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.73, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
AAAATAAATAATAAT
Found at i:61647952 original size:3 final size:3
Alignment explanation
Indices: 61647944--61648032 Score: 171
Period size: 3 Copynumber: 30.0 Consensus size: 3
61647934 AAAAGAAAGT
61647944 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
61647992 ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
61648033 GAATCTAAAT
Statistics
Matches: 85, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
2 2 0.02
3 83 0.98
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:61650773 original size:46 final size:46
Alignment explanation
Indices: 61650723--61650895 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 46
61650713 TGGTTGAGCA
61650723 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
61650769 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
61650814 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-C
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
61650861 ACCGTAGCTCGTTGAGTTGAGTTCGAGTTCACTTA
1 TCCG-AACTCGTTGAGTTGAGTCCGAGTTCACTTA
61650896 GGGGCGGGTT
Statistics
Matches: 104, Mismatches: 13, Indels: 20
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 6 0.06
46 56 0.54
47 29 0.28
48 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:61650879 original size:93 final size:93
Alignment explanation
Indices: 61650720--61650890 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
61650710 GGATGGTTGA
**
61650720 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAGT
61650785 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
61650813 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAA-CACCGTAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCG-AACTCGTTGAG
*
61650877 TTGAGTTCGAGTTC
65 TTGAGTCCGAGTTC
61650891 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
92 3 0.04
93 69 0.96
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATCACCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:61651157 original size:19 final size:20
Alignment explanation
Indices: 61651120--61651157 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
61651110 ATAAGGTGGT
61651120 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
61651140 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
61651158 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:61663879 original size:40 final size:40
Alignment explanation
Indices: 61663781--61664083 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
61663771 TCCTCGTTCA
* * * * *
61663781 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
61663820 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
61663860 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61663900 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61663940 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
61663980 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
61664020 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
61664060 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61664084 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:61671873 original size:40 final size:40
Alignment explanation
Indices: 61671775--61672077 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
61671765 TCCTCGTTCA
* * * * *
61671775 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
61671814 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
61671854 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61671894 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61671934 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
61671974 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
61672014 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
61672054 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61672078 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:61673925 original size:40 final size:40
Alignment explanation
Indices: 61673827--61674129 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
61673817 TCCTCGTTCA
* * * * *
61673827 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
61673866 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
61673906 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61673946 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
61673986 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
61674026 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
61674066 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
61674106 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
61674130 CAGCATTCAA
Statistics
Matches: 240, Mismatches: 20, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 37 0.15
40 195 0.81
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:61678217 original size:27 final size:27
Alignment explanation
Indices: 61678186--61678363 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
61678176 TAAATTGTAC
61678186 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
61678213 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61678239 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
61678267 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
*
61678295 AGCACTAAGTGTGCGATTTGATTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
61678322 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
61678349 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
61678364 GACTCGATAT
Statistics
Matches: 131, Mismatches: 17, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
27 108 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:61678300 original size:82 final size:81
Alignment explanation
Indices: 61678187--61678342 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
61678177 AAATTGTACA
*
61678187 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTA-GCACTAAGTG
61678251 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
61678268 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTG
*
61678333 TGCGAGTTGA
65 TGCGAATTGA
61678343 TTATATAGCA
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:61678354 original size:82 final size:81
Alignment explanation
Indices: 61678183--61678363 Score: 238
Period size: 82 Copynumber: 2.2 Consensus size: 81
61678173 GATTAAATTG
*
61678183 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
61678248 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
61678264 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTATG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGAT-GCACT
* **
61678328 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
61678346 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
61678364 GACTCGATAT
Statistics
Matches: 85, Mismatches: 13, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
81 18 0.21
82 67 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATATGATGCACTAA
GTGTGCGAATTGACCA
Found at i:61684815 original size:46 final size:46
Alignment explanation
Indices: 61684763--61684935 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
61684753 TGGTTGAGCA
61684763 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
61684809 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
61684854 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
61684902 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
61684936 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 59 0.56
47 28 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:61684919 original size:93 final size:93
Alignment explanation
Indices: 61684760--61684930 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
61684750 GGATGGTTGA
**
61684760 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
61684825 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
61684853 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
61684918 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
61684931 ACTTAGGGGC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:61685197 original size:19 final size:20
Alignment explanation
Indices: 61685160--61685197 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
61685150 ATAAGGTGGT
61685160 AAGATGATGAATGATGTTTA
1 AAGATGATGAATGATGTTTA
61685180 AAGATG-TGATAT-ATGTTT
1 AAGATGATGA-ATGATGTTT
61685198 TGGTGGTACC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.37, C:0.00, G:0.24, T:0.39
Consensus pattern (20 bp):
AAGATGATGAATGATGTTTA
Found at i:61687515 original size:47 final size:46
Alignment explanation
Indices: 61687426--61687516 Score: 123
Period size: 47 Copynumber: 2.0 Consensus size: 46
61687416 AGAGTGAGTA
*
61687426 TCATTGAGATAGCTTCGGCTATGCATTGGCACTTCGTGTGCGAGAT
1 TCATTGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGAT
*
61687472 TCATTGAGATAGCTTCCGG-TATGGTATTGGCACTTAAG-GTGCGAG
1 TCATTGAGATAGCTT-CGGCTAT-GCATTGGCACTT-AGTGTGCGAG
61687517 TTTCCCGAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
46 18 0.45
47 21 0.52
48 1 0.03
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.32
Consensus pattern (46 bp):
TCATTGAGATAGCTTCGGCTATGCATTGGCACTTAGTGTGCGAGAT
Found at i:61687769 original size:11 final size:11
Alignment explanation
Indices: 61687748--61687779 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
61687738 AAATGATAAG
61687748 TTTTGCATATTA
1 TTTT-CATATTA
61687760 TTTTCATATTA
1 TTTTCATATTA
61687771 TTTTCATAT
1 TTTTCATAT
61687780 GAGCTTACTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 16 0.80
12 4 0.20
ACGTcount: A:0.25, C:0.09, G:0.03, T:0.62
Consensus pattern (11 bp):
TTTTCATATTA
Found at i:61690001 original size:46 final size:46
Alignment explanation
Indices: 61689899--61690063 Score: 147
Period size: 46 Copynumber: 3.5 Consensus size: 46
61689889 TGTGAGAGCT
* * * * *
61689899 AGTGTAAAACCATGTCTGGGACATGGCAT-TGACATTGAGACGAGT-GCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCA-CGAGACGA-TAGCC
* *
61689947 AGTGTAAGACATGTCTGGGACATGTATCGGCCTCGAGACG-TAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACGAT-AGCC
* * * * *
61689993 AGTGTAAGACATATCTGGGACATGCGTTGGCCACGAGATGATAGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACGATAGCC
61690039 AGTGTAAGACCATGTCTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
61690064 GCTTCGACTT
Statistics
Matches: 97, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
44 1 0.01
46 57 0.59
47 31 0.32
48 8 0.08
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGAGACGATAGCC
Found at i:61690078 original size:47 final size:48
Alignment explanation
Indices: 61689899--61690114 Score: 162
Period size: 47 Copynumber: 4.6 Consensus size: 48
61689889 TGTGAGAGCT
* * * *
61689899 AGTGTAAAACCATGTCTGGGACATGGCATT-GACATTGAGACG-AGTGCT
1 AGTGTAAGACCATGTCTGGGACATGGCATTCGAC-TCGAGACGTA-AGCC
* *
61689947 AGTGTAAGA-CATGTCTGGGACAT-GTA-TCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTC-GACTCGAGACGTAAGCC
* * * * * * *
61689993 AGTGTAAGA-CATATCTGGGACAT-GCGTTGGCCACGAGATG-ATAGTC
1 AGTGTAAGACCATGTCTGGGACATGGCATTCGACTCGAGACGTA-AGCC
* **
61690039 AGTGTAAGACCATGTCTGGGACATGGC-TTCGACTTGAGATATAAGCC
1 AGTGTAAGACCATGTCTGGGACATGGCATTCGACTCGAGACGTAAGCC
* * *
61690086 CGTGTAAGACTATGTCTGGGTCATGGCAT
1 AGTGTAAGACCATGTCTGGGACATGGCAT
61690115 CGGTACCTTA
Statistics
Matches: 136, Mismatches: 23, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
45 2 0.01
46 55 0.40
47 67 0.49
48 12 0.09
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACCATGTCTGGGACATGGCATTCGACTCGAGACGTAAGCC
Found at i:61700976 original size:77 final size:75
Alignment explanation
Indices: 61700825--61701000 Score: 255
Period size: 77 Copynumber: 2.3 Consensus size: 75
61700815 GAAGGACTAT
* *
61700825 TATCATGGCTCGAAGCCAAACCATTCGATATGCATGCCCGAAGCCAAATTGGTATAGTACGCACC
1 TATCATGGC-CGAAGCCAAATCATTCGATATGCATGCCCGAAGCCAAATTGGTATAATACGCACC
61700890 CGAAGTGCTAA
65 CGAAGTGCTAA
* *
61700901 TATCATGGACCGAAGCCAAATCA-TCTGATATGCATGGCCTGAAGCCAAATTGGTATAATACTCA
1 TATCATGG-CCGAAGCCAAATCATTC-GATATGCAT-GCCCGAAGCCAAATTGGTATAATACGCA
*
61700965 TCCGAAGTGCTAA
63 CCCGAAGTGCTAA
61700978 TATCATGGCCCGAAGCCAAATCA
1 TATCATGG-CCGAAGCCAAATCA
61701001 ACGTATCACC
Statistics
Matches: 91, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
75 2 0.02
76 29 0.32
77 60 0.66
ACGTcount: A:0.33, C:0.25, G:0.20, T:0.22
Consensus pattern (75 bp):
TATCATGGCCGAAGCCAAATCATTCGATATGCATGCCCGAAGCCAAATTGGTATAATACGCACCC
GAAGTGCTAA
Found at i:61703811 original size:49 final size:49
Alignment explanation
Indices: 61703652--61704017 Score: 185
Period size: 46 Copynumber: 7.7 Consensus size: 49
61703642 GAATAAAATA
* * ** * *
61703652 CCGACGCCATGTCCCAGACATGGTCTTACACTGGCTAGCA-C-ATCAAAG
1 CCGATGCCATGTCCCAGACAT-GTCTTACACTAGCTCTCATCTATCGATG
* * * * * * * *
61703700 TCGATGCCATGTCCTAGACAGGTCTTATACTAACTTTCATATATCGAGG
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTATCGATG
* *
61703749 CCGTTATG--GTGTCCCAGATATGTCTTACACTAGCTCTCATCTATCGATG
1 CCG--ATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTATCGATG
* * * * * * * *
61703798 TCGATGCCATGTCCCAGATAGGTATTACACT-G-ACACA-CTCAAC-AAG
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCT-ATCGATG
** * * * * *
61703844 TTGATGCCATGTCTCAGAGAAGTCTTACACTAGCTGGT-A--TATCCTGAGG
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCT-CTCATCTAT-C-GATG
* * *
61703893 CCGATG-CATGTCCCAGACATGTCTTACATTAGCTCTCGTC--TCAATG
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTATCGATG
* * *
61703939 CCGATG-CATGTCCCAGACATGTCTTACACTGGCTATCAT-AAT-G-TGG
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTATCGAT-G
*
61703985 CCGAT-TCATGTCCCAGACATGTCTTACACTAGC
1 CCGATGCCATGTCCCAGACATGTCTTACACTAGC
61704018 ACACATATCA
Statistics
Matches: 242, Mismatches: 56, Indels: 42
0.71 0.16 0.12
Matches are distributed among these distances:
45 1 0.00
46 100 0.41
47 27 0.11
48 44 0.18
49 67 0.28
51 3 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (49 bp):
CCGATGCCATGTCCCAGACATGTCTTACACTAGCTCTCATCTATCGATG
Found at i:61703963 original size:94 final size:93
Alignment explanation
Indices: 61703846--61704017 Score: 222
Period size: 92 Copynumber: 1.8 Consensus size: 93
61703836 TCAACAAGTT
* * * **
61703846 GATGCCATGTCTCAGAGAAGTCTTACACTAGCTGGTAT-ATCCTGAGGCCGATGCATGTCCCAGA
1 GATGCCATGTCCCAGACAAGTCTTACACT-G--GCTATCATAATGAGGCCGATGCATGTCCCAGA
*
61703910 CATGTCTTACATTAGCTCTCGTCTCAATGCC
63 CATGTCTTACACTAGCTCTCGTCTCAATGCC
* * *
61703941 GATG-CATGTCCCAGACATGTCTTACACTGGCTATCATAATGTGGCCGATTCATGTCCCAGACAT
1 GATGCCATGTCCCAGACAAGTCTTACACTGGCTATCATAATGAGGCCGATGCATGTCCCAGACAT
61704005 GTCTTACACTAGC
66 GTCTTACACTAGC
61704018 ACACATATCA
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
91 4 0.06
92 37 0.55
93 1 0.01
94 21 0.31
95 4 0.06
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.28
Consensus pattern (93 bp):
GATGCCATGTCCCAGACAAGTCTTACACTGGCTATCATAATGAGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCTCTCGTCTCAATGCC
Found at i:61716478 original size:29 final size:27
Alignment explanation
Indices: 61716431--61716542 Score: 82
Period size: 29 Copynumber: 4.0 Consensus size: 27
61716421 TGAGTATAAT
* *
61716431 ATGATTTGGGCCTAATGGGCCATATGA
1 ATGAATTGGGCCTAGTGGGCCATATGA
* *
61716458 AGGTGAATTGGGCCTAGTGGGCCAAAAGAA
1 A--TGAATTGGGCCTAGTGGGCCATATG-A
* * *
61716488 TATGAACTAGGCC-AGATGGGCCATTTGA
1 -ATGAATTGGGCCTAG-TGGGCCATATGA
* *
61716516 ATAAGATTGGGCCTAGTGGGCTATATG
1 ATGA-ATTGGGCCTAGTGGGCCATATG
61716543 CATGTATGTA
Statistics
Matches: 64, Mismatches: 14, Indels: 13
0.70 0.15 0.14
Matches are distributed among these distances:
27 4 0.06
28 18 0.28
29 40 0.62
30 1 0.02
31 1 0.02
ACGTcount: A:0.29, C:0.14, G:0.32, T:0.25
Consensus pattern (27 bp):
ATGAATTGGGCCTAGTGGGCCATATGA
Found at i:61716883 original size:15 final size:15
Alignment explanation
Indices: 61716863--61716893 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
61716853 TAGGTGTTGA
61716863 ATGTAAGTTTTATGG
1 ATGTAAGTTTTATGG
61716878 ATGTAAGTTTTATGG
1 ATGTAAGTTTTATGG
61716893 A
1 A
61716894 GGTGACATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.29, C:0.00, G:0.26, T:0.45
Consensus pattern (15 bp):
ATGTAAGTTTTATGG
Found at i:61724219 original size:41 final size:42
Alignment explanation
Indices: 61724129--61724225 Score: 117
Period size: 41 Copynumber: 2.3 Consensus size: 42
61724119 CGTCTTGGAT
** * *
61724129 ATGGTCTTACATGTAATTCAGTATCGATGCCTCTGTCCCGGAC
1 ATGGTCTTACATG-AATTCAGTATCGATGCCGATGCCCCAGAC
*
61724172 AGGGTCTTACATG-ATTCAG-ATACGATGCCGATGCCCCAGAC
1 ATGGTCTTACATGAATTCAGTAT-CGATGCCGATGCCCCAGAC
61724213 ATGGTCTTACATG
1 ATGGTCTTACATG
61724226 TAAATCTCAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 2 0.04
41 33 0.70
43 12 0.26
ACGTcount: A:0.24, C:0.25, G:0.23, T:0.29
Consensus pattern (42 bp):
ATGGTCTTACATGAATTCAGTATCGATGCCGATGCCCCAGAC
Found at i:61729945 original size:47 final size:47
Alignment explanation
Indices: 61729886--61730015 Score: 192
Period size: 47 Copynumber: 2.8 Consensus size: 47
61729876 GTGCAAATAA
* * *
61729886 TACCTTGATTTGGCTACGGGCCATGATATAGGTA-TTTTGAGA-AGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAG-GATA-AGT
61729933 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAGGATAAGT
*
61729980 TACCTTGGTTTGGCTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
61730016 TATCAATTGT
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
47 73 0.95
48 4 0.05
ACGTcount: A:0.22, C:0.16, G:0.28, T:0.33
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCTAGGATAAGT
Found at i:61742607 original size:21 final size:20
Alignment explanation
Indices: 61742578--61742616 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
61742568 TGATGTTTAC
61742578 TGTTATATTA-CTGCATGCCA
1 TGTTATATTATCTG-ATGCCA
61742598 TGTTATTATTATCTGATGC
1 TGTTA-TATTATCTGATGC
61742617 ATGGACTGGG
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 9 0.53
22 3 0.18
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.46
Consensus pattern (20 bp):
TGTTATATTATCTGATGCCA
Found at i:61743994 original size:34 final size:34
Alignment explanation
Indices: 61743932--61744002 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
61743922 ATTCTGTAGT
61743932 TAGGGTAATACTGAAACTGTAGAAACTGAGACAG
1 TAGGGTAATACTGAAACTGTAGAAACTGAGACAG
* *
61743966 TAGGG-AA-ACTGAAAACTTTAGAAGACTGAGACTG
1 TAGGGTAATACTG-AAACTGTAGAA-ACTGAGACAG
61744000 TAG
1 TAG
61744003 CTAGGATACG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
32 4 0.12
33 12 0.36
34 17 0.52
ACGTcount: A:0.41, C:0.11, G:0.27, T:0.21
Consensus pattern (34 bp):
TAGGGTAATACTGAAACTGTAGAAACTGAGACAG
Found at i:61745235 original size:15 final size:15
Alignment explanation
Indices: 61745210--61745245 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
61745200 CCGATTCTTC
61745210 TTCTCTTTTTCCTATT
1 TTCT-TTTTTCCTATT
*
61745226 TTCTTTTTTCCTTTT
1 TTCTTTTTTCCTATT
61745241 TTCTT
1 TTCTT
61745246 CTCTAGCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.03, C:0.22, G:0.00, T:0.75
Consensus pattern (15 bp):
TTCTTTTTTCCTATT
Found at i:61747931 original size:34 final size:35
Alignment explanation
Indices: 61747880--61747951 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 35
61747870 ATTCTGTAGT
*
61747880 TAGGGTAATACTGAAACTGTAGAA-ACTGAGACAG
1 TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
* *
61747914 TAGGG-AAAACTGAAAACTTTAGAAGACTGAGACTG
1 TAGGGTAAAACTG-AAACTGTAGAAGACTGAGACAG
61747949 TAG
1 TAG
61747952 CTAGGATACG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 6 0.18
34 15 0.45
35 12 0.36
ACGTcount: A:0.42, C:0.11, G:0.26, T:0.21
Consensus pattern (35 bp):
TAGGGTAAAACTGAAACTGTAGAAGACTGAGACAG
Found at i:61751754 original size:42 final size:41
Alignment explanation
Indices: 61751649--61751780 Score: 146
Period size: 42 Copynumber: 3.2 Consensus size: 41
61751639 TGATGAGTGA
* *
61751649 TGTTAATT-TT-TTTCTATTTCGATAAGTTCCTTAGTTAAGCT
1 TGTTAATTGTTCTTACTATTTCGATAAGTT-ATTAGTT-AGCT
*
61751690 TGTTAAATTTGTTCTTAATATTTCGGATAAGTTATTAGTTAGCT
1 TGTT-AA-TTGTTCTTACTATTTC-GATAAGTTATTAGTTAGCT
*
61751734 TGTTAATTGTTCTTACTATTTCGATAAGTTACGTAGTTA-C-
1 TGTTAATTGTTCTTACTATTTCGATAAGTTA-TTAGTTAGCT
61751774 TGTTAAT
1 TGTTAAT
61751781 ATGATAAGCC
Statistics
Matches: 80, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
40 7 0.09
41 14 0.17
42 23 0.29
43 4 0.05
44 10 0.12
45 14 0.17
46 8 0.10
ACGTcount: A:0.25, C:0.10, G:0.14, T:0.51
Consensus pattern (41 bp):
TGTTAATTGTTCTTACTATTTCGATAAGTTATTAGTTAGCT
Found at i:61754205 original size:47 final size:47
Alignment explanation
Indices: 61754124--61754518 Score: 558
Period size: 47 Copynumber: 8.4 Consensus size: 47
61754114 AATGTGAAAG
*
61754124 TGTATATGTGTGAATAGGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
61754172 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * *
61754219 TGTGTATGTGTGAATAGGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTG-ATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * *
61754267 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * *
61754314 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
61754361 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * *
61754408 TGTGTATGTGTGATAAGGCCGAGTGGCCAATGTGATGAATGTGAGCA
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
* * * * *
61754455 TGTGTATGTGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-A
1 TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
**
61754501 GTGTATAAATGTGATAAG
1 -TGTATATGTGTGATAAG
61754519 TCCCGAAGGG
Statistics
Matches: 319, Mismatches: 26, Indels: 5
0.91 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 265 0.83
48 53 0.17
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (47 bp):
TGTATATGTGTGATAAGGCCGAATGGCCAATGTGATGAAAGTGAACA
Found at i:61754693 original size:37 final size:37
Alignment explanation
Indices: 61754637--61754716 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
61754627 CCGGGCTCTA
* * *
61754637 AAGACCCGATGACTGCGTGTGG-GAATTTTGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAG-ATTATGTCCGGGT
*
61754674 AAGACTCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
61754711 AAGACT
1 AAGACT
61754717 TCGTAATAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (37 bp):
AAGACTCGATAACTGCGTGTGGAGATTATGTCCGGGT
Found at i:61756099 original size:45 final size:45
Alignment explanation
Indices: 61756039--61756241 Score: 299
Period size: 45 Copynumber: 4.6 Consensus size: 45
61756029 TTGGGTCTTT
* *
61756039 GAGCCTAGCAGGCTATAGTGCCGGTGATATACTATTCGGGCCTTT
1 GAGCCTAGCAGGCTATAATGCCGGTGATATACTATTCGGGCCTTC
*
61756084 GAGCCTAGCAGGCTATAATACCGGTGATATACTATTCGGGCCTTC
1 GAGCCTAGCAGGCTATAATGCCGGTGATATACTATTCGGGCCTTC
*
61756129 GAGCCTAGCAGGCTATAATGCCGGTGATATTCTATTCGGGCCTTC
1 GAGCCTAGCAGGCTATAATGCCGGTGATATACTATTCGGGCCTTC
* *
61756174 GAGCCTAGCAGGCTATAATG-CTGTGAAATGA-TA-TCGGG-CTTC
1 GAGCCTAGCAGGCTATAATGCCGGTGATAT-ACTATTCGGGCCTTC
*
61756216 GAGCCTAGCAGGCGA-AATGCCGGTGA
1 GAGCCTAGCAGGCTATAATGCCGGTGA
61756242 ATGAATTCAG
Statistics
Matches: 146, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
41 4 0.03
42 23 0.16
43 5 0.03
44 9 0.06
45 105 0.72
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.26
Consensus pattern (45 bp):
GAGCCTAGCAGGCTATAATGCCGGTGATATACTATTCGGGCCTTC
Found at i:61763306 original size:27 final size:27
Alignment explanation
Indices: 61763276--61763453 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
61763266 ATATTGAGCC
* *
61763276 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
61763303 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
61763330 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
61763358 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
61763385 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
61763412 CGCACACTTAGTGCAACATAGTCATA-T
1 CGCACACTTAGTGCTACATAATCA-ACT
61763439 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
61763454 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:61763415 original size:82 final size:81
Alignment explanation
Indices: 61763297--61763452 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
61763287 TGCTATATAA
* *
61763297 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
61763362 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
61763379 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCATATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
61763443 CACTTAGTGC
65 CACTTAGTGC
61763453 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:61764019 original size:13 final size:13
Alignment explanation
Indices: 61764001--61764025 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
61763991 TACTAAATTT
61764001 TCATGGATTCAAG
1 TCATGGATTCAAG
61764014 TCATGGATTCAA
1 TCATGGATTCAA
61764026 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:61777216 original size:85 final size:85
Alignment explanation
Indices: 61777072--61777265 Score: 262
Period size: 85 Copynumber: 2.3 Consensus size: 85
61777062 ATCTGTCTGA
* * * * *
61777072 GATATCGTGTAAGACCGTGTTTGGGACACAGGCCTCGATTGAGATTTACGTATACGACCATGTTT
1 GATATCGTGTAAGACCGTGTCTGGAACACAAGCCTCGATTGAGATTTACGTATAAGACCATGTCT
* * *
61777137 GGGATATTGCCATCGTATCT
66 GGGACATCGACATCGTATCT
**
61777157 GATATCGTGTAAGATTGTGTCTGGAACACAAGCCTCGATTGAGATTTACGTATAAGACCATGTCT
1 GATATCGTGTAAGACCGTGTCTGGAACACAAGCCTCGATTGAGATTTACGTATAAGACCATGTCT
61777222 GGGACATCGACATCGTATCT
66 GGGACATCGACATCGTATCT
* ** *
61777242 GATTTCAAGTAAGACCCTGTCTGG
1 GATATCGTGTAAGACCGTGTCTGG
61777266 GACAGAGGCA
Statistics
Matches: 93, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (85 bp):
GATATCGTGTAAGACCGTGTCTGGAACACAAGCCTCGATTGAGATTTACGTATAAGACCATGTCT
GGGACATCGACATCGTATCT
Found at i:61777278 original size:42 final size:43
Alignment explanation
Indices: 61777209--61777310 Score: 118
Period size: 42 Copynumber: 2.4 Consensus size: 43
61777199 GATTTACGTA
** *
61777209 TAAGACCATGTCTGGGACATCGACATCG-TATCTG-ATTTCAAG
1 TAAGACCATGTCTGGGACAGAGACATCGATAT-TGAATTACAAG
* * *
61777251 TAAGACCCTGTCTGGGACAGAGGCATCGATATTGAATTACATG
1 TAAGACCATGTCTGGGACAGAGACATCGATATTGAATTACAAG
*
61777294 TAAGACCATGTCCGGGA
1 TAAGACCATGTCTGGGA
61777311 TGTCAACATT
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
42 26 0.52
43 24 0.48
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (43 bp):
TAAGACCATGTCTGGGACAGAGACATCGATATTGAATTACAAG
Found at i:61777280 original size:85 final size:85
Alignment explanation
Indices: 61777080--61777310 Score: 259
Period size: 85 Copynumber: 2.7 Consensus size: 85
61777070 GAGATATCGT
* * * * *
61777080 GTAAGACCGTGTTTGGGACACAGGCCTCGATTGAGATTTACGTATACGACCATGTTTGGGATATT
1 GTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACATC
* **
61777145 GCCATCGTATCTGATATCGT
66 GACATCGTATCTGATATCAA
** * *
61777165 GTAAGATTGTGTCTGGAACACAAGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACATC
1 GTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACATC
*
61777230 GACATCGTATCTGATTTCAA
66 GACATCGTATCTGATATCAA
* * * * * *
61777250 GTAAGACCCTGTCTGGGACAGAGGCATCGATATTGA-A-TTACATGTAAGACCATGTCCGGGA
1 GTAAGACCGTGTCTGGGACACAGGCCTCG--ATTGAGATTTACGTATAAGACCATGTCTGGGA
61777311 TGTCAACATT
Statistics
Matches: 121, Mismatches: 23, Indels: 4
0.82 0.16 0.03
Matches are distributed among these distances:
85 115 0.95
86 1 0.01
87 5 0.04
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (85 bp):
GTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATTTACGTATAAGACCATGTCTGGGACATC
GACATCGTATCTGATATCAA
Found at i:61779787 original size:26 final size:26
Alignment explanation
Indices: 61779758--61779865 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
61779748 TGGTACAAAT
61779758 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
61779784 TGATAATGGATTAGGTAAATTTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
61779810 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
61779836 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
61779862 TGAT
1 TGAT
61779866 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.31, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:61781495 original size:27 final size:27
Alignment explanation
Indices: 61781455--61781595 Score: 182
Period size: 27 Copynumber: 5.2 Consensus size: 27
61781445 AGGAAGCGTC
*
61781455 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
*
61781482 CTGGTGGCTCTGCCAC-ATATAACTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
61781508 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
*
61781536 CTGGTGGCTCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
61781563 CTGGTGGCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
61781590 CTGGTG
1 CTGGTG
61781596 ACTTCGTCAT
Statistics
Matches: 100, Mismatches: 7, Indels: 14
0.83 0.06 0.12
Matches are distributed among these distances:
26 11 0.11
27 85 0.85
28 4 0.04
ACGTcount: A:0.18, C:0.25, G:0.23, T:0.33
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:61781534 original size:54 final size:54
Alignment explanation
Indices: 61781452--61781595 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
61781442 TGGAGGAAGC
61781452 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAACT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAACT
*
61781506 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAACT
* *
61781560 GTTCTGGTGGCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
61781596 ACTTCGTCAT
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 6 0.07
54 80 0.93
ACGTcount: A:0.18, C:0.25, G:0.24, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATAACT
Found at i:61783427 original size:169 final size:169
Alignment explanation
Indices: 61783148--61783488 Score: 655
Period size: 169 Copynumber: 2.0 Consensus size: 169
61783138 AAAAGTTGAT
*
61783148 TAAATTGACTTAGGTTACCATGGATGGGAAGTAAGGATTATAAGCATCCTTTGTAATGAAGTGAA
1 TAAATTGACTTAGGTTACCATAGATGGGAAGTAAGGATTATAAGCATCCTTTGTAATGAAGTGAA
61783213 ATAGATCATCCCCAAGCAAATATCAAATAGCTATTGATTCTAATGATTCTTAAACCAAACAATTA
66 ATAGATCATCCCCAAGCAAATATCAAATAGCTATTGATTCTAATGATTCTTAAACCAAACAATTA
*
61783278 AATTTAATGCTTGGATTCCAACAAATTTTTGACACAAAC
131 AATTTAATGCTTGGATTCCAACAAAATTTTGACACAAAC
61783317 TAAATTGACTTAGGTTACCATAGATGGGAAGTAAGGATTATAAGCATCCTTTGTAATGAAGTGAA
1 TAAATTGACTTAGGTTACCATAGATGGGAAGTAAGGATTATAAGCATCCTTTGTAATGAAGTGAA
*
61783382 ATAGATCATCCCCAAGCAAATATCAAATAGCTATTGATTCTAATGATTCTTCAACCAAACAATTA
66 ATAGATCATCCCCAAGCAAATATCAAATAGCTATTGATTCTAATGATTCTTAAACCAAACAATTA
61783447 AATTTAATGCTTGGATTCCAACAAAATTTTGACACAAAC
131 AATTTAATGCTTGGATTCCAACAAAATTTTGACACAAAC
61783486 TAA
1 TAA
61783489 GAATATATTA
Statistics
Matches: 169, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
169 169 1.00
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (169 bp):
TAAATTGACTTAGGTTACCATAGATGGGAAGTAAGGATTATAAGCATCCTTTGTAATGAAGTGAA
ATAGATCATCCCCAAGCAAATATCAAATAGCTATTGATTCTAATGATTCTTAAACCAAACAATTA
AATTTAATGCTTGGATTCCAACAAAATTTTGACACAAAC
Found at i:61790705 original size:19 final size:19
Alignment explanation
Indices: 61790681--61790717 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
61790671 GGATTCTGCA
61790681 TATCTGAAACTAAATCTGT
1 TATCTGAAACTAAATCTGT
* *
61790700 TATCTGAATCTGAATCTG
1 TATCTGAAACTAAATCTG
61790718 AAACTGAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (19 bp):
TATCTGAAACTAAATCTGT
Found at i:61790717 original size:31 final size:30
Alignment explanation
Indices: 61790682--61790740 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
61790672 GATTCTGCAT
*
61790682 ATCTGAAACTAAATCTGTTATCTGAATCTGA
1 ATCTGAAACTAAATATG-TATCTGAATCTGA
* *
61790713 ATCTGAAACTGAATATGTATCTGTATCT
1 ATCTGAAACTAAATATGTATCTGAATCT
61790741 AACTATGCAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (30 bp):
ATCTGAAACTAAATATGTATCTGAATCTGA
Found at i:61793057 original size:20 final size:21
Alignment explanation
Indices: 61793010--61793057 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
61793000 TTGGTCCTTC
* *
61793010 TATTAAAAATTTCATCCATTTT
1 TATT-AAAATTTCATCCATGTA
*
61793032 TTTTAAAATTT-ATCCATGTA
1 TATTAAAATTTCATCCATGTA
61793052 TATTAA
1 TATTAA
61793058 CATAAGGTAC
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 12 0.55
21 7 0.32
22 3 0.14
ACGTcount: A:0.38, C:0.10, G:0.02, T:0.50
Consensus pattern (21 bp):
TATTAAAATTTCATCCATGTA
Found at i:61796476 original size:16 final size:16
Alignment explanation
Indices: 61796425--61796484 Score: 57
Period size: 16 Copynumber: 3.8 Consensus size: 16
61796415 AAAAAGAAGA
* *
61796425 TTTCTATTTTCCATCT
1 TTTCAATTTTCTATCT
* * *
61796441 TTTCACTTTTCTACCC
1 TTTCAATTTTCTATCT
*
61796457 TTTCAATTTTTTATCT
1 TTTCAATTTTCTATCT
*
61796473 TTTCAAGTTTCT
1 TTTCAATTTTCT
61796485 TTCCACTTTA
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.15, C:0.23, G:0.02, T:0.60
Consensus pattern (16 bp):
TTTCAATTTTCTATCT
Found at i:61807602 original size:17 final size:17
Alignment explanation
Indices: 61807580--61807618 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
61807570 TAGTAATTTA
*
61807580 GAAGCTCAAAGTGGTTG
1 GAAGCTCAAAGTGGCTG
**
61807597 GAAGCTGGAAGTGGCTG
1 GAAGCTCAAAGTGGCTG
61807614 GAAGC
1 GAAGC
61807619 CGGTCGGAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.13, G:0.41, T:0.18
Consensus pattern (17 bp):
GAAGCTCAAAGTGGCTG
Found at i:61813878 original size:23 final size:23
Alignment explanation
Indices: 61813837--61813881 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
61813827 ATTTTATTTT
*
61813837 TATTTAATTTTTCTGTTTTTTAA
1 TATTTAATTTATCTGTTTTTTAA
61813860 TATTTAAATTTATCT-TTTTTTA
1 TATTT-AATTTATCTGTTTTTTA
61813882 TCAAATCACT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.24, C:0.04, G:0.02, T:0.69
Consensus pattern (23 bp):
TATTTAATTTATCTGTTTTTTAA
Found at i:61815365 original size:19 final size:19
Alignment explanation
Indices: 61815337--61815397 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
61815327 ATTAAATTAT
*
61815337 AAAATTTTAAAAAATATAA
1 AAAATGTTAAAAAATATAA
*
61815356 AAAATGTT-AAAATTATTAA
1 AAAATGTTAAAAAATA-TAA
* *
61815375 AAAAAGTATAAACAATATAA
1 AAAATGT-TAAAAAATATAA
61815395 AAA
1 AAA
61815398 TATTTTTTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
18 6 0.18
19 16 0.47
20 7 0.21
21 5 0.15
ACGTcount: A:0.67, C:0.02, G:0.03, T:0.28
Consensus pattern (19 bp):
AAAATGTTAAAAAATATAA
Found at i:61815367 original size:18 final size:19
Alignment explanation
Indices: 61815346--61815397 Score: 61
Period size: 20 Copynumber: 2.7 Consensus size: 19
61815336 TAAAATTTTA
*
61815346 AAAAATATAAAAAATGT-T
1 AAAAATATAAAAAAAGTAT
*
61815364 AAAATTATTAAAAAAAGTAT
1 AAAAATA-TAAAAAAAGTAT
61815384 AAACAATATAAAAA
1 AAA-AATATAAAAA
61815398 TATTTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 6 0.21
19 9 0.32
20 10 0.36
21 3 0.11
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.25
Consensus pattern (19 bp):
AAAAATATAAAAAAAGTAT
Found at i:61821272 original size:43 final size:43
Alignment explanation
Indices: 61821206--61821364 Score: 164
Period size: 43 Copynumber: 3.7 Consensus size: 43
61821196 AGCTCGTACC
* * * *
61821206 ATGCCAATGTCCCATACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCACTGTCCCAGATGTGGTCTTACACGTAATCAAATATCG
* *
61821249 ATGCCACTGTCTCAGATAG-GGTCTTACACGAAATCAAATA-CG
1 ATGCCACTGTCCCAGAT-GTGGTCTTACACGTAATCAAATATCG
*
61821291 ATGCCAAC-GTCCCAGATGTGGTCTTACACGTAAGTCATAA-GTCG
1 ATGCC-ACTGTCCCAGATGTGGTCTTACACGTAA-TCA-AATATCG
* * *
61821335 ATGCCAATGTCCCAGACGTGATCTTACACG
1 ATGCCACTGTCCCAGATGTGGTCTTACACG
61821365 AAAACACATA
Statistics
Matches: 97, Mismatches: 12, Indels: 13
0.80 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 28 0.29
43 38 0.39
44 30 0.31
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (43 bp):
ATGCCACTGTCCCAGATGTGGTCTTACACGTAATCAAATATCG
Found at i:61821349 original size:44 final size:41
Alignment explanation
Indices: 61821206--61821364 Score: 167
Period size: 44 Copynumber: 3.7 Consensus size: 41
61821196 AGCTCGTACC
* *
61821206 ATGCCAATGTCCCATACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAATC-AA-ATCG
* * * *
61821249 ATGCCACTGTCTCAGATAG-GGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGA-CGTGGTCTTACACGTAATCAAAT-CG
* *
61821291 ATGCCAACGTCCCAGATGTGGTCTTACACGTAAGTCATAAGTCG
1 ATGCCAATGTCCCAGACGTGGTCTTACACGTAA-TCA-AA-TCG
*
61821335 ATGCCAATGTCCCAGACGTGATCTTACACG
1 ATGCCAATGTCCCAGACGTGGTCTTACACG
61821365 AAAACACATA
Statistics
Matches: 96, Mismatches: 14, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
41 3 0.03
42 30 0.31
43 30 0.31
44 32 0.33
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (41 bp):
ATGCCAATGTCCCAGACGTGGTCTTACACGTAATCAAATCG
Found at i:61824771 original size:39 final size:40
Alignment explanation
Indices: 61824715--61824846 Score: 167
Period size: 40 Copynumber: 3.3 Consensus size: 40
61824705 GCTCCTCGTT
* *
61824715 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
* *
61824755 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCTCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
* * * * *
61824794 CGAATGCCTTCGGGACTTAACCCAGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
*
61824834 CAAAGGCCTTCGG
1 CAAATGCCTTCGG
61824847 ATCTTAGTCC
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 35 0.44
40 45 0.56
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCACA
Found at i:61824908 original size:41 final size:41
Alignment explanation
Indices: 61824831--61824908 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61824821 TTAGTATCTC
* * *
61824831 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61824872 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61824909 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61832148 original size:40 final size:39
Alignment explanation
Indices: 61832050--61832232 Score: 188
Period size: 40 Copynumber: 4.6 Consensus size: 39
61832040 TCCTCGTTCA
* * *
61832050 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * *
61832089 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* *
61832128 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
* * * * * *
61832168 AAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATTTAGTAAC-TCGCAC
*
61832209 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
61832233 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
39 38 0.31
40 76 0.62
41 8 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCAC
Found at i:61832241 original size:41 final size:41
Alignment explanation
Indices: 61832164--61832241 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
61832154 TTAGTATCTC
* * *
61832164 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
61832205 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
61832242 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:61835274 original size:49 final size:49
Alignment explanation
Indices: 61835169--61835346 Score: 168
Period size: 49 Copynumber: 3.7 Consensus size: 49
61835159 TATGTGTGCT
* * * * *
61835169 AGTGTAAGACATGTCTGAGACAT-GCATC-AGCCTCGAAATATGCAA-TCT
1 AGTGTAAGACCTGTCTGAGACATGGCATCGA-CCTCGATAGATGAAAGT-A
* * *
61835217 AGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CGATAGATGAGA-TCC
1 AGTGTAAGACCTGTCTGAGACATGGCATCGAC-CTCGATAGATGAAAGT-A
* * * *
61835266 AGTGTAAGACCTATCTGCGACATGGCATCAACCTCGATATATGAAAGTA
1 AGTGTAAGACCTGTCTGAGACATGGCATCGACCTCGATAGATGAAAGTA
*
61835315 AGTGTAAGACCTGTCTAAGACATGGCATCGAC
1 AGTGTAAGACCTGTCTGAGACATGGCATCGAC
61835347 TTAGACATGT
Statistics
Matches: 108, Mismatches: 17, Indels: 9
0.81 0.13 0.07
Matches are distributed among these distances:
48 22 0.20
49 83 0.77
50 3 0.03
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGAGACATGGCATCGACCTCGATAGATGAAAGTA
Found at i:61835337 original size:98 final size:97
Alignment explanation
Indices: 61835169--61835346 Score: 250
Period size: 98 Copynumber: 1.8 Consensus size: 97
61835159 TATGTGTGCT
* * * * *
61835169 AGTGTAAGACATGTCTGAGACATGCATCAGCCTCGAAATATGCAATCTAGTGTAAGACCTGTCTG
1 AGTGTAAGACATATCTGAGACATGCATCAACCTCGAAATATGAAATCAAGTGTAAGACCTGTCTA
*
61835234 GGACATGGCATCGACACCGATAGATGAGATCC
66 AGACATGGCATCGACACCGATAGATGAGATCC
* * *
61835266 AGTGTAAGACCTATCTGCGACATGGCATCAACCTCGATATATGAAAGT-AAGTGTAAGACCTGTC
1 AGTGTAAGACATATCTGAGACAT-GCATCAACCTCGAAATATGAAA-TCAAGTGTAAGACCTGTC
61835330 TAAGACATGGCATCGAC
64 TAAGACATGGCATCGAC
61835347 TTAGACATGT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
97 20 0.29
98 49 0.70
99 1 0.01
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.23
Consensus pattern (97 bp):
AGTGTAAGACATATCTGAGACATGCATCAACCTCGAAATATGAAATCAAGTGTAAGACCTGTCTA
AGACATGGCATCGACACCGATAGATGAGATCC
Found at i:61840056 original size:19 final size:19
Alignment explanation
Indices: 61840028--61840066 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
61840018 AGAGCGAAAG
61840028 AAACGAG-AAACGGGCCAA
1 AAACGAGAAAACGGGCCAA
*
61840046 AAACGGAGAAAATGGGCCAA
1 AAAC-GAGAAAACGGGCCAA
61840066 A
1 A
61840067 GTACGAAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 3 0.17
20 11 0.61
ACGTcount: A:0.51, C:0.18, G:0.28, T:0.03
Consensus pattern (19 bp):
AAACGAGAAAACGGGCCAA
Found at i:61840357 original size:46 final size:46
Alignment explanation
Indices: 61840301--61840392 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
61840291 GAGAAGGGGG
* *
61840301 AGTAATGAATTACTCCAAGGAAGCCGATTGATCCATCTCAGAAGCC
1 AGTAAAGAATTACTCCAAGAAAGCCGATTGATCCATCTCAGAAGCC
61840347 AGTAAAGAATTACTCCAAGAAAGCCGATTGATCCATCTCAGAAGCC
1 AGTAAAGAATTACTCCAAGAAAGCCGATTGATCCATCTCAGAAGCC
61840393 GGATTCATCA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.37, C:0.24, G:0.18, T:0.21
Consensus pattern (46 bp):
AGTAAAGAATTACTCCAAGAAAGCCGATTGATCCATCTCAGAAGCC
Done.