Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 98600468
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: 98600468
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 273 characters in sequence are not A, C, G, or T
File 97 of 325
Found at i:28485766 original size:22 final size:22
Alignment explanation
Indices: 28485698--28485780 Score: 57
Period size: 21 Copynumber: 3.9 Consensus size: 22
28485688 GCGTGTGGCT
*
28485698 GAGGCACATGCCCGTGTGAAGA
1 GAGGCACATACCCGTGTGAAGA
* * * *
28485720 GAAGCATAT-CGTCGTGTG--GCT
1 GAGGCACATAC-CCGTGTGAAG-A
28485741 GAGGCACATACCCGTGTGAAGA
1 GAGGCACATACCCGTGTGAAGA
* *
28485763 GAGGTACACA-CCGTGTGA
1 GAGGCACATACCCGTGTGA
28485781 CTGAGGCATA
Statistics
Matches: 46, Mismatches: 10, Indels: 11
0.69 0.15 0.16
Matches are distributed among these distances:
20 1 0.02
21 22 0.48
22 22 0.48
23 1 0.02
ACGTcount: A:0.27, C:0.22, G:0.34, T:0.18
Consensus pattern (22 bp):
GAGGCACATACCCGTGTGAAGA
Found at i:28491739 original size:12 final size:14
Alignment explanation
Indices: 28491724--28491755 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
28491714 GTGAGAACAC
28491724 ATGTGTA-G-TACT
1 ATGTGTAGGCTACT
28491736 ATGTGTAGGCTACT
1 ATGTGTAGGCTACT
28491750 ATGTGT
1 ATGTGT
28491756 TTAAGATGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.39
13 1 0.06
14 10 0.56
ACGTcount: A:0.22, C:0.09, G:0.28, T:0.41
Consensus pattern (14 bp):
ATGTGTAGGCTACT
Found at i:28491911 original size:51 final size:50
Alignment explanation
Indices: 28491721--28491953 Score: 245
Period size: 50 Copynumber: 4.6 Consensus size: 50
28491711 GTTGTGAGAA
* * * *** *
28491721 CACATGTGTAGTACTATGTGTAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
* * *
28491773 CACATGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGGTTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * *
28491823 CGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-TTAGGT
* *
28491874 CACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCAGATTA-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTTAGGT
28491924 CGA-ATGTGTAGTACTAAGTGCAGGCTACTA
1 C-ACATGTGTAGTACTAAGTGCAGGCTACTA
28491954 TGCATACCAA
Statistics
Matches: 150, Mismatches: 28, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
50 73 0.49
51 40 0.27
52 37 0.25
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.32
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:28491912 original size:101 final size:101
Alignment explanation
Indices: 28491772--28491961 Score: 317
Period size: 101 Copynumber: 1.9 Consensus size: 101
28491762 TGGTTTTAGG
* * *
28491772 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGGTTGTTAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTATTAGGTCGAATGTGTAGTAC
*
28491837 TAAGTGCAGGCTACTATGCGTACCCGATAGCTTCGA
66 TAAGTGCAGGCTACTATGCATACCCGATAGCTTCGA
* * *
28491873 TCACGTGTGTAGTACTAAGTGCAGGCTATTACGTGTACCAGATTATTAGGTCGAATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTATTAGGTCGAATGTGTAGTAC
28491938 TAAGTGCAGGCTACTATGCATACC
66 TAAGTGCAGGCTACTATGCATACC
28491962 AAAGAGCTTT
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 82 1.00
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTATACCAGATTATTAGGTCGAATGTGTAGTAC
TAAGTGCAGGCTACTATGCATACCCGATAGCTTCGA
Found at i:28491999 original size:101 final size:101
Alignment explanation
Indices: 28491780--28491999 Score: 251
Period size: 101 Copynumber: 2.2 Consensus size: 101
28491770 GGTCACATGT
* * * * *
28491780 GTAGTACTAAGTGCAGGCTACTACGTATACCAGGTTGTTAGGTCGCATGTGTAGTACTAAGTGCA
1 GTAGTAATAAGTACAGGCTACTACGTATACCAGATTATTAGGTCGAATGTGTAGTACTAAGTGCA
* ** * ** *
28491845 GGCTACTATGCGTACCCGATAGCTTCGATCACGTGT
66 GGCTACTATGCATACCAAAGAGCTTCGATCACAAGG
* * * *
28491881 GTAGTACTAAGTGCAGGCTATTACGTGTACCAGATTATTAGGTCGAATGTGTAGTACTAAGTGCA
1 GTAGTAATAAGTACAGGCTACTACGTATACCAGATTATTAGGTCGAATGTGTAGTACTAAGTGCA
* * *
28491946 GGCTACTATGCATACCAAAGAGCTTTGGTTACAAGG
66 GGCTACTATGCATACCAAAGAGCTTCGATCACAAGG
* *
28491982 GTGGTAATATGTACAGGC
1 GTAGTAATAAGTACAGGC
28492000 CACGGGGTAT
Statistics
Matches: 100, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.27, C:0.18, G:0.27, T:0.29
Consensus pattern (101 bp):
GTAGTAATAAGTACAGGCTACTACGTATACCAGATTATTAGGTCGAATGTGTAGTACTAAGTGCA
GGCTACTATGCATACCAAAGAGCTTCGATCACAAGG
Found at i:28493856 original size:18 final size:20
Alignment explanation
Indices: 28493815--28493856 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
28493805 CGGGCTGAGG
*
28493815 ACACGGGCGTGTCTAGAGCC
1 ACACGGGCGTGTCGAGAGCC
28493835 ACACGGGCGTGT-GAGA-CC
1 ACACGGGCGTGTCGAGAGCC
28493853 ACAC
1 ACAC
28493857 ATCCTACCCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 6 0.29
19 3 0.14
20 12 0.57
ACGTcount: A:0.24, C:0.31, G:0.33, T:0.12
Consensus pattern (20 bp):
ACACGGGCGTGTCGAGAGCC
Found at i:28495719 original size:28 final size:28
Alignment explanation
Indices: 28495679--28495771 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
28495669 ATGTACTAGA
28495679 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
28495707 ATACCCCTATGTATGCAAAATTACCATC
1 ATACCCCTATGTATGCAAAATTACCATT
* *
28495735 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
28495763 ATACCCCTA
1 ATACCCCTA
28495772 GAGTTAATTT
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 61 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.30
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:28497318 original size:40 final size:40
Alignment explanation
Indices: 28497273--28497439 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
28497263 CGGAATATAA
28497273 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
28497313 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
28497353 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
28497393 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
28497432 CCGGATAT
1 CCGGATAT
28497440 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:28505311 original size:40 final size:40
Alignment explanation
Indices: 28505266--28505432 Score: 185
Period size: 40 Copynumber: 4.2 Consensus size: 40
28505256 CGGAATATAA
28505266 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
28505306 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
28505346 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
28505386 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
28505425 CCGGATAT
1 CCGGATAT
28505433 CATTCAATTT
Statistics
Matches: 107, Mismatches: 19, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
39 14 0.13
40 93 0.87
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:28514823 original size:27 final size:27
Alignment explanation
Indices: 28514788--28514871 Score: 150
Period size: 27 Copynumber: 3.1 Consensus size: 27
28514778 ACTAGAATAC
28514788 CCCTATGTATGCAAAATTACCATTATA
1 CCCTATGTATGCAAAATTACCATTATA
28514815 CCCTATGTATGCAAAATTACCATTATA
1 CCCTATGTATGCAAAATTACCATTATA
* *
28514842 CCCTATGTATGCAAAATGACCTTTATA
1 CCCTATGTATGCAAAATTACCATTATA
28514869 CCC
1 CCC
28514872 CTAGGTTAAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.35, C:0.25, G:0.08, T:0.32
Consensus pattern (27 bp):
CCCTATGTATGCAAAATTACCATTATA
Found at i:28516154 original size:11 final size:10
Alignment explanation
Indices: 28516126--28516159 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
28516116 AGCCTGTAAG
28516126 TATTCTGAAT
1 TATTCTGAAT
*
28516136 TTTTCTGAAT
1 TATTCTGAAT
28516146 ATATTCTGAAT
1 -TATTCTGAAT
28516157 TAT
1 TAT
28516160 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:28522378 original size:8 final size:8
Alignment explanation
Indices: 28522365--28522396 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
28522355 CTAGATCGGC
28522365 AAAAGCCG
1 AAAAGCCG
28522373 AAAAGCCG
1 AAAAGCCG
*
28522381 AAATGCCG
1 AAAAGCCG
28522389 AAAAGCCG
1 AAAAGCCG
28522397 GTATTTTGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.47, C:0.25, G:0.25, T:0.03
Consensus pattern (8 bp):
AAAAGCCG
Found at i:28522682 original size:27 final size:27
Alignment explanation
Indices: 28522647--28522731 Score: 143
Period size: 27 Copynumber: 3.1 Consensus size: 27
28522637 ACTAGAATAC
28522647 CCCTATGTATGCAAAATTACCATTATA
1 CCCTATGTATGCAAAATTACCATTATA
28522674 CCCTATGTATGCAAAATTACCATTATA
1 CCCTATGTATGCAAAATTACCATTATA
* *
28522701 CCCCTATGTATGCAAAATGACCTTTATA
1 -CCCTATGTATGCAAAATTACCATTATA
28522729 CCC
1 CCC
28522732 CTAGGGTTAA
Statistics
Matches: 55, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
27 30 0.55
28 25 0.45
ACGTcount: A:0.34, C:0.26, G:0.08, T:0.32
Consensus pattern (27 bp):
CCCTATGTATGCAAAATTACCATTATA
Found at i:28522714 original size:28 final size:28
Alignment explanation
Indices: 28522643--28522734 Score: 159
Period size: 28 Copynumber: 3.3 Consensus size: 28
28522633 ATGTACTAGA
28522643 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
28522671 ATA-CCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
* *
28522698 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
28522726 ATACCCCTA
1 ATACCCCTA
28522735 GGGTTAATTT
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
27 27 0.44
28 34 0.56
ACGTcount: A:0.35, C:0.26, G:0.08, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:28522884 original size:28 final size:27
Alignment explanation
Indices: 28522850--28522929 Score: 97
Period size: 27 Copynumber: 2.9 Consensus size: 27
28522840 CTGATGGCTA
*
28522850 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAA-TATCTGTTCTGGTGGCAC
* * *
28522878 TGCCACATATATCTCTTCTAGTGGCAC
1 TGCCACAAATATCTGTTCTGGTGGCAC
28522905 TGCCACAAAATATCTGTATCTGGTG
1 TGCCAC-AAATATCTGT-TCTGGTG
28522930 ACTCTATCAC
Statistics
Matches: 43, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
27 21 0.49
28 16 0.37
29 6 0.14
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.33
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTGGTGGCAC
Found at i:28524997 original size:38 final size:38
Alignment explanation
Indices: 28524955--28525030 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
28524945 AACTAATGTA
28524955 GGGAAAAACTATTTTTTAAGTCATTTTGGAAACTTAGT
1 GGGAAAAACTATTTTTTAAGTCATTTTGGAAACTTAGT
28524993 GGGAAAAACTATTTTTTAAGTCATTTTGGAAACTTAGT
1 GGGAAAAACTATTTTTTAAGTCATTTTGGAAACTTAGT
28525031 TACCTTATCG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.34, C:0.08, G:0.18, T:0.39
Consensus pattern (38 bp):
GGGAAAAACTATTTTTTAAGTCATTTTGGAAACTTAGT
Found at i:28527631 original size:26 final size:27
Alignment explanation
Indices: 28527594--28527646 Score: 99
Period size: 26 Copynumber: 2.0 Consensus size: 27
28527584 ACAACTAGGT
28527594 TATTTACTTATTTTTGAAATAATTTTG
1 TATTTACTTATTTTTGAAATAATTTTG
28527621 TATTT-CTTATTTTTGAAATAATTTTG
1 TATTTACTTATTTTTGAAATAATTTTG
28527647 CAATATGTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
26 21 0.81
27 5 0.19
ACGTcount: A:0.28, C:0.04, G:0.08, T:0.60
Consensus pattern (27 bp):
TATTTACTTATTTTTGAAATAATTTTG
Found at i:28527657 original size:26 final size:26
Alignment explanation
Indices: 28527602--28527659 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
28527592 GTTATTTACT
* * *
28527602 TATTTTTGAAATAATTTTGTATTTCT
1 TATTTTTGAAATAATTTTGAATATCG
28527628 TATTTTTGAAATAATTTTGCAATAT-G
1 TATTTTTGAAATAATTTTG-AATATCG
28527654 TATTTT
1 TATTTT
28527660 AAAAACAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 25 0.89
27 3 0.11
ACGTcount: A:0.29, C:0.03, G:0.09, T:0.59
Consensus pattern (26 bp):
TATTTTTGAAATAATTTTGAATATCG
Found at i:28528469 original size:14 final size:14
Alignment explanation
Indices: 28528450--28528501 Score: 68
Period size: 14 Copynumber: 3.7 Consensus size: 14
28528440 GGTCAGGTTG
28528450 TAATGTAAAAGTTA
1 TAATGTAAAAGTTA
28528464 TAATGTAAAAGTTA
1 TAATGTAAAAGTTA
* * * *
28528478 CAAAGAAAAACTTA
1 TAATGTAAAAGTTA
28528492 TAATGTAAAA
1 TAATGTAAAA
28528502 TCTGTTTGTA
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.56, C:0.04, G:0.12, T:0.29
Consensus pattern (14 bp):
TAATGTAAAAGTTA
Found at i:28543880 original size:40 final size:40
Alignment explanation
Indices: 28543787--28543980 Score: 210
Period size: 40 Copynumber: 4.8 Consensus size: 40
28543777 TCGAATGGTG
* * * * *
28543787 TCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAA
* * *
28543828 TCCGAGTCAATTCCCGAAGGCATTTGTGCGAGTTACCAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
* *
28543868 TCCGGGTTAATTCCCGAAGGCAATTGTGCGAGTTACCAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
* **
28543908 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCA-AA
* * * *
28543949 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGT
28543981 CGCCATATCC
Statistics
Matches: 131, Mismatches: 21, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
40 105 0.80
41 26 0.20
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAA
Found at i:28546927 original size:39 final size:39
Alignment explanation
Indices: 28546883--28547076 Score: 316
Period size: 39 Copynumber: 5.0 Consensus size: 39
28546873 ATTATATTAT
* *
28546883 CAGCACAAAGCCTGCGGGACTTTAACCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
28546922 CAGCACGAAGCCTGTGGGACTTTGGCCCGGATACATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
* *
28546961 CAGCACGAAGCCTGCGGGACTTTGGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
28547000 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATATATTTC
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
*
28547039 CAGCACGAAGCCTGCGGGACTTTAGCCCGAATACATTT
1 CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
28547077 TCAGTGTCTT
Statistics
Matches: 146, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 146 1.00
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (39 bp):
CAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTTC
Found at i:28552437 original size:40 final size:40
Alignment explanation
Indices: 28552360--28552465 Score: 117
Period size: 40 Copynumber: 2.6 Consensus size: 40
28552350 TGATGTCGGG
* *
28552360 CTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGA
1 CTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAATCCGGA
** *
28552400 CTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGG
1 CTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAATCCGGA
* *
28552440 TTAAGTCCCGAAGGCATTTATGCGAG
1 CTAAGTCCCGAAGGCATTTGTGCGAG
28552466 CTATTATAAC
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
39 1 0.02
40 47 0.84
41 8 0.14
ACGTcount: A:0.25, C:0.24, G:0.26, T:0.25
Consensus pattern (40 bp):
CTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAATCCGGA
Found at i:28560428 original size:40 final size:40
Alignment explanation
Indices: 28560345--28560497 Score: 134
Period size: 40 Copynumber: 3.8 Consensus size: 40
28560335 TCGAATGATG
* *
28560345 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTGACCAAA
* **
28560385 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTGACCAAA
* * **
28560425 TCCGGGTTAAGTCCCGAAGGCATTTATGCGAGCT-ATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGACCA-AA
* * *
28560466 -CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
28560498 CGCTATATCC
Statistics
Matches: 92, Mismatches: 16, Indels: 11
0.77 0.13 0.09
Matches are distributed among these distances:
39 2 0.02
40 79 0.86
41 11 0.12
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACCAAA
Found at i:28569660 original size:20 final size:20
Alignment explanation
Indices: 28569635--28569672 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
28569625 GTTTATTCGC
*
28569635 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
28569655 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
28569673 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:28571353 original size:27 final size:28
Alignment explanation
Indices: 28571297--28571364 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
28571287 GCGTAGATCA
28571297 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
28571325 CGAAATTACCCCTAAAG-GCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
28571352 CGATA-TACCCCTA
1 CGAAATTACCCCTA
28571365 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
26 8 0.21
27 14 0.36
28 17 0.44
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:28577633 original size:20 final size:20
Alignment explanation
Indices: 28577608--28577645 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
28577598 GTTTATTCGC
*
28577608 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
28577628 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
28577646 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:28579304 original size:28 final size:28
Alignment explanation
Indices: 28579272--28579340 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
28579262 GCGTAGATCA
28579272 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
28579300 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
28579328 CGATA-TACCCCTA
1 CGAAATTACCCCTA
28579341 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:28587760 original size:138 final size:137
Alignment explanation
Indices: 28587588--28588007 Score: 659
Period size: 137 Copynumber: 3.1 Consensus size: 137
28587578 GAGAACATAG
* * *
28587588 ATATAATTAATATATAAATTTGATTCATACAAAATATTAATTGTATATATTTTACTGGATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACAGAATTTATT
*
28587653 AATATAAAAAGTTATATTAATTAATTTTAGTCAAAATATAAAAGATC-TGGAAATTAATATTGTT
66 AATATAAAAAGTTATATTAATTAATTTCAGTCAAAATATAAAAGA-CATGGAAATTAATATT-TT
28587717 TTGGAAAGA
129 TTGGAAAGA
*
28587726 ACATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTAT-TATTTTACAGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACAGAATTTATT
* *
28587790 AATATAAACAA-TTATATTAATTAATTTCGGTCAAAATATAAAAGACATGGAAATTAATATTCCT
66 AATATAAA-AAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATT-TT
*
28587854 TT-GAAAAA
129 TTGGAAAGA
* *
28587862 ATATAGTTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACCGAATTTATT
1 ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACAGAATTTATT
* *
28587927 AATATAAATAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGTAAATTAATAATTTTT
66 AATATAAAAAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAAT-ATTTTT
28587992 TGGAAAGA
130 TGGAAAGA
28588000 ATATAATT
1 ATATAATT
28588008 CATTTTTCTA
Statistics
Matches: 258, Mismatches: 18, Indels: 12
0.90 0.06 0.04
Matches are distributed among these distances:
136 51 0.20
137 146 0.57
138 61 0.24
ACGTcount: A:0.45, C:0.05, G:0.08, T:0.41
Consensus pattern (137 bp):
ATATAATTAATATATGAATTTGATTCATACAAAATATTAATTGTATATATTTTACAGAATTTATT
AATATAAAAAGTTATATTAATTAATTTCAGTCAAAATATAAAAGACATGGAAATTAATATTTTTT
GGAAAGA
Found at i:28595354 original size:49 final size:48
Alignment explanation
Indices: 28595301--28595619 Score: 484
Period size: 47 Copynumber: 6.7 Consensus size: 48
28595291 GATTTTACGC
* *
28595301 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTAT-AATATGTGATAAGGCCTAATGGCCGATGT
*
28595350 GATGAATGTAAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATA-ATATGTGATAAGGCCTAATGGCCGATGT
28595399 GATGAATGTGAAAGTGTAT-ATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
*
28595446 GATGAATGTGAAAGCGTATACATATGTGATAAGGCCTAATGGCCGATGT
1 GATGAATGTGAAAGTGTATA-ATATGTGATAAGGCCTAATGGCCGATGT
*
28595495 GATGAATGTGAAAGTGTAT-ATATGTGATAAGGCCTAATGGCCAATGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
* * * * *
28595542 GATGAATGTGAAAGTGTAT-ATATGTGATAGGGCCGAGTGGCCAACGT
1 GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
*
28595589 GATGGATGTGAAAGTGTATAA-ATGTGATAAG
1 GATGAATGTGAAAGTGTATAATATGTGATAAG
28595620 TCCCGAAGGG
Statistics
Matches: 253, Mismatches: 13, Indels: 10
0.92 0.05 0.04
Matches are distributed among these distances:
47 143 0.57
48 2 0.01
49 108 0.43
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (48 bp):
GATGAATGTGAAAGTGTATAATATGTGATAAGGCCTAATGGCCGATGT
Found at i:28595437 original size:96 final size:96
Alignment explanation
Indices: 28595301--28595619 Score: 489
Period size: 96 Copynumber: 3.3 Consensus size: 96
28595291 GATTTTACGC
* * *
28595301 GATGAATGTGAATGTGTATAAATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTG
1 GATGAATGTGAAAGTGTAT--ATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
28595366 TATATATATGTGATAAGGCCTAATGGCCGATGT
64 TATATATATGTGATAAGGCCTAATGGCCGATGT
*
28595399 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGCGTA
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
*
28595464 TACATATGTGATAAGGCCTAATGGCCGATGT
66 TATATATGTGATAAGGCCTAATGGCCGATGT
*
28595495 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG--
1 GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
* * * * *
28595558 TATATATGTGATAGGGCCGAGTGGCCAACGT
66 TATATATGTGATAAGGCCTAATGGCCGATGT
* *
28595589 GATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATGAATGTGAAAGTGTATATATGTGATAAG
28595620 TCCCGAAGGG
Statistics
Matches: 206, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
94 54 0.26
96 134 0.65
98 18 0.09
ACGTcount: A:0.34, C:0.08, G:0.29, T:0.29
Consensus pattern (96 bp):
GATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
TATATATGTGATAAGGCCTAATGGCCGATGT
Found at i:28597444 original size:14 final size:14
Alignment explanation
Indices: 28597425--28597462 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
28597415 GTTTGCTAGT
*
28597425 AAAATGTTTTCCGG
1 AAAATGATTTCCGG
*
28597439 AAAATGATTTCTGG
1 AAAATGATTTCCGG
28597453 AAAATGATTT
1 AAAATGATTT
28597463 ACTTTTCTAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.37, C:0.08, G:0.18, T:0.37
Consensus pattern (14 bp):
AAAATGATTTCCGG
Found at i:28599756 original size:17 final size:18
Alignment explanation
Indices: 28599736--28599770 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
28599726 TATGGAATTT
*
28599736 CCAATTA-CTTGGACCTC
1 CCAATTATCATGGACCTC
28599753 CCAATTATCATGGACCTC
1 CCAATTATCATGGACCTC
28599771 AAAGAAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.34, G:0.11, T:0.29
Consensus pattern (18 bp):
CCAATTATCATGGACCTC
Found at i:28602005 original size:38 final size:40
Alignment explanation
Indices: 28601951--28602142 Score: 151
Period size: 38 Copynumber: 4.5 Consensus size: 40
28601941 GGAATGAAAA
*
28601951 AATGTGGTGCTGAGTGGATATACCACGATTATA-A-ATGT
1 AATGTGGTGCTAAGTGGATATACCACGATTATATACATGT
*
28601989 AATGTGGTGCTAAGTGGATATACCAAGATTACACATATTGATACATGT
1 AATGTGGTGCTAAGTGGATATACCACGA-T-----TA-T-ATACATGT
* *
28602037 AACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTCAT-T
1 AATGTGGTGCTAAGTGGATATACCACGA-T---TATA-T-A--CATGT
* *
28602084 AACGTGGTGCTAAGTGGATATACCACGGTTA-A-ACATGT
1 AATGTGGTGCTAAGTGGATATACCACGATTATATACATGT
28602122 AATGTGGTGCTAAGTGGATAT
1 AATGTGGTGCTAAGTGGATAT
28602143 GTCACGGTTA
Statistics
Matches: 131, Mismatches: 8, Indels: 30
0.78 0.05 0.18
Matches are distributed among these distances:
37 3 0.02
38 47 0.36
39 2 0.02
42 1 0.01
43 2 0.02
44 3 0.02
45 3 0.02
46 8 0.06
47 28 0.21
48 34 0.26
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.31
Consensus pattern (40 bp):
AATGTGGTGCTAAGTGGATATACCACGATTATATACATGT
Found at i:28602110 original size:47 final size:48
Alignment explanation
Indices: 28601985--28602119 Score: 200
Period size: 48 Copynumber: 2.8 Consensus size: 48
28601975 ACGATTATAA
* *
28601985 ATGTAATGTGGTGCTAAGTGGATATACCAAGATTACACATATTGATAC
1 ATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATAC
* * *
28602033 ATGTAACGTGGTGCTAAGTGGATATGCCACGATTACATATATTGATTC
1 ATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATAC
* *
28602081 AT-TAACGTGGTGCTAAGTGGATATACCACGGTTAAACAT
1 ATGTAACGTGGTGCTAAGTGGATATACCACGATTACACAT
28602120 GTAATGTGGT
Statistics
Matches: 78, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
47 33 0.42
48 45 0.58
ACGTcount: A:0.33, C:0.14, G:0.22, T:0.31
Consensus pattern (48 bp):
ATGTAACGTGGTGCTAAGTGGATATACCACGATTACACATATTGATAC
Found at i:28602149 original size:38 final size:38
Alignment explanation
Indices: 28602087--28602159 Score: 119
Period size: 38 Copynumber: 1.9 Consensus size: 38
28602077 ATTCATTAAC
28602087 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
** *
28602125 GTGGTGCTAAGTGGATATGTCACGGTTATACATGT
1 GTGGTGCTAAGTGGATATACCACGGTTAAACATGT
28602160 TAATTTGAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 32 1.00
ACGTcount: A:0.27, C:0.12, G:0.29, T:0.32
Consensus pattern (38 bp):
GTGGTGCTAAGTGGATATACCACGGTTAAACATGTAAT
Found at i:28605105 original size:15 final size:16
Alignment explanation
Indices: 28605078--28605107 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
28605068 AAACCGGGCC
28605078 ATAAAATTTCATTCAA
1 ATAAAATTTCATTCAA
28605094 ATAAAA-TTCATTCA
1 ATAAAATTTCATTCA
28605108 TACATATGCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (16 bp):
ATAAAATTTCATTCAA
Found at i:28614885 original size:27 final size:28
Alignment explanation
Indices: 28614855--28614954 Score: 109
Period size: 27 Copynumber: 3.7 Consensus size: 28
28614845 TTTTGTTTAC
*
28614855 TAAAATTACCGAAATACCCTTAG-TTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
* *
28614882 TAAAAATACTGAAATACCC-TCGATTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
* * *
28614909 TAAAATTACTGAAACA-CCTTCGACTTG
1 TAAAATTACCGAAATACCCTTCGATTTG
28614936 TAAAATTACC-AAAGTACCC
1 TAAAATTACCGAAA-TACCC
28614955 CCGATTTACA
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
26 7 0.11
27 52 0.85
28 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (28 bp):
TAAAATTACCGAAATACCCTTCGATTTG
Found at i:28614980 original size:27 final size:27
Alignment explanation
Indices: 28614950--28615160 Score: 260
Period size: 27 Copynumber: 7.8 Consensus size: 27
28614940 ATTACCAAAG
* *
28614950 TACCCCCGATTTACAGAAGTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
28614977 TACCCTTGATTTACATAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
28615004 TACCCTCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
28615031 TACCCCCGATTTACATAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
28615058 TACCCTTGACTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
28615085 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
28615112 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
28615139 TACCCTCGATTTATAAAATTAC
1 TACCCTCGATTTACAGAATTAC
28615161 TAAAATACCC
Statistics
Matches: 161, Mismatches: 23, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 161 1.00
ACGTcount: A:0.27, C:0.23, G:0.09, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:28615169 original size:27 final size:27
Alignment explanation
Indices: 28615085--28615360 Score: 180
Period size: 27 Copynumber: 10.1 Consensus size: 27
28615075 ATTACCGTTT
* * ****
28615085 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTTGATTTATAAAATTACTAAAA
* * ****
28615112 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTTGATTTATAAAATTACTAAAA
*
28615139 TACCCTCGATTTATAAAATTACTAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * *
28615166 TACCCTTGGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* * *
28615193 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTATAAAATTACTAAAA
* * * *
28615220 TACCCTTGGTTTGTGAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* ** * *
28615247 TACTCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTATAAAATTACTAAAA
* *
28615274 TACCCTTGATTTACAAAGTTAC-AGAAA
1 TACCCTTGATTTATAAAATTACTA-AAA
28615301 TACCCTTGACTTTATAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAT-AAAATTACTA-AAA
* * * *
28615330 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTATAAAATTACTAAAA
28615357 TACC
1 TACC
28615361 TTTGGTTTGT
Statistics
Matches: 207, Mismatches: 35, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
26 1 0.00
27 179 0.86
28 9 0.04
29 18 0.09
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.35
Consensus pattern (27 bp):
TACCCTTGATTTATAAAATTACTAAAA
Found at i:28615186 original size:54 final size:54
Alignment explanation
Indices: 28615058--28615360 Score: 223
Period size: 54 Copynumber: 5.6 Consensus size: 54
28615048 ATTATCGTTT
** * *** * ****
28615058 TACCCTTGACTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTTGGTTTACAAAATTACCGAAATACCCTCGATTTATAAAATTACTAAAA
* * * ***
28615112 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACTAAAA
1 TACCCTTGGTTTACAAAATTACCGAAATACCCTCGATTTATAAAATTACTAAAA
** * * * *
28615166 TACCCTTGGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCGAAATACCCTCGA-TTTATAAAATTACTAAAA
*** * * * * *
28615220 TACCCTTGGTTTGTGAAATTACCAAAATACTCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTACAAAATTACCGAAATACCCTCGATTTATAAAATTACTAAAA
* * * *
28615274 TACCCTTGATTTACAAAGTTACAGAAATACCCTTGACTTTATAAAAATTA-TAGAAA
1 TACCCTTGGTTTACAAAATTACCGAAATACCCTCGA-TTTAT-AAAATTACTA-AAA
* *
28615330 TACCATTGGTTTACAAAATTACTGAAATACC
1 TACCCTTGGTTTACAAAATTACCGAAATACC
28615361 TTTGGTTTGT
Statistics
Matches: 206, Mismatches: 38, Indels: 8
0.82 0.15 0.03
Matches are distributed among these distances:
53 2 0.01
54 160 0.78
55 7 0.03
56 37 0.18
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (54 bp):
TACCCTTGGTTTACAAAATTACCGAAATACCCTCGATTTATAAAATTACTAAAA
Found at i:28615197 original size:81 final size:80
Alignment explanation
Indices: 28615112--28615360 Score: 225
Period size: 81 Copynumber: 3.0 Consensus size: 80
28615102 ATTACTGTTT
* *** *
28615112 TACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTATAAAATTACTAAAATACCCTTGGTT
1 TACCCTTGATTTACA-AATTACAGAAATACCCTTGATTTATAAAATTACTAAAATACCCTTGGTT
28615177 TGTAAAATTACCAAAA
65 TGTAAAATTACCAAAA
* * * * * * * ***
28615193 TACCCCTAGTTTGTA-AAATTACCA-AAATACCCTTGGTTTGTGAAATTACCAAAATACTCTCAA
1 TA-CCCTTGATT-TACAAATTA-CAGAAATACCCTTGATTTATAAAATTACTAAAATACCCTTGG
28615256 TTTGTAAAATTACCAAAA
63 TTTGTAAAATTACCAAAA
*
28615274 TACCCTTGATTTACAAAGTTACAGAAATACCCTTGACTTTATAAAAATTA-TAGAAATACCATTG
1 TACCCTTGATTTACAAA-TTACAGAAATACCCTTGA-TTTAT-AAAATTACTA-AAATACCCTTG
** **
28615338 GTTTACAAAATTACTGAAA
62 GTTTGTAAAATTACCAAAA
28615357 TACC
1 TACC
28615361 TTTGGTTTGT
Statistics
Matches: 129, Mismatches: 30, Indels: 16
0.74 0.17 0.09
Matches are distributed among these distances:
79 2 0.02
80 12 0.09
81 68 0.53
82 14 0.11
83 33 0.26
ACGTcount: A:0.39, C:0.18, G:0.09, T:0.34
Consensus pattern (80 bp):
TACCCTTGATTTACAAATTACAGAAATACCCTTGATTTATAAAATTACTAAAATACCCTTGGTTT
GTAAAATTACCAAAA
Found at i:28615452 original size:27 final size:27
Alignment explanation
Indices: 28615422--28615481 Score: 77
Period size: 27 Copynumber: 2.2 Consensus size: 27
28615412 ACCCCTATTA
28615422 GGTAAAAAGACCCTAAAGCCCCT-GTAG
1 GGTAAAAAGACCCTAAAGCCCCTAG-AG
** *
28615449 GGTAAAGTGACCGTAAAGCCCCTAGAG
1 GGTAAAAAGACCCTAAAGCCCCTAGAG
28615476 GGTAAA
1 GGTAAA
28615482 GTAACCGTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 28 0.97
28 1 0.03
ACGTcount: A:0.37, C:0.22, G:0.27, T:0.15
Consensus pattern (27 bp):
GGTAAAAAGACCCTAAAGCCCCTAGAG
Found at i:28615482 original size:27 final size:27
Alignment explanation
Indices: 28615430--28615513 Score: 100
Period size: 27 Copynumber: 3.1 Consensus size: 27
28615420 TAGGTAAAAA
*
28615430 GACCCTAAAGCCCCTGTAGGGTAAAGT
1 GACCGTAAAGCCCCTGTAGGGTAAAGT
28615457 GACCGTAAAGCCCCTAG-AGGGTAAAGT
1 GACCGTAAAGCCCCT-GTAGGGTAAAGT
* * *
28615484 AACCGTAATA-CCCCTGTATGGTAAAAT
1 GACCGTAA-AGCCCCTGTAGGGTAAAGT
28615511 GAC
1 GAC
28615514 GAATATGCCC
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
26 1 0.02
27 46 0.94
28 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.19
Consensus pattern (27 bp):
GACCGTAAAGCCCCTGTAGGGTAAAGT
Found at i:28616245 original size:20 final size:20
Alignment explanation
Indices: 28616210--28616266 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
28616200 TGATACGTGG
28616210 GATATGATAT-ACATGAT-T
1 GATATGATATCACATGATAT
28616228 GATATGATATACACATGATAT
1 GATATGATAT-CACATGATAT
*
28616249 G-TATGAGATGCACATGAT
1 GATATGATAT-CACATGAT
28616267 GAATTCATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 10 0.29
20 22 0.65
21 2 0.06
ACGTcount: A:0.39, C:0.09, G:0.19, T:0.33
Consensus pattern (20 bp):
GATATGATATCACATGATAT
Found at i:28616345 original size:26 final size:26
Alignment explanation
Indices: 28616316--28616491 Score: 257
Period size: 26 Copynumber: 6.8 Consensus size: 26
28616306 GAGGAAGTGC
**
28616316 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
28616342 AAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
28616368 AAAAGGGCTTATGCCCCAGTCTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
28616394 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
**
28616420 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
28616446 AAAAAGGGCTT-TGCCCCAGTTTACCG
1 -AAAAGGGCTTATGCCCCAGTTTACCG
28616472 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
28616492 ATTAAAGAGG
Statistics
Matches: 135, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
25 20 0.15
26 105 0.78
27 10 0.07
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:28616394 original size:52 final size:52
Alignment explanation
Indices: 28616316--28616491 Score: 311
Period size: 52 Copynumber: 3.4 Consensus size: 52
28616306 GAGGAAGTGC
*
28616316 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCTAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
28616368 AAAAGGGCTTATGCCCCAGTCTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
28616420 AAAAGGGCTTATGCCCCAGTTTATTGAAAAAGGGCTT-TGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTG-AAAAGGGCTTATGCCCCAGTTTACCG
28616472 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
28616492 ATTAAAGAGG
Statistics
Matches: 120, Mismatches: 3, Indels: 3
0.95 0.02 0.02
Matches are distributed among these distances:
51 10 0.08
52 100 0.83
53 10 0.08
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:28616698 original size:42 final size:42
Alignment explanation
Indices: 28616636--28616727 Score: 157
Period size: 42 Copynumber: 2.2 Consensus size: 42
28616626 TAGTCTCCCC
*
28616636 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
* *
28616678 AAATGGGCTTGCATATATTCATTGATATTTCATGTGTTATTG
1 AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
28616720 AAATGGGC
1 AAATGGGC
28616728 CTATGGGCCA
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.27, C:0.11, G:0.22, T:0.40
Consensus pattern (42 bp):
AAATGGGCTTGCATACATTCATTGATATTTCATGTGATATTG
Found at i:28616786 original size:31 final size:31
Alignment explanation
Indices: 28616751--28616829 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
28616741 AGTTTATAAT
28616751 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
*
28616782 AAAGGCTTCGGCCCAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
28616813 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
28616830 AACCGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.27, C:0.19, G:0.27, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:28617932 original size:17 final size:17
Alignment explanation
Indices: 28617902--28617935 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
28617892 TGTTCTGGAA
28617902 ATGTAGAAATTATTTGC
1 ATGTAGAAATTATTTGC
28617919 ATGT-GAAATCTATTTGC
1 ATGTAGAAAT-TATTTGC
28617936 TCCGATGGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (17 bp):
ATGTAGAAATTATTTGC
Found at i:28619359 original size:27 final size:27
Alignment explanation
Indices: 28619148--28619358 Score: 280
Period size: 27 Copynumber: 7.8 Consensus size: 27
28619138 ATTACCAAAG
*
28619148 TACCCCCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
28619175 TACCC-CTGATTTACATAATTACCGTTT
1 TACCCTC-GATTTACAGAATTACCGTTT
* **
28619202 TACCCTCGATTTACATAATTATTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
28619229 TACCCTCGACTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
28619256 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
28619283 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
28619310 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
28619337 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
28619359 TAAAATACCC
Statistics
Matches: 166, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
26 1 0.01
27 164 0.99
28 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:28619367 original size:27 final size:27
Alignment explanation
Indices: 28619048--28619558 Score: 104
Period size: 27 Copynumber: 18.8 Consensus size: 27
28619038 AATACTTTAG
* *
28619048 TTTACTAAAATTACTAAAATACCCTTAGT
1 TTTAC-AAAATTACTAAAATACCC-TCGA
*
28619077 TTGTA-AAAA-TACTGAAATACCCTCGA
1 TT-TACAAAATTACTAAAATACCCTCGA
** * *
28619103 TTTGTAAAATTA-TCGAAATACCTTCGA
1 TTTACAAAATTACT-AAAATACCCTCGA
* ** * * *
28619130 CTTGTAAAATTACCAAAGTACCCCCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* *****
28619157 TTTACAGAATTACCGTTTTACCC-CTGA
1 TTTACAAAATTACTAAAATACCCTC-GA
* *****
28619184 TTTACATAATTACCGTTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* * ****
28619211 TTTACATAATTATTGTTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* * * ***
28619238 CTTACAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* * * ***
28619265 TTTATAGAATTACCATTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* * **** *
28619292 TTTATAGAATTACTGTTTTACCCTTGA
1 TTTACAAAATTACTAAAATACCCTCGA
* ****
28619319 TTTACAGAATTACTGTTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* *
28619346 TTTACAAAATTACTAAAATACCCTTGG
1 TTTACAAAATTACTAAAATACCCTCGA
** * *
28619373 TTTGTAAAATTACCAAAATACCC-CTA
1 TTTACAAAATTACTAAAATACCCTCGA
** *
28619399 GTTTGTAAAATTACTAAAATACCCT-TA
1 -TTTACAAAATTACTAAAATACCCTCGA
*** ** *
28619426 GTTTGTGAAATTACCGAAATACCCTCAA
1 -TTTACAAAATTACTAAAATACCCTCGA
** * *
28619454 TTTGTAAAATTACCAAAATA-CCTCTAA
1 TTTACAAAATTACTAAAATACCCTC-GA
* *
28619481 TTTACAAAGTTAC-AGAAATACCCTTGA
1 TTTACAAAATTACTA-AAATACCCTCGA
* * * * *
28619508 CTTTATAAAAATTA-TAGAAATATCATTGG
1 -TTTA-CAAAATTACTA-AAATACCCTCGA
* *
28619537 TTTACGAAATTACTGAAATACC
1 TTTACAAAATTACTAAAATACC
28619559 TTTGGTTTGT
Statistics
Matches: 397, Mismatches: 68, Indels: 36
0.79 0.14 0.07
Matches are distributed among these distances:
25 1 0.00
26 15 0.04
27 342 0.86
28 18 0.05
29 19 0.05
30 2 0.01
ACGTcount: A:0.36, C:0.20, G:0.09, T:0.36
Consensus pattern (27 bp):
TTTACAAAATTACTAAAATACCCTCGA
Found at i:28619384 original size:54 final size:54
Alignment explanation
Indices: 28619080--28619475 Score: 168
Period size: 54 Copynumber: 7.3 Consensus size: 54
28619070 CCTTAGTTTG
* * * * * *** * * *
28619080 TAAAAATACTGAAATACCCTCGATTTGTAAAATTATCGAAATACCTTCGACTTG
1 TAAAATTACTAAAATACCCTTGATTTATAAAATTACCGTTTTACCCTCGATTTA
* * ** * *
28619134 TAAAATTACCAAAGTACCCCCGATTTACAGAATTACCGTTTTACCC-CTGATTTA
1 TAAAATTACTAAAATACCCTTGATTTATAAAATTACCGTTTTACCCTC-GATTTA
* * ***** * * * ** *
28619188 CATAATTACCGTTTTACCCTCGATTTACATAATTATTGTTTTACCCTCGACTTA
1 TAAAATTACTAAAATACCCTTGATTTATAAAATTACCGTTTTACCCTCGATTTA
* * * *** * * *
28619242 CAGAATTACCATTTTACCCTCGATTTATAGAATTACCATTTTACCCTCGATTTA
1 TAAAATTACTAAAATACCCTTGATTTATAAAATTACCGTTTTACCCTCGATTTA
* **** * * *
28619296 TAGAATTACTGTTTTACCCTTGATTTACAGAATTACTGTTTTACCCTCGATTTA
1 TAAAATTACTAAAATACCCTTGATTTATAAAATTACCGTTTTACCCTCGATTTA
* * * **** * *
28619350 CAAAATTACTAAAATACCCTTGGTTTGTAAAATTACCAAAATACCC-CTAGTTTG
1 TAAAATTACTAAAATACCCTTGATTTATAAAATTACCGTTTTACCCTCGA-TTTA
* * *** * *
28619404 TAAAATTACTAAAATACCCTT-AGTTTGTGAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACTAAAATACCCTTGA-TTTATAAAATTACCGTTTTACCCTCGATTTA
*
28619458 TAAAATTACCAAAATACC
1 TAAAATTACTAAAATACC
28619476 TCTAATTTAC
Statistics
Matches: 273, Mismatches: 64, Indels: 10
0.79 0.18 0.03
Matches are distributed among these distances:
53 3 0.01
54 267 0.98
55 3 0.01
ACGTcount: A:0.34, C:0.21, G:0.09, T:0.36
Consensus pattern (54 bp):
TAAAATTACTAAAATACCCTTGATTTATAAAATTACCGTTTTACCCTCGATTTA
Found at i:28619499 original size:54 final size:54
Alignment explanation
Indices: 28619337--28619504 Score: 148
Period size: 54 Copynumber: 3.1 Consensus size: 54
28619327 ATTACTGTTT
* ** * **
28619337 TACCCTCGATTTACAAAATTACTAAAATACCCTTGGTTTGTA-AAATTACCA-AAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCTTAATTTG-ACAAATTA-CAGAAA
* * * ** *
28619391 TACCC-CTAGTTTGTAAAATTACTAAAATACCCTTAGTTTGTGAAATTACCGAAA
1 TACCCTC-AATTTGTAAAATTACCAAAATACCCTTAATTTGACAAATTACAGAAA
28619445 TACCCTCAATTTGTAAAATTACCAAAATA-CCTCTAATTT-ACAAAGTTACAGAAA
1 TACCCTCAATTTGTAAAATTACCAAAATACCCT-TAATTTGACAAA-TTACAGAAA
28619499 TACCCT
1 TACCCT
28619505 TGACTTTATA
Statistics
Matches: 95, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
53 8 0.08
54 86 0.91
55 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.32
Consensus pattern (54 bp):
TACCCTCAATTTGTAAAATTACCAAAATACCCTTAATTTGACAAATTACAGAAA
Found at i:28619711 original size:27 final size:27
Alignment explanation
Indices: 28619620--28619711 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
28619610 ACCCCTATTA
* *
28619620 GGTAAAAAGACCCTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
*
28619647 GGTAAAGTGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* *
28619674 GGTAAAGTGACCGTAATA-CCCCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
28619701 GGTAAAATGAC
1 GGTAAAATGAC
28619712 GAATATGCCC
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:28620443 original size:20 final size:20
Alignment explanation
Indices: 28620408--28620464 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
28620398 TGATACGTGG
28620408 GATATGATAT-ACATGAT-T
1 GATATGATATCACATGATAT
28620426 GATATGATATGCACATGATAT
1 GATATGATAT-CACATGATAT
*
28620447 G-TATGAGATCCACATGAT
1 GATATGATAT-CACATGAT
28620465 GAATTCATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
18 10 0.29
20 22 0.65
21 2 0.06
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (20 bp):
GATATGATATCACATGATAT
Found at i:28620590 original size:52 final size:51
Alignment explanation
Indices: 28620514--28620636 Score: 221
Period size: 52 Copynumber: 2.4 Consensus size: 51
28620504 GAGGAAGTGC
28620514 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACCA
*
28620566 AAAAGGGCTTATGCCCCAGTTTATTGAAGAGGGCTTTGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCA
28620617 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
28620637 ATTAAAGAGG
Statistics
Matches: 70, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
50 10 0.14
51 25 0.36
52 35 0.50
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTTGCCCCAGTTTACCA
Found at i:28620611 original size:25 final size:26
Alignment explanation
Indices: 28620514--28620642 Score: 174
Period size: 26 Copynumber: 5.1 Consensus size: 26
28620504 GAGGAAGTGC
*
28620514 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTA
**
28620540 AAAAGGGCTTATGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTA
*
28620566 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTATTA
* **
28620592 AAGAGGGCTT-TGCCCCAGTTTACCA
1 AAAAGGGCTTATGCCCCAGTTTATTA
28620617 AAAAGGGCTT-TGCCCCAG-TTATTA
1 AAAAGGGCTTATGCCCCAGTTTATTA
28620641 AA
1 AA
28620643 GAGGCTATGC
Statistics
Matches: 90, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
24 6 0.07
25 29 0.32
26 55 0.61
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTATTA
Found at i:28620829 original size:42 final size:42
Alignment explanation
Indices: 28620782--28620872 Score: 164
Period size: 42 Copynumber: 2.2 Consensus size: 42
28620772 AGTCTCCCCG
*
28620782 AATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTGA
1 AATGGGCTTGCATACATTCATTGATATTTCATGTGATATTGA
*
28620824 AATGGGCTTGCATACATTCATTGATATTTCATGTGTTATTGA
1 AATGGGCTTGCATACATTCATTGATATTTCATGTGATATTGA
28620866 AATGGGC
1 AATGGGC
28620873 CTATGGGCCA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.26, C:0.12, G:0.22, T:0.40
Consensus pattern (42 bp):
AATGGGCTTGCATACATTCATTGATATTTCATGTGATATTGA
Found at i:28620931 original size:31 final size:31
Alignment explanation
Indices: 28620896--28620970 Score: 132
Period size: 31 Copynumber: 2.4 Consensus size: 31
28620886 CGTTTATAAT
28620896 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
* *
28620927 AAAGGCTTCGGCTCAGTGATTTGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
28620958 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
28620971 TAGTAACCGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:28624799 original size:23 final size:23
Alignment explanation
Indices: 28624769--28624820 Score: 104
Period size: 23 Copynumber: 2.3 Consensus size: 23
28624759 GTTACCCAAG
28624769 CCTAGCCGATTCATATTCCTACT
1 CCTAGCCGATTCATATTCCTACT
28624792 CCTAGCCGATTCATATTCCTACT
1 CCTAGCCGATTCATATTCCTACT
28624815 CCTAGC
1 CCTAGC
28624821 AGCACACATT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.21, C:0.37, G:0.10, T:0.33
Consensus pattern (23 bp):
CCTAGCCGATTCATATTCCTACT
Found at i:28628979 original size:27 final size:27
Alignment explanation
Indices: 28628929--28628996 Score: 95
Period size: 27 Copynumber: 2.6 Consensus size: 27
28628919 AGCGTAGATC
*
28628929 ACGAAATTA-CCCTAAAGAGTAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
28628955 ACGAAATTACCCCTAAAGAGCAAAATT
1 ACGAAATTACCCCTAAAGAGCAAAATT
*
28628982 ACCGATA-TACCCCTA
1 A-CGAAATTACCCCTA
28628997 GGGTTTTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
26 9 0.24
27 25 0.66
28 4 0.11
ACGTcount: A:0.46, C:0.24, G:0.10, T:0.21
Consensus pattern (27 bp):
ACGAAATTACCCCTAAAGAGCAAAATT
Found at i:28636764 original size:29 final size:29
Alignment explanation
Indices: 28636731--28636804 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
28636721 GTGACGAGAT
28636731 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
28636760 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
28636789 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
28636805 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:28636820 original size:29 final size:29
Alignment explanation
Indices: 28636788--28636863 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
28636778 CTGGAAATAT
* *
28636788 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
28636817 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
28636846 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
28636864 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:28644692 original size:29 final size:29
Alignment explanation
Indices: 28644659--28644732 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
28644649 GTGACGAGAT
28644659 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
28644688 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
28644717 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
28644733 AGCTCGAAGG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.15, G:0.31, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:28644748 original size:29 final size:29
Alignment explanation
Indices: 28644716--28644791 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
28644706 CTGGAAATAT
* *
28644716 ATGGCACTAAGTGTGCGAG-CTCGAAGGGC
1 ATGGCACTAAGTGTGCGAGCCT-AAAGCGC
** * *
28644745 ATGGCACTGTGTGTGCGGGCCTAAATCGC
1 ATGGCACTAAGTGTGCGAGCCTAAAGCGC
28644774 ATGGCACTAAGTGTGCGA
1 ATGGCACTAAGTGTGCGA
28644792 AATCGAGTAT
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
29 35 0.95
30 2 0.05
ACGTcount: A:0.22, C:0.21, G:0.36, T:0.21
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGCCTAAAGCGC
Found at i:28647000 original size:40 final size:40
Alignment explanation
Indices: 28646873--28647002 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
28646863 ATGCTGGAAA
* * *
28646873 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
28646913 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* *
28646953 TTCTATCCGGGCCAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
28646993 TTATATCCGG
1 TTATATCCGG
28647003 TTATATTCCG
Statistics
Matches: 73, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 1 0.01
40 72 0.99
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:28649454 original size:20 final size:20
Alignment explanation
Indices: 28649429--28649466 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
28649419 GTTTATTCGC
*
28649429 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
28649449 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
28649467 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:28651117 original size:28 final size:28
Alignment explanation
Indices: 28651077--28651141 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
28651067 GTAGATCACG
28651077 AATTA-CCCTAAAGAGCAAAATTACCGA
1 AATTACCCCTAAAGAGCAAAATTACCGA
28651104 AATTACCCCTAAAGAGCAAAATTACCGA
1 AATTACCCCTAAAGAGCAAAATTACCGA
*
28651132 TA-TACCCCTA
1 AATTACCCCTA
28651142 GGGTTTTAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 13 0.36
28 23 0.64
ACGTcount: A:0.45, C:0.26, G:0.09, T:0.20
Consensus pattern (28 bp):
AATTACCCCTAAAGAGCAAAATTACCGA
Found at i:28663588 original size:40 final size:40
Alignment explanation
Indices: 28663543--28663658 Score: 108
Period size: 41 Copynumber: 2.9 Consensus size: 40
28663533 TTCAGTCATG
*
28663543 TTCGACGATA-AATCAGCTACATGTGGCACTTAGTGTGCGA
1 TTCGAC-ATAGAATCAGCTACATATGGCACTTAGTGTGCGA
** * *
28663583 TTCGACATAGCTTCGGCTATATATGGCACTTAGTGTGCGA
1 TTCGACATAGAATCAGCTACATATGGCACTTAGTGTGCGA
* * ** * *
28663623 GATCGACAGAGCTTCGGCTATATATGGCACTTAGTG
1 -TTCGACATAGAATCAGCTACATATGGCACTTAGTG
28663659 CGTGAAATCA
Statistics
Matches: 67, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
39 3 0.04
40 31 0.46
41 33 0.49
ACGTcount: A:0.25, C:0.20, G:0.26, T:0.29
Consensus pattern (40 bp):
TTCGACATAGAATCAGCTACATATGGCACTTAGTGTGCGA
Found at i:28663641 original size:41 final size:41
Alignment explanation
Indices: 28663566--28663788 Score: 263
Period size: 41 Copynumber: 5.5 Consensus size: 41
28663556 CAGCTACATG
* *
28663566 TGGCACTTAGTGTGCGA-TTCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATA
* *
28663606 TGGCACTTAGTGTGCGAGATCGACAGAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATA
* * * *
28663647 TGGCACTTAGTGCGTGAAATCAAGATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATA
** * *
28663688 TGGCACTTAGTGTGTAAGATCAAGATAGCTTGGGCTATATA
1 TGGCACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATA
* *
28663729 TGGCACTTAGTGTGC-A-ATTTGAGATAGCTTCGGCTATGTA
1 TGGCACTTAGTGTGCGAGA-TCGAGATAGCTTCGGCTATATA
* * *
28663769 CGACACTTAGTGTGTGAGAT
1 TGGCACTTAGTGTGCGAGAT
28663789 ATCGAGTATT
Statistics
Matches: 159, Mismatches: 20, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.01
40 48 0.30
41 109 0.69
42 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.31
Consensus pattern (41 bp):
TGGCACTTAGTGTGCGAGATCGAGATAGCTTCGGCTATATA
Found at i:28671625 original size:43 final size:42
Alignment explanation
Indices: 28671577--28671728 Score: 139
Period size: 43 Copynumber: 3.6 Consensus size: 42
28671567 ATATCATACA
* *
28671577 ATGCCAACGTCCTAGGCGTGGTCTTACATGCAATCACATATCG
1 ATGCCAACGTCCTAGACGTGGTCTTACACG-AATCACATATCG
* * * * *
28671620 ATGCC-ACTTTCCCAGACAG-GGTCTTATACGAATTAAATA-CG
1 ATGCCAAC-GTCCTAGAC-GTGGTCTTACACGAATCACATATCG
* * * *
28671661 ATGGCAATGTCCTAGACATGGTCTTACACATAATCACATATCG
1 ATGCCAACGTCCTAGACGTGGTCTTACAC-GAATCACATATCG
*
28671704 ATGCCAACTTCCTAGACGTGGTCTT
1 ATGCCAACGTCCTAGACGTGGTCTT
28671729 TCATGAGAAC
Statistics
Matches: 83, Mismatches: 20, Indels: 12
0.72 0.17 0.10
Matches are distributed among these distances:
41 22 0.27
42 17 0.20
43 43 0.52
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.18, T:0.28
Consensus pattern (42 bp):
ATGCCAACGTCCTAGACGTGGTCTTACACGAATCACATATCG
Found at i:28671742 original size:43 final size:44
Alignment explanation
Indices: 28671577--28671745 Score: 133
Period size: 43 Copynumber: 4.0 Consensus size: 44
28671567 ATATCATACA
* * *
28671577 ATGCCAACGTCCTAGGCGTGGTCTTACATG-CAATCACATATCG
1 ATGCCAACTTCCTAGACGTGGTCTTACATGAGAATCACATATCG
* * *
28671620 ATGCC-ACTTTCCCAGACAG-GGTCTT--AT-ACGAATTAAATA-CG
1 ATGCCAAC-TTCCTAGAC-GTGGTCTTACATGA-GAATCACATATCG
* * * *
28671661 ATGGCAA-TGTCCTAGACATGGTCTTACA-CATAATCACATATCG
1 ATGCCAACT-TCCTAGACGTGGTCTTACATGAGAATCACATATCG
*
28671704 ATGCCAACTTCCTAGACGTGGTCTTTCATGAGAA-CACATATC
1 ATGCCAACTTCCTAGACGTGGTCTTACATGAGAATCACATATC
28671746 AAAAATCCTA
Statistics
Matches: 96, Mismatches: 17, Indels: 26
0.69 0.12 0.19
Matches are distributed among these distances:
40 1 0.01
41 21 0.22
42 17 0.18
43 52 0.54
44 5 0.05
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (44 bp):
ATGCCAACTTCCTAGACGTGGTCTTACATGAGAATCACATATCG
Found at i:28673421 original size:25 final size:26
Alignment explanation
Indices: 28673384--28673438 Score: 85
Period size: 25 Copynumber: 2.2 Consensus size: 26
28673374 CCATGGAAGA
* *
28673384 AAATACTTTGTTTTGGTTGAAAAGG-
1 AAATACTTCGTTTCGGTTGAAAAGGC
28673409 AAATACTTCGTTTCGGTTGAAAAGGC
1 AAATACTTCGTTTCGGTTGAAAAGGC
28673435 AAAT
1 AAAT
28673439 TAAATCCACG
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 23 0.85
26 4 0.15
ACGTcount: A:0.35, C:0.09, G:0.22, T:0.35
Consensus pattern (26 bp):
AAATACTTCGTTTCGGTTGAAAAGGC
Found at i:28675309 original size:56 final size:56
Alignment explanation
Indices: 28675214--28675320 Score: 160
Period size: 56 Copynumber: 1.9 Consensus size: 56
28675204 CATGGCATCA
* * * * *
28675214 ATATATGTGTGCGAGTAAGACCATGTTTTATACATTGGCATCGATATGTGACTCTG
1 ATATATGTGTGCAAGTAAGACCATGTCTGAGACAGTGGCATCGATATGTGACTCTG
*
28675270 ATATATGTGTGCAAGTAAGACCATGTCTGGGACAGTGGCATCGATATGTGA
1 ATATATGTGTGCAAGTAAGACCATGTCTGAGACAGTGGCATCGATATGTGA
28675321 TTACATGTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
56 45 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (56 bp):
ATATATGTGTGCAAGTAAGACCATGTCTGAGACAGTGGCATCGATATGTGACTCTG
Found at i:28680061 original size:21 final size:21
Alignment explanation
Indices: 28680035--28680076 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
28680025 TAAATGTTGG
*
28680035 GTTATGTTTTTAATTATGCTA
1 GTTATGTTTTTAATTACGCTA
28680056 GTTATGTTTTTAATTACGCTA
1 GTTATGTTTTTAATTACGCTA
28680077 TGTTGTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.14, T:0.55
Consensus pattern (21 bp):
GTTATGTTTTTAATTACGCTA
Found at i:28680126 original size:19 final size:19
Alignment explanation
Indices: 28680095--28680133 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
28680085 ATGATATGAT
28680095 TTTAATATTTGATAATTGA
1 TTTAATATTTGATAATTGA
*
28680114 TTTAA-ATTATGATCATTGA
1 TTTAATATT-TGATAATTGA
28680133 T
1 T
28680134 GTGATTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 3 0.17
19 15 0.83
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (19 bp):
TTTAATATTTGATAATTGA
Found at i:28682260 original size:31 final size:31
Alignment explanation
Indices: 28682222--28682285 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
28682212 CCTTTTCATA
28682222 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
28682253 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
28682284 TT
1 TT
28682286 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:28682528 original size:24 final size:23
Alignment explanation
Indices: 28682498--28682617 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
28682488 CCTAGCCTCT
*
28682498 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
28682521 TTTCAATAACTGGGGCATAAGCCC
1 TTT-AATAACTGGGGCATAAGCCC
*
28682545 TTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
28682568 TTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
28682591 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
28682615 TTT
1 TTT
28682618 TTCACTTCCT
Statistics
Matches: 92, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
23 47 0.51
24 45 0.49
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:28682556 original size:47 final size:47
Alignment explanation
Indices: 28682477--28682617 Score: 205
Period size: 47 Copynumber: 3.0 Consensus size: 47
28682467 GCTTTATCAT
* *
28682477 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTT-A
*
28682526 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
*
28682572 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
28682618 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
46 23 0.26
47 43 0.49
48 9 0.10
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:28682618 original size:24 final size:24
Alignment explanation
Indices: 28682477--28682618 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
28682467 GCTTTATCAT
*
28682477 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
28682502 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
28682526 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
28682549 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
28682572 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
28682596 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
28682619 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
22 3 0.03
23 38 0.35
24 56 0.51
25 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:28682694 original size:20 final size:20
Alignment explanation
Indices: 28682669--28682728 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
28682659 TATGATTACC
28682669 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
28682689 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
28682709 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
28682729 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:28682699 original size:11 final size:11
Alignment explanation
Indices: 28682669--28682723 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
28682659 TATGATTACC
28682669 TCATGTGCATA
1 TCATGTGCATA
*
28682680 TCA--TACATA
1 TCATGTGCATA
28682689 TCATGTGCATA
1 TCATGTGCATA
* *
28682700 TCA--TACATT
1 TCATGTGCATA
28682709 TCATGTGCATA
1 TCATGTGCATA
28682720 TCAT
1 TCAT
28682724 ACATACCATA
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:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:28682803 original size:25 final size:25
Alignment explanation
Indices: 28682771--28682818 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
28682761 ATACATAAAC
* * *
28682771 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
28682796 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
28682819 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:28688970 original size:29 final size:30
Alignment explanation
Indices: 28688928--28688988 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
28688918 CCTTTTCATA
*
28688928 TTTCATATTTCATA-TACTGGGCGAAGCCT
1 TTTCATATTTCATATTACTGGCCGAAGCCT
28688957 TTTCATATTTCATATTACTGGCCGAAGCCT
1 TTTCATATTTCATATTACTGGCCGAAGCCT
28688987 TT
1 TT
28688989 ACTGTAAACA
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (30 bp):
TTTCATATTTCATATTACTGGCCGAAGCCT
Found at i:28689225 original size:24 final size:24
Alignment explanation
Indices: 28689197--28689312 Score: 191
Period size: 24 Copynumber: 4.9 Consensus size: 24
28689187 TAGCCTCTTT
* **
28689197 TAACTGGGGCAAAAGCCCTTTCAA
1 TAACTGGGGCATAAGCCCTTTTGA
28689221 TAACTGGGGCATAAGCCCTTTT-A
1 TAACTGGGGCATAAGCCCTTTTGA
28689244 T-ACTGGGGCATAAGCCCTTTTGA
1 TAACTGGGGCATAAGCCCTTTTGA
28689267 TAACTGGGGCATAAGCCCTTTTGA
1 TAACTGGGGCATAAGCCCTTTTGA
28689291 TAACTGGGGCATAAGCCCTTTT
1 TAACTGGGGCATAAGCCCTTTT
28689313 TCACTTCCTC
Statistics
Matches: 88, Mismatches: 2, Indels: 4
0.94 0.02 0.04
Matches are distributed among these distances:
22 20 0.23
23 4 0.05
24 64 0.73
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (24 bp):
TAACTGGGGCATAAGCCCTTTTGA
Found at i:28689227 original size:46 final size:45
Alignment explanation
Indices: 28689174--28689311 Score: 179
Period size: 46 Copynumber: 3.0 Consensus size: 45
28689164 GCTTTATCAT
* *
28689174 ATAACTGGAGGCCT-AGCCTCTTTTAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAACTGGGGCATAAGCCCTTTCA
**
28689220 ATAACTGGGGCATAAGCCCTTTTATACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA-ACTGGGGCATAAGCCCTTTCA
28689266 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCC-TTT--TAACTGGGGCATAAGCCCTTT
28689312 TTCACTTCCT
Statistics
Matches: 83, Mismatches: 4, Indels: 8
0.87 0.04 0.08
Matches are distributed among these distances:
45 10 0.12
46 49 0.59
47 3 0.04
48 19 0.23
49 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.28
Consensus pattern (45 bp):
ATAACTGGGGCATAAGCCCTTTTAACTGGGGCATAAGCCCTTTCA
Found at i:28689393 original size:11 final size:11
Alignment explanation
Indices: 28689363--28689416 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
28689353 TATGATTACC
28689363 TCATGTGCATA
1 TCATGTGCATA
*
28689374 TCA--TACATA
1 TCATGTGCATA
28689383 TCATGTGCATA
1 TCATGTGCATA
*
28689394 TCA--TACAT-
1 TCATGTGCATA
28689402 TCATGTGCATA
1 TCATGTGCATA
28689413 TCAT
1 TCAT
28689417 ACATACCATA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
8 3 0.09
9 12 0.35
10 4 0.12
11 15 0.44
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.37
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:28689407 original size:19 final size:20
Alignment explanation
Indices: 28689363--28689421 Score: 111
Period size: 19 Copynumber: 3.0 Consensus size: 20
28689353 TATGATTACC
28689363 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
28689383 TCATGTGCATATCATACAT-
1 TCATGTGCATATCATACATA
28689402 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
28689422 CCATATTTAT
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 19 0.50
20 19 0.50
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:28689495 original size:25 final size:25
Alignment explanation
Indices: 28689463--28689510 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
28689453 ATACATAAAC
* * *
28689463 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
28689488 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
28689511 CATATATAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:28691603 original size:31 final size:31
Alignment explanation
Indices: 28691565--28691628 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
28691555 CCTTTTCATA
28691565 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
28691596 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
28691627 TT
1 TT
28691629 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:28691871 original size:24 final size:23
Alignment explanation
Indices: 28691841--28691960 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
28691831 CCTAGCCTCT
*
28691841 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
28691864 TTTCAATAACTGGGGCATAAGCCC
1 TTT-AATAACTGGGGCATAAGCCC
*
28691888 TTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
28691911 TTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
28691934 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
28691958 TTT
1 TTT
28691961 TTCACTTCCT
Statistics
Matches: 92, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
23 47 0.51
24 45 0.49
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:28691899 original size:47 final size:47
Alignment explanation
Indices: 28691820--28691960 Score: 205
Period size: 47 Copynumber: 3.0 Consensus size: 47
28691810 GCTTTATCAT
* *
28691820 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTT-A
*
28691869 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
*
28691915 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
28691961 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
46 23 0.26
47 43 0.49
48 9 0.10
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:28691961 original size:24 final size:24
Alignment explanation
Indices: 28691820--28691961 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
28691810 GCTTTATCAT
*
28691820 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
28691845 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
28691869 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
28691892 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
28691915 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
28691939 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
28691962 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
22 3 0.03
23 38 0.35
24 56 0.51
25 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:28692037 original size:20 final size:20
Alignment explanation
Indices: 28692012--28692071 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
28692002 TATGATTACC
28692012 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
28692032 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
28692052 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
28692072 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:28692042 original size:11 final size:11
Alignment explanation
Indices: 28692012--28692066 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
28692002 TATGATTACC
28692012 TCATGTGCATA
1 TCATGTGCATA
*
28692023 TCA--TACATA
1 TCATGTGCATA
28692032 TCATGTGCATA
1 TCATGTGCATA
* *
28692043 TCA--TACATT
1 TCATGTGCATA
28692052 TCATGTGCATA
1 TCATGTGCATA
28692063 TCAT
1 TCAT
28692067 ACATACCATA
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:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:28692146 original size:25 final size:25
Alignment explanation
Indices: 28692114--28692161 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
28692104 ATACATAAAC
* * *
28692114 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
28692139 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
28692162 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:28698325 original size:31 final size:31
Alignment explanation
Indices: 28698287--28698350 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
28698277 CCTTTTCATA
28698287 TTTCATATTTCATAATACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
28698318 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
28698349 TT
1 TT
28698351 ACTGTAAACG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.23, C:0.22, G:0.16, T:0.39
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:28698593 original size:24 final size:23
Alignment explanation
Indices: 28698563--28698682 Score: 186
Period size: 23 Copynumber: 5.1 Consensus size: 23
28698553 CCTAGCCTCT
*
28698563 TTTAATAACTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
28698586 TTTCAATAACTGGGGCATAAGCCC
1 TTT-AATAACTGGGGCATAAGCCC
*
28698610 TTTTATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
28698633 TTTGATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
*
28698656 TTTTGATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
28698680 TTT
1 TTT
28698683 TTCACTTCCT
Statistics
Matches: 92, Mismatches: 3, Indels: 4
0.93 0.03 0.04
Matches are distributed among these distances:
23 47 0.51
24 45 0.49
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.28
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:28698621 original size:47 final size:47
Alignment explanation
Indices: 28698542--28698682 Score: 205
Period size: 47 Copynumber: 3.0 Consensus size: 47
28698532 GCTTTATCAT
* *
28698542 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTT-A
*
28698591 ATAACTGGGGCATAAGCCCTTTT-ATAACTGGGGCATAAGCCCTTTG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
*
28698637 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCCTTT
1 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTT
28698683 TTCACTTCCT
Statistics
Matches: 87, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
46 23 0.26
47 43 0.49
48 9 0.10
49 12 0.14
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (47 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTA
Found at i:28698683 original size:24 final size:24
Alignment explanation
Indices: 28698542--28698683 Score: 200
Period size: 24 Copynumber: 6.0 Consensus size: 24
28698532 GCTTTATCAT
*
28698542 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
28698567 ATAACTGGGGCAAAAGCCCTTTCA
1 ATAACTGGGGCATAAGCCCTTTTA
28698591 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
*
28698614 ATAACTGGGGCATAAGCCC-TTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
28698637 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
28698661 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
28698684 TCACTTCCTC
Statistics
Matches: 109, Mismatches: 5, Indels: 7
0.90 0.04 0.06
Matches are distributed among these distances:
22 3 0.03
23 38 0.35
24 56 0.51
25 12 0.11
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:28698759 original size:20 final size:20
Alignment explanation
Indices: 28698734--28698793 Score: 111
Period size: 20 Copynumber: 3.0 Consensus size: 20
28698724 TATGATTACC
28698734 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
*
28698754 TCATGTGCATATCATACATT
1 TCATGTGCATATCATACATA
28698774 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
28698794 CCATATTTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.33, C:0.20, G:0.10, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:28698764 original size:11 final size:11
Alignment explanation
Indices: 28698734--28698788 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
28698724 TATGATTACC
28698734 TCATGTGCATA
1 TCATGTGCATA
*
28698745 TCA--TACATA
1 TCATGTGCATA
28698754 TCATGTGCATA
1 TCATGTGCATA
* *
28698765 TCA--TACATT
1 TCATGTGCATA
28698774 TCATGTGCATA
1 TCATGTGCATA
28698785 TCAT
1 TCAT
28698789 ACATACCATA
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:0.11, T:0.38
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:28698868 original size:25 final size:25
Alignment explanation
Indices: 28698836--28698883 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
28698826 ATACATAAAC
* * *
28698836 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
28698861 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
28698884 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:28701178 original size:41 final size:41
Alignment explanation
Indices: 28701103--28701282 Score: 245
Period size: 41 Copynumber: 4.4 Consensus size: 41
28701093 CAGCTACATG
*
28701103 TGGCACTTAGTGTGCGA-TTCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGAGATCGACATAGCTTCGGCTATATA
28701143 TGGCACTTAGTGTGCGAGATCGACATAGCTTCGGCTATATA
1 TGGCACTTAGTGTGCGAGATCGACATAGCTTCGGCTATATA
* * * * * *
28701184 TAGCACTTAGTCTGCAAGATCGAGATAGTTTAGGCTATATA
1 TGGCACTTAGTGTGCGAGATCGACATAGCTTCGGCTATATA
* * * * *
28701225 TGGCACTTAGTTTACGAGATCAAGATAGCTTCAGCTATATA
1 TGGCACTTAGTGTGCGAGATCGACATAGCTTCGGCTATATA
28701266 TGGCACTTAGTGTGCGA
1 TGGCACTTAGTGTGCGA
28701283 TTTAAGATAA
Statistics
Matches: 122, Mismatches: 17, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
40 17 0.14
41 105 0.86
ACGTcount: A:0.27, C:0.18, G:0.24, T:0.31
Consensus pattern (41 bp):
TGGCACTTAGTGTGCGAGATCGACATAGCTTCGGCTATATA
Found at i:28703401 original size:46 final size:46
Alignment explanation
Indices: 28703274--28703446 Score: 131
Period size: 46 Copynumber: 3.7 Consensus size: 46
28703264 ATCATCTTTG
* * * **
28703274 AGGCCGATGCCATGTCCCAGACATGTTCTTACACTGACAC-A-TCTCGT
1 AGGCTGATG-CATGTCCCAAACATG-TCTTACACTGGCACTAGTC-CCA
* * * *
28703321 A-GCCGATGCATGT-CCAAGACATGTCTTATACTGGC-TTACGTCCCG
1 AGGCTGATGCATGTCCCAA-ACATGTCTTACACTGGCACTA-GTCCCA
* *
28703366 AGGCTGATGCATGTCCCAAACATGTCTTACGCTGGCACTAGTCTCA
1 AGGCTGATGCATGTCCCAAACATGTCTTACACTGGCACTAGTCCCA
* *
28703412 ATGCTGATGCCATGTCCCAGACATGGTCTTACACT
1 AGGCTGATG-CATGTCCCAAACAT-GTCTTACACT
28703447 AGCTCTAATA
Statistics
Matches: 102, Mismatches: 15, Indels: 17
0.76 0.11 0.13
Matches are distributed among these distances:
44 14 0.14
45 12 0.12
46 47 0.46
47 20 0.20
48 9 0.09
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.27
Consensus pattern (46 bp):
AGGCTGATGCATGTCCCAAACATGTCTTACACTGGCACTAGTCCCA
Found at i:28706120 original size:40 final size:40
Alignment explanation
Indices: 28706074--28706257 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 40
28706064 CTTGCACAAG
* * *
28706074 GCCTTCGGGTCTTAGCCCGAATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* * *
28706114 GCCTTCGAGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
28706154 GCCTTCGGGTCTTAGCCCAGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * * *
28706194 GCCTTCAGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
**
28706234 GCCTTCGGAACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
28706258 CATTCGAATA
Statistics
Matches: 121, Mismatches: 21, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 1 0.01
40 119 0.98
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:28714630 original size:29 final size:29
Alignment explanation
Indices: 28714602--28714762 Score: 223
Period size: 29 Copynumber: 5.6 Consensus size: 29
28714592 CCTTCGAGCT
** * * *
28714602 CGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
* * * *
28714631 TGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
* *
28714660 TGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
28714689 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
28714718 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
28714747 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
28714763 ATCTCGTCAC
Statistics
Matches: 120, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 120 1.00
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:28714665 original size:87 final size:87
Alignment explanation
Indices: 28714573--28714762 Score: 218
Period size: 87 Copynumber: 2.2 Consensus size: 87
28714563 AATTTAAGCC
** * * * * * **
28714573 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCTTGCACAC
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
* *
28714638 ATAGTGTCATATTTTTCCAGCA
66 ATAGTGCCATATATTTCCAGCA
* * * * **
28714660 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCACGCACAC
1 CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
*
28714725 TTAGTGCCATATATTTCCAGCA
66 ATAGTGCCATATATTTCCAGCA
28714747 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
28714763 ATCTCGTCAC
Statistics
Matches: 83, Mismatches: 20, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
87 83 1.00
ACGTcount: A:0.25, C:0.33, G:0.15, T:0.27
Consensus pattern (87 bp):
CGCACACTTAGTGCCATACACTTCCAGCACGCACACCCAGTGCCATATATTTCCAGCACGCACAC
ATAGTGCCATATATTTCCAGCA
Found at i:28718364 original size:40 final size:39
Alignment explanation
Indices: 28718174--28718364 Score: 181
Period size: 39 Copynumber: 4.8 Consensus size: 39
28718164 GGATATAACG
* ** *
28718174 ACTCGCTCAAATGCCTTCGGGACAAAGCCCGGTTATAGTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * * *
28718214 ACTCGCACGAATGCCTTC-GGACTTAACCCGGGTTTAGTA
1 ACTCGCAC-AAAGCCTTCGGGACTTAGCCCGGATATAGTA
* *
28718253 ACTCGCACAAATGCCTTCGGG-CTTAGCCCGGATTTATTA
1 ACTCGCACAAA-GCCTTCGGGACTTAGCCCGGATATAGTA
* * *
28718292 ACTCGCACGAACGCCTTC-GGATCTTAGTCCGGATATAGTC
1 ACTCGCAC-AAAGCCTTCGGGA-CTTAGCCCGGATATAGTA
*
28718332 ACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAAGCCTTCGGGACTTAGCCCGGA
28718365 CATCATTCAA
Statistics
Matches: 124, Mismatches: 19, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
38 4 0.03
39 59 0.48
40 51 0.41
41 10 0.08
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAAGCCTTCGGGACTTAGCCCGGATATAGTA
Found at i:28721144 original size:518 final size:518
Alignment explanation
Indices: 28720167--28721204 Score: 1977
Period size: 518 Copynumber: 2.0 Consensus size: 518
28720157 TCATTCATGG
*
28720167 CTTAATACTAAGTGTGGGATCTATCCCAAGCCAACACATTTGGCCAAATCTGTAACACCCCGTAC
1 CTTAATACTAAGTGTGGGATCTATCCCAAGCCAACACATTTGGCCAAATCTGTAACACCCCATAC
28720232 CCAAGTCCGTTACCGGAGTCGAACACAAGGTGCACACAAACTTAACTTAATCATTTTCACTGTCC
66 CCAAGTCCGTTACCGGAGTCGAACACAAGGTGCACACAAACTTAACTTAATCATTTTCACTGTCC
* *
28720297 ATTTAAAAATTTCCAGACAAGTTGGTTACTGCGTCACTGTCGCCTTAAAAATCATATCTTGAGTT
131 ATTTAAAAATTTCCAGACAAGCTGGTTACTGCATCACTGTCGCCTTAAAAATCATATCTTGAGTT
28720362 TCAAAACTCGAAAATCAGTTTCGTAATTTTTCCCCGAAACTAGACTCATATGTCCATCTACAGAT
196 TCAAAACTCGAAAATCAGTTTCGTAATTTTTCCCCGAAACTAGACTCATATGTCCATCTACAGAT
*
28720427 TTTTTTCTAGAATTTTTGGTCAAGCCAATTAGTACATTTTATTAGTTAAAGTCTCCCATATTCCA
261 TTTTTTCTAGAATTTTTGGTCAAGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCATATTCCA
28720492 AGGTTCGACTACACTAACCTTTATGCATTACAAATTGGATATATTCCGGTACAGGTCTTCAATAC
326 AGGTTCGACTACACTAACCTTTATGCATTACAAATTGGATATATTCCGGTACAGGTCTTCAATAC
*
28720557 TGATACTGTTTGTTTCTTTAGAAACTAGACTTAAAGAGGAATCTATACATATATGGCATGACTCC
391 TGATACTGTTTGTTTCTTTAGAAACTAGACTCAAAGAGGAATCTATACATATATGGCATGACTCC
28720622 TAATCATCTCTGGTTAATTTACAATGAATTTCCAAAGTCGGAACAGGGGATCCAGAAACCGTT
456 TAATCATCTCTGGTTAATTTACAATGAATTTCCAAAGTCGGAACAGGGGATCCAGAAACCGTT
28720685 CTTAATACTAAGTGTGGGATCTATCCCAAGCCAACACATTTGGCCAAATCTGTAACACCCCATAC
1 CTTAATACTAAGTGTGGGATCTATCCCAAGCCAACACATTTGGCCAAATCTGTAACACCCCATAC
*
28720750 CCGAGTCCGTTACCGGAGTCGAACACAAGGTGCACACAAACTTAACTTAATCATTTTCACTGTCC
66 CCAAGTCCGTTACCGGAGTCGAACACAAGGTGCACACAAACTTAACTTAATCATTTTCACTGTCC
28720815 ATTTAAAAATTTCCAGACAAGCTGGTTACTGCATCACTGTCGCCTTAAAAATCATATCTTGAGTT
131 ATTTAAAAATTTCCAGACAAGCTGGTTACTGCATCACTGTCGCCTTAAAAATCATATCTTGAGTT
28720880 TCAAAACTCGAAAATCAGTTTCGTAATTTTTCCCCGAAACTAGACTCATATGTCCATCTACAGAT
196 TCAAAACTCGAAAATCAGTTTCGTAATTTTTCCCCGAAACTAGACTCATATGTCCATCTACAGAT
*
28720945 TTTTTTCTAGAATTTTTGGTCAAGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCCTATTCCA
261 TTTTTTCTAGAATTTTTGGTCAAGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCATATTCCA
* * *
28721010 AGGTTCGACTACACTGACCTTTATGCATTACGAATTGGATATCTTCCGGTACAGGTCTTCAATAC
326 AGGTTCGACTACACTAACCTTTATGCATTACAAATTGGATATATTCCGGTACAGGTCTTCAATAC
*
28721075 TGATGCTGTTTGTTTCTTTAGAAACTAGACTCAAAGAGGAATCTATACATATATGGCATGACTCC
391 TGATACTGTTTGTTTCTTTAGAAACTAGACTCAAAGAGGAATCTATACATATATGGCATGACTCC
28721140 TAATCATCTCTGGTTAATTTACAATGAATTTCCAAAGTCGGAACAGGGGATCCAGAAACCGTT
456 TAATCATCTCTGGTTAATTTACAATGAATTTCCAAAGTCGGAACAGGGGATCCAGAAACCGTT
28721203 CT
1 CT
28721205 GGCCCTGTTT
Statistics
Matches: 509, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
518 509 1.00
ACGTcount: A:0.31, C:0.22, G:0.15, T:0.32
Consensus pattern (518 bp):
CTTAATACTAAGTGTGGGATCTATCCCAAGCCAACACATTTGGCCAAATCTGTAACACCCCATAC
CCAAGTCCGTTACCGGAGTCGAACACAAGGTGCACACAAACTTAACTTAATCATTTTCACTGTCC
ATTTAAAAATTTCCAGACAAGCTGGTTACTGCATCACTGTCGCCTTAAAAATCATATCTTGAGTT
TCAAAACTCGAAAATCAGTTTCGTAATTTTTCCCCGAAACTAGACTCATATGTCCATCTACAGAT
TTTTTTCTAGAATTTTTGGTCAAGCCAATTAGTACAGTTTATTAGTTAAAGTCTCCCATATTCCA
AGGTTCGACTACACTAACCTTTATGCATTACAAATTGGATATATTCCGGTACAGGTCTTCAATAC
TGATACTGTTTGTTTCTTTAGAAACTAGACTCAAAGAGGAATCTATACATATATGGCATGACTCC
TAATCATCTCTGGTTAATTTACAATGAATTTCCAAAGTCGGAACAGGGGATCCAGAAACCGTT
Found at i:28722179 original size:40 final size:40
Alignment explanation
Indices: 28722126--28722264 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
28722116 GGATATAACG
* *
28722126 ACTCGCTCAAATGCCTTCGGGAC-AAACCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTT-TAGTA
* *
28722166 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTTTAGTA
*
28722206 ACTCGCACAAATGCCTTCGGG-CTTAA-CCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCCGG-TTTAGTA
* *
28722245 ACTCGCACGAACGCCTTCGG
1 ACTCGCACAAATGCCTTCGG
28722265 ATCTTAGTCC
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
38 4 0.05
39 29 0.33
40 46 0.52
41 9 0.10
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCCGGTTTAGTA
Found at i:28730051 original size:39 final size:39
Alignment explanation
Indices: 28729930--28730056 Score: 168
Period size: 40 Copynumber: 3.2 Consensus size: 39
28729920 GGATATAACG
* *
28729930 ACTCGCTCAAATGCCTTCGGGAC-AAACCCCGGTTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAA-CCCGGTT-TAGTA
*
28729970 ACTCGCACGAATGCCTTCGGGACTTAACCCGGGTTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCC-GGTTTAGTA
*
28730010 ACTCGCACAAATGCCTTCGGG-CTTAACCCGGATTTATTA
1 ACTCGCACAAATGCCTTCGGGACTTAACCCGG-TTTAGTA
28730049 ACTCGCAC
1 ACTCGCAC
28730057 GTACGCCTTT
Statistics
Matches: 79, Mismatches: 5, Indels: 7
0.87 0.05 0.08
Matches are distributed among these distances:
38 2 0.03
39 22 0.28
40 49 0.62
41 6 0.08
ACGTcount: A:0.25, C:0.30, G:0.20, T:0.24
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGGACTTAACCCGGTTTAGTA
Found at i:28732445 original size:48 final size:47
Alignment explanation
Indices: 28732370--28732494 Score: 132
Period size: 47 Copynumber: 2.7 Consensus size: 47
28732360 TCCCGAGGCT
** *
28732370 GATGCATACCCCAGACATGTCTTACACTAGCA-CT-AGT-CTCAATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCATCTCA-TAATCAA-GCC
* *
28732416 GATGCCATGTCCCAGACATGGTCTTACACT-GGATCTCATAATCTAGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACTAGCATCTCATAATCAAGCC
*
28732464 GATGCATGTCCCAGGCATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
28732495 TCACACAAAT
Statistics
Matches: 66, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
46 14 0.21
47 28 0.42
48 20 0.30
49 4 0.06
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCATCTCATAATCAAGCC
Found at i:28735798 original size:23 final size:21
Alignment explanation
Indices: 28735763--28735845 Score: 76
Period size: 23 Copynumber: 3.7 Consensus size: 21
28735753 GCCGATTCAA
*
28735763 CTCATGAGTGCTTACTATTTTAG
1 CTCAT-AGAGCTTACTA-TTTAG
* *
28735786 CTCATTGGAGCTTACCGATTTAG
1 CTCA-TAGAGCTTA-CTATTTAG
*
28735809 CTCGATAGAGCTTACTATTCAG
1 CTC-ATAGAGCTTACTATTTAG
28735831 CTCAATAGAGCTTAC
1 CTC-ATAGAGCTTAC
28735846 CGTTTTCTAC
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
22 20 0.40
23 26 0.52
24 4 0.08
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (21 bp):
CTCATAGAGCTTACTATTTAG
Found at i:28735805 original size:46 final size:45
Alignment explanation
Indices: 28735748--28735868 Score: 118
Period size: 46 Copynumber: 2.6 Consensus size: 45
28735738 AGCTCGTATT
* * * * *
28735748 AGCTTGCCGATTCAACTC-ATGAGTGCTTACTATTTTAGCTCATTGG
1 AGCTTACCGATTCAACTCGAT-AGAGCTTACTA-TTCAGCTCAATAG
* *
28735794 AGCTTACCGATTTAGCTCGATAGAGCTTACTATTCAGCTCAATAG
1 AGCTTACCGATTCAACTCGATAGAGCTTACTATTCAGCTCAATAG
* * *
28735839 AGCTTACCGTTTTCTACTCAATAGAGCTTA
1 AGCTTACCG-ATTCAACTCGATAGAGCTTA
28735869 TTGTTTATCA
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
45 19 0.31
46 40 0.66
47 2 0.03
ACGTcount: A:0.26, C:0.22, G:0.17, T:0.35
Consensus pattern (45 bp):
AGCTTACCGATTCAACTCGATAGAGCTTACTATTCAGCTCAATAG
Found at i:28743518 original size:46 final size:45
Alignment explanation
Indices: 28743461--28743582 Score: 149
Period size: 46 Copynumber: 2.7 Consensus size: 45
28743451 TAGCTCGTAT
* *
28743461 GAGCTTACCGATTCAGCTCATAAGAGCTTACTATTTTAGCTCATTG
1 GAGCTTACCGATTCAGCTCATAAGAGCTTACTA-TTTAGCTCAATA
* *
28743507 GGGCTTACCGATTTAGCTCGAT-AGAGCTTACTATTTAGCTCAATA
1 GAGCTTACCGATTCAGCTC-ATAAGAGCTTACTATTTAGCTCAATA
*
28743552 GAGCTTACCGTTTTCAGCTCA-ATAGAGCTTA
1 GAGCTTACCG-ATTCAGCTCATA-AGAGCTTA
28743583 TTGTTTATTA
Statistics
Matches: 65, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
45 20 0.31
46 43 0.66
47 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (45 bp):
GAGCTTACCGATTCAGCTCATAAGAGCTTACTATTTAGCTCAATA
Found at i:28743582 original size:69 final size:69
Alignment explanation
Indices: 28743451--28743582 Score: 153
Period size: 69 Copynumber: 1.9 Consensus size: 69
28743441 GAACTCACCG
* * * *
28743451 TAGCTCGTATGAGCTTACCGATTCAGCTCATAAGAGCTTACTATTTTAGCTCATTGGGGCTTACC
1 TAGCTCGTATGAGCTTACCGATTCAGCTCATAAGAGCTTACCATTTTAGCTCAATAGAGCTTACC
28743516 GATT
66 GATT
* * *
28743520 TAGCTCG-ATAGAGCTTA-CTATTTAGCTCA-ATAGAGCTTACCGTTTTCAGCTCAATAGAGCTT
1 TAGCTCGTAT-GAGCTTACCGATTCAGCTCATA-AGAGCTTACCATTTT-AGCTCAATAGAGCTT
28743582 A
63 A
28743583 TTGTTTATTA
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
67 1 0.02
68 25 0.47
69 27 0.51
ACGTcount: A:0.26, C:0.21, G:0.19, T:0.34
Consensus pattern (69 bp):
TAGCTCGTATGAGCTTACCGATTCAGCTCATAAGAGCTTACCATTTTAGCTCAATAGAGCTTACC
GATT
Found at i:28743588 original size:24 final size:23
Alignment explanation
Indices: 28743461--28743588 Score: 107
Period size: 23 Copynumber: 5.6 Consensus size: 23
28743451 TAGCTCGTAT
* * *
28743461 GAGCTTACCGATTCAGCTC-ATAA
1 GAGCTTACTGTTTTAGCTCAAT-A
* * *
28743484 GAGCTTACTATTTTAGCTCATTG
1 GAGCTTACTGTTTTAGCTCAATA
* * * *
28743507 GGGCTTACCGATTTAGCTCGATA
1 GAGCTTACTGTTTTAGCTCAATA
*
28743530 GAGCTTACT-ATTTAGCTCAATA
1 GAGCTTACTGTTTTAGCTCAATA
*
28743552 GAGCTTACCGTTTTCAGCTCAATA
1 GAGCTTACTGTTTT-AGCTCAATA
*
28743576 GAGCTTATTGTTT
1 GAGCTTACTGTTT
28743589 ATTAGATCAA
Statistics
Matches: 82, Mismatches: 20, Indels: 5
0.77 0.19 0.05
Matches are distributed among these distances:
22 20 0.24
23 41 0.50
24 21 0.26
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (23 bp):
GAGCTTACTGTTTTAGCTCAATA
Found at i:28744506 original size:15 final size:15
Alignment explanation
Indices: 28744486--28744519 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
28744476 AGAGACACGG
28744486 GTGTGTGTCTCAACC
1 GTGTGTGTCTCAACC
*
28744501 GTGTGTGTCTCAGCC
1 GTGTGTGTCTCAACC
28744516 GTGT
1 GTGT
28744520 ACGACACACG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.09, C:0.24, G:0.32, T:0.35
Consensus pattern (15 bp):
GTGTGTGTCTCAACC
Found at i:28748025 original size:49 final size:50
Alignment explanation
Indices: 28747948--28748076 Score: 131
Period size: 49 Copynumber: 2.6 Consensus size: 50
28747938 TAGGGTATAA
* * * *
28747948 TGCCAATGCCATGTCCCCA-ACATGGTCTTACA-TTGACTATCGAAAT-TGAG
1 TGCCGATGCCATGT-CCTAGACATGGTCTTACACTAG-CTATC-AAATATCAG
* * * *
28747998 -GCTGATGCCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATCCG
1 TGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTATCAAATATCAG
28748047 TGCCGATGCCATGTCCTAGACATGGTCTTA
1 TGCCGATGCCATGTCCTAGACATGGTCTTA
28748077 TACTGACACA
Statistics
Matches: 66, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
48 6 0.09
49 30 0.45
50 30 0.45
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.29
Consensus pattern (50 bp):
TGCCGATGCCATGTCCTAGACATGGTCTTACACTAGCTATCAAATATCAG
Done.