Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr09 85040211
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: 85040211
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 160 characters in sequence are not A, C, G, or T
File 49 of 292
Found at i:13942081 original size:27 final size:27
Alignment explanation
Indices: 13942051--13942108 Score: 82
Period size: 27 Copynumber: 2.1 Consensus size: 27
13942041 ACCCCCTAAT
*
13942051 TGATAAAATGAATGTTATGCC-CTTATG
1 TGATAAAATCAATGTTATGCCTC-TATG
*
13942078 TGATAAAATCACTGTTATGCCTCTATG
1 TGATAAAATCAATGTTATGCCTCTATG
13942105 TGAT
1 TGAT
13942109 GTATGATTGT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 27 0.96
28 1 0.04
ACGTcount: A:0.31, C:0.14, G:0.17, T:0.38
Consensus pattern (27 bp):
TGATAAAATCAATGTTATGCCTCTATG
Found at i:13949609 original size:40 final size:40
Alignment explanation
Indices: 13949564--13949693 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
13949554 CGGAATATAA
*
13949564 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * * *
13949604 CCGGATAGAATGACTCGCACGAATGCCTTCAGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
13949644 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
13949684 CCGGATATAA
1 CCGGATATAA
13949694 TTTCCAGCAT
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
40 72 0.99
41 1 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:13949708 original size:40 final size:40
Alignment explanation
Indices: 13949580--13949731 Score: 146
Period size: 40 Copynumber: 3.8 Consensus size: 40
13949570 ATAACCATGT
* * *
13949580 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
* ** *
13949620 GCACGAA-TGCCTTCAGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
13949660 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * * *
13949700 GCATAATTGTCTTTGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
13949732 CATTCAATTT
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 2 0.02
40 87 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:13957014 original size:40 final size:40
Alignment explanation
Indices: 13956969--13957098 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
13956959 CGGAATATAA
*
13956969 CCGGATATAACCA-TGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGC
* ** * *
13957009 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
13957049 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
13957089 CCGGATATAA
1 CCGGATATAA
13957099 TTTCCAGCAT
Statistics
Matches: 75, Mismatches: 14, Indels: 2
0.82 0.15 0.02
Matches are distributed among these distances:
40 74 0.99
41 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:13957113 original size:40 final size:40
Alignment explanation
Indices: 13956985--13957135 Score: 155
Period size: 40 Copynumber: 3.8 Consensus size: 40
13956975 ATAACCATGT
* * *
13956985 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCAC-CA
** *
13957025 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* **
13957065 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
* * *
13957105 GCATAATTGTCTTTGGG-CTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
13957136 CATTCAATTT
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 15 0.16
40 76 0.82
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCACCA
Found at i:13959395 original size:25 final size:25
Alignment explanation
Indices: 13959367--13959436 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
13959357 CTCTTTTAAT
*
13959367 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
13959392 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
13959417 AACCGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
13959437 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:13966423 original size:25 final size:25
Alignment explanation
Indices: 13966395--13966464 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
13966385 CTCTTTTAAT
*
13966395 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
13966420 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
13966445 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
13966465 GCACTTCCTA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.26
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:13969881 original size:21 final size:22
Alignment explanation
Indices: 13969841--13969881 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13969831 TTCCAAATAA
* *
13969841 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
13969863 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
13969882 CGGGCATGTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:13972205 original size:29 final size:29
Alignment explanation
Indices: 13972171--13972240 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
13972161 CTAGCCATAA
* * *
13972171 ACACGGTCGTGTGTGTGGCACAGCCTGTC
1 ACACGGGCGTGTATGAGGCACAGCCTGTC
* *
13972200 ACACGGGCATGTATGAGGCACGGCCTGTC
1 ACACGGGCGTGTATGAGGCACAGCCTGTC
13972229 ACACGGGCGTGT
1 ACACGGGCGTGT
13972241 CGAAGACTGT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.17, C:0.27, G:0.36, T:0.20
Consensus pattern (29 bp):
ACACGGGCGTGTATGAGGCACAGCCTGTC
Found at i:13987555 original size:18 final size:18
Alignment explanation
Indices: 13987532--13987569 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
13987522 TTTTCATACT
13987532 TTAAATAAAT-TAACTTTA
1 TTAAATAAATATAA-TTTA
*
13987550 TTAAATATATATAATTTA
1 TTAAATAAATATAATTTA
13987568 TT
1 TT
13987570 TTTTAGGCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAAATAAATATAATTTA
Found at i:13988041 original size:27 final size:29
Alignment explanation
Indices: 13987976--13988047 Score: 85
Period size: 28 Copynumber: 2.5 Consensus size: 29
13987966 AATATTACTC
* *
13987976 AATTATTTATTTATTTTTATTGGTAACAT
1 AATTATTTCTTTATTCTTATTGGTAACAT
* *
13988005 AACTTTTTTCTTT-TTCTT-TTGTTAACAT
1 AA-TTATTTCTTTATTCTTATTGGTAACAT
13988033 AATTATTTCTTTATT
1 AATTATTTCTTTATT
13988048 TGAAAAATCT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
27 9 0.25
28 13 0.36
29 6 0.17
30 8 0.22
ACGTcount: A:0.25, C:0.08, G:0.04, T:0.62
Consensus pattern (29 bp):
AATTATTTCTTTATTCTTATTGGTAACAT
Found at i:13996980 original size:25 final size:25
Alignment explanation
Indices: 13996952--13997000 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
13996942 TTATAATATG
* *
13996952 AAAAATGACTATTTTGCCCCTAGGT
1 AAAAATGACCATTTTACCCCTAGGT
13996977 AAAAATGACCATTTTACCCCTAGG
1 AAAAATGACCATTTTACCCCTAGG
13997001 GTTTAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (25 bp):
AAAAATGACCATTTTACCCCTAGGT
Found at i:13999648 original size:40 final size:39
Alignment explanation
Indices: 13999603--13999732 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
13999593 CGGAATATAA
13999603 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
13999643 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
13999683 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
13999723 CCGGATATAA
1 CCGGATATAA
13999733 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:13999747 original size:40 final size:40
Alignment explanation
Indices: 13999619--13999770 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
13999609 ATAACCATGT
* * *
13999619 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
13999659 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
13999699 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
13999739 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
13999771 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:13999753 original size:80 final size:80
Alignment explanation
Indices: 13999619--13999768 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
13999609 ATAACCATGT
*
13999619 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
13999683 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
13999699 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
13999762 CCCGGAT
64 CCCGGAT
13999769 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:14007666 original size:40 final size:39
Alignment explanation
Indices: 14007621--14007750 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
14007611 CGGAATATAA
14007621 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
14007661 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
14007701 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
14007741 CCGGATATAA
1 CCGGATATAA
14007751 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:14007765 original size:40 final size:40
Alignment explanation
Indices: 14007637--14007788 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
14007627 ATAACCATGT
* * *
14007637 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
14007677 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
14007717 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
14007757 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
14007789 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:14007771 original size:80 final size:80
Alignment explanation
Indices: 14007637--14007786 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
14007627 ATAACCATGT
*
14007637 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
14007701 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
14007717 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
14007780 CCCGGAT
64 CCCGGAT
14007787 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:14012697 original size:27 final size:27
Alignment explanation
Indices: 14012667--14012755 Score: 99
Period size: 27 Copynumber: 3.3 Consensus size: 27
14012657 GTGCGTATAG
14012667 TGATAGTGACACTTCGGTGCAACTCAA
1 TGATAGTGACACTTCGGTGCAACTCAA
* *
14012694 TGATAGTGACACTAT-GGTGCAACTTAG
1 TGATAGTGACACT-TCGGTGCAACTCAA
* * * *
14012721 TTATAGTGGCACTTCAGTGCAATTCAA
1 TGATAGTGACACTTCGGTGCAACTCAA
*
14012748 TGACAGTG
1 TGATAGTG
14012756 GCTCTTTGGA
Statistics
Matches: 50, Mismatches: 10, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
26 1 0.02
27 48 0.96
28 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (27 bp):
TGATAGTGACACTTCGGTGCAACTCAA
Found at i:14015284 original size:15 final size:15
Alignment explanation
Indices: 14015260--14015299 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
14015250 AAACAACATC
14015260 AAGA-GAATCACCAA
1 AAGATGAATCACCAA
*
14015274 AAGATGAATCACCTA
1 AAGATGAATCACCAA
*
14015289 AAGATAAATCA
1 AAGATGAATCA
14015300 TATCATGTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 4 0.17
15 19 0.83
ACGTcount: A:0.55, C:0.17, G:0.12, T:0.15
Consensus pattern (15 bp):
AAGATGAATCACCAA
Found at i:14022713 original size:46 final size:45
Alignment explanation
Indices: 14022646--14022737 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 45
14022636 CATCACAAGA
*
14022646 ATAAGCCAAAAATTACAAGATCGTCTCGAAAATCATTTTCATAGAT
1 ATAAGCCAAAAATTACAAGATCGTCTC-AAAATCATTCTCATAGAT
14022692 ATAAGCCAAAAATTACAAGATCGTCTCAAAATCATTCTCATAGAT
1 ATAAGCCAAAAATTACAAGATCGTCTCAAAATCATTCTCATAGAT
14022737 A
1 A
14022738 GAACTTACTC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
45 18 0.40
46 27 0.60
ACGTcount: A:0.45, C:0.18, G:0.10, T:0.27
Consensus pattern (45 bp):
ATAAGCCAAAAATTACAAGATCGTCTCAAAATCATTCTCATAGAT
Found at i:14030865 original size:42 final size:42
Alignment explanation
Indices: 14030796--14030897 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 42
14030786 TCCTGGACGT
* * ** *
14030796 GGTCTTGCATGTAATTCAATATCGATGCCTCTGTCCCAGACAG
1 GGTCTTACATG-AAATCAATATCGATGCCGATATCCCAGACAG
*
14030839 GGTCTTACATGAAATCAGATA-CGATGCCGATATCCCAGACAT
1 GGTCTTACATGAAATCA-ATATCGATGCCGATATCCCAGACAG
14030881 GGTCCTATACAT-AAATC
1 GGT-CT-TACATGAAATC
14030898 TCAATTGAGG
Statistics
Matches: 50, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
42 25 0.50
43 20 0.40
44 5 0.10
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (42 bp):
GGTCTTACATGAAATCAATATCGATGCCGATATCCCAGACAG
Found at i:14035841 original size:22 final size:21
Alignment explanation
Indices: 14035803--14035843 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
14035793 CATATAAATA
*
14035803 AAAATTTATAATTATTTTTGT
1 AAAATTTATAATAATTTTTGT
*
14035824 AAAATTTATTATGAATTTTT
1 AAAATTTATAAT-AATTTTT
14035844 AAAGTCAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.56
Consensus pattern (21 bp):
AAAATTTATAATAATTTTTGT
Found at i:14036742 original size:47 final size:49
Alignment explanation
Indices: 14036668--14036797 Score: 157
Period size: 46 Copynumber: 2.8 Consensus size: 49
14036658 AACCCGCCCC
*
14036668 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATCCA
* *
14036716 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCA
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
*
14036761 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC
1 TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGC
14036798 TCAACCATCC
Statistics
Matches: 70, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 2 0.03
45 2 0.03
46 29 0.41
47 29 0.41
48 2 0.03
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (49 bp):
TAAGCGAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA
Found at i:14036813 original size:46 final size:44
Alignment explanation
Indices: 14036670--14036813 Score: 141
Period size: 46 Copynumber: 3.1 Consensus size: 44
14036660 CCCGCCCCTA
14036670 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
14036717 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
14036763 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
14036809 AGTGA
1 AGTGA
14036814 CATGTCACTT
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 33 0.41
47 31 0.39
48 1 0.01
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:14041250 original size:22 final size:22
Alignment explanation
Indices: 14041222--14041267 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
14041212 TCATGTTTCC
14041222 TTGTTTGAGCTCTAGAAATTCT
1 TTGTTTGAGCTCTAGAAATTCT
14041244 TTGTTTGAGCTCTAGAAATTCT
1 TTGTTTGAGCTCTAGAAATTCT
14041266 TT
1 TT
14041268 CTTTTTCTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.22, C:0.13, G:0.17, T:0.48
Consensus pattern (22 bp):
TTGTTTGAGCTCTAGAAATTCT
Found at i:14046523 original size:46 final size:45
Alignment explanation
Indices: 14046437--14046557 Score: 179
Period size: 46 Copynumber: 2.6 Consensus size: 45
14046427 GCCCATCAGC
* * * *
14046437 GAACTCGGACTCAACTCAACGAGCTCGGGAGTTCGTATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGTTC-GGAATTCGCATCCATAAGT
*
14046483 GAAGTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATTCGCATCCATAAGT
14046529 GAACTCGGACTCAACTCAACGAGTTCGGA
1 GAACTCGGACTCAACTCAACGAGTTCGGA
14046558 TGCTCAACCA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
45 3 0.04
46 65 0.96
ACGTcount: A:0.29, C:0.26, G:0.24, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATTCGCATCCATAAGT
Found at i:14046576 original size:46 final size:45
Alignment explanation
Indices: 14046437--14046576 Score: 124
Period size: 46 Copynumber: 3.0 Consensus size: 45
14046427 GCCCATCAGC
* * **
14046437 GAACTCGGACTCAACTCAACGAGCTCGGGA-GTTC-GTATCCATAGGT
1 GAACTCGGACTCAACTCAACGAGTTC-GGATGCTCACCATCC-TA-GT
* *** *
14046483 GAAGTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
14046529 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
14046575 GA
1 GA
14046577 CATGTCACTT
Statistics
Matches: 81, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
45 3 0.04
46 71 0.88
47 2 0.02
48 5 0.06
ACGTcount: A:0.29, C:0.27, G:0.23, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:14059231 original size:40 final size:40
Alignment explanation
Indices: 14059146--14059296 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
14059136 AATTGAATGA
* * *
14059146 TATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGA-CCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
14059186 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
14059227 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
14059266 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
14059297 ACATGGTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 16
0.77 0.09 0.13
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 79 0.86
41 4 0.04
42 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.26, T:0.23
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:14059310 original size:40 final size:40
Alignment explanation
Indices: 14059183--14059312 Score: 138
Period size: 40 Copynumber: 3.2 Consensus size: 40
14059173 ATGCTGGAAA
* * * *
14059183 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
* * * **
14059223 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
*
14059263 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGG
14059303 TTATATCCGG
1 TTATATCCGG
14059313 TTATATTCCG
Statistics
Matches: 71, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
39 2 0.03
40 69 0.97
ACGTcount: A:0.25, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGG
Found at i:14062523 original size:30 final size:30
Alignment explanation
Indices: 14062489--14062560 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 30
14062479 TGGTTGACAC
* *
14062489 ATCCCTTTTCTTTATTCGATAG-CCAAGGCT
1 ATCCCTTTTCATAATTCGATAGTCCAA-GCT
*
14062519 ATCCCTTTTCATAATTCGATAGTCGAAGCT
1 ATCCCTTTTCATAATTCGATAGTCCAAGCT
14062549 ATCCCTTTTCAT
1 ATCCCTTTTCAT
14062561 GATTTGATGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 35 0.92
31 3 0.08
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.40
Consensus pattern (30 bp):
ATCCCTTTTCATAATTCGATAGTCCAAGCT
Found at i:14062585 original size:30 final size:30
Alignment explanation
Indices: 14062519--14062649 Score: 124
Period size: 30 Copynumber: 4.4 Consensus size: 30
14062509 AGCCAAGGCT
* * * *
14062519 ATCCCTTTTCATAATTCGATAGTCG-AAGCT
1 ATCCCTTTTCATGATTTGATGGTCGTAA-CC
14062549 ATCCCTTTTCATGATTTGATGGTCGTAACC
1 ATCCCTTTTCATGATTTGATGGTCGTAACC
* * * *
14062579 ACCCCTTTTCATTG-TTTGGTTGTCGTTACC
1 ATCCCTTTTCA-TGATTTGATGGTCGTAACC
* * *
14062609 ATCCCTTTTCATTA-TTGATGGTTGTCACC
1 ATCCCTTTTCATGATTTGATGGTCGTAACC
14062638 ATCCCTTTTCAT
1 ATCCCTTTTCAT
14062650 AACCAATAGT
Statistics
Matches: 84, Mismatches: 14, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
29 24 0.29
30 56 0.67
31 4 0.05
ACGTcount: A:0.18, C:0.25, G:0.14, T:0.43
Consensus pattern (30 bp):
ATCCCTTTTCATGATTTGATGGTCGTAACC
Found at i:14062585 original size:60 final size:59
Alignment explanation
Indices: 14062521--14062678 Score: 167
Period size: 60 Copynumber: 2.7 Consensus size: 59
14062511 CCAAGGCTAT
*
14062521 CCCTTTTCATAATTCGATAGTCGAAGCTATCCCTTTTCATGATTTGATGGTCGTAACCAC
1 CCCTTTTCATAATTCGATAGTCGAAGCCATCCCTTTTCATGA-TTGATGGTCGTAACCAC
** * * * * * * * *
14062581 CCCTTTTCATTGTTTGGTTGTCGTTA-CCATCCCTTTTCATTATTGATGGTTGTCACCAT
1 CCCTTTTCATAATTCGATAGTCG-AAGCCATCCCTTTTCATGATTGATGGTCGTAACCAC
* *
14062640 CCCTTTTCATAA-CCAATAGTCGAAGCCATCCCTTTTCAT
1 CCCTTTTCATAATTCGATAGTCGAAGCCATCCCTTTTCAT
14062679 ATTCATCGAT
Statistics
Matches: 77, Mismatches: 19, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
57 1 0.01
58 19 0.25
59 24 0.31
60 32 0.42
61 1 0.01
ACGTcount: A:0.20, C:0.27, G:0.13, T:0.40
Consensus pattern (59 bp):
CCCTTTTCATAATTCGATAGTCGAAGCCATCCCTTTTCATGATTGATGGTCGTAACCAC
Found at i:14065882 original size:6 final size:7
Alignment explanation
Indices: 14065866--14065890 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14065856 TATATATTAG
14065866 TTTTTAT
1 TTTTTAT
14065873 TTTTTAT
1 TTTTTAT
14065880 TTTTTAT
1 TTTTTAT
14065887 TTTT
1 TTTT
14065891 CCTTTTTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:14068527 original size:144 final size:144
Alignment explanation
Indices: 14068289--14068599 Score: 396
Period size: 144 Copynumber: 2.2 Consensus size: 144
14068279 GAGCCGACGT
* *
14068289 CATGTCCCAGACATGGTCTTACACTGACTCACACATCAAAGTCGATGCCATGTCCCGACATGGTC
1 CATGTCCCAGACATGGTCTTACACTGAC-CACACATCAAAGCCGATGCCATGTCCAGACATGGTC
* * * *
14068354 TTACACCGACTCTCATATATCGAGCCCGATGCCATGTCCCAGATATGGTCTTACACT-GCTCACA
65 TTACACAGACTCTCATATATCGAGACCGATGCCATATCCCAGACATGGTCTTACACTAGCTCACA
** **
14068418 TCTGTCGGTGTCGATGC
130 TC--TCAATACCGATGC
* *
14068435 CATGTCCCAGACATGGTCTTACACTGA-CACATATC-AAGCCGATGTCATGTCCTAGACATGGTC
1 CATGTCCCAGACATGGTCTTACACTGACCACACATCAAAGCCGATGCCATGTCC-AGACATGGTC
* * *
14068498 TTACACTAGCCT-TCATATCTCGAGACCGATGCCATATCCCAGACATGGTCTTACACTAGCTCCC
65 TTACAC-AGACTCTCATATATCGAGACCGATGCCATATCCCAGACATGGTCTTACACTAGCTCAC
*
14068562 GTCTCAATACCGATGC
129 ATCTCAATACCGATGC
*
14068578 CATGTCCCAGACATGCTCTTAC
1 CATGTCCCAGACATGGTCTTAC
14068600 CCTAGTTCTC
Statistics
Matches: 145, Mismatches: 17, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
143 45 0.31
144 63 0.43
145 10 0.07
146 27 0.19
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (144 bp):
CATGTCCCAGACATGGTCTTACACTGACCACACATCAAAGCCGATGCCATGTCCAGACATGGTCT
TACACAGACTCTCATATATCGAGACCGATGCCATATCCCAGACATGGTCTTACACTAGCTCACAT
CTCAATACCGATGC
Found at i:14068545 original size:95 final size:94
Alignment explanation
Indices: 14068280--14068599 Score: 294
Period size: 97 Copynumber: 3.3 Consensus size: 94
14068270 ATAGGGTAAG
* *
14068280 AGCCGACGTCATGTCCCAGACATGGTCTTACACTGACTCACA-CATC-AAAGTCGATGCCATGTC
1 AGCCGATGTCATGTCCCAGACATGGTCTTACACTG-CTCACATCATCGAGA-TCGATGCCATGTC
* * *
14068343 CC-GACATGGTCTTACACCGACTCTCATATATCG
64 CCAGACATGGTCTTACACTGA--C-CACATATCA
* * * *
14068376 AGCCCGATGCCATGTCCCAGATATGGTCTTACACTGCTCACATCTGTCG-GTGTCGATGCCATGT
1 AG-CCGATGTCATGTCCCAGACATGGTCTTACACTGCTCACATC-ATCGAG-ATCGATGCCATGT
14068440 CCCAGACATGGTCTTACACTGA-CACATATCA
63 CCCAGACATGGTCTTACACTGACCACATATCA
* * * *
14068471 AGCCGATGTCATGTCCTAGACATGGTCTTACACTAGCCTTCATATC-TCGAGACCGATGCCATAT
1 AGCCGATGTCATGTCCCAGACATGGTCTTACACT-G-C-TCACATCATCGAGATCGATGCCATGT
* * *
14068535 CCCAGACATGGTCTTACACT-AGCTCCCGTCTCA
63 CCCAGACATGGTCTTACACTGA-C-CACATATCA
* * *
14068568 ATACCGATGCCATGTCCCAGACATGCTCTTAC
1 A-GCCGATGTCATGTCCCAGACATGGTCTTAC
14068600 CCTAGTTCTC
Statistics
Matches: 187, Mismatches: 23, Indels: 26
0.79 0.10 0.11
Matches are distributed among these distances:
94 30 0.16
95 43 0.23
96 10 0.05
97 44 0.24
98 43 0.23
99 17 0.09
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (94 bp):
AGCCGATGTCATGTCCCAGACATGGTCTTACACTGCTCACATCATCGAGATCGATGCCATGTCCC
AGACATGGTCTTACACTGACCACATATCA
Found at i:14068548 original size:50 final size:48
Alignment explanation
Indices: 14068289--14068604 Score: 256
Period size: 49 Copynumber: 6.6 Consensus size: 48
14068279 GAGCCGACGT
* * *
14068289 CATGTCCCAGACATGGTCTTACACT-GACTCACA-CATC-AAAGTCGATGC
1 CATGTCCCAGACATGGTCTTACACTAG-CTCATATC-TCGAGA-CCGATGC
* * * *
14068337 CATGTCCC-GACATGGTCTTACACCGACTCTCATATATCGAGCCCGATGC
1 CATGTCCCAGACATGGTCTTACA-CTA-GCTCATATCTCGAGACCGATGC
* * **
14068386 CATGTCCCAGATATGGTCTTACACT-GCTCACATCTGTCG-GTGTCGATGC
1 CATGTCCCAGACATGGTCTTACACTAGCTCATATC--TCGAG-ACCGATGC
* * *
14068435 CATGTCCCAGACATGGTCTTACACT-GACACATA--TCAAG-CCGATGT
1 CATGTCCCAGACATGGTCTTACACTAG-CTCATATCTCGAGACCGATGC
*
14068480 CATGTCCTAGACATGGTCTTACACTAGCCTTCATATCTCGAGACCGATGC
1 CATGTCCCAGACATGGTCTTACACTAG-C-TCATATCTCGAGACCGATGC
* *** * *
14068530 CATATCCCAGACATGGTCTTACACTAGCTCCCGTCTCAATACCGATGC
1 CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCGAGACCGATGC
* *
14068578 CATGTCCCAGACATGCTCTTACCCTAG
1 CATGTCCCAGACATGGTCTTACACTAG
14068605 TTCTCATAAT
Statistics
Matches: 217, Mismatches: 35, Indels: 32
0.76 0.12 0.11
Matches are distributed among these distances:
45 29 0.13
46 4 0.02
47 25 0.12
48 49 0.23
49 61 0.28
50 49 0.23
ACGTcount: A:0.24, C:0.32, G:0.18, T:0.26
Consensus pattern (48 bp):
CATGTCCCAGACATGGTCTTACACTAGCTCATATCTCGAGACCGATGC
Found at i:14077567 original size:17 final size:17
Alignment explanation
Indices: 14077530--14077580 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
14077520 TGGTATGAAT
* **
14077530 GAACTATTATTTCATAT
1 GAACTATTATTTTATGC
14077547 GAACTATTATTTTATGC
1 GAACTATTATTTTATGC
*
14077564 GAACTACTTATTCTATG
1 GAACTA-TTATTTTATG
14077581 TGAATTGTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 20 0.69
18 9 0.31
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (17 bp):
GAACTATTATTTTATGC
Found at i:14081575 original size:47 final size:47
Alignment explanation
Indices: 14081485--14081585 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
14081475 TCAGGATTTT
* * * *
14081485 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGACCA
1 ATGTGATGAACGTGAAAGTGTATATATGAGATAAGGCCAAATGACAA
* **
14081532 ATGTGATGAACGTGAAAGTGTATATAT-ATACTGTGGCCAAATGACAA
1 ATGTGATGAACGTGAAAGTGTATATATGAGA-TAAGGCCAAATGACAA
14081579 ATTGTGA
1 A-TGTGA
14081586 AGGTGTGTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
46 2 0.04
47 38 0.84
48 5 0.11
ACGTcount: A:0.37, C:0.09, G:0.26, T:0.29
Consensus pattern (47 bp):
ATGTGATGAACGTGAAAGTGTATATATGAGATAAGGCCAAATGACAA
Found at i:14090457 original size:46 final size:44
Alignment explanation
Indices: 14090315--14090529 Score: 211
Period size: 46 Copynumber: 4.7 Consensus size: 44
14090305 TATGTGCGCC
* * * *
14090315 AGTGTTAGACATGTCTGGGACATGCATCGGCTAC-ATAATGAGAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGA-GAT--GTGCT
* *
14090361 AGTGTAAGACGATGTCTGGGACATGGCATCGGCATTGA-GACAAGTGCT
1 AGTGTAAGAC-ATGTCTGGGACAT-GCATCGGC--T-ACGAGATGTGCT
14090409 AGTGTAAGACATGTCTGGGACATGCATCGGTCT-CGAGATGTTAGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATG-T-GCT
* * * * *
14090455 AGTGTCAGACATGTTTGGGACATGCGTTGGCTATGAGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGCT
14090499 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
14090530 ATGGTTACAT
Statistics
Matches: 142, Mismatches: 16, Indels: 24
0.78 0.09 0.13
Matches are distributed among these distances:
44 34 0.24
45 5 0.04
46 51 0.36
47 27 0.19
48 21 0.15
50 2 0.01
51 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGCT
Found at i:14090522 original size:90 final size:93
Alignment explanation
Indices: 14090315--14090529 Score: 262
Period size: 94 Copynumber: 2.3 Consensus size: 93
14090305 TATGTGCGCC
*
14090315 AGTGTTAGACATGTCTGGGACATGCATCGGCTACATAATGAGAGCCAGTGTAAGACGATGTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACATAATGAGAGCCAGTGTAAGACGATGTCTGG
14090380 GACATGGCATCGGCATTGAGACAAGTGCT
66 GACATGGCATCGGCATTGAGA-AAGTGCT
* ** * * *
14090409 AGTGTAAGACATGTCTGGGACATGCATCGGTCT-CGA-GATGTTAGCTAGTGTCAGAC-ATGTTT
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTAC-ATAATGAGAGCCAGTGTAAGACGATGTCT
* * *
14090471 GGGACAT-GCGTTGGC-TATGAG-ATGTGCT
64 GGGACATGGCATCGGCAT-TGAGAAAGTGCT
14090499 AGTGTAAGACATGTCTGGGACATGCATCGGC
1 AGTGTAAGACATGTCTGGGACATGCATCGGC
14090530 ATGGTTACAT
Statistics
Matches: 108, Mismatches: 10, Indels: 11
0.84 0.08 0.09
Matches are distributed among these distances:
89 1 0.01
90 36 0.33
91 1 0.01
92 10 0.09
93 12 0.11
94 45 0.42
95 3 0.03
ACGTcount: A:0.25, C:0.17, G:0.32, T:0.26
Consensus pattern (93 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACATAATGAGAGCCAGTGTAAGACGATGTCTGG
GACATGGCATCGGCATTGAGAAAGTGCT
Found at i:14101005 original size:22 final size:21
Alignment explanation
Indices: 14100970--14101045 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
14100960 AAAAGGTATC
* *
14100970 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
14100991 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
14101014 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
14101033 TGC-AATCATATCT
1 TACAAATCATATCT
14101046 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:14101062 original size:35 final size:37
Alignment explanation
Indices: 14100999--14101077 Score: 121
Period size: 35 Copynumber: 2.2 Consensus size: 37
14100989 ATTACAAAAT
14100999 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
14101035 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
14101070 CATATCAT
1 CATATCAT
14101078 TGAAGATTAT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
35 22 0.55
36 8 0.20
37 10 0.25
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:14101075 original size:14 final size:15
Alignment explanation
Indices: 14101020--14101075 Score: 60
Period size: 17 Copynumber: 3.5 Consensus size: 15
14101010 AGATTGCATA
14101020 TCATATCTAAGATTG
1 TCATATCTAAGATTG
14101035 CAATCATATCTAAGATTG
1 ---TCATATCTAAGATTG
14101053 TATCATATCTAAGATTG
1 --TCATATCTAAGATTG
14101070 -CATATC
1 TCATATC
14101076 ATTGAAGATT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
14 6 0.16
17 16 0.43
18 15 0.41
ACGTcount: A:0.36, C:0.16, G:0.11, T:0.38
Consensus pattern (15 bp):
TCATATCTAAGATTG
Found at i:14101085 original size:17 final size:19
Alignment explanation
Indices: 14101006--14101077 Score: 123
Period size: 19 Copynumber: 3.9 Consensus size: 19
14100996 AATCATATCT
14101006 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
14101025 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
14101043 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
14101060 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
14101078 TGAAGATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.32
18 16 0.32
19 18 0.36
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:14101515 original size:45 final size:44
Alignment explanation
Indices: 14101409--14101527 Score: 170
Period size: 45 Copynumber: 2.7 Consensus size: 44
14101399 CTTTGATCTA
*
14101409 CTCCCCGTCTAATACAGAGATGCCAAATCTTCTTCTTGAACCTG
1 CTCCCCGTCTAATACAGAGATGCCAAATCTTCTTCTCGAACCTG
**
14101453 CTCCCCGTCTAATACAGAGATGCCAAATCTAT-TATCTCCG-ATTTG
1 CTCCCCGTCTAATACAGAGATGCCAAATCT-TCT-TCT-CGAACCTG
14101498 CTCCCCGTCTAATACAGAGATGCCAAATCT
1 CTCCCCGTCTAATACAGAGATGCCAAATCT
14101528 GTCATCTTGG
Statistics
Matches: 69, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
44 31 0.45
45 37 0.54
46 1 0.01
ACGTcount: A:0.27, C:0.31, G:0.13, T:0.29
Consensus pattern (44 bp):
CTCCCCGTCTAATACAGAGATGCCAAATCTTCTTCTCGAACCTG
Found at i:14101689 original size:78 final size:79
Alignment explanation
Indices: 14101558--14101851 Score: 409
Period size: 78 Copynumber: 3.8 Consensus size: 79
14101548 ATGTAAACAC
* * * *
14101558 ATGAAGGT-CAAATTTGCTATGTCTTCGATCTGCTCCCCGTATAATACAAAGATGCCAAATCATC
1 ATGAAGGTCCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
14101622 TTGGATCTGCTTCA
66 TTGGATCTGCTTCA
*
14101636 ATGAAGGTCCA-ATCTG-TCATGTCTTCGATCTGCTCACCGTCTAATACAGAGATGCCAAATCAT
1 ATGAAGGTCCAGATCTGCT-ATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCAT
14101699 CTTGGATCTGCTTCA
65 CTTGGATCTGCTTCA
** * *
14101714 ATGAA-GAACAGATCTGATGTGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
1 ATGAAGGTCCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
* *
14101778 TTAGATCTGCTTAA
66 TTGGATCTGCTTCA
* * **
14101792 ATGAAGGT-CAGATCTGCTATGTCTTCGATCTGCTCTCCGTCGAATATGGAGATGCCAAAT
1 ATGAAGGTCCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAAT
14101852 TTGTTTCTTA
Statistics
Matches: 194, Mismatches: 17, Indels: 10
0.88 0.08 0.05
Matches are distributed among these distances:
77 4 0.02
78 186 0.96
79 4 0.02
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (79 bp):
ATGAAGGTCCAGATCTGCTATGTCTTCGATCTGCTCCCCGTCTAATACAGAGATGCCAAATCATC
TTGGATCTGCTTCA
Found at i:14114046 original size:80 final size:80
Alignment explanation
Indices: 14113962--14114110 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
14113952 TATGGTAACC
* * * *
14113962 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
14114026 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
14114042 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
14114107 CCGG
66 CCGG
14114111 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:14114052 original size:40 final size:38
Alignment explanation
Indices: 14114003--14114110 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
14113993 ATCACGATTT
*
14114003 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
14114043 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
14114083 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
14114111 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:14122160 original size:80 final size:80
Alignment explanation
Indices: 14122076--14122224 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
14122066 TATGGTAACC
* * * *
14122076 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
14122140 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
14122156 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
14122221 CCGG
66 CCGG
14122225 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:14122166 original size:40 final size:38
Alignment explanation
Indices: 14122117--14122224 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
14122107 ATCACGATTT
*
14122117 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
14122157 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
14122197 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
14122225 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:14124810 original size:40 final size:40
Alignment explanation
Indices: 14124766--14124876 Score: 147
Period size: 40 Copynumber: 2.8 Consensus size: 40
14124756 ATAACCACGT
*
14124766 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAA-GCACTA
*
14124806 GCACGAATGCCTTCGGGTCTTAGCCCGGAT-GTAGCCACTA
1 GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAG-CACTA
*
14124846 GCAC-AATTGCCTTCGGGTCTTAACCCGGATA
1 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATA
14124877 TAATTTCCAG
Statistics
Matches: 64, Mismatches: 3, Indels: 7
0.86 0.04 0.09
Matches are distributed among these distances:
38 1 0.02
39 4 0.06
40 59 0.92
ACGTcount: A:0.22, C:0.29, G:0.26, T:0.23
Consensus pattern (40 bp):
GCACGAATGCCTTCGGGTCTTAGCCCGGATAGAAGCACTA
Found at i:14124894 original size:40 final size:40
Alignment explanation
Indices: 14124750--14124912 Score: 136
Period size: 40 Copynumber: 4.1 Consensus size: 40
14124740 CGGAATACAA
* **
14124750 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
14124790 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
14124830 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
14124870 CCGGATATAATTTCCAGCATAATTGTCTT-GGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
14124909 CCGG
1 CCGG
14124913 TATCATTCAA
Statistics
Matches: 99, Mismatches: 21, Indels: 7
0.78 0.17 0.06
Matches are distributed among these distances:
39 14 0.14
40 85 0.86
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:14132837 original size:40 final size:40
Alignment explanation
Indices: 14132792--14132921 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
14132782 CGGAATACAA
14132792 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* ** *
14132832 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
14132872 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
14132912 CCGGATATAA
1 CCGGATATAA
14132922 TTTCCAGCAT
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.24, C:0.28, G:0.25, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:14132936 original size:40 final size:40
Alignment explanation
Indices: 14132792--14132955 Score: 145
Period size: 40 Copynumber: 4.1 Consensus size: 40
14132782 CGGAATACAA
* **
14132792 CCGGATATAACCACGTGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCACCAGCAC-AATTGCCTTCGGGTCTTAGC
* *
14132832 CCGGATAGAATGACTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
* ** * *
14132872 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
** * * *
14132912 CCGGATATAATTTCCAGCATAATTGTCTTCGGGGCTTAGC
1 CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
14132952 CCGG
1 CCGG
14132956 TATCATTCAA
Statistics
Matches: 100, Mismatches: 21, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
39 2 0.02
40 98 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGGATATAATCACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:14135771 original size:42 final size:42
Alignment explanation
Indices: 14135712--14135828 Score: 137
Period size: 43 Copynumber: 2.7 Consensus size: 42
14135702 TTAGGGTTAC
14135712 TGAGATTACGTGTAAGACCATATCTGGGATATT-ACATCGATA
1 TGAGATT-CGTGTAAGACCATATCTGGGATATTGACATCGATA
* * * *
14135754 TGAGACTTCGTGTAAGACCATAGCTAGGCTATTGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATATCTGGGATATTGACATCGATA
* * *
14135797 TGAGATCCCATGTAAGACTATATCTGGGATAT
1 TGAGAT-TCGTGTAAGACCATATCTGGGATAT
14135829 GGCATTGGTG
Statistics
Matches: 62, Mismatches: 10, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
42 28 0.45
43 34 0.55
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATATCTGGGATATTGACATCGATA
Found at i:14141560 original size:30 final size:30
Alignment explanation
Indices: 14141516--14141604 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
14141506 CAAAGATAAC
14141516 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
14141545 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
14141575 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
14141605 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:14141564 original size:15 final size:15
Alignment explanation
Indices: 14141516--14141595 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
14141506 CAAAGATAAC
*
14141516 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
14141530 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
14141545 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
14141560 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
14141575 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
14141590 AAGAAA
1 AAGAAA
14141596 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:14141604 original size:15 final size:15
Alignment explanation
Indices: 14141527--14141604 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
14141517 AGAAAACCGA
14141527 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
14141542 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
14141556 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
14141571 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
14141587 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
14141602 ATA
1 ATA
14141605 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:14147344 original size:27 final size:27
Alignment explanation
Indices: 14147274--14147351 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
14147264 AAATTATCGA
*
14147274 AATACCCTTGT-AGTGTAAAATGACCGT
1 AATACCCTTGTAAG-GTAAAATGACCAT
* * * *
14147301 AATGCCCCTATAGGGTAAAATGACCAT
1 AATACCCTTGTAAGGTAAAATGACCAT
*
14147328 AATACCCTTGTAAGGTAGAATGAC
1 AATACCCTTGTAAGGTAAAATGAC
14147352 GATTATGCCC
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 39 0.98
28 1 0.03
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (27 bp):
AATACCCTTGTAAGGTAAAATGACCAT
Found at i:14147622 original size:22 final size:22
Alignment explanation
Indices: 14147594--14147691 Score: 133
Period size: 22 Copynumber: 4.5 Consensus size: 22
14147584 TACGGCCTTT
* *
14147594 AGCCGTCCTGTCTAAGGTGTTG
1 AGCCGTCCTGCCTACGGTGTTG
14147616 AGCCGTCCTGCCTACGGTGTTG
1 AGCCGTCCTGCCTACGGTGTTG
*
14147638 AACCGTCCTGCCTACGGTGTTG
1 AGCCGTCCTGCCTACGGTGTTG
* * *
14147660 AGCTGTCTTGCCTACGGCGTTG
1 AGCCGTCCTGCCTACGGTGTTG
*
14147682 AGCTGTCCTG
1 AGCCGTCCTG
14147692 TTGACTTAGT
Statistics
Matches: 68, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 68 1.00
ACGTcount: A:0.11, C:0.29, G:0.31, T:0.30
Consensus pattern (22 bp):
AGCCGTCCTGCCTACGGTGTTG
Found at i:14157046 original size:116 final size:116
Alignment explanation
Indices: 14156837--14157065 Score: 368
Period size: 116 Copynumber: 2.0 Consensus size: 116
14156827 ATGCATACTA
* * *
14156837 CTATTTATGAAATTGTATTGATATATAAATTTTGATATTTTTATGAAACGTATGTTTTAATTACT
1 CTATATATGAAATTGGATTGATATATAAATTATGATATTTTTATGAAACGTATGTTTTAATTACT
* *
14156902 GGTTGTTACCTAAGTTAAGACTATGTGGAATTAAACTGTATAAATTCTCTG
66 AGTTGTTACCTAAGTTAAGACCATGTGGAATTAAACTGTATAAATTCTCTG
* * *
14156953 CTATATATGAAATTGGGTTGATATATAAATTATGATATTTTTATGAGATGTATGTTTTAATTACT
1 CTATATATGAAATTGGATTGATATATAAATTATGATATTTTTATGAAACGTATGTTTTAATTACT
* *
14157018 AGTTGTTATCTAAGTTAAGACCATGTGGAGTTAAACTGTATAAATTCT
66 AGTTGTTACCTAAGTTAAGACCATGTGGAATTAAACTGTATAAATTCT
14157066 TTATAATATT
Statistics
Matches: 103, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
116 103 1.00
ACGTcount: A:0.33, C:0.07, G:0.16, T:0.44
Consensus pattern (116 bp):
CTATATATGAAATTGGATTGATATATAAATTATGATATTTTTATGAAACGTATGTTTTAATTACT
AGTTGTTACCTAAGTTAAGACCATGTGGAATTAAACTGTATAAATTCTCTG
Found at i:14160800 original size:12 final size:12
Alignment explanation
Indices: 14160783--14160812 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
14160773 TCATTGAGTT
14160783 ACACGGCCTAAC
1 ACACGGCCTAAC
*
14160795 ACACGGCCTGAC
1 ACACGGCCTAAC
14160807 ACACGG
1 ACACGG
14160813 GCATGTAGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAAC
Found at i:14163264 original size:3 final size:3
Alignment explanation
Indices: 14163256--14163340 Score: 73
Period size: 3 Copynumber: 27.7 Consensus size: 3
14163246 AAGGAAAGTT
* *
14163256 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA AAA GGAA GAA -AA AAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA -GAA GAA GAA GAA
* * * * *
14163301 GAAA GAA GGAA AAA GAA GAT GGA GAA GGA GAA GAG GAA GA
1 G-AA GAA -GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
14163341 TATGGAAGAA
Statistics
Matches: 65, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
2 2 0.03
3 55 0.85
4 8 0.12
ACGTcount: A:0.65, C:0.00, G:0.34, T:0.01
Consensus pattern (3 bp):
GAA
Found at i:14168501 original size:20 final size:21
Alignment explanation
Indices: 14168478--14168517 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14168468 TTTTCATGTT
* *
14168478 CAAG-TTTTTTTATTCCATTG
1 CAAGATTTCTTTACTCCATTG
14168498 CAAGATTTCTTTACTCCATT
1 CAAGATTTCTTTACTCCATT
14168518 TGATTAGTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.23, C:0.20, G:0.07, T:0.50
Consensus pattern (21 bp):
CAAGATTTCTTTACTCCATTG
Found at i:14174893 original size:48 final size:47
Alignment explanation
Indices: 14174838--14175042 Score: 195
Period size: 48 Copynumber: 4.4 Consensus size: 47
14174828 ATATCCTGAT
*
14174838 ATGGTCTTACATGGGATCAAATATCGATGCCAACACCATGTCCCAGAC
1 ATGGTCTTACATGGGATCACATATCGATGCCAA-ACCATGTCCCAGAC
* ** * * *
14174886 ATGGTCTTACACGGGATCGTAGATCGATGCCAATGCCATGTCCCAGAT
1 ATGGTCTTACATGGGATCACATATCGATGCCAA-ACCATGTCCCAGAC
* * *
14174934 ATAGTCTTACATGGGATCACATATCGATGCC-GA-TA-G-CCCAG-C
1 ATGGTCTTACATGGGATCACATATCGATGCCAAACCATGTCCCAGAC
* * ** *
14174976 TATGGTCTTATACGAAATTACATATCGATGCCAAAGCCATGTCCCAGAC
1 -ATGGTCTTACATGGGATCACATATCGATGCCAAA-CCATGTCCCAGAC
*
14175025 ATGGTCTTACATTGGATC
1 ATGGTCTTACATGGGATC
14175043 GCACATAACC
Statistics
Matches: 120, Mismatches: 30, Indels: 14
0.73 0.18 0.09
Matches are distributed among these distances:
43 30 0.25
44 2 0.02
45 1 0.01
46 1 0.01
47 1 0.01
48 84 0.70
49 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.26
Consensus pattern (47 bp):
ATGGTCTTACATGGGATCACATATCGATGCCAAACCATGTCCCAGAC
Found at i:14181576 original size:48 final size:47
Alignment explanation
Indices: 14181501--14181646 Score: 141
Period size: 48 Copynumber: 3.1 Consensus size: 47
14181491 CACATGGTAG
* * * *
14181501 GATGCTAATGCCATATCTCAGATATGGTCATACGTGGGATCACATATC
1 GATGCCAATGCCATGTCTCAGACATGGTC-TACATGGGATCACATATC
* * * ** *
14181549 GATGCCAACGCCATGTCCCAGACATGGTCTTACACGGGATCTTAGATC
1 GATGCCAATGCCATGTCTCAGACATGGTC-TACATGGGATCACATATC
* * *
14181597 GATGCCAATACCATGTCTCAGGCATGGTCTTCTATGGGATCACAT-TC
1 GATGCCAATGCCATGTCTCAGACATGGTCTAC-ATGGGATCACATATC
14181644 GAT
1 GAT
14181647 ACCGATAGCC
Statistics
Matches: 77, Mismatches: 20, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
47 7 0.09
48 70 0.91
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (47 bp):
GATGCCAATGCCATGTCTCAGACATGGTCTACATGGGATCACATATC
Found at i:14181799 original size:31 final size:31
Alignment explanation
Indices: 14181761--14181826 Score: 132
Period size: 31 Copynumber: 2.1 Consensus size: 31
14181751 ACATGGCCTT
14181761 ACATAGAATTGCACATAACCCTAATGTCATG
1 ACATAGAATTGCACATAACCCTAATGTCATG
14181792 ACATAGAATTGCACATAACCCTAATGTCATG
1 ACATAGAATTGCACATAACCCTAATGTCATG
14181823 ACAT
1 ACAT
14181827 TTGTATCCCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.39, C:0.23, G:0.12, T:0.26
Consensus pattern (31 bp):
ACATAGAATTGCACATAACCCTAATGTCATG
Found at i:14184007 original size:65 final size:65
Alignment explanation
Indices: 14183903--14184025 Score: 185
Period size: 65 Copynumber: 1.9 Consensus size: 65
14183893 ATAGGTCCTA
** *
14183903 TACTGACTTTTTCACACGGCCAATAGGCACGCCCGTGTACTATGGCCGTGTGATACTTAGCTAGC
1 TACTGACTTTAGCACACGGCCAATAGACACGCCCGTGTACTATGGCCGTGTGATACTTAGCTAGC
* *
14183968 TACTGACTTTAGCTCACGGCCATATA-ACACGCCCGTGTACTATGGTCGTGTGATACTT
1 TACTGACTTTAGCACACGGCCA-ATAGACACGCCCGTGTACTATGGCCGTGTGATACTT
14184026 GGGATATTAC
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
65 49 0.94
66 3 0.06
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (65 bp):
TACTGACTTTAGCACACGGCCAATAGACACGCCCGTGTACTATGGCCGTGTGATACTTAGCTAGC
Found at i:14184051 original size:65 final size:66
Alignment explanation
Indices: 14183903--14184052 Score: 168
Period size: 65 Copynumber: 2.3 Consensus size: 66
14183893 ATAGGTCCTA
* * *
14183903 TACTGACTTTT-TCACACGGCCAATAGGCACGCCCGTGTACTATGGCCGTGTGATACTTAGCTAG
1 TACTGACTTTTCTTACACGGCCAATAGACACGCCCGTGTACTATGGCCGTGTGATACTTAGATAG
14183967 C
66 C
* * *
14183968 TACTGACTTTAGC-T-CACGGCCATATA-ACACGCCCGTGTACTATGGTCGTGTGATACTTGGGA
1 TACTGACTTT-TCTTACACGGCCA-ATAGACACGCCCGTGTACTATGGCCGTGTGATACTT-AGA
*
14184030 TA-T
63 TAGC
14184033 TACT-ACTTTTCTTACACGGC
1 TACTGACTTTTCTTACACGGC
14184053 TACAATGCAC
Statistics
Matches: 71, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
63 1 0.01
64 6 0.08
65 58 0.82
66 6 0.08
ACGTcount: A:0.22, C:0.26, G:0.21, T:0.31
Consensus pattern (66 bp):
TACTGACTTTTCTTACACGGCCAATAGACACGCCCGTGTACTATGGCCGTGTGATACTTAGATAG
C
Found at i:14189180 original size:28 final size:28
Alignment explanation
Indices: 14189111--14189211 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
14189101 GACAAGATTG
* * * *
14189111 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGTTT--GATTATATA
14189141 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
14189169 GCACTAAGTGTGCGAG-TTGAATACATATA
1 GCACTAAGTGTGCGAGTTTG-AT-TATATA
14189198 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
14189212 GATTCACTAT
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 3 0.05
28 24 0.38
29 19 0.30
30 18 0.28
ACGTcount: A:0.30, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:14193269 original size:35 final size:35
Alignment explanation
Indices: 14193223--14193295 Score: 146
Period size: 35 Copynumber: 2.1 Consensus size: 35
14193213 TAAATGCGAG
14193223 CTTAACTTCCCTTTTTGCTTGAATCTTATTACCTT
1 CTTAACTTCCCTTTTTGCTTGAATCTTATTACCTT
14193258 CTTAACTTCCCTTTTTGCTTGAATCTTATTACCTT
1 CTTAACTTCCCTTTTTGCTTGAATCTTATTACCTT
14193293 CTT
1 CTT
14193296 TTAGGGAGTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.16, C:0.26, G:0.05, T:0.52
Consensus pattern (35 bp):
CTTAACTTCCCTTTTTGCTTGAATCTTATTACCTT
Found at i:14212461 original size:19 final size:19
Alignment explanation
Indices: 14212437--14212487 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
14212427 CATGGCCTAA
14212437 AGACACGGGCGTGTCAAAG
1 AGACACGGGCGTGTCAAAG
14212456 AGACACGGGCGTGTCAAAG
1 AGACACGGGCGTGTCAAAG
14212475 -GCACACGGGCGTG
1 AG-ACACGGGCGTG
14212488 CCCCTGTGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
18 1 0.03
19 30 0.97
ACGTcount: A:0.27, C:0.24, G:0.39, T:0.10
Consensus pattern (19 bp):
AGACACGGGCGTGTCAAAG
Found at i:14224759 original size:22 final size:22
Alignment explanation
Indices: 14224734--14224782 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 22
14224724 ATTTTATGCT
14224734 AATTGATAA-AGAT-TAATATATA
1 AATT-ATAATAGATATAAT-TATA
14224756 AATTATAATAGATATAATTATA
1 AATTATAATAGATATAATTATA
14224778 AATTA
1 AATTA
14224783 AAGATTATCT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.16
22 17 0.68
23 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.06, T:0.39
Consensus pattern (22 bp):
AATTATAATAGATATAATTATA
Found at i:14227377 original size:93 final size:93
Alignment explanation
Indices: 14227265--14227435 Score: 315
Period size: 93 Copynumber: 1.8 Consensus size: 93
14227255 GCCCATAAGT
* *
14227265 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
14227330 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
14227358 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
14227423 CGAGTTCGGATGC
66 CGAGTTCGGATGC
14227436 TCAACCATCC
Statistics
Matches: 75, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:14227432 original size:46 final size:46
Alignment explanation
Indices: 14227257--14227432 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
14227247 TGTAACCCGC
* * *
14227257 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
14227303 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
14227353 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
14227396 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
14227433 TGCTCAACCA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:14233841 original size:40 final size:40
Alignment explanation
Indices: 14233772--14233948 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
14233762 CGGATGATAA
* * * *
14233772 CCGGACTAAGATCCGAAGGCATTCGTGCTAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * *
14233812 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
14233852 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* *
14233892 CCGAGCTAAGACCCGAAGGCATTTGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
14233932 CC-GGCTAA-ATCCCGAAG
1 CCGGGCTAAGA-CCCGAAG
14233949 ATACTTGGGT
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 14 0.12
40 102 0.86
41 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:14234216 original size:22 final size:22
Alignment explanation
Indices: 14234176--14234217 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
14234166 GAATGTGCAT
*
14234176 ATATGAAGTTATTCATTTAGCC
1 ATATGAAGTTATACATTTAGCC
14234198 ATATGAATGTTATAC-TTTAG
1 ATATGAA-GTTATACATTTAG
14234218 TCAAAACTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.33, C:0.10, G:0.14, T:0.43
Consensus pattern (22 bp):
ATATGAAGTTATACATTTAGCC
Found at i:14242531 original size:29 final size:29
Alignment explanation
Indices: 14242490--14242563 Score: 121
Period size: 29 Copynumber: 2.6 Consensus size: 29
14242480 GTGACGAGAT
* *
14242490 TGGCACTAAGTGTGCGAGCTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAATCACA
*
14242519 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAATCACA
14242548 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
14242564 TGATCGATTA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 41 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTAAATCACA
Found at i:14248248 original size:112 final size:112
Alignment explanation
Indices: 14248056--14248281 Score: 355
Period size: 112 Copynumber: 2.0 Consensus size: 112
14248046 TGAATAGAAC
14248056 CCGAAATAAGAATTAGTTAAAGCCACGAAAGCGAGTTAATCTTCCGTCCTTAGAATTGGTAAAAT
1 CCGAAATAAGAATTAGTTAAAGCCACGAAAGCGAGTTAATCTTCCGTCCTTAGAATTGGTAAAAT
* ** *
14248121 CTACAAGTTAGTTTTATGTCTTTATTTTTCTAAAGTATGAATTTTCA
66 CTAAAAAATACTTTTATGTCTTTATTTTTCTAAAGTATGAATTTTCA
* * * **
14248168 CCGAAATAATAATTAGTTACAGCCACCG-AAGCGAGTTAGTCTTTTGTCCTTAGAATTGGTAAAA
1 CCGAAATAAGAATTAGTTAAAGCCA-CGAAAGCGAGTTAATCTTCCGTCCTTAGAATTGGTAAAA
14248232 TCTAAAAAATACTTTTATGTCTTTATTTTTCTAAAGTATGAATTTTCA
65 TCTAAAAAATACTTTTATGTCTTTATTTTTCTAAAGTATGAATTTTCA
14248280 CC
1 CC
14248282 ACCCTAAGAT
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
112 102 0.98
113 2 0.02
ACGTcount: A:0.34, C:0.15, G:0.14, T:0.37
Consensus pattern (112 bp):
CCGAAATAAGAATTAGTTAAAGCCACGAAAGCGAGTTAATCTTCCGTCCTTAGAATTGGTAAAAT
CTAAAAAATACTTTTATGTCTTTATTTTTCTAAAGTATGAATTTTCA
Found at i:14251327 original size:40 final size:40
Alignment explanation
Indices: 14251268--14251369 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
14251258 AAATTGAATG
* * * * *
14251268 ATATCCGGGCTAAGCCCCGAAGATAATTATGCTGGAAATT
1 ATATCCGGGTTAAGACCCGAAGACAATTATGCTAGAAACT
* * ***
14251308 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGTTAAGACCCGAAGACAATTATGCTAGAAACT
14251348 ATATCCGGGTTAAGACCCGAAG
1 ATATCCGGGTTAAGACCCGAAG
14251370 GCATTCGTGC
Statistics
Matches: 52, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 52 1.00
ACGTcount: A:0.29, C:0.21, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGTTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:14251370 original size:40 final size:40
Alignment explanation
Indices: 14251307--14251435 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
14251297 TGCTGGAAAT
* *
14251307 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTGAC
* *
14251347 TATATCCGGGTTAAGACCCGAAGGC-ATTCGTGCGAGTTAT
1 TATATCCGGGTTAAGACCCGAAGGCAATT-GTGCGAGTGAC
* * * *
14251387 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCGA-GTGAC
14251427 TATATCCGG
1 TATATCCGG
14251436 TTATATTCCG
Statistics
Matches: 77, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
39 4 0.05
40 71 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TATATCCGGGTTAAGACCCGAAGGCAATTGTGCGAGTGAC
Found at i:14254904 original size:48 final size:48
Alignment explanation
Indices: 14254842--14254975 Score: 187
Period size: 48 Copynumber: 2.8 Consensus size: 48
14254832 TTATTTATCA
* * * *
14254842 TGTAGGTTTCACCCTGATGGGTAACGAAGCACTATTATTCATTATTCG
1 TGTAGGTTTAACCCTAACGGGTAACGAAGCACTATTATTCATCATTCG
*
14254890 TGTAGGTTTAACCCTAACAGGTAACGAAGCACTATTATTCATCATTCG
1 TGTAGGTTTAACCCTAACGGGTAACGAAGCACTATTATTCATCATTCG
* * *
14254938 TGTAGGTTTTAACCCAAACGGGTAACTAGGCACTATTA
1 TGTAGG-TTTAACCCTAACGGGTAACGAAGCACTATTA
14254976 CTTTCACCTA
Statistics
Matches: 76, Mismatches: 9, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
48 49 0.64
49 27 0.36
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.32
Consensus pattern (48 bp):
TGTAGGTTTAACCCTAACGGGTAACGAAGCACTATTATTCATCATTCG
Found at i:14257352 original size:27 final size:26
Alignment explanation
Indices: 14257277--14257385 Score: 110
Period size: 27 Copynumber: 4.0 Consensus size: 26
14257267 AAGCGTCCTA
* * **
14257277 GTGGCTATGCCACAATTTTCTAATCTG
1 GTGGCTCTGCCAC-ATTATCTGTTCTG
14257304 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGTTCTG
*
14257331 GTGGCTCTGCCACGATTATCTGTATCTA
1 GTGGCTCTGCCAC-ATTATCTGT-TCTG
* * *
14257359 GTGACTCTGTCATATTATCTGTTCTG
1 GTGGCTCTGCCACATTATCTGTTCTG
14257385 G
1 G
14257386 CAGCCATGCT
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
26 6 0.09
27 49 0.70
28 15 0.21
ACGTcount: A:0.17, C:0.23, G:0.21, T:0.39
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGTTCTG
Found at i:14263958 original size:16 final size:16
Alignment explanation
Indices: 14263937--14263969 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
14263927 AATCGAATTC
14263937 TCTGCTCATCTCTTCT
1 TCTGCTCATCTCTTCT
*
14263953 TCTGCTCATCTTTTCT
1 TCTGCTCATCTCTTCT
14263969 T
1 T
14263970 TTTCTTTTAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.06, C:0.33, G:0.06, T:0.55
Consensus pattern (16 bp):
TCTGCTCATCTCTTCT
Found at i:14264060 original size:20 final size:21
Alignment explanation
Indices: 14264032--14264072 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
14264022 GAATACTACC
*
14264032 TCTTTTATCATC-CTTTTCCT
1 TCTTCTATCATCTCTTTTCCT
*
14264052 TCTTCTATCTTCTCTTTTCCT
1 TCTTCTATCATCTCTTTTCCT
14264073 CATAATCGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.07, C:0.32, G:0.00, T:0.61
Consensus pattern (21 bp):
TCTTCTATCATCTCTTTTCCT
Found at i:14265206 original size:27 final size:27
Alignment explanation
Indices: 14265166--14265277 Score: 131
Period size: 27 Copynumber: 4.1 Consensus size: 27
14265156 AGGAAGTGTC
*
14265166 CTGGTGGCTATGCCACAATTATCT-TAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
14265193 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACAT-TATCTGTAT
*
14265220 CTAGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCAC-ATTATCTGTAT
* **
14265248 CTGGTGACTCTATCACATTATCTGT-T
1 CTGGTGGCTCTGCCACATTATCTGTAT
14265274 CTGG
1 CTGG
14265278 CATCCATGCT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
26 7 0.09
27 52 0.69
28 16 0.21
ACGTcount: A:0.18, C:0.24, G:0.21, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACATTATCTGTAT
Found at i:14265270 original size:54 final size:54
Alignment explanation
Indices: 14265169--14265275 Score: 153
Period size: 54 Copynumber: 2.0 Consensus size: 54
14265159 AAGTGTCCTG
* *
14265169 GTGGCTATGCCACAATTATCTTATCTGGTGGCTCTGCCACATATATCTGTTCTA
1 GTGGCTATGCCACAATTATCTTATCTGGTGACTCTACCACATATATCTGTTCTA
* * *
14265223 GTGGCTCTGCCACGATTATCTGTATCTGGTGACTCTATCACAT-TATCTGTTCT
1 GTGGCTATGCCACAATTATCT-TATCTGGTGACTCTACCACATATATCTGTTCT
14265276 GGCATCCATG
Statistics
Matches: 47, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
54 29 0.62
55 18 0.38
ACGTcount: A:0.19, C:0.24, G:0.19, T:0.38
Consensus pattern (54 bp):
GTGGCTATGCCACAATTATCTTATCTGGTGACTCTACCACATATATCTGTTCTA
Found at i:14281036 original size:20 final size:20
Alignment explanation
Indices: 14280970--14281036 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
14280960 ATTTTAGTAA
*
14280970 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
* *
14280990 ACATGACATGTATGCTATGC
1 ACATGATATGTATGATATGC
*
14281010 ACATGATATGTATTATATGC
1 ACATGATATGTATGATATGC
14281030 ACATGAT
1 ACATGAT
14281037 GTATTCATAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:14281163 original size:47 final size:46
Alignment explanation
Indices: 14281086--14281184 Score: 171
Period size: 47 Copynumber: 2.1 Consensus size: 46
14281076 GAGGAAGTGC
14281086 AAAAGGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
1 AAAA-GGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
*
14281133 AAAAGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATT
14281180 AAAAG
1 AAAAG
14281185 AGGCTAGGCC
Statistics
Matches: 50, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
46 19 0.38
47 31 0.62
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.29
Consensus pattern (46 bp):
AAAAGGCTTATGCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT
Found at i:14281170 original size:24 final size:24
Alignment explanation
Indices: 14281086--14281203 Score: 179
Period size: 23 Copynumber: 5.0 Consensus size: 24
14281076 GAGGAAGTGC
14281086 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
14281110 -AAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
14281133 AAAA-GGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
14281156 AAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
14281180 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
14281204 ACGATAAAGC
Statistics
Matches: 87, Mismatches: 3, Indels: 7
0.90 0.03 0.07
Matches are distributed among these distances:
23 46 0.53
24 30 0.34
25 11 0.13
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:14281430 original size:31 final size:31
Alignment explanation
Indices: 14281395--14281454 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
14281385 CGTTTACAGT
14281395 AAAGGCTTCGGGCCAGTAATATGAAATATAA
1 AAAGGCTTCGGGCCAGTAATATGAAATATAA
**
14281426 AAAGGCTTCGGGCCAGTGTTATGAAATAT
1 AAAGGCTTCGGGCCAGTAATATGAAATAT
14281455 GAAATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGGCCAGTAATATGAAATATAA
Found at i:14284544 original size:94 final size:94
Alignment explanation
Indices: 14284383--14284562 Score: 270
Period size: 94 Copynumber: 1.9 Consensus size: 94
14284373 TTTTTGACCC
* * * * * *
14284383 ACACGGCTTGGACACACAGGCATGTGCCAGGTTGTGTGCATAATAAGGGGTTCGACAACGAGTTA
1 ACACGGCCTGGACACACAGGCATGTCCCAAGTCGTGTGCACAATAAAGGGTTCGACAACGAGTTA
* *
14284448 CATGGCTTGGCGACATGGCCATGCAACCG
66 CATGGCCTGGCAACATGGCCATGCAACCG
**
14284477 ACACGGCCTGGACACACAGGCATGTCCCAAGTCGTGTGCACAATAAAGGGTTCGACAGTGAGTTA
1 ACACGGCCTGGACACACAGGCATGTCCCAAGTCGTGTGCACAATAAAGGGTTCGACAACGAGTTA
14284542 CATGGCCTGGCAACATGGCCA
66 CATGGCCTGGCAACATGGCCA
14284563 CATGACCTAC
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
94 76 1.00
ACGTcount: A:0.27, C:0.25, G:0.29, T:0.19
Consensus pattern (94 bp):
ACACGGCCTGGACACACAGGCATGTCCCAAGTCGTGTGCACAATAAAGGGTTCGACAACGAGTTA
CATGGCCTGGCAACATGGCCATGCAACCG
Found at i:14284585 original size:94 final size:93
Alignment explanation
Indices: 14284393--14284596 Score: 239
Period size: 94 Copynumber: 2.2 Consensus size: 93
14284383 ACACGGCTTG
* * * * * *
14284393 GACACACAGGCATGTGCCAGGTTGTGTGCATAATAAGGGGTTCGACAACGAGTTACATGGCTTGG
1 GACACACAGGCATGTCCCAAGTCGTGTGCACAATAAAGGGTTCGACAACGAGTTACATGGCCTGG
* * *
14284458 CGACATGGCCATGCAACCGACACGGCCTG
66 CAACATGGCCATG-AACCGACACGACCTA
**
14284487 GACACACAGGCATGTCCCAAGTCGTGTGCACAATAAAGGGTTCGACAGTGAGTTACATGGCCTGG
1 GACACACAGGCATGTCCCAAGTCGTGTGCACAATAAAGGGTTCGACAACGAGTTACATGGCCTGG
* *
14284552 CAACATGGCCACATG-ACCTACTCGACCTA
66 CAACATGG-C-CATGAACCGACACGACCTA
* *
14284581 GACACACGGGCGTGTC
1 GACACACAGGCATGTC
14284597 ATTGGCCTTG
Statistics
Matches: 93, Mismatches: 15, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
94 88 0.95
95 1 0.01
96 4 0.04
ACGTcount: A:0.26, C:0.26, G:0.28, T:0.19
Consensus pattern (93 bp):
GACACACAGGCATGTCCCAAGTCGTGTGCACAATAAAGGGTTCGACAACGAGTTACATGGCCTGG
CAACATGGCCATGAACCGACACGACCTA
Found at i:14289466 original size:4 final size:4
Alignment explanation
Indices: 14289457--14289485 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
14289447 ATTGTTCTAG
14289457 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
14289486 ATGATATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:14290311 original size:26 final size:26
Alignment explanation
Indices: 14290275--14290328 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
14290265 AAGAGCCAAA
14290275 ATTGGACAAATACAGTTGTTTTTAGG
1 ATTGGACAAATACAGTTGTTTTTAGG
14290301 ATTGGACAAATACAGTTGTTTTTAGG
1 ATTGGACAAATACAGTTGTTTTTAGG
14290327 AT
1 AT
14290329 CTACACGGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.39
Consensus pattern (26 bp):
ATTGGACAAATACAGTTGTTTTTAGG
Found at i:14291405 original size:25 final size:25
Alignment explanation
Indices: 14291372--14291440 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
14291362 CTTTTAATAG
*
14291372 CTGGGGCAAAGCCCTTTTTGATAAA
1 CTGGGGCAAAGCCCTTTTCGATAAA
* * *
14291397 TTGGGGCAAAGCCATTTTCGGTAAA
1 CTGGGGCAAAGCCCTTTTCGATAAA
14291422 CTGGGGCAAAGCCCTTTTC
1 CTGGGGCAAAGCCCTTTTC
14291441 CACTTCCTCC
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.25, C:0.22, G:0.26, T:0.28
Consensus pattern (25 bp):
CTGGGGCAAAGCCCTTTTCGATAAA
Found at i:14291502 original size:11 final size:10
Alignment explanation
Indices: 14291486--14291533 Score: 53
Period size: 11 Copynumber: 4.7 Consensus size: 10
14291476 ATAAATGAAT
14291486 ATATCATATGC
1 ATATCATAT-C
14291497 ATATCATA-C
1 ATATCATATC
*
14291506 ATATCATGTAC
1 ATATCATAT-C
14291517 ATATCATATC
1 ATATCATATC
*
14291527 AAATCAT
1 ATATCAT
14291534 GTATATCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
9 8 0.25
10 7 0.22
11 17 0.53
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (10 bp):
ATATCATATC
Found at i:14291504 original size:5 final size:5
Alignment explanation
Indices: 14291486--14291533 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
14291476 ATAAATGAAT
* *
14291486 ATATC ATATGC ATATC ATA-C ATATC ATGTAC ATATC ATATC AAATC AT
1 ATATC ATAT-C ATATC ATATC ATATC ATAT-C ATATC ATATC ATATC AT
14291534 GTATATCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
4 4 0.11
5 23 0.64
6 9 0.25
ACGTcount: A:0.42, C:0.19, G:0.04, T:0.35
Consensus pattern (5 bp):
ATATC
Found at i:14291511 original size:20 final size:20
Alignment explanation
Indices: 14291486--14291524 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14291476 ATAAATGAAT
*
14291486 ATATCATATGCATATCATAC
1 ATATCATATACATATCATAC
*
14291506 ATATCATGTACATATCATA
1 ATATCATATACATATCATA
14291525 TCAAATCATG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.41, C:0.18, G:0.05, T:0.36
Consensus pattern (20 bp):
ATATCATATACATATCATAC
Found at i:14291534 original size:21 final size:20
Alignment explanation
Indices: 14291496--14291536 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
14291486 ATATCATATG
*
14291496 CATATCATACATATCATGTA
1 CATATCATACAAATCATGTA
14291516 CATATCATATCAAATCATGTA
1 CATATCATA-CAAATCATGTA
14291537 TATCAAAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.41, C:0.20, G:0.05, T:0.34
Consensus pattern (20 bp):
CATATCATACAAATCATGTA
Found at i:14299365 original size:20 final size:21
Alignment explanation
Indices: 14299340--14299387 Score: 80
Period size: 20 Copynumber: 2.3 Consensus size: 21
14299330 AAATGAATAC
*
14299340 ATCATGTGCATATCATA-CAT
1 ATCATGTGCATATCATATCAA
14299360 ATCATGTGCATATCATATCAA
1 ATCATGTGCATATCATATCAA
14299381 ATCATGT
1 ATCATGT
14299388 ATATCAAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.35
Consensus pattern (21 bp):
ATCATGTGCATATCATATCAA
Found at i:14306169 original size:23 final size:23
Alignment explanation
Indices: 14306143--14306266 Score: 97
Period size: 23 Copynumber: 5.2 Consensus size: 23
14306133 AAATGGTATA
* * *
14306143 TATTATTTTCTTTGTATATTATT
1 TATTATATTATTTATATATTATT
14306166 TATTATATTATTTATATATTATTAT
1 TATTATATTATTTATATATTA-T-T
* * * *
14306191 ATATTATATTACTTACATTTTA-A
1 -TATTATATTATTTATATATTATT
*
14306214 TATATATATTATTTTATATATTACT
1 TAT-TATATTA-TTTATATATTATT
* *
14306239 TATCATATTATTTATATTATTATA
1 TATTATATTATTTATA-TATTATT
14306263 TATT
1 TATT
14306267 TTGTTTATAA
Statistics
Matches: 79, Mismatches: 15, Indels: 13
0.74 0.14 0.12
Matches are distributed among these distances:
22 3 0.04
23 31 0.39
24 23 0.29
25 4 0.05
26 18 0.23
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.61
Consensus pattern (23 bp):
TATTATATTATTTATATATTATT
Found at i:14306174 original size:12 final size:12
Alignment explanation
Indices: 14306157--14306266 Score: 79
Period size: 12 Copynumber: 9.1 Consensus size: 12
14306147 ATTTTCTTTG
14306157 TATATTATTTAT
1 TATATTATTTAT
14306169 TATATTATTTA-
1 TATATTATTTAT
14306180 TATATTA-TTA-
1 TATATTATTTAT
14306190 TATATTATATTACT
1 TATATTAT-TTA-T
*
14306204 TACATT-TTAATAT
1 TATATTATT--TAT
14306217 ATATATTATTT-T
1 -TATATTATTTAT
*
14306229 ATATATTACTTAT
1 -TATATTATTTAT
*
14306242 CATATTATTTA-
1 TATATTATTTAT
*
14306253 TATTATTATATAT
1 TA-TATTATTTAT
14306266 T
1 T
14306267 TTGTTTATAA
Statistics
Matches: 80, Mismatches: 7, Indels: 21
0.74 0.06 0.19
Matches are distributed among these distances:
10 10 0.12
11 8 0.10
12 43 0.54
13 5 0.06
14 12 0.15
15 2 0.03
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:14306194 original size:33 final size:33
Alignment explanation
Indices: 14306157--14306266 Score: 107
Period size: 33 Copynumber: 3.2 Consensus size: 33
14306147 ATTTTCTTTG
14306157 TATATTATTTATTATATTATTTATATATTATTA
1 TATATTATTTATTATATTATTTATATATTATTA
* *
14306190 TATATTATATTACTTACATTTTAATATATATATTATTTTA
1 TATATTAT-TTA-TT--ATATT-ATTTATATATTA--TTA
* *
14306230 TATATTACTTATCATATTA-TT-TATATTATTA
1 TATATTATTTATTATATTATTTATATATTATTA
14306261 TATATT
1 TATATT
14306267 TTGTTTATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
31 9 0.14
33 15 0.23
34 4 0.06
35 3 0.05
36 4 0.06
37 4 0.06
38 12 0.19
39 3 0.05
40 10 0.16
ACGTcount: A:0.36, C:0.04, G:0.00, T:0.60
Consensus pattern (33 bp):
TATATTATTTATTATATTATTTATATATTATTA
Found at i:14306247 original size:47 final size:49
Alignment explanation
Indices: 14306160--14306265 Score: 125
Period size: 47 Copynumber: 2.2 Consensus size: 49
14306150 TTCTTTGTAT
*
14306160 ATTATT-TAT-TATATTATTTATATATTATTATATATTATATTACTTAC
1 ATTATTATATATATATTATTTATATATTATTATATATCATATTACTTAC
* *
14306207 ATT-TTAATATATATATTATTT-TATA-TATTACT-TATCATATTATTTAT
1 ATTATT-ATATATATATTATTTATATATTATTA-TATATCATATTACTTAC
14306254 ATTATTATATAT
1 ATTATTATATAT
14306266 TTTGTTTATA
Statistics
Matches: 51, Mismatches: 3, Indels: 10
0.80 0.05 0.16
Matches are distributed among these distances:
46 2 0.04
47 29 0.57
48 10 0.20
49 10 0.20
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.59
Consensus pattern (49 bp):
ATTATTATATATATATTATTTATATATTATTATATATCATATTACTTAC
Found at i:14318149 original size:131 final size:130
Alignment explanation
Indices: 14317994--14318231 Score: 336
Period size: 131 Copynumber: 1.8 Consensus size: 130
14317984 TGTTTACGCT
** *
14317994 GAAGCAGATCCAAGATGATTTGGCATCTCTGTATTGGCAGAGAACAAATTGAAGA-AACAGATTT
1 GAAGCAGATCCAAGATGATTTGGCATCTCTAAATTGGCAGAGAACAAATCGAAGATAACAGATTT
14318058 GGCATCTCCATATT-CGACAGAGCAGATCGAAGACATAGCAGATCTAACCTTCGGATGTTTTTGC
66 GGCATCTCCATATTGC-ACAGAGCAGATCGAAG--ATAGCAGATCTAACCTTCGGATGTTTTTGC
14318122 ATC
128 ATC
* * * *
14318125 GAAGCAGATCCAAGATGATTTGGCATCTCTAAATTGTCAGAGAGCAGATCGAAGATAGCAGATTT
1 GAAGCAGATCCAAGATGATTTGGCATCTCTAAATTGGCAGAGAACAAATCGAAGATAACAGATTT
** *
14318190 GGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCAGAT
66 GGCATCTCCATATTG-CACAGAGCAGATCGAAGATAGCAGAT
14318232 TTGGCATCTC
Statistics
Matches: 94, Mismatches: 10, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
131 58 0.62
132 20 0.21
133 15 0.16
134 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.24, T:0.25
Consensus pattern (130 bp):
GAAGCAGATCCAAGATGATTTGGCATCTCTAAATTGGCAGAGAACAAATCGAAGATAACAGATTT
GGCATCTCCATATTGCACAGAGCAGATCGAAGATAGCAGATCTAACCTTCGGATGTTTTTGCATC
Found at i:14318197 original size:44 final size:44
Alignment explanation
Indices: 14318141--14318324 Score: 305
Period size: 44 Copynumber: 4.2 Consensus size: 44
14318131 GATCCAAGAT
*
14318141 GATTTGGCATCTCTAAATTGTCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTATATTGTCAGAGAGCAGATCGAAGATAGCA
*
14318185 GATTTGGCATCTCTGTATTGTCAGAGAGCAGATCGAAGATAGCA
1 GATTTGGCATCTCTATATTGTCAGAGAGCAGATCGAAGATAGCA
* *
14318229 GATTTGGCATCTCTGTATTGTCAGAGAGTAGATCGAAGATAGCA
1 GATTTGGCATCTCTATATTGTCAGAGAGCAGATCGAAGATAGCA
* * *
14318273 GATTCGGCATCTCTATATTGTCAGAGAGCAGATCGGAGATAACA
1 GATTTGGCATCTCTATATTGTCAGAGAGCAGATCGAAGATAGCA
14318317 GATTTGGC
1 GATTTGGC
14318325 GTTCGTGAGT
Statistics
Matches: 131, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 131 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (44 bp):
GATTTGGCATCTCTATATTGTCAGAGAGCAGATCGAAGATAGCA
Found at i:14319871 original size:12 final size:12
Alignment explanation
Indices: 14319854--14319925 Score: 83
Period size: 12 Copynumber: 5.8 Consensus size: 12
14319844 TTTTTCTTTG
14319854 TATATTATTTAT
1 TATATTATTTAT
14319866 TATATTATTTAT
1 TATATTATTTAT
14319878 ATATTATTATTTAT
1 -TA-TATTATTTAT
*
14319892 TATATTACTTACAT
1 TATATTA-TT-TAT
14319906 TATATT-TTTAT
1 TATATTATTTAT
*
14319917 TTTATTATT
1 TATATTATT
14319926 AAATAAATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
11 7 0.13
12 21 0.40
13 6 0.12
14 18 0.35
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (12 bp):
TATATTATTTAT
Found at i:14319885 original size:26 final size:26
Alignment explanation
Indices: 14319854--14319925 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
14319844 TTTTTCTTTG
*
14319854 TATATTATTTATTATATTATTTATA-
1 TATATTATTTATTATATTATTTACAT
*
14319879 TATTATTATTTATTATATTACTTACAT
1 TA-TATTATTTATTATATTATTTACAT
*
14319906 TATATT-TTTATTTTATTATT
1 TATATTATTTATTATATTATT
14319926 AAATAAATAT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.34
26 25 0.61
27 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (26 bp):
TATATTATTTATTATATTATTTACAT
Found at i:14323089 original size:25 final size:25
Alignment explanation
Indices: 14323061--14323109 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
14323051 GCAGAGAACC
* *
14323061 AATCATATAACTCATGATAATGATT
1 AATCACATAACTCATCATAATGATT
* *
14323086 AATCACATAATTCTTCATAATGAT
1 AATCACATAACTCATCATAATGAT
14323110 AATAATTAGG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (25 bp):
AATCACATAACTCATCATAATGATT
Found at i:14335041 original size:38 final size:38
Alignment explanation
Indices: 14334999--14335075 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
14334989 TTCATTGTTC
14334999 TTGAGTTATCTGATTATGATTTTGTTAATGTAGAACTA
1 TTGAGTTATCTGATTATGATTTTGTTAATGTAGAACTA
14335037 TTGAGTTATCTGATTATGATTTTGTTAATGTAGAACTA
1 TTGAGTTATCTGATTATGATTTTGTTAATGTAGAACTA
14335075 T
1 T
14335076 GGATTGCATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.29, C:0.05, G:0.18, T:0.48
Consensus pattern (38 bp):
TTGAGTTATCTGATTATGATTTTGTTAATGTAGAACTA
Found at i:14336549 original size:29 final size:29
Alignment explanation
Indices: 14336488--14336542 Score: 87
Period size: 27 Copynumber: 2.0 Consensus size: 29
14336478 ACAAAAACAC
*
14336488 AAAAATCTATAAAATTAGAAAAAATTTAG
1 AAAAATCTATAAAAATAGAAAAAATTTAG
14336517 AAAAATCTA-AAAAATA-AAAAAATTTA
1 AAAAATCTATAAAAATAGAAAAAATTTA
14336543 TAGAAAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 10 0.40
28 6 0.24
29 9 0.36
ACGTcount: A:0.67, C:0.04, G:0.04, T:0.25
Consensus pattern (29 bp):
AAAAATCTATAAAAATAGAAAAAATTTAG
Found at i:14340613 original size:22 final size:23
Alignment explanation
Indices: 14340588--14340633 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
14340578 CAACCAAATC
14340588 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
14340610 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
14340633 A
1 A
14340634 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:14340639 original size:23 final size:23
Alignment explanation
Indices: 14340595--14340639 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14340585 ATCAATTCAA
*
14340595 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
14340618 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
14340640 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:14348325 original size:22 final size:23
Alignment explanation
Indices: 14348300--14348345 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
14348290 CAACCAAATC
14348300 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
14348322 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
14348345 A
1 A
14348346 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:14348351 original size:23 final size:23
Alignment explanation
Indices: 14348307--14348351 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
14348297 ATCAATTCAA
*
14348307 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
14348330 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
14348352 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:14352058 original size:20 final size:20
Alignment explanation
Indices: 14352019--14352058 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
14352009 TTAAATTCTA
*
14352019 AAAGACAAATACAAACAAAT
1 AAAGACAAATAAAAACAAAT
* *
14352039 AAAGATAAATAAAAATAAAT
1 AAAGACAAATAAAAACAAAT
14352059 CCTAAATTTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.72, C:0.07, G:0.05, T:0.15
Consensus pattern (20 bp):
AAAGACAAATAAAAACAAAT
Found at i:14352846 original size:98 final size:99
Alignment explanation
Indices: 14352718--14352899 Score: 305
Period size: 98 Copynumber: 1.8 Consensus size: 99
14352708 TTTAATTTAA
* *
14352718 TTTATTTTTACTTAGGAATATATTGAACCTTTTGACGCGAAGAGAGATGACAGCCAAGCACCCCA
1 TTTATTTTTACTTAAGAATATATTGAACCTTTTGACGCGAAGAGAGAAGACAGCCAAGCACCCCA
14352783 CCCCAGTTACTCAGCCCAATATACTCCTAATTTT
66 CCCCAGTTACTCAGCCCAATATACTCCTAATTTT
* *
14352817 TTTATTTTT-CTTAAGAACT-TATTGAACCTTTTGACGCGAAGAGATAAGACAGCCAAGCACCTC
1 TTTATTTTTACTTAAGAA-TATATTGAACCTTTTGACGCGAAGAGAGAAGACAGCCAAGCACCCC
14352880 ACCCCAGTTACTCAGCCCAA
65 ACCCCAGTTACTCAGCCCAA
14352900 CATAAAAAAT
Statistics
Matches: 78, Mismatches: 4, Indels: 3
0.92 0.05 0.04
Matches are distributed among these distances:
98 68 0.87
99 10 0.13
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (99 bp):
TTTATTTTTACTTAAGAATATATTGAACCTTTTGACGCGAAGAGAGAAGACAGCCAAGCACCCCA
CCCCAGTTACTCAGCCCAATATACTCCTAATTTT
Found at i:14354281 original size:16 final size:16
Alignment explanation
Indices: 14354260--14354350 Score: 80
Period size: 16 Copynumber: 5.4 Consensus size: 16
14354250 TAATATCCAA
14354260 AATAAAATAAATAAAT
1 AATAAAATAAATAAAT
14354276 AATAAATAATTAAAATAAAAT
1 AAT-AA-AA-T-AAAT-AAAT
14354297 AATAAAAT-AATAAAAT
1 AATAAAATAAAT-AAAT
*
14354313 AATAAAAT-AATAGAT
1 AATAAAATAAATAAAT
*
14354328 AAATAAAATAAAGAAA-
1 -AATAAAATAAATAAAT
14354344 AATAAAA
1 AATAAAA
14354351 ATTGGATTGC
Statistics
Matches: 65, Mismatches: 3, Indels: 15
0.78 0.04 0.18
Matches are distributed among these distances:
15 10 0.15
16 30 0.46
17 6 0.09
18 3 0.05
19 3 0.05
20 6 0.09
21 7 0.11
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (16 bp):
AATAAAATAAATAAAT
Done.