Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 171 of 343
Found at i:56690903 original size:34 final size:34
Alignment explanation
Indices: 56690865--56690932 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 34
56690855 ATCACATATA
*
56690865 TCCATCAAAATTCATCATTCAAACAGAACTTAAC
1 TCCATCAAAATTCACCATTCAAACAGAACTTAAC
** *
56690899 TCCATTGAAATTCACCATTCAAATAGAACTTAAC
1 TCCATCAAAATTCACCATTCAAACAGAACTTAAC
56690933 ATTTTTGGGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.43, C:0.25, G:0.04, T:0.28
Consensus pattern (34 bp):
TCCATCAAAATTCACCATTCAAACAGAACTTAAC
Found at i:56695789 original size:13 final size:13
Alignment explanation
Indices: 56695767--56695800 Score: 59
Period size: 14 Copynumber: 2.5 Consensus size: 13
56695757 TTGTTTTTAG
56695767 TTTAATTTTTCTT
1 TTTAATTTTTCTT
56695780 TTCTAATTTTTCTT
1 TT-TAATTTTTCTT
56695794 TTTAATT
1 TTTAATT
56695801 GCTTCTGGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 7 0.35
14 13 0.65
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTAATTTTTCTT
Found at i:56699470 original size:16 final size:16
Alignment explanation
Indices: 56699451--56699498 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
56699441 TTCTCTTTCA
56699451 TTTATTTTCTTTATTT
1 TTTATTTTCTTTATTT
*
56699467 TTTATTATT-TTTATTC
1 TTTATT-TTCTTTATTT
*
56699483 TTT-TTTACTTTATTT
1 TTTATTTTCTTTATTT
56699498 T
1 T
56699499 AGTTTAATTC
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 1 0.04
15 9 0.33
16 15 0.56
17 2 0.07
ACGTcount: A:0.15, C:0.06, G:0.00, T:0.79
Consensus pattern (16 bp):
TTTATTTTCTTTATTT
Found at i:56708708 original size:25 final size:25
Alignment explanation
Indices: 56708676--56708762 Score: 111
Period size: 25 Copynumber: 3.5 Consensus size: 25
56708666 TATTCTGATT
* *
56708676 ATGGCTTTGTGTCGATATGCTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* *
56708701 AAGGCTTTATGCCGATATGTTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
* * *
56708726 ATCGTTTTGTGCCGGTATGTTATTG
1 ATGGCTTTGTGCCGATATGTTATTG
56708751 ATGGCTTTGTGC
1 ATGGCTTTGTGC
56708763 TGCCACTGAA
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 51 1.00
ACGTcount: A:0.16, C:0.13, G:0.28, T:0.44
Consensus pattern (25 bp):
ATGGCTTTGTGCCGATATGTTATTG
Found at i:56708809 original size:20 final size:20
Alignment explanation
Indices: 56708746--56708883 Score: 150
Period size: 20 Copynumber: 6.9 Consensus size: 20
56708736 GCCGGTATGT
*
56708746 TATTGATGGCTTTGTGCTGC
1 TATTGATGGCTTTGTGCCGC
* * *
56708766 CACTGAAGGCTTTGTGCCGC
1 TATTGATGGCTTTGTGCCGC
*
56708786 TATTGATGGCTTTGTGCCGT
1 TATTGATGGCTTTGTGCCGC
* *
56708806 TATTAATGGCTTTGTGCCGA
1 TATTGATGGCTTTGTGCCGC
* * * *
56708826 TATTGACGGCTTTATACTGC
1 TATTGATGGCTTTGTGCCGC
*
56708846 TATTGATGGCTTCGTGCCGC
1 TATTGATGGCTTTGTGCCGC
* *
56708866 TATTCATGGCTGTGTGCC
1 TATTGATGGCTTTGTGCC
56708884 ATATACTTAT
Statistics
Matches: 94, Mismatches: 24, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 94 1.00
ACGTcount: A:0.14, C:0.20, G:0.28, T:0.38
Consensus pattern (20 bp):
TATTGATGGCTTTGTGCCGC
Found at i:56708916 original size:26 final size:26
Alignment explanation
Indices: 56708886--56708968 Score: 87
Period size: 26 Copynumber: 3.2 Consensus size: 26
56708876 TGTGTGCCAT
*
56708886 ATACTTATACTGGCAGCTTTGCTGCG
1 ATACTTATACTGGCAGCTATGCTGCG
* * * * *
56708912 TTACTGATACTGGCAACTCTGTTGCG
1 ATACTTATACTGGCAGCTATGCTGCG
*
56708938 ATA-TTATTACTGGTAGCTATGCTGCG
1 ATACTTA-TACTGGCAGCTATGCTGCG
56708964 ATACT
1 ATACT
56708969 GGTATGTTGG
Statistics
Matches: 44, Mismatches: 11, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
25 2 0.05
26 41 0.93
27 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (26 bp):
ATACTTATACTGGCAGCTATGCTGCG
Found at i:56709109 original size:34 final size:34
Alignment explanation
Indices: 56709071--56709140 Score: 88
Period size: 34 Copynumber: 2.1 Consensus size: 34
56709061 TTTACTGTAT
* *
56709071 TGTTACTGCATTGGGCT-AAGGCCCACACTATTAC
1 TGTTACCGCAATGGGCTCAA-GCCCACACTATTAC
* *
56709105 TGTTACCGTAATGGGCTCAAGCCCAGACTATTAC
1 TGTTACCGCAATGGGCTCAAGCCCACACTATTAC
56709139 TG
1 TG
56709141 ATATGGGCTT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 29 0.94
35 2 0.06
ACGTcount: A:0.24, C:0.26, G:0.21, T:0.29
Consensus pattern (34 bp):
TGTTACCGCAATGGGCTCAAGCCCACACTATTAC
Found at i:56717666 original size:39 final size:39
Alignment explanation
Indices: 56717612--56717734 Score: 174
Period size: 39 Copynumber: 3.2 Consensus size: 39
56717602 TTGATTTTTT
* *
56717612 TGATATATTTTTGAATGCTATGTGATTATATGAGTATTG
1 TGATATATTCTTGAATGTTATGTGATTATATGAGTATTG
*
56717651 TGATATATTCTTGAATGTTATGTGATTATATGAATATTG
1 TGATATATTCTTGAATGTTATGTGATTATATGAGTATTG
* * * * *
56717690 TGATATATGCTTAAATGTTATGTGATTTTATGTGTAATG
1 TGATATATTCTTGAATGTTATGTGATTATATGAGTATTG
56717729 TGATAT
1 TGATAT
56717735 GTAACAGTCT
Statistics
Matches: 75, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 75 1.00
ACGTcount: A:0.29, C:0.02, G:0.20, T:0.49
Consensus pattern (39 bp):
TGATATATTCTTGAATGTTATGTGATTATATGAGTATTG
Found at i:56719984 original size:15 final size:15
Alignment explanation
Indices: 56719965--56719999 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
56719955 AGCCGTGTGT
*
56719965 GACACACGACTTGGC
1 GACACACGACCTGGC
*
56719980 TACACACGACCTGGC
1 GACACACGACCTGGC
56719995 GACAC
1 GACAC
56720000 GACTGTGTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.29, C:0.37, G:0.23, T:0.11
Consensus pattern (15 bp):
GACACACGACCTGGC
Found at i:56724750 original size:40 final size:40
Alignment explanation
Indices: 56724667--56724929 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
56724657 TTGAATGCTG
* * * * * *
56724667 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
56724707 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
56724747 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
56724787 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
56724827 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
56724867 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
56724906 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
56724930 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:56724949 original size:79 final size:80
Alignment explanation
Indices: 56724706--56724964 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
56724696 AAGTGAATAT
* * * * * * *
56724706 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
56724770 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
56724786 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
56724851 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
56724866 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
56724930 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
56724945 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
56724965 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:56732711 original size:40 final size:40
Alignment explanation
Indices: 56732628--56732890 Score: 316
Period size: 40 Copynumber: 6.6 Consensus size: 40
56732618 TTGAATGCTG
* * * * * *
56732628 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
56732668 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
56732708 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
56732748 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* *
56732788 TCCGGGTTAAGTCCCGAAGGCAGTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
56732828 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
56732867 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
56732891 TGAACGAGGA
Statistics
Matches: 199, Mismatches: 21, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
39 35 0.18
40 156 0.78
41 8 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:56732910 original size:79 final size:80
Alignment explanation
Indices: 56732667--56732925 Score: 238
Period size: 80 Copynumber: 3.3 Consensus size: 80
56732657 AAGTGAATAT
* * * * * * *
56732667 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAG
** * *
56732731 TCGTGCGAGTTA-TTAA
65 TCGAACGAG-GAGCTAA
* * *
56732747 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCAGT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
** ** *
56732812 CGTGCGAGTTGTTAA
66 CGAACGAGGAGCTAA
* * * *
56732827 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
* *
56732891 TGAACGAGGAGCTAT
66 CGAACGAGGAGCTAA
*
56732906 ATCC-GGTTAAATCCCGAAGG
1 ATCCGGGTTAAGTCCCGAAGG
56732926 TACGTGATTT
Statistics
Matches: 154, Mismatches: 23, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
78 14 0.09
79 47 0.31
80 93 0.60
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (80 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGGCAGT
CGAACGAGGAGCTAA
Found at i:56740655 original size:5 final size:5
Alignment explanation
Indices: 56740619--56740646 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
56740609 GACTTCTTCT
56740619 AATAA AATAA AATAA AATAA AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AAT
56740647 TACAATACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:56743178 original size:31 final size:31
Alignment explanation
Indices: 56743135--56743198 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
56743125 CCTTTTCATA
56743135 TTTCATAATTCATAACACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
* **
56743166 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATAATTCATAACACTGGGCCGAAGCCT
56743197 TT
1 TT
56743199 ATTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATAATTCATAACACTGGGCCGAAGCCT
Found at i:56743441 original size:24 final size:24
Alignment explanation
Indices: 56743405--56743534 Score: 217
Period size: 24 Copynumber: 5.4 Consensus size: 24
56743395 CTGGAGGCCT
*
56743405 AGCCTCTTTTAATAACTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
56743430 AGCCCTTTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
56743454 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
56743477 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
56743501 AGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
56743525 AGCCCTTTTA
1 AGCCCTTTTA
56743535 CACTTCCTCC
Statistics
Matches: 101, Mismatches: 3, Indels: 3
0.94 0.03 0.03
Matches are distributed among these distances:
23 23 0.23
24 74 0.73
25 4 0.04
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:56743481 original size:47 final size:48
Alignment explanation
Indices: 56743405--56743534 Score: 217
Period size: 47 Copynumber: 2.7 Consensus size: 48
56743395 CTGGAGGCCT
*
56743405 AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTAATAACTGGGGCATA
1 AGCC-CTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
56743454 AGCCC-TTTAATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
*
56743501 AGCCCTTTTGATAACTGGGGCATAAGCCCTTTTA
1 AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTA
56743535 CACTTCCTCC
Statistics
Matches: 76, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
47 45 0.59
48 27 0.36
49 4 0.05
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
AGCCCTTTTAATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATA
Found at i:56743605 original size:9 final size:9
Alignment explanation
Indices: 56743591--56743647 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
56743581 ATTTCATGTG
56743591 CATATCATA
1 CATATCATA
*
56743600 CATATCATGTG
1 CATATCA--TA
56743611 CATATCATA
1 CATATCATA
* *
56743620 CATGTCATGTG
1 CATATCA--TA
56743631 CATATCATA
1 CATATCATA
56743640 CATATCAT
1 CATATCAT
56743648 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:56743607 original size:20 final size:20
Alignment explanation
Indices: 56743579--56743649 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
56743569 GCATTTATGA
*
56743579 ACATTTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
56743599 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
56743619 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
56743639 ACATATCATGT
1 ACATATCATGT
56743650 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.37
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:56743614 original size:11 final size:11
Alignment explanation
Indices: 56743584--56743638 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
56743574 TATGAACATT
56743584 TCATGTGCATA
1 TCATGTGCATA
*
56743595 TCA--TACATA
1 TCATGTGCATA
56743604 TCATGTGCATA
1 TCATGTGCATA
* *
56743615 TCA--TACATG
1 TCATGTGCATA
56743624 TCATGTGCATA
1 TCATGTGCATA
56743635 TCAT
1 TCAT
56743639 ACATATCATG
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:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:56744921 original size:27 final size:27
Alignment explanation
Indices: 56744891--56744963 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
56744881 TATTCGTTAT
56744891 TTTACTATACAGGGGTATTACGGTCAC
1 TTTACTATACAGGGGTATTACGGTCAC
** *
56744918 TTTACCCTACAAGGGCT-TTACGGTCAC
1 TTTACTATAC-AGGGGTATTACGGTCAC
*
56744945 TTTACCTA-ATAGGGGTATT
1 TTTA-CTATACAGGGGTATT
56744964 TTAGTCATTT
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
26 5 0.14
27 25 0.69
28 6 0.17
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
TTTACTATACAGGGGTATTACGGTCAC
Found at i:56745034 original size:27 final size:27
Alignment explanation
Indices: 56745004--56745055 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
56744994 GTAAATCTAC
56745004 AAACCAAAGGCATTTCAATAATTTTGT
1 AAACCAAAGGCATTTCAATAATTTTGT
* * *
56745031 AAACCAATGGTATTTCTATAATTTT
1 AAACCAAAGGCATTTCAATAATTTT
56745056 TAGAAAGTCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.10, T:0.38
Consensus pattern (27 bp):
AAACCAAAGGCATTTCAATAATTTTGT
Found at i:56745117 original size:27 final size:27
Alignment explanation
Indices: 56745096--56745219 Score: 176
Period size: 27 Copynumber: 4.6 Consensus size: 27
56745086 TAAATCAGTT
***
56745096 GTATTTTGGTAATTTTACAAATTGAGG
1 GTATTTTGGTAATTTTACAAACCAAGG
* *
56745123 GTATTTCGGTAATTTCACAAACCAAGG
1 GTATTTTGGTAATTTTACAAACCAAGG
* *
56745150 GTATTTTGGTAATTTTACAAACTAGGG
1 GTATTTTGGTAATTTTACAAACCAAGG
56745177 GTATTTTGGTAATTTTACAAACCAAGG
1 GTATTTTGGTAATTTTACAAACCAAGG
*
56745204 GTATTTTAGTAATTTT
1 GTATTTTGGTAATTTT
56745220 GTAAATCGAG
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.31, C:0.09, G:0.19, T:0.41
Consensus pattern (27 bp):
GTATTTTGGTAATTTTACAAACCAAGG
Found at i:56745154 original size:54 final size:54
Alignment explanation
Indices: 56745096--56745233 Score: 197
Period size: 54 Copynumber: 2.6 Consensus size: 54
56745086 TAAATCAGTT
56745096 GTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGG
1 GTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGG
* * *
56745150 GTATTTTGGTAATTTTACAAACT-AGGGGTATTTTGGTAATTTTACAAACCAAGG
1 GTATTTTGGTAATTTTACAAATTGA-GGGTATTTCGGTAATTTCACAAACCAAGG
* ** *
56745204 GTATTTTAGTAATTTTGTAAATCGAGGGTA
1 GTATTTTGGTAATTTTACAAATTGAGGGTA
56745234 AAATAGTAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
53 1 0.01
54 72 0.97
55 1 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.39
Consensus pattern (54 bp):
GTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAACCAAGG
Found at i:56745231 original size:27 final size:27
Alignment explanation
Indices: 56745022--56745260 Score: 144
Period size: 27 Copynumber: 8.8 Consensus size: 27
56745012 GGCATTTCAA
* * * *
56745022 TAATTTTGTAAACCAATGGTATTTCT-A
1 TAATTTTATAAATCAAGGGTATTT-TGG
*
56745049 TAATTTTTAGAAAGTCAAGGGTATTTCT-G
1 TAA-TTTTATAAA-TCAAGGGTATTT-TGG
* * *
56745078 TAACTTTGTAAATC-AGTTGTATTTTGG
1 TAATTTTATAAATCAAG-GGTATTTTGG
* ** *
56745105 TAATTTTACAAATTGAGGGTATTTCGG
1 TAATTTTATAAATCAAGGGTATTTTGG
* * *
56745132 TAATTTCACAAACCAAGGGTATTTTGG
1 TAATTTTATAAATCAAGGGTATTTTGG
* *
56745159 TAATTTTACAAA-CTAGGGGTATTTTGG
1 TAATTTTATAAATC-AAGGGTATTTTGG
* * *
56745186 TAATTTTACAAACCAAGGGTATTTTAG
1 TAATTTTATAAATCAAGGGTATTTTGG
* * *** *
56745213 TAATTTTGTAAATCGAGGGTAAAATAG
1 TAATTTTATAAATCAAGGGTATTTTGG
* *
56745240 TAATTCTGTAAATCAAGGGTA
1 TAATTTTATAAATCAAGGGTA
56745261 AAACAATAAT
Statistics
Matches: 172, Mismatches: 33, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
26 4 0.02
27 137 0.80
28 16 0.09
29 15 0.09
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.39
Consensus pattern (27 bp):
TAATTTTATAAATCAAGGGTATTTTGG
Found at i:56745261 original size:27 final size:27
Alignment explanation
Indices: 56745211--56745368 Score: 192
Period size: 27 Copynumber: 5.9 Consensus size: 27
56745201 AGGGTATTTT
* *
56745211 AGTAATTTTGTAAATCGAGGGTAAAAT
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
56745238 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
56745265 AATAATTCTATAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
56745292 -GATACTTCTGTAAATCGAGGGTAAAAC
1 AG-TAATTCTGTAAATCGAGGGTAAAAC
* *
56745319 AGTAATTCTGTAAGTCGAGGGTAAAGC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
* * *
56745346 GGTAATTATGTAAATCGGGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
56745369 CTTTGGTAAT
Statistics
Matches: 113, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
27 112 0.99
28 1 0.01
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:56759386 original size:42 final size:42
Alignment explanation
Indices: 56759340--56759430 Score: 101
Period size: 42 Copynumber: 2.2 Consensus size: 42
56759330 ACACACGCAT
* * * * * *
56759340 ATGTCCTTACTCATATGGCTCACACGGGCTAGATACACCCCC
1 ATGTCCTTACCCATATGCCTCACACGGCCTAAACACACACCC
* * *
56759382 ATGTCCTTGCCCATGTGCCTCACATGGCCTAAACACACACCC
1 ATGTCCTTACCCATATGCCTCACACGGCCTAAACACACACCC
56759424 ATGTCCT
1 ATGTCCT
56759431 ATGCCAATGT
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.23, C:0.37, G:0.15, T:0.24
Consensus pattern (42 bp):
ATGTCCTTACCCATATGCCTCACACGGCCTAAACACACACCC
Found at i:56759550 original size:42 final size:42
Alignment explanation
Indices: 56759504--56759586 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
56759494 GCTTGTATGC
* *
56759504 CTCACACGGCTTGGACACATGCCAATGTCTTTGCCCATGTGT
1 CTCACACAGCTTGGACACATGCCAATGTCCTTGCCCATGTGT
* * * *
56759546 CTCACATAGCTTGGGCACATGCCCATGTCCTTGGCCATGTG
1 CTCACACAGCTTGGACACATGCCAATGTCCTTGCCCATGTG
56759587 GTCCTAAATA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.18, C:0.31, G:0.23, T:0.28
Consensus pattern (42 bp):
CTCACACAGCTTGGACACATGCCAATGTCCTTGCCCATGTGT
Found at i:56762073 original size:14 final size:15
Alignment explanation
Indices: 56762046--56762082 Score: 67
Period size: 14 Copynumber: 2.5 Consensus size: 15
56762036 TTAGGCGTAT
56762046 GTGACACACGGCCTG
1 GTGACACACGGCCTG
56762061 GTGACAC-CGGCCTG
1 GTGACACACGGCCTG
56762075 GTGACACA
1 GTGACACA
56762083 ATTGTGTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 14 0.67
15 7 0.33
ACGTcount: A:0.22, C:0.32, G:0.32, T:0.14
Consensus pattern (15 bp):
GTGACACACGGCCTG
Found at i:56762140 original size:62 final size:63
Alignment explanation
Indices: 56762068--56762199 Score: 167
Period size: 63 Copynumber: 2.1 Consensus size: 63
56762058 CTGGTGACAC
* * * * * *
56762068 CGGCCTGGTGACACAATTGTGTGTTCCCTATA-GTTCCATTGTATACAAGTCAGGTATTTAGA
1 CGGCCTGGTGACACAACTATGTGTCCCCTATAGGTTCCATTGCATACAAGTCAGGTAGTTACA
* * * *
56762130 CGGCCTGGTGACACAGCTATGTGTCCCCTATAGGTTCCGTTGCATACTAGTTAGGTAGTTACA
1 CGGCCTGGTGACACAACTATGTGTCCCCTATAGGTTCCATTGCATACAAGTCAGGTAGTTACA
56762193 CGGCCTG
1 CGGCCTG
56762200 CCACACGGGC
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
62 28 0.47
63 31 0.53
ACGTcount: A:0.21, C:0.23, G:0.25, T:0.31
Consensus pattern (63 bp):
CGGCCTGGTGACACAACTATGTGTCCCCTATAGGTTCCATTGCATACAAGTCAGGTAGTTACA
Found at i:56768649 original size:142 final size:142
Alignment explanation
Indices: 56768393--56768659 Score: 358
Period size: 142 Copynumber: 1.9 Consensus size: 142
56768383 GCGTGCTAAA
* * * * * *
56768393 GTAAGACCTGTTTGGGACATGGCATCGGCACCGATAGATGAGAGCCAATGTAAGACCTTTCTGGG
1 GTAAGACCTGTCTAGGACATGGCATCGACACAGATAAATGAGAGCCAATATAAGACCTTTCTGGG
* * *
56768458 ACACGGCATCAGCCTCAAGATATGCAAGCTAGTGTAAAACCTTTCTGGGACATGGCATCGGCTTG
66 ACACGGCATCAGCCTCAACATATGCAAGCTAGTATAAAACCTGTCTGGGACATGGCATCGGCTTG
56768523 AGGTGTGTTAGT
131 AGGTGTGTTAGT
* * *
56768535 GTAAGACCTGTCTAGGATATGGCATCGATACAGATAAATGAGAGCCAGTATAAGA-CTTGTCTGG
1 GTAAGACCTGTCTAGGACATGGCATCGACACAGATAAATGAGAGCCAATATAAGACCTT-TCTGG
* * * *
56768599 GACATGGCATC-GACCTCAACTTATGCAAGTTAGTATAAGACCTGTCTGGGACATGGCATCG
65 GACACGGCATCAG-CCTCAACATATGCAAGCTAGTATAAAACCTGTCTGGGACATGGCATCG
56768660 ACTTAGATAT
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
141 4 0.04
142 103 0.96
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (142 bp):
GTAAGACCTGTCTAGGACATGGCATCGACACAGATAAATGAGAGCCAATATAAGACCTTTCTGGG
ACACGGCATCAGCCTCAACATATGCAAGCTAGTATAAAACCTGTCTGGGACATGGCATCGGCTTG
AGGTGTGTTAGT
Found at i:56776154 original size:49 final size:48
Alignment explanation
Indices: 56776097--56776367 Score: 204
Period size: 49 Copynumber: 5.7 Consensus size: 48
56776087 GATGTGTGTA
* *
56776097 CTAGTGTAAGACCTGTCTGGGACACGACATCGGCCTCAAGATATGCAAG
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCAAGATATG-AAG
* * ** *
56776146 CTAGTGTAAGACCTGTCTGAGACATGGCAACGG-CTTGAGGTAT---G
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCAAGATATGAAG
* * * *
56776190 TTAGTGTAAGACCTGTCTAGGACATGGCATC-GACAC-AGATAAGTGAGAG
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCAAGAT-A-TGA-AG
* *
56776239 CTAGTGTAAGACCTGTCTGGGACATGGCATTGGCCTCGACG-TATGCAAG
1 CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTC-AAGATATG-AAG
* * * *
56776288 -TCAGTGTAAGACCTGTTTGGGACATGGCATC-GACT-TAGATGTGAGAG
1 CT-AGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCAAGATATGA-AG
* *
56776335 CCAGTGTAAGACCATGT-TTGGAGCATGGCATCG
1 CTAGTGTAAGACC-TGTCTGGGA-CATGGCATCG
56776368 AAATTGCACC
Statistics
Matches: 176, Mismatches: 28, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
43 4 0.02
44 30 0.17
45 1 0.01
46 2 0.01
47 20 0.11
48 23 0.13
49 89 0.51
50 5 0.03
51 1 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
CTAGTGTAAGACCTGTCTGGGACATGGCATCGGCCTCAAGATATGAAG
Found at i:56776257 original size:93 final size:92
Alignment explanation
Indices: 56776099--56776364 Score: 250
Period size: 93 Copynumber: 2.8 Consensus size: 92
56776089 TGTGTGTACT
* * * * * *
56776099 AGTGTAAGACCTGTCTGGGACACGACATCGGCCTCAAGATATGCA-AGCTAGTGTAAGACCTGTC
1 AGTGTAAGACCTGTCTAGGACATGGCATC-GACAC-AGATGTG-AGAGCTAGTGTAAGACCTGTC
* * *
56776163 TGAGACATGGCAACGG-CTTGAGGTAT-GTT
63 TG-GACATGGCAACGGCCTCGACGTATAGTC
56776192 AGTGTAAGACCTGTCTAGGACATGGCATCGACACAGATAAGTGAGAGCTAGTGTAAGACCTGTCT
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACACAGAT--GTGAGAGCTAGTGTAAGACCTGTCT
**
56776257 GGGACATGGCATTGGCCTCGACGTATGCAAGTC
64 -GGACATGGCAACGGCCTCGACGTAT---AGTC
* * ** * *
56776290 AGTGTAAGACCTGTTTGGGACATGGCATCGACTTAGATGTGAGAGCCAGTGTAAGACCATGTTTG
1 AGTGTAAGACCTGTCTAGGACATGGCATCGACACAGATGTGAGAGCTAGTGTAAGACC-TGTCTG
56776355 GAGCATGGCA
65 GA-CATGGCA
56776365 TCGAAATTGC
Statistics
Matches: 145, Mismatches: 17, Indels: 18
0.81 0.09 0.10
Matches are distributed among these distances:
91 4 0.03
92 4 0.03
93 59 0.41
94 9 0.06
96 22 0.15
97 11 0.08
98 36 0.25
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (92 bp):
AGTGTAAGACCTGTCTAGGACATGGCATCGACACAGATGTGAGAGCTAGTGTAAGACCTGTCTGG
ACATGGCAACGGCCTCGACGTATAGTC
Found at i:56778486 original size:27 final size:27
Alignment explanation
Indices: 56778445--56778617 Score: 229
Period size: 27 Copynumber: 6.4 Consensus size: 27
56778435 TGGTTAAGTT
56778445 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
**
56778472 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
56778499 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * *
56778526 ATAGAATTACCAAAATACCCTTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
56778553 GTAGAAATACCGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* ** *
56778580 GTAGAATTACCGAGATACCTTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
56778607 GTAAAATTACC
1 GTAGAATTACC
56778618 ATTTTGCCCC
Statistics
Matches: 125, Mismatches: 21, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 125 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:56779331 original size:31 final size:31
Alignment explanation
Indices: 56779264--56779333 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
56779254 CCTCGCTGCA
* * *
56779264 ATCTGGTGGCTTCGCCACATATATATATCTG
1 ATCTGGTGGCCTAGCCACATATATATATATG
*
56779295 TTCTGGTGGCCTAGCCACAATATATATATAT-
1 ATCTGGTGGCCTAGCCAC-ATATATATATATG
56779326 ATCTGGTG
1 ATCTGGTG
56779334 ACTTCATCAC
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
31 22 0.67
32 11 0.33
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (31 bp):
ATCTGGTGGCCTAGCCACATATATATATATG
Found at i:56783856 original size:30 final size:30
Alignment explanation
Indices: 56783822--56783878 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
56783812 TTGGTTGTTT
** *
56783822 GGTCACTTTTGCTCTTAACATTTTTTTTTG
1 GGTCACTTTCACTCCTAACATTTTTTTTTG
*
56783852 GGTCACTTTCACTCCTAACGTTTTTTT
1 GGTCACTTTCACTCCTAACATTTTTTT
56783879 GGTCAAATTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.14, C:0.21, G:0.12, T:0.53
Consensus pattern (30 bp):
GGTCACTTTCACTCCTAACATTTTTTTTTG
Found at i:56784037 original size:9 final size:9
Alignment explanation
Indices: 56784023--56784120 Score: 62
Period size: 9 Copynumber: 12.3 Consensus size: 9
56784013 GCAAAAGATT
56784023 TTAAAATTA
1 TTAAAATTA
56784032 TTAAAATTA
1 TTAAAATTA
56784041 TTAAAATTA
1 TTAAAATTA
56784050 TT----TT-
1 TTAAAATTA
56784054 TTAAAA-TA
1 TTAAAATTA
56784062 -TAAAATTAA
1 TTAAAATT-A
*
56784071 TTTAAATTA
1 TTAAAATTA
56784080 TT-AAATTA
1 TTAAAATTA
*
56784088 TT----TTT
1 TTAAAATTA
*
56784093 TTGAAA-TA
1 TTAAAATTA
56784101 -TAAAATTA
1 TTAAAATTA
56784109 TTAAAATTA
1 TTAAAATTA
56784118 TTA
1 TTA
56784121 TATTAAAATA
Statistics
Matches: 71, Mismatches: 4, Indels: 28
0.69 0.04 0.27
Matches are distributed among these distances:
4 2 0.03
5 6 0.08
7 10 0.14
8 12 0.17
9 35 0.49
10 6 0.08
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (9 bp):
TTAAAATTA
Found at i:56784080 original size:30 final size:31
Alignment explanation
Indices: 56784021--56784134 Score: 90
Period size: 39 Copynumber: 3.4 Consensus size: 31
56784011 GAGCAAAAGA
56784021 TTTTAAAATTATTAAAATTATTAAAATTATT
1 TTTTAAAATTATTAAAATTATTAAAATTATT
56784052 TTTTAAAATATAAAATTAATTTAAATTATT-AAATTATTT
1 TTTTAAAAT-T---ATT-A---AAATTATTAAAATTA-TT
*
56784091 TTTTGAAA-TA-TAAAATTATTAAAATTATT
1 TTTTAAAATTATTAAAATTATTAAAATTATT
*
56784120 ATATTAAAATATATT
1 -TTTTAAAAT-TATT
56784135 TTTAACATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 26
0.69 0.03 0.27
Matches are distributed among these distances:
29 10 0.15
30 12 0.18
31 9 0.14
32 4 0.06
33 2 0.03
34 1 0.02
35 3 0.05
36 1 0.02
37 1 0.02
38 6 0.09
39 17 0.26
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (31 bp):
TTTTAAAATTATTAAAATTATTAAAATTATT
Found at i:56784081 original size:39 final size:39
Alignment explanation
Indices: 56784024--56784120 Score: 153
Period size: 39 Copynumber: 2.5 Consensus size: 39
56784014 CAAAAGATTT
56784024 TAAAATTATTAAAATTATTAAAATTA-TTTTTTAAAATA
1 TAAAATTATTAAAATTATTAAAATTATTTTTTTAAAATA
* *
56784062 TAAAATTAATTTAAATTATT-AAATTATTTTTTTGAAATA
1 TAAAATT-ATTAAAATTATTAAAATTATTTTTTTAAAATA
56784101 TAAAATTATTAAAATTATTA
1 TAAAATTATTAAAATTATTA
56784121 TATTAAAATA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
38 24 0.45
39 29 0.55
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (39 bp):
TAAAATTATTAAAATTATTAAAATTATTTTTTTAAAATA
Found at i:56784086 original size:38 final size:38
Alignment explanation
Indices: 56784024--56784125 Score: 152
Period size: 38 Copynumber: 2.7 Consensus size: 38
56784014 CAAAAGATTT
56784024 TAAAATTATTAAAATTATTAAAATTA-TTTTTTAAAATA
1 TAAAATTATTAAAATTATT-AAATTATTTTTTTAAAATA
* *
56784062 TAAAATTAATTTAAATTATTAAATTATTTTTTTGAAATA
1 TAAAATT-ATTAAAATTATTAAATTATTTTTTTAAAATA
*
56784101 TAAAATTATTAAAATTATTATATTA
1 TAAAATTATTAAAATTATTAAATTA
56784126 AAATATATTT
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
38 29 0.50
39 29 0.50
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (38 bp):
TAAAATTATTAAAATTATTAAATTATTTTTTTAAAATA
Found at i:56784107 original size:21 final size:19
Alignment explanation
Indices: 56784042--56784110 Score: 70
Period size: 18 Copynumber: 3.5 Consensus size: 19
56784032 TTAAAATTAT
56784042 TAAAATTATTTTTTAAAATA
1 TAAAATTATTTTTT-AAATA
*
56784062 TAAAATTA--ATTTAAATTA
1 TAAAATTATTTTTTAAA-TA
*
56784080 TTAAATTATTTTTTTGAAATA
1 TAAAATTA-TTTTTT-AAATA
56784101 TAAAATTATT
1 TAAAATTATT
56784111 AAAATTATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
17 3 0.08
18 12 0.30
20 10 0.25
21 12 0.30
22 3 0.08
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (19 bp):
TAAAATTATTTTTTAAATA
Found at i:56786232 original size:26 final size:26
Alignment explanation
Indices: 56786203--56786310 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
56786193 TGGTACAAAT
56786203 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
56786229 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56786255 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56786281 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56786307 TGAT
1 TGAT
56786311 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56791355 original size:30 final size:30
Alignment explanation
Indices: 56791321--56791381 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56791311 TCCTTAACTC
56791321 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
56791351 AAACTTTTGAATATTTACACTTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
56791381 A
1 A
56791382 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:56794782 original size:26 final size:26
Alignment explanation
Indices: 56794753--56794860 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
56794743 TGGTACAAAT
*
56794753 TGATAATGGGTTCGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
56794779 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56794805 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
56794831 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
56794857 TGAT
1 TGAT
56794861 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.31, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:56797413 original size:40 final size:39
Alignment explanation
Indices: 56797376--56797551 Score: 196
Period size: 39 Copynumber: 4.5 Consensus size: 39
56797366 ATATCCGGAC
*
56797376 TAAGATCCGAAGGCATTTGTGCGAGATAC-AAGTTCCGGGT
1 TAAG-TCCGAAGGCATTTGTGCGAGATACTAA-ATCCGGGT
* *
56797416 TAAGCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* *
56797455 TAAGTCCCGAAGGCATTCGTGCGAG-TATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
* * * *
56797494 TAAGTCCCGAAGGCA-TTGTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
*
56797533 TATGTCCCGAAGGCATTTG
1 TAAGT-CCGAAGGCATTTG
56797552 AACGAGGAGC
Statistics
Matches: 119, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
38 7 0.06
39 86 0.72
40 26 0.22
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.25
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTTGTGCGAGATACTAAATCCGGGT
Found at i:56797465 original size:79 final size:78
Alignment explanation
Indices: 56797329--56797551 Score: 222
Period size: 78 Copynumber: 2.8 Consensus size: 78
56797319 TTGAATGCTG
* * * * * * *
56797329 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAAACCGGGCTAAG-TCCCGAAGGCAT
56797392 TTGTGCGAG-A-TACAA
63 TTGTGCGAGTATTA-AA
* * *
56797407 GTTCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCAT
1 --TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCAT
*
56797471 TCGTGCGAGTATTAAA
63 TTGTGCGAGTATTAAA
* * *
56797487 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
56797552 AACGAGGAGC
Statistics
Matches: 123, Mismatches: 14, Indels: 14
0.81 0.09 0.09
Matches are distributed among these distances:
78 50 0.41
79 47 0.38
80 23 0.19
81 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTATTAAA
Found at i:56797573 original size:78 final size:79
Alignment explanation
Indices: 56797409--56797584 Score: 205
Period size: 78 Copynumber: 2.3 Consensus size: 79
56797399 AGATACAAGT
* * *
56797409 TCCGGGTTAAG-CCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
56797473 GTGCGAGTATTAAA
66 GAACGAGGACTAAA
* * * *
56797487 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
56797551 GAACGAGGAGCTATA
66 GAACGAGGA-CTAAA
*
56797566 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56797585 TACGTGATTT
Statistics
Matches: 83, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
78 69 0.83
79 14 0.17
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGACTAAA
Found at i:56805038 original size:80 final size:78
Alignment explanation
Indices: 56804954--56805125 Score: 213
Period size: 79 Copynumber: 2.2 Consensus size: 78
56804944 GGACTAAGAT
*
56804954 CCGAAGGCATTTGTGCGAG-A-TACAAGTTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATAC
1 CCGAAGGCATTTGTGCGAGCATTA-AA--TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATAC
* *
56805017 TAAATCCGGGTTAAGTC
62 TAAAACCGGGCTAAGTC
* * * *
56805034 CCGAAGGCATTCGTGCGAGTCATTAAATCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAG-CATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
56805099 AACCGGGCTATGTC
65 AACCGGGCTAAGTC
56805113 CCGAAGGCATTTG
1 CCGAAGGCATTTG
56805126 AACGAGGAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 7
0.83 0.09 0.07
Matches are distributed among these distances:
79 38 0.47
80 37 0.46
82 3 0.04
83 2 0.03
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.24
Consensus pattern (78 bp):
CCGAAGGCATTTGTGCGAGCATTAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
ACCGGGCTAAGTC
Found at i:56805116 original size:39 final size:39
Alignment explanation
Indices: 56804901--56805123 Score: 207
Period size: 40 Copynumber: 5.6 Consensus size: 39
56804891 TTGAATGCTG
* * * * * *
56804901 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTACTAAA
** * *
56804941 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAGT
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGTTACTAA-A
* * *
56804981 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGTTACTAAA
* *
56805021 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
56805061 TCCGGGTTAAGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
* * *
56805100 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
56805124 TGAACGAGGA
Statistics
Matches: 152, Mismatches: 24, Indels: 15
0.80 0.13 0.08
Matches are distributed among these distances:
39 37 0.24
40 105 0.69
41 10 0.07
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:56805143 original size:79 final size:80
Alignment explanation
Indices: 56804981--56805158 Score: 200
Period size: 79 Copynumber: 2.2 Consensus size: 80
56804971 AGATACAAGT
* * * *
56804981 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** *
56805046 GTGCGAGTCATTAAA
66 GAACGAGTCACTAAA
* * * *
56805061 TCCGGGTTAAGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
* *
56805125 GAACGAG-GAGCTATA
66 GAACGAGTCA-CTAAA
*
56805140 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56805159 TACGTGATTT
Statistics
Matches: 83, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 16 0.19
79 48 0.58
80 19 0.23
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTCACTAAA
Found at i:56806668 original size:34 final size:35
Alignment explanation
Indices: 56806630--56806699 Score: 133
Period size: 34 Copynumber: 2.0 Consensus size: 35
56806620 ATACGTAGTT
56806630 CGTATTTGAATAGTTAGATTAATGT-TTAGTAATC
1 CGTATTTGAATAGTTAGATTAATGTGTTAGTAATC
56806664 CGTATTTGAATAGTTAGATTAATGTGTTAGTAATC
1 CGTATTTGAATAGTTAGATTAATGTGTTAGTAATC
56806699 C
1 C
56806700 AATTGTAGCA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
34 25 0.71
35 10 0.29
ACGTcount: A:0.31, C:0.07, G:0.19, T:0.43
Consensus pattern (35 bp):
CGTATTTGAATAGTTAGATTAATGTGTTAGTAATC
Found at i:56818229 original size:22 final size:21
Alignment explanation
Indices: 56818204--56818263 Score: 56
Period size: 19 Copynumber: 3.0 Consensus size: 21
56818194 TTTGAGTATT
56818204 GTGATTTATGCTTGAATGTTA
1 GTGATTTATGCTTGAATGTTA
* *
56818225 CGTGA-TTAT--ATGAGTGTT-
1 -GTGATTTATGCTTGAATGTTA
*
56818243 GTGATATATGCTTGAATGTTA
1 GTGATTTATGCTTGAATGTTA
56818264 TGTAATTATA
Statistics
Matches: 29, Mismatches: 5, Indels: 9
0.67 0.12 0.21
Matches are distributed among these distances:
17 4 0.14
18 3 0.10
19 7 0.24
20 7 0.24
21 4 0.14
22 4 0.14
ACGTcount: A:0.25, C:0.05, G:0.25, T:0.45
Consensus pattern (21 bp):
GTGATTTATGCTTGAATGTTA
Found at i:56818253 original size:39 final size:39
Alignment explanation
Indices: 56818196--56818333 Score: 204
Period size: 39 Copynumber: 3.5 Consensus size: 39
56818186 AACATATTTT
* *
56818196 TGAGTATTGTGATTTATGCTTGAATGTTACGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
56818235 TGAGTGTTGTGATATATGCTTGAATGTTATGTAATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
56818274 TGAGGATTGTGATATATGCTTAAATGTTATGTGATTATA
1 TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
* *
56818313 TGTGTAATGTGATATATGCTT
1 TGAGTATTGTGATATATGCTT
56818334 AAAAGTGAAT
Statistics
Matches: 88, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 88 1.00
ACGTcount: A:0.28, C:0.04, G:0.23, T:0.46
Consensus pattern (39 bp):
TGAGTATTGTGATATATGCTTGAATGTTATGTGATTATA
Found at i:56819949 original size:39 final size:39
Alignment explanation
Indices: 56819895--56819972 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
56819885 AATGTTTTTA
* * *
56819895 AGTATTGTGATATATGCTTG-AATGTTATGTGGTTATATG
1 AGTATCGTCATATATGC-TGAAATGTTATGTGATTATATG
56819934 AGTATCGTCATATATGCTGAAATGTTATGTGATTATATG
1 AGTATCGTCATATATGCTGAAATGTTATGTGATTATATG
56819973 TGTAATGTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
38 2 0.06
39 33 0.94
ACGTcount: A:0.28, C:0.05, G:0.23, T:0.44
Consensus pattern (39 bp):
AGTATCGTCATATATGCTGAAATGTTATGTGATTATATG
Found at i:56823738 original size:42 final size:42
Alignment explanation
Indices: 56823618--56823740 Score: 142
Period size: 42 Copynumber: 2.9 Consensus size: 42
56823608 ATCTCGTATC
* * **
56823618 GATGCCAATAGCCCATCA-ATGGTCTTACAAGAAGTCCCATA-T
1 GATGCC-ATATCCCAT-ATATGGTCTTACACGAAGTCTTATACT
* *
56823660 CGATGCCATATCCCAAATATGGTCTTACACAAAGTCTTATACT
1 -GATGCCATATCCCATATATGGTCTTACACGAAGTCTTATACT
*
56823703 GATGCCATATCCCATATATGGTCTTACACGTAGTCTTA
1 GATGCCATATCCCATATATGGTCTTACACGAAGTCTTA
56823741 GTAACCCTAA
Statistics
Matches: 69, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
41 1 0.01
42 61 0.88
43 7 0.10
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (42 bp):
GATGCCATATCCCATATATGGTCTTACACGAAGTCTTATACT
Found at i:56833081 original size:29 final size:30
Alignment explanation
Indices: 56833021--56833090 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
56833011 AATCTTTATT
56833021 AAATATAAA--ATACTATAAAAACTACTAA
1 AAATATAAATTATACTATAAAAACTACTAA
* *
56833049 AAATCAT-AATTATACTATATAAACT-CTGA
1 AAAT-ATAAATTATACTATAAAAACTACTAA
56833078 AAATATAAATTAT
1 AAATATAAATTAT
56833091 TATTAAATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 7
0.80 0.04 0.16
Matches are distributed among these distances:
28 8 0.22
29 15 0.42
30 13 0.36
ACGTcount: A:0.57, C:0.10, G:0.01, T:0.31
Consensus pattern (30 bp):
AAATATAAATTATACTATAAAAACTACTAA
Found at i:56835184 original size:43 final size:43
Alignment explanation
Indices: 56835131--56835394 Score: 465
Period size: 43 Copynumber: 6.1 Consensus size: 43
56835121 CCGGCATTAC
* *
56835131 GCCTGTTAGGCACGAAGGCCCGAATACACATCACCGACACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
56835174 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
56835217 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
*
56835260 GCCTGCTAGGCCCGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
56835303 GCTTGCTAGGCACGAAGGCCCAAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
56835346 GCCTGCTAGGCACGAAGGCCCGAATATACATCACCGGCATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
56835389 GCCTGC
1 GCCTGC
56835395 GGGATTTAAC
Statistics
Matches: 211, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 211 1.00
ACGTcount: A:0.30, C:0.34, G:0.25, T:0.11
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:56852590 original size:20 final size:18
Alignment explanation
Indices: 56852547--56852596 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
56852537 GTTCGTATGA
* *
56852547 TTATATATTGTTTTAATG
1 TTATATATTGATCTAATG
56852565 TTATATATTGATCTATATG
1 TTATATATTGATCTA-ATG
*
56852584 TTAATATGTTGAT
1 TT-ATATATTGAT
56852597 TGCTATATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 13 0.48
19 5 0.19
20 9 0.33
ACGTcount: A:0.30, C:0.02, G:0.12, T:0.56
Consensus pattern (18 bp):
TTATATATTGATCTAATG
Found at i:56854775 original size:13 final size:13
Alignment explanation
Indices: 56854757--56854782 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56854747 TACAGGGGAC
56854757 ACATGGCCATGTG
1 ACATGGCCATGTG
56854770 ACATGGCCATGTG
1 ACATGGCCATGTG
56854783 TCACACAAGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.31, T:0.23
Consensus pattern (13 bp):
ACATGGCCATGTG
Found at i:56854942 original size:20 final size:22
Alignment explanation
Indices: 56854905--56854948 Score: 74
Period size: 20 Copynumber: 2.1 Consensus size: 22
56854895 CCCTTAACCA
56854905 AAGCATATAAACATACCAATTC
1 AAGCATATAAACATACCAATTC
56854927 AAGCATA-AAACA-ACCAATTC
1 AAGCATATAAACATACCAATTC
56854947 AA
1 AA
56854949 TGAACTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 10 0.45
21 5 0.23
22 7 0.32
ACGTcount: A:0.55, C:0.23, G:0.05, T:0.18
Consensus pattern (22 bp):
AAGCATATAAACATACCAATTC
Found at i:56855620 original size:13 final size:13
Alignment explanation
Indices: 56855604--56855629 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56855594 ATTTTTCTCT
56855604 TATAAGCATTTCA
1 TATAAGCATTTCA
56855617 TATAAGCATTTCA
1 TATAAGCATTTCA
56855630 CTCAAATGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.08, T:0.38
Consensus pattern (13 bp):
TATAAGCATTTCA
Found at i:56862573 original size:42 final size:41
Alignment explanation
Indices: 56862516--56862728 Score: 252
Period size: 42 Copynumber: 5.1 Consensus size: 41
56862506 AAGAGCACAA
56862516 TCACTTAAGCTCACATAGGGAGCTTCG-TCGATACATAGCTTG
1 TCACTTAAGCTCACAT-GGGAGCTTCGCT-GATACATAGCTTG
* * * *
56862558 TCACCTAAGGTCACATGGGGAGCTTCGCTGATACACAACTTG
1 TCACTTAAGCTCACAT-GGGAGCTTCGCTGATACATAGCTTG
* * *
56862600 TCACTTAAGCTCACGAGGGGAGCTTCACTGATACATAGCTTA
1 TCACTTAAGCTCAC-ATGGGAGCTTCGCTGATACATAGCTTG
* *
56862642 TCACTTAAGCTCACATGGAGAGCTTTGCTGATATGCA-A-CTTA
1 TCACTTAAGCTCACATGG-GAGCTTCGCTGATA--CATAGCTTG
56862684 TCACTTAAGCTCACATGGAGAGCTTCGCTGATACATAGCTTG
1 TCACTTAAGCTCACATGG-GAGCTTCGCTGATACATAGCTTG
56862726 TCA
1 TCA
56862729 AATCATTTCT
Statistics
Matches: 147, Mismatches: 17, Indels: 14
0.83 0.10 0.08
Matches are distributed among these distances:
40 2 0.01
41 4 0.03
42 136 0.93
43 3 0.02
44 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (41 bp):
TCACTTAAGCTCACATGGGAGCTTCGCTGATACATAGCTTG
Found at i:56862609 original size:84 final size:83
Alignment explanation
Indices: 56862515--56862728 Score: 295
Period size: 84 Copynumber: 2.5 Consensus size: 83
56862505 GAAGAGCACA
* *
56862515 ATCACTTAAGCTCACATAGGGAGCTTCG-TCGATACATAGCTTGTCACCTAAGGTCACATGGGGA
1 ATCACTTAAGCTCACAT-GGGAGCTTCGCT-GATACATAGCTTGTCACCTAAGCTCACATGGAGA
56862579 GCTTCGCTGATACACAACTT
64 GCTTCGCTGATACACAACTT
* * * * *
56862599 GTCACTTAAGCTCACGAGGGGAGCTTCACTGATACATAGCTTATCACTTAAGCTCACATGGAGAG
1 ATCACTTAAGCTCAC-ATGGGAGCTTCGCTGATACATAGCTTGTCACCTAAGCTCACATGGAGAG
* **
56862664 CTTTGCTGATATGCAACTT
65 CTTCGCTGATACACAACTT
56862683 ATCACTTAAGCTCACATGGAGAGCTTCGCTGATACATAGCTTGTCA
1 ATCACTTAAGCTCACATGG-GAGCTTCGCTGATACATAGCTTGTCA
56862729 AATCATTTCT
Statistics
Matches: 113, Mismatches: 14, Indels: 6
0.85 0.11 0.05
Matches are distributed among these distances:
83 3 0.03
84 108 0.96
85 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.28
Consensus pattern (83 bp):
ATCACTTAAGCTCACATGGGAGCTTCGCTGATACATAGCTTGTCACCTAAGCTCACATGGAGAGC
TTCGCTGATACACAACTT
Found at i:56867606 original size:46 final size:46
Alignment explanation
Indices: 56867555--56867724 Score: 193
Period size: 46 Copynumber: 3.7 Consensus size: 46
56867545 GATGGTTGAT
*
56867555 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAAA
* * *
56867601 TATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTA
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAA--A
* *
56867646 GGCATCCGAACTCGTTGAGTAGAGTCCGAGTTCACTGATGGATGCGAA
1 --CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAAA
** * *
56867694 CGCCCGAGCTCATTGAGTTGAGTCCGAGTTC
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTC
56867725 GCTTATGGGC
Statistics
Matches: 103, Mismatches: 14, Indels: 14
0.79 0.11 0.11
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 56 0.54
47 29 0.28
48 4 0.04
50 5 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.27
Consensus pattern (46 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTGATGGATGCAAA
Found at i:56867714 original size:93 final size:93
Alignment explanation
Indices: 56867555--56867725 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
56867545 GATGGTTGAT
* * * * *
56867555 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATATCCGAACTCGTTGAGTT
1 CATCCGAACTCGTTGAGTAGAGTCCGAGTTCACTGATGGATGCAAACACCCGAACTCATTGAGTT
56867620 GAGTCCGAGTTCGTGAGATGTAACTAGG
66 GAGTCCGAGTTCGTGAGATGTAACTAGG
* * *
56867648 CATCCGAACTCGTTGAGTAGAGTCCGAGTTCACTGATGGATGCGAACGCCCGAGCTCATTGAGTT
1 CATCCGAACTCGTTGAGTAGAGTCCGAGTTCACTGATGGATGCAAACACCCGAACTCATTGAGTT
56867713 GAGTCCGAGTTCG
66 GAGTCCGAGTTCG
56867726 CTTATGGGCG
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTAGAGTCCGAGTTCACTGATGGATGCAAACACCCGAACTCATTGAGTT
GAGTCCGAGTTCGTGAGATGTAACTAGG
Found at i:56880291 original size:75 final size:75
Alignment explanation
Indices: 56880202--56880351 Score: 264
Period size: 75 Copynumber: 2.0 Consensus size: 75
56880192 GTAAAATTAG
** *
56880202 TGAATTTTGGAAAATCCTTAGTTGGGGGAAGCTAAGGTAGTGGAGTAGGCAATTGGGACTGAGCC
1 TGAATTTTGGAAAATCCTTAGTTGGGCAAAGCTAAGGCAGTGGAGTAGGCAATTGGGACTGAGCC
56880267 AATCTAAATT
66 AATCTAAATT
56880277 TGAATTTTGGAAAATCCTTAGTTGGGCAAAGCTAAGGCAGTGGAGTAGGCAATTGGGACTGAGCC
1 TGAATTTTGGAAAATCCTTAGTTGGGCAAAGCTAAGGCAGTGGAGTAGGCAATTGGGACTGAGCC
*
56880342 ACTCTAAATT
66 AATCTAAATT
56880352 CTTGTGTTCC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.31, C:0.13, G:0.29, T:0.27
Consensus pattern (75 bp):
TGAATTTTGGAAAATCCTTAGTTGGGCAAAGCTAAGGCAGTGGAGTAGGCAATTGGGACTGAGCC
AATCTAAATT
Found at i:56886503 original size:136 final size:138
Alignment explanation
Indices: 56886286--56886548 Score: 377
Period size: 136 Copynumber: 1.9 Consensus size: 138
56886276 AGAGAACATA
* * * * *
56886286 AATAAAATTAATATATGAATTCCTTTCATACAAAATATTATTTGTATATATTTTACCAGATTTAT
1 AATAAAATGAATATATGAATTCCATTAATACAAAATATTATATGTATATATTTTACCAAATTTAT
* * * * *
56886351 TAATATTAATAGTTATATTAATTAATGTCGGTAAAAATATAAATGACATGGAAATTAATATTCTT
66 TAATATAAACAATTATATTAATTAATGTCGGTAAAAATATAAAAGACATGGAAAATAATATTCTT
56886416 TTGTAAAG
131 TTGTAAAG
* **
56886424 AATATAATGAATATATGAATTTGATTAATACAAAATATTA-AT-TATATATTTTACCAAATTTAT
1 AATAAAATGAATATATGAATTCCATTAATACAAAATATTATATGTATATATTTTACCAAATTTAT
* *
56886487 TAATATAAACAATTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAAATAATATT
66 TAATATAAACAATTATATTAATTAATGTCGGTAAAAATATAAAAGACATGGAAAATAATATT
56886549 AATTTTATAT
Statistics
Matches: 110, Mismatches: 15, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
136 75 0.68
137 1 0.01
138 34 0.31
ACGTcount: A:0.46, C:0.06, G:0.08, T:0.40
Consensus pattern (138 bp):
AATAAAATGAATATATGAATTCCATTAATACAAAATATTATATGTATATATTTTACCAAATTTAT
TAATATAAACAATTATATTAATTAATGTCGGTAAAAATATAAAAGACATGGAAAATAATATTCTT
TTGTAAAG
Found at i:56886572 original size:88 final size:86
Alignment explanation
Indices: 56886457--56886636 Score: 261
Period size: 88 Copynumber: 2.1 Consensus size: 86
56886447 ATTAATACAA
*
56886457 AATATTAATTATATATTTTACCAAATTTATTAATATAAACAATTATATTAATTAATTTCGGTCAA
1 AATATTAATTATATATTTTACCAAATTTATTAATATAAACAATTATATTAATTAATTTCAGTCAA
*
56886522 AATATAAAAGACATGGAAAAT
66 AATATAAAAGACATAGAAAAT
* * * * *
56886543 AATATTAATTTTATATATTTTATCGAATTTATTAATATAAACAGTTATATTAATTAGTTTTAGTC
1 AATATTAA--TTATATATTTTACCAAATTTATTAATATAAACAATTATATTAATTAATTTCAGTC
* *
56886608 AAAATATACAAGACATAGAAATT
64 AAAATATAAAAGACATAGAAAAT
56886631 AATATT
1 AATATT
56886637 CTTTTGGAAA
Statistics
Matches: 83, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
86 8 0.10
88 75 0.90
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.41
Consensus pattern (86 bp):
AATATTAATTATATATTTTACCAAATTTATTAATATAAACAATTATATTAATTAATTTCAGTCAA
AATATAAAAGACATAGAAAAT
Found at i:56887562 original size:37 final size:37
Alignment explanation
Indices: 56887512--56887619 Score: 162
Period size: 37 Copynumber: 2.9 Consensus size: 37
56887502 ACCTTTAGCT
* * *
56887512 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
56887549 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* * *
56887586 CGAACATACTCTCCACACGTAGTCATCGGGTCTT
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTT
56887620 TAGAGCTCGG
Statistics
Matches: 65, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.23
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:56887816 original size:47 final size:47
Alignment explanation
Indices: 56887738--56888506 Score: 1322
Period size: 47 Copynumber: 16.3 Consensus size: 47
56887728 CCCTTCGGGA
* * * * * *
56887738 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56887785 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56887832 CTTATCACATATATACACTTTCACATTCATCACATCTGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56887879 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56887926 CTTATCACATATATACACTTTCACATTCATCATATCGGCCGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56887973 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56888020 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56888067 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56888114 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56888161 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56888208 CTTATCACATATATACACTTTCACATTCATCATATCGGCCGTTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56888255 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56888302 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56888349 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56888396 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56888443 CTTATCACATATATATACACTTTCACATTAATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56888492 CTTATCACATATATA
1 CTTATCACATATATA
56888507 TATCCACATA
Statistics
Matches: 685, Mismatches: 35, Indels: 4
0.95 0.05 0.01
Matches are distributed among these distances:
47 641 0.94
49 44 0.06
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56888583 original size:48 final size:48
Alignment explanation
Indices: 56888510--56888812 Score: 480
Period size: 48 Copynumber: 6.3 Consensus size: 48
56888500 ATATATATAT
* *
56888510 CCACATATACATATCTCATACATATTTCACATTCGCCATTCGGCTTTA
1 CCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTA
** *
56888558 CCACATATACATATAACACATATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTA
56888606 CCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTA
1 CCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTA
56888654 CACACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTA
1 C-CACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTA
* * *
56888703 CCACATATACATATCTCATACATATTTCACATTCGCCATTCGGCTTCA
1 CCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTA
* * *
56888751 CCACATATACATATCACACATATATTTCACATTAGCCATTCGGCTTCA
1 CCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTA
* *
56888799 CCACACATATATAT
1 CCACATATACATAT
56888813 ATTTATCTTG
Statistics
Matches: 237, Mismatches: 17, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
48 189 0.80
49 48 0.20
ACGTcount: A:0.32, C:0.27, G:0.06, T:0.34
Consensus pattern (48 bp):
CCACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTA
Found at i:56888705 original size:145 final size:146
Alignment explanation
Indices: 56888511--56888814 Score: 493
Period size: 145 Copynumber: 2.1 Consensus size: 146
56888501 TATATATATC
*
56888511 CACATATACATATCTCATACATATTTCACATTCGCCATTCGGCTTTACCACATATACATATAACA
1 CACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATAACA
* * * *
56888576 CATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATATTTCACATTAG
66 CACATATTTCACATTAGCCATTCGGCTTCACCACATATACATATCACACATATATTTCACATTAG
*
56888641 CCATTCGGCTTTA-CA
131 CCATTCGGCTTCACCA
* **
56888656 CACATATACATATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 CACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATAACA
* *
56888721 TACATATTTCACATTCGCCATTCGGCTTCACCACATATACATATCACACATATATTTCACATTAG
66 CACATATTTCACATTAGCCATTCGGCTTCACCACATATACATATCACACATATATTTCACATTAG
56888786 CCATTCGGCTTCACCA
131 CCATTCGGCTTCACCA
*
56888802 CACATATATATAT
1 CACATATACATAT
56888815 TTATCTTGGA
Statistics
Matches: 146, Mismatches: 12, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
145 132 0.90
146 14 0.10
ACGTcount: A:0.33, C:0.27, G:0.06, T:0.35
Consensus pattern (146 bp):
CACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATAACA
CACATATTTCACATTAGCCATTCGGCTTCACCACATATACATATCACACATATATTTCACATTAG
CCATTCGGCTTCACCA
Found at i:56894512 original size:39 final size:39
Alignment explanation
Indices: 56894476--56894726 Score: 259
Period size: 39 Copynumber: 6.4 Consensus size: 39
56894466 TTATCAGGAT
* * * **
56894476 TACCAAAGTACAATAAGGGCATGTAAGTGTGTTCAGGGG
1 TACCAAAGTACAACAGGGGCACGTAAGTGCATTCAGGGG
* *
56894515 TACCGAAGTACAACAGGGGCACATAAGTGCATTCAGGGG
1 TACCAAAGTACAACAGGGGCACGTAAGTGCATTCAGGGG
* *
56894554 TACCGAAGTACAATAGGGGCACGTAAGTGCATTCAGGGG
1 TACCAAAGTACAACAGGGGCACGTAAGTGCATTCAGGGG
* * *
56894593 TACCAAAATACAACACGGGCATGTAAGTGCATTCAGGGG
1 TACCAAAGTACAACAGGGGCACGTAAGTGCATTCAGGGG
* * ** **
56894632 TACCGAAGCACAATTGGGGCACGTAAGTTTATTCAGGGG
1 TACCAAAGTACAACAGGGGCACGTAAGTGCATTCAGGGG
* * * * * *
56894671 TATCGAAGTATAATAAGGGCACGTATGTGCATTCAGGGG
1 TACCAAAGTACAACAGGGGCACGTAAGTGCATTCAGGGG
* * *
56894710 TATCGAAGTGCAACAGG
1 TACCAAAGTACAACAGG
56894727 TTTCTACTAA
Statistics
Matches: 177, Mismatches: 35, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 177 1.00
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.20
Consensus pattern (39 bp):
TACCAAAGTACAACAGGGGCACGTAAGTGCATTCAGGGG
Found at i:56894531 original size:19 final size:19
Alignment explanation
Indices: 56894509--56894572 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
56894499 TAAGTGTGTT
56894509 CAGGGGTACCGAAGTACAA
1 CAGGGGTACCGAAGTACAA
* ** * *
56894528 CAGGGGCACATAAGTGCATT
1 CAGGGGTACCGAAGTACA-A
56894548 CAGGGGTACCGAAGTACAA
1 CAGGGGTACCGAAGTACAA
*
56894567 TAGGGG
1 CAGGGG
56894573 CACGTAAGTG
Statistics
Matches: 33, Mismatches: 11, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
19 19 0.58
20 14 0.42
ACGTcount: A:0.33, C:0.19, G:0.34, T:0.14
Consensus pattern (19 bp):
CAGGGGTACCGAAGTACAA
Found at i:56894553 original size:20 final size:20
Alignment explanation
Indices: 56894528--56894592 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 20
56894518 CGAAGTACAA
56894528 CAGGGGCACATAAGTGCATT
1 CAGGGGCACATAAGTGCATT
* ** * *
56894548 CAGGGGTACCGAAGTACAAT
1 CAGGGGCACATAAGTGCATT
*
56894568 -AGGGGCACGTAAGTGCATT
1 CAGGGGCACATAAGTGCATT
56894587 CAGGGG
1 CAGGGG
56894593 TACCAAAATA
Statistics
Matches: 34, Mismatches: 10, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
19 14 0.41
20 20 0.59
ACGTcount: A:0.29, C:0.18, G:0.35, T:0.17
Consensus pattern (20 bp):
CAGGGGCACATAAGTGCATT
Found at i:56894581 original size:19 final size:19
Alignment explanation
Indices: 56894520--56894581 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
56894510 AGGGGTACCG
* *
56894520 AAGTACAACAGGGGCACAT
1 AAGTACAATAGGGGCACGT
* * *
56894539 AAGTGCATTCAGGGGTACCG-
1 AAGTACAAT-AGGGGCA-CGT
56894559 AAGTACAATAGGGGCACGT
1 AAGTACAATAGGGGCACGT
56894578 AAGT
1 AAGT
56894582 GCATTCAGGG
Statistics
Matches: 32, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
18 2 0.06
19 16 0.50
20 13 0.41
21 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.31, T:0.16
Consensus pattern (19 bp):
AAGTACAATAGGGGCACGT
Found at i:56894589 original size:78 final size:78
Alignment explanation
Indices: 56894476--56894718 Score: 315
Period size: 78 Copynumber: 3.1 Consensus size: 78
56894466 TTATCAGGAT
* * * * * *
56894476 TACCAAAGTACAATAAGGGCATGTAAGTGTGTTCAGGGGTACCGAAGTACAACAGGGGCACATAA
1 TACCGAAGTACAATAGGGGCACGTAAGTGTATTCAGGGGTACCGAAGTACAACAAGGGCACGTAA
56894541 GTGCATTCAGGGG
66 GTGCATTCAGGGG
* * * * *
56894554 TACCGAAGTACAATAGGGGCACGTAAGTGCATTCAGGGGTACCAAAATACAACACGGGCATGTAA
1 TACCGAAGTACAATAGGGGCACGTAAGTGTATTCAGGGGTACCGAAGTACAACAAGGGCACGTAA
56894619 GTGCATTCAGGGG
66 GTGCATTCAGGGG
* * * * * * *
56894632 TACCGAAGCACAATTGGGGCACGTAAGTTTATTCAGGGGTATCGAAGTATAATAAGGGCACGTAT
1 TACCGAAGTACAATAGGGGCACGTAAGTGTATTCAGGGGTACCGAAGTACAACAAGGGCACGTAA
56894697 GTGCATTCAGGGG
66 GTGCATTCAGGGG
*
56894710 TATCGAAGT
1 TACCGAAGT
56894719 GCAACAGGTT
Statistics
Matches: 141, Mismatches: 24, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
78 141 1.00
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (78 bp):
TACCGAAGTACAATAGGGGCACGTAAGTGTATTCAGGGGTACCGAAGTACAACAAGGGCACGTAA
GTGCATTCAGGGG
Found at i:56894724 original size:117 final size:117
Alignment explanation
Indices: 56894476--56894711 Score: 337
Period size: 117 Copynumber: 2.0 Consensus size: 117
56894466 TTATCAGGAT
* * * ** *
56894476 TACCAAAGTACAATAAGGGCATGTAAGTGTGTTCAGGGGTACCGAAGTACAACAGGGGCACATAA
1 TACCAAAATACAACACGGGCATGTAAGTGCATTCAGGGGTACCGAAGCACAACAGGGGCACATAA
*
56894541 GTGCATTCAGGGGTACCGAAGTACAATAGGGGCACGTAAGTGCATTCAGGGG
66 GTGCATTCAGGGGTACCGAAGTACAATAAGGGCACGTAAGTGCATTCAGGGG
** *
56894593 TACCAAAATACAACACGGGCATGTAAGTGCATTCAGGGGTACCGAAGCACAATTGGGGCACGTAA
1 TACCAAAATACAACACGGGCATGTAAGTGCATTCAGGGGTACCGAAGCACAACAGGGGCACATAA
** * * *
56894658 GTTTATTCAGGGGTATCGAAGTATAATAAGGGCACGTATGTGCATTCAGGGG
66 GTGCATTCAGGGGTACCGAAGTACAATAAGGGCACGTAAGTGCATTCAGGGG
56894710 TA
1 TA
56894712 TCGAAGTGCA
Statistics
Matches: 104, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
117 104 1.00
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (117 bp):
TACCAAAATACAACACGGGCATGTAAGTGCATTCAGGGGTACCGAAGCACAACAGGGGCACATAA
GTGCATTCAGGGGTACCGAAGTACAATAAGGGCACGTAAGTGCATTCAGGGG
Found at i:56898663 original size:29 final size:29
Alignment explanation
Indices: 56898624--56898702 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
56898614 CTTAATAATC
*
56898624 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
56898654 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
56898683 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
56898703 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:56910407 original size:91 final size:95
Alignment explanation
Indices: 56910292--56910511 Score: 238
Period size: 91 Copynumber: 2.3 Consensus size: 95
56910282 CATGTCGAGG
* * * ** * * *
56910292 TGCCATGTCCTAAATATGGTCTTACACTAGCTCTCGTCTCA-ATGTTTAGGCCATG-T-CCAACA
1 TGCCACGTCCCAAATATGGTCTTACACTAGCTCTCATAACATA-GCTAAGGCCATGTTGCAAACA
56910354 TGGTCTTACACTGGC-T-CACAATCAACGCCGA
65 TGGTCTTACACTGGCATACA-AATCAA-GCCGA
* *
56910385 TGCCACGT-CC-AATATGGTCTTACACTGGCTCTCATAACATAGCTAATGCCATGTTGCAAACAT
1 TGCCACGTCCCAAATATGGTCTTACACTAGCTCTCATAACATAGCTAAGGCCATGTTGCAAACAT
**
56910448 GGTCTTACACTGGCATACGAAATGTAGCCGA
66 GGTCTTACACTGGCATAC-AAATCAAGCCGA
*
56910479 TGCCATGTCCCAAATATGGTCTTACACTAGCTC
1 TGCCACGTCCCAAATATGGTCTTACACTAGCTC
56910512 ACATGTCACC
Statistics
Matches: 105, Mismatches: 14, Indels: 13
0.80 0.11 0.10
Matches are distributed among these distances:
91 34 0.32
92 3 0.03
93 27 0.26
94 13 0.12
95 7 0.07
96 21 0.20
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (95 bp):
TGCCACGTCCCAAATATGGTCTTACACTAGCTCTCATAACATAGCTAAGGCCATGTTGCAAACAT
GGTCTTACACTGGCATACAAATCAAGCCGA
Found at i:56915493 original size:30 final size:29
Alignment explanation
Indices: 56915450--56915513 Score: 110
Period size: 30 Copynumber: 2.2 Consensus size: 29
56915440 CAAGTAGCCG
*
56915450 AAGCTAGTTAAATCGCACACTTAGTGCTA
1 AAGCTAGTTAAATCGCACACTTAGTGCCA
56915479 AAGCTAGTTTAAATCGCACACTTAGTGCCA
1 AAGCTAG-TTAAATCGCACACTTAGTGCCA
56915509 AAGCT
1 AAGCT
56915514 TCCAATTCAT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.21
30 26 0.79
ACGTcount: A:0.34, C:0.22, G:0.17, T:0.27
Consensus pattern (29 bp):
AAGCTAGTTAAATCGCACACTTAGTGCCA
Found at i:56921516 original size:20 final size:20
Alignment explanation
Indices: 56921480--56921519 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
56921470 AAACTGAACC
*
56921480 TAACCAAAATTTTCAAAACT
1 TAACCAAAATTTCCAAAACT
56921500 TAACC-AAATCTTCCAAAACT
1 TAACCAAAAT-TTCCAAAACT
56921520 GTTAAAGTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (20 bp):
TAACCAAAATTTCCAAAACT
Found at i:56929529 original size:48 final size:47
Alignment explanation
Indices: 56929485--56929705 Score: 252
Period size: 48 Copynumber: 4.7 Consensus size: 47
56929475 CTCATATCGG
* *
56929485 TGCCTATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAT
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCACACATATCAA
* * *
56929533 TGCTGATGCCATGTCCTAGACATGGTCTTACACTGGCACACATATTAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACT-GCACACATATCAA
* * *
56929581 AGTCGATGCCATGTCCCAGACATGGTCTTACACTGACACATATATCAA
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTG-CACACATATCAA
** * *
56929629 CACCGATGCCATGTCCTAGACATGGTCTTACACTGC-CTC-TCATC--
1 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGCACACAT-ATCAA
*
56929673 TCGCCGATGCCATGTCCTAGACATGGTCTTACA
1 T-GCCGATGCCATGTCCCAGACATGGTCTTACA
56929706 TGGGATCTTA
Statistics
Matches: 150, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
45 31 0.21
46 4 0.03
47 2 0.01
48 113 0.75
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACATGGTCTTACACTGCACACATATCAA
Found at i:56929593 original size:96 final size:93
Alignment explanation
Indices: 56929490--56929705 Score: 281
Period size: 96 Copynumber: 2.3 Consensus size: 93
56929480 ATCGGTGCCT
*** *
56929490 ATGCCATGTCCCAGACATGGTCTTACACT-AGCACACATATCATTGCTGATGCCATGTCCTAGAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CACACATATCAACACCGATGCCATGTCCTAGAC
* * *
56929554 ATGGTCTTACACTGGCACACATATTAAAGTCG
65 ATGGTCTTACACTGCCACACAT-CT--AGCCG
*
56929586 ATGCCATGTCCCAGACATGGTCTTACACTGACACATATATCAACACCGATGCCATGTCCTAGACA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACACATATCAACACCGATGCCATGTCCTAGACA
* * *
56929651 TGGTCTTACACTGCCTCTCATCTCGCCG
66 TGGTCTTACACTGCCACACATCTAGCCG
*
56929679 ATGCCATGTCCTAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
56929706 TGGGATCTTA
Statistics
Matches: 107, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
93 29 0.27
95 1 0.01
96 76 0.71
97 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.17, T:0.27
Consensus pattern (93 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACACATATCAACACCGATGCCATGTCCTAGACA
TGGTCTTACACTGCCACACATCTAGCCG
Found at i:56931629 original size:30 final size:30
Alignment explanation
Indices: 56931560--56931616 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
56931550 GTGTGTGTCT
56931560 AGCCGTGTGTGACACATAGTCAGGTTACAC
1 AGCCGTGTGTGACACATAGTCAGGTTACAC
* *
56931590 AGCCATGTGTGACACATGGTCAGGTTA
1 AGCCGTGTGTGACACATAGTCAGGTTA
56931617 GACTGTCGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (30 bp):
AGCCGTGTGTGACACATAGTCAGGTTACAC
Found at i:56938173 original size:48 final size:48
Alignment explanation
Indices: 56938117--56938262 Score: 211
Period size: 48 Copynumber: 3.0 Consensus size: 48
56938107 CACGATGTCT
* * * * * *
56938117 CATATCGATGCAAATGTCATATCCCAAATATGGTCTTACATGGGATCA
1 CATATCGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCA
* *
56938165 CATGTCGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCT
1 CATATCGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCA
*
56938213 CATAACGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCA
1 CATATCGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCA
56938261 CA
1 CA
56938263 CATAACCTTA
Statistics
Matches: 87, Mismatches: 11, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (48 bp):
CATATCGATGCCAATGCCATGTCCTAGACATGGTCTTACATGGGATCA
Found at i:56941066 original size:40 final size:40
Alignment explanation
Indices: 56940989--56941205 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
56940979 AAACCAAGTA
* *
56940989 CCTTCGGGATTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
56941028 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56941068 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56941108 CCTTCGGGACTTAG-CCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
56941147 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
56941187 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56941206 TTATCATCCG
Statistics
Matches: 166, Mismatches: 8, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
39 53 0.32
40 113 0.68
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56941139 original size:79 final size:78
Alignment explanation
Indices: 56940989--56941202 Score: 324
Period size: 79 Copynumber: 2.7 Consensus size: 78
56940979 AAACCAAGTA
* * *
56940989 CCTTCGGGATTTAG-CCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAG
1 CCTTCGGGACTTAGCCCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAG-CCGGATATAG
56941053 TAACTCGCACAAATG
64 TAACTCGCACAAATG
56941068 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCGGATATAGT
1 CCTTCGGGACTTAGCCCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCGGATATAGT
56941133 AACTCGCACAAATG
65 AACTCGCACAAATG
* *
56941147 CCTTCGGGGCTTAGCCCGGA-ATTAGTCACTAGCACAAATGCCTTCGGGACTTAGCC
1 CCTTCGGGACTTAGCCCGGATA-TAGT-ACTCGCACAAATGCCTTCGGGACTTAGCC
56941203 CGGTTATCAT
Statistics
Matches: 126, Mismatches: 6, Indels: 6
0.91 0.04 0.04
Matches are distributed among these distances:
78 1 0.01
79 89 0.71
80 36 0.29
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (78 bp):
CCTTCGGGACTTAGCCCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCGGATATAGTA
ACTCGCACAAATG
Found at i:56941200 original size:119 final size:119
Alignment explanation
Indices: 56940989--56941205 Score: 348
Period size: 119 Copynumber: 1.8 Consensus size: 119
56940979 AAACCAAGTA
* * *
56940989 CCTTCGGGATTTAGCCGGATATAGCTACTCGCTCAAATGCCTTCGGGACTTAGCCCGGTTATAGT
1 CCTTCGGGACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
*
56941054 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
66 AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
56941108 CCTTCGGGACTTAGCCGGATATAG-TAACTCGCACAAATGCCTTCGGGGCTTAGCCCGGA-ATTA
1 CCTTCGGGACTTAGCCGGATATAGCT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATA-TA
*
56941171 GTCACTAGCACAAATGCCTTCGGGACTTAGCCCGG
64 GTAACTAGCACAAATGCCTTCGGGACTTAGCCCGG
56941206 TTATCATCCG
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
118 2 0.02
119 88 0.98
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (119 bp):
CCTTCGGGACTTAGCCGGATATAGCTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGT
AACTAGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56949359 original size:40 final size:40
Alignment explanation
Indices: 56949283--56949498 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
56949273 AAACCAAGTA
* *
56949283 CCTTCGGGATTTAG-CC-GATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
*
56949321 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56949361 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
56949401 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
56949441 CCTTCGGG-CTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
56949480 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
56949499 TTATCATCCG
Statistics
Matches: 167, Mismatches: 6, Indels: 8
0.92 0.03 0.04
Matches are distributed among these distances:
38 14 0.08
39 38 0.23
40 115 0.69
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:56951519 original size:44 final size:41
Alignment explanation
Indices: 56951449--56951613 Score: 132
Period size: 43 Copynumber: 3.9 Consensus size: 41
56951439 TTCCAATATG
** *
56951449 TGATTTCGTGTAAGACCACATTTGGGACATTGGCATCGATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATT
* * * *
56951490 TGAGATTTACGTGTAAGGCTATGTCTGGGACATCGGCATCACATT
1 T--GATTT-CGTGTAAGACCATGTCTGGGACATTGGCATC-GATT
* * *
56951535 TGATTTCGTGTGAGACCCTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCG--ATT
* * * * **
56951578 TGAGTACATGTAAGACCACGTCTGGGATGTTGGCAT
1 TGATTTCGTGTAAGACCATGTCTGGGACATTGGCAT
56951614 TATACGAGCT
Statistics
Matches: 95, Mismatches: 23, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
41 1 0.01
42 25 0.26
43 40 0.42
44 25 0.26
45 4 0.04
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.32
Consensus pattern (41 bp):
TGATTTCGTGTAAGACCATGTCTGGGACATTGGCATCGATT
Found at i:56952341 original size:23 final size:22
Alignment explanation
Indices: 56952310--56952355 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
56952300 TTATGAATCA
* *
56952310 TATGTTTTGTTATGATTTTGGTT
1 TATGATTTGGTATG-TTTTGGTT
56952333 TATGATTTGGTATGTTTTGGTT
1 TATGATTTGGTATGTTTTGGTT
56952355 T
1 T
56952356 GAATATAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.13, C:0.00, G:0.24, T:0.63
Consensus pattern (22 bp):
TATGATTTGGTATGTTTTGGTT
Found at i:56952969 original size:27 final size:27
Alignment explanation
Indices: 56952939--56952991 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
56952929 TTTAGTCTCG
56952939 ACCTCTTTCTAAAGCACA-TTTAAGGTA
1 ACCTCTTTCTAAAGCA-AGTTTAAGGTA
56952966 ACCTCTTTCTAAAGCAAGTTTAAGGT
1 ACCTCTTTCTAAAGCAAGTTTAAGGT
56952992 CTTGTTAACC
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 1 0.04
27 24 0.96
ACGTcount: A:0.32, C:0.21, G:0.13, T:0.34
Consensus pattern (27 bp):
ACCTCTTTCTAAAGCAAGTTTAAGGTA
Found at i:56959193 original size:27 final size:27
Alignment explanation
Indices: 56959162--56959267 Score: 124
Period size: 27 Copynumber: 3.9 Consensus size: 27
56959152 TTTTTTTTTA
56959162 GATTCTCCACAAAGGCTTTCATTTCAT
1 GATTCTCCACAAAGGCTTTCATTTCAT
** * *
56959189 GATTCTTTATAAAGGTTTTCATTTCAT
1 GATTCTCCACAAAGGCTTTCATTTCAT
* *
56959216 GATT-TGCCACAAAAGCTTTCATTTTAT
1 GATTCT-CCACAAAGGCTTTCATTTCAT
* *
56959243 GATTTTCCACAAAGGCTCTCATTTC
1 GATTCTCCACAAAGGCTTTCATTTC
56959268 CTTTCCTGAT
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 1 0.02
27 62 0.97
28 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.11, T:0.42
Consensus pattern (27 bp):
GATTCTCCACAAAGGCTTTCATTTCAT
Found at i:56971494 original size:44 final size:42
Alignment explanation
Indices: 56971430--56971588 Score: 133
Period size: 43 Copynumber: 3.7 Consensus size: 42
56971420 TATGTGGTCT
** * *
56971430 CGTGTAAGACCACATTTGGGATGTTGGCATCGACTTATGATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGA-TT-TGATTTA
* *
56971474 CGTGTAAGACCATGTCTGGGATGTTAGCATCGTATTTGATTT-
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCG-ATTTGATTTA
* * **
56971516 CGTGTAAGACCCTGCCTGGGACAATGGCATCGATATTTGA-TTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCG--ATTTGATTTA
* * * *
56971559 CATGTAACACCATGTTTGGGACGTTTGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
56971589 TATACGAGCT
Statistics
Matches: 94, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
42 28 0.30
43 35 0.37
44 30 0.32
45 1 0.01
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGATTTA
Found at i:56971535 original size:42 final size:44
Alignment explanation
Indices: 56971446--56971536 Score: 125
Period size: 42 Copynumber: 2.1 Consensus size: 44
56971436 AGACCACATT
* *
56971446 TGGGATGTTGGCATCGACTTATGATTTACGTGTAAGACCATGTC
1 TGGGATGTTAGCATCGACTTATGATTTACGTGTAAGACCATGCC
*
56971490 TGGGATGTTAGCATCGTA-TT-TGATTT-CGTGTAAGACCCTGCC
1 TGGGATGTTAGCATCG-ACTTATGATTTACGTGTAAGACCATGCC
56971532 TGGGA
1 TGGGA
56971537 CAATGGCATC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
42 19 0.44
43 6 0.14
44 17 0.40
45 1 0.02
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (44 bp):
TGGGATGTTAGCATCGACTTATGATTTACGTGTAAGACCATGCC
Found at i:56971553 original size:43 final size:44
Alignment explanation
Indices: 56971454--56971572 Score: 120
Period size: 42 Copynumber: 2.8 Consensus size: 44
56971444 TTTGGGATGT
* * ***
56971454 TGGCATCGACT-TATGATTTACGTGTAAGACCATGTCTGGGATGT
1 TGGCATCGA-TATTTGATTTACGTGTAAGACCATGCCTGGGACAA
* *
56971498 TAGCATCG-TATTTGATTT-CGTGTAAGACCCTGCCTGGGACAA
1 TGGCATCGATATTTGATTTACGTGTAAGACCATGCCTGGGACAA
* *
56971540 TGGCATCGATATTTGA-TTACATGTAACACCATG
1 TGGCATCGATATTTGATTTACGTGTAAGACCATG
56971573 TTTGGGACGT
Statistics
Matches: 61, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
42 29 0.48
43 25 0.41
44 7 0.11
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (44 bp):
TGGCATCGATATTTGATTTACGTGTAAGACCATGCCTGGGACAA
Found at i:56976748 original size:641 final size:641
Alignment explanation
Indices: 56975622--56976908 Score: 2421
Period size: 641 Copynumber: 2.0 Consensus size: 641
56975612 AAGTGTAGCA
* *
56975622 AATGTGAATTCTGGGTATAAGAAGTCGATTTTATAGGCCATATTGTGTCAGCATCAGGTATCCAA
1 AATGTGAATTCTGGGTATAAGAAGTCGATTTTATAGGCCATATGGTGTCAGCATCAGATATCCAA
*
56975687 GTTGGTCTGAGCAAAATTTTAGCTATTTTGGATTGGAAGCCTCTGAGAAATGTCTCCGAAGTCTG
66 GTTGATCTGAGCAAAATTTTAGCTATTTTGGATTGGAAGCCTCTGAGAAATGTCTCCGAAGTCTG
56975752 CAATTTTCTGGGACTTGCCGGTTATTATAGGAGTTTTGTAAAAGGCTTTTTAATGATCACGACTC
131 CAATTTTCTGGGACTTGCCGGTTATTATAGGAGTTTTGTAAAAGGCTTTTTAATGATCACGACTC
56975817 CATTGACGAAACTACTTTAGAAAGATGTGAAATTTGATTGGTTTAAAAAGTGTCAGAAAAGCTTT
196 CATTGACGAAACTACTTTAGAAAGATGTGAAATTTGATTGGTTTAAAAAGTGTCAGAAAAGCTTT
* *
56975882 GATCAGTTGAAAGCTCTATTGACTGAAGCCCTAGTGTTAGTACAACCAGAATAGGGTAAAGAATT
261 GATCAGTTGAAAGCTCTATTGACTGAAGCCCCAATGTTAGTACAACCAGAATAGGGTAAAGAATT
*
56975947 TGTGATCTACAGTGATGCTTCATTAAACTGTCTAGGATGTGTTTTGATGCTAGAAGACAAAGTCA
326 TGTGATCTACAGTAATGCTTCATTAAACTGTCTAGGATGTGTTTTGATGCTAGAAGACAAAGTCA
56976012 TTGCTTATGTTTTGAGACAGTTAAAGCCACATGAAAAGAACTAGCCGACGCATGACCTTGAGTTA
391 TTGCTTATGTTTTGAGACAGTTAAAGCCACATGAAAAGAACTAGCCGACGCATGACCTTGAGTTA
*
56976077 GCTGGGATTGTATTTGCTTTGAAGATTTGGCGCCACTATTGTTTTGGAGAGAAATGTCTCGTATA
456 GCTGCGATTGTATTTGCTTTGAAGATTTGGCGCCACTATTGTTTTGGAGAGAAATGTCTCGTATA
*
56976142 TTCTGATCATAAGAGTTTGAAATATCTGATGACTCAGAAAGATCTGAATCTGTGACAAAGAAGAC
521 TTCTGATCATAAGAGTTTGAAATATCTGATGACTCAGAAAGATCTAAATCTGTGACAAAGAAGAC
* *
56976207 GACTAGAGTTACTGAAAGACTATGAGCTTGTTATTGATTATTATCCGGGAAAGGCT
586 GACTAGAGTTACAGAAAGACTATGAGCTTGTTATTGATTATCATCCGGGAAAGGCT
* *
56976263 AATGTGAATTCTGGTTATAAGAAGTCGGTTTTATAGGCCATATGGTGTCAGCATCAGATATCCAA
1 AATGTGAATTCTGGGTATAAGAAGTCGATTTTATAGGCCATATGGTGTCAGCATCAGATATCCAA
56976328 GTTGATCTGAGCAAAATTTTAGCTATTTTGGATTGGAAGCCTCTGAGAAATGTCTCCGAAGTCTG
66 GTTGATCTGAGCAAAATTTTAGCTATTTTGGATTGGAAGCCTCTGAGAAATGTCTCCGAAGTCTG
* *
56976393 TAATTTTCTGGGACTTGCCGGTTATTATAGGAGTTTTGTAAAAGGCTTTTTGATGATCACGACTC
131 CAATTTTCTGGGACTTGCCGGTTATTATAGGAGTTTTGTAAAAGGCTTTTTAATGATCACGACTC
56976458 CATTGACGAAACTACTTTAGAAAGATGTGAAATTTGATTGGTTTAAAAAGTGTCAGAAAAGCTTT
196 CATTGACGAAACTACTTTAGAAAGATGTGAAATTTGATTGGTTTAAAAAGTGTCAGAAAAGCTTT
56976523 GATCAGTTGAAAGCTCTATTGACTGAAGCCCCAATGTTAGTACAACCAGAATAGGGTAAAGAATT
261 GATCAGTTGAAAGCTCTATTGACTGAAGCCCCAATGTTAGTACAACCAGAATAGGGTAAAGAATT
*
56976588 TGTGATCTACAGTAATGCTTCATTAAACTGTCTAGGATGTGTTTTGATGCTGGAAGACAAAGTCA
326 TGTGATCTACAGTAATGCTTCATTAAACTGTCTAGGATGTGTTTTGATGCTAGAAGACAAAGTCA
*
56976653 TTGCTTATGTTTTGAGATAGTTAAAGCCACATGAAAAGAACTAGCCGACGCATGACCTTGAGTTA
391 TTGCTTATGTTTTGAGACAGTTAAAGCCACATGAAAAGAACTAGCCGACGCATGACCTTGAGTTA
56976718 GCTGCGATTGTATTTGCTTTGAAGATTTGGCGCCACTATTGTTTTGGAGAGAAATGTCTCGTATA
456 GCTGCGATTGTATTTGCTTTGAAGATTTGGCGCCACTATTGTTTTGGAGAGAAATGTCTCGTATA
56976783 TTCTGATCATAAGAGTTTGAAATATCTGATGACTCAGAAAGATCTAAATCTGTGACAAAGAAGAC
521 TTCTGATCATAAGAGTTTGAAATATCTGATGACTCAGAAAGATCTAAATCTGTGACAAAGAAGAC
*
56976848 GACTAGAGTTACAGAAAGACTATGAGCTTGTTATTGATTATCATCTGGGAAAGGCT
586 GACTAGAGTTACAGAAAGACTATGAGCTTGTTATTGATTATCATCCGGGAAAGGCT
56976904 AATGT
1 AATGT
56976909 TGTTGCTGAT
Statistics
Matches: 629, Mismatches: 17, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
641 629 1.00
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (641 bp):
AATGTGAATTCTGGGTATAAGAAGTCGATTTTATAGGCCATATGGTGTCAGCATCAGATATCCAA
GTTGATCTGAGCAAAATTTTAGCTATTTTGGATTGGAAGCCTCTGAGAAATGTCTCCGAAGTCTG
CAATTTTCTGGGACTTGCCGGTTATTATAGGAGTTTTGTAAAAGGCTTTTTAATGATCACGACTC
CATTGACGAAACTACTTTAGAAAGATGTGAAATTTGATTGGTTTAAAAAGTGTCAGAAAAGCTTT
GATCAGTTGAAAGCTCTATTGACTGAAGCCCCAATGTTAGTACAACCAGAATAGGGTAAAGAATT
TGTGATCTACAGTAATGCTTCATTAAACTGTCTAGGATGTGTTTTGATGCTAGAAGACAAAGTCA
TTGCTTATGTTTTGAGACAGTTAAAGCCACATGAAAAGAACTAGCCGACGCATGACCTTGAGTTA
GCTGCGATTGTATTTGCTTTGAAGATTTGGCGCCACTATTGTTTTGGAGAGAAATGTCTCGTATA
TTCTGATCATAAGAGTTTGAAATATCTGATGACTCAGAAAGATCTAAATCTGTGACAAAGAAGAC
GACTAGAGTTACAGAAAGACTATGAGCTTGTTATTGATTATCATCCGGGAAAGGCT
Found at i:56979887 original size:43 final size:42
Alignment explanation
Indices: 56979730--56979892 Score: 170
Period size: 43 Copynumber: 3.8 Consensus size: 42
56979720 TATGTGTTCT
* * **
56979730 CGTGTACGACAACGTCTGGGACGTTGGCATTGCCTTATGATTTA
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTGTATT-TGA-TTA
* * *
56979774 CGTGTAAGACCACGTCTGGGACGTTGCCATCGTATTTGATTT
1 CGTGTAAGACCACGTCTGGGACGTTGGCATTGTATTTGATTA
*
56979816 CGTGTAAGACC-CTGTCTAGGACAG-TGGCATTGATATTTGATTA
1 CGTGTAAGACCAC-GTCTGGGAC-GTTGGCATTG-TATTTGATTA
*
56979859 CATGTAAGACCACGTCTAGGG-CGTTGGCATTGTA
1 CGTGTAAGACCACGTCT-GGGACGTTGGCATTGTA
56979893 CGAGCTTTCC
Statistics
Matches: 100, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.01
42 30 0.30
43 36 0.36
44 33 0.33
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.31
Consensus pattern (42 bp):
CGTGTAAGACCACGTCTGGGACGTTGGCATTGTATTTGATTA
Found at i:56984260 original size:42 final size:42
Alignment explanation
Indices: 56984174--56984335 Score: 231
Period size: 43 Copynumber: 3.8 Consensus size: 42
56984164 GTTGGTATTA
56984174 TATTCGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
56984216 TATTCAGGCCTTTCG-GCCTAGCAGGCTTAGTGCCGGTGA-GTG
1 TATTC-GGCC-TTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
56984258 TATTCGGGCCTTCGTGCCTAAGCAGGCTTCGTGCCGGTGATGTG
1 TATTC-GGCCTTCGTGCCT-AGCAGGCTTAGTGCCGGTGATGTG
* *
56984302 TATTCGTG-CTTCGTGCCTAGCAGGCGTAATGCCG
1 TATTCG-GCCTTCGTGCCTAGCAGGCTTAGTGCCG
56984336 TGAAATGATA
Statistics
Matches: 109, Mismatches: 5, Indels: 12
0.87 0.04 0.10
Matches are distributed among these distances:
41 4 0.04
42 34 0.31
43 58 0.53
44 13 0.12
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.30
Consensus pattern (42 bp):
TATTCGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:56984273 original size:85 final size:84
Alignment explanation
Indices: 56984174--56984335 Score: 240
Period size: 85 Copynumber: 1.9 Consensus size: 84
56984164 GTTGGTATTA
56984174 TATTCGGCCTTCGTGCCT-AGCAGGCTTAGTGCCGGTGATGTGTATTCAG-GCCTTTCG-GCCTA
1 TATTCGGCCTTCGTGCCTAAGCAGGCTTAGTGCCGGTGATGTGTATTC-GTG-C-TTCGTGCCTA
* *
56984236 GCAGGCTTAGTGCCGGTGAGTG
63 GCAGGCGTAATGCCGGTGAGTG
*
56984258 TATTCGGGCCTTCGTGCCTAAGCAGGCTTCGTGCCGGTGATGTGTATTCGTGCTTCGTGCCTAGC
1 TATTC-GGCCTTCGTGCCTAAGCAGGCTTAGTGCCGGTGATGTGTATTCGTGCTTCGTGCCTAGC
56984323 AGGCGTAATGCCG
65 AGGCGTAATGCCG
56984336 TGAAATGATA
Statistics
Matches: 71, Mismatches: 3, Indels: 7
0.88 0.04 0.09
Matches are distributed among these distances:
84 9 0.13
85 33 0.46
86 29 0.41
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.30
Consensus pattern (84 bp):
TATTCGGCCTTCGTGCCTAAGCAGGCTTAGTGCCGGTGATGTGTATTCGTGCTTCGTGCCTAGCA
GGCGTAATGCCGGTGAGTG
Found at i:56987625 original size:27 final size:27
Alignment explanation
Indices: 56987594--56987769 Score: 162
Period size: 27 Copynumber: 6.6 Consensus size: 27
56987584 TAAATTGTAC
56987594 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
56987621 TGCACTATGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56987647 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56987675 GGCACTAAAGTGTG-GAGTTTGACTATGT
1 AGCACT-AAGTGTGCGA-TTTGACTATGT
* *
56987703 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56987730 AGCACTAAGTGT--GAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56987755 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56987770 GACTCAATAT
Statistics
Matches: 121, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
25 21 0.17
27 78 0.64
28 22 0.18
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56995607 original size:27 final size:27
Alignment explanation
Indices: 56995576--56995753 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56995566 TAAATTGTAC
56995576 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56995603 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56995629 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56995657 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56995685 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56995712 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56995739 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56995754 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56995690 original size:82 final size:81
Alignment explanation
Indices: 56995577--56995732 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56995567 AAATTGTACA
* *
56995577 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56995641 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56995658 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56995723 TGCGAGTTGA
65 TGCGAATTGA
56995733 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56995744 original size:82 final size:81
Alignment explanation
Indices: 56995573--56995753 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
56995563 GATTAAATTG
* *
56995573 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56995638 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56995654 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56995718 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56995736 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56995754 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:57001289 original size:38 final size:38
Alignment explanation
Indices: 57001225--57001304 Score: 106
Period size: 38 Copynumber: 2.1 Consensus size: 38
57001215 GATGTGTATT
* * * *
57001225 CGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTATATC
1 CGGGATAAATCCCGCAGGCCTAGTGCTAGTATTATATC
* *
57001263 CGGGATAAATCCCGCAGTCCTAGTGCTAGTATTATATT
1 CGGGATAAATCCCGCAGGCCTAGTGCTAGTATTATATC
57001301 CGGG
1 CGGG
57001305 CCTTCGGGCC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (38 bp):
CGGGATAAATCCCGCAGGCCTAGTGCTAGTATTATATC
Found at i:57001365 original size:27 final size:27
Alignment explanation
Indices: 57001327--57001384 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 27
57001317 GCAGGCTTAG
57001327 TGCCGGTGATGTGTATTCGAGCCTTCA
1 TGCCGGTGATGTGTATTCGAGCCTTCA
* *
57001354 TGCCGGTGATGTGTATTCGGGCCTTCG
1 TGCCGGTGATGTGTATTCGAGCCTTCA
57001381 TGCC
1 TGCC
57001385 TAGCAAGCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.10, C:0.24, G:0.33, T:0.33
Consensus pattern (27 bp):
TGCCGGTGATGTGTATTCGAGCCTTCA
Found at i:57001377 original size:70 final size:70
Alignment explanation
Indices: 57001297--57001427 Score: 217
Period size: 70 Copynumber: 1.9 Consensus size: 70
57001287 GCTAGTATTA
*
57001297 TATTCGGGCCTTCGGGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTCGAGCCTTCATGCCGGTG
1 TATTCGGGCCTTCGGGCCTAGCAAGCTTAGTGCCGGTGATGTGTATTCGAGCCTTCATGCCGGTG
57001362 ATGTG
66 ATGTG
* * * *
57001367 TATTCGGGCCTTCGTGCCTAGCAAGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCC
1 TATTCGGGCCTTCGGGCCTAGCAAGCTTAGTGCCGGTGATGTGTATTCGAGCCTTCATGCC
57001428 TAGCAGGCGT
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 56 1.00
ACGTcount: A:0.11, C:0.25, G:0.33, T:0.31
Consensus pattern (70 bp):
TATTCGGGCCTTCGGGCCTAGCAAGCTTAGTGCCGGTGATGTGTATTCGAGCCTTCATGCCGGTG
ATGTG
Found at i:57001415 original size:43 final size:43
Alignment explanation
Indices: 57001349--57001448 Score: 164
Period size: 43 Copynumber: 2.3 Consensus size: 43
57001339 GTATTCGAGC
57001349 CTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAAG
1 CTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAAG
* *
57001392 CTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGG
1 CTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAAG
* *
57001435 CGTAATGCCGGTGA
1 CTTCATGCCGGTGA
57001449 AATGATATGT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 52 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (43 bp):
CTTCATGCCGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAAG
Found at i:57001832 original size:45 final size:42
Alignment explanation
Indices: 57001765--57001872 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 42
57001755 TTGACTTGAT
* * *
57001765 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGT--GA-AC
**
57001810 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATACCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
57001852 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
57001873 ACAGGCAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.23
44 7 0.12
45 33 0.59
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATACCGGTGAAC
Found at i:57009064 original size:33 final size:32
Alignment explanation
Indices: 57009011--57009082 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
57009001 GGCCCTGCCG
**
57009011 TGGTCTTTCATTCACATGCCATAACCCGGTTA
1 TGGTCTTTCATTCACATGCCATAACCCGACTA
* *
57009043 TGGTCTTGTTATTCA-ATTGCCATAGCCCGACTA
1 TGGTCTT-TCATTCACA-TGCCATAACCCGACTA
57009076 TGGTCTT
1 TGGTCTT
57009083 ATTTGGCAAC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (32 bp):
TGGTCTTTCATTCACATGCCATAACCCGACTA
Found at i:57020786 original size:21 final size:21
Alignment explanation
Indices: 57020762--57020804 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
57020752 ACAACATCAT
57020762 TCACACACTTGACATAATAAG
1 TCACACACTTGACATAATAAG
57020783 TCACACACTTGACATAATAAG
1 TCACACACTTGACATAATAAG
57020804 T
1 T
57020805 AATCATATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (21 bp):
TCACACACTTGACATAATAAG
Found at i:57028470 original size:38 final size:38
Alignment explanation
Indices: 57028428--57028558 Score: 136
Period size: 38 Copynumber: 3.2 Consensus size: 38
57028418 TTTCAAATTA
*
57028428 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGAATATCCACTTAGCACCACGTT
* *
57028466 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGTTAAT
1 ACATGTATAACCGTGGAATATCCACTTAGCACCACG-T--T
* *
57028507 GAATCGATATATGTAACCATGGAATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGAATATCCACTTAGCACCACGTT
57028551 ACATGTAT
1 ACATGTAT
57028559 CAATATGTGT
Statistics
Matches: 77, Mismatches: 7, Indels: 18
0.75 0.07 0.18
Matches are distributed among these distances:
38 35 0.45
39 1 0.01
40 4 0.05
41 2 0.03
42 1 0.01
43 1 0.01
44 2 0.03
45 3 0.04
46 1 0.01
47 27 0.35
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGAATATCCACTTAGCACCACGTT
Found at i:57028589 original size:48 final size:48
Alignment explanation
Indices: 57028468--57028601 Score: 189
Period size: 48 Copynumber: 2.8 Consensus size: 48
57028458 ACCACGTTAC
* *
57028468 ATGTTTAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCGAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
* * * *
57028515 ATATGTAACCATGGAATATCCACTTAGCACCACGTTACATGTATCAAT
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
* *
57028563 ATGTGTAATCGTGGTATATCCACTTAGCACCACATTACA
1 ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACA
57028602 CGTTTAACCG
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
47 33 0.44
48 42 0.56
ACGTcount: A:0.32, C:0.22, G:0.15, T:0.31
Consensus pattern (48 bp):
ATGTGTAACCGTGGTATATCCACTTAGCACCACGTTACATGAATCAAT
Found at i:57035707 original size:16 final size:16
Alignment explanation
Indices: 57035686--57035716 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
57035676 CAATGGAATA
*
57035686 GAATAGGGTTGTAATG
1 GAATAGAGTTGTAATG
57035702 GAATAGAGTTGTAAT
1 GAATAGAGTTGTAAT
57035717 CAATAATTCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.32
Consensus pattern (16 bp):
GAATAGAGTTGTAATG
Found at i:57049350 original size:18 final size:18
Alignment explanation
Indices: 57049327--57049424 Score: 117
Period size: 18 Copynumber: 5.4 Consensus size: 18
57049317 ATATGAAAAC
*
57049327 AAAATAAACATGAAA-AGA
1 AAAATAAAAAT-AAACAGA
*
57049345 AAAATAAAAATAAACATA
1 AAAATAAAAATAAACAGA
* *
57049363 AAAATAAACATAAAGAGA
1 AAAATAAAAATAAACAGA
*
57049381 AAAATAAAAATAAACATA
1 AAAATAAAAATAAACAGA
*
57049399 AAAATAAAAATAAACATA
1 AAAATAAAAATAAACAGA
*
57049417 AAGATAAA
1 AAAATAAA
57049425 TGGACTCAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
17 3 0.04
18 67 0.96
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (18 bp):
AAAATAAAAATAAACAGA
Found at i:57049354 original size:12 final size:12
Alignment explanation
Indices: 57049327--57049424 Score: 106
Period size: 12 Copynumber: 8.2 Consensus size: 12
57049317 ATATGAAAAC
* *
57049327 AAAATAAACATG
1 AAAATAAAAATA
*
57049339 AAAAGAAAAATA
1 AAAATAAAAATA
*
57049351 AAAATAAACATA
1 AAAATAAAAATA
*
57049363 AAAATAAACATA
1 AAAATAAAAATA
* *
57049375 AAGAGAAAAATA
1 AAAATAAAAATA
*
57049387 AAAATAAACATA
1 AAAATAAAAATA
57049399 AAAATAAAAATA
1 AAAATAAAAATA
* *
57049411 AACATAAAGATA
1 AAAATAAAAATA
57049423 AA
1 AA
57049425 TGGACTCAAT
Statistics
Matches: 72, Mismatches: 14, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 72 1.00
ACGTcount: A:0.76, C:0.05, G:0.05, T:0.14
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:57049367 original size:36 final size:36
Alignment explanation
Indices: 57049327--57049412 Score: 147
Period size: 36 Copynumber: 2.4 Consensus size: 36
57049317 ATATGAAAAC
57049327 AAAATAAACATGAAA-AGAAAAATAAAAATAAACATA
1 AAAATAAACAT-AAAGAGAAAAATAAAAATAAACATA
57049363 AAAATAAACATAAAGAGAAAAATAAAAATAAACATA
1 AAAATAAACATAAAGAGAAAAATAAAAATAAACATA
*
57049399 AAAATAAAAATAAA
1 AAAATAAACATAAA
57049413 CATAAAGATA
Statistics
Matches: 48, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
35 3 0.06
36 45 0.94
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (36 bp):
AAAATAAACATAAAGAGAAAAATAAAAATAAACATA
Found at i:57051086 original size:21 final size:21
Alignment explanation
Indices: 57051052--57051114 Score: 65
Period size: 21 Copynumber: 2.9 Consensus size: 21
57051042 ATGAAATAAC
*
57051052 AAAT-AAGAATTAAAGAAAGA
1 AAATAAAGAAATAAAGAAAGA
*
57051072 AAATAAAGAAATAAAGAATGA
1 AAATAAAGAAATAAAGAAAGA
*
57051093 AAATGAAACAAAAATAAAGAAA
1 AAAT--AA-AGAAATAAAGAAA
57051115 AAGTTAAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
20 4 0.11
21 18 0.51
23 2 0.06
24 11 0.31
ACGTcount: A:0.73, C:0.02, G:0.13, T:0.13
Consensus pattern (21 bp):
AAATAAAGAAATAAAGAAAGA
Found at i:57068108 original size:47 final size:47
Alignment explanation
Indices: 57068045--57068506 Score: 655
Period size: 47 Copynumber: 9.7 Consensus size: 47
57068035 CCCTTCGGGA
* * *
57068045 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
57068092 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
57068139 CTTATCTCATATATGCA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
57068186 ATTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
57068233 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* * *
57068280 CTTATCTCATATATGCA-TGTTCCCATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
57068327 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
57068374 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
57068423 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
57068470 CTTATCACATATATATACACTTTCACATTCATCACAT
1 CTTATCAC--ATATATACACTTTCACATTCATCACAT
57068507 CATGTACAGA
Statistics
Matches: 384, Mismatches: 25, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
46 1 0.00
47 312 0.81
49 70 0.18
50 1 0.00
ACGTcount: A:0.27, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Done.