Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 169 of 770
Found at i:50142159 original size:19 final size:19
Alignment explanation
Indices: 50142123--50142161 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
50142113 TTTTCACCAT
* *
50142123 AGTAAAATAAAATAATAAA
1 AGTAAAACAAAACAATAAA
*
50142142 AGTAAAACAAAACCATAAA
1 AGTAAAACAAAACAATAAA
50142161 A
1 A
50142162 ATAATTAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.72, C:0.08, G:0.05, T:0.15
Consensus pattern (19 bp):
AGTAAAACAAAACAATAAA
Found at i:50142867 original size:28 final size:28
Alignment explanation
Indices: 50142820--50142883 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
50142810 AAATTAACCC
* *
50142820 TAGGGGTATAAAGGTCATTTTGCATTCA
1 TAGGGGTATAAAGGTAATTTTGCATACA
*
50142848 TAGGGGTATAATGGTAATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTGCATACA
50142876 TAGGGGTA
1 TAGGGGTA
50142884 CTCTAGTACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.30, C:0.08, G:0.28, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTGCATACA
Found at i:50147750 original size:19 final size:19
Alignment explanation
Indices: 50147726--50147763 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
50147716 CAAGTTAACC
50147726 AAATATTTATCAAAATCTA
1 AAATATTTATCAAAATCTA
50147745 AAATATTTATCAAAATCTA
1 AAATATTTATCAAAATCTA
50147764 TTCCATTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (19 bp):
AAATATTTATCAAAATCTA
Found at i:50148890 original size:41 final size:42
Alignment explanation
Indices: 50148826--50148904 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
50148816 CTTACATCCT
* *
50148826 ATCTCATATCGATGCCACAGTCCCAGATAGGGTCTTACTCGA
1 ATCTAATATCGATGCCACAGTCCCAGACAGGGTCTTACTCGA
* *
50148868 ATCTAATA-CGATGCCA-ATGTCCCGGACATGGTCTTAC
1 ATCTAATATCGATGCCACA-GTCCCAGACAGGGTCTTAC
50148905 ACGTAACCAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 1 0.03
41 24 0.75
42 7 0.22
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.27
Consensus pattern (42 bp):
ATCTAATATCGATGCCACAGTCCCAGACAGGGTCTTACTCGA
Found at i:50148935 original size:45 final size:45
Alignment explanation
Indices: 50148877--50149008 Score: 156
Period size: 45 Copynumber: 2.9 Consensus size: 45
50148867 AATCTAATAC
* * * * *
50148877 GATGCCAATGTCCCGGACATGGTCTTACACGTAACCACATATATT
1 GATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATT
* * *
50148922 GATGCCAACGTCCCAAACGTGGTCTTACATGAAAACATATATATT
1 GATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATT
* * * *
50148967 GATGCCAACATCCCAGATGTGGTCTTACTCGAAAATACATAT
1 GATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATAT
50149009 CAAAATCCTA
Statistics
Matches: 72, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
45 72 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (45 bp):
GATGCCAACGTCCCAGACGTGGTCTTACACGAAAACACATATATT
Found at i:50152185 original size:25 final size:25
Alignment explanation
Indices: 50152139--50152189 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
50152129 CCCTTATAAT
* *
50152139 GTGAAAATGACCTTTTTGCCCCTAG
1 GTGAAAATGACCTTTATACCCCTAG
50152164 GTGAAAATGA-CTATTATACCCCTAG
1 GTGAAAATGACCT-TTATACCCCTAG
50152189 G
1 G
50152190 GTTATGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (25 bp):
GTGAAAATGACCTTTATACCCCTAG
Found at i:50152248 original size:10 final size:10
Alignment explanation
Indices: 50152233--50152267 Score: 61
Period size: 10 Copynumber: 3.4 Consensus size: 10
50152223 TTTGTACATA
50152233 ATATGCCATG
1 ATATGCCATG
50152243 ATATGCACATG
1 ATATGC-CATG
50152254 ATATGCCATG
1 ATATGCCATG
50152264 ATAT
1 ATAT
50152268 ATGCATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (10 bp):
ATATGCCATG
Found at i:50152252 original size:21 final size:21
Alignment explanation
Indices: 50152228--50152267 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
50152218 ACTGATTTGT
50152228 ACATAATATGCCATGATATGC
1 ACATAATATGCCATGATATGC
*
50152249 ACATGATATGCCATGATAT
1 ACATAATATGCCATGATAT
50152268 ATGCATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (21 bp):
ACATAATATGCCATGATATGC
Found at i:50152613 original size:31 final size:31
Alignment explanation
Indices: 50152578--50152654 Score: 136
Period size: 31 Copynumber: 2.5 Consensus size: 31
50152568 TGTTTACTGT
50152578 AAAGGCTTCGGCCCAGTGATATGAATAATGA
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
* *
50152609 AAAGGCTTCGGCCCAGTGGTATGAATAATGT
1 AAAGGCTTCGGCCCAGTGATATGAATAATGA
50152640 AAAGGCTTCGGCCCA
1 AAAGGCTTCGGCCCA
50152655 ATATATGCTG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.22
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGAATAATGA
Found at i:50155967 original size:36 final size:36
Alignment explanation
Indices: 50155915--50155985 Score: 115
Period size: 36 Copynumber: 2.0 Consensus size: 36
50155905 TAACTATTCC
*
50155915 TATGGTTCGTACGGGGCTTTCGAACGTCATTACATG
1 TATGGTTCGTACGGGGCTTTCGAACATCATTACATG
* *
50155951 TATGGTTCGTATGGGGCTTTCGGACATCATTACAT
1 TATGGTTCGTACGGGGCTTTCGAACATCATTACAT
50155986 TATCGAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (36 bp):
TATGGTTCGTACGGGGCTTTCGAACATCATTACATG
Found at i:50164983 original size:30 final size:30
Alignment explanation
Indices: 50164947--50165006 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
50164937 TTCCCGTGCC
* *
50164947 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
* *
50164977 TAGGGGCAAAAATATAATTTTGCCAAAGTT
1 TAGGGGCAAAAATATAATTATGCAAAAGTT
50165007 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATATAATTATGCAAAAGTT
Found at i:50171727 original size:43 final size:44
Alignment explanation
Indices: 50171659--50171783 Score: 143
Period size: 43 Copynumber: 2.9 Consensus size: 44
50171649 ATGCCAACGT
* *
50171659 CCCAGACATGGTCTTACATGT-AATCAAATATCGATGCCACTGT
1 CCCAGACATGGTCTTACACGTAAATCAAATATCGATGCCACTGC
* * *
50171702 CCTAGACA-GGATCTTGCACG-AAATCAAATA-CGATGCCAGTGC
1 CCCAGACATGG-TCTTACACGTAAATCAAATATCGATGCCACTGC
*
50171744 CCCAGACATGGTCTTACACGTAAATCTCAA-ATCGATGCCA
1 CCCAGACATGGTCTTACACGTAAATC-AAATATCGATGCCA
50171784 ACATCCCAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
42 27 0.40
43 31 0.46
44 10 0.15
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (44 bp):
CCCAGACATGGTCTTACACGTAAATCAAATATCGATGCCACTGC
Found at i:50183510 original size:44 final size:44
Alignment explanation
Indices: 50183442--50183554 Score: 181
Period size: 44 Copynumber: 2.6 Consensus size: 44
50183432 GTCGACATCG
* *
50183442 GATTCCGATTTATGTGTACGAGTAAGACCGTGGCATCGATATGT
1 GATTCCGATTTATGTGTACAAGTAAGACCATGGCATCGATATGT
* *
50183486 GATTTCGATTTATGTGTGCAAGTAAGACCATGGCATCGATATGT
1 GATTCCGATTTATGTGTACAAGTAAGACCATGGCATCGATATGT
*
50183530 GATTCCGATTTATGTGTACGAGTAA
1 GATTCCGATTTATGTGTACAAGTAA
50183555 AACCCTGTCT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
44 62 1.00
ACGTcount: A:0.27, C:0.14, G:0.26, T:0.34
Consensus pattern (44 bp):
GATTCCGATTTATGTGTACAAGTAAGACCATGGCATCGATATGT
Found at i:50190706 original size:47 final size:47
Alignment explanation
Indices: 50190580--50190800 Score: 270
Period size: 47 Copynumber: 4.7 Consensus size: 47
50190570 GTTATACGTG
* * *
50190580 TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* * *
50190627 GTAACATGGTGCTAAGTGGATATGCCATGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* * * *
50190675 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGC--
1 TAACGTGGTGCTAAGTGGATATACCACGGTT--ACATAT-A-TTGATTCAT
*
50190724 TAA--TGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
50190769 TAACGTGGTGCTAAGTGGATATACCACGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
50190801 AACATTTAAC
Statistics
Matches: 146, Mismatches: 19, Indels: 17
0.80 0.10 0.09
Matches are distributed among these distances:
43 4 0.03
44 1 0.01
45 8 0.05
47 79 0.54
48 41 0.28
49 8 0.05
50 1 0.01
51 4 0.03
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:50190726 original size:38 final size:38
Alignment explanation
Indices: 50190675--50190838 Score: 112
Period size: 47 Copynumber: 3.8 Consensus size: 38
50190665 ATTGATTCAT
50190675 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* *
50190713 TAACGTGGTGCTAATGGTGCTAAGTGGATATGCCACGGTTACATATATTG
1 TAAC-----G----TGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG
*
50190763 ATTCATTAACGTGGTGCTAAGTGGATATACCACGGTTAAACATT
1 ------TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
* * *
50190807 TAACGTGCTGCTAAGTGGATATGCCACTGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
50190839 TATATGTTAA
Statistics
Matches: 100, Mismatches: 8, Indels: 36
0.69 0.06 0.25
Matches are distributed among these distances:
38 33 0.33
43 1 0.01
44 1 0.01
45 2 0.02
46 1 0.01
47 52 0.52
48 1 0.01
49 2 0.02
50 2 0.02
51 1 0.01
56 4 0.04
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
Found at i:50190754 original size:94 final size:94
Alignment explanation
Indices: 50190580--50190820 Score: 362
Period size: 94 Copynumber: 2.6 Consensus size: 94
50190570 GTTATACGTG
* * * *
50190580 TAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATACAT-GT--AACATGGTGCTAA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT-TT-A-ACGTGGTGCTA-ATGGTGCTAA
*
50190642 GTGGATATGCCATGGTTACATATATTGATTCAT
62 GTGGATATGCCACGGTTACATATATTGATTCAT
*
50190675 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATGTAACGTGGTGCTAATGGTGCTAAGTGG
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATTTAACGTGGTGCTAATGGTGCTAAGTGG
50190740 ATATGCCACGGTTACATATATTGATTCAT
66 ATATGCCACGGTTACATATATTGATTCAT
*
50190769 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATTTAACGTGCTGCTAA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATTTAACGTGGTGCTAA
50190821 GTGGATATGC
Statistics
Matches: 135, Mismatches: 8, Indels: 7
0.90 0.05 0.05
Matches are distributed among these distances:
92 3 0.02
93 3 0.02
94 93 0.69
95 36 0.27
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.31
Consensus pattern (94 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATTTAACGTGGTGCTAATGGTGCTAAGTGG
ATATGCCACGGTTACATATATTGATTCAT
Found at i:50191140 original size:17 final size:19
Alignment explanation
Indices: 50191098--50191141 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
50191088 ATGAAATTTT
*
50191098 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
50191117 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
50191135 AA-TATTA
1 AATTATTA
50191142 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:50192556 original size:26 final size:27
Alignment explanation
Indices: 50192526--50192587 Score: 99
Period size: 27 Copynumber: 2.3 Consensus size: 27
50192516 TTTAAAACCC
50192526 TAGGGGTATATCGGTAATTTT-CTCTT
1 TAGGGGTATATCGGTAATTTTGCTCTT
*
50192552 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGT-ATATCGGTAATTTTGCTCTT
50192580 TAGGGGTA
1 TAGGGGTA
50192588 ATTTCGTGAT
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 7 0.21
27 14 0.42
28 12 0.36
ACGTcount: A:0.19, C:0.10, G:0.27, T:0.44
Consensus pattern (27 bp):
TAGGGGTATATCGGTAATTTTGCTCTT
Found at i:50192566 original size:27 final size:28
Alignment explanation
Indices: 50192526--50192593 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
50192516 TTTAAAACCC
*
50192526 TAGGGGT-ATATCGGTAATTTT-CTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
50192552 TAGGGGTAATTTCGGTAATTTTGCTCTT
1 TAGGGGTAATTTCGGTAATTTTGCTCTT
50192580 TAGGGGTAATTTCG
1 TAGGGGTAATTTCG
50192594 TGATCTACGC
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 7 0.18
27 13 0.33
28 19 0.49
ACGTcount: A:0.19, C:0.10, G:0.26, T:0.44
Consensus pattern (28 bp):
TAGGGGTAATTTCGGTAATTTTGCTCTT
Found at i:50196085 original size:28 final size:28
Alignment explanation
Indices: 50196053--50196121 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
50196043 GCGTAGATCA
50196053 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
50196081 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
50196109 CGATA-TACCCCTA
1 CGAAATTACCCCTA
50196122 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:50198524 original size:17 final size:19
Alignment explanation
Indices: 50198482--50198525 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
50198472 ATGAAATTTT
*
50198482 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
50198501 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
50198519 AA-TATTA
1 AATTATTA
50198526 CTGTATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:50200377 original size:28 final size:28
Alignment explanation
Indices: 50200345--50200413 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
50200335 GCGTAGATCA
50200345 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
50200373 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
50200401 CGATA-TACCCCTA
1 CGAAATTACCCCTA
50200414 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:50206208 original size:53 final size:53
Alignment explanation
Indices: 50206026--50206232 Score: 191
Period size: 53 Copynumber: 3.8 Consensus size: 53
50206016 ATTAGGATTT
* * * * * *
50206026 AAGGATACCAAGTAAGACCATGCCAAGGCATGGTATTGGTAAGTTTTACAAGGC
1 AAGGATACCAAGTAAGACCATGTCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * ***
50206080 AAGGAAATCATGTAAGACCATGTCAAGACATGGTATTGATAAACCACGATAAGGC
1 AAGGATACCAAGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
50206135 AAAGATCCCATGTAAGACCATG-CTAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCAAGTAAGACCATGTC-AAGACATGGCAATGGTAAGTTCATAAGGC
50206188 AAGGATACCAAGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCAAGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
50206233 TAAAAAGGAA
Statistics
Matches: 121, Mismatches: 28, Indels: 9
0.77 0.18 0.06
Matches are distributed among these distances:
53 45 0.37
54 38 0.31
55 38 0.31
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.21
Consensus pattern (53 bp):
AAGGATACCAAGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:50213498 original size:28 final size:28
Alignment explanation
Indices: 50213446--50213517 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
50213436 CTATTTATGT
50213446 ATATGGCACTTAGTGTGAAAAATATT-A
1 ATATGGCACTTAGTGTGAAAAATATTGA
* ** *
50213473 ATAATGGCACTTGGTGTGTGAGATATTGA
1 AT-ATGGCACTTAGTGTGAAAAATATTGA
*
50213502 GTATGGCACTTAGTGT
1 ATATGGCACTTAGTGT
50213518 ACGAGACATC
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
27 2 0.05
28 33 0.89
29 2 0.05
ACGTcount: A:0.31, C:0.08, G:0.26, T:0.35
Consensus pattern (28 bp):
ATATGGCACTTAGTGTGAAAAATATTGA
Found at i:50217127 original size:27 final size:26
Alignment explanation
Indices: 50217069--50217181 Score: 118
Period size: 27 Copynumber: 4.2 Consensus size: 26
50217059 AGGAAGCGTC
* *
50217069 CTGGTGGCTATGCCACAAATTATCTGAT
1 CTGGTGGCTCTGCCAC--ATTATCTGTT
50217097 CTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTGGCTCTGCCACAT-TATCTGTT
* *
50217124 CTGGTAGCTCTGCCACGATTATCTATAT
1 CTGGTGGCTCTGCCAC-ATTATCTGT-T
* **
50217152 CTGGTGACTCTATCACATTATCTGTT
1 CTGGTGGCTCTGCCACATTATCTGTT
50217178 CTGG
1 CTGG
50217182 CAGCCATGCT
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
26 7 0.10
27 36 0.49
28 30 0.41
ACGTcount: A:0.19, C:0.24, G:0.20, T:0.36
Consensus pattern (26 bp):
CTGGTGGCTCTGCCACATTATCTGTT
Found at i:50217154 original size:55 final size:54
Alignment explanation
Indices: 50217069--50217190 Score: 138
Period size: 55 Copynumber: 2.2 Consensus size: 54
50217059 AGGAAGCGTC
* * *
50217069 CTGGTGGCTATGCCACAAATTATCTGATCTGGTGGCTCTGCCACATATATCTGTT
1 CTGGTAGCTATGCCACAAATTATCTGATCTGGTGACTCTACCACAT-TATCTGTT
* * * *
50217124 CTGGTAGCTCTGCCAC-GATTATCTATATCTGGTGACTCTATCACATTATCTGTT
1 CTGGTAGCTATGCCACAAATTATCT-GATCTGGTGACTCTACCACATTATCTGTT
* *
50217178 CTGGCAGCCATGC
1 CTGGTAGCTATGC
50217191 TGCATATTTC
Statistics
Matches: 56, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
54 25 0.45
55 31 0.55
ACGTcount: A:0.20, C:0.25, G:0.20, T:0.34
Consensus pattern (54 bp):
CTGGTAGCTATGCCACAAATTATCTGATCTGGTGACTCTACCACATTATCTGTT
Found at i:50223901 original size:31 final size:31
Alignment explanation
Indices: 50223848--50223911 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
50223838 CCTTTTCATG
* *
50223848 TTTCATATTTCATAACATTGGGCTAAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
** *
50223879 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTGGGCCAAAGCCT
50223910 TT
1 TT
50223912 ACTGTAAATG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (31 bp):
TTTCATATTTCATAACACTGGGCCAAAGCCT
Found at i:50224160 original size:24 final size:25
Alignment explanation
Indices: 50224120--50224227 Score: 116
Period size: 25 Copynumber: 4.4 Consensus size: 25
50224110 CTGGAGGCCT
* *
50224120 AGCCTCTTTTAAT-AACTGGGAC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
50224144 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
50224169 AGCCCTTTT-AGTAAACTGGGTCAAA
1 AGCCCTTTTGA-TAAACTGGGGCAAA
* *
50224194 AGCCCTTTTCGGTAAACTGGGGC-AT
1 AGCCCTTTT-GATAAACTGGGGCAAA
50224219 AGCCCTTTT
1 AGCCCTTTT
50224228 TGCACTTCCT
Statistics
Matches: 73, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
23 7 0.10
24 13 0.18
25 43 0.59
26 10 0.14
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:50224228 original size:26 final size:25
Alignment explanation
Indices: 50224133--50224227 Score: 122
Period size: 25 Copynumber: 3.8 Consensus size: 25
50224123 CTCTTTTAAT
* *
50224133 AACTGGGAC-AAAGCCCTTTTGATA
1 AACTGGGGCAAAAGCCCTTTTGGTA
*
50224157 AACTGGGGCAAAAGCCCTTTTAGTA
1 AACTGGGGCAAAAGCCCTTTTGGTA
*
50224182 AACTGGGTCAAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAAGCCCTTTT-GGTA
*
50224208 AACTGGGGC-ATAGCCCTTTT
1 AACTGGGGCAAAAGCCCTTTT
50224228 TGCACTTCCT
Statistics
Matches: 62, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
24 8 0.13
25 43 0.69
26 11 0.18
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAAGCCCTTTTGGTA
Found at i:50224298 original size:20 final size:20
Alignment explanation
Indices: 50224274--50224321 Score: 80
Period size: 20 Copynumber: 2.4 Consensus size: 20
50224264 ATTATGAATA
50224274 AATCATGTGCATATCATA-C
1 AATCATGTGCATATCATATC
50224293 ATATCATGTGCATATCATATC
1 A-ATCATGTGCATATCATATC
50224314 AATCATGT
1 AATCATGT
50224322 ATATCAAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.04
20 24 0.89
21 2 0.07
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (20 bp):
AATCATGTGCATATCATATC
Found at i:50226273 original size:30 final size:30
Alignment explanation
Indices: 50226218--50226378 Score: 231
Period size: 30 Copynumber: 5.5 Consensus size: 30
50226208 ATAGTGAATC
50226218 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50226247 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50226277 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
50226307 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
50226335 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50226365 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50226379 CAATCTTGTC
Statistics
Matches: 122, Mismatches: 5, Indels: 9
0.90 0.04 0.07
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 19 0.16
30 78 0.64
31 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:50226369 original size:58 final size:57
Alignment explanation
Indices: 50226218--50226378 Score: 216
Period size: 58 Copynumber: 2.8 Consensus size: 57
50226208 ATAGTGAATC
* *
50226218 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTCAGCTCGCACACTTAGTGCTATATAA--TTCAACT
50226277 CGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATA-AATTTTCAGCTCGCACACTTAGTGCTATATAATTC-AACT
* * * *
50226335 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-AATTTTCAGCTCGCACACTTAGTGC
50226379 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
57 2 0.02
58 42 0.45
59 18 0.19
60 31 0.33
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATAAATTTTCAGCTCGCACACTTAGTGCTATATAATTCAACT
Found at i:50234228 original size:30 final size:30
Alignment explanation
Indices: 50234173--50234333 Score: 231
Period size: 30 Copynumber: 5.5 Consensus size: 30
50234163 ATAGTGAATC
50234173 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50234202 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50234232 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAGCT
*
50234262 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AGCT
* * * * *
50234290 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAGCT
50234320 CGCACACTTAGTGC
1 CGCACACTTAGTGC
50234334 CAATCTTGTC
Statistics
Matches: 122, Mismatches: 5, Indels: 9
0.90 0.04 0.07
Matches are distributed among these distances:
27 2 0.02
28 22 0.18
29 19 0.16
30 78 0.64
31 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAGCT
Found at i:50234324 original size:58 final size:57
Alignment explanation
Indices: 50234173--50234333 Score: 216
Period size: 58 Copynumber: 2.8 Consensus size: 57
50234163 ATAGTGAATC
* *
50234173 CGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATAAATTTTCAGCTCGCACACTTAGTGCTATATAA--TTCAACT
50234232 CGCACACTTAGTGCTATATAATTTTCAGCTCGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATA-AATTTTCAGCTCGCACACTTAGTGCTATATAATTC-AACT
* * * *
50234290 CGCACACTTAGTGCTGTACAATTTTAAACCCGCACACTTAGTGC
1 CGCACACTTAGTGCTATA-AATTTTCAGCTCGCACACTTAGTGC
50234334 CAATCTTGTC
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
57 2 0.02
58 42 0.45
59 18 0.19
60 31 0.33
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (57 bp):
CGCACACTTAGTGCTATAAATTTTCAGCTCGCACACTTAGTGCTATATAATTCAACT
Found at i:50243096 original size:38 final size:38
Alignment explanation
Indices: 50243054--50243160 Score: 187
Period size: 38 Copynumber: 2.8 Consensus size: 38
50243044 CTCAGCGTAT
50243054 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAC
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAC
*
50243092 ACTGGGCCGAAGCCTTTTCATGTTTCGTATTTCATAAC
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAC
* *
50243130 ATTGGGCCGAAGCCTTTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATT
50243161 ACTAGGCCGA
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 65 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.38
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAC
Found at i:50243157 original size:31 final size:31
Alignment explanation
Indices: 50243114--50243177 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
50243104 CCTTTTCATG
* * *
50243114 TTTCGTATTTCATAACATTGGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
**
50243145 TTTCATATTTCATATTACTAGGCCGAAGCCT
1 TTTCATATTTCATAACACTAGGCCGAAGCCT
50243176 TT
1 TT
50243178 ACTATAATCG
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAACACTAGGCCGAAGCCT
Found at i:50243481 original size:26 final size:24
Alignment explanation
Indices: 50243386--50243492 Score: 119
Period size: 25 Copynumber: 4.4 Consensus size: 24
50243376 CTGGAGGCCT
* *
50243386 AGCCTCTTTTAAT-AACTGGGGCAA
1 AGCC-CTTTTGATAAACTAGGGCAA
50243410 A-CCCTTTTGATAAACTAGGGCAAA
1 AGCCCTTTTGATAAACTAGGGC-AA
* *
50243434 AGCCCTTTTAATAAACTGGGGCAA
1 AGCCCTTTTGATAAACTAGGGCAA
*
50243458 GAGCCCTTTTCGATAAACTAGGGCAT
1 -AGCCCTTTT-GATAAACTAGGGCAA
50243484 AGCCCTTTT
1 AGCCCTTTT
50243493 TGCACTTCCT
Statistics
Matches: 71, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
22 7 0.10
23 10 0.14
24 6 0.08
25 36 0.51
26 12 0.17
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (24 bp):
AGCCCTTTTGATAAACTAGGGCAA
Found at i:50243563 original size:20 final size:20
Alignment explanation
Indices: 50243540--50243586 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
50243530 TTATGAATAC
50243540 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
50243559 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
50243580 ATCATGT
1 ATCATGT
50243587 ATATCAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:50250569 original size:13 final size:13
Alignment explanation
Indices: 50250551--50250580 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
50250541 TTTGAATTAA
50250551 TTCACTCGTGACG
1 TTCACTCGTGACG
50250564 TTCACTCGTGACG
1 TTCACTCGTGACG
50250577 TTCA
1 TTCA
50250581 TAGTGTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.30, G:0.20, T:0.33
Consensus pattern (13 bp):
TTCACTCGTGACG
Found at i:50251398 original size:16 final size:16
Alignment explanation
Indices: 50251379--50251417 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
50251369 TAATAAGATT
50251379 TAATATTAAAT-TAATA
1 TAATATT-AATCTAATA
*
50251395 TAATATTTATCTAATA
1 TAATATTAATCTAATA
50251411 TAATATT
1 TAATATT
50251418 TCTCTTGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.10
16 19 0.90
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (16 bp):
TAATATTAATCTAATA
Found at i:50266616 original size:27 final size:29
Alignment explanation
Indices: 50266532--50266662 Score: 90
Period size: 28 Copynumber: 4.6 Consensus size: 29
50266522 ATACTCGATT
* ** *
50266532 TCGCACACTTAGTGCCACGTATTT-AAGC
1 TCGCACACTCAGTGCCATATATTTCCAGC
* * ***
50266560 CCGCACACACAGTGCCATA-CCCTCCGAGC
1 TCGCACACTCAGTGCCATATATTTCC-AGC
* *
50266589 TCGCACAC-CAGTGCCGTAT-TTTTCAGC
1 TCGCACACTCAGTGCCATATATTTCCAGC
* *
50266616 TTGCACACTTAGTGCCATATATTTCCAGC
1 TCGCACACTCAGTGCCATATATTTCCAGC
* *
50266645 ACGCACACTTAGTGCCAT
1 TCGCACACTCAGTGCCAT
50266663 CTCGTCACCG
Statistics
Matches: 78, Mismatches: 20, Indels: 9
0.73 0.19 0.08
Matches are distributed among these distances:
27 11 0.14
28 34 0.44
29 33 0.42
ACGTcount: A:0.24, C:0.34, G:0.17, T:0.25
Consensus pattern (29 bp):
TCGCACACTCAGTGCCATATATTTCCAGC
Found at i:50274461 original size:28 final size:29
Alignment explanation
Indices: 50274421--50274493 Score: 85
Period size: 29 Copynumber: 2.6 Consensus size: 29
50274411 CCTCCGAGCT
** * *
50274421 CGCACACCCAGTGCCGTAT-TTTTCAGCT
1 CGCACACTTAGTGCCGTATATTTCCAGCA
* *
50274449 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCA
50274478 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
50274494 ATCTCGTCAC
Statistics
Matches: 36, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
28 15 0.42
29 21 0.58
ACGTcount: A:0.22, C:0.33, G:0.18, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:50281400 original size:21 final size:21
Alignment explanation
Indices: 50281376--50281444 Score: 63
Period size: 21 Copynumber: 3.3 Consensus size: 21
50281366 TCGGTTCTCA
50281376 TTTAATTAGTAAAAGTATATT
1 TTTAATTAGTAAAAGTATATT
* *
50281397 TTTAATAATGTAAAATGTAT-TA
1 TTTAATTA-GTAAAA-GTATATT
*
50281419 TTT-ATT-GTAAAAGTGTATT
1 TTTAATTAGTAAAAGTATATT
50281438 ATTTAAT
1 -TTTAAT
50281445 GAATTAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
18 3 0.08
19 7 0.18
20 3 0.08
21 11 0.29
22 10 0.26
23 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (21 bp):
TTTAATTAGTAAAAGTATATT
Found at i:50281452 original size:23 final size:23
Alignment explanation
Indices: 50281385--50281453 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 23
50281375 ATTTAATTAG
*
50281385 TAAAAGTATATT-TTTAAT-AAT
1 TAAAAGTGTATTATTTAATGAAT
*
50281406 GTAAAA-TGTATTATTTATTG---
1 -TAAAAGTGTATTATTTAATGAAT
50281426 TAAAAGTGTATTATTTAATGAAT
1 TAAAAGTGTATTATTTAATGAAT
50281449 TAAAA
1 TAAAA
50281454 AATAAACGTG
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
19 5 0.13
20 13 0.34
21 5 0.13
22 10 0.26
23 5 0.13
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (23 bp):
TAAAAGTGTATTATTTAATGAAT
Found at i:50283534 original size:8 final size:8
Alignment explanation
Indices: 50283521--50283545 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
50283511 TGTATGGAGC
50283521 TTTTGTTA
1 TTTTGTTA
50283529 TTTTGTTA
1 TTTTGTTA
50283537 TTTTGTTA
1 TTTTGTTA
50283545 T
1 T
50283546 ATGTGTCATT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.12, T:0.76
Consensus pattern (8 bp):
TTTTGTTA
Found at i:50286320 original size:43 final size:41
Alignment explanation
Indices: 50286273--50286424 Score: 137
Period size: 43 Copynumber: 3.6 Consensus size: 41
50286263 GCCAAAGTCT
*
50286273 CAGACGTGGTCTTACATGTAATCAAACATCGATGCCACTGTCC
1 CAGACGTGGTCTTACACGTAATCAAACA-CGATGCCA-TGTCC
* * * *
50286316 CAGACAG-GGTCTTACACGAAATCAAATACAATACCGATGTCC
1 CAGAC-GTGGTCTTACACGTAATCAAACACGATGCC-ATGTCC
* * *
50286358 CAGACATGGTATTACACGTAAACAGAAGC-CGATGCCAATGTCC
1 CAGACGTGGTCTTACACGTAATCA-AA-CACGATGCC-ATGTCC
* *
50286401 CATACGTGGTCTTACACGAAATCA
1 CAGACGTGGTCTTACACGTAATCA
50286425 CATAACGAAA
Statistics
Matches: 86, Mismatches: 18, Indels: 10
0.75 0.16 0.09
Matches are distributed among these distances:
42 29 0.34
43 56 0.65
44 1 0.01
ACGTcount: A:0.34, C:0.26, G:0.18, T:0.22
Consensus pattern (41 bp):
CAGACGTGGTCTTACACGTAATCAAACACGATGCCATGTCC
Found at i:50289653 original size:37 final size:37
Alignment explanation
Indices: 50289612--50289702 Score: 173
Period size: 37 Copynumber: 2.5 Consensus size: 37
50289602 ACAAGTAGCT
50289612 ATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTC
*
50289649 ATCGGGTCTTACCCGGACATAATCTCCACACGTAGTC
1 ATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTC
50289686 ATCGGGTCTTACCCGGA
1 ATCGGGTCTTACCCGGA
50289703 ATATATTTCC
Statistics
Matches: 53, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (37 bp):
ATCGGGTCTTACCCGGACAAAATCTCCACACGTAGTC
Found at i:50290231 original size:48 final size:48
Alignment explanation
Indices: 50289872--50290230 Score: 637
Period size: 48 Copynumber: 7.5 Consensus size: 48
50289862 CTAGCCGAAT
* * *
50289872 CACTAGCCATTCGGCTTTACCTCATATACATATCTCATACATATTTCG
1 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
*
50289920 CATTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
50289968 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
50290016 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
*
50290064 CACTAGTCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
50290112 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
* *
50290160 CATTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
* *
50290208 CATTAGTCATTCGGCTTTACCAC
1 CACTAGCCATTCGGCTTTACCAC
50290231 ACACATATAT
Statistics
Matches: 301, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 301 1.00
ACGTcount: A:0.29, C:0.28, G:0.08, T:0.35
Consensus pattern (48 bp):
CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
Found at i:50298772 original size:24 final size:24
Alignment explanation
Indices: 50298745--50298829 Score: 152
Period size: 24 Copynumber: 3.5 Consensus size: 24
50298735 TATTATGTTA
50298745 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
*
50298769 GCACACATAGTGCTATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
50298793 GCACACATAGTGCCATAGTAAATC
1 GCACACATAGTGCCATAGTAAATC
*
50298817 ACACACATAGTGC
1 GCACACATAGTGC
50298830 ATTTGAGATT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 58 1.00
ACGTcount: A:0.38, C:0.25, G:0.16, T:0.21
Consensus pattern (24 bp):
GCACACATAGTGCCATAGTAAATC
Found at i:50311828 original size:16 final size:16
Alignment explanation
Indices: 50311807--50311843 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
50311797 GTGATGATGA
50311807 GGGAGGAATTCAATGG
1 GGGAGGAATTCAATGG
*
50311823 GGGAGGAATTTAATGG
1 GGGAGGAATTCAATGG
50311839 GGGAG
1 GGGAG
50311844 TTCTATCGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.30, C:0.03, G:0.49, T:0.19
Consensus pattern (16 bp):
GGGAGGAATTCAATGG
Found at i:50317866 original size:13 final size:14
Alignment explanation
Indices: 50317848--50317886 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 14
50317838 GAAGATGGAT
50317848 AAATAAAAAAA-AG
1 AAATAAAAAAATAG
50317861 AAATAAATAAAATAG
1 AAATAAA-AAAATAG
50317876 AATATAAAAAA
1 AA-ATAAAAAA
50317887 GAGATAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 7 0.30
14 4 0.17
15 7 0.30
16 5 0.22
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (14 bp):
AAATAAAAAAATAG
Found at i:50318574 original size:11 final size:11
Alignment explanation
Indices: 50318558--50318582 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
50318548 GCGATTATTG
50318558 TATTTATTGTA
1 TATTTATTGTA
50318569 TATTTATTGTA
1 TATTTATTGTA
50318580 TAT
1 TAT
50318583 AAATATAAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.08, T:0.64
Consensus pattern (11 bp):
TATTTATTGTA
Found at i:50319205 original size:21 final size:21
Alignment explanation
Indices: 50319166--50319205 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
50319156 TTTATTTAAA
*
50319166 AATATAAATGATATAGAATAT
1 AATATAAATGAAATAGAATAT
*
50319187 AATATAAATGAAATGGAAT
1 AATATAAATGAAATAGAAT
50319206 TACTGATAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.57, C:0.00, G:0.12, T:0.30
Consensus pattern (21 bp):
AATATAAATGAAATAGAATAT
Found at i:50321053 original size:19 final size:19
Alignment explanation
Indices: 50321029--50321068 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
50321019 TATTTTTTTT
* *
50321029 ATTAGAATCGAAAAGTTTA
1 ATTAGAATAGAAAAGTATA
50321048 ATTAGAATAGAAAAGTATA
1 ATTAGAATAGAAAAGTATA
50321067 AT
1 AT
50321069 AAAAGTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.03, G:0.15, T:0.30
Consensus pattern (19 bp):
ATTAGAATAGAAAAGTATA
Found at i:50322578 original size:16 final size:16
Alignment explanation
Indices: 50322557--50322589 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
50322547 TCTTATTCCT
*
50322557 TTGCTACTATAGAATA
1 TTGCTACTATAAAATA
50322573 TTGCTACTATAAAATA
1 TTGCTACTATAAAATA
50322589 T
1 T
50322590 AGAATACCGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.12, G:0.09, T:0.39
Consensus pattern (16 bp):
TTGCTACTATAAAATA
Found at i:50328266 original size:14 final size:14
Alignment explanation
Indices: 50328247--50328275 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
50328237 ACAGATGGAT
50328247 TCGTATAATTCTTA
1 TCGTATAATTCTTA
50328261 TCGTATAATTCTTA
1 TCGTATAATTCTTA
50328275 T
1 T
50328276 ATATAATTGT
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:0.28, C:0.14, G:0.07, T:0.52
Consensus pattern (14 bp):
TCGTATAATTCTTA
Found at i:50328282 original size:13 final size:14
Alignment explanation
Indices: 50328250--50328283 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
50328240 GATGGATTCG
*
50328250 TATAATTCTTATCG
1 TATAATTCTTATCA
50328264 TATAATTCTTAT-A
1 TATAATTCTTATCA
50328277 TATAATT
1 TATAATT
50328284 GTACAATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.35, C:0.09, G:0.03, T:0.53
Consensus pattern (14 bp):
TATAATTCTTATCA
Found at i:50331563 original size:28 final size:28
Alignment explanation
Indices: 50331494--50331594 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
50331484 GACAAGATTG
* * * *
50331494 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
50331524 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
50331552 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
50331581 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
50331595 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:50339516 original size:28 final size:29
Alignment explanation
Indices: 50339476--50339545 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
50339466 AATTGTACAT
*
50339476 CACTAAGTGTGCGAGTTTG-AT-TATATAG
1 CACTAAGTGTGCGAG-TTGAATACATATAG
50339504 CACTAAGTGTGCGAGTTGAATACATATAG
1 CACTAAGTGTGCGAGTTGAATACATATAG
50339533 CACTAAGTGTGCG
1 CACTAAGTGTGCG
50339546 GATTCACTAT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 3 0.08
28 17 0.44
29 19 0.49
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (29 bp):
CACTAAGTGTGCGAGTTGAATACATATAG
Found at i:50343031 original size:43 final size:44
Alignment explanation
Indices: 50342919--50343031 Score: 144
Period size: 43 Copynumber: 2.6 Consensus size: 44
50342909 CAATACCAAC
*
50342919 GTCCCAAACACGGTCTTACATGT-AATCAAATACCGATGCCACT
1 GTCCCAGACACGGTCTTACATGTAAATCAAATACCGATGCCACT
* *
50342962 GTCCCAGACAGGGTCTTACATG-AAATCAAATA-CGATGTCGA-T
1 GTCCCAGACACGGTCTTACATGTAAATCAAATACCGATG-CCACT
* *
50343004 GTCCCAGACATGGTCTTACACGTAAATC
1 GTCCCAGACACGGTCTTACATGTAAATC
50343032 TCAAATCAAT
Statistics
Matches: 62, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
42 26 0.42
43 36 0.58
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.24
Consensus pattern (44 bp):
GTCCCAGACACGGTCTTACATGTAAATCAAATACCGATGCCACT
Found at i:50347178 original size:21 final size:21
Alignment explanation
Indices: 50347152--50347193 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
50347142 ACCAAGCAAG
50347152 GATGCATCACTGTAAATAACA
1 GATGCATCACTGTAAATAACA
50347173 GATGCATCACTGTAAATAACA
1 GATGCATCACTGTAAATAACA
50347194 AACTCTTTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.43, C:0.19, G:0.14, T:0.24
Consensus pattern (21 bp):
GATGCATCACTGTAAATAACA
Found at i:50350225 original size:2 final size:2
Alignment explanation
Indices: 50350218--50350250 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
50350208 ATGTATAATT
50350218 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
50350251 CATTCATTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50350893 original size:24 final size:23
Alignment explanation
Indices: 50350864--50350926 Score: 81
Period size: 24 Copynumber: 2.7 Consensus size: 23
50350854 AACCGAATTT
* * *
50350864 GCACACATAGTGCTTATTACACTC
1 GCACACATAGTGCATAGTAAAC-C
50350888 GCACACATAGTGCCATAGTAAACC
1 GCACACATAGTG-CATAGTAAACC
50350912 GCACACATAGTGCAT
1 GCACACATAGTGCAT
50350927 TGGATTTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
23 3 0.09
24 25 0.71
25 7 0.20
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (23 bp):
GCACACATAGTGCATAGTAAACC
Found at i:50360366 original size:27 final size:26
Alignment explanation
Indices: 50360329--50360440 Score: 127
Period size: 27 Copynumber: 4.2 Consensus size: 26
50360319 AGCATTGCTG
* *
50360329 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
50360355 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
*
50360383 CCAGAACAGATATTTGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* *
50360410 CCAGATCAGATAATTATGGC-GTAGCCA
1 CCAGAACAGATAA-TGTGGCAG-AGCCA
50360437 CCAG
1 CCAG
50360441 GACGCTTCCT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
26 6 0.08
27 53 0.71
28 16 0.21
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:50360420 original size:54 final size:54
Alignment explanation
Indices: 50360329--50360440 Score: 147
Period size: 54 Copynumber: 2.1 Consensus size: 54
50360319 AGCATTGCTG
* *
50360329 CCAGAACAGATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAG-AGCCA
1 CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCATGGC-GTAGCCA
* * *
50360383 CCAGAACAGATATTTGTGGCAGAGCCACCAGAT-CAGATAATTATGGCGTAGCCA
1 CCAGAACAGATA-ATGTGACAGAGCCACCAGATACAGATAATCATGGCGTAGCCA
50360437 CCAG
1 CCAG
50360441 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
53 1 0.02
54 33 0.65
55 17 0.33
ACGTcount: A:0.36, C:0.23, G:0.24, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATAATGTGACAGAGCCACCAGATACAGATAATCATGGCGTAGCCA
Found at i:50369995 original size:40 final size:39
Alignment explanation
Indices: 50369814--50369995 Score: 161
Period size: 40 Copynumber: 4.6 Consensus size: 39
50369804 GACTCGCTCA
** * ** *
50369814 AATGCCTTCGGGACGAAGCCCGGTTATAGCGACTCGCAC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* * *
50369853 GAATGCCTTCGGGACTTAACCCGGGTTTAGTAACTTGCAC
1 -AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* * * *
50369893 AATGCCTTCAGG-CTTAACCCGGATTTATTAACTTGCAC
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
* * *
50369931 GAATGCCTTC-GGATCCTAGTCCGGATATAGTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTT-GCAC
*
50369972 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
50369996 CATCATTCGA
Statistics
Matches: 117, Mismatches: 20, Indels: 10
0.80 0.14 0.07
Matches are distributed among these distances:
38 26 0.22
39 20 0.17
40 64 0.55
41 7 0.06
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTTGCAC
Found at i:50378984 original size:27 final size:27
Alignment explanation
Indices: 50378943--50379125 Score: 224
Period size: 27 Copynumber: 6.8 Consensus size: 27
50378933 CCTTAATCGA
*
50378943 TAAAATGACTATTTTGCTCC-TATGTGG
1 TAAAATGACTGTTTTGC-CCTTATGTGG
* *
50378970 AAAAATGACTGTTTTGCCTTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
*
50378997 TAAAATGACTATTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
50379024 TAAAATAACTGGTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * **
50379051 TAAAATGATTGTTTTACCCTTATAAGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* *
50379078 TAAAATGATTGTTTTGCCCTTATGTTG
1 TAAAATGACTGTTTTGCCCTTATGTGG
*
50379105 TAAAATGACTGTTTTGACCTT
1 TAAAATGACTGTTTTGCCCTT
50379126 TATGGTACGA
Statistics
Matches: 134, Mismatches: 21, Indels: 2
0.85 0.13 0.01
Matches are distributed among these distances:
26 1 0.01
27 133 0.99
ACGTcount: A:0.27, C:0.13, G:0.19, T:0.41
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGG
Found at i:50381790 original size:40 final size:40
Alignment explanation
Indices: 50381694--50381912 Score: 240
Period size: 40 Copynumber: 5.5 Consensus size: 40
50381684 CGAATGGTGT
* * * * * *
50381694 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* * *
50381735 CCGGGTCAACTCCCGAAGGCATTTGTGTGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
50381775 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
50381815 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * * * * *
50381855 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* *
50381895 CCGGGCTATGTCCCGAAG
1 CCGGGTTAAGTCCCGAAG
50381913 ACAATCGAGC
Statistics
Matches: 153, Mismatches: 25, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
40 130 0.85
41 23 0.15
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:50381908 original size:120 final size:121
Alignment explanation
Indices: 50381694--50381912 Score: 289
Period size: 120 Copynumber: 1.8 Consensus size: 121
50381684 CGAATGGTGT
* * *
50381694 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
* * * *
50381759 GTGTGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
66 GTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * * *
50381815 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAAT
* * *
50381878 TGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
65 TGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
50381913 ACAATCGAGC
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
119 1 0.01
120 57 0.69
121 25 0.30
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.23
Consensus pattern (121 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
GTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:50381933 original size:40 final size:40
Alignment explanation
Indices: 50381745--50381938 Score: 149
Period size: 40 Copynumber: 4.8 Consensus size: 40
50381735 CCGGGTCAAC
* * * * * * * *
50381745 TCCCGAAGGCATTTGTGTGAGTTACCAAAACCGGGTTAAG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
* * * * * * *
50381785 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
* *
50381825 TCCCGAAGGCATTCGTGCGAGTTACTA-AATCCGGGCTAAT-
1 TCCCGAAGGCAATCGTGCGAGTCACTATAA-CCGGGCT-ATG
* *
50381865 TCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
* * * *
50381905 TCCCGAAGACAATCGAGCGAGTCGCTATATCCGG
1 TCCCGAAGGCAATCGTGCGAGTCACTATAACCGG
50381939 TTAAATTTTG
Statistics
Matches: 135, Mismatches: 15, Indels: 8
0.85 0.09 0.05
Matches are distributed among these distances:
39 4 0.03
40 128 0.95
41 3 0.02
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TCCCGAAGGCAATCGTGCGAGTCACTATAACCGGGCTATG
Found at i:50389794 original size:40 final size:40
Alignment explanation
Indices: 50389738--50389927 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
50389728 TCGAATGGTG
* * * *
50389738 TCCGGG-CTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGTC-AAGTCCCGAAGGCATTTGTGC-GAGTTACCAAA
50389779 TCCGGGTCAA-TCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGTCAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
* *
50389818 ACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGTCAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
* * *
50389858 -CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
1 TCCGGGTCAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
* *
50389897 TCCGGG-CTAATTCCCGAAGGCAATTGTGCGA
1 TCCGGGTC-AAGTCCCGAAGGCATTTGTGCGA
50389928 ATCACTATAA
Statistics
Matches: 133, Mismatches: 12, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
39 53 0.40
40 71 0.53
41 8 0.06
42 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGTCAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
Found at i:50389902 original size:79 final size:79
Alignment explanation
Indices: 50389738--50389969 Score: 268
Period size: 79 Copynumber: 2.9 Consensus size: 79
50389728 TCGAATGGTG
* * * *
50389738 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAA-TCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAA-CCGGGTTAAGTCCCGAAGGCATT
* *
50389802 TGTGCGAGTTACCAAA
64 CGTGCGAGTTACTAAA
* * * *
50389818 ACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAACCGGGTTAAGTCCCGAAGGCATTCG
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAACCGGGTTAAGTCCCGAAGGCATTCG
50389883 TGCGAGTTACTAAA
66 TGCGAGTTACTAAA
* * * * * * *
50389897 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAACCGGGCTATGTCCCGAAGACAATC
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTA-AACCGGGTTAAGTCCCGAAGGCATTC
*
50389962 GAGCGAGT
65 GTGCGAGT
50389970 CGCTATATCC
Statistics
Matches: 129, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
78 8 0.06
79 66 0.51
80 55 0.43
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (79 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAACCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAA
Found at i:50389942 original size:40 final size:39
Alignment explanation
Indices: 50389739--50389969 Score: 225
Period size: 40 Copynumber: 5.8 Consensus size: 39
50389729 CGAATGGTGT
** * *
50389739 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGC-GAGTTACTAAA
* *
50389779 TCCGGG-TCAA-TCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 -CCGGGCT-AAGTCCCGAAGGCAATTGTGCGAGTTA-CTAAA
* * *
50389819 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
*
50389858 CCGGGTTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCAATT-GTGCGAGTTACTAAA
* * *
50389897 TCCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAA
1 -CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTA-AA
* * * *
50389938 CCGGGCTATGTCCCGAAGACAATCGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGT
50389970 CGCTATATCC
Statistics
Matches: 165, Mismatches: 17, Indels: 17
0.83 0.09 0.09
Matches are distributed among these distances:
38 2 0.01
39 49 0.30
40 102 0.62
41 12 0.07
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTAAA
Found at i:50389951 original size:119 final size:119
Alignment explanation
Indices: 50389739--50389955 Score: 294
Period size: 119 Copynumber: 1.8 Consensus size: 119
50389729 CGAATGGTGT
* * *
50389739 CCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATCCGGGTCAATCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATCCCGAAGGCAATTG
* * *
50389804 TGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
66 TGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
* * *
50389858 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AA-TCCCGAAGGCAAT
* * *
50389921 TGTGCGAATCACTATAACCGGGCTATGTCCCGAAG
64 TGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
50389956 ACAATCGAGC
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
117 1 0.01
118 17 0.20
119 66 0.79
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (119 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAATCCCGAAGGCAATTG
TGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
Found at i:50400782 original size:37 final size:37
Alignment explanation
Indices: 50400741--50400857 Score: 105
Period size: 37 Copynumber: 3.2 Consensus size: 37
50400731 AGACGCTGAT
* *
50400741 AAGAGCTCATCCACCCCATAACATGCCAATTGCTTTG
1 AAGAGCTCATCCACCCCATAACACGCCAATTGCTATG
* * * * *
50400778 AAGAGCT-AGTTCA-ACCAAAACACGTCAAATGCTCAT-
1 AAGAGCTCA-TCCACCCCATAACACGCCAATTGCT-ATG
* * *
50400814 AAGAGCTCAACCACCCGATAACACGCCAATTGCTCTG
1 AAGAGCTCATCCACCCCATAACACGCCAATTGCTATG
50400851 AAGAGCT
1 AAGAGCT
50400858 AGTCTAATCG
Statistics
Matches: 60, Mismatches: 15, Indels: 10
0.71 0.18 0.12
Matches are distributed among these distances:
36 26 0.43
37 34 0.57
ACGTcount: A:0.35, C:0.30, G:0.15, T:0.20
Consensus pattern (37 bp):
AAGAGCTCATCCACCCCATAACACGCCAATTGCTATG
Found at i:50400820 original size:36 final size:35
Alignment explanation
Indices: 50400778--50400894 Score: 101
Period size: 36 Copynumber: 3.2 Consensus size: 35
50400768 AATTGCTTTG
*
50400778 AAGAGCTAGTTCAACCAAAACACGTCAAATGCTCAT
1 AAGAGCTAG-TCAACCAAAACACGCCAAATGCTCAT
** * * *
50400814 AAGAGCTCAACCACCCGATAACACGCCAATTGCTC-T
1 AAGAGCT-AGTCAACC-AAAACACGCCAAATGCTCAT
* * *
50400850 GAAGAGCTAGTCTAATCGAAACAGGCCAAATGCTCAT
1 -AAGAGCTAGTC-AACCAAAACACGCCAAATGCTCAT
50400887 AAGAGCTA
1 AAGAGCTA
50400895 AACCACCCGA
Statistics
Matches: 62, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
36 36 0.58
37 26 0.42
ACGTcount: A:0.38, C:0.26, G:0.17, T:0.18
Consensus pattern (35 bp):
AAGAGCTAGTCAACCAAAACACGCCAAATGCTCAT
Found at i:50400858 original size:73 final size:73
Alignment explanation
Indices: 50400739--50400911 Score: 249
Period size: 73 Copynumber: 2.4 Consensus size: 73
50400729 CCAGACGCTG
* * * * *
50400739 ATAAGAGCTCATCCACCCCATAACATGCCAATTGCTTTGAAGAGCTAGT-TCAACCAAAACACGT
1 ATAAGAGCTCAACCACCCGATAACACGCCAATTGCTCTGAAGAGCTAGTCT-AACCAAAACACGC
50400803 CAAATGCTC
65 CAAATGCTC
* * *
50400812 ATAAGAGCTCAACCACCCGATAACACGCCAATTGCTCTGAAGAGCTAGTCTAATCGAAACAGGCC
1 ATAAGAGCTCAACCACCCGATAACACGCCAATTGCTCTGAAGAGCTAGTCTAACCAAAACACGCC
50400877 AAATGCTC
66 AAATGCTC
*
50400885 ATAAGAGCTAAACCACCCGATAACACG
1 ATAAGAGCTCAACCACCCGATAACACG
50400912 TTAAAACAAG
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
73 89 0.99
74 1 0.01
ACGTcount: A:0.37, C:0.29, G:0.16, T:0.18
Consensus pattern (73 bp):
ATAAGAGCTCAACCACCCGATAACACGCCAATTGCTCTGAAGAGCTAGTCTAACCAAAACACGCC
AAATGCTC
Found at i:50404006 original size:28 final size:29
Alignment explanation
Indices: 50403969--50404059 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 29
50403959 AAGTCTACAT
* *
50403969 ACATGCATATGGCCCGCTAGGCCC-AATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
50403997 TCATTCATATGGCCCACTAGGCCCAAATC
1 ACATTCATATGGCCCACTAGGCCCAAATC
*
50404026 ACATTCATATGGCCCATCT-GGCCCGAATC
1 ACATTCATATGGCCCA-CTAGGCCCAAATC
50404055 A-ATTC
1 ACATTC
50404060 CAAGCCATGT
Statistics
Matches: 56, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
28 25 0.45
29 29 0.52
30 2 0.04
ACGTcount: A:0.26, C:0.34, G:0.16, T:0.23
Consensus pattern (29 bp):
ACATTCATATGGCCCACTAGGCCCAAATC
Found at i:50409871 original size:34 final size:34
Alignment explanation
Indices: 50409828--50409907 Score: 90
Period size: 34 Copynumber: 2.4 Consensus size: 34
50409818 TTAGCCCCTT
** *
50409828 TTTCAGTAACAGTTTCAGTCTAGGCCTAAGCCCA
1 TTTCAGTAACAGTGGCAATCTAGGCCTAAGCCCA
** *
50409862 TTTCAGTAACAAAGGCAATCTAGGCCTTAGCCCA
1 TTTCAGTAACAGTGGCAATCTAGGCCTAAGCCCA
*
50409896 ATTCAGT-ACAGT
1 TTTCAGTAACAGT
50409908 ATGCAAACAA
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
33 3 0.08
34 34 0.92
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (34 bp):
TTTCAGTAACAGTGGCAATCTAGGCCTAAGCCCA
Found at i:50413737 original size:16 final size:18
Alignment explanation
Indices: 50413706--50413738 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
50413696 CATCAAGAAG
50413706 GGTTTTCAGTGAAAACAT
1 GGTTTTCAGTGAAAACAT
50413724 GGTTTTC-G-GAAAACA
1 GGTTTTCAGTGAAAACA
50413739 CTTCAATGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 1 0.07
18 7 0.47
ACGTcount: A:0.33, C:0.12, G:0.24, T:0.30
Consensus pattern (18 bp):
GGTTTTCAGTGAAAACAT
Found at i:50421193 original size:28 final size:27
Alignment explanation
Indices: 50421130--50421199 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
50421120 ATAGTGAGTC
50421130 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
50421157 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
50421185 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50421200 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:50429114 original size:28 final size:27
Alignment explanation
Indices: 50429051--50429120 Score: 131
Period size: 27 Copynumber: 2.6 Consensus size: 27
50429041 ATAGTGAGTC
50429051 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
50429078 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
50429106 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
50429121 GTACAAATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 23 0.55
28 19 0.45
ACGTcount: A:0.31, C:0.27, G:0.13, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:50443132 original size:29 final size:29
Alignment explanation
Indices: 50443098--50443172 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
50443088 TACTCGATTT
* *
50443098 CGCACACTTAGTGCCATGCGATTTAAGCC
1 CGCACACTTAGTGCCATGCCATTCAAGCC
* * * *
50443127 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATGCCATTCAAGCC
50443156 CGCACACTTAGTGCCAT
1 CGCACACTTAGTGCCAT
50443173 ATATTTCCAG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.23, C:0.35, G:0.20, T:0.23
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCCATTCAAGCC
Found at i:50443190 original size:58 final size:53
Alignment explanation
Indices: 50443154--50443251 Score: 155
Period size: 51 Copynumber: 1.9 Consensus size: 53
50443144 GCCCTTCGAG
* *
50443154 CTCGCACACTTAGTGCCATATATTTCCAGCATGCACACTTAGTGCCATATTTC
1 CTCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATACTTC
*
50443207 C-AGCACACTTAGTGCCATAT-TTTCCAGCACGCACACTTAGTGCCA
1 CTCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCA
50443252 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
51 24 0.56
52 18 0.42
53 1 0.02
ACGTcount: A:0.26, C:0.32, G:0.14, T:0.29
Consensus pattern (53 bp):
CTCGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCCATACTTC
Found at i:50443216 original size:23 final size:23
Alignment explanation
Indices: 50443157--50443236 Score: 97
Period size: 23 Copynumber: 3.2 Consensus size: 23
50443147 CTTCGAGCTC
50443157 GCACACTTAGTGCCATATATTTCCAGCA
1 GCACACTTAGTGCC--ATATTT-C--CA
50443185 TGCACACTTAGTGCCATATTTCCA
1 -GCACACTTAGTGCCATATTTCCA
50443209 GCACACTTAGTGCCATATTTTCCA
1 GCACACTTAGTGCCATA-TTTCCA
50443233 GCAC
1 GCAC
50443237 GCACACTTAG
Statistics
Matches: 50, Mismatches: 0, Indels: 7
0.88 0.00 0.12
Matches are distributed among these distances:
23 17 0.34
24 12 0.24
26 1 0.02
27 6 0.12
29 14 0.28
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (23 bp):
GCACACTTAGTGCCATATTTCCA
Found at i:50450886 original size:29 final size:29
Alignment explanation
Indices: 50450852--50451012 Score: 198
Period size: 29 Copynumber: 5.6 Consensus size: 29
50450842 TACTCGATTT
** * *
50450852 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* **** * *
50450881 CGCACACATAGTGCCATGCCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
50450910 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
50450939 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
50450968 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
50450997 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
50451013 ATCTCGTCAC
Statistics
Matches: 115, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 2 0.02
29 113 0.98
ACGTcount: A:0.25, C:0.32, G:0.17, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:50460293 original size:40 final size:40
Alignment explanation
Indices: 50460248--50460414 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
50460238 CGGAATATAA
50460248 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
50460288 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
50460328 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
50460368 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
50460407 CCGGATAT
1 CCGGATAT
50460415 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:50460398 original size:80 final size:79
Alignment explanation
Indices: 50460248--50460414 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
50460238 CGGAATATAA
* *
50460248 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
50460313 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
50460328 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
50460390 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
50460407 CCGGATAT
1 CCGGATAT
50460415 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:50461262 original size:17 final size:19
Alignment explanation
Indices: 50461239--50461284 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
50461229 AAGAAGCATG
50461239 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
50461257 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
50461275 AATCATGCTC
1 AATCATGCTC
50461285 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:50468299 original size:40 final size:40
Alignment explanation
Indices: 50468254--50468420 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
50468244 CGGAATATAA
50468254 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
50468294 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
50468334 CCGGATATAACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
50468374 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
50468413 CCGGATAT
1 CCGGATAT
50468421 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:50468404 original size:80 final size:79
Alignment explanation
Indices: 50468254--50468420 Score: 205
Period size: 80 Copynumber: 2.1 Consensus size: 79
50468244 CGGAATATAA
* *
50468254 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATG
1 CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
50468319 CCTTCGGGCCTTAGC
66 CCTTCGGG-CTTAGC
* * ** *
50468334 CCGGATATAACCAC-TAGCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAA
1 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA
*
50468396 TTGTCTTCGGGCTTAGC
64 -TGCCTTCGGGCTTAGC
50468413 CCGGATAT
1 CCGGATAT
50468421 CATTCAATTT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
79 18 0.24
80 58 0.76
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (79 bp):
CCGGATATAACCACGTGCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATG
CCTTCGGGCTTAGC
Found at i:50469269 original size:17 final size:19
Alignment explanation
Indices: 50469246--50469291 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
50469236 AAGAAGCATG
50469246 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
50469264 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
50469282 AATCATGCTC
1 AATCATGCTC
50469292 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:50470241 original size:10 final size:10
Alignment explanation
Indices: 50470226--50470250 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
50470216 CAGCTCAGTT
50470226 TGGCCCAAAA
1 TGGCCCAAAA
50470236 TGGCCCAAAA
1 TGGCCCAAAA
50470246 TGGCC
1 TGGCC
50470251 TCGGCCCATG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.12
Consensus pattern (10 bp):
TGGCCCAAAA
Found at i:50473756 original size:40 final size:40
Alignment explanation
Indices: 50473662--50473892 Score: 322
Period size: 40 Copynumber: 5.8 Consensus size: 40
50473652 TGGATGATAA
* ** * *
50473662 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACT-AAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
*
50473701 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAC
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* *
50473741 CCGGGCTAAGTCCCGAAGGCATTTGTACGAATTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
50473781 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
* * *
50473821 CCGGGCTAAGTCCCGAAGGCAATTGTGTGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAAT
* *
50473861 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
50473893 AGTTATATCC
Statistics
Matches: 172, Mismatches: 18, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 31 0.18
40 139 0.81
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.27, T:0.23
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
Found at i:50478962 original size:49 final size:48
Alignment explanation
Indices: 50478785--50479060 Score: 378
Period size: 47 Copynumber: 5.7 Consensus size: 48
50478775 CCCTTCGGGA
* * * * * *
50478785 CTTATCACAT-TTATACACTTTCACATCCACCACGTTGGCCACTCGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50478832 CCTATCACATA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50478879 CTTGTCACATA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50478926 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50478975 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
50479024 CTTATCACATATATATATATACACTTTCACATTCATC
1 CTTATCAC----ATAT-TATACACTTTCACATTCATC
50479061 GCGTAGAATC
Statistics
Matches: 209, Mismatches: 13, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
47 94 0.45
49 92 0.44
53 23 0.11
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (48 bp):
CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50482663 original size:40 final size:40
Alignment explanation
Indices: 50482619--50482850 Score: 410
Period size: 40 Copynumber: 5.8 Consensus size: 40
50482609 CCAGCATGAT
*
50482619 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
50482659 TGCTCTTCGGGACTTAGTCCGGATACATCACTAGCACGTA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
50482699 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
50482739 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
50482779 TGCTCTTCGGAACTTAGTCCAGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
* *
50482819 TGCTCTTCTGAACTTAGTCCGGATATATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
50482851 CTCAATTCTC
Statistics
Matches: 185, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 185 1.00
ACGTcount: A:0.26, C:0.27, G:0.20, T:0.27
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:50485145 original size:49 final size:48
Alignment explanation
Indices: 50484968--50485290 Score: 454
Period size: 49 Copynumber: 6.7 Consensus size: 48
50484958 CCCTTCGGGA
* * * * *
50484968 CTTATCACAT-TTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
50485015 CCTATCACATA-TATACACTTTCACATTCATCATATTGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
50485062 CTTATCACATA-TATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50485109 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGA
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
50485158 CTTATCACATATGTATACGCTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
*
50485207 CTTATCACATATGTATACGCTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATAT-TATACACTTTCACATTCATCACATCGGCCATTAGGC
50485256 CTTATCACATATATATATACACTTTCACATTCATC
1 CTTATCAC--ATAT-TATACACTTTCACATTCATC
50485291 GCGTAGAATC
Statistics
Matches: 255, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
47 95 0.37
49 137 0.54
51 23 0.09
ACGTcount: A:0.28, C:0.29, G:0.09, T:0.33
Consensus pattern (48 bp):
CTTATCACATATTATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:50490846 original size:40 final size:40
Alignment explanation
Indices: 50490783--50491014 Score: 331
Period size: 40 Copynumber: 5.8 Consensus size: 40
50490773 CATTTGAATG
* * * *
50490783 ATACCCGGGCTAAGTCCCAAAGGCATTTATGCTAG-TGATT
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-TT
*
50490823 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCGGGTTGTT
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* *
50490863 ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTGTT
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
*
50490903 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* *
50490943 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
* * *
50490983 ATACTCGGGTTAAGACCCGAAGGCAATTGTGC
1 ATACCCGGGCTAAGACCCGAAGGCATTTGTGC
50491015 TTGTGGTTAT
Statistics
Matches: 177, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
40 175 0.99
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.25
Consensus pattern (40 bp):
ATACCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGTT
Found at i:50493145 original size:40 final size:40
Alignment explanation
Indices: 50493053--50493281 Score: 327
Period size: 40 Copynumber: 5.8 Consensus size: 40
50493043 GATGATAACT
* ** * *
50493053 GGGCTAAGTCCCGAAGGCATCTGCACTAGTGACT-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
50493092 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAACCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
50493132 GGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
50493172 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
** *
50493212 GGGCTAAGTCCCGAAGGCAACTGTGCGAGTTACTCTAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAATCC
* *
50493252 GGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGT
50493282 AGTTATATCC
Statistics
Matches: 172, Mismatches: 16, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 29 0.17
40 141 0.82
41 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:50499036 original size:30 final size:30
Alignment explanation
Indices: 50499002--50499060 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
50498992 TCAAGTAGCC
* *
50499002 AAAGCTAGTTTAAATCGCACACTTAGTGCA
1 AAAGCTACTTTAAATCGCACACCTAGTGCA
*
50499032 AAAGCTACTTTAAATTGCACACCTAGTGC
1 AAAGCTACTTTAAATCGCACACCTAGTGC
50499061 CATAACTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (30 bp):
AAAGCTACTTTAAATCGCACACCTAGTGCA
Found at i:50500942 original size:39 final size:39
Alignment explanation
Indices: 50500888--50501021 Score: 232
Period size: 39 Copynumber: 3.4 Consensus size: 39
50500878 AACAAAGATG
50500888 CGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCC
1 CGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCC
50500927 CGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCC
1 CGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCC
* *
50500966 CGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCC
1 CGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CC
*
50501006 CGAAGGCATTTGTGCG
1 CGAAGGCAATTGTGCG
50501022 GGTTACCATA
Statistics
Matches: 91, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
39 74 0.81
40 17 0.19
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (39 bp):
CGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAGCC
Found at i:50501037 original size:40 final size:40
Alignment explanation
Indices: 50500888--50501051 Score: 152
Period size: 39 Copynumber: 4.2 Consensus size: 40
50500878 AACAAAGATG
* *** *
50500888 CGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CC
1 CGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAGTCC
* *** *
50500927 CGAAGGCAATTGTGCGAATTGTGATATCCGGGCTAAG-CC
1 CGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAGTCC
*** * *
50500966 CGAAGGCAATTGTGCGAGTTGTGATATCCGGGTTAAGTCC
1 CGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAGTCC
* * *
50501006 CGAAGGCATTTGTGCGGGTTACCATAACCGGGCTATGTCC
1 CGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAGTCC
50501046 CGAAGG
1 CGAAGG
50501052 TGTTTTGAAC
Statistics
Matches: 114, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
39 74 0.65
40 40 0.35
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (40 bp):
CGAAGGCAATTGTGCGAGTTACCATAACCGGGCTAAGTCC
Found at i:50509305 original size:29 final size:29
Alignment explanation
Indices: 50509272--50509403 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
50509262 GTGACGAGAT
*
50509272 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
50509301 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
50509330 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
50509359 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
50509388 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
50509404 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:50517120 original size:29 final size:29
Alignment explanation
Indices: 50517087--50517218 Score: 165
Period size: 29 Copynumber: 4.6 Consensus size: 29
50517077 GTGACGAGAT
*
50517087 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
*
50517116 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* *
50517145 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* * **
50517174 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAAAATA
* **
50517203 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
50517219 AGCTCGAAGG
Statistics
Matches: 91, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 91 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAAAATA
Found at i:50521006 original size:27 final size:27
Alignment explanation
Indices: 50520976--50521029 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
50520966 CTAAGTAAAT
50520976 GGCATAATAACCACATAAGGACCTTTC
1 GGCATAATAACCACATAAGGACCTTTC
50521003 GGCATAATAACCACATAAGGACCTTTC
1 GGCATAATAACCACATAAGGACCTTTC
50521030 AATTATAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.26, G:0.15, T:0.22
Consensus pattern (27 bp):
GGCATAATAACCACATAAGGACCTTTC
Found at i:50525416 original size:23 final size:23
Alignment explanation
Indices: 50525386--50525431 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
50525376 AAGAGAAGAG
50525386 AAGAGAAGAAAGAAACTTTTCAT
1 AAGAGAAGAAAGAAACTTTTCAT
50525409 AAGAGAAGAAAGAAACTTTTCAT
1 AAGAGAAGAAAGAAACTTTTCAT
50525432 TCTTTACAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.09, G:0.17, T:0.22
Consensus pattern (23 bp):
AAGAGAAGAAAGAAACTTTTCAT
Found at i:50533590 original size:17 final size:18
Alignment explanation
Indices: 50533568--50533601 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
50533558 CACATTGAAA
50533568 TGTTTT-ATTGAAAACCT
1 TGTTTTCATTGAAAACCT
50533585 TGTTTTCATTGAAAACC
1 TGTTTTCATTGAAAACC
50533602 CTTCCTTAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (18 bp):
TGTTTTCATTGAAAACCT
Found at i:50534765 original size:28 final size:29
Alignment explanation
Indices: 50534734--50534789 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 29
50534724 CATACATGTA
50534734 TATGGCCCACTAGGCCC-AATCACATTCG
1 TATGGCCCACTAGGCCCAAATCACATTCG
*
50534762 TATGGCCCATTAGGCCCAAATCACATTC
1 TATGGCCCACTAGGCCCAAATCACATTC
50534790 ATAGTCATGC
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 16 0.62
29 10 0.38
ACGTcount: A:0.27, C:0.34, G:0.16, T:0.23
Consensus pattern (29 bp):
TATGGCCCACTAGGCCCAAATCACATTCG
Found at i:50534874 original size:17 final size:18
Alignment explanation
Indices: 50534852--50534885 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50534842 TGCCTATTAT
50534852 GGGCCC-TATAGCCCATC
1 GGGCCCATATAGCCCATC
*
50534869 GGGCCCATTTAGCCCAT
1 GGGCCCATATAGCCCAT
50534886 TCTGGCCCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.38, G:0.24, T:0.21
Consensus pattern (18 bp):
GGGCCCATATAGCCCATC
Found at i:50535027 original size:16 final size:16
Alignment explanation
Indices: 50535003--50535038 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
50534993 TGTAGCCAAA
* *
50535003 ATTTTGGCTTTTCGGT
1 ATTTCGGCTTTTCGGC
50535019 ATTTCGGCTTTTCGGC
1 ATTTCGGCTTTTCGGC
50535035 ATTT
1 ATTT
50535039 TGGGATTTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.08, C:0.17, G:0.22, T:0.53
Consensus pattern (16 bp):
ATTTCGGCTTTTCGGC
Found at i:50540223 original size:20 final size:20
Alignment explanation
Indices: 50540198--50540235 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
50540188 GTTTATTCGC
*
50540198 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
50540218 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
50540236 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:50541893 original size:27 final size:28
Alignment explanation
Indices: 50541862--50541929 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
50541852 GCGTAGATCA
50541862 CGAAATTACCCCTAAAGAGCAAAATT-C
1 CGAAATTACCCCTAAAGAGCAAAATTAC
50541889 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
50541917 CGATA-TACCCCTA
1 CGAAATTACCCCTA
50541930 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 34 0.87
28 5 0.13
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:50549589 original size:80 final size:80
Alignment explanation
Indices: 50549505--50549653 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
50549495 TATGGTAACC
* * * *
50549505 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
50549569 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
50549585 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
50549650 CCGG
66 CCGG
50549654 TTAAATTTCC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:50549595 original size:40 final size:38
Alignment explanation
Indices: 50549546--50549653 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
50549536 ATCACGATTT
*
50549546 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
50549586 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
50549626 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
50549654 TTAAATTTCC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:50557679 original size:80 final size:80
Alignment explanation
Indices: 50557595--50557743 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
50557585 TATGGTAACC
* * * *
50557595 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
50557659 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
50557675 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
50557740 CCGG
66 CCGG
50557744 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:50557685 original size:40 final size:38
Alignment explanation
Indices: 50557636--50557743 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
50557626 ATCACGATTT
*
50557636 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
50557676 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
50557716 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
50557744 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:50559922 original size:20 final size:20
Alignment explanation
Indices: 50559893--50559931 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
50559883 AAACCGATAT
* *
50559893 CTTAGGAAATTTTTGAAAAA
1 CTTAGAAAATTTTTCAAAAA
50559913 CTTAGAAAATTTTTCAAAA
1 CTTAGAAAATTTTTCAAAA
50559932 CACAGGGGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.10, T:0.36
Consensus pattern (20 bp):
CTTAGAAAATTTTTCAAAAA
Found at i:50578712 original size:29 final size:29
Alignment explanation
Indices: 50578680--50578752 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 29
50578670 CTTCGAGCTC
* *
50578680 GCACACCCAGTGCCTTATTTTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
50578709 GCACACTTAGTGCCATATATTTCCAGCAT
1 GCACACCCAGTGCCATATATTTCCAGCAT
**
50578738 GCACACTTAGTGCCA
1 GCACACCCAGTGCCA
50578753 ATCTCGTCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.25, C:0.32, G:0.15, T:0.29
Consensus pattern (29 bp):
GCACACCCAGTGCCATATATTTCCAGCAT
Found at i:50582178 original size:9 final size:9
Alignment explanation
Indices: 50582164--50582194 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
50582154 CTCCAAAGAA
*
50582164 AAGAGAAAG
1 AAGAGAGAG
50582173 AAGAGAGAG
1 AAGAGAGAG
50582182 AAGAGAGAG
1 AAGAGAGAG
50582191 AAGA
1 AAGA
50582195 AGAAGTAATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (9 bp):
AAGAGAGAG
Found at i:50584040 original size:100 final size:100
Alignment explanation
Indices: 50583867--50584074 Score: 353
Period size: 100 Copynumber: 2.1 Consensus size: 100
50583857 TGTGATTTTT
* * *
50583867 GGATTGAAATAAATAGTATGAGTCTTAAATGAGCTAAATGTGTTGTTATAGATCAAGAAAGGCGT
1 GGATTGAAATAAATAGTATGAGTCTTAAATGAGCTAAATGTGTTGTTATAGATAAAAAAAGGCAT
*
50583932 GGAATCGATCATGATCGGGGAAAAGAAAAGCTTTC
66 GGAATCGATCATGATCAGGGAAAAGAAAAGCTTTC
50583967 GGATTGAAATAAATAGTATGAGTCTTAAATGAGCTAAATGTGTTGTTATAGATAAAAAAAGGCAT
1 GGATTGAAATAAATAGTATGAGTCTTAAATGAGCTAAATGTGTTGTTATAGATAAAAAAAGGCAT
* *
50584032 GGTATCGATCGTGATCAGGGAAAAGAAAAGCTTTC
66 GGAATCGATCATGATCAGGGAAAAGAAAAGCTTTC
*
50584067 GGACTGAA
1 GGATTGAA
50584075 TTATAACATT
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.39, C:0.09, G:0.25, T:0.27
Consensus pattern (100 bp):
GGATTGAAATAAATAGTATGAGTCTTAAATGAGCTAAATGTGTTGTTATAGATAAAAAAAGGCAT
GGAATCGATCATGATCAGGGAAAAGAAAAGCTTTC
Done.