Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A12
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: 102106374
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3186644 characters in sequence are not A, C, G, or T
File 9 of 311
Found at i:2573070 original size:22 final size:20
Alignment explanation
Indices: 2573012--2573071 Score: 54
Period size: 22 Copynumber: 2.9 Consensus size: 20
2573002 CCTTTTTGTA
2573012 TTTATTTA-TTC-ATTTTAT
1 TTTATTTATTTCAATTTTAT
2573030 TTTCATTT-TTTACAAATTTATAT
1 TTT-ATTTATTT-C-AATTT-TAT
2573053 TTTATTTATTTCAGATTTT
1 TTTATTTATTTCA-ATTTT
2573072 TACATAATAT
Statistics
Matches: 34, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
18 3 0.09
19 6 0.18
20 1 0.03
21 2 0.06
22 13 0.38
23 9 0.26
ACGTcount: A:0.25, C:0.07, G:0.02, T:0.67
Consensus pattern (20 bp):
TTTATTTATTTCAATTTTAT
Found at i:2574659 original size:21 final size:21
Alignment explanation
Indices: 2574635--2574705 Score: 74
Period size: 21 Copynumber: 3.5 Consensus size: 21
2574625 AAAAATATTT
*
2574635 TTTATTTTAAAAAATTAATAA
1 TTTAATTTAAAAAATTAATAA
** **
2574656 TTTAATTT-AAGTA-TAATTT
1 TTTAATTTAAAAAATTAATAA
*
2574675 TTTATTTTAAAAAATTAATAA
1 TTTAATTTAAAAAATTAATAA
2574696 TTTAATTTAA
1 TTTAATTTAA
2574706 GTATTTTTAA
Statistics
Matches: 37, Mismatches: 11, Indels: 4
0.71 0.21 0.08
Matches are distributed among these distances:
19 11 0.30
20 6 0.16
21 20 0.54
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.52
Consensus pattern (21 bp):
TTTAATTTAAAAAATTAATAA
Found at i:2574676 original size:40 final size:40
Alignment explanation
Indices: 2574631--2574709 Score: 158
Period size: 40 Copynumber: 2.0 Consensus size: 40
2574621 AAAAAAAAAT
2574631 ATTTTTTATTTTAAAAAATTAATAATTTAATTTAAGTATA
1 ATTTTTTATTTTAAAAAATTAATAATTTAATTTAAGTATA
2574671 ATTTTTTATTTTAAAAAATTAATAATTTAATTTAAGTAT
1 ATTTTTTATTTTAAAAAATTAATAATTTAATTTAAGTAT
2574710 TTTTAATACA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (40 bp):
ATTTTTTATTTTAAAAAATTAATAATTTAATTTAAGTATA
Found at i:2574723 original size:36 final size:39
Alignment explanation
Indices: 2574643--2574726 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 39
2574633 TTTTTATTTT
* **
2574643 AAAAAATTAATAATTTAATTTAAGTATAATTTTTTATTTT
1 AAAAAATTAATAATTTAATTTAAG-ATAATTTTTTAATAC
2574683 AAAAAATTAATAATTTAATTTAAG-T-A-TTTTTAATAC
1 AAAAAATTAATAATTTAATTTAAGATAATTTTTTAATAC
2574719 AAAAAATT
1 AAAAAATT
2574727 TAATTTTATC
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
36 15 0.37
37 1 0.02
38 1 0.02
40 24 0.59
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.46
Consensus pattern (39 bp):
AAAAAATTAATAATTTAATTTAAGATAATTTTTTAATAC
Found at i:2579101 original size:44 final size:44
Alignment explanation
Indices: 2579053--2579239 Score: 111
Period size: 45 Copynumber: 4.2 Consensus size: 44
2579043 AACTTCAGGA
2579053 AGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACATAG
1 AGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACATAG
* ** * * *
2579097 AGATAAGACTCGCCATTTCT--GATTTGCTCCATAGCCGATACATGG
1 AGATAAGACTTG---TGGCTAAAATCTGCTCCATAGCCGATACATAG
*** ** * *
2579142 AGATAAGA-TATGTAATTTTCAGTCTGCTTCC-T-G-C-A-ACTTCAGG
1 AGATAAGACT-TGT-GGCTAAAATCTGC-TCCATAGCCGATACAT-A-G
*
2579185 AAGATAAGACTTGTGGCTAAAATCTGCTCTATAGCCGATACATAG
1 -AGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACATAG
2579230 AGATAAGACT
1 AGATAAGACT
2579240 CGCCATTTCT
Statistics
Matches: 104, Mismatches: 22, Indels: 34
0.65 0.14 0.21
Matches are distributed among these distances:
41 3 0.03
42 4 0.04
43 12 0.12
44 35 0.34
45 39 0.38
46 5 0.05
47 6 0.06
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.28
Consensus pattern (44 bp):
AGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACATAG
Found at i:2579156 original size:133 final size:133
Alignment explanation
Indices: 2578920--2579376 Score: 615
Period size: 133 Copynumber: 3.5 Consensus size: 133
2578910 CTACCTCAAA
** * * * * *
2578920 AAGATAAGACCGGTGGCTAAAATTTGCTTCATAGCCGATACATGGAGATAAGACT-ACCATTCCT
1 AAGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTCT
* *
2578984 GATCTGCTCCATAGCTGATACATGGAGATAAGATTTGTAATTTTCAGTCTGCTTCCTACAACTTC
66 GATCTGCTCCATAGCCGATACATGGAGATAAGATATGTAATTTTCAGTCTGCTTCCTACAACTTC
2579049 AGG
131 AGG
2579052 AAGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTCT
1 AAGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTCT
* *
2579117 GATTTGCTCCATAGCCGATACATGGAGATAAGATATGTAATTTTCAGTCTGCTTCCTGCAACTTC
66 GATCTGCTCCATAGCCGATACATGGAGATAAGATATGTAATTTTCAGTCTGCTTCCTACAACTTC
2579182 AGG
131 AGG
*
2579185 AAGATAAGACTTGTGGCTAAAATCTGCTCTATAGCCGATACATAGAGATAAGACTCGCCATTTCT
1 AAGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTCT
* * **
2579250 GATCTGCTCCATAGCCGATACATGAAGATAAGATATGGT-A-TTT-AGCCTGC-TCC-ACTCCTG
66 GATCTGCTCCATAGCCGATACATGGAGATAAGATAT-GTAATTTTCAGTCTGCTTCCTACAACT-
2579310 CTCAGTG
129 -TCAG-G
* * * * *
2579317 AAGATAAGGC-TGATAGCTGAAATCTGCTCCATTGCCGATACAT-GAAGATAAGACTTGCCA
1 AAGATAAGACTTG-TGGCTAAAATCTGCTCCATAGCCGATACATAG-AGATAAGACTCGCCA
2579377 AAATTTGATC
Statistics
Matches: 294, Mismatches: 24, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
129 3 0.01
130 3 0.01
131 13 0.04
132 103 0.35
133 170 0.58
134 2 0.01
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.28
Consensus pattern (133 bp):
AAGATAAGACTTGTGGCTAAAATCTGCTCCATAGCCGATACATAGAGATAAGACTCGCCATTTCT
GATCTGCTCCATAGCCGATACATGGAGATAAGATATGTAATTTTCAGTCTGCTTCCTACAACTTC
AGG
Found at i:2579387 original size:133 final size:133
Alignment explanation
Indices: 2578932--2579660 Score: 567
Period size: 135 Copynumber: 5.5 Consensus size: 133
2578922 GATAAGACCG
* * * * * *
2578932 GTGGCTAAAATTTGCTTCATAGCCGATACATGGAGATAAGACT-ACC---ATTCCTGATCTGCTC
1 GTGGCTGAAATCTGCTCCATTGCCGATACATGAAGATAAGACTCGCCAAAATT--TGATCTGCTC
* * * * **
2578993 CATAGCTGATACATGGAGATAAGAT-TTGTAATTTTCAGTCTGCTTCCTACAACT--TCAG-GAA
64 CATAGCCGATACATGAAGATAAGATATGGT-ATTTT-AGCCTGC-TCC-ACTCCTGCTCAGTGAA
*
2579054 GATAAGACTT
125 GATAAGGC-T
* * * *
2579064 GTGGCTAAAATCTGCTCCATAGCCGATACAT-AGAGATAAGACTCGCC--ATTTCTGATTTGCTC
1 GTGGCTGAAATCTGCTCCATTGCCGATACATGA-AGATAAGACTCGCCAAAATT-TGATCTGCTC
* * * * **
2579126 CATAGCCGATACATGGAGATAAGATAT-GTAATTTTCAGTCTGCTTC-CTGCAACTTCAG-GAAG
64 CATAGCCGATACATGAAGATAAGATATGGT-ATTTT-AGCCTGCTCCACTCCTGC-TCAGTGAAG
*
2579188 ATAAGACTT
126 ATAAGGC-T
* * * *
2579197 GTGGCTAAAATCTGCTCTATAGCCGATACAT-AGAGATAAGACTCGCC--ATTTCTGATCTGCTC
1 GTGGCTGAAATCTGCTCCATTGCCGATACATGA-AGATAAGACTCGCCAAAATT-TGATCTGCTC
2579259 CATAGCCGATACATGAAGATAAGATATGGTA-TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATA
64 CATAGCCGATACATGAAGATAAGATATGGTATTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATA
2579323 AGGCT
129 AGGCT
* * *
2579328 GATAGCTGAAATCTGCTCCATTGCCGATACATGAAGATAAGACTTGCCAAAATTTGATCTGCTTC
1 G-TGGCTGAAATCTGCTCCATTGCCGATACATGAAGATAAGACTCGCCAAAATTTGATCTGCTCC
* * *
2579393 ACT--CCTGCT-CAGTGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCTTGCTCAGTGAAG
65 A-TAGCC-GATACA-TGAAGATAAGATATGGTAT-TTTAGCCTGCTCCACTCCTGCTCAGTGAAG
2579455 ATAAGGCT
126 ATAAGGCT
* * * *
2579463 GGTGGTTGAAATCTACTCCACT-CCTGCT-CAGTGAAGATAAGACTCGCCAAAATTTGATCTGCT
1 -GTGGCTGAAATCTGCTCCATTGCC-GATACA-TGAAGATAAGACTCGCCAAAATTTGATCTGCT
* ** * * **
2579526 TCACTA-TTGCT-CAGTAAAGATAAGATCGGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAA
63 CCA-TAGCCGATACA-TGAAGATAAGATATGGTAT-TTTAGCCTGCTCCACTCCTGCTCAGTGAA
2579589 GATAAGGCT
125 GATAAGGCT
* * * *
2579598 GGAGGCTGAAATCTGCTCCACT-CCTGCT-CAGTGAAGATAAGACTCGCCAAAATTTAATCTGCT
1 -GTGGCTGAAATCTGCTCCATTGCC-GATACA-TGAAGATAAGACTCGCCAAAATTTGATCTGCT
2579661 TCACTCCTGC
Statistics
Matches: 529, Mismatches: 45, Indels: 43
0.86 0.07 0.07
Matches are distributed among these distances:
130 2 0.00
131 14 0.03
132 101 0.19
133 187 0.35
134 13 0.02
135 211 0.40
136 1 0.00
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (133 bp):
GTGGCTGAAATCTGCTCCATTGCCGATACATGAAGATAAGACTCGCCAAAATTTGATCTGCTCCA
TAGCCGATACATGAAGATAAGATATGGTATTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAG
GCT
Found at i:2579409 original size:46 final size:45
Alignment explanation
Indices: 2579359--2579685 Score: 204
Period size: 46 Copynumber: 7.2 Consensus size: 45
2579349 TGCCGATACA
*
2579359 TGAAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCCTGCTCAG
1 TGAAGATAAGACTTGCCAAAATTT-ATCTGCTCCACTCCTGCTCAG
** ** * *
2579405 TGAAGATAAGA-TCTG-GTATGTTTAGCCTGCTCCACTCTTGCTCAG
1 TGAAGATAAGACT-TGCCAAAATTTA-TCTGCTCCACTCCTGCTCAG
* **** *
2579450 TGAAGATAAGGCTGGTGGTTGAA---ATCTACTCCACTCCTGCTCAG
1 TGAAGATAAGACT--TGCCAAAATTTATCTGCTCCACTCCTGCTCAG
* * **
2579494 TGAAGATAAGACTCGCCAAAATTTGATCTGCTTCACTATTGCTCAG
1 TGAAGATAAGACTTGCCAAAATTT-ATCTGCTCCACTCCTGCTCAG
* * *** ** *
2579540 TAAAGATAAGA-TCGGGTATGTTTAGCCTGCTCCACTCCTGCTCAG
1 TGAAGATAAGACTTGCCAAAATTTA-TCTGCTCCACTCCTGCTCAG
* * * **
2579585 TGAAGATAAGGCTGGAGGCTGAA---ATCTGCTCCACTCCTGCTCAG
1 TGAAGATAAGACT--TGCCAAAATTTATCTGCTCCACTCCTGCTCAG
* * *
2579629 TGAAGATAAGACTCGCCAAAATTTAATCTGCTTCACTCCTGCTTAG
1 TGAAGATAAGACTTGCCAAAATTT-ATCTGCTCCACTCCTGCTCAG
2579675 TGAAGATAAGA
1 TGAAGATAAGA
2579686 TCAGGTATGT
Statistics
Matches: 213, Mismatches: 51, Indels: 34
0.71 0.17 0.11
Matches are distributed among these distances:
42 7 0.03
44 62 0.29
45 66 0.31
46 72 0.34
47 2 0.01
48 4 0.02
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (45 bp):
TGAAGATAAGACTTGCCAAAATTTATCTGCTCCACTCCTGCTCAG
Found at i:2579484 original size:44 final size:44
Alignment explanation
Indices: 2579296--2579638 Score: 200
Period size: 44 Copynumber: 7.7 Consensus size: 44
2579286 GGTATTTAGC
* *
2579296 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCT-GATAGCTGAAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGA-GGTTGAAAT
* * * * **
2579340 CTGCTCCATTGCC-GATACA-TGAAGATAAGACTTGCCAAAATTTG--AT
1 CTGCTCCACT-CCTGCT-CAGTGAAGATAAGGC-TG---GAGGTTGAAAT
* * * * **
2579386 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATGTT-TAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGG-AGGTTGAAAT
* *
2579431 CTGCTCCACTCTTGCTCAGTGAAGATAAGGCTGGTGGTTGAAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGAGGTTGAAAT
* * * **
2579475 CTACTCCACTCCTGCTCAGTGAAGATAAGACTCGCCAAAATTTG--AT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCT-G---GAGGTTGAAAT
* ** * * * * * **
2579521 CTGCTTCACTATTGCTCAGTAAAGATAAGATCGGGTATGTT-TAGC
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGG-AGGTTGAAAT
*
2579566 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGAGGCTGAAAT
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGAGGTTGAAAT
2579610 CTGCTCCACTCCTGCTCAGTGAAGATAAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG
2579639 ACTCGCCAAA
Statistics
Matches: 223, Mismatches: 53, Indels: 46
0.69 0.16 0.14
Matches are distributed among these distances:
43 6 0.03
44 95 0.43
45 62 0.28
46 51 0.23
47 2 0.01
48 6 0.03
49 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.28
Consensus pattern (44 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGAGGTTGAAAT
Found at i:2579498 original size:135 final size:135
Alignment explanation
Indices: 2579272--2579696 Score: 651
Period size: 135 Copynumber: 3.2 Consensus size: 135
2579262 AGCCGATACA
* * *
2579272 TGAAGATAAGATATGGTA--TTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGATAGCT
1 TGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCT
* * *
2579335 GAAATCTGCTCCATTGCC-GATACA-TGAAGATAAGACTTGCCAAAATTTGATCTGCTTCACTCC
66 GAAATCTGCTCCACT-CCTGCT-CAGTGAAGATAAGACTCGCCAAAATTTGATCTGCTTCACTCC
2579398 TGCTCAG
129 TGCTCAG
* *
2579405 TGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCTTGCTCAGTGAAGATAAGGCTGGTGGTT
1 TGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCT
* **
2579470 GAAATCTACTCCACTCCTGCTCAGTGAAGATAAGACTCGCCAAAATTTGATCTGCTTCACTATTG
66 GAAATCTGCTCCACTCCTGCTCAGTGAAGATAAGACTCGCCAAAATTTGATCTGCTTCACTCCTG
2579535 CTCAG
131 CTCAG
* * *
2579540 TAAAGATAAGATCGGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGAGGCT
1 TGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCT
*
2579605 GAAATCTGCTCCACTCCTGCTCAGTGAAGATAAGACTCGCCAAAATTTAATCTGCTTCACTCCTG
66 GAAATCTGCTCCACTCCTGCTCAGTGAAGATAAGACTCGCCAAAATTTGATCTGCTTCACTCCTG
*
2579670 CTTAG
131 CTCAG
*
2579675 TGAAGATAAGATCAGGTATGTT
1 TGAAGATAAGATCTGGTATGTT
2579697 CACCGATTCC
Statistics
Matches: 265, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
133 17 0.06
134 4 0.02
135 244 0.92
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (135 bp):
TGAAGATAAGATCTGGTATGTTTAGCCTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGTGGCT
GAAATCTGCTCCACTCCTGCTCAGTGAAGATAAGACTCGCCAAAATTTGATCTGCTTCACTCCTG
CTCAG
Found at i:2579683 original size:90 final size:90
Alignment explanation
Indices: 2579296--2579684 Score: 290
Period size: 90 Copynumber: 4.3 Consensus size: 90
2579286 GGTATTTAGC
* *
2579296 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCT-GATAGCTGAAATCTGCTCCATTGCC-GATACA
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGA-AGCTGAAATCTGCTCCACT-CCTGCT-CA
* *
2579359 -TGAAGATAAGACTTGCCAAAATTTGAT
63 GTGAAGATAAGACTCGCCAAAATTTAAT
* * * ** ** *
2579386 CTGCTTCACTCCTGCTCAGTGAAGATAAGATCTGGTATG-TTTAGCCTGCTCCACTCTTGCTCAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG-GCTGG-AAGCTGAAATCTGCTCCACTCCTGCTCAG
* **** *
2579450 TGAAGATAAGGCT-G--GTGGTTGAAAT
64 TGAAGATAAGACTCGCCAAAATT-TAAT
* * * ** *** * **
2579475 CTACTCCACTCCTGCTCAGTGAAGATAAGACTCGCCAAAATTTGATCTGCTTCACTATTGCTCAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCT-G-GAAGCTGAAATCTGCTCCACTCCTGCTCAG
* *** ** **
2579540 TAAAGATAAGA-TCGGGTATGTTTAGC
64 TGAAGATAAGACTCGCCAAAATTTAAT
*
2579566 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGAGGCTGAAATCTGCTCCACTCCTGCTCAGTG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGAAGCTGAAATCTGCTCCACTCCTGCTCAGTG
2579631 AAGATAAGACTCGCCAAAATTTAAT
66 AAGATAAGACTCGCCAAAATTTAAT
* *
2579656 CTGCTTCACTCCTGCTTAGTGAAGATAAG
1 CTGCTCCACTCCTGCTCAGTGAAGATAAG
2579685 ATCAGGTATG
Statistics
Matches: 228, Mismatches: 58, Indels: 26
0.73 0.19 0.08
Matches are distributed among these distances:
88 4 0.02
89 62 0.27
90 98 0.43
91 58 0.25
92 5 0.02
93 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (90 bp):
CTGCTCCACTCCTGCTCAGTGAAGATAAGGCTGGAAGCTGAAATCTGCTCCACTCCTGCTCAGTG
AAGATAAGACTCGCCAAAATTTAAT
Found at i:2585020 original size:22 final size:23
Alignment explanation
Indices: 2584973--2585031 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
2584963 AAAGCCAAGC
*
2584973 TATATACGAATAATTTTAAAGAAAA
1 TATATAC-AATAAATTT-AAGAAAA
2584998 TATATACAATAAATTT-AGAAAA
1 TATATACAATAAATTTAAGAAAA
*
2585020 TATTTAC-ATAAA
1 TATATACAATAAA
2585032 ATAATATGAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
21 5 0.16
22 12 0.38
24 8 0.25
25 7 0.22
ACGTcount: A:0.56, C:0.05, G:0.05, T:0.34
Consensus pattern (23 bp):
TATATACAATAAATTTAAGAAAA
Found at i:2586755 original size:23 final size:23
Alignment explanation
Indices: 2586725--2586770 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
2586715 GTGTTTCATG
2586725 TCTGCTGCCTGATTAAGTTACAT
1 TCTGCTGCCTGATTAAGTTACAT
2586748 TCTGCTGCCTGATTAAGTTACAT
1 TCTGCTGCCTGATTAAGTTACAT
2586771 ACTAGCTTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.22, C:0.22, G:0.17, T:0.39
Consensus pattern (23 bp):
TCTGCTGCCTGATTAAGTTACAT
Found at i:2587049 original size:25 final size:26
Alignment explanation
Indices: 2587014--2587062 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
2587004 TCTCCAATTC
*
2587014 TTAAACTTGATTTTGA-AATAAAAAA
1 TTAAACATGATTTTGATAATAAAAAA
*
2587039 TTAAACATGATTTTTATAATAAAA
1 TTAAACATGATTTTGATAATAAAA
2587063 CTTATTCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (26 bp):
TTAAACATGATTTTGATAATAAAAAA
Found at i:2587126 original size:45 final size:46
Alignment explanation
Indices: 2587077--2587167 Score: 139
Period size: 46 Copynumber: 2.0 Consensus size: 46
2587067 TTCTTCACAG
*
2587077 AATTAAA-TTCCTACTATAAAATTTTTAAAAAATACAACCACTATA
1 AATTAAATTTCCTACTATAAAATTTTCAAAAAATACAACCACTATA
* * *
2587122 AATTAAATTTCCTACTTTGAAATTTTCAAAAAATACAATCACTATA
1 AATTAAATTTCCTACTATAAAATTTTCAAAAAATACAACCACTATA
2587168 GACATATTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
45 7 0.17
46 34 0.83
ACGTcount: A:0.48, C:0.15, G:0.01, T:0.35
Consensus pattern (46 bp):
AATTAAATTTCCTACTATAAAATTTTCAAAAAATACAACCACTATA
Found at i:2592261 original size:119 final size:119
Alignment explanation
Indices: 2592124--2592983 Score: 1603
Period size: 120 Copynumber: 7.2 Consensus size: 119
2592114 TTTTCAAGTT
*
2592124 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
2592189 TAATATAAGAACATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATATTTTAATTAAA
*
2592243 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
2592308 TAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATATTTTAATTAAA
2592362 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
2592427 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTT-TTTAAATTATATATTTTAATTAAA
*
2592482 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
2592547 TAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATATTTTAATTAAA
2592601 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
2592666 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATATTTTAATTAAA
2592721 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
2592786 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTT-TTTAAATTATATATTTTAATTAAA
2592841 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
2592906 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAA
66 TAATATAAGAATATTAATTATTAAGAATTTT-TTAAATTATATATTTTAATTAAA
2592961 ATATATTTAATAATAATTATGTT
1 ATATATTTAATAATAATTATGTT
2592984 TAAATATGAT
Statistics
Matches: 726, Mismatches: 11, Indels: 7
0.98 0.01 0.01
Matches are distributed among these distances:
119 329 0.45
120 397 0.55
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (119 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTTTAAATTATATATTTTAATTAAA
Found at i:2592552 original size:239 final size:239
Alignment explanation
Indices: 2592124--2592983 Score: 1641
Period size: 239 Copynumber: 3.6 Consensus size: 239
2592114 TTTTCAAGTT
*
2592124 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
* *
2592189 TAATATAAGAACATTAATTATTAAGAATTTT-TTAAATTATATAGTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
2592253 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
2592318 ATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAA
196 ATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAA
2592362 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
*
2592427 TAATATAAGAATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
2592492 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
2592557 ATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAA
196 ATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAA
2592601 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
2592666 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
*
2592731 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAATTAATATAAGA
131 TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
* *
2592796 ATATTAATTATTAAGAATTTCATTAAATTATATATTTTAATTAAA
196 ATATTAATTATTAAGAATTT-TTTAAATTATATAGTTTAATTAAA
2592841 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
1 ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
2592906 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
66 TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
2592971 TAATAATTATGTT
131 TAATAATTATGTT
2592984 TAAATATGAT
Statistics
Matches: 612, Mismatches: 8, Indels: 2
0.98 0.01 0.00
Matches are distributed among these distances:
238 93 0.15
239 354 0.58
240 165 0.27
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (239 bp):
ATATATTTAATAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTCAGTAAAT
TAATATAAGAATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAA
TAATAATTATGTTAATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGA
ATATTAATTATTAAGAATTTTTTAAATTATATAGTTTAATTAAA
Found at i:2592720 original size:18 final size:17
Alignment explanation
Indices: 2592692--2592726 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2592682 ATTATTAAGA
*
2592692 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
2592709 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
2592727 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:2592960 original size:18 final size:17
Alignment explanation
Indices: 2592932--2592966 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
2592922 ATTATTAAGA
*
2592932 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
2592949 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
2592967 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:2593180 original size:44 final size:45
Alignment explanation
Indices: 2593131--2593221 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
2593121 ACCTCTATTC
* * *
2593131 CATTCAACCAAACACAAGATTA-CTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
***
2593175 CATTCAACCAAACAGTGGATTAGCTATTACACCTCTAATCCAATA
1 CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
2593220 CA
1 CA
2593222 CCTCTAATCC
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.37, C:0.29, G:0.07, T:0.27
Consensus pattern (45 bp):
CATTCAACCAAACACAAGATTAGCTATTACACCTCTAATCCAATA
Found at i:2593223 original size:16 final size:16
Alignment explanation
Indices: 2593202--2593270 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
2593192 GATTAGCTAT
2593202 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
2593218 TACACCTCTAATCCCAA
1 TACACCTCTAAT-CCAA
2593235 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
*
2593251 TACGCCTCTAATCCAA
1 TACACCTCTAATCCAA
2593267 TACA
1 TACA
2593271 GCGAACCAAA
Statistics
Matches: 50, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
16 34 0.68
17 16 0.32
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:2593244 original size:33 final size:32
Alignment explanation
Indices: 2593202--2593270 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
2593192 GATTAGCTAT
2593202 TACACCTCTAATCCAATACACCTCTAATCCCAA
1 TACACCTCTAATCCAATACACCTCTAAT-CCAA
*
2593235 TACACCTCTAATCCAATACGCCTCTAATCCAA
1 TACACCTCTAATCCAATACACCTCTAATCCAA
2593267 TACA
1 TACA
2593271 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 8 0.23
33 27 0.77
ACGTcount: A:0.36, C:0.38, G:0.01, T:0.25
Consensus pattern (32 bp):
TACACCTCTAATCCAATACACCTCTAATCCAA
Found at i:2594445 original size:14 final size:15
Alignment explanation
Indices: 2594426--2594458 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
2594416 TATAAACTAT
2594426 TTTATTTA-TATTTA
1 TTTATTTATTATTTA
*
2594440 TTTATTTATTATTTC
1 TTTATTTATTATTTA
2594455 TTTA
1 TTTA
2594459 CCTTTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.24, C:0.03, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTATTTATTATTTA
Found at i:2598217 original size:15 final size:16
Alignment explanation
Indices: 2598197--2598226 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2598187 CGAGCAGGGA
2598197 AAAAGGA-GGAAAAAG
1 AAAAGGAGGGAAAAAG
2598212 AAAAGGAGGGAAAAA
1 AAAAGGAGGGAAAAA
2598227 AGAGAAGTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (16 bp):
AAAAGGAGGGAAAAAG
Found at i:2603733 original size:29 final size:32
Alignment explanation
Indices: 2603700--2603763 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 32
2603690 TGTTACTTGG
* *
2603700 AATTACAATAAA-AAATACAAAG-AAA-GATT
1 AATTACAATAAAGAAAAAAAAAGAAAACGATT
2603729 AATTACAATAAAGAAAAAAAAAGAAAACGATT
1 AATTACAATAAAGAAAAAAAAAGAAAACGATT
2603761 AAT
1 AAT
2603764 CACATTATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
29 12 0.40
30 8 0.27
31 3 0.10
32 7 0.23
ACGTcount: A:0.67, C:0.06, G:0.08, T:0.19
Consensus pattern (32 bp):
AATTACAATAAAGAAAAAAAAAGAAAACGATT
Found at i:2607501 original size:19 final size:19
Alignment explanation
Indices: 2607434--2607502 Score: 52
Period size: 19 Copynumber: 3.6 Consensus size: 19
2607424 TTTTTGAATT
*
2607434 TTATGTATTTTTATAA-AA
1 TTATATATTTTTATAATAA
* *
2607452 TTTTAGATTTTT-TAATAAA
1 TTATATATTTTTATAAT-AA
** *
2607471 AAATGATTTTTTTATAATAA
1 TTAT-ATATTTTTATAATAA
2607491 TTATATATTTTT
1 TTATATATTTTT
2607503 TATTTTTTAA
Statistics
Matches: 36, Mismatches: 11, Indels: 7
0.67 0.20 0.13
Matches are distributed among these distances:
17 3 0.08
18 9 0.25
19 10 0.28
20 10 0.28
21 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (19 bp):
TTATATATTTTTATAATAA
Found at i:2607504 original size:20 final size:19
Alignment explanation
Indices: 2607441--2607505 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 19
2607431 ATTTTATGTA
* *
2607441 TTTTTATAAAATTTTAGAT
1 TTTTTATAAAATTATATAT
*
2607460 TTTTTAATAAAA-AATGAT-T
1 TTTTT-ATAAAATTAT-ATAT
2607479 TTTTTATAATAATTATATAT
1 TTTTTATAA-AATTATATAT
2607499 TTTTTAT
1 TTTTTAT
2607506 TTTTTAAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
18 4 0.11
19 16 0.43
20 17 0.46
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTTTATAAAATTATATAT
Found at i:2615790 original size:73 final size:73
Alignment explanation
Indices: 2615704--2615850 Score: 249
Period size: 73 Copynumber: 2.0 Consensus size: 73
2615694 ATCAAGTTCA
* * *
2615704 AACTTAATATTATTAATAAGAATAAAAATACTCTTTTTGCTTATATGGTTGAATCTTCTTTATGA
1 AACTCAATATTATTAATAAGAATAAAAATACTCTCTCTGCTTATATGGTTGAATCTTCTTTATGA
2615769 CATTATAG
66 CATTATAG
* *
2615777 AACTCAATATTATTAATAAGAATAAAAATACTCTCTCTGTTTATATGGTTGAATCTTCTTTATGG
1 AACTCAATATTATTAATAAGAATAAAAATACTCTCTCTGCTTATATGGTTGAATCTTCTTTATGA
2615842 CATTATAG
66 CATTATAG
2615850 A
1 A
2615851 TTAGGTCATT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
73 69 1.00
ACGTcount: A:0.37, C:0.11, G:0.10, T:0.42
Consensus pattern (73 bp):
AACTCAATATTATTAATAAGAATAAAAATACTCTCTCTGCTTATATGGTTGAATCTTCTTTATGA
CATTATAG
Found at i:2620247 original size:48 final size:48
Alignment explanation
Indices: 2620194--2620340 Score: 240
Period size: 48 Copynumber: 3.1 Consensus size: 48
2620184 GTGTCATTAA
* *
2620194 GAGCTTCATTGATTTGGCTTCGGGCCATGATACTAGCACTTTGGGTGC
1 GAGCTTCATTGATTTGGCTTCGGGCCATGATATTAGCACTTAGGGTGC
* * *
2620242 GAGCTTCATTGATTTGGCTTCGAGCCATGATATTAGCACTTCGGGTGT
1 GAGCTTCATTGATTTGGCTTCGGGCCATGATATTAGCACTTAGGGTGC
*
2620290 GAGCTTCATTGATTTGGCTTCGGGCCATGATATTAGCACCTAGGGTGC
1 GAGCTTCATTGATTTGGCTTCGGGCCATGATATTAGCACTTAGGGTGC
2620338 GAG
1 GAG
2620341 ACTTTCGAGT
Statistics
Matches: 91, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 91 1.00
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (48 bp):
GAGCTTCATTGATTTGGCTTCGGGCCATGATATTAGCACTTAGGGTGC
Found at i:2636445 original size:36 final size:36
Alignment explanation
Indices: 2636397--2636469 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
2636387 CATTCTACTT
* *
2636397 ATATAAAGATACCAAGTTACATAAGTTCATGTTTTA
1 ATATAAACATACCAAGTTAAATAAGTTCATGTTTTA
*
2636433 ATATAAACATACCAAGTTAAATAAGTTTATGTTTTA
1 ATATAAACATACCAAGTTAAATAAGTTCATGTTTTA
2636469 A
1 A
2636470 CTTCGCTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.44, C:0.10, G:0.10, T:0.37
Consensus pattern (36 bp):
ATATAAACATACCAAGTTAAATAAGTTCATGTTTTA
Found at i:2644550 original size:16 final size:17
Alignment explanation
Indices: 2644515--2644552 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
2644505 AAAGAAAAGA
2644515 AAAAGTAAAAAAGAATG
1 AAAAGTAAAAAAGAATG
* *
2644532 AAAATTAAAACAGAA-G
1 AAAAGTAAAAAAGAATG
2644548 AAAAG
1 AAAAG
2644553 AATGGAAACG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
16 5 0.28
17 13 0.72
ACGTcount: A:0.71, C:0.03, G:0.16, T:0.11
Consensus pattern (17 bp):
AAAAGTAAAAAAGAATG
Found at i:2647045 original size:95 final size:95
Alignment explanation
Indices: 2646863--2647153 Score: 345
Period size: 95 Copynumber: 3.0 Consensus size: 95
2646853 TCAATTAATT
* *
2646863 CATGAATAATAGTAAAAAATGTAAAATTTCTAACTTTTT-TACTAAAAT-GATAATAAATAATAA
1 CATGAATAATA-TTAAAAATATAAAATTTCTAACTTTTTAT-C-AAAATAG-TAATAAATAATAA
* * *
2646926 AAACTCATACCGAAACATTATGCATCGGCTCGTG
62 AAACTTATACTGGAACATTATGCATCGGCTCGTG
* * * *
2646960 CATGAATAATATTAAAAATATAAAATTTCAAACTTTTTATCGAAATAGTAATAAATAACAAGAAC
1 CATGAATAATATTAAAAATATAAAATTTCTAACTTTTTATCAAAATAGTAATAAATAATAAAAAC
* * * *
2647025 TTATATTGGAACATTGTGCATTGGCTCGTA
66 TTATACTGGAACATTATGCATCGGCTCGTG
* * *
2647055 TATGAATAATATTAAAAATATAAAATTTCTAATTTTTTA-CAAAAATGGTAATAAATAATAAAAA
1 CATGAATAATATTAAAAATATAAAATTTCTAACTTTTTATC-AAAATAGTAATAAATAATAAAAA
* * *
2647119 ATTTTACTAGAACATTATGCATCGGCTCGTG
65 CTTATACTGGAACATTATGCATCGGCTCGTG
2647150 CATG
1 CATG
2647154 GCTATTTTAT
Statistics
Matches: 163, Mismatches: 28, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
94 1 0.01
95 124 0.76
96 26 0.16
97 12 0.07
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.33
Consensus pattern (95 bp):
CATGAATAATATTAAAAATATAAAATTTCTAACTTTTTATCAAAATAGTAATAAATAATAAAAAC
TTATACTGGAACATTATGCATCGGCTCGTG
Found at i:2650040 original size:68 final size:66
Alignment explanation
Indices: 2649968--2650139 Score: 170
Period size: 67 Copynumber: 2.6 Consensus size: 66
2649958 CATCATGTGT
** * *
2649968 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCATGATACTAGTGAAGGACACCA
2650031 TGTAG
62 TGTAG
** * *
2650036 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCATGGTTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCATGATACTA-GTGAAGGACACCATGT
2650101 AG
65 AG
* * * *
2650103 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATG
2650140 GGTGGTACTG
Statistics
Matches: 89, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
64 24 0.27
65 3 0.03
66 17 0.19
67 32 0.36
68 13 0.15
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCATGATACTAGTGAAGGACACCATGTA
G
Found at i:2650073 original size:64 final size:64
Alignment explanation
Indices: 2649992--2650163 Score: 195
Period size: 67 Copynumber: 2.7 Consensus size: 64
2649982 AGACATTATG
* * *
2649992 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
** * * *
2650056 ATGTAGCTAGGTCGCATGCATGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
2650121 AA
63 AA
* * *
2650123 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGT
2650164 GTACTAGAGA
Statistics
Matches: 88, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
63 9 0.10
64 25 0.28
66 21 0.24
67 33 0.38
ACGTcount: A:0.28, C:0.16, G:0.30, T:0.25
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:2651276 original size:12 final size:12
Alignment explanation
Indices: 2651261--2651286 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
2651251 TCATGACATG
2651261 TGTATATATATA
1 TGTATATATATA
2651273 TGTATATATATA
1 TGTATATATATA
2651285 TG
1 TG
2651287 ACTAGTCTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (12 bp):
TGTATATATATA
Found at i:2660533 original size:5 final size:5
Alignment explanation
Indices: 2660525--2660558 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
2660515 TATTAAAGAC
* *
2660525 ATTAC ATTAC ATTAA ATTAA ATTAA ATTAA ATTA
1 ATTAA ATTAA ATTAA ATTAA ATTAA ATTAA ATTA
2660559 TATATGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (5 bp):
ATTAA
Found at i:2671041 original size:24 final size:24
Alignment explanation
Indices: 2671009--2671056 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2670999 TAATTTTATA
* * *
2671009 GCTTGCACTTGCTTTTCCATGTCT
1 GCTTACACTTGATTTTCAATGTCT
2671033 GCTTACACTTGATTTTCAATGTCT
1 GCTTACACTTGATTTTCAATGTCT
2671057 ACAAATTGAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.25, G:0.15, T:0.46
Consensus pattern (24 bp):
GCTTACACTTGATTTTCAATGTCT
Found at i:2682980 original size:24 final size:24
Alignment explanation
Indices: 2682928--2682981 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
2682918 TTCTAATTAA
* *
2682928 ATTTTATAAATAATTAATATTTAT
1 ATTTTAAAAATAATTAAAATTTAT
* * *
2682952 TTTTTAAAAATATTTAAAATTTGT
1 ATTTTAAAAATAATTAAAATTTAT
2682976 ATTTTA
1 ATTTTA
2682982 TATATTAAAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
ATTTTAAAAATAATTAAAATTTAT
Found at i:2684865 original size:22 final size:23
Alignment explanation
Indices: 2684826--2684868 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
2684816 TTACAAATTT
2684826 AAATTTTAAAAACAACATCATTC
1 AAATTTTAAAAACAACATCATTC
*
2684849 AAATTTT-AAGACAACATCAT
1 AAATTTTAAAAACAACATCAT
2684869 ATTCGATCCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.51, C:0.16, G:0.02, T:0.30
Consensus pattern (23 bp):
AAATTTTAAAAACAACATCATTC
Found at i:2686207 original size:7 final size:7
Alignment explanation
Indices: 2686192--2686230 Score: 69
Period size: 7 Copynumber: 5.6 Consensus size: 7
2686182 AATCCCAGCG
2686192 TTCAACC
1 TTCAACC
*
2686199 TTCAGCC
1 TTCAACC
2686206 TTCAACC
1 TTCAACC
2686213 TTCAACC
1 TTCAACC
2686220 TTCAACC
1 TTCAACC
2686227 TTCA
1 TTCA
2686231 GCTTCTTGTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.26, C:0.41, G:0.03, T:0.31
Consensus pattern (7 bp):
TTCAACC
Found at i:2686209 original size:14 final size:14
Alignment explanation
Indices: 2686187--2686232 Score: 74
Period size: 14 Copynumber: 3.3 Consensus size: 14
2686177 AGCCCAATCC
*
2686187 CAGCGTTCAACCTT
1 CAGCCTTCAACCTT
2686201 CAGCCTTCAACCTT
1 CAGCCTTCAACCTT
*
2686215 CAACCTTCAACCTT
1 CAGCCTTCAACCTT
2686229 CAGC
1 CAGC
2686233 TTCTTGTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.24, C:0.41, G:0.09, T:0.26
Consensus pattern (14 bp):
CAGCCTTCAACCTT
Found at i:2690420 original size:307 final size:307
Alignment explanation
Indices: 2689842--2690599 Score: 1042
Period size: 307 Copynumber: 2.5 Consensus size: 307
2689832 ACCCATATGG
* * * *
2689842 TGAAATCACTTTCATGGCAAGACCTTAACAAGAATGCGACAATGGAAAAG-CTCAAAATGAATTC
1 TGAAATCACTCTCATGGCAAGACCTCAACAAGAAGGCGACAATGG-AAAGCCTCAGAATGAATTC
* * * * * * *
2689906 AAGATTCTGATTAAAAGGAAAATAAGATTATTCGGACAAGATATCTGGGAAGAGGTCATGATGTA
65 AAGATTTTGATTAAAAGGAAAATAAGATTATTTGGGCAAGACATTTGGGGAGAGGTCATGGTGTA
** * * **
2689971 AATTGTCAAAAGTTTTTTACACCATTGTTGGGGGGAGCCATTAGAAAATAAGAGTAGGTACTAAA
130 AATTACCAAAAGCTTTTTACACCATTGTTGGGGGGAACCATTAGAAAATAAGAACAGGTACTAAA
* * *
2690036 GCTATGTCTTTCATGTCCTGAATATTTCTTCATATTGAATAAAACCCGTGGTTTCAAATATATAT
195 GCTATGTCTTTCATATCCTAAATATTTCTTCATACTGAATAAAACCCGTGGTTTCAAATATATAT
*
2690101 TAATTATCTTCTCTCTTTTATTCATTACAAATATTGGCTACAATATAA
260 TAATTATCTTCTCCCTTTTATTCATTACAAATATTGGCTACAATATAA
* * **
2690149 TGAAATCACTCTCATGGCAAGACCTCGACATGAAGGCGACAATGGAGTGCCTCAGAATGAATTCA
1 TGAAATCACTCTCATGGCAAGACCTCAACAAGAAGGCGACAATGGAAAGCCTCAGAATGAATTCA
* *
2690214 AGATTTTCATTAAAAGGAAAATAAGATTGTTTGGGCAAGACATTTTGGGGAGAGGTCATGGTGTA
66 AGATTTTGATTAAAAGGAAAATAAGATTATTTGGGCAAGACA-TTTGGGGAGAGGTCATGGTGTA
*
2690279 AATTACCAAAAGCTTTTTACGCCATTGTTGGGGGGAACCATTAGAAAATAAGAACAGGTACTAAA
130 AATTACCAAAAGCTTTTTACACCATTGTTGGGGGGAACCATTAGAAAATAAGAACAGGTACTAAA
* * *
2690344 GTTATGTCTTTCATATACC-AAATGTTT-TCTCATACTGAATAAAACTCGTGG-TTCAAATATAT
195 GCTATGTCTTTCATAT-CCTAAATATTTCT-TCATACTGAATAAAACCCGTGGTTTCAAATATAT
* *
2690406 ATTAATTATCTTCTCCCTTTTATTCATTACAAATATTGGCTACCATATGA
258 ATTAATTATCTTCTCCCTTTTATTCATTACAAATATTGGCTACAATATAA
* *
2690456 CGAAATCACTCTCATGGCAAGACCTCAACAAGAAGGC-AGCAATGGAAAGCGC-CAGAATAAATT
1 TGAAATCACTCTCATGGCAAGACCTCAACAAGAAGGCGA-CAATGGAAAGC-CTCAGAATGAATT
* * * * * *
2690519 CAAGGTTTTGATTAAAAGAAAAATAAGATTATTTGGGTAAGACATTTGGGGAGAGATTATCGTGT
64 CAAGATTTTGATTAAAAGGAAAATAAGATTATTTGGGCAAGACATTTGGGGAGAGGTCATGGTGT
*
2690584 AAATTACAAAAAGCTT
129 AAATTACCAAAAGCTT
2690600 CATTTGAAGA
Statistics
Matches: 397, Mismatches: 48, Indels: 13
0.87 0.10 0.03
Matches are distributed among these distances:
306 36 0.09
307 241 0.61
308 118 0.30
309 2 0.01
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (307 bp):
TGAAATCACTCTCATGGCAAGACCTCAACAAGAAGGCGACAATGGAAAGCCTCAGAATGAATTCA
AGATTTTGATTAAAAGGAAAATAAGATTATTTGGGCAAGACATTTGGGGAGAGGTCATGGTGTAA
ATTACCAAAAGCTTTTTACACCATTGTTGGGGGGAACCATTAGAAAATAAGAACAGGTACTAAAG
CTATGTCTTTCATATCCTAAATATTTCTTCATACTGAATAAAACCCGTGGTTTCAAATATATATT
AATTATCTTCTCCCTTTTATTCATTACAAATATTGGCTACAATATAA
Found at i:2694767 original size:31 final size:31
Alignment explanation
Indices: 2694700--2694787 Score: 113
Period size: 31 Copynumber: 2.7 Consensus size: 31
2694690 AACTTAATGT
* *
2694700 TGTTTTAAACTCAGTTTGAAATATTTTATGTTTA
1 TGTTCTAAACTCAGTTTGAAA-A--TTAAGTTTA
2694734 TGTTCTAAACTCAGTTTGAAAATTAAGTTTA
1 TGTTCTAAACTCAGTTTGAAAATTAAGTTTA
* *
2694765 TGTTCTAAGCTGAGTTTGAAAAT
1 TGTTCTAAACTCAGTTTGAAAAT
2694788 AAAAAATTTA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
31 29 0.58
33 1 0.02
34 20 0.40
ACGTcount: A:0.32, C:0.08, G:0.15, T:0.45
Consensus pattern (31 bp):
TGTTCTAAACTCAGTTTGAAAATTAAGTTTA
Found at i:2697124 original size:31 final size:31
Alignment explanation
Indices: 2697086--2697152 Score: 116
Period size: 31 Copynumber: 2.2 Consensus size: 31
2697076 ATAATAAAAT
2697086 TCTTAGCCAATGTTTCCCAATTTTATTGTGA
1 TCTTAGCCAATGTTTCCCAATTTTATTGTGA
* *
2697117 TCTTAGCCAATGTTTGCCAATTTTCTTGTGA
1 TCTTAGCCAATGTTTCCCAATTTTATTGTGA
2697148 TCTTA
1 TCTTA
2697153 TTATTCCATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.46
Consensus pattern (31 bp):
TCTTAGCCAATGTTTCCCAATTTTATTGTGA
Found at i:2697679 original size:21 final size:21
Alignment explanation
Indices: 2697653--2697692 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2697643 ATTATTCCCT
*
2697653 TTTTGATGATATGACATTTCA
1 TTTTGATGATATAACATTTCA
2697674 TTTTGATGATATAACATTT
1 TTTTGATGATATAACATTT
2697693 TTATGTTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.50
Consensus pattern (21 bp):
TTTTGATGATATAACATTTCA
Found at i:2709308 original size:26 final size:26
Alignment explanation
Indices: 2709277--2709436 Score: 275
Period size: 26 Copynumber: 6.2 Consensus size: 26
2709267 TGAAATGCCC
*
2709277 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
2709303 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
2709329 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
2709355 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
2709381 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
2709407 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
2709433 ATCA
1 ATCA
2709437 ATTTGTACCA
Statistics
Matches: 125, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 125 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:2711299 original size:45 final size:45
Alignment explanation
Indices: 2711249--2711338 Score: 180
Period size: 45 Copynumber: 2.0 Consensus size: 45
2711239 TACGAATTCC
2711249 TTCTACAGATACACCTACTATTTGGTGTGAAAATTACAATGTTGT
1 TTCTACAGATACACCTACTATTTGGTGTGAAAATTACAATGTTGT
2711294 TTCTACAGATACACCTACTATTTGGTGTGAAAATTACAATGTTGT
1 TTCTACAGATACACCTACTATTTGGTGTGAAAATTACAATGTTGT
2711339 GGCGGTCGCT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (45 bp):
TTCTACAGATACACCTACTATTTGGTGTGAAAATTACAATGTTGT
Found at i:2713627 original size:19 final size:18
Alignment explanation
Indices: 2713603--2713646 Score: 70
Period size: 19 Copynumber: 2.4 Consensus size: 18
2713593 TATTTATATA
2713603 TTAATTATATTACTAATTT
1 TTAATTATATTACTAA-TT
*
2713622 TTAATTATATTATTAATT
1 TTAATTATATTACTAATT
2713640 TTAATTA
1 TTAATTA
2713647 ATCATGCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAATTATATTACTAATT
Found at i:2714100 original size:84 final size:84
Alignment explanation
Indices: 2713959--2714128 Score: 232
Period size: 84 Copynumber: 2.0 Consensus size: 84
2713949 ATCAATAATA
** * * *
2713959 TCCATAAAAAACAAACGTCATTCTTGAGACTCGAAAAATGAAGCAACAGACATGAAAGGGAAAAA
1 TCCATAAAAAACAAACACCATTCTTGAAAATCGAAAAATGAAGAAACAGACATGAAAGGGAAAAA
*
2714024 TAGTATGCATCATTCTACT
66 CAGTATGCATCATTCTACT
* * * *
2714043 TCCATGAAAAACAAACACCATTCTTGAAAATTGAAAAATGCAGAAATAGACATGAAAGGGAAAAA
1 TCCATAAAAAACAAACACCATTCTTGAAAATCGAAAAATGAAGAAACAGACATGAAAGGGAAAAA
* *
2714108 CGGTATGCATCGTTCTACT
66 CAGTATGCATCATTCTACT
2714127 TC
1 TC
2714129 GCTTTGAATC
Statistics
Matches: 74, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
84 74 1.00
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.22
Consensus pattern (84 bp):
TCCATAAAAAACAAACACCATTCTTGAAAATCGAAAAATGAAGAAACAGACATGAAAGGGAAAAA
CAGTATGCATCATTCTACT
Found at i:2714311 original size:114 final size:114
Alignment explanation
Indices: 2714173--2714401 Score: 458
Period size: 114 Copynumber: 2.0 Consensus size: 114
2714163 CCTTGCACTT
2714173 TGTTTTCCATGTTTGAAAATTGAATCGAGAGTAATACAAATTTCAATATGATCTTGATGACTATG
1 TGTTTTCCATGTTTGAAAATTGAATCGAGAGTAATACAAATTTCAATATGATCTTGATGACTATG
2714238 ATAATAATTCTAATACAAGAATTCTTTATATATTGGATGAAGGAAAACG
66 ATAATAATTCTAATACAAGAATTCTTTATATATTGGATGAAGGAAAACG
2714287 TGTTTTCCATGTTTGAAAATTGAATCGAGAGTAATACAAATTTCAATATGATCTTGATGACTATG
1 TGTTTTCCATGTTTGAAAATTGAATCGAGAGTAATACAAATTTCAATATGATCTTGATGACTATG
2714352 ATAATAATTCTAATACAAGAATTCTTTATATATTGGATGAAGGAAAACG
66 ATAATAATTCTAATACAAGAATTCTTTATATATTGGATGAAGGAAAACG
2714401 T
1 T
2714402 CATTTTTACT
Statistics
Matches: 115, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
114 115 1.00
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (114 bp):
TGTTTTCCATGTTTGAAAATTGAATCGAGAGTAATACAAATTTCAATATGATCTTGATGACTATG
ATAATAATTCTAATACAAGAATTCTTTATATATTGGATGAAGGAAAACG
Found at i:2714608 original size:17 final size:17
Alignment explanation
Indices: 2714586--2714622 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
2714576 CCCCTTATGT
2714586 TTCAGGCTACATATTGG
1 TTCAGGCTACATATTGG
2714603 TTCAGGCTACATATTGG
1 TTCAGGCTACATATTGG
2714620 TTC
1 TTC
2714623 TAACTTCTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.38
Consensus pattern (17 bp):
TTCAGGCTACATATTGG
Found at i:2720097 original size:22 final size:23
Alignment explanation
Indices: 2720063--2720113 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 23
2720053 ACATTGTTGC
2720063 TTTCATAATATTT-TATGTAAATAT
1 TTTC-TAATATTTAT-TGTAAATAT
*
2720087 TTTCTAA-ATTTATTGTATATAT
1 TTTCTAATATTTATTGTAAATAT
2720109 TTTCT
1 TTTCT
2720114 TTAAAATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
22 17 0.68
23 4 0.16
24 4 0.16
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (23 bp):
TTTCTAATATTTATTGTAAATAT
Found at i:2720123 original size:24 final size:22
Alignment explanation
Indices: 2720078--2720124 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
2720068 TAATATTTTA
*
2720078 TGTAAATATTTTCTAAATTTAT
1 TGTAAATATTTTCTAAAATTAT
*
2720100 TGTATATATTTTCTTTAAAATTAT
1 TGTAAATATTTTC--TAAAATTAT
2720124 T
1 T
2720125 CATATATAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 12 0.57
24 9 0.43
ACGTcount: A:0.34, C:0.04, G:0.04, T:0.57
Consensus pattern (22 bp):
TGTAAATATTTTCTAAAATTAT
Found at i:2724119 original size:11 final size:11
Alignment explanation
Indices: 2724081--2724122 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
2724071 TAAAAGTTTC
2724081 AAAAA-AAAGAT
1 AAAAAGAAA-AT
* *
2724092 AAAAATAAAAA
1 AAAAAGAAAAT
2724103 AAAAAGAAAAT
1 AAAAAGAAAAT
2724114 AAAAAGAAA
1 AAAAAGAAA
2724123 CTGGAGAGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
11 24 0.89
12 3 0.11
ACGTcount: A:0.86, C:0.00, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAAAGAAAAT
Found at i:2725318 original size:64 final size:65
Alignment explanation
Indices: 2725206--2725334 Score: 188
Period size: 64 Copynumber: 2.0 Consensus size: 65
2725196 TATACAATAG
* * *
2725206 CACATCTAGTTAGGAGCATTTGATTTTATTTCGATCATAGCATCCTAATTATTTGACATAAGCAT
1 CACATCTAGGTAGGAGCATTTGATTTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
* * * *
2725271 CACATTTAGGTAGGAGCATTTGA-TTCATTTCAATCATTGCATCCTAATTATTTGGCATAGGCAT
1 CACATCTAGGTAGGAGCATTTGATTTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
2725335 AGATACATGA
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
64 36 0.63
65 21 0.37
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (65 bp):
CACATCTAGGTAGGAGCATTTGATTTCATTTCAATCATAGCATCCTAATTATTTGACATAAGCAT
Found at i:2725910 original size:133 final size:133
Alignment explanation
Indices: 2725573--2726252 Score: 961
Period size: 133 Copynumber: 5.1 Consensus size: 133
2725563 GCTAAAATTA
* * * * * *
2725573 CAGATCTTAT-TTCGCTGAGCAAGAGCGGAGCAGATCAAATTTTGGTAAATCTTATCTCCATGTA
1 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAATCTTATCTTCATGTA
* * *
2725637 TAGGCAATGGAGCATATTCCAATCATCAGCCTTATCTTTACTGAGCAGGAGTGGAGCAGGCTAAA
66 TCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-AA
2725702 CATAC
130 -ATAC
* *
2725707 CAGATCTTTTCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTTCATGTA
1 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAATCTTATCTTCATGTA
* *
2725772 TCGGCAATGGAGCAGATTTCAACCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
66 TCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
2725837 TAC
131 TAC
* * * * *
2725840 CAGATCTTATCTTCACTGATCAGGAGTGAAGTAGATCAAACTTTGG-AGAATCTTATCTCCACGT
1 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCA-AATCTTATCTTCATGT
* *
2725904 ACCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAA
65 ATCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCT-A
2725969 ACATAC
129 A-ATAC
*
2725975 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTTCATGTA
1 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAATCTTATCTTCATGTA
* * ** * **
2726040 TCGGCAATAGAGCAGATTTCAGCCATCAGCCTTATCTTTACTGAGCACAAGTGGAGCAGGCTAAA
66 TCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
2726105 TAC
131 TAC
** * * *
2726108 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATTGAACTTT-GAAGAATCTTATCTTCACGT
1 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCA-AATCTTATCTTCATGT
* * *
2726172 ATCGGCGATGGAGCAGATTCCAATCATCGGCCTTATCTTCACTGAGCAGGAGTGGAGTAGGCTAA
65 ATCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
2726237 ATAC
130 ATAC
2726241 CAGATCTTATCT
1 CAGATCTTATCT
2726253 CCATGTATCG
Statistics
Matches: 485, Mismatches: 55, Indels: 13
0.88 0.10 0.02
Matches are distributed among these distances:
132 3 0.01
133 248 0.51
134 15 0.03
135 218 0.45
136 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (133 bp):
CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAATCTTATCTTCATGTA
TCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
TAC
Found at i:2726038 original size:268 final size:268
Alignment explanation
Indices: 2725573--2726252 Score: 1089
Period size: 268 Copynumber: 2.5 Consensus size: 268
2725563 GCTAAAATTA
* * * * * *
2725573 CAGATCTTAT-TTCGCTGAGCAAGAGCGGAGCAGATCAAATTTTGGTA-AATCTTATCTCCATGT
1 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAACTTTGG-AGAATCTTATCTCCACGT
* * *
2725636 ATAGGCAATGGAGCATATTCCAATCATCAGCCTTATCTTTACTGAGCAGGAGTGGAGCAGGCTAA
65 ATCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAA
*
2725701 ACATACCAGATCTTTTCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTT
130 ACATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTT
* **
2725766 CATGTATCGGCAATGGAGCAGATTTCAACCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAG
195 CATGTATCGGCAATAGAGCAGATTTCAACCATCAGCCTTATCTTCACTGAGCACAAGTGGAGCAG
2725831 GCTAAATAC
260 GCTAAATAC
* *
2725840 CAGATCTTATCTTCACTGATCAGGAGTGAAGTAGATCAAACTTTGGAGAATCTTATCTCCACGTA
1 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAACTTTGGAGAATCTTATCTCCACGTA
* *
2725905 CCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGTAGGAGTGGAGCAGGCTAAA
66 TCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
2725970 CATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTTC
131 CATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTTC
* *
2726035 ATGTATCGGCAATAGAGCAGATTTCAGCCATCAGCCTTATCTTTACTGAGCACAAGTGGAGCAGG
196 ATGTATCGGCAATAGAGCAGATTTCAACCATCAGCCTTATCTTCACTGAGCACAAGTGGAGCAGG
2726100 CTAAATAC
261 CTAAATAC
** * *
2726108 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATTGAACTTTGAAGAATCTTATCTTCACGTA
1 CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAACTTTGGAGAATCTTATCTCCACGTA
* * *
2726173 TCGGCGATGGAGCAGATTCCAATCATCGGCCTTATCTTCACTGAGCAGGAGTGGAGTAGGCT-AA
66 TCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
2726237 -ATACCAGATCTTATCT
131 CATACCAGATCTTATCT
2726253 CCATGTATCG
Statistics
Matches: 381, Mismatches: 30, Indels: 5
0.92 0.07 0.01
Matches are distributed among these distances:
266 16 0.04
267 13 0.03
268 352 0.92
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (268 bp):
CAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAACTTTGGAGAATCTTATCTCCACGTA
TCGGCAATGGAGCAGATTCCAATCATCAGCCTTATCTTCACTGAGCAGGAGTGGAGCAGGCTAAA
CATACCAGATCTTATCTTCACTGAGCAGGAGTGAAGCAGATCAAATTTTGGCAAGTCTTATCTTC
ATGTATCGGCAATAGAGCAGATTTCAACCATCAGCCTTATCTTCACTGAGCACAAGTGGAGCAGG
CTAAATAC
Found at i:2726296 original size:45 final size:45
Alignment explanation
Indices: 2726245--2726454 Score: 164
Period size: 45 Copynumber: 4.7 Consensus size: 45
2726235 AAATACCAGA
2726245 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGACGAG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGACGAG
*** *** *
2726290 TCTTATCTCCATGTATCGGCTATGGAGCAGAT-TTTAGCCACAAG
1 TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGACGAG
* * * *
2726334 TCTTATCTTCC-TGAAGT-TGC-A-GGAAGCAGA-CTGAAAATTAC-AG
1 TCTTATC-TCCATGTA-TCGGCTATGG-AGCAGATCAG-AAATGACGAG
* * *
2726377 ATCTTATCTCCATGTATCGACTATGGAGCAAATCAGAAATGGCGAG
1 -TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGACGAG
* * * *
2726423 TCTTATCTCTATGTATCAGTTATGAAGCAGAT
1 TCTTATCTCCATGTATCGGCTATGGAGCAGAT
2726455 TTTAGCCACA
Statistics
Matches: 126, Mismatches: 27, Indels: 24
0.71 0.15 0.14
Matches are distributed among these distances:
42 2 0.02
43 14 0.11
44 31 0.25
45 73 0.58
46 6 0.05
ACGTcount: A:0.30, C:0.20, G:0.21, T:0.30
Consensus pattern (45 bp):
TCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGACGAG
Found at i:2726551 original size:133 final size:133
Alignment explanation
Indices: 2726241--2726561 Score: 527
Period size: 133 Copynumber: 2.4 Consensus size: 133
2726231 GGCTAAATAC
* *
2726241 CAGATCTTATCTCCATGTATCGGCTATGGAGCAGATCAGAAATGACGAGTCTTATCTCCATGTAT
1 CAGATCTTATCTCCATGTATCGACTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTAT
* *
2726306 CGGCTATGGAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA
66 CAGCTATGAAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA
2726371 TTA
131 TTA
* *
2726374 CAGATCTTATCTCCATGTATCGACTATGGAGCAAATCAGAAATGGCGAGTCTTATCTCTATGTAT
1 CAGATCTTATCTCCATGTATCGACTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTAT
* * *
2726439 CAGTTATGAAGCAGATTTTAGCCACAAGTCTTATCTTCTTGAAGTTGTAGGAAGCAGACTGAAAA
66 CAGCTATGAAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA
2726504 TTA
131 TTA
* * *
2726507 CAGATCATATCTCCATGTATCGACTATGGAGCAGATCAGGAATGG-TAGTCTTATC
1 CAGATCTTATCTCCATGTATCGACTATGGAGCAGATCAGAAATGGCGAGTCTTATC
2726562 GGCTATGAAG
Statistics
Matches: 175, Mismatches: 13, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
132 9 0.05
133 166 0.95
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (133 bp):
CAGATCTTATCTCCATGTATCGACTATGGAGCAGATCAGAAATGGCGAGTCTTATCTCCATGTAT
CAGCTATGAAGCAGATTTTAGCCACAAGTCTTATCTTCCTGAAGTTGCAGGAAGCAGACTGAAAA
TTA
Found at i:2728459 original size:25 final size:22
Alignment explanation
Indices: 2728408--2728462 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
2728398 TATTATTTTA
* *
2728408 TGTAAATATTTTCTAAATTTAT
1 TGTATATATTTTCTAAAATTAT
2728430 TGTATATATTTTCTTTAAAATTAT
1 TGTATATATTTTC--TAAAATTAT
2728454 TCGTATATA
1 T-GTATATA
2728463 GCTTGGCTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 12 0.43
24 9 0.32
25 7 0.25
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (22 bp):
TGTATATATTTTCTAAAATTAT
Found at i:2742818 original size:22 final size:21
Alignment explanation
Indices: 2742793--2742849 Score: 60
Period size: 22 Copynumber: 2.6 Consensus size: 21
2742783 TAACTAAGGC
*
2742793 ATGTCTCGAGACAAAAGCTCTT
1 ATGTCTCGAGACAAAA-CTCAT
* * *
2742815 ATGTCTTGAGACCTATACTCAT
1 ATGTCTCGAGA-CAAAACTCAT
2742837 ATGTCTCGAGACA
1 ATGTCTCGAGACA
2742850 GGGTACCTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 1 0.04
22 24 0.86
23 3 0.11
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (21 bp):
ATGTCTCGAGACAAAACTCAT
Found at i:2743858 original size:17 final size:17
Alignment explanation
Indices: 2743836--2743869 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
2743826 ACAAAAATTT
*
2743836 TTAAAAAGATAGAAGAG
1 TTAAAAAGATAAAAGAG
2743853 TTAAAAAGATAAAAGAG
1 TTAAAAAGATAAAAGAG
2743870 AGAATAGTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.21, T:0.18
Consensus pattern (17 bp):
TTAAAAAGATAAAAGAG
Found at i:2745748 original size:101 final size:101
Alignment explanation
Indices: 2745573--2745775 Score: 316
Period size: 101 Copynumber: 2.0 Consensus size: 101
2745563 ATTTTCCATA
* * * * *
2745573 ATAAATTGAATGGCTAAACAAGATACGAAAGCAGAAGCAACTTGGCTTCTAGCACCTATTAAAAC
1 ATAAATTGAAAGGCTAAACAAGATACAAAAGCAGAAGCAACTTAGCTTCTAGCACATACTAAAAC
* *
2745638 AGTATAGACTAGGATGGAACTATATCTAAAGATGAC
66 AGTATAGACTAAGATGGAACTATAACTAAAGATGAC
*
2745674 ATAAATTGAAAGGCTAAACAAGATTCAAAAGCAGAAGCAACTTAGCTTCTAGCACATACTAAAAC
1 ATAAATTGAAAGGCTAAACAAGATACAAAAGCAGAAGCAACTTAGCTTCTAGCACATACTAAAAC
* *
2745739 AGTATAGACTAAGATGGAATTATAAGTAAAGATGAC
66 AGTATAGACTAAGATGGAACTATAACTAAAGATGAC
2745775 A
1 A
2745776 AACTAAAAAG
Statistics
Matches: 92, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
101 92 1.00
ACGTcount: A:0.45, C:0.15, G:0.18, T:0.22
Consensus pattern (101 bp):
ATAAATTGAAAGGCTAAACAAGATACAAAAGCAGAAGCAACTTAGCTTCTAGCACATACTAAAAC
AGTATAGACTAAGATGGAACTATAACTAAAGATGAC
Found at i:2746489 original size:56 final size:56
Alignment explanation
Indices: 2746403--2746516 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
2746393 AACAACACAC
2746403 ATATACTTGCTCCAAACAGATTAGTAGAGGCAAAATGACAAAGCTTATCAGCAGAA
1 ATATACTTGCTCCAAACAGATTAGTAGAGGCAAAATGACAAAGCTTATCAGCAGAA
2746459 ATATACTTGCTCCAAACAGATTAGTAGAGGCAAAATGACAAAGCTTATCAGCAGAA
1 ATATACTTGCTCCAAACAGATTAGTAGAGGCAAAATGACAAAGCTTATCAGCAGAA
2746515 AT
1 AT
2746517 GATCATTCTT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.43, C:0.18, G:0.18, T:0.22
Consensus pattern (56 bp):
ATATACTTGCTCCAAACAGATTAGTAGAGGCAAAATGACAAAGCTTATCAGCAGAA
Found at i:2750066 original size:22 final size:21
Alignment explanation
Indices: 2750041--2750097 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 21
2750031 TAACTGAGGC
*
2750041 ATGTCTCGAGACAAAAGCTCTT
1 ATGTCTCGAGACAAAA-CTCAT
* *
2750063 ATGTCTCGAGACTTATACTCAT
1 ATGTCTCGAGAC-AAAACTCAT
2750085 ATGTCTCGAGACA
1 ATGTCTCGAGACA
2750098 GGGTACCTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 28 0.93
23 2 0.07
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.30
Consensus pattern (21 bp):
ATGTCTCGAGACAAAACTCAT
Found at i:2754825 original size:11 final size:10
Alignment explanation
Indices: 2754787--2754821 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
2754777 AATTTAGCCA
2754787 TTTTTTTATT
1 TTTTTTTATT
*
2754797 TTATTTTATT
1 TTTTTTTATT
2754807 TTTTGTTTATT
1 TTTT-TTTATT
2754818 TTTT
1 TTTT
2754822 GTTTTCTAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 12 0.55
11 10 0.45
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.86
Consensus pattern (10 bp):
TTTTTTTATT
Found at i:2757519 original size:231 final size:231
Alignment explanation
Indices: 2757103--2757560 Score: 774
Period size: 231 Copynumber: 2.0 Consensus size: 231
2757093 GGAAAGTTAT
* * * * *
2757103 GAGGATGAAGCCTAATAGAGCAGCCAGTGTTTTCAATCTAGATGTAGTCACCATATTATCAAACC
1 GAGGATAAAGCCTAACAGACCAACCAATGTTTTCAATCTAGATGTAGTCACCATATTATCAAACC
* * *
2757168 AGATAGAATAATTAAATAAGAAAATTGATTGTTTATGTGTTTCTATGTAGGTACATCCGGTGATG
66 AGATAGAATAATTAAATAAGAAAATTGATTGTTTATGTGTTTCTACGCAAGTACATCCGGTGATG
* *
2757233 CAGTGTGATACAAATGGAGGAGGAATGAACAATTCAGAATATTTACCCTACGGTCCTAGCACAGA
131 CAGTGTGATACAAACGGAGGAGGAATGAACAATTCAGAATATTTACCCTACGGTCCTAACACAGA
2757298 GAACAAACAAGTCAACTATATGGGTAATAATTATCA
196 GAACAAACAAGTCAACTATATGGGTAATAATTATCA
*
2757334 GAGGATAAAGCCTAACAGACCAACCAATGTTTTCAATCTAGATGTAGTCACTATATTATCAAACC
1 GAGGATAAAGCCTAACAGACCAACCAATGTTTTCAATCTAGATGTAGTCACCATATTATCAAACC
*
2757399 AGATAGAATAATTAAATAAGAAAATTGATTGTTTATGTGTTTCTACGCAAGTACATTCGGTGATG
66 AGATAGAATAATTAAATAAGAAAATTGATTGTTTATGTGTTTCTACGCAAGTACATCCGGTGATG
2757464 CAGTGTGATACAAACGGAGGAGGAATGAACAATTCAGAATATTTACACC-ACGGTCCTAACACAG
131 CAGTGTGATACAAACGGAGGAGGAATGAACAATTCAGAATATTTAC-CCTACGGTCCTAACACAG
**
2757528 AGAATGAACAAGTCAACTATATGGGTAATAATT
195 AGAACAAACAAGTCAACTATATGGGTAATAATT
2757561 CTACGTCTCA
Statistics
Matches: 212, Mismatches: 14, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
231 210 0.99
232 2 0.01
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.27
Consensus pattern (231 bp):
GAGGATAAAGCCTAACAGACCAACCAATGTTTTCAATCTAGATGTAGTCACCATATTATCAAACC
AGATAGAATAATTAAATAAGAAAATTGATTGTTTATGTGTTTCTACGCAAGTACATCCGGTGATG
CAGTGTGATACAAACGGAGGAGGAATGAACAATTCAGAATATTTACCCTACGGTCCTAACACAGA
GAACAAACAAGTCAACTATATGGGTAATAATTATCA
Found at i:2760298 original size:13 final size:13
Alignment explanation
Indices: 2760280--2760304 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2760270 TTACCAGCCC
2760280 TTCACCGTACCTT
1 TTCACCGTACCTT
2760293 TTCACCGTACCT
1 TTCACCGTACCT
2760305 CCTTTCGACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.40, G:0.08, T:0.36
Consensus pattern (13 bp):
TTCACCGTACCTT
Found at i:2760482 original size:3 final size:3
Alignment explanation
Indices: 2760465--2760523 Score: 61
Period size: 3 Copynumber: 19.7 Consensus size: 3
2760455 TTTTCTTGGT
*
2760465 TTA TT- TTA TTA -TA TTA TTTA TTTA TTCA TTT TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA -TTA -TTA TT-A TTA TTA TTA TTA TTA TTA
2760510 TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TT
2760524 TTTCAGTTTA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
2 6 0.12
3 33 0.67
4 10 0.20
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:2762122 original size:6 final size:6
Alignment explanation
Indices: 2762107--2762146 Score: 55
Period size: 6 Copynumber: 6.8 Consensus size: 6
2762097 ATTGAGTCTA
* *
2762107 TTTA-T TTTATT TTTATT TCTAGT TTTATT TTTATT TTTAT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTAT
2762147 GATTATTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
5 4 0.13
6 26 0.87
ACGTcount: A:0.17, C:0.03, G:0.03, T:0.78
Consensus pattern (6 bp):
TTTATT
Found at i:2766478 original size:29 final size:30
Alignment explanation
Indices: 2766446--2766503 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
2766436 ATTATTAATC
*
2766446 GACCCTTT-ACCGAATTAATTCGGTTAACT
1 GACCATTTAACCGAATTAATTCGGTTAACT
**
2766475 GACCATTTAACCGAATTTGTTCGGTTAAC
1 GACCATTTAACCGAATTAATTCGGTTAAC
2766504 CGAATTTGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 7 0.28
30 18 0.72
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (30 bp):
GACCATTTAACCGAATTAATTCGGTTAACT
Found at i:2776548 original size:45 final size:45
Alignment explanation
Indices: 2776475--2776597 Score: 160
Period size: 45 Copynumber: 2.7 Consensus size: 45
2776465 ATGGTTAAAG
* * *
2776475 GATGCCATAGTGTCTTTCAAC-AATGGTCTTA-TTCGTCAGATTCAT
1 GATGCCATAGCGTCTTTCAGCTAA-GGTCTTACTT-GTCAGAATCAT
* *
2776520 GATGCCATAGCGTCTTTCAGCTAAGGTCTTACTTGTTAGAATCGT
1 GATGCCATAGCGTCTTTCAGCTAAGGTCTTACTTGTCAGAATCAT
*
2776565 GATGCCATAGCGTCTTTCAGCTATGGTCTTACT
1 GATGCCATAGCGTCTTTCAGCTAAGGTCTTACT
2776598 CATTTCCAGT
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
45 66 0.94
46 4 0.06
ACGTcount: A:0.22, C:0.21, G:0.20, T:0.37
Consensus pattern (45 bp):
GATGCCATAGCGTCTTTCAGCTAAGGTCTTACTTGTCAGAATCAT
Found at i:2776618 original size:45 final size:46
Alignment explanation
Indices: 2776475--2776647 Score: 147
Period size: 45 Copynumber: 3.8 Consensus size: 46
2776465 ATGGTTAAAG
* * * * * * * *
2776475 GATGCCATAGTGTCTTTCAACAATGGTCTTATTC-GTCAGATTCAT
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTACAATCAT
* * *
2776520 GATGCCATAGCGTCTTTCAGCTAAGGTCTTACT--TGTTAGAATCGT
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCAT-TTACAATCAT
* *
2776565 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTCCAGT-AT
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTACAATCAT
* ** * *
2776610 GATACCATAGTTTCTTTCAACTATGGTCTTATTCATTT
1 GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTT
2776648 TCGATATAGT
Statistics
Matches: 106, Mismatches: 19, Indels: 6
0.81 0.15 0.05
Matches are distributed among these distances:
45 101 0.95
46 4 0.04
47 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.17, T:0.39
Consensus pattern (46 bp):
GATGCCATAGCGTCTTTCAGCTATGGTCTTACTCATTTACAATCAT
Found at i:2777254 original size:25 final size:25
Alignment explanation
Indices: 2777208--2777330 Score: 147
Period size: 25 Copynumber: 4.9 Consensus size: 25
2777198 GAGCGGTAAA
* * * *
2777208 CGGTAAGATCATCCGAGTTGAATAT
1 CGGTAAGCTCTTCTGAGCTGAATAT
*
2777233 TGGTAAGCTCTTCTGAGCTGAATAT
1 CGGTAAGCTCTTCTGAGCTGAATAT
*
2777258 CGGTAAGCTCTTTTGAGCTGAATAT
1 CGGTAAGCTCTTCTGAGCTGAATAT
* **
2777283 CGGTAAGCTTTTCCAAGCTGAATAT
1 CGGTAAGCTCTTCTGAGCTGAATAT
* *
2777308 CAGTAAACTCTTCTGAGCTGAAT
1 CGGTAAGCTCTTCTGAGCTGAAT
2777331 CTTGATAAGC
Statistics
Matches: 82, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 82 1.00
ACGTcount: A:0.28, C:0.18, G:0.22, T:0.33
Consensus pattern (25 bp):
CGGTAAGCTCTTCTGAGCTGAATAT
Found at i:2777352 original size:50 final size:50
Alignment explanation
Indices: 2777226--2777352 Score: 155
Period size: 50 Copynumber: 2.5 Consensus size: 50
2777216 TCATCCGAGT
* * *
2777226 TGAATATTGGTAAGCTCTTCTGAGCTGAATATCGGTAAGCTCTTTTGAGC
1 TGAATATTGGTAAGCTCTTCTGAGCTGAATATCAGTAAACTCTTCTGAGC
* * **
2777276 TGAATATCGGTAAGCTTTTCCAAGCTGAATATCAGTAAACTCTTCTGAGC
1 TGAATATTGGTAAGCTCTTCTGAGCTGAATATCAGTAAACTCTTCTGAGC
* * * *
2777326 TGAATCTTGATAAGCTCATATGAGCTG
1 TGAATATTGGTAAGCTCTTCTGAGCTG
2777353 TGGTGAATCT
Statistics
Matches: 62, Mismatches: 15, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
50 62 1.00
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (50 bp):
TGAATATTGGTAAGCTCTTCTGAGCTGAATATCAGTAAACTCTTCTGAGC
Found at i:2782029 original size:61 final size:60
Alignment explanation
Indices: 2781961--2782086 Score: 164
Period size: 61 Copynumber: 2.1 Consensus size: 60
2781951 CTTCAAACCG
* * *
2781961 TGTTAGAGTCTGTTGAATAA-ACACAGGCGTATGGTCTACCCGTGTAAGGAAGTCTAGGCCA
1 TGTTAGAGTCTGCT-AA-AACACACAGGCATATGGTCTACCCGTGTAAGGAAGTCCAGGCCA
* * *
2782022 TGTTAGAGTCTGCTAAAACTACACGGGCATGTGGTCTACCCGTGTAAGGAAGTCCAGGCCG
1 TGTTAGAGTCTGCTAAAAC-ACACAGGCATATGGTCTACCCGTGTAAGGAAGTCCAGGCCA
2782083 TGTT
1 TGTT
2782087 GATTTCTCAC
Statistics
Matches: 57, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
59 2 0.04
60 2 0.04
61 53 0.93
ACGTcount: A:0.25, C:0.20, G:0.29, T:0.26
Consensus pattern (60 bp):
TGTTAGAGTCTGCTAAAACACACAGGCATATGGTCTACCCGTGTAAGGAAGTCCAGGCCA
Found at i:2784678 original size:22 final size:22
Alignment explanation
Indices: 2784643--2784684 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
2784633 GCATCGAAAT
*
2784643 GAGGCACTATAGTGCAAATACA
1 GAGGCACTATAGTGAAAATACA
2784665 GAGGCACTGA-AGTGAAAATA
1 GAGGCACT-ATAGTGAAAATA
2784685 GAGACACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 17 0.94
23 1 0.06
ACGTcount: A:0.43, C:0.14, G:0.26, T:0.17
Consensus pattern (22 bp):
GAGGCACTATAGTGAAAATACA
Found at i:2784717 original size:20 final size:19
Alignment explanation
Indices: 2784643--2784719 Score: 55
Period size: 20 Copynumber: 3.7 Consensus size: 19
2784633 GCATCGAAAT
*
2784643 GAGGCACTATAGTGCAAATACA
1 GAGGCACGA-AGTGC-AA-ACA
* *
2784665 GAGGCACTGAAGTGAAAATA
1 GAGGCAC-GAAGTGCAAACA
* *
2784685 GAGACACCAAAGTGCAAACA
1 GAGGCA-CGAAGTGCAAACA
2784705 GAGGCATCGAAGTGC
1 GAGGCA-CGAAGTGC
2784720 GATCCCGTAC
Statistics
Matches: 43, Mismatches: 10, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
20 28 0.65
21 3 0.07
22 11 0.26
23 1 0.02
ACGTcount: A:0.42, C:0.18, G:0.27, T:0.13
Consensus pattern (19 bp):
GAGGCACGAAGTGCAAACA
Found at i:2785796 original size:23 final size:22
Alignment explanation
Indices: 2785744--2785801 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 22
2785734 AATCTTCACG
*
2785744 GATATGCAATCTTAG---ATAT
1 GATATGTAATCTTAGAACATAT
2785763 GATATGTAATCTTAGAACATAT
1 GATATGTAATCTTAGAACATAT
*
2785785 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
2785802 GATTTGATTT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 14 0.42
22 6 0.18
23 13 0.39
ACGTcount: A:0.36, C:0.09, G:0.16, T:0.40
Consensus pattern (22 bp):
GATATGTAATCTTAGAACATAT
Found at i:2790761 original size:27 final size:28
Alignment explanation
Indices: 2790695--2790769 Score: 77
Period size: 27 Copynumber: 2.8 Consensus size: 28
2790685 TATTCTTATG
* **
2790695 ATTTAT-TTCAAATTTTTATATGTATTA
1 ATTTATCTTTAAATTTTTATACATATTA
2790722 A-TTA-CTTTAAAATTTTTATACATA-TA
1 ATTTATCTTT-AAATTTTTATACATATTA
2790748 ATTTATCTTTAAATGTTTTATA
1 ATTTATCTTTAAAT-TTTTATA
2790770 TATTGTCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
26 8 0.20
27 21 0.52
28 11 0.28
ACGTcount: A:0.36, C:0.05, G:0.03, T:0.56
Consensus pattern (28 bp):
ATTTATCTTTAAATTTTTATACATATTA
Found at i:2792987 original size:23 final size:22
Alignment explanation
Indices: 2792946--2792988 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
2792936 GCAATCTTAG
*
2792946 ATATGATATGTAATCTTAGAAC
1 ATATGATATGTAATATTAGAAC
*
2792968 ATATGATTTTGTAATATTAGA
1 ATATGA-TATGTAATATTAGA
2792989 GATTTGATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.40, C:0.05, G:0.14, T:0.42
Consensus pattern (22 bp):
ATATGATATGTAATATTAGAAC
Found at i:2793238 original size:15 final size:16
Alignment explanation
Indices: 2793220--2793249 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
2793210 GTCGTTTAGC
2793220 TTTGAGTT-GTTTTCG
1 TTTGAGTTGGTTTTCG
2793235 TTTGAGTTGGTTTTC
1 TTTGAGTTGGTTTTC
2793250 ATAGAGGAAT
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:0.07, C:0.07, G:0.27, T:0.60
Consensus pattern (16 bp):
TTTGAGTTGGTTTTCG
Found at i:2796117 original size:22 final size:22
Alignment explanation
Indices: 2796059--2796117 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
2796049 TTACCAATCG
*
2796059 GGCACTTTATGTGCCGTATCTTA
1 GGCAC-TTATGTGCTGTATCTTA
* *
2796082 GGCGCTTATGTGCTGTATTTTA
1 GGCACTTATGTGCTGTATCTTA
2796104 GGCACTTATGTGCT
1 GGCACTTATGTGCT
2796118 AGTTACTGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
22 28 0.88
23 4 0.12
ACGTcount: A:0.15, C:0.19, G:0.25, T:0.41
Consensus pattern (22 bp):
GGCACTTATGTGCTGTATCTTA
Found at i:2796197 original size:45 final size:45
Alignment explanation
Indices: 2796133--2796367 Score: 328
Period size: 45 Copynumber: 5.2 Consensus size: 45
2796123 CTGTTACCGC
*
2796133 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
2796178 TACTGCTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * * *
2796223 TACTGTTACCGTTACCGATTCGGTACTGTGTATGTCGAATATTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * *
2796268 TACTGTTA-TCGTTACCAATTTGGCACTTTGTGTGTGGAATATTGT
1 TACTGTTACT-GTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * ** *
2796313 TACTGTTACCGTTACCGATTCAGCACTTTGTGTGTTAAATACTGT
1 TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
2796358 TACTGTTACT
1 TACTGTTACT
2796368 ATTCCAGATT
Statistics
Matches: 168, Mismatches: 20, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
45 168 1.00
ACGTcount: A:0.20, C:0.18, G:0.21, T:0.41
Consensus pattern (45 bp):
TACTGTTACTGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:2796567 original size:18 final size:18
Alignment explanation
Indices: 2796546--2796736 Score: 160
Period size: 18 Copynumber: 10.6 Consensus size: 18
2796536 TAACTTATTA
2796546 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
2796564 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
2796582 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
2796600 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
2796618 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* * *
2796636 TTATTGAATAACTGATTG
1 TTACTGAATAATTGACTG
*
2796654 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
2796672 CTACTGAATAACTT-AATAG
1 TTACTGAATAA-TTGACT-G
*
2796691 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
2796708 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
2796726 TTACTGAATAA
1 TTACTGAATAA
2796737 CCGATCAATT
Statistics
Matches: 141, Mismatches: 20, Indels: 24
0.76 0.11 0.13
Matches are distributed among these distances:
17 19 0.13
18 106 0.75
19 16 0.11
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:2796622 original size:36 final size:36
Alignment explanation
Indices: 2796534--2796816 Score: 164
Period size: 36 Copynumber: 7.6 Consensus size: 36
2796524 AAAGGTATAA
* * *
2796534 AATAACTTATTATTACTGAATAATTGACTGTTACCG
1 AATAACTGAATATTACTGAATAATTGACTGTTACTG
* * * * *
2796570 GATAATTGACTGTTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGAATATTACTGAATAATT-GACTGTTACTG
* *
2796606 AATAACTGAATATTACTGAATAATTGA-TCATTATTG
1 AATAACTGAATATTACTGAATAATTGACT-GTTACTG
* * * *
2796642 AATAACTGATTGTCACTGAATGAA-TGACTGCTACTG
1 AATAACTGAATATTACTGAAT-AATTGACTGTTACTG
* *
2796678 AATAACTTAATAGTTACTGAAT-ATCTGA-TTTTACTG
1 AATAACTGAATA-TTACTGAATAAT-TGACTGTTACTG
* * * **
2796714 AATAATTGACTGTTACTGAATAACCGATCAATTGATCGATACTG
1 AATAACTGAATATTACTGAATAATTGA-C---TG-T---TACTG
* * *
2796758 AATAACTGATTATTATTGAATAATTGATTGTTA-TCG
1 AATAACTGAATATTACTGAATAATTGACTGTTACT-G
* *
2796794 AATAACTGATTGTTACTGAATAA
1 AATAACTGAATATTACTGAATAA
2796817 ATAATTATTC
Statistics
Matches: 186, Mismatches: 42, Indels: 38
0.70 0.16 0.14
Matches are distributed among these distances:
35 17 0.09
36 121 0.65
37 17 0.09
39 1 0.01
40 3 0.02
41 1 0.01
44 26 0.14
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (36 bp):
AATAACTGAATATTACTGAATAATTGACTGTTACTG
Found at i:2796625 original size:72 final size:71
Alignment explanation
Indices: 2796534--2796734 Score: 226
Period size: 72 Copynumber: 2.8 Consensus size: 71
2796524 AAAGGTATAA
* * * * * *
2796534 AATAACTTATTATTACTGAATAATTGACTGTTACCGGATAATTGACTGTTACTGGAT-ATTAGAC
1 AATAACTTAATATTACTGAATAATTGA-TATTACTGAATAATTGACTGTTACTGAATGAAT-GAC
*
2796598 TGTTACTG
64 TGCTACTG
* * * * *
2796606 AATAACTGAATATTACTGAATAATTGATCATTATTGAATAACTGATTGTCACTGAATGAATGACT
1 AATAACTTAATATTACTGAATAATTGAT-ATTACTGAATAATTGACTGTTACTGAATGAATGACT
2796671 GCTACTG
65 GCTACTG
*
2796678 AATAACTTAATAGTTACTGAAT-ATCTGATTTTACTGAATAATTGACTGTTACTGAAT
1 AATAACTTAATA-TTACTGAATAAT-TGATATTACTGAATAATTGACTGTTACTGAAT
2796735 AACCGATCAA
Statistics
Matches: 107, Mismatches: 18, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
71 1 0.01
72 91 0.85
73 15 0.14
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (71 bp):
AATAACTTAATATTACTGAATAATTGATATTACTGAATAATTGACTGTTACTGAATGAATGACTG
CTACTG
Found at i:2796660 original size:54 final size:53
Alignment explanation
Indices: 2796600--2796816 Score: 168
Period size: 54 Copynumber: 4.2 Consensus size: 53
2796590 TATTAGACTG
*
2796600 TTACTGAATAACTGAATATTACTGAATAATTGATCATTATTGAATAACTGATT
1 TTACTGAATAACTGACTATTACTGAATAATTGATCATTATTGAATAACTGATT
* ** * * *
2796653 GTCACTGAATGAA-TGACTGCTACTGAATAACTTAAT-AGTTACTGAATATCTGATT
1 -TTACTGAAT-AACTGACTATTACTGAATAA-TTGATCA-TTATTGAATAACTGATT
* * **
2796708 TTACTGAATAATTGACTGTTACTGAATAACCGATCA--ATTG-AT--C-GA--
1 TTACTGAATAACTGACTATTACTGAATAATTGATCATTATTGAATAACTGATT
* * ** *
2796753 -TACTGAATAACTGATTATTATTGAATAATTGATTGTTATCGAATAACTGATT
1 TTACTGAATAACTGACTATTACTGAATAATTGATCATTATTGAATAACTGATT
2796805 GTTACTGAATAA
1 -TTACTGAATAA
2796817 ATAATTATTC
Statistics
Matches: 126, Mismatches: 22, Indels: 30
0.71 0.12 0.17
Matches are distributed among these distances:
44 27 0.21
46 3 0.02
47 4 0.03
48 1 0.01
49 1 0.01
50 4 0.03
51 3 0.02
53 4 0.03
54 58 0.46
55 21 0.17
ACGTcount: A:0.37, C:0.12, G:0.14, T:0.37
Consensus pattern (53 bp):
TTACTGAATAACTGACTATTACTGAATAATTGATCATTATTGAATAACTGATT
Found at i:2796713 original size:17 final size:17
Alignment explanation
Indices: 2796690--2796735 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
2796680 TAACTTAATA
2796690 GTTACTGAATATCTGA-T
1 GTTACTGAATAT-TGACT
*
2796707 TTTACTGAATAATTGACT
1 GTTACTGAAT-ATTGACT
2796725 GTTACTGAATA
1 GTTACTGAATA
2796736 ACCGATCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.41
Consensus pattern (17 bp):
GTTACTGAATATTGACT
Found at i:2796777 original size:18 final size:18
Alignment explanation
Indices: 2796756--2796816 Score: 86
Period size: 18 Copynumber: 3.4 Consensus size: 18
2796746 TGATCGATAC
*
2796756 TGAATAACTGATTATTAT
1 TGAATAACTGATTGTTAT
*
2796774 TGAATAATTGATTGTTAT
1 TGAATAACTGATTGTTAT
* *
2796792 CGAATAACTGATTGTTAC
1 TGAATAACTGATTGTTAT
2796810 TGAATAA
1 TGAATAA
2796817 ATAATTATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 37 1.00
ACGTcount: A:0.38, C:0.07, G:0.15, T:0.41
Consensus pattern (18 bp):
TGAATAACTGATTGTTAT
Found at i:2801626 original size:15 final size:15
Alignment explanation
Indices: 2801603--2801637 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
2801593 AAGTGAATTT
*
2801603 GAATTGAATTGAATG
1 GAATTGAATGGAATG
*
2801618 GAATGGAATGGAATG
1 GAATTGAATGGAATG
2801633 GAATT
1 GAATT
2801638 ATGATTAATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.31, T:0.29
Consensus pattern (15 bp):
GAATTGAATGGAATG
Found at i:2802110 original size:45 final size:45
Alignment explanation
Indices: 2802046--2802285 Score: 372
Period size: 45 Copynumber: 5.3 Consensus size: 45
2802036 CTGTTACCGC
* * *
2802046 TACTGCTACTGTTACCGATTTGGCACTTTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
2802091 TACTGCTACCGTTACCGATTCGGCACTTTGTGTGTCGGATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
2802136 TACTGTTACCGTTACCGATTCGGCACTGTGTGTGTCGAATATTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* *
2802181 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTGGAATATTGC
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
* * *
2802226 TACTGTTACCGTTACCGATTCAGCACTTTGTGTGTTGAATACTGT
1 TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
*
2802271 TACTGTTACTGTTAC
1 TACTGTTACCGTTAC
2802286 TATTCCGAAT
Statistics
Matches: 181, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 181 1.00
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.40
Consensus pattern (45 bp):
TACTGTTACCGTTACCGATTCGGCACTTTGTGTGTCGAATATTGT
Found at i:2802486 original size:18 final size:18
Alignment explanation
Indices: 2802465--2802655 Score: 160
Period size: 18 Copynumber: 10.6 Consensus size: 18
2802455 TAACTGATTA
2802465 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
2802483 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
*
2802501 TTACTGGAT-ATTAGACTG
1 TTACTGAATAATT-GACTG
* * *
2802519 TTACTGAATAACTGAATA
1 TTACTGAATAATTGACTG
*
2802537 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
*
2802555 TTACTGAATAATTGATTG
1 TTACTGAATAATTGACTG
*
2802573 TCACTGAATGAA-TGACTG
1 TTACTGAAT-AATTGACTG
* *
2802591 CTACTGAATAACTT-AATAG
1 TTACTGAATAA-TTGACT-G
*
2802610 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
*
2802627 TTACTGAATAATTGACTA
1 TTACTGAATAATTGACTG
*
2802645 TTACTGGATAA
1 TTACTGAATAA
2802656 CCGATCAATT
Statistics
Matches: 143, Mismatches: 18, Indels: 24
0.77 0.10 0.13
Matches are distributed among these distances:
17 19 0.13
18 108 0.76
19 16 0.11
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:2802541 original size:36 final size:36
Alignment explanation
Indices: 2802453--2802735 Score: 164
Period size: 36 Copynumber: 7.6 Consensus size: 36
2802443 AAAGGTATAA
* *
2802453 AATAACTGATTATTACTGAATAATTGACTGTTACCG
1 AATAACTGAATATTACTGAATAATTGACTGTTACTG
* * * * *
2802489 GATAATTGACTGTTACTGGAT-ATTAGACTGTTACTG
1 AATAACTGAATATTACTGAATAATT-GACTGTTACTG
*
2802525 AATAACTGAATATTACTGAATAATTGA-TCATTACTG
1 AATAACTGAATATTACTGAATAATTGACT-GTTACTG
* * * * *
2802561 AATAATTGATTGTCACTGAATGAA-TGACTGCTACTG
1 AATAACTGAATATTACTGAAT-AATTGACTGTTACTG
* *
2802597 AATAACTTAATAGTTACTGAAT-ATCTGA-TTTTACTG
1 AATAACTGAATA-TTACTGAATAAT-TGACTGTTACTG
* * *
2802633 AATAATTGACTATTACTGGATAACCGATCAATTGA-TCGATACTG
1 AATAACTGAATATTACT-G---A---AT-AATTGACT-GTTACTG
** * * *
2802677 AATAACTGGTTATTATTGAATAATTGATTGTTACCG
1 AATAACTGAATATTACTGAATAATTGACTGTTACTG
* * *
2802713 AATAACTGACTGTTACTAAATAA
1 AATAACTGAATATTACTGAATAA
2802736 ATAATTATTC
Statistics
Matches: 187, Mismatches: 41, Indels: 38
0.70 0.15 0.14
Matches are distributed among these distances:
35 10 0.05
36 128 0.68
37 20 0.11
39 1 0.01
40 1 0.01
42 2 0.01
43 5 0.03
44 20 0.11
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (36 bp):
AATAACTGAATATTACTGAATAATTGACTGTTACTG
Found at i:2802590 original size:72 final size:72
Alignment explanation
Indices: 2802453--2802643 Score: 219
Period size: 72 Copynumber: 2.7 Consensus size: 72
2802443 AAAGGTATAA
* * * * * * *
2802453 AATAACTGATTATTACTGAATAATTGA-CTGTTACCGGATAATTGACTGTTACTGGATATTAGAC
1 AATAACTGAATATTACTGAATAATTGATC-ATTACTGAATAATTGACTGTCACTGAATAATAGAC
*
2802517 TGTTACTG
65 TGCTACTG
*
2802525 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAATTGATTGTCACTGAATGAAT-GAC
1 AATAACTGAATATTACTGAATAATTGATCATTACTGAATAATTGACTGTCACTGAAT-AATAGAC
2802589 TGCTACTG
65 TGCTACTG
* *
2802597 AATAACTTAATAGTTACTGAAT-ATCTGAT-TTTACTGAATAATTGACT
1 AATAACTGAATA-TTACTGAATAAT-TGATCATTACTGAATAATTGACT
2802644 ATTACTGGAT
Statistics
Matches: 103, Mismatches: 12, Indels: 8
0.84 0.10 0.07
Matches are distributed among these distances:
72 87 0.84
73 16 0.16
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (72 bp):
AATAACTGAATATTACTGAATAATTGATCATTACTGAATAATTGACTGTCACTGAATAATAGACT
GCTACTG
Found at i:2802715 original size:18 final size:18
Alignment explanation
Indices: 2802694--2802728 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2802684 GGTTATTATT
* *
2802694 GAATAATTGATTGTTACC
1 GAATAACTGACTGTTACC
2802712 GAATAACTGACTGTTAC
1 GAATAACTGACTGTTAC
2802729 TAAATAAATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.34
Consensus pattern (18 bp):
GAATAACTGACTGTTACC
Found at i:2804310 original size:13 final size:13
Alignment explanation
Indices: 2804292--2804317 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
2804282 GTAAATGATG
2804292 TTAAAATAAATAT
1 TTAAAATAAATAT
2804305 TTAAAATAAATAT
1 TTAAAATAAATAT
2804318 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAAATAAATAT
Found at i:2804436 original size:12 final size:12
Alignment explanation
Indices: 2804419--2804449 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
2804409 GAAGCAGGGG
2804419 AGAAAAAGAGAA
1 AGAAAAAGAGAA
*
2804431 AGAAAAAGGGAA
1 AGAAAAAGAGAA
2804443 AGAAAAA
1 AGAAAAA
2804450 TAAAAGAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (12 bp):
AGAAAAAGAGAA
Found at i:2805399 original size:41 final size:41
Alignment explanation
Indices: 2805354--2805451 Score: 105
Period size: 38 Copynumber: 2.5 Consensus size: 41
2805344 ACCTCGAGTA
* *
2805354 GATGAGACACTGGGTGTCACTAAATTT-CTTCGGATAGATTC
1 GATGAGACACTGGGTGTCACCAAATTTACTTCGGATAGA-CC
** * *
2805395 GATGAGGTACT-GG-GT-ACCAACTTTACTTCGGCTAGACC
1 GATGAGACACTGGGTGTCACCAAATTTACTTCGGATAGACC
2805433 GATGAGACACTGGGTGTCA
1 GATGAGACACTGGGTGTCA
2805452 ACTATTACTT
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
38 17 0.38
39 14 0.31
40 4 0.09
41 10 0.22
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (41 bp):
GATGAGACACTGGGTGTCACCAAATTTACTTCGGATAGACC
Found at i:2805445 original size:38 final size:39
Alignment explanation
Indices: 2805354--2805463 Score: 98
Period size: 38 Copynumber: 2.8 Consensus size: 39
2805344 ACCTCGAGTA
* * *
2805354 GATGAGACACTGGGTGTCACTAAATTT-CTTCGGATAGATTC
1 GATGAGACACT-GG-GT-ACCAACTTTACTTCGGATAGATCC
** *
2805395 GATGAGGTACTGGGTACCAACTTTACTTCGGCTAGA-CC
1 GATGAGACACTGGGTACCAACTTTACTTCGGATAGATCC
**
2805433 GATGAGACACTGGGTGTCAACTATTACTTCG
1 GATGAGACACTGGGTACCAACT-TTACTTCG
2805464 AACTATCCGA
Statistics
Matches: 57, Mismatches: 10, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
38 26 0.46
39 20 0.35
40 2 0.04
41 9 0.16
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (39 bp):
GATGAGACACTGGGTACCAACTTTACTTCGGATAGATCC
Found at i:2805460 original size:39 final size:40
Alignment explanation
Indices: 2805354--2805463 Score: 118
Period size: 39 Copynumber: 2.8 Consensus size: 40
2805344 ACCTCGAGTA
* *
2805354 GATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATAGATTC
1 GATGAGACACTGGGTGTCAACT--ATTACTTCGGATAGATCC
** ** *
2805395 GATGAGGTACTGGGTACCAACT-TTACTTCGGCTAGA-CC
1 GATGAGACACTGGGTGTCAACTATTACTTCGGATAGATCC
2805433 GATGAGACACTGGGTGTCAACTATTACTTCG
1 GATGAGACACTGGGTGTCAACTATTACTTCG
2805464 AACTATCCGA
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
38 19 0.34
39 20 0.36
41 14 0.25
42 3 0.05
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (40 bp):
GATGAGACACTGGGTGTCAACTATTACTTCGGATAGATCC
Found at i:2805474 original size:39 final size:39
Alignment explanation
Indices: 2805354--2805477 Score: 94
Period size: 39 Copynumber: 3.2 Consensus size: 39
2805344 ACCTCGAGTA
* * *
2805354 GATGAGACACTGGGTGTC-ACTAAATTTCTTCGGATA-GATTC
1 GATGAGACACTGGGTGTCAACT--ATTACTTC-GA-ACTATCC
** ** * *
2805395 GATGAGGTACTGGGTACCAACT-TTACTTCG-GCTAGACC
1 GATGAGACACTGGGTGTCAACTATTACTTCGAACTA-TCC
2805433 GATGAGACACTGGGTGTCAACTATTACTTCGAACTATCC
1 GATGAGACACTGGGTGTCAACTATTACTTCGAACTATCC
2805472 GATGAG
1 GATGAG
2805478 GCATGGGGTG
Statistics
Matches: 63, Mismatches: 15, Indels: 12
0.70 0.17 0.13
Matches are distributed among these distances:
37 1 0.02
38 20 0.32
39 22 0.35
40 3 0.05
41 14 0.22
42 3 0.05
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (39 bp):
GATGAGACACTGGGTGTCAACTATTACTTCGAACTATCC
Found at i:2807999 original size:11 final size:12
Alignment explanation
Indices: 2807982--2808011 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
2807972 TTTCTACATT
2807982 TTTCTTCAGTTC
1 TTTCTTCAGTTC
2807994 -TTCTTCAGTTC
1 TTTCTTCAGTTC
2808005 TTTCTTC
1 TTTCTTC
2808012 TTTAGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.07, C:0.27, G:0.07, T:0.60
Consensus pattern (12 bp):
TTTCTTCAGTTC
Found at i:2808011 original size:15 final size:14
Alignment explanation
Indices: 2807991--2808024 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
2807981 TTTTCTTCAG
2807991 TTCTTCTTCAGTTCT
1 TTCTTCTTCAGTT-T
*
2808006 TTCTTCTTTAGTTT
1 TTCTTCTTCAGTTT
2808020 TTCTT
1 TTCTT
2808025 TTTTCTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.06, C:0.21, G:0.06, T:0.68
Consensus pattern (14 bp):
TTCTTCTTCAGTTT
Found at i:2809176 original size:9 final size:9
Alignment explanation
Indices: 2809158--2809250 Score: 132
Period size: 9 Copynumber: 10.3 Consensus size: 9
2809148 TCAGTTGAAC
2809158 TAAATCGGT
1 TAAATCGGT
*
2809167 TAAGTCGGT
1 TAAATCGGT
*
2809176 TAAGTCGGT
1 TAAATCGGT
2809185 TAAATCGGT
1 TAAATCGGT
*
2809194 TAAATTGGT
1 TAAATCGGT
*
2809203 TAAGTCGGT
1 TAAATCGGT
*
2809212 TAAATCAGT
1 TAAATCGGT
2809221 TAAATCGGT
1 TAAATCGGT
*
2809230 TAAGTCGGT
1 TAAATCGGT
2809239 TAAATCGGT
1 TAAATCGGT
2809248 TAA
1 TAA
2809251 TTTTTAACCA
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 74 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (9 bp):
TAAATCGGT
Found at i:2809188 original size:27 final size:27
Alignment explanation
Indices: 2809158--2809250 Score: 159
Period size: 27 Copynumber: 3.4 Consensus size: 27
2809148 TCAGTTGAAC
*
2809158 TAAATCGGTTAAGTCGGTTAAGTCGGT
1 TAAATCGGTTAAATCGGTTAAGTCGGT
*
2809185 TAAATCGGTTAAATTGGTTAAGTCGGT
1 TAAATCGGTTAAATCGGTTAAGTCGGT
*
2809212 TAAATCAGTTAAATCGGTTAAGTCGGT
1 TAAATCGGTTAAATCGGTTAAGTCGGT
2809239 TAAATCGGTTAA
1 TAAATCGGTTAA
2809251 TTTTTAACCA
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 61 1.00
ACGTcount: A:0.31, C:0.10, G:0.25, T:0.34
Consensus pattern (27 bp):
TAAATCGGTTAAATCGGTTAAGTCGGT
Found at i:2819397 original size:18 final size:19
Alignment explanation
Indices: 2819340--2819404 Score: 71
Period size: 18 Copynumber: 3.4 Consensus size: 19
2819330 AAATTTATAT
2819340 TTATAAAAATATTATTAAAAA
1 TTATAAAAATA--ATTAAAAA
* *
2819361 TTATAAAAATTATT-TAAA
1 TTATAAAAATAATTAAAAA
2819379 TTATAAAAA-AATTAAAAA
1 TTATAAAAATAATTAAAAA
*
2819397 TCATAAAA
1 TTATAAAA
2819405 GTGTTCACCT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
17 3 0.08
18 22 0.58
19 3 0.08
21 10 0.26
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
TTATAAAAATAATTAAAAA
Found at i:2819404 original size:9 final size:9
Alignment explanation
Indices: 2819340--2819387 Score: 51
Period size: 9 Copynumber: 5.0 Consensus size: 9
2819330 AAATTTATAT
2819340 TTATAAAAATA
1 TTAT-AAAA-A
2819351 TTATTAAAAA
1 TTA-TAAAAA
2819361 TTATAAAAA
1 TTATAAAAA
**
2819370 TTATTTAAA
1 TTATAAAAA
2819379 TTATAAAAA
1 TTATAAAAA
2819388 AATTAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
9 20 0.62
10 4 0.12
11 7 0.22
12 1 0.03
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
TTATAAAAA
Found at i:2824254 original size:21 final size:22
Alignment explanation
Indices: 2824224--2824277 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
2824214 AGTCTATATC
*
2824224 ATTATAATTTTTAAAAAATTAA
1 ATTATAATTTTCAAAAAATTAA
*
2824246 ATTA-AATTTTCATAAAATTAAA
1 ATTATAATTTTCAAAAAATT-AA
*
2824268 AGTATAATTT
1 ATTATAATTT
2824278 CACTTTTATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 13 0.48
22 9 0.33
23 5 0.19
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
ATTATAATTTTCAAAAAATTAA
Found at i:2828099 original size:14 final size:15
Alignment explanation
Indices: 2828080--2828120 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
2828070 TTAGCCCAAT
2828080 ATTTTATTTATTAA-
1 ATTTTATTTATTAAC
*
2828094 ATTTTATATTTTTAAC
1 ATTTTAT-TTATTAAC
2828110 A-TTTATTTATT
1 ATTTTATTTATT
2828121 CTGAATTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 11 0.48
15 11 0.48
16 1 0.04
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (15 bp):
ATTTTATTTATTAAC
Found at i:2829346 original size:19 final size:20
Alignment explanation
Indices: 2829313--2829357 Score: 65
Period size: 19 Copynumber: 2.3 Consensus size: 20
2829303 TAGTAAAATA
* *
2829313 TTTTCTGGAAAATGATTTCC
1 TTTTCTGGAAAATGACTTAC
2829333 TTTTCTGG-AAATGACTTAC
1 TTTTCTGGAAAATGACTTAC
2829352 TTTTCT
1 TTTTCT
2829358 TGTGTTTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 15 0.65
20 8 0.35
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (20 bp):
TTTTCTGGAAAATGACTTAC
Found at i:2829461 original size:18 final size:18
Alignment explanation
Indices: 2829435--2829477 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
2829425 AAAAGTTGTT
* *
2829435 TTTACATATATTAATGAA
1 TTTATATATATTAATAAA
2829453 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
2829471 TTTATAT
1 TTTATAT
2829478 TTTAAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:2829482 original size:16 final size:16
Alignment explanation
Indices: 2829440--2829482 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 16
2829430 TTGTTTTTAC
* *
2829440 ATATATTAATGAATTT
1 ATATTTTAATAAATTT
2829456 ATATATATTAATAAATTT
1 ATAT-T-TTAATAAATTT
2829474 ATATTTTAA
1 ATATTTTAA
2829483 ATTATTTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.35
17 1 0.04
18 14 0.61
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATTTTAATAAATTT
Found at i:2830470 original size:24 final size:24
Alignment explanation
Indices: 2830436--2830488 Score: 97
Period size: 24 Copynumber: 2.2 Consensus size: 24
2830426 GAGTACCTCA
2830436 CACACTCATCTCTAACATTCAACC
1 CACACTCATCTCTAACATTCAACC
*
2830460 CACACTTATCTCTAACATTCAACC
1 CACACTCATCTCTAACATTCAACC
2830484 CACAC
1 CACAC
2830489 CATAAGAAGC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.34, C:0.42, G:0.00, T:0.25
Consensus pattern (24 bp):
CACACTCATCTCTAACATTCAACC
Found at i:2832208 original size:9 final size:9
Alignment explanation
Indices: 2832196--2832228 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
2832186 GAATTATTCG
2832196 AATCGAGTT
1 AATCGAGTT
*
2832205 AATCGAATT
1 AATCGAGTT
2832214 AATCGAGTT
1 AATCGAGTT
2832223 AATCGA
1 AATCGA
2832229 ATCAACTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (9 bp):
AATCGAGTT
Found at i:2832219 original size:18 final size:18
Alignment explanation
Indices: 2832196--2832230 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
2832186 GAATTATTCG
2832196 AATCGAGTTAATCGAATT
1 AATCGAGTTAATCGAATT
2832214 AATCGAGTTAATCGAAT
1 AATCGAGTTAATCGAAT
2832231 CAACTCAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.17, T:0.31
Consensus pattern (18 bp):
AATCGAGTTAATCGAATT
Found at i:2833458 original size:41 final size:40
Alignment explanation
Indices: 2833410--2833495 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 40
2833400 CAAATACATT
* *
2833410 TAAAACAAATATTAAAATAAGAAACAAATAAAAAATGATAC
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAAT-ATAA
* * * * *
2833451 TAAAACAATTCTTAAAACAATATACAAATTAAAAATATAA
1 TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
2833491 TAAAA
1 TAAAA
2833496 AGTGATTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 8 0.21
41 30 0.79
ACGTcount: A:0.66, C:0.08, G:0.02, T:0.23
Consensus pattern (40 bp):
TAAAACAAATATTAAAACAAGAAACAAATAAAAAATATAA
Found at i:2833546 original size:28 final size:27
Alignment explanation
Indices: 2833478--2833546 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
2833468 CAATATACAA
* * *
2833478 ATTAAAAATATAATAAAAAGTGATTAT
1 ATTAAAAATAAAATAAAAAGTAAATAT
* *
2833505 ATTAAAATTGAAAATAAAATGTAAATAT
1 ATTAAAAAT-AAAATAAAAAGTAAATAT
2833533 GATTAAAAATAAAA
1 -ATTAAAAATAAAA
2833547 AATATATATA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
27 8 0.24
28 18 0.53
29 8 0.24
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (27 bp):
ATTAAAAATAAAATAAAAAGTAAATAT
Found at i:2843017 original size:14 final size:15
Alignment explanation
Indices: 2843000--2843028 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2842990 TTATATCACG
2843000 AATCA-TATAAAATT
1 AATCATTATAAAATT
2843014 AATCATTATAAAATT
1 AATCATTATAAAATT
2843029 TAGCAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.55, C:0.07, G:0.00, T:0.38
Consensus pattern (15 bp):
AATCATTATAAAATT
Found at i:2845366 original size:21 final size:21
Alignment explanation
Indices: 2845342--2845388 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
2845332 TCTTTTTTTT
* *
2845342 TATTTTATTATTAAATTATTA
1 TATTATATTAATAAATTATTA
*
2845363 TATTATATTAATATATTATTA
1 TATTATATTAATAAATTATTA
2845384 TATTA
1 TATTA
2845389 ATTTCTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTATATTAATAAATTATTA
Done.