Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 277 of 284
Found at i:93280406 original size:18 final size:18
Alignment explanation
Indices: 93280383--93280417 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
93280373 ATTCAAGTTG
93280383 ACTCGAATAACTCGATTA
1 ACTCGAATAACTCGATTA
93280401 ACTCGAATAACTCGATT
1 ACTCGAATAACTCGATT
93280418 CGTTTAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.37, C:0.23, G:0.11, T:0.29
Consensus pattern (18 bp):
ACTCGAATAACTCGATTA
Found at i:93284180 original size:13 final size:14
Alignment explanation
Indices: 93284135--93284177 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
93284125 TTATTATATT
*
93284135 ATAATAACTATAAA
1 ATAAAAACTATAAA
*
93284149 ATATAAAAATATAAA
1 ATA-AAAACTATAAA
93284164 ATAAAAACTATAAA
1 ATAAAAACTATAAA
93284178 TAACTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 13 0.52
15 12 0.48
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.26
Consensus pattern (14 bp):
ATAAAAACTATAAA
Found at i:93284370 original size:13 final size:14
Alignment explanation
Indices: 93284369--93284397 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
93284359 TATATTTTTA
93284369 ATTTTCTAATATAT
1 ATTTTCTAATATAT
93284383 ATTTT-TAATATAT
1 ATTTTCTAATATAT
93284396 AT
1 AT
93284398 AAATTTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTTCTAATATAT
Found at i:93284561 original size:13 final size:13
Alignment explanation
Indices: 93284543--93284603 Score: 61
Period size: 13 Copynumber: 4.5 Consensus size: 13
93284533 TTTGAATATC
*
93284543 TTTAAAAATAATT
1 TTTAAAAATAATA
*
93284556 TTTAAAAAATCATTA
1 TTT-AAAAAT-AATA
93284571 TTTAAAAA-AATAA
1 TTTAAAAATAAT-A
*
93284584 TTTAAAAATTATA
1 TTTAAAAATAATA
93284597 TTTAAAA
1 TTTAAAA
93284604 TTAAAAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
12 2 0.05
13 20 0.50
14 13 0.32
15 5 0.12
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (13 bp):
TTTAAAAATAATA
Found at i:93284565 original size:14 final size:15
Alignment explanation
Indices: 93284546--93284586 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
93284536 GAATATCTTT
93284546 AAAAATAATTTTT-A
1 AAAAATAATTTTTAA
*
93284560 AAAAATCATTATTTAA
1 AAAAATAATT-TTTAA
93284576 AAAAATAATTT
1 AAAAATAATTT
93284587 AAAAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
14 9 0.39
15 4 0.17
16 10 0.43
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (15 bp):
AAAAATAATTTTTAA
Found at i:93284635 original size:22 final size:22
Alignment explanation
Indices: 93284582--93284644 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
93284572 TTAAAAAAAT
93284582 AATTTAAAAAT-TATATTT-AA
1 AATTTAAAAATATATATTTAAA
93284602 AA-TTAAAAATATATATTTAAA
1 AATTTAAAAATATATATTTAAA
* *
93284623 AATTTTAAAATATACATTTAAA
1 AATTTAAAAATATATATTTAAA
93284645 GTATTATAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
19 8 0.21
20 9 0.24
21 4 0.11
22 17 0.45
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AATTTAAAAATATATATTTAAA
Found at i:93284726 original size:21 final size:20
Alignment explanation
Indices: 93284702--93284797 Score: 70
Period size: 21 Copynumber: 4.6 Consensus size: 20
93284692 AATATATTTT
93284702 AAATATTTTATAATATTAAAA
1 AAATATTTTA-AATATTAAAA
* *
93284723 AAATAATATTAAGA-ATTTAAA
1 AAAT-ATTTTAA-ATATTAAAA
93284744 AAATAATATTTAAAT-TTAAAA
1 AAAT-AT-TTTAAATATTAAAA
* * *
93284765 ATATATTTAAAATTTTAAAAA
1 AAATATTTTAAATATT-AAAA
*
93284786 AAATATTATAAA
1 AAATATTTTAAA
93284798 ACATTTAAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
19 6 0.10
20 4 0.07
21 40 0.67
22 10 0.17
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (20 bp):
AAATATTTTAAATATTAAAA
Found at i:93284759 original size:20 final size:20
Alignment explanation
Indices: 93284720--93284797 Score: 90
Period size: 21 Copynumber: 3.9 Consensus size: 20
93284710 TATAATATTA
*
93284720 AAAAAATAATATTAAGAATTT
1 AAAAAATAATATTTA-AATTT
93284741 AAAAAATAATATTTAAATTT
1 AAAAAATAATATTTAAATTT
93284761 -AAAAAT-ATATTTAAAATTTT
1 AAAAAATAATATTT-AAA-TTT
93284781 AAAAAA-AATATTATAAA
1 AAAAAATAATATT-TAAA
93284798 ACATTTAAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
18 6 0.12
19 9 0.18
20 8 0.16
21 27 0.53
22 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.01, T:0.36
Consensus pattern (20 bp):
AAAAAATAATATTTAAATTT
Found at i:93284763 original size:42 final size:40
Alignment explanation
Indices: 93284702--93284829 Score: 107
Period size: 43 Copynumber: 3.0 Consensus size: 40
93284692 AATATATTTT
93284702 AAATATTTTATAATATTAAAAAAATAATATTAAGAA-TTTAAAAA
1 AAATA-TTTA-AATATTAAAAAAAT-AT-TTAA-AATTTTAAAAA
*
93284746 ATAATATTTAAAT-TTAAAAATATATTTAAAATTTTAAAAA
1 A-AATATTTAAATATTAAAAAAATATTTAAAATTTTAAAAA
* * * * *
93284786 AAATATTATAAAACATTTAAATATACATTTAAAATTTTATAAA
1 AAATATT-T-AAATA-TTAAAAAAATATTTAAAATTTTAAAAA
93284829 A
1 A
93284830 CCAATAACAA
Statistics
Matches: 73, Mismatches: 5, Indels: 13
0.80 0.05 0.14
Matches are distributed among these distances:
39 8 0.11
40 14 0.19
41 5 0.07
42 9 0.12
43 28 0.38
44 5 0.07
45 4 0.05
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.39
Consensus pattern (40 bp):
AAATATTTAAATATTAAAAAAATATTTAAAATTTTAAAAA
Found at i:93284804 original size:23 final size:21
Alignment explanation
Indices: 93284702--93284806 Score: 83
Period size: 23 Copynumber: 4.9 Consensus size: 21
93284692 AATATATTTT
* *
93284702 AAATATTTTATAATATT-AAAA
1 AAATATTTAAAAAT-TTAAAAA
*
93284723 AAATAATATTAAGAATTTAAAAA
1 AAAT-AT-TTAAAAATTTAAAAA
93284746 ATAATATTT--AAATTT-AAAA
1 A-AATATTTAAAAATTTAAAAA
* *
93284765 ATATATTTAAAATTTTAAAAA
1 AAATATTTAAAAATTTAAAAA
93284786 AAATATTATAAAACATTTAAA
1 AAATATT-TAAAA-ATTTAAA
93284807 TATACATTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
18 6 0.09
19 5 0.07
20 10 0.15
21 14 0.21
22 11 0.16
23 19 0.28
24 3 0.04
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (21 bp):
AAATATTTAAAAATTTAAAAA
Found at i:93284805 original size:43 final size:39
Alignment explanation
Indices: 93284721--93284829 Score: 114
Period size: 43 Copynumber: 2.6 Consensus size: 39
93284711 ATAATATTAA
93284721 AAAAATAATATTAAGAA-TTTAAAAAATAATATTTAAATTT
1 AAAAATAAT-TTAA-AATTTTAAAAAATAATATTTAAATTT
93284761 AAAAATATATTTAAAATTTTAAAAAA-AATATTATAAAACATTT
1 AAAAATA-ATTTAAAATTTTAAAAAATAATATT-T--AA-ATTT
* *
93284804 AAATATACATTTAAAATTTTATAAAA
1 AAAAATA-ATTTAAAATTTTAAAAAA
93284830 CCAATAACAA
Statistics
Matches: 60, Mismatches: 3, Indels: 9
0.83 0.04 0.12
Matches are distributed among these distances:
39 8 0.13
40 21 0.35
41 2 0.03
42 2 0.03
43 27 0.45
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.38
Consensus pattern (39 bp):
AAAAATAATTTAAAATTTTAAAAAATAATATTTAAATTT
Found at i:93284851 original size:24 final size:24
Alignment explanation
Indices: 93284824--93284878 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
93284814 TTAAAATTTT
*
93284824 ATAAAACCAATAACA-AACAAATAA
1 ATAAAACAAATAA-ATAACAAATAA
*
93284848 ATAAAACAAATAAATGACAAATAA
1 ATAAAACAAATAAATAACAAATAA
*
93284872 AAAAAAC
1 ATAAAAC
93284879 TTAAAAAGTA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
23 1 0.04
24 26 0.96
ACGTcount: A:0.73, C:0.13, G:0.02, T:0.13
Consensus pattern (24 bp):
ATAAAACAAATAAATAACAAATAA
Found at i:93284856 original size:13 final size:13
Alignment explanation
Indices: 93284838--93284862 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
93284828 AACCAATAAC
93284838 AAACAAATAAATA
1 AAACAAATAAATA
93284851 AAACAAATAAAT
1 AAACAAATAAAT
93284863 GACAAATAAA
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:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (13 bp):
AAACAAATAAATA
Found at i:93284921 original size:22 final size:22
Alignment explanation
Indices: 93284866--93284915 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
93284856 AATAAATGAC
93284866 AAATAAAAAAAACTTAAAAAGT
1 AAATAAAAAAAACTTAAAAAGT
*
93284888 AAATATAAAAAACTTAAAAA-T
1 AAATAAAAAAAACTTAAAAAGT
93284909 AAA-AAAA
1 AAATAAAA
93284916 TGAAAAAGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 3 0.12
21 4 0.15
22 19 0.73
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (22 bp):
AAATAAAAAAAACTTAAAAAGT
Found at i:93294632 original size:47 final size:47
Alignment explanation
Indices: 93294573--93295060 Score: 724
Period size: 47 Copynumber: 10.4 Consensus size: 47
93294563 GATGTACAAG
* * *
93294573 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
93294620 GTGTATATATGTGATATGGCCGAATGGCCAATGTGATGAATTTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
** * *
93294667 GTGTGCATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
93294714 GTGTATATATGTGATATGGCCGAATGGCCAATGTGATGAATTTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
** * *
93294761 GTGTGCATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
93294808 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
93294855 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
93294902 GTGTATATATGAGATAAGACCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * * * * *
93294949 GTGTATATATGAGATAAGACCTAATGGCCGATGTGATGGATGTGAAG
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
93294996 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
93295043 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
93295061 TCCCGAAGGG
Statistics
Matches: 398, Mismatches: 43, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 398 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:93306897 original size:17 final size:19
Alignment explanation
Indices: 93306875--93306911 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
93306865 CACAACAAAT
93306875 ATATCTCA-ACCA-AATAA
1 ATATCTCATACCATAATAA
93306892 ATATCTCATACCATAATAA
1 ATATCTCATACCATAATAA
93306911 A
1 A
93306912 CATTTGAGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
18 4 0.22
19 6 0.33
ACGTcount: A:0.51, C:0.22, G:0.00, T:0.27
Consensus pattern (19 bp):
ATATCTCATACCATAATAA
Found at i:93309877 original size:55 final size:54
Alignment explanation
Indices: 93309742--93309879 Score: 134
Period size: 55 Copynumber: 2.5 Consensus size: 54
93309732 GTTTAAGGAT
* * * ** *
93309742 ACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGCAAGGAA
1 ACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAA
* * * * *
93309796 ATCATGTAAGACCATGTCTAA-ACATGGCATTGATAAACTACTATAAGGCAAAGAT
1 ACCATGTAAGACCATG-CCAAGGCATGGCATTGAT-AACTACTACAAGGCAAAGAA
* *
93309851 CCCATGTAAGGCCATGCCAAGGCATGGCA
1 ACCATGTAAGACCATGCCAAGGCATGGCA
93309880 ATGGTGAGTT
Statistics
Matches: 65, Mismatches: 16, Indels: 5
0.76 0.19 0.06
Matches are distributed among these distances:
54 28 0.43
55 37 0.57
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.20
Consensus pattern (54 bp):
ACCATGTAAGACCATGCCAAGGCATGGCATTGATAACTACTACAAGGCAAAGAA
Found at i:93309930 original size:53 final size:53
Alignment explanation
Indices: 93309736--93309942 Score: 191
Period size: 53 Copynumber: 3.8 Consensus size: 53
93309726 ATTAGGGTTT
* * * * *
93309736 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTTTACAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAG-TTCATAAGGC
* * * * * * *
93309790 AAGGAAATCATGTAAGACCATGTCTAA-ACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATG-CCAAGACATGGCAATGGT-AAGTTC-ATAAGGC
* * * * *
93309845 AAAGATCCCATGTAAGGCCATGCCAAGGCATGGCAATGGTGAGTTCATAAGGC
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
* **
93309898 AAGGATACCACGTAAGACCATATCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTT
93309943 TAAAAAGGAA
Statistics
Matches: 119, Mismatches: 30, Indels: 9
0.75 0.19 0.06
Matches are distributed among these distances:
53 44 0.37
54 37 0.31
55 38 0.32
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGCCAAGACATGGCAATGGTAAGTTCATAAGGC
Found at i:93312469 original size:31 final size:31
Alignment explanation
Indices: 93312426--93312486 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
93312416 ATGGCGTCGA
* *
93312426 CGATGTTGTGAGAGCCAGTGTAAGACCATGG
1 CGATATTGTGAGAGCCAGTATAAGACCATGG
93312457 CGATATTGTGAGAGCCAGTATAAGACCATG
1 CGATATTGTGAGAGCCAGTATAAGACCATG
93312487 TCTAGGACAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.30, C:0.16, G:0.31, T:0.23
Consensus pattern (31 bp):
CGATATTGTGAGAGCCAGTATAAGACCATGG
Found at i:93312570 original size:127 final size:125
Alignment explanation
Indices: 93312346--93312579 Score: 310
Period size: 127 Copynumber: 1.9 Consensus size: 125
93312336 GATATGTGTA
* * *
93312346 CCAGTGTAAGACCATGTCTGGGACATGACATCGGCCATGACTAGAGCTAGTGTAAGACCATGTTT
1 CCAGTATAAGACCATGTCTAGGACATGACATCGGCCATGACTAGAGCTAGTATAAGACCATGTTT
* * ** **
93312411 GGAACATGGCGTCGACGATGTTGTGAGAGCCAGTGTAAGACCATGGCGATATTGTGAGAG
66 GGAACATGGCATCGACCACATCATGAGAGCCAGTGTAAGACCATGGCGATATTGTGAGAG
*
93312471 CCAGTATAAGACCATGTCTAGGACATGGCATCGG-CATTGA-TATGTACGCTAGTATAAGACCAT
1 CCAGTATAAGACCATGTCTAGGACATGACATCGGCCA-TGACTA-G-A-GCTAGTATAAGACCAT
* *
93312534 GTTTGGAACATGGCATCGGCCACATCATGAGGGCCAGTGTAAGACC
62 GTTTGGAACATGGCATCGACCACATCATGAGAGCCAGTGTAAGACC
93312580 GTGTCTGGGA
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
124 4 0.04
125 35 0.38
126 1 0.01
127 53 0.57
ACGTcount: A:0.28, C:0.20, G:0.29, T:0.23
Consensus pattern (125 bp):
CCAGTATAAGACCATGTCTAGGACATGACATCGGCCATGACTAGAGCTAGTATAAGACCATGTTT
GGAACATGGCATCGACCACATCATGAGAGCCAGTGTAAGACCATGGCGATATTGTGAGAG
Found at i:93312577 original size:48 final size:48
Alignment explanation
Indices: 93312465--93312697 Score: 158
Period size: 48 Copynumber: 4.9 Consensus size: 48
93312455 GGCGATATTG
* * *
93312465 TGAGAGCCAGTATAAGACCATGTCTAGG-ACATGGCATCGG-CATTGAT-A
1 TGAGGGCCAGTGTAAGACCATGTCT-GGAACATGGCATCGGCCA--CATCA
* * * *
93312513 TGTA-CGCTAGTATAAGACCATGTTTGGAACATGGCATCGGCCACATCA
1 TG-AGGGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCCACATCA
* * * *
93312561 TGAGGGCCAGTGTAAGACCGTGTCTGGGACATGGCATC-GACA-ATGA
1 TGAGGGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCCACATCA
* ** * *
93312607 -GACGAGAGCTAAAGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA-CA
1 TGA-G-G-GCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCCAC-ATCA
* * * *
93312657 TGTGAGCCAGTGTAAGACCATGTTTGGAACATAGCATCGGC
1 TGAGGGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGC
93312698 AATTCACCCT
Statistics
Matches: 146, Mismatches: 27, Indels: 24
0.74 0.14 0.12
Matches are distributed among these distances:
45 2 0.01
46 4 0.03
47 9 0.06
48 122 0.84
49 5 0.03
50 2 0.01
51 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.29, T:0.21
Consensus pattern (48 bp):
TGAGGGCCAGTGTAAGACCATGTCTGGAACATGGCATCGGCCACATCA
Found at i:93312641 original size:96 final size:96
Alignment explanation
Indices: 93312465--93312700 Score: 246
Period size: 96 Copynumber: 2.5 Consensus size: 96
93312455 GGCGATATTG
* * * * * * * *
93312465 TGAGAGCCAGTATAAGACCATGTCTAGG-ACATGGCATCGGCATTGATATGTA-CGCTAGTA-TA
1 TGAGAGCCAGTGTAAGACCATGTCT-GGAACATAGCATCGACAATGAGACG-AGAGCTA-AAGTA
*
93312527 AGACCATGTTTGGAACATGGCATCGGCCAC-ATCA
63 AGACCATGTCTGGAACATGGCATCGGCCACGA-CA
* * * *
93312561 TGAGGGCCAGTGTAAGACCGTGTCTGGGACATGGCATCGACAATGAGACGAGAGCTAAAGTAAGA
1 TGAGAGCCAGTGTAAGACCATGTCTGGAACATAGCATCGACAATGAGACGAGAGCTAAAGTAAGA
* *
93312626 CCATGTCTGGGACATGGCATCGGCCTCGACA
66 CCATGTCTGGAACATGGCATCGGCCACGACA
* * *
93312657 TGTGAGCCAGTGTAAGACCATGTTTGGAACATAGCATCGGCAAT
1 TGAGAGCCAGTGTAAGACCATGTCTGGAACATAGCATCGACAAT
93312701 TCACCCTTTT
Statistics
Matches: 117, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
95 4 0.03
96 112 0.96
97 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.22
Consensus pattern (96 bp):
TGAGAGCCAGTGTAAGACCATGTCTGGAACATAGCATCGACAATGAGACGAGAGCTAAAGTAAGA
CCATGTCTGGAACATGGCATCGGCCACGACA
Found at i:93314546 original size:33 final size:33
Alignment explanation
Indices: 93314479--93314546 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 33
93314469 GCCTCCCCCA
* *
93314479 CCTCTTCCGATTCCTCAGCATGCCCATGTAGCT
1 CCTCTTCCGATTCCTCAACATGCCCATATAGCT
* * *
93314512 CCTCTTCCGATTCCTCAACTTGCTCATATGGCT
1 CCTCTTCCGATTCCTCAACATGCCCATATAGCT
93314545 CC
1 CC
93314547 CCAAGGAGTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.15, C:0.40, G:0.13, T:0.32
Consensus pattern (33 bp):
CCTCTTCCGATTCCTCAACATGCCCATATAGCT
Found at i:93316993 original size:46 final size:46
Alignment explanation
Indices: 93316926--93317100 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
93316916 TGTAACCCGC
93316926 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
93316972 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCACAT
* * * * *
93317022 CTC-T---CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
*
93317065 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG
93317101 ATGCCCAAAC
Statistics
Matches: 112, Mismatches: 6, Indels: 22
0.80 0.04 0.16
Matches are distributed among these distances:
42 3 0.03
43 5 0.04
44 1 0.01
46 64 0.57
47 27 0.24
48 1 0.01
49 1 0.01
50 6 0.05
51 4 0.04
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
Found at i:93317046 original size:93 final size:93
Alignment explanation
Indices: 93316934--93317105 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
93316924 GCCCATAAGT
* *
93316934 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
93316999 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
93317027 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
*
93317092 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
93317106 CAAACATCCT
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCACATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:93317120 original size:46 final size:46
Alignment explanation
Indices: 93316931--93317120 Score: 160
Period size: 46 Copynumber: 4.1 Consensus size: 46
93316921 CCCGCCCATA
**
93316931 AGTGAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCACATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCAT-ACATCC-T
*
93316976 AAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCA--TACATC-CT
* * * * * *
93317026 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGCTCGG--ATGCCCATACATCCT
* *
93317070 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCATACATCCT
93317116 AGTGA
1 AGTGA
93317121 CATGTCACTT
Statistics
Matches: 117, Mismatches: 15, Indels: 24
0.75 0.10 0.15
Matches are distributed among these distances:
44 8 0.07
46 64 0.55
47 31 0.26
48 1 0.01
49 5 0.04
50 6 0.05
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCCATACATCCT
Found at i:93323028 original size:48 final size:48
Alignment explanation
Indices: 93322957--93323223 Score: 250
Period size: 48 Copynumber: 5.6 Consensus size: 48
93322947 ACATTTGGGT
* * *
93322957 GATATGTGTGCCAGTGTAAGACCATATCTAGGACATGGCATCGGCCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCAC
* * * * * *
93323005 GATATGAGAGCTAGTGTAAGACCATGT-TTGGAACATGACATTGGCAAT
1 GATATGAGAGCCAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCCAC
* * * * *
93323053 GTTGTGAGAGCCAGTGTAAGACCATGTCTGGGATATGGCATCGACCAC
1 GATATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCAC
** * ** * *
93323101 -ATCATGAGAGCCAGTGTAAGACTGTGTCTGGGACATGGCATTAGCAAT
1 GAT-ATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCAC
* * * * *
93323149 GAGACGAGAGCTAGTGTAAGACCATGTCTAGGACATAGCATCGGCCTC
1 GATATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCAC
* *
93323197 GACATGTGAGCCAGTGTAAGACCATGT
1 GATATGAGAGCCAGTGTAAGACCATGT
93323224 TTGGAACATA
Statistics
Matches: 170, Mismatches: 45, Indels: 8
0.76 0.20 0.04
Matches are distributed among these distances:
47 4 0.02
48 162 0.95
49 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
GATATGAGAGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCAC
Found at i:93323137 original size:96 final size:97
Alignment explanation
Indices: 93322966--93323232 Score: 335
Period size: 96 Copynumber: 2.8 Consensus size: 97
93322956 TGATATGTGT
* *
93322966 GCCAGTGTAAGACCATATCTAGGACATGGCATCGGCCACGAT-ATGAGAGCTAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATCATGAGAGCCAGTGTAAGACCAT
* * * *
93323030 GTTTGGAACATGACATTGGCAATGTTG-TGAGA
66 GTCTGGAACATGACATTAGCAATG-AGACGAGA
* * * **
93323062 GCCAGTGTAAGACCATGTCTGGGATATGGCATCGACCAC-ATCATGAGAGCCAGTGTAAGACTGT
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATCATGAGAGCCAGTGTAAGACCAT
* *
93323126 GTCTGGGACATGGCATTAGCAATGAGACGAGA
66 GTCTGGAACATGACATTAGCAATGAGACGAGA
* * * *
93323158 GCTAGTGTAAGACCATGTCTAGGACATAGCATCGGCCTCGA-CATGTGAGCCAGTGTAAGACCAT
1 GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATCATGAGAGCCAGTGTAAGACCAT
*
93323222 GTTTGGAACAT
66 GTCTGGAACAT
93323233 AGCATCGACA
Statistics
Matches: 144, Mismatches: 24, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
95 3 0.02
96 140 0.97
97 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.23
Consensus pattern (97 bp):
GCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCCACGATCATGAGAGCCAGTGTAAGACCAT
GTCTGGAACATGACATTAGCAATGAGACGAGA
Found at i:93324304 original size:12 final size:13
Alignment explanation
Indices: 93324287--93324316 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
93324277 GCCGTGTGAA
93324287 GGACATGGG-CAT
1 GGACATGGGCCAT
93324299 GGACATGGGCCAT
1 GGACATGGGCCAT
93324312 GGACA
1 GGACA
93324317 CGAGCGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.27, C:0.20, G:0.40, T:0.13
Consensus pattern (13 bp):
GGACATGGGCCAT
Found at i:93332508 original size:43 final size:43
Alignment explanation
Indices: 93332460--93332557 Score: 196
Period size: 43 Copynumber: 2.3 Consensus size: 43
93332450 TTGGTTTTCA
93332460 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
93332503 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
93332546 GCACTAAGTGTG
1 GCACTAAGTGTG
93332558 GCACTAAGTG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.23, C:0.14, G:0.35, T:0.28
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:93332561 original size:12 final size:12
Alignment explanation
Indices: 93332544--93332569 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
93332534 GTTGTGAGAT
93332544 TGGCACTAAGTG
1 TGGCACTAAGTG
93332556 TGGCACTAAGTG
1 TGGCACTAAGTG
93332568 TG
1 TG
93332570 CGAGTTTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.27
Consensus pattern (12 bp):
TGGCACTAAGTG
Found at i:93333095 original size:40 final size:40
Alignment explanation
Indices: 93332915--93333084 Score: 227
Period size: 40 Copynumber: 4.2 Consensus size: 40
93332905 TTGAATGATG
* **
93332915 TCCGGGCTAAGTCCCGAAG-GC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TGTA
* *
93332955 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
93332995 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
* *
93333035 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTAATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
*
93333075 TCCGTGCTAA
1 TCCGGGCTAA
93333085 ACCTCGAAGA
Statistics
Matches: 116, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 102 0.88
41 7 0.06
42 7 0.06
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATGTA
Found at i:93346189 original size:24 final size:24
Alignment explanation
Indices: 93346162--93346219 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
93346152 TACAACTCAC
93346162 TTTGGTATAAATAGCAAAACTACT
1 TTTGGTATAAATAGCAAAACTACT
93346186 TTTGGTATAAATAGCAAAACTACT
1 TTTGGTATAAATAGCAAAACTACT
93346210 TTTGGTATAA
1 TTTGGTATAA
93346220 TGGCATGTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (24 bp):
TTTGGTATAAATAGCAAAACTACT
Found at i:93350412 original size:51 final size:50
Alignment explanation
Indices: 93350315--93350413 Score: 117
Period size: 51 Copynumber: 2.0 Consensus size: 50
93350305 CTACCTCATA
* * * * *
93350315 ACATGTATACATCCATAATGAACTCAGACCTCTCGATGAGCTCGGATGTT
1 ACATGAATACATCCATAATGAACTCAGACCACTCAACGAGCCCGGATGTT
* * *
93350365 ACATGAATCACATCCATTATGAACTTAGACCACTCAACGTGCCCGGATG
1 ACATGAAT-ACATCCATAATGAACTCAGACCACTCAACGAGCCCGGATG
93350414 CTCGCATCCA
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
50 7 0.17
51 33 0.82
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.25
Consensus pattern (50 bp):
ACATGAATACATCCATAATGAACTCAGACCACTCAACGAGCCCGGATGTT
Found at i:93350506 original size:43 final size:43
Alignment explanation
Indices: 93350429--93350541 Score: 120
Period size: 43 Copynumber: 2.7 Consensus size: 43
93350419 ATCCATAATG
* * * * *
93350429 AACTCGGACCTCTCAACTAGCTTGGATGC-CACATAGATCACA
1 AACTCAGACCACTCAACAAGCTCGGATTCTCACATAGATCACA
** * * * *
93350471 AACTTGGATCACTCAACAAGTTCGGATTCTCACATATATCACG
1 AACTCAGACCACTCAACAAGCTCGGATTCTCACATAGATCACA
93350514 AACTCAGACCACTCAACAAGCTCGGATT
1 AACTCAGACCACTCAACAAGCTCGGATT
93350542 TCTAAATTCC
Statistics
Matches: 57, Mismatches: 13, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
42 22 0.39
43 35 0.61
ACGTcount: A:0.33, C:0.29, G:0.15, T:0.23
Consensus pattern (43 bp):
AACTCAGACCACTCAACAAGCTCGGATTCTCACATAGATCACA
Found at i:93354873 original size:619 final size:619
Alignment explanation
Indices: 93353694--93355078 Score: 2565
Period size: 619 Copynumber: 2.2 Consensus size: 619
93353684 TGATACCAAG
* ** * * *
93353694 AAATGTAACACCCGTAACCCATATTTGTCGTCTGAACAGAGTTACAA-AGTATTACTAGAATGTA
1 AAATGTAACACCCCTAACCCATATCCGTCGTCTAAACAGGGTTA-AAGAGTATTACTAGAATATA
93353758 CAGAAAAAATACAATTAATTCATGTCATTTACTGTTCATATCCGAAACAAATCATAATTCAATCA
65 CAGAAAAAATACAATTAATTCATGTCATTTACTGTTCATATCCGAAACAAATCATAATTCAATCA
93353823 TGTTGTCCCTTAAATGGAAAGACACTATTAAAATACAATTAATTCATGTCATTTTCTATTCTCAG
130 TGTTGTCCCTTAAATGGAAAGACACTATTAAAATACAATTAATTCATGTCATTTTCTATTCTCAG
93353888 CAATAGCCAGGAAATACACTATTAAAATTTCACCTTCCTTGGTTTTACATGTGCCAAATCTAGCT
195 CAATAGCCAGGAAATACACTATTAAAATTTCACCTTCCTTGGTTTTACATGTGCCAAATCTAGCT
** * *
93353953 TGTAATCTCATATCTATCAGTAAATTATCCTAGTCCTTGAATTGTTGTGTTATATTTGACTCCTC
260 TGTAATCTCATATCTATCACAAAATTATCCCAGTCCTCGAATTGTTGTGTTATATTTGACTCCTC
* *
93354018 TATGTGTAAATTTTAGGACATGGTCTCGAGGAGGATTATTGACAGTGCTAAACAATCTGGTGGAA
325 TATGTGTAAATTTTAGGACATGATCTCGAGGAGGATTATTGACAGTGCTAAACAATCTAGTGGAA
*
93354083 TTTATTTTCTTTATGACGACCATCTAAGTAGACCAGAAAATAATCTATGTTTGAACTCCATTTCT
390 TTTACTTTCTTTATGACGACCATCTAAGTAGACCAGAAAATAATCTATGTTTGAACTCCATTTCT
93354148 GATTTTGATAAGGTTATGATTTGGCATTATAGGCTTGGACATCCTAATTTTTACTATTTAAGGCA
455 GATTTTGATAAGGTTATGATTTGGCATTATAGGCTTGGACATCCTAATTTTTACTATTTAAGGCA
93354213 TTTGCTACCTGATCTGTTTAAAAATAAAAGTCTTTCACATCGTTGTGAATTTTCTGAATTGGCTA
520 TTTGCTACCTGATCTGTTTAAAAATAAAAGTCTTTCACATCGTTGTGAATTTTCTGAATTGGCTA
93354278 AACATCATTGGTCATTTTTTCCACCTCAAAAATAT
585 AACATCATTGGTCATTTTTTCCACCTCAAAAATAT
93354313 AAATGTAACACCCCTAACCCATATCCGTCGTCTAAACAGGGTTAAAGAGTATTACTAGAATATAC
1 AAATGTAACACCCCTAACCCATATCCGTCGTCTAAACAGGGTTAAAGAGTATTACTAGAATATAC
93354378 AGAAAAAATACAATTAATTCATGTCATTTACTGTTCATATCCGAAACAAATCATAATTCAATCAT
66 AGAAAAAATACAATTAATTCATGTCATTTACTGTTCATATCCGAAACAAATCATAATTCAATCAT
93354443 GTTGTCCCTTAAATGGAAAGACACTATTAAAATACAATTAATTCATGTCATTTTCTATTCTCAGC
131 GTTGTCCCTTAAATGGAAAGACACTATTAAAATACAATTAATTCATGTCATTTTCTATTCTCAGC
93354508 AATAGCCAGGAAATACACTATTAAAATTTCACCTTCCTTGGTTTTACATGTGCCAAATCTAGCTT
196 AATAGCCAGGAAATACACTATTAAAATTTCACCTTCCTTGGTTTTACATGTGCCAAATCTAGCTT
93354573 GTAATCTCATATCTATCACAAAATTATCCCAGTCCTCGAATTGTTGTGTTATATTTGACTCCTCT
261 GTAATCTCATATCTATCACAAAATTATCCCAGTCCTCGAATTGTTGTGTTATATTTGACTCCTCT
* *
93354638 ATGTGTAAATTTTAGGACATGATTTCGAGGAGGATTATTGACAGTGCTAAAGAATCTAGTGGAAT
326 ATGTGTAAATTTTAGGACATGATCTCGAGGAGGATTATTGACAGTGCTAAACAATCTAGTGGAAT
* * * *
93354703 TTACTTTCTTTATGACGACCATCTAAGTCGACTAGAAAATACTCTATGTTTGAACTCCGTTTCTG
391 TTACTTTCTTTATGACGACCATCTAAGTAGACCAGAAAATAATCTATGTTTGAACTCCATTTCTG
93354768 ATTTTGATAAGGTTATGATTTGGCATTATAGGCTTGGACATCCTAATTTTTACTATTTAAGGCAT
456 ATTTTGATAAGGTTATGATTTGGCATTATAGGCTTGGACATCCTAATTTTTACTATTTAAGGCAT
93354833 TTGCTACCTGATCTGTTTAAAAATAAAAGTCTTTCACATCGTTGTGAATTTTCTGAATTGGCTAA
521 TTGCTACCTGATCTGTTTAAAAATAAAAGTCTTTCACATCGTTGTGAATTTTCTGAATTGGCTAA
93354898 ACATCATTGGTCATTTTTTCCACCTCAAAAATAT
586 ACATCATTGGTCATTTTTTCCACCTCAAAAATAT
93354932 AAATGTAACACCCCTAACCCATATCCGTCGTCTAAACAGGGTTAAAGAGTATTACTAGAATATAC
1 AAATGTAACACCCCTAACCCATATCCGTCGTCTAAACAGGGTTAAAGAGTATTACTAGAATATAC
* *
93354997 AGAAAAAATACAATTAATTCATGTCATTTACTATTCATATCCAAAACAAATCATAATTCAATCAT
66 AGAAAAAATACAATTAATTCATGTCATTTACTGTTCATATCCGAAACAAATCATAATTCAATCAT
93355062 GTTGTCCCTTAAATGGA
131 GTTGTCCCTTAAATGGA
93355079 CCTTCGAGGT
Statistics
Matches: 744, Mismatches: 21, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
618 2 0.00
619 742 1.00
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (619 bp):
AAATGTAACACCCCTAACCCATATCCGTCGTCTAAACAGGGTTAAAGAGTATTACTAGAATATAC
AGAAAAAATACAATTAATTCATGTCATTTACTGTTCATATCCGAAACAAATCATAATTCAATCAT
GTTGTCCCTTAAATGGAAAGACACTATTAAAATACAATTAATTCATGTCATTTTCTATTCTCAGC
AATAGCCAGGAAATACACTATTAAAATTTCACCTTCCTTGGTTTTACATGTGCCAAATCTAGCTT
GTAATCTCATATCTATCACAAAATTATCCCAGTCCTCGAATTGTTGTGTTATATTTGACTCCTCT
ATGTGTAAATTTTAGGACATGATCTCGAGGAGGATTATTGACAGTGCTAAACAATCTAGTGGAAT
TTACTTTCTTTATGACGACCATCTAAGTAGACCAGAAAATAATCTATGTTTGAACTCCATTTCTG
ATTTTGATAAGGTTATGATTTGGCATTATAGGCTTGGACATCCTAATTTTTACTATTTAAGGCAT
TTGCTACCTGATCTGTTTAAAAATAAAAGTCTTTCACATCGTTGTGAATTTTCTGAATTGGCTAA
ACATCATTGGTCATTTTTTCCACCTCAAAAATAT
Found at i:93356929 original size:5 final size:5
Alignment explanation
Indices: 93356914--93356943 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
93356904 TTTAGCACAT
93356914 TTCATA TTCAA TTCAA TTCAA TTCAA TTCA
1 TTCA-A TTCAA TTCAA TTCAA TTCAA TTCA
93356944 CATCTTAGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 20 0.83
6 4 0.17
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (5 bp):
TTCAA
Found at i:93360999 original size:40 final size:40
Alignment explanation
Indices: 93360856--93361000 Score: 152
Period size: 40 Copynumber: 3.6 Consensus size: 40
93360846 CGAATGATGT
* * * *
93360856 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
93360896 CCGGACTAAGAT-CCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
93360935 TCCGAGTTAAGTCCCAAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
93360976 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
93361001 AACGAGTAGC
Statistics
Matches: 85, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
39 2 0.02
40 74 0.87
41 9 0.11
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:93370237 original size:26 final size:26
Alignment explanation
Indices: 93370184--93370237 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
93370174 AGAGTATCCG
* *
93370184 ATAGTATTCCGAATAGTTCAATGGGT
1 ATAGTATTCCGAATAGTTCAACGAGT
* *
93370210 ATAGTATTCCGAGTGGTTCAACGAGT
1 ATAGTATTCCGAATAGTTCAACGAGT
93370236 AT
1 AT
93370238 GTCAAAGATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (26 bp):
ATAGTATTCCGAATAGTTCAACGAGT
Found at i:93375635 original size:21 final size:21
Alignment explanation
Indices: 93375596--93375635 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
93375586 CGATAGCTCA
*
93375596 AGAAATTTTTTTACGAAACTT
1 AGAAATTTTTTTACAAAACTT
93375617 AGAAATTTTTTCT-CAAAAC
1 AGAAATTTTTT-TACAAAAC
93375636 AGGGGACACA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 16 0.94
22 1 0.06
ACGTcount: A:0.40, C:0.12, G:0.07, T:0.40
Consensus pattern (21 bp):
AGAAATTTTTTTACAAAACTT
Found at i:93376095 original size:15 final size:16
Alignment explanation
Indices: 93376067--93376096 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
93376057 GTCATTTTGC
93376067 CACCCAATTTGGTACA
1 CACCCAATTTGGTACA
93376083 CACCCAA-TTGGTAC
1 CACCCAATTTGGTAC
93376097 CAATACAAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.30, C:0.33, G:0.13, T:0.23
Consensus pattern (16 bp):
CACCCAATTTGGTACA
Found at i:93379449 original size:37 final size:37
Alignment explanation
Indices: 93379399--93379471 Score: 119
Period size: 37 Copynumber: 2.0 Consensus size: 37
93379389 ACCTTTAGCT
* *
93379399 CAGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CAGACAAAATCTCCACACGAAGTCATCGGGTCTTACC
*
93379436 CAGACAAAATCTCCACACGTAGTCATCGGGTCTTAC
1 CAGACAAAATCTCCACACGAAGTCATCGGGTCTTAC
93379472 TCGGAATATA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (37 bp):
CAGACAAAATCTCCACACGAAGTCATCGGGTCTTACC
Found at i:93379677 original size:48 final size:48
Alignment explanation
Indices: 93379626--93380714 Score: 1818
Period size: 48 Copynumber: 22.9 Consensus size: 48
93379616 CATCGCCTAC
* * * *
93379626 ATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATAC
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
93379674 ATATTTCACATTCA-CCATTCGGCTTTACCACATATACATATCACACAT
1 ATATTTCACATT-AGCCATTCGGCTTTACCACATATACATATCACACAT
* *
93379722 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
* *
93379770 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
93379818 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
* ** *
93379866 ATATATCACATTAGCCATTCGGCTTTACCACATATACATATCTTATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
* *
93379914 ATATTTCACATTCGCCATTCGGCTTTACCACATATACATAT--CTCAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
* *
93379960 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
93380008 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
*
93380056 ATATATCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
*
93380104 ATATATCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
*
93380152 ATATATCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
*
93380200 ATATATCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
*
93380248 ATATATCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
*
93380296 ATATATCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
*
93380344 ATATATCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
*
93380392 ATATATCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
*
93380440 ATATATCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
* *
93380488 ATATATCACATTAGCCATTCGGCTTTACCACATATACATAT--CTCAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
*
93380534 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT--CTCAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
*
93380580 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT--CTCAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
* *
93380626 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
*
93380674 ATATTTCACATTCGCCATTCGGCTTTACCACATATACATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATAT
93380715 ATTTATCTTG
Statistics
Matches: 1007, Mismatches: 28, Indels: 12
0.96 0.03 0.01
Matches are distributed among these distances:
46 178 0.18
47 1 0.00
48 827 0.82
49 1 0.00
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCACACAT
Found at i:93395009 original size:47 final size:49
Alignment explanation
Indices: 93394911--93395016 Score: 166
Period size: 49 Copynumber: 2.2 Consensus size: 49
93394901 CCCCCTCCCA
*
93394911 TCCCTCT--CCCTCTTCCCCACCATCCCTCCCCCTACTCTGATTCTCTC
1 TCCCTCTCCCCCTCTTCCCCACCATCCCTCCCCCTACTCTGATTATCTC
*
93394958 TCCCTCTCCCCCTCTTCCCCACCATCCCTCCTCCTACTCTGATTAT-T-
1 TCCCTCTCCCCCTCTTCCCCACCATCCCTCCCCCTACTCTGATTATCTC
93395005 TCCCTCTCCCCC
1 TCCCTCTCCCCC
93395017 ACCATCCCTC
Statistics
Matches: 55, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
47 19 0.35
48 1 0.02
49 35 0.64
ACGTcount: A:0.08, C:0.58, G:0.02, T:0.32
Consensus pattern (49 bp):
TCCCTCTCCCCCTCTTCCCCACCATCCCTCCCCCTACTCTGATTATCTC
Found at i:93403679 original size:9 final size:9
Alignment explanation
Indices: 93403648--93403722 Score: 62
Period size: 9 Copynumber: 8.2 Consensus size: 9
93403638 CATTCTAACT
93403648 TTTTTTTTA
1 TTTTTTTTA
* *
93403657 CTTTTTTGTC
1 -TTTTTTTTA
93403667 TTTTTTTTA
1 TTTTTTTTA
93403676 TTTTGTTTT-
1 TTTT-TTTTA
** *
93403685 TCATATTTA
1 TTTTTTTTA
*
93403694 TTTTTCTTA
1 TTTTTTTTA
93403703 TTTTTTTTA
1 TTTTTTTTA
*
93403712 TTATTTTTA
1 TTTTTTTTA
93403721 TT
1 TT
93403723 ATATTTGTTT
Statistics
Matches: 50, Mismatches: 13, Indels: 5
0.74 0.19 0.07
Matches are distributed among these distances:
8 3 0.06
9 36 0.72
10 11 0.22
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:93403684 original size:12 final size:12
Alignment explanation
Indices: 93403667--93403728 Score: 58
Period size: 12 Copynumber: 5.2 Consensus size: 12
93403657 CTTTTTTGTC
93403667 TTTTTTTTATT-
1 TTTTTTTTATTA
*
93403678 TTGTTTTTCA-TA
1 TT-TTTTTTATTA
*
93403690 TTTATTTTTCTTA
1 TTT-TTTTTATTA
93403703 TTTTTTTTATTA
1 TTTTTTTTATTA
*
93403715 TTTTTATTA-TA
1 TTTTTTTTATTA
93403726 TTT
1 TTT
93403729 GTTTACTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
11 9 0.21
12 28 0.67
13 5 0.12
ACGTcount: A:0.16, C:0.03, G:0.02, T:0.79
Consensus pattern (12 bp):
TTTTTTTTATTA
Found at i:93403715 original size:21 final size:20
Alignment explanation
Indices: 93403691--93403747 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
93403681 TTTTTCATAT
*
93403691 TTATTTTTCTTATTTTTTTTA
1 TTATTTTT-TTATTTTGTTTA
93403712 TTATTTTTATTATATTTGTTTA
1 TTATTTTT-TTAT-TTTGTTTA
* *
93403734 CTATTGTTTTATTT
1 TTATTTTTTTATTT
93403748 AATTTAGTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 2 0.06
21 16 0.52
22 13 0.42
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (20 bp):
TTATTTTTTTATTTTGTTTA
Found at i:93404979 original size:18 final size:18
Alignment explanation
Indices: 93404956--93404992 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
93404946 GGTACAAGTG
*
93404956 TTAAATAAATTTTTTTTA
1 TTAAATAAATTTTTATTA
*
93404974 TTAAATAGATTTTTATTA
1 TTAAATAAATTTTTATTA
93404992 T
1 T
93404993 AGTTATTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (18 bp):
TTAAATAAATTTTTATTA
Found at i:93405040 original size:13 final size:13
Alignment explanation
Indices: 93405022--93405049 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
93405012 TATATATATA
93405022 AAAGAAACAAAAG
1 AAAGAAACAAAAG
93405035 AAAGAAACAAAAG
1 AAAGAAACAAAAG
93405048 AA
1 AA
93405050 TAAAAAGAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.07, G:0.14, T:0.00
Consensus pattern (13 bp):
AAAGAAACAAAAG
Found at i:93406046 original size:15 final size:15
Alignment explanation
Indices: 93406028--93406084 Score: 80
Period size: 15 Copynumber: 3.9 Consensus size: 15
93406018 TATTTGTTTT
*
93406028 ATTGAATTTATCTTG
1 ATTGAATTTATATTG
* *
93406043 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
93406058 ATTGAATTTATATTG
1 ATTGAATTTATATTG
93406073 ATTGAA-TTATAT
1 ATTGAATTTATAT
93406085 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.33, C:0.02, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:93406063 original size:30 final size:28
Alignment explanation
Indices: 93406024--93406082 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 28
93406014 TGAATATTTG
*
93406024 TTTTATTGAATTTATCTTGATTGAAATTA
1 TTTTATTGAATTTATATTGATTG-AATTA
93406053 TTTTGATTGAATTTATATTGATTGAATTA
1 TTTT-ATTGAATTTATATTGATTGAATTA
93406082 T
1 T
93406083 ATAATATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 10 0.36
30 18 0.64
ACGTcount: A:0.31, C:0.02, G:0.12, T:0.56
Consensus pattern (28 bp):
TTTTATTGAATTTATATTGATTGAATTA
Found at i:93406482 original size:23 final size:23
Alignment explanation
Indices: 93406455--93406541 Score: 83
Period size: 21 Copynumber: 4.0 Consensus size: 23
93406445 GCTTTATCGA
* * *
93406455 TCAGGCACTTTATGTATCGTATT
1 TCAGGCACCTCATGTGTCGTATT
*
93406478 TCAGGCACCTCGTGTGTCGTA--
1 TCAGGCACCTCATGTGTCGTATT
*
93406499 TCAGGCACCTCGTGTGTCGT-TT
1 TCAGGCACCTCATGTGTCGTATT
* *
93406521 T-AGGCACTTTATGTGTCGTAT
1 TCAGGCACCTCATGTGTCGTAT
93406542 ACTGATCAGG
Statistics
Matches: 54, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
21 35 0.65
22 2 0.04
23 17 0.31
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (23 bp):
TCAGGCACCTCATGTGTCGTATT
Found at i:93406724 original size:18 final size:19
Alignment explanation
Indices: 93406703--93406743 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
93406693 AATGAAATGA
93406703 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
93406721 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
93406740 GAAA
1 GAAA
93406744 ACATGAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:93408981 original size:14 final size:15
Alignment explanation
Indices: 93408960--93408989 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
93408950 AAATTCTTTT
93408960 CTTTTTTTTTCTTAA
1 CTTTTTTTTTCTTAA
93408975 CTTTTTTTTTCTTAA
1 CTTTTTTTTTCTTAA
93408990 GAATGTATTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.73
Consensus pattern (15 bp):
CTTTTTTTTTCTTAA
Found at i:93415418 original size:30 final size:30
Alignment explanation
Indices: 93415379--93415440 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
93415369 TACATGAAAT
93415379 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
93415410 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
93415439 AC
1 AC
93415441 TTGCTTAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Found at i:93417791 original size:25 final size:25
Alignment explanation
Indices: 93417763--93417822 Score: 111
Period size: 25 Copynumber: 2.4 Consensus size: 25
93417753 CCTTATAATA
93417763 TGAAAATGACTGTTTTGCCCCTAGG
1 TGAAAATGACTGTTTTGCCCCTAGG
93417788 TGAAAATGACTGTTTTGCCCCTAGG
1 TGAAAATGACTGTTTTGCCCCTAGG
*
93417813 TAAAAATGAC
1 TGAAAATGAC
93417823 CATTATACCC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (25 bp):
TGAAAATGACTGTTTTGCCCCTAGG
Found at i:93417833 original size:25 final size:25
Alignment explanation
Indices: 93417780--93417837 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
93417770 GACTGTTTTG
* ** * *
93417780 CCCCTAGGTGAAAATGACTGTTTTG
1 CCCCTAGGTAAAAATGACCATTATA
93417805 CCCCTAGGTAAAAATGACCATTATA
1 CCCCTAGGTAAAAATGACCATTATA
93417830 CCCCTAGG
1 CCCCTAGG
93417838 GTTTATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.29, C:0.26, G:0.19, T:0.26
Consensus pattern (25 bp):
CCCCTAGGTAAAAATGACCATTATA
Found at i:93417904 original size:20 final size:20
Alignment explanation
Indices: 93417881--93417939 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 20
93417871 TAAACATGGT
93417881 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
93417901 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
93417921 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
93417940 GGTATTCATA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:93417921 original size:11 final size:11
Alignment explanation
Indices: 93417885--93417939 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
93417875 CATGGTATGT
93417885 ATGATATGCAC
1 ATGATATGCAC
* *
93417896 ATGACATG--T
1 ATGATATGCAC
93417905 ATGATATGCAC
1 ATGATATGCAC
*
93417916 ATGATATG--T
1 ATGATATGCAC
93417925 ATGATATGCAC
1 ATGATATGCAC
93417936 ATGA
1 ATGA
93417940 GGTATTCATA
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:93418018 original size:24 final size:24
Alignment explanation
Indices: 93417990--93418158 Score: 261
Period size: 24 Copynumber: 7.1 Consensus size: 24
93417980 GACGAAGTGC
93417990 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
93418014 GAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
93418038 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
93418062 GAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
93418086 AAAAGGGCTTATGCCCCAATTATT
1 AAAAGGGCTTATGCCCCAGTTATT
93418110 AAAAGGGCTT-TGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
93418133 AAAACGGCTT-TGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
93418156 AAA
1 AAA
93418159 GAGGCTAGGC
Statistics
Matches: 133, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
23 36 0.27
24 97 0.73
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:93419935 original size:33 final size:33
Alignment explanation
Indices: 93419893--93419966 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
93419883 CTGTTTTCTT
* *
93419893 TTGGAAATCAACAATTTGTCATTATATTTGTTG
1 TTGGAAATCAACAATTTGCCATTATATTTGCTG
* * *
93419926 TTGGAAATCAATAGTTTGCCATTGTATTTGCTG
1 TTGGAAATCAACAATTTGCCATTATATTTGCTG
93419959 TTGGAAAT
1 TTGGAAAT
93419967 TAAGCATATT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.43
Consensus pattern (33 bp):
TTGGAAATCAACAATTTGCCATTATATTTGCTG
Found at i:93422210 original size:42 final size:42
Alignment explanation
Indices: 93422153--93422268 Score: 117
Period size: 43 Copynumber: 2.7 Consensus size: 42
93422143 TAGGGTTAAT
* * * *
93422153 GAGACTACTTGTAAGACCATATCTAGGATATGGCATCGACAT
1 GAGAATACATGTAAGACCATATCTGGGATATGGCATCGACAC
* ** * *
93422195 GAGACAT-CGTGTAAGACCATAGATGGGCTATTGGCATCGATAC
1 GAGA-ATACATGTAAGACCATATCTGGGATA-TGGCATCGACAC
*
93422238 GAGATTACATGTAAGACCATATCTGGGATAT
1 GAGAATACATGTAAGACCATATCTGGGATAT
93422269 AGTGTAACAC
Statistics
Matches: 58, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
42 24 0.41
43 34 0.59
ACGTcount: A:0.33, C:0.17, G:0.24, T:0.26
Consensus pattern (42 bp):
GAGAATACATGTAAGACCATATCTGGGATATGGCATCGACAC
Found at i:93427219 original size:12 final size:12
Alignment explanation
Indices: 93427198--93427255 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
93427188 GATTTTATTT
*
93427198 GTTTTCTTTTTA
1 GTTTTATTTTTA
93427210 GTTTTATTTTTTA
1 GTTTTA-TTTTTA
* *
93427223 TTTTTATGTTTA
1 GTTTTATTTTTA
* *
93427235 TTTTTGTTTTTA
1 GTTTTATTTTTA
93427247 GTTTT-TTTT
1 GTTTTATTTT
93427256 CTTAAACTTC
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
11 4 0.10
12 24 0.62
13 11 0.28
ACGTcount: A:0.10, C:0.02, G:0.09, T:0.79
Consensus pattern (12 bp):
GTTTTATTTTTA
Found at i:93427226 original size:19 final size:19
Alignment explanation
Indices: 93427199--93427255 Score: 66
Period size: 18 Copynumber: 3.1 Consensus size: 19
93427189 ATTTTATTTG
*
93427199 TTTTCTTTTTAGTTTTATT
1 TTTTATTTTTAGTTTTATT
93427218 TTTTATTTTTA-TGTTTA-T
1 TTTTATTTTTAGT-TTTATT
*
93427236 TTTTGTTTTTAGTTTT-TT
1 TTTTATTTTTAGTTTTATT
93427254 TT
1 TT
93427256 CTTAAACTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
18 18 0.55
19 15 0.45
ACGTcount: A:0.11, C:0.02, G:0.07, T:0.81
Consensus pattern (19 bp):
TTTTATTTTTAGTTTTATT
Found at i:93428580 original size:2 final size:2
Alignment explanation
Indices: 93428575--93428653 Score: 158
Period size: 2 Copynumber: 39.5 Consensus size: 2
93428565 TATATATATA
93428575 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
93428617 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
93428654 ATGTTTACAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 77 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:93429820 original size:39 final size:39
Alignment explanation
Indices: 93429766--93430022 Score: 347
Period size: 39 Copynumber: 6.5 Consensus size: 39
93429756 TAATGGACAA
*
93429766 TTATATCCGGGCTAAGTCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
93429805 TTATATCCAGGCTAAGGCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
93429844 TTATATTCGGGCTAAG-CTCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTC-CCGAAGGCATTCGTGCTGGTG
93429883 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* **
93429922 TTTTATCCGGGCTAAACCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * * *
93429961 TTATATCTGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
93430000 TTATATTCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
93430023 CATGCTTTGT
Statistics
Matches: 194, Mismatches: 20, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
38 1 0.01
39 172 0.89
40 21 0.11
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.30
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:93430236 original size:92 final size:92
Alignment explanation
Indices: 93430079--93430263 Score: 370
Period size: 92 Copynumber: 2.0 Consensus size: 92
93430069 TTAATGCCGA
93430079 TGATTGGAGTAAGATTATGATTTCGAATGTTCGTAGTAAACTGCCATTGAATATGTCAAATACAT
1 TGATTGGAGTAAGATTATGATTTCGAATGTTCGTAGTAAACTGCCATTGAATATGTCAAATACAT
93430144 TAAGTTGATCAGGTATGTATTATATAC
66 TAAGTTGATCAGGTATGTATTATATAC
93430171 TGATTGGAGTAAGATTATGATTTCGAATGTTCGTAGTAAACTGCCATTGAATATGTCAAATACAT
1 TGATTGGAGTAAGATTATGATTTCGAATGTTCGTAGTAAACTGCCATTGAATATGTCAAATACAT
93430236 TAAGTTGATCAGGTATGTATTATATAC
66 TAAGTTGATCAGGTATGTATTATATAC
93430263 T
1 T
93430264 TTTATATGTT
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
92 93 1.00
ACGTcount: A:0.34, C:0.10, G:0.19, T:0.37
Consensus pattern (92 bp):
TGATTGGAGTAAGATTATGATTTCGAATGTTCGTAGTAAACTGCCATTGAATATGTCAAATACAT
TAAGTTGATCAGGTATGTATTATATAC
Found at i:93444887 original size:8 final size:8
Alignment explanation
Indices: 93444874--93444905 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
93444864 AATACAAAAG
93444874 TTTTTTTA
1 TTTTTTTA
93444882 TTTTTTTA
1 TTTTTTTA
93444890 TTTTTTTA
1 TTTTTTTA
93444898 TTTTTTTA
1 TTTTTTTA
93444906 ATGAAATAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (8 bp):
TTTTTTTA
Found at i:93446456 original size:7 final size:7
Alignment explanation
Indices: 93446444--93446477 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
93446434 TCCGAACGTG
93446444 ATTAAAA
1 ATTAAAA
93446451 ATTAAAA
1 ATTAAAA
*
93446458 ACTAAAA
1 ATTAAAA
93446465 ATT-AAA
1 ATTAAAA
93446471 ATTAAAA
1 ATTAAAA
93446478 TCAGAATAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
6 6 0.25
7 18 0.75
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (7 bp):
ATTAAAA
Found at i:93448219 original size:19 final size:17
Alignment explanation
Indices: 93448134--93448210 Score: 52
Period size: 19 Copynumber: 4.4 Consensus size: 17
93448124 TATTATTTAA
*
93448134 TAATTTTTTCATTTATG
1 TAATTTTTTAATTTATG
93448151 TAATTTTAATTAA-TT-T-
1 TAATTTT--TTAATTTATG
* *
93448167 TAATTTTTAAATATTATT
1 TAATTTTTTAAT-TTATG
*
93448185 TAATATTTTTCCATTTATG
1 TAAT-TTTTT-AATTTATG
93448204 TAATTTT
1 TAATTTT
93448211 AATTAATTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 15
0.70 0.07 0.22
Matches are distributed among these distances:
14 3 0.06
16 9 0.19
17 9 0.19
18 9 0.19
19 15 0.32
20 2 0.04
ACGTcount: A:0.31, C:0.04, G:0.03, T:0.62
Consensus pattern (17 bp):
TAATTTTTTAATTTATG
Found at i:93448226 original size:53 final size:54
Alignment explanation
Indices: 93448106--93448219 Score: 203
Period size: 53 Copynumber: 2.1 Consensus size: 54
93448096 ATGGTAAGGG
* *
93448106 TTAATTTTAATTTTTGAATATTATTTAATAATTTTTTCATTTATGTAATTTTAA
1 TTAATTTTAATTTTTAAATATTATTTAATAATTTTTCCATTTATGTAATTTTAA
93448160 TTAATTTTAATTTTTAAATATTATTTAAT-ATTTTTCCATTTATGTAATTTTAA
1 TTAATTTTAATTTTTAAATATTATTTAATAATTTTTCCATTTATGTAATTTTAA
93448213 TTAATTT
1 TTAATTT
93448220 GTATTTTATA
Statistics
Matches: 58, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
53 30 0.52
54 28 0.48
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (54 bp):
TTAATTTTAATTTTTAAATATTATTTAATAATTTTTCCATTTATGTAATTTTAA
Found at i:93449160 original size:18 final size:20
Alignment explanation
Indices: 93449118--93449154 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
93449108 ATATTTTATG
*
93449118 ATTA-TTTAATTAGATATAT
1 ATTATTTTAATGAGATATAT
93449137 ATTATTTTAATGAGATAT
1 ATTATTTTAATGAGATAT
93449155 TTTATTATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 4 0.25
20 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (20 bp):
ATTATTTTAATGAGATATAT
Found at i:93451358 original size:46 final size:46
Alignment explanation
Indices: 93451311--93451538 Score: 278
Period size: 46 Copynumber: 5.0 Consensus size: 46
93451301 GCTCTCTGAT
* * * *
93451311 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAGCCTGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
93451357 ATGAAACGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
** * * * *
93451403 GGGAAATAAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* *
93451449 ATGAAATGAATAAGACCATGGTTGAAAAATACCATGGCAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
* * * *
93451495 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
93451539 TCAAAGATAA
Statistics
Matches: 157, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
45 1 0.01
46 156 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.20
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAC
Found at i:93451470 original size:92 final size:92
Alignment explanation
Indices: 93451321--93451533 Score: 309
Period size: 92 Copynumber: 2.3 Consensus size: 92
93451311 ATGAAATGTG
* ** *
93451321 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGATATGAAACGTGTAAGACCATGGTTGAAAGA
1 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAAA
* *
93451386 TACCATGGCAACATGACGGGAAATAAA
66 TACCATGGCAACATGACAGAAAATAAA
* *
93451413 TAAGACCATGGTTGAAAGATACCATGGCAGCGTGACATGAAATGAATAAGACCATGGTTGAAAAA
1 TAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAAA
* *
93451478 TACCATGGCAACATGACAGAAAATGAG
66 TACCATGGCAACATGACAGAAAATAAA
* * *
93451505 TAAGACCATAGTTGAAAGACACTATGGCA
1 TAAGACCATGGTTGAAAGATACCATGGCA
93451534 TCATGTCAAA
Statistics
Matches: 108, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
92 108 1.00
ACGTcount: A:0.41, C:0.16, G:0.24, T:0.19
Consensus pattern (92 bp):
TAAGACCATGGTTGAAAGATACCATGGCAGCCTGACATGAAACGAATAAGACCATGGTTGAAAAA
TACCATGGCAACATGACAGAAAATAAA
Found at i:93455081 original size:7 final size:7
Alignment explanation
Indices: 93455069--93455100 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
93455059 AGTCGTTTCA
93455069 TATTTAG
1 TATTTAG
93455076 TATTTAG
1 TATTTAG
93455083 TATTTAG
1 TATTTAG
*
93455090 TATATAG
1 TATTTAG
93455097 TATT
1 TATT
93455101 ATGTATATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (7 bp):
TATTTAG
Found at i:93455088 original size:14 final size:14
Alignment explanation
Indices: 93455069--93455109 Score: 57
Period size: 14 Copynumber: 2.9 Consensus size: 14
93455059 AGTCGTTTCA
*
93455069 TATTTAGTATTTAG
1 TATTTAGTATATAG
93455083 TATTTAGTATATAG
1 TATTTAGTATATAG
93455097 TA-TTATGTATATA
1 TATTTA-GTATATA
93455110 ACTAATATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 3 0.12
14 22 0.88
ACGTcount: A:0.34, C:0.00, G:0.12, T:0.54
Consensus pattern (14 bp):
TATTTAGTATATAG
Found at i:93455742 original size:18 final size:18
Alignment explanation
Indices: 93455719--93455760 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
93455709 GCTAGGTGCA
*
93455719 TATCCTAGCCCTTATATG
1 TATCCTAACCCTTATATG
93455737 TATCCTAACCCTTATATG
1 TATCCTAACCCTTATATG
*
93455755 TTTCCT
1 TATCCT
93455761 TTTCCCAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.29, G:0.07, T:0.43
Consensus pattern (18 bp):
TATCCTAACCCTTATATG
Found at i:93457582 original size:18 final size:17
Alignment explanation
Indices: 93457539--93457583 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
93457529 TTAAAAAATG
93457539 AAAGTAATAGTAATAAT
1 AAAGTAATAGTAATAAT
* *
93457556 AATATTAATGGTAATAAT
1 AA-AGTAATAGTAATAAT
93457574 ATAAGTAATA
1 A-AAGTAATA
93457584 AATATTTAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 2 0.09
18 19 0.86
19 1 0.05
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (17 bp):
AAAGTAATAGTAATAAT
Found at i:93457722 original size:3 final size:3
Alignment explanation
Indices: 93457714--93457846 Score: 153
Period size: 3 Copynumber: 45.0 Consensus size: 3
93457704 TAGATATATG
* * * *
93457714 TAA TAA TAA T-A TAA TAG TAA TGA TAA TAA T-A TAA TAA TAG TAG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
93457760 TAG TAA TAA AAA TAA AAA TAA TAA AAA TAA TAC TAA TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
93457808 TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
93457847 GACCGTAAAG
Statistics
Matches: 108, Mismatches: 20, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
2 4 0.04
3 104 0.96
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:93457941 original size:10 final size:9
Alignment explanation
Indices: 93457926--93457962 Score: 51
Period size: 8 Copynumber: 4.2 Consensus size: 9
93457916 TAGTCATGAC
93457926 AATAATAGAA
1 AATAATA-AA
93457936 AATAATAAA
1 AATAATAAA
93457945 AATAA-AAA
1 AATAATAAA
93457953 AATAA-AAA
1 AATAATAAA
93457961 AA
1 AA
93457963 CTATGTCAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 13 0.48
9 7 0.26
10 7 0.26
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (9 bp):
AATAATAAA
Found at i:93457956 original size:14 final size:16
Alignment explanation
Indices: 93457929--93457960 Score: 50
Period size: 14 Copynumber: 2.1 Consensus size: 16
93457919 TCATGACAAT
93457929 AATAGAAAATAATAAA
1 AATAGAAAATAATAAA
93457945 AATA-AAAA-AATAAA
1 AATAGAAAATAATAAA
93457959 AA
1 AA
93457961 AACTATGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.50
15 4 0.25
16 4 0.25
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (16 bp):
AATAGAAAATAATAAA
Found at i:93458019 original size:12 final size:11
Alignment explanation
Indices: 93457993--93458045 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 11
93457983 GAAATAACAG
*
93457993 TAATAAAAACAA
1 TAATAATAA-AA
93458005 TAATAATAAATA
1 TAATAATAAA-A
93458017 TAATAATAGAAAA
1 TAATAAT--AAAA
93458030 TAATAATGAAAA
1 TAATAAT-AAAA
93458042 TAAT
1 TAAT
93458046 TAATTTGAGA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
11 1 0.03
12 25 0.68
13 8 0.22
14 3 0.08
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (11 bp):
TAATAATAAAA
Found at i:93460312 original size:126 final size:126
Alignment explanation
Indices: 93460083--93460473 Score: 543
Period size: 126 Copynumber: 3.1 Consensus size: 126
93460073 AAGCATGAAC
* * * *
93460083 TACTGTAGAAAAAGAGCGTTC-ACATTGGAGCATTTTTCAGAAATTTTGCTAACATTACATCCTG
1 TACTGTAGAAAAAGAGC-TTCTACGTAGGAGCTTTTTTCAGAAATTTTGCTGACATTACATCCTG
*
93460147 CTTGAAGTGTTTTTGATACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGGAAT
65 CTTGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGGAAT
* *
93460209 TACTGTAGAAAAAGAGCTTCTACGTAGGAGCTTTTTTCAGAAATTTTGATGACATTGCATCCTGC
1 TACTGTAGAAAAAGAGCTTCTACGTAGGAGCTTTTTTCAGAAATTTTGCTGACATTACATCCTGC
* * * ** *
93460274 TTGAAGCGTTGTTGACACTATTTGTTCAAAAATGTCTTCTCAAAATTATTTTTTCAAGAAT
66 TTGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGGAAT
* * * * * * *
93460335 TATTGTAGAAAAATGA-CATCTATGTGGGAGATTTTTTCAGAAATTTTGCTGACATTACATCTTC
1 TACTGTAGAAAAA-GAGCTTCTACGTAGGAGCTTTTTTCAGAAATTTTGCTGACATTACATCCTG
* * *
93460399 CTTGAGGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATCATTTTTTCAGGAAC
65 CTTGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGGAAT
93460461 TACTGTAGAAAAA
1 TACTGTAGAAAAA
93460474 TCATAAACCT
Statistics
Matches: 231, Mismatches: 32, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
125 3 0.01
126 226 0.98
127 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.16, T:0.38
Consensus pattern (126 bp):
TACTGTAGAAAAAGAGCTTCTACGTAGGAGCTTTTTTCAGAAATTTTGCTGACATTACATCCTGC
TTGAAGTGTTTTTGACACTATTTGTTCAGAAACATCTTCTCAAAATTATTTTTTCAGGAAT
Found at i:93461017 original size:19 final size:20
Alignment explanation
Indices: 93460995--93461042 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
93460985 ATTAAATTCT
93460995 TAAAAATAGAATAAA-ATTA
1 TAAAAATAGAATAAATATTA
* *
93461014 TAAAAATTGAATAAATTTTA
1 TAAAAATAGAATAAATATTA
93461034 TAAATAATA
1 TAAA-AATA
93461043 AAAACCCTCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 14 0.58
20 7 0.29
21 3 0.12
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (20 bp):
TAAAAATAGAATAAATATTA
Found at i:93462262 original size:33 final size:33
Alignment explanation
Indices: 93462220--93462326 Score: 205
Period size: 33 Copynumber: 3.2 Consensus size: 33
93462210 TTTTTCATTC
93462220 CTTGCTGCACGTTTGTTAGCAAGTAAATTGTTT
1 CTTGCTGCACGTTTGTTAGCAAGTAAATTGTTT
*
93462253 CTTGCTGCACGTTTGTTAGCAAGTAAATTGTTC
1 CTTGCTGCACGTTTGTTAGCAAGTAAATTGTTT
93462286 CTTGCTGCACGTTTGTTAGCAAGTAAATTGTTT
1 CTTGCTGCACGTTTGTTAGCAAGTAAATTGTTT
93462319 CTTGCTGC
1 CTTGCTGC
93462327 TTTGTTCTTT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 72 1.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (33 bp):
CTTGCTGCACGTTTGTTAGCAAGTAAATTGTTT
Found at i:93464340 original size:124 final size:125
Alignment explanation
Indices: 93464098--93464342 Score: 406
Period size: 124 Copynumber: 2.0 Consensus size: 125
93464088 TATAAAATTT
93464098 TTGGCTTGTACTTAGGCCCTTGACGATTAGGATTCACTTTGGTACCAGTATTTTTTATTTATTTA
1 TTGGCTTGTACTTAGGCCCTTGACGATTAGGATTCACTTTGGTACCAGTATTTTTTATTTATTTA
* *
93464163 TTAAAAGTGAATAATTACATTACAATGAGGAAGGGAGAAAGGTTTACAAATACAAAGAAC
66 TTAAAAGTGAATAATTACATTACAATGAAGAAGGGAGAAAGATTTACAAATACAAAGAAC
* * *
93464223 TTGGCTTGTACTTAGTCCCTTGAC-AGTTAGGCTTCACTTTGGTGCCAGTACTTTTTTA-TTA-T
1 TTGGCTTGTACTTAGGCCCTTGACGA-TTAGGATTCACTTTGGTACCAGTA-TTTTTTATTTATT
93464285 TATTAAAAGTGAATAATTACATTACAATGAAGAAGGGAGAAAGATTTACAAATACAAA
64 TATTAAAAGTGAATAATTACATTACAATGAAGAAGGGAGAAAGATTTACAAATACAAA
93464343 AAAAATCCAA
Statistics
Matches: 113, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
124 58 0.51
125 48 0.42
126 7 0.06
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (125 bp):
TTGGCTTGTACTTAGGCCCTTGACGATTAGGATTCACTTTGGTACCAGTATTTTTTATTTATTTA
TTAAAAGTGAATAATTACATTACAATGAAGAAGGGAGAAAGATTTACAAATACAAAGAAC
Found at i:93468462 original size:18 final size:18
Alignment explanation
Indices: 93468435--93468619 Score: 148
Period size: 18 Copynumber: 10.3 Consensus size: 18
93468425 AATTGATCGG
*
93468435 TTATTTAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
*
93468453 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
*
93468471 -TATTCAGTAACTA-TTAA
1 TTATTCAGTAAC-AGTCAA
*
93468488 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
93468506 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
*
93468525 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
93468543 TTATTCAGTAATATTCAG
1 TTATTCAGTAACAGTCAA
93468561 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
*
93468580 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
93468597 TTATTCAGTAATAATCAA
1 TTATTCAGTAACAGTCAA
93468615 TTATT
1 TTATT
93468620 TTATACATTT
Statistics
Matches: 132, Mismatches: 23, Indels: 24
0.74 0.13 0.13
Matches are distributed among these distances:
17 19 0.14
18 98 0.74
19 15 0.11
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:93468570 original size:72 final size:73
Alignment explanation
Indices: 93468441--93468619 Score: 231
Period size: 72 Copynumber: 2.5 Consensus size: 73
93468431 TCGGTTATTT
* *
93468441 AGTAACAGTCAATTATTCAGTAA-AATCAGA-TATTCAGTAACTATTAAGTTATTCAGTAGCAGT
1 AGTAACAATCAATTATTCAGTAATAATCA-ATTATTCAGTAACTATTAAGTTATTCAGTAACAGT
* *
93468504 C-ATTCATTC
65 CTAAT-ATCC
* * * *
93468513 AGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGTAA-TATTCAGTTATTCAGTAACAGTC
1 AGTAACAATCAATTATTCAGTAATAATCAATTATTCAGTAACTATTAAGTTATTCAGTAACAGTC
93468577 TAATATCC
66 TAATATCC
*
93468585 AGTAACAGTCAATTATTCAGTAATAATCAATTATT
1 AGTAACAATCAATTATTCAGTAATAATCAATTATT
93468620 TTATACATTT
Statistics
Matches: 92, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
72 76 0.83
73 16 0.17
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.36
Consensus pattern (73 bp):
AGTAACAATCAATTATTCAGTAATAATCAATTATTCAGTAACTATTAAGTTATTCAGTAACAGTC
TAATATCC
Found at i:93468838 original size:45 final size:45
Alignment explanation
Indices: 93468783--93469020 Score: 334
Period size: 45 Copynumber: 5.3 Consensus size: 45
93468773 ACAAATCTGG
* * * *
93468783 AACAGTAACAGTAACAGTATTCAACAGACAAAGTGCTGAATCGGT
1 AACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
* * *
93468828 AACGGTAACAGTAACAATATTCGACACACAAAGTGTCGAATCGTT
1 AACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
* *
93468873 AACAGTAATAGTAACAATATTCGACACACACAGTGCCGAATCGGT
1 AACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
*
93468918 AACAGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
1 AACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
* * *
93468963 AATAGTAGCAGTAACAATATTCGACATACAAAGTGCCGAAGT-GGT
1 AACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAA-TCGGT
*
93469008 AACAGTAGCAGTA
1 AACAGTAACAGTA
93469021 GCGGTAACAG
Statistics
Matches: 174, Mismatches: 18, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 173 0.99
46 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.20, T:0.20
Consensus pattern (45 bp):
AACAGTAACAGTAACAATATTCGACACACAAAGTGCCGAATCGGT
Found at i:93469764 original size:6 final size:6
Alignment explanation
Indices: 93469746--93469797 Score: 72
Period size: 6 Copynumber: 8.8 Consensus size: 6
93469736 ACTTTTCCAA
*
93469746 TCAATT T-ACATT TTAATT TCAATT TCAATT TCAATT TCAATT TCAA-T
1 TCAATT TCA-ATT TCAATT TCAATT TCAATT TCAATT TCAATT TCAATT
93469793 TCAAT
1 TCAAT
93469798 AACAATTCAC
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
5 6 0.14
6 35 0.83
7 1 0.02
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (6 bp):
TCAATT
Found at i:93469845 original size:21 final size:21
Alignment explanation
Indices: 93469770--93469851 Score: 53
Period size: 21 Copynumber: 3.8 Consensus size: 21
93469760 AATTTCAATT
*
93469770 TCAAT-TTCAATTTCAATTTCAA
1 TCAATATTCAA-TTCAATAT-AA
* *
93469792 TTCAATA-ACAATTCACATATAT
1 -TCAATATTCAATTCA-ATATAA
*
93469814 TC-ATAAATCAATTCAATATAA
1 TCAAT-ATTCAATTCAATATAA
*
93469835 TCAATATTCAATCCAAT
1 TCAATATTCAATTCAAT
93469852 TCATATAATC
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
20 2 0.04
21 20 0.43
22 14 0.30
23 11 0.23
ACGTcount: A:0.44, C:0.18, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATATTCAATTCAATATAA
Found at i:93472333 original size:20 final size:20
Alignment explanation
Indices: 93472308--93472357 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
93472298 TGGCTTAAAA
93472308 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
93472328 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
93472345 GTGGTAGTGGATT
1 TTGGTAGTGGATT
93472358 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:93476972 original size:20 final size:20
Alignment explanation
Indices: 93476947--93476996 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
93476937 TGGCTTAAAA
93476947 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
93476967 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
93476984 GTGGTAGTGGATT
1 TTGGTAGTGGATT
93476997 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:93483508 original size:3 final size:3
Alignment explanation
Indices: 93483494--93483551 Score: 61
Period size: 3 Copynumber: 19.7 Consensus size: 3
93483484 TATTCTAAAT
93483494 TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAAA TAA -AA CTAAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA -T-AA TAA
93483540 -AA TAA -AA TAA TA
1 TAA TAA TAA TAA TA
93483552 TCTTCTATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
2 8 0.17
3 34 0.71
4 4 0.08
5 2 0.04
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:93483536 original size:10 final size:9
Alignment explanation
Indices: 93483490--93483545 Score: 51
Period size: 10 Copynumber: 5.8 Consensus size: 9
93483480 AGCCTATTCT
*
93483490 AAATTAATA
1 AAATAAATA
93483499 AAAT-AATA
1 AAATAAATA
93483507 ATAATAATAATA
1 A-AAT-A-AATA
93483519 ATAATAAATA
1 A-AATAAATA
93483529 AAACTAAATA
1 AAA-TAAATA
93483539 AAATAAA
1 AAATAAA
93483546 ATAATATCTT
Statistics
Matches: 42, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
8 5 0.12
9 13 0.31
10 14 0.33
11 1 0.02
12 9 0.21
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (9 bp):
AAATAAATA
Found at i:93491580 original size:11 final size:11
Alignment explanation
Indices: 93491564--93491588 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
93491554 ATCTAACTCG
93491564 AAAAATAAAAA
1 AAAAATAAAAA
93491575 AAAAATAAAAA
1 AAAAATAAAAA
93491586 AAA
1 AAA
93491589 TTTTGAGTTA
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:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (11 bp):
AAAAATAAAAA
Found at i:93495748 original size:42 final size:42
Alignment explanation
Indices: 93495701--93495785 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
93495691 TAACAACTTA
*
93495701 TCATGTGGCACTTTGGGATACAAAATTAAGGATGTTTTTGAG
1 TCATGTGGCACTTTGGGATACAAAATTAAGGATGTGTTTGAG
93495743 TCATGTGGCACTTTGGGATACAAAATTAAGGATGTGTTTGAG
1 TCATGTGGCACTTTGGGATACAAAATTAAGGATGTGTTTGAG
93495785 T
1 T
93495786 GAGAAATTTG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.28, C:0.09, G:0.27, T:0.35
Consensus pattern (42 bp):
TCATGTGGCACTTTGGGATACAAAATTAAGGATGTGTTTGAG
Found at i:93496285 original size:17 final size:16
Alignment explanation
Indices: 93496265--93496307 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
93496255 TTTATATTCT
93496265 TTTTTGTTAATTATTTA
1 TTTTT-TTAATTATTTA
* *
93496282 TTTTTATAGATTTTTTA
1 TTTTTTTA-ATTATTTA
93496299 TTTTTTTAA
1 TTTTTTTAA
93496308 AATTTATACT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (16 bp):
TTTTTTTAATTATTTA
Found at i:93520595 original size:9 final size:9
Alignment explanation
Indices: 93520583--93520622 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
93520573 AAAATAAAAA
*
93520583 AAAAATTGT
1 AAAAATTAT
93520592 AAAAATTAT
1 AAAAATTAT
*
93520601 AAAAATCAT
1 AAAAATTAT
93520610 AAAAAATTAT
1 -AAAAATTAT
93520620 AAA
1 AAA
93520623 CTGTATCAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (9 bp):
AAAAATTAT
Found at i:93521960 original size:21 final size:19
Alignment explanation
Indices: 93521935--93521974 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 19
93521925 TAACATGTAA
93521935 TAAATTATTAACAATATTAAT
1 TAAATT-TTAA-AATATTAAT
*
93521956 TAAATTTTAATATATTAAT
1 TAAATTTTAAAATATTAAT
93521975 ATTAATATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 8 0.44
20 4 0.22
21 6 0.33
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (19 bp):
TAAATTTTAAAATATTAAT
Found at i:93538136 original size:6 final size:6
Alignment explanation
Indices: 93538125--93538154 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
93538115 ACTCAACTCT
93538125 CATATA CATATA CATATA CATATA CATATA
1 CATATA CATATA CATATA CATATA CATATA
93538155 ACACGGTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.17, G:0.00, T:0.33
Consensus pattern (6 bp):
CATATA
Found at i:93541144 original size:3 final size:3
Alignment explanation
Indices: 93541131--93541175 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
93541121 GGAATCCAAT
* * *
93541131 AAG AGG AAG AAG AAG AAG AAG CAAG ACG AGG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG -AAG AAG AAG AAG AAG AAG AAG AA
93541176 CCGGAGGAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
3 33 0.92
4 3 0.08
ACGTcount: A:0.60, C:0.04, G:0.36, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:93546345 original size:16 final size:18
Alignment explanation
Indices: 93546313--93546350 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
93546303 GCCATGAACT
*
93546313 TTACTATTTTATTAAT-A
1 TTACTATTTTATAAATAA
93546330 TTACTA-TTTATAAATAA
1 TTACTATTTTATAAATAA
93546347 TTAC
1 TTAC
93546351 AAGGATATGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
17 11 0.58
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (18 bp):
TTACTATTTTATAAATAA
Found at i:93546919 original size:20 final size:20
Alignment explanation
Indices: 93546896--93546934 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
93546886 AATGATTCTG
93546896 CCATT-AATTTTAAGATTTAT
1 CCATTAAATTTTAA-ATTTAT
93546916 CCATTAAATTTTAAATTTA
1 CCATTAAATTTTAAATTTA
93546935 GGTTCAAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (20 bp):
CCATTAAATTTTAAATTTAT
Found at i:93547425 original size:31 final size:32
Alignment explanation
Indices: 93547367--93547426 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
93547357 TTTTCAAATC
* *
93547367 ATTAAAAATTAATATCTAATGGTAAAATTTTA
1 ATTAAAAAATAATATCTAATGGCAAAATTTTA
*
93547399 ATTAAAAAATAA-ATTTAATGGCAAAATT
1 ATTAAAAAATAATATCTAATGGCAAAATT
93547427 AAATAAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 14 0.56
32 11 0.44
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (32 bp):
ATTAAAAAATAATATCTAATGGCAAAATTTTA
Found at i:93547433 original size:29 final size:30
Alignment explanation
Indices: 93547369--93547443 Score: 80
Period size: 29 Copynumber: 2.5 Consensus size: 30
93547359 TTCAAATCAT
* * *
93547369 TAAAAATTAATATCTAATGGTAAAATTTTAAT
1 TAAAAATTAA-ATTTAATGGCAAAA-TTTAAA
*
93547401 TAAAAAATAAATTTAATGGCAAAA-TTAAA
1 TAAAAATTAAATTTAATGGCAAAATTTAAA
*
93547430 TAAAATTTAAATTT
1 TAAAAATTAAATTT
93547444 TAGTAGCATA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
29 16 0.43
31 12 0.32
32 9 0.24
ACGTcount: A:0.55, C:0.03, G:0.05, T:0.37
Consensus pattern (30 bp):
TAAAAATTAAATTTAATGGCAAAATTTAAA
Found at i:93548075 original size:3 final size:3
Alignment explanation
Indices: 93548067--93548093 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
93548057 GCCAAAACAT
93548067 ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA
93548094 CATTCCCACC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:93556726 original size:26 final size:26
Alignment explanation
Indices: 93556670--93556719 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
93556660 TCTTTTTGTC
* *
93556670 AATTTGACCCATAATTTTTTAAGTTA
1 AATTTGACCCATAAATTTTTAAATTA
93556696 AATTTGACCC-TCAAATTTTTAAAT
1 AATTTGACCCAT-AAATTTTTAAAT
93556720 ATAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 1 0.05
26 20 0.95
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (26 bp):
AATTTGACCCATAAATTTTTAAATTA
Found at i:93556864 original size:10 final size:10
Alignment explanation
Indices: 93556849--93556885 Score: 65
Period size: 10 Copynumber: 3.6 Consensus size: 10
93556839 TCATGCTAAT
93556849 TTTTTATGAA
1 TTTTTATGAA
93556859 TTTTTATGAA
1 TTTTTATGAA
93556869 TTTTTATGAA
1 TTTTTATGAA
93556879 TATTTTA
1 T-TTTTA
93556886 ATAAATTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 21 0.81
11 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.08, T:0.62
Consensus pattern (10 bp):
TTTTTATGAA
Found at i:93556872 original size:21 final size:23
Alignment explanation
Indices: 93556846--93556894 Score: 68
Period size: 20 Copynumber: 2.3 Consensus size: 23
93556836 ACTTCATGCT
*
93556846 AATTTTTTATGAAT-TTTT-ATG
1 AATTTTTTATGAATATTTTAATA
93556867 AA-TTTTTATGAATATTTTAATA
1 AATTTTTTATGAATATTTTAATA
93556889 AATTTT
1 AATTTT
93556895 AAATTATTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 11 0.46
21 6 0.25
22 4 0.17
23 3 0.12
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (23 bp):
AATTTTTTATGAATATTTTAATA
Found at i:93556883 original size:22 final size:20
Alignment explanation
Indices: 93556849--93556894 Score: 56
Period size: 22 Copynumber: 2.2 Consensus size: 20
93556839 TCATGCTAAT
* *
93556849 TTTTTATGAATTTTTATGAA
1 TTTTTATGAATTTTAATAAA
93556869 TTTTTATGAATATTTTAATAAA
1 TTTTTATG-A-ATTTTAATAAA
93556891 TTTT
1 TTTT
93556895 AAATTATTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.36
21 1 0.05
22 13 0.59
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.61
Consensus pattern (20 bp):
TTTTTATGAATTTTAATAAA
Found at i:93558931 original size:22 final size:22
Alignment explanation
Indices: 93558901--93558949 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
93558891 GAAGCGCAGT
*
93558901 ATTTCTTTTTTTAAA-ACGA-A
1 ATTTTTTTTTTTAAATACGAGA
93558921 AGTTTTTTTTTTTAAATACGAGA
1 A-TTTTTTTTTTTAAATACGAGA
93558944 ATTTTT
1 ATTTTT
93558950 GAAAACACGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 1 0.04
21 13 0.52
22 9 0.36
23 2 0.08
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.55
Consensus pattern (22 bp):
ATTTTTTTTTTTAAATACGAGA
Found at i:93558948 original size:18 final size:18
Alignment explanation
Indices: 93558938--93559365 Score: 107
Period size: 17 Copynumber: 24.0 Consensus size: 18
93558928 TTTTTTAAAT
93558938 ACGAGAATTTTTGAAAAC
1 ACGAGAATTTTTGAAAAC
*
93558956 ACGAGAA--TTTGTAAAC
1 ACGAGAATTTTTGAAAAC
* *
93558972 ACGAAAATTTTAG-AAAC
1 ACGAGAATTTTTGAAAAC
* *
93558989 ACGAAAATTTTTGGAAAAAA
1 ACGAGAATTTTT-G-AAAAC
*
93559009 ACGA-AATTTTCTTAAAAC
1 ACGAGAATTTT-TGAAAAC
* *
93559027 ACGACATTTTTTTTTG-AAAC
1 ACGAGA---ATTTTTGAAAAC
*
93559047 ACGGGAATTTTT-AAAAC
1 ACGAGAATTTTTGAAAAC
* * *
93559064 AAGACATTTTTTG-AAAC
1 ACGAGAATTTTTGAAAAC
* *
93559081 AC-A-ATTTTTTCTTAAAA-
1 ACGAGA-ATTTT-TGAAAAC
*
93559098 A--A-AA-TTTT--AAAT
1 ACGAGAATTTTTGAAAAC
93559110 ACGAGAATTTTT-AAAAC
1 ACGAGAATTTTTGAAAAC
* *
93559127 ACGAAAAGTTTT-AAAAC
1 ACGAGAATTTTTGAAAAC
* **
93559144 ACGGAAATATTTTTTTTTTTTAAAC
1 AC-GAGA-A-----TTTTTGAAAAC
*
93559169 ACGAAAATTTTTTCTGAAAAC
1 ACGAGAA--TTTT-TGAAAAC
* *
93559190 AAGAAAATTTTTG-AAAC
1 ACGAGAATTTTTGAAAAC
*
93559207 ACTAGAA-TTTTGAAAAC
1 ACGAGAATTTTTGAAAAC
*
93559224 AC-AAAGATTTTTG-AAAC
1 ACGAGA-ATTTTTGAAAAC
*
93559241 ATGAGAATTTTT-AAAAGC
1 ACGAGAATTTTTGAAAA-C
* * *
93559259 ACGAGGATTATTGAAAGC
1 ACGAGAATTTTTGAAAAC
* * *
93559277 ACGAAAATTTGT-AAAAA
1 ACGAGAATTTTTGAAAAC
* *
93559294 ACGACAATTTTTG-AAAT
1 ACGAGAATTTTTGAAAAC
*
93559311 ACGAGAAATTTTT-TAAAC
1 ACGAG-AATTTTTGAAAAC
* * **
93559329 GCGAAAATTTTTTTCAAAC
1 ACGAGAA-TTTTTGAAAAC
* *
93559348 ACGAAAACTTTTGAAAAC
1 ACGAGAATTTTTGAAAAC
93559366 GCGAAAATTC
Statistics
Matches: 313, Mismatches: 55, Indels: 84
0.69 0.12 0.19
Matches are distributed among these distances:
11 3 0.01
12 1 0.00
13 1 0.00
14 4 0.01
15 3 0.01
16 33 0.11
17 110 0.35
18 80 0.26
19 25 0.08
20 22 0.07
21 12 0.04
22 4 0.01
23 1 0.00
24 8 0.03
25 6 0.02
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (18 bp):
ACGAGAATTTTTGAAAAC
Found at i:93558966 original size:16 final size:16
Alignment explanation
Indices: 93558947--93558998 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
93558937 TACGAGAATT
*
93558947 TTTGAAAACACGAGAA
1 TTTGAAAACACGAAAA
*
93558963 TTTGTAAACACGAAAA
1 TTTGAAAACACGAAAA
*
93558979 TTTTAGAAACACGAAAA
1 TTTGA-AAACACGAAAA
93558996 TTT
1 TTT
93558999 TTGGAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (16 bp):
TTTGAAAACACGAAAA
Found at i:93559168 original size:25 final size:23
Alignment explanation
Indices: 93559135--93559181 Score: 67
Period size: 25 Copynumber: 2.0 Consensus size: 23
93559125 ACACGAAAAG
93559135 TTTTAAAACACGGAAATATTTTTTT
1 TTTTAAAACAC-GAAA-ATTTTTTT
*
93559160 TTTTTAAACACGAAAATTTTTT
1 TTTTAAAACACGAAAATTTTTT
93559182 CTGAAAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.33
24 4 0.19
25 10 0.48
ACGTcount: A:0.36, C:0.09, G:0.06, T:0.49
Consensus pattern (23 bp):
TTTTAAAACACGAAAATTTTTTT
Found at i:93559181 original size:17 final size:17
Alignment explanation
Indices: 93559159--93559374 Score: 119
Period size: 17 Copynumber: 12.1 Consensus size: 17
93559149 AATATTTTTT
*
93559159 TTTTTTAAACACGAAAA
1 TTTTTAAAACACGAAAA
*
93559176 TTTTTTCTGAAAACAAGAAAA
1 --TTTT-T-AAAACACGAAAA
* * *
93559197 TTTTTGAAACACTAGAA
1 TTTTTAAAACACGAAAA
*
93559214 TTTTGAAAACAC-AAAGA
1 TTTTTAAAACACGAAA-A
* * *
93559231 TTTTTGAAACATGAGAA
1 TTTTTAAAACACGAAAA
**
93559248 TTTTTAAAAGCACGAGGA
1 TTTTTAAAA-CACGAAAA
* *
93559266 TTATTGAAAGCACGAAAA
1 TT-TTTAAAACACGAAAA
* * *
93559284 TTTGTAAAAAACGACAA
1 TTTTTAAAACACGAAAA
* *
93559301 TTTTTGAAATACGAGAAA
1 TTTTTAAAACACGA-AAA
* *
93559319 TTTTTTAAACGCGAAAA
1 TTTTTAAAACACGAAAA
*
93559336 TTTTTTTCAAACACGAAAA
1 --TTTTTAAAACACGAAAA
* *
93559355 CTTTTGAAAACGCGAAAA
1 -TTTTTAAAACACGAAAA
93559373 TT
1 TT
93559375 CGAAAATTTC
Statistics
Matches: 150, Mismatches: 38, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
16 2 0.01
17 63 0.42
18 46 0.31
19 28 0.19
20 1 0.01
21 10 0.07
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.31
Consensus pattern (17 bp):
TTTTTAAAACACGAAAA
Found at i:93559219 original size:16 final size:16
Alignment explanation
Indices: 93559198--93559251 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
93559188 ACAAGAAAAT
93559198 TTTTGAAACACTAGAA
1 TTTTGAAACACTAGAA
* *
93559214 TTTTGAAAACACAAAGAT
1 TTTTG-AAACAC-TAGAA
93559232 TTTTGAAACA-TGAGAA
1 TTTTGAAACACT-AGAA
93559248 TTTT
1 TTTT
93559252 TAAAAGCACG
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
16 12 0.39
17 11 0.35
18 8 0.26
ACGTcount: A:0.43, C:0.09, G:0.13, T:0.35
Consensus pattern (16 bp):
TTTTGAAACACTAGAA
Found at i:93559342 original size:19 final size:19
Alignment explanation
Indices: 93559319--93559374 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 19
93559309 ATACGAGAAA
93559319 TTTTTT-AAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
* *
93559337 TTTTTTCAAACACGAAAA-
1 TTTTTTAAAACGCGAAAAT
* *
93559355 CTTTTGAAAACGCGAAAAT
1 TTTTTTAAAACGCGAAAAT
93559374 T
1 T
93559375 CGAAAATTTC
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
18 20 0.67
19 10 0.33
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (19 bp):
TTTTTTAAAACGCGAAAAT
Found at i:93559418 original size:18 final size:17
Alignment explanation
Indices: 93559369--93559419 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
93559359 TGAAAACGCG
93559369 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
93559386 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
93559404 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
93559420 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:93559943 original size:26 final size:26
Alignment explanation
Indices: 93559904--93559960 Score: 96
Period size: 26 Copynumber: 2.2 Consensus size: 26
93559894 CTTTTTTTTT
*
93559904 CTGCTGCAGGATTCGGGCCTGGGGGC
1 CTGCTGCAGAATTCGGGCCTGGGGGC
*
93559930 CTGCTGCCGAATTCGGGCCTGGGGGC
1 CTGCTGCAGAATTCGGGCCTGGGGGC
93559956 CTGCT
1 CTGCT
93559961 TGGTCTGCTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.07, C:0.30, G:0.42, T:0.21
Consensus pattern (26 bp):
CTGCTGCAGAATTCGGGCCTGGGGGC
Done.