Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold156
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1175753
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.30
Warning! 90626 characters in sequence are not A, C, G, or T
File 2 of 3
Found at i:439 original size:4 final size:4
Alignment explanation
Indices: 430--683 Score: 127
Period size: 4 Copynumber: 66.0 Consensus size: 4
420 TGCGCTCTCC
* * *
430 GTCT GTCT GTCT GTCT GTCT CTGT GTCT TTCT GTCT GTC- -TCT GTCT
1 GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT
* * * *
476 CTCT G--T GTCT TTCT GTCT GTCCCT GTC- -TCT GTCT CTCT CTCT GTCT
1 GTCT GTCT GTCT GTCT GTCT GT--CT GTCT GTCT GTCT GTCT GTCT GTCT
* * * * * * *
522 GTCT GTCT GTCT GTCT GTCT CTCT CTCT CTCT CTCT CTCT CTCT CTCT
1 GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT
* * * * * * * * *
570 CTCT CTCT GTGT CTCT GTCT CTCT ATGT GTC- -TCT GTCT CTCT CTCT
1 GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT
* * * *
616 CTGT GTCT TTCT GTCT GTC- -TCT GTCT GTCT GTCT GTC- -TCT CTCT
1 GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT GTCT
* * * *
660 GTCT CTCT CTCT GTGT CTCT GTCT
1 GTCT GTCT GTCT GTCT GTCT GTCT
684 CTCCCTGTCT
Statistics
Matches: 200, Mismatches: 36, Indels: 28
0.76 0.14 0.11
Matches are distributed among these distances:
2 12 0.06
4 184 0.92
6 4 0.02
ACGTcount: A:0.00, C:0.33, G:0.16, T:0.51
Consensus pattern (4 bp):
GTCT
Found at i:466 original size:14 final size:14
Alignment explanation
Indices: 449--495 Score: 67
Period size: 14 Copynumber: 3.4 Consensus size: 14
439 TCTGTCTGTC
449 TCTGTGTCTTTCTG
1 TCTGTGTCTTTCTG
* * *
463 TCTGTCTCTGTCTC
1 TCTGTGTCTTTCTG
477 TCTGTGTCTTTCTG
1 TCTGTGTCTTTCTG
491 TCTGT
1 TCTGT
496 CCCTGTCTCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.19, T:0.55
Consensus pattern (14 bp):
TCTGTGTCTTTCTG
Found at i:478 original size:28 final size:28
Alignment explanation
Indices: 447--723 Score: 176
Period size: 28 Copynumber: 9.4 Consensus size: 28
437 TGTCTGTCTG
* *
447 TCTCTGTGTCTTTCTGTCTGTCTCTGTC
1 TCTCTGTCTCTTTCTCTCTGTCTCTGTC
* * *
475 TCTCTGTGTCTTTCTGTCTGTCCCTGTC
1 TCTCTGTCTCTTTCTCTCTGTCTCTGTC
* * * *
503 TCTGTCTCTCTCTCTGTCTGTCTGTCTGTC
1 TCTCTGTCTCTTTCTCTCTGTC--TCTGTC
* * * *
533 TGTCTGTCTCTCTCTCTCTCTCTCTCTC
1 TCTCTGTCTCTTTCTCTCTGTCTCTGTC
* * *
561 TCTCTCTCTCTCTCTCTGTGTCTCTGTC
1 TCTCTGTCTCTTTCTCTCTGTCTCTGTC
* *
589 TCTCTATGTGTCTCTGTCTCTCTCTCTCTGTGTC
1 TCTC----TGTCTCT-T-TCTCTCTGTCTCTGTC
* * * *
623 TTTCTGTCTGTCTCTGTCTGTCTGTCTGTCTC
1 --TC--TCTGTCTCTTTCTCTCTGTCTCTGTC
* *
655 TCTCTGTCTCTCTCTCTGTGTCTCTGTC
1 TCTCTGTCTCTTTCTCTCTGTCTCTGTC
* * *
683 TCTCCCTGTCTCTGTCTCTGTGTCTCTTTC
1 TCT--CTGTCTCTTTCTCTCTGTCTCTGTC
*
713 TCTCTCTCTCT
1 TCTCTGTCTCT
724 CTCTATTAAT
Statistics
Matches: 201, Mismatches: 34, Indels: 28
0.76 0.13 0.11
Matches are distributed among these distances:
28 108 0.54
30 50 0.25
32 19 0.09
34 20 0.10
36 2 0.01
38 2 0.01
ACGTcount: A:0.00, C:0.35, G:0.14, T:0.51
Consensus pattern (28 bp):
TCTCTGTCTCTTTCTCTCTGTCTCTGTC
Found at i:686 original size:8 final size:8
Alignment explanation
Indices: 424--725 Score: 206
Period size: 8 Copynumber: 37.8 Consensus size: 8
414 CGACGATGCG
*
424 CTCTCCGT
1 CTCTCTGT
*
432 CTGTCTGT
1 CTCTCTGT
*
440 CTGTCTGT
1 CTCTCTGT
*
448 CTCTGTGT
1 CTCTCTGT
*
456 CTTTCTGT
1 CTCTCTGT
464 CTGTCTCTGT
1 C--TCTCTGT
474 CTCTCTGT
1 CTCTCTGT
*
482 GTCT-T-T
1 CTCTCTGT
*
488 CTGTCTGT
1 CTCTCTGT
496 C-C-CTG-
1 CTCTCTGT
501 -TCTCTGT
1 CTCTCTGT
*
508 CTCTCTCT
1 CTCTCTGT
*
516 CTGTCTGT
1 CTCTCTGT
*
524 CTGTCTGT
1 CTCTCTGT
*
532 CTGTCTGT
1 CTCTCTGT
*
540 CTCTCTCT
1 CTCTCTGT
*
548 CTCTCTCT
1 CTCTCTGT
*
556 CTCTCTCT
1 CTCTCTGT
*
564 CTCTCTCT
1 CTCTCTGT
572 CTCTCTGT
1 CTCTCTGT
*
580 GTCTCTGT
1 CTCTCTGT
588 CTCTCTATGT
1 CTCTC--TGT
*
598 GTCTCTGT
1 CTCTCTGT
*
606 CTCTCTCT
1 CTCTCTGT
*
614 CTCTGTGT
1 CTCTCTGT
*
622 CTTTCTGT
1 CTCTCTGT
630 CTGTCTCTGT
1 C--TCTCTGT
*
640 CTGTCTGT
1 CTCTCTGT
*
648 CTGTCTCTCT
1 C--TCTCTGT
* *
658 CTGTCTCT
1 CTCTCTGT
666 CTCTCTGT
1 CTCTCTGT
*
674 GTCTCTGT
1 CTCTCTGT
**
682 CTCTCCCT
1 CTCTCTGT
*
690 GTCTCTGT
1 CTCTCTGT
*
698 CTCTGTGT
1 CTCTCTGT
706 CTCT-T-T
1 CTCTCTGT
*
712 CTCTCTCT
1 CTCTCTGT
720 CTCTCT
1 CTCTCT
726 CTATTAATTT
Statistics
Matches: 236, Mismatches: 42, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
5 1 0.00
6 14 0.06
7 4 0.02
8 190 0.81
10 27 0.11
ACGTcount: A:0.00, C:0.35, G:0.15, T:0.50
Consensus pattern (8 bp):
CTCTCTGT
Found at i:720 original size:4 final size:4
Alignment explanation
Indices: 501--727 Score: 157
Period size: 4 Copynumber: 56.8 Consensus size: 4
491 TCTGTCCCTG
* * * * * * *
501 TCTC TGTC TCTC TCTC TGTC TGTC TGTC TGTC TGTC TGTC TCTC TCTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * *
549 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TGTG TCTC TGTC TCTC TATG
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * * * * *
597 TGTC TCTG TCTC TCTC TCTC TGTG TCTT TCTG TCTG TCTC TGTC TGTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * * * * * *
645 TGTC TGTC TCTC TCTG TCTC TCTC TCTG TGTC TCTG TCTC TCCC TGTC
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC
* * * *
693 TCTG TCTC TGTG TCTC TTTC TCTC TCTC TCTC TCT
1 TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCTC TCT
728 ATTAATTTTG
Statistics
Matches: 178, Mismatches: 45, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
4 178 1.00
ACGTcount: A:0.00, C:0.36, G:0.13, T:0.51
Consensus pattern (4 bp):
TCTC
Found at i:4015 original size:35 final size:35
Alignment explanation
Indices: 3961--4033 Score: 110
Period size: 35 Copynumber: 2.1 Consensus size: 35
3951 GTTGGGATAT
* *
3961 TGAGGTTCATATGAGGTGTAACATTGAGGTTAATA
1 TGAGGTTCAAATGAGGTGTAACAGTGAGGTTAATA
* *
3996 TGAGGTTCAAATGATGTGTAACAGTGAGGTTTATA
1 TGAGGTTCAAATGAGGTGTAACAGTGAGGTTAATA
4031 TGA
1 TGA
4034 TGTGTAACAG
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (35 bp):
TGAGGTTCAAATGAGGTGTAACAGTGAGGTTAATA
Found at i:4055 original size:24 final size:24
Alignment explanation
Indices: 3996--4057 Score: 99
Period size: 24 Copynumber: 2.6 Consensus size: 24
3986 GAGGTTAATA
3996 TGAGGTTCAA-ATGATGTGTAACAG
1 TGAGGTT-AATATGATGTGTAACAG
*
4020 TGAGGTTTATATGATGTGTAACAG
1 TGAGGTTAATATGATGTGTAACAG
4044 TGAGGTTAATATGA
1 TGAGGTTAATATGA
4058 GGTTTATAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
23 1 0.03
24 34 0.97
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (24 bp):
TGAGGTTAATATGATGTGTAACAG
Found at i:4059 original size:35 final size:35
Alignment explanation
Indices: 4020--4090 Score: 99
Period size: 35 Copynumber: 2.0 Consensus size: 35
4010 TGTGTAACAG
*
4020 TGAGGTTTATATGATG-TGTAACAGTGAGGTTAATA
1 TGAGGTTTATAAGA-GATGTAACAGTGAGGTTAATA
* *
4055 TGAGGTTTATAAGAGATGTAACATTGAGGTTTATA
1 TGAGGTTTATAAGAGATGTAACAGTGAGGTTAATA
4090 T
1 T
4091 AAATTGTAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
34 1 0.03
35 31 0.97
ACGTcount: A:0.32, C:0.03, G:0.27, T:0.38
Consensus pattern (35 bp):
TGAGGTTTATAAGAGATGTAACAGTGAGGTTAATA
Found at i:4087 original size:24 final size:24
Alignment explanation
Indices: 4055--4242 Score: 127
Period size: 24 Copynumber: 7.8 Consensus size: 24
4045 GAGGTTAATA
4055 TGAGGTTTATAAGAGATGTAACAT
1 TGAGGTTTATAAGAGATGTAACAT
4079 TGAGGTTTATATA-A-ATTGTAACAT
1 TGAGGTTTATA-AGAGA-TGTAACAT
4103 TGAGGTCTATATAA-AG-TGTAACAT
1 TGAGGT-T-TATAAGAGATGTAACAT
* * * * *
4127 TAAGGATTATATGA-AGTGTTATAT
1 TGAGGTTTATAAGAGA-TGTAACAT
* * * * * *
4151 TAAGGTTCATATGAGGTGTAGCAG
1 TGAGGTTTATAAGAGATGTAACAT
* * *
4175 TGAGGTTTACATGATG-TGTAACAG
1 TGAGGTTTATAAGA-GATGTAACAT
* *
4199 TGAGGTTTATATGAGGTGTAACAT
1 TGAGGTTTATAAGAGATGTAACAT
*
4223 TGAGGTTTATAAGAGGTGTA
1 TGAGGTTTATAAGAGATGTA
4243 CAAGAGGTGT
Statistics
Matches: 134, Mismatches: 19, Indels: 22
0.77 0.11 0.13
Matches are distributed among these distances:
22 4 0.03
23 4 0.03
24 117 0.87
25 5 0.04
26 4 0.03
ACGTcount: A:0.34, C:0.05, G:0.26, T:0.36
Consensus pattern (24 bp):
TGAGGTTTATAAGAGATGTAACAT
Found at i:4126 original size:48 final size:47
Alignment explanation
Indices: 4055--4592 Score: 365
Period size: 48 Copynumber: 11.5 Consensus size: 47
4045 GAGGTTAATA
**
4055 TGAGGTT-TATAAGAGATGTAACATTGAGGTTTATATAAATTGTAACAT
1 TGAGGTTATATAA-AG-TGTAACATTGAGGTTTATATAAGGTGTAACAT
* * * *
4103 TGAGGTCTATATAAAGTGTAACATTAAGGATTATATGAA-GTGTTATAT
1 TGAGGT-TATATAAAGTGTAACATTGAGGTTTATAT-AAGGTGTAACAT
* * * * * * * * *
4151 TAAGGTTCATATGAGGTGTAGCAGTGAGGTTTACATGATGTGTAACAG
1 TGAGGTT-ATATAAAGTGTAACATTGAGGTTTATATAAGGTGTAACAT
* *
4199 TGAGGTTTATATGAGGTGTAACATTGAGGTTTATA-AGAGGTGT-ACA-
1 TGAGG-TTATATAAAGTGTAACATTGAGGTTTATATA-AGGTGTAACAT
*
4245 AGAGG-----T---GT-T-ACATTGAGGTTTATA-AGAGGAT-TAACAT
1 TGAGGTTATATAAAGTGTAACATTGAGGTTTATATA-AGG-TGTAACAT
4282 TGAGGTT-TATAAGAGGTGTAACATTGAGGTTTATA-AGAGGAT-TAACAT
1 TGAGGTTATATAA-A-GTGTAACATTGAGGTTTATATA-AGG-TGTAACAT
* * * *
4330 TGAGG-TATATAAGAGGTGTAACATTGAGGTTCATATGAGGTGTAGCAG
1 TGAGGTTATATAA-A-GTGTAACATTGAGGTTTATATAAGGTGTAACAT
* * * * *
4378 TGAGGTTTACATGATGTGTAACAGTGAGGTTTATATGAGGTGTAACAT
1 TGAGG-TTATATAAAGTGTAACATTGAGGTTTATATAAGGTGTAACAT
* *
4426 TGAGGTTTATATAAGGTGTAACATTGAGGTGTATA-AGAGGTGTAACAT
1 TGAGG-TTATATAAAGTGTAACATTGAGGTTTATATA-AGGTGTAACAT
4474 TGAGGTT-TATAAGAG-GATTAACATTGAGGTTTATA-AGAGGTGTAACAT
1 TGAGGTTATATAA-AGTG--TAACATTGAGGTTTATATA-AGGTGTAACAT
* * *
4522 TGAGGTTCATATGAAGTGTAACATTG-GGATTCATTTAAGGTGTAACAT
1 TGAGGTT-ATATAAAGTGTAACATTGAGG-TTTATATAAGGTGTAACAT
4570 TGAGGTTA-ATAAGAGGTGTAACA
1 TGAGGTTATATAA-A-GTGTAACA
4593 GTATATAAAT
Statistics
Matches: 405, Mismatches: 48, Indels: 74
0.77 0.09 0.14
Matches are distributed among these distances:
35 21 0.05
36 5 0.01
37 6 0.01
40 1 0.00
41 1 0.00
46 15 0.04
47 15 0.04
48 316 0.78
49 10 0.02
50 15 0.04
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.34
Consensus pattern (47 bp):
TGAGGTTATATAAAGTGTAACATTGAGGTTTATATAAGGTGTAACAT
Found at i:4180 original size:13 final size:12
Alignment explanation
Indices: 4162--4263 Score: 50
Period size: 11 Copynumber: 8.5 Consensus size: 12
4152 AAGGTTCATA
4162 TGAGGTGTAGCAG
1 TGAGGTGTA-CAG
*
4175 TGAGGTTTACA-
1 TGAGGTGTACAG
*
4186 TGATGTGTAACAG
1 TGAGGTGT-ACAG
* *
4199 TGAGGTTTATA-
1 TGAGGTGTACAG
*
4210 TGAGGTGTAACAT
1 TGAGGTGT-ACAG
* *
4223 TGAGGTTTATA-
1 TGAGGTGTACAG
*
4234 AGAGGTGTACA-
1 TGAGGTGTACAG
* *
4245 AGAGGTGTTACAT
1 TGAGGTG-TACAG
4258 TGAGGT
1 TGAGGT
4264 TTATAAGAGG
Statistics
Matches: 69, Mismatches: 14, Indels: 12
0.73 0.15 0.13
Matches are distributed among these distances:
11 28 0.41
12 15 0.22
13 26 0.38
ACGTcount: A:0.28, C:0.06, G:0.33, T:0.32
Consensus pattern (12 bp):
TGAGGTGTACAG
Found at i:4262 original size:24 final size:24
Alignment explanation
Indices: 4244--4592 Score: 440
Period size: 24 Copynumber: 14.5 Consensus size: 24
4234 AGAGGTGTAC
*
4244 AAGAGGTGTTACATTGAGGTTTAT
1 AAGAGGTGTAACATTGAGGTTTAT
4268 AAGAGGAT-TAACATTGAGGTTTAT
1 AAGAGG-TGTAACATTGAGGTTTAT
4292 AAGAGGTGTAACATTGAGGTTTAT
1 AAGAGGTGTAACATTGAGGTTTAT
*
4316 AAGAGGAT-TAACATTGAGGTATAT
1 AAGAGG-TGTAACATTGAGGTTTAT
*
4340 AAGAGGTGTAACATTGAGGTTCAT
1 AAGAGGTGTAACATTGAGGTTTAT
* * * *
4364 ATGAGGTGTAGCAGTGAGGTTTAC
1 AAGAGGTGTAACATTGAGGTTTAT
* * *
4388 ATGATGTGTAACAGTGAGGTTTAT
1 AAGAGGTGTAACATTGAGGTTTAT
*
4412 ATGAGGTGTAACATTGAGGTTTAT
1 AAGAGGTGTAACATTGAGGTTTAT
*
4436 ATA-AGGTGTAACATTGAGGTGTAT
1 A-AGAGGTGTAACATTGAGGTTTAT
4460 AAGAGGTGTAACATTGAGGTTTAT
1 AAGAGGTGTAACATTGAGGTTTAT
4484 AAGAGGAT-TAACATTGAGGTTTAT
1 AAGAGG-TGTAACATTGAGGTTTAT
*
4508 AAGAGGTGTAACATTGAGGTTCAT
1 AAGAGGTGTAACATTGAGGTTTAT
* * *
4532 ATGAAGTGTAACATTG-GGATTCATT
1 AAGAGGTGTAACATTGAGG-TTTA-T
* *
4557 TA-AGGTGTAACATTGAGGTTAAT
1 AAGAGGTGTAACATTGAGGTTTAT
4580 AAGAGGTGTAACA
1 AAGAGGTGTAACA
4593 GTATATAAAT
Statistics
Matches: 288, Mismatches: 25, Indels: 24
0.85 0.07 0.07
Matches are distributed among these distances:
23 8 0.03
24 274 0.95
25 6 0.02
ACGTcount: A:0.34, C:0.05, G:0.28, T:0.33
Consensus pattern (24 bp):
AAGAGGTGTAACATTGAGGTTTAT
Found at i:4262 original size:59 final size:59
Alignment explanation
Indices: 3959--4301 Score: 217
Period size: 59 Copynumber: 5.8 Consensus size: 59
3949 AAGTTGGGAT
* * * *
3959 ATTGAGGTTCATATGAGGTGTAACATTGAGGTTAATATGAGGT-T-CAAATGATGTGTAAC
1 ATTGAGGTTTATATGAGGTGTAACATTGAGGTTTATAAGAGGTGTAC-AA-GAGGTGTAAC
* * * * * * * *
4018 AGTGAGGTTTATATGATGTGTAACAGTGAGGTTAATATGAGGTTTATAAGAGATGTAAC
1 ATTGAGGTTTATATGAGGTGTAACATTGAGGTTTATAAGAGGTGTACAAGAGGTGTAAC
* ** *
4077 ATTGAGGTTTATATAAATTGTAACATTGAGGTCTATATAA-A-GTGTAACATTA-AGGAT-T-AT
1 ATTGAGGTTTATATGAGGTGTAACATTGAGGT-T-TATAAGAGGTGT-ACA--AGAGG-TGTAAC
* * * ** * * *
4137 A-TGAAGTGTTATATTAAGGT-T--CATATGAGGTGTAGCAGTGAG-GTTTACATGATGTGTAAC
1 ATTGAGGT-TTATA-TGAGGTGTAACAT-TGAGGTTTATAAGAG-GTG--TACAAGAGGTGTAAC
* *
4197 AGTGAGGTTTATATGAGGTGTAACATTGAGGTTTATAAGAGGTGTACAAGAGGTGTTAC
1 ATTGAGGTTTATATGAGGTGTAACATTGAGGTTTATAAGAGGTGTACAAGAGGTGTAAC
*
4256 ATTGAGGTTTATAAGAGGAT-TAACATTGAGGTTTATAAGAGGTGTA
1 ATTGAGGTTTATATGAGG-TGTAACATTGAGGTTTATAAGAGGTGTA
4302 ACATTGAGGT
Statistics
Matches: 220, Mismatches: 39, Indels: 50
0.71 0.13 0.16
Matches are distributed among these distances:
57 3 0.01
58 4 0.02
59 151 0.69
60 29 0.13
61 28 0.13
62 5 0.02
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.35
Consensus pattern (59 bp):
ATTGAGGTTTATATGAGGTGTAACATTGAGGTTTATAAGAGGTGTACAAGAGGTGTAAC
Found at i:4280 original size:155 final size:155
Alignment explanation
Indices: 3998--4528 Score: 372
Period size: 155 Copynumber: 3.5 Consensus size: 155
3988 GGTTAATATG
* * *
3998 AGGTTCAAATGATGTGTAACAGTGAGGTTTATATGATGTGTAACAGTGAGGTTAATATGAGGTTT
1 AGGTTCATATGAGGTGTAACAGTGAGGTTTATATGATGTGTAACAGTGAGGTTAATATGAGGTGT
* * * * *
4063 ATA-A-GAGATGTAACATTGAGGTTTATATAAATTGTAACATTGAGGTCTATATAAAGTGTAACA
66 A-ACATGAGGTTTAACA-TGAGGTGTACATAAAGTGTAACATTGAGGTCTATATAAAGTGTAACA
* * *
4126 TTAAGGATTATATGAAGTGTTATATTA
129 TTAAGGATTATAAGAAGTGTAACATTA
* * *
4153 AGGTTCATATGAGGTGTAGCAGTGAGGTTTACATGATGTGTAACAGTGAGGTTTATATGAGGTGT
1 AGGTTCATATGAGGTGTAACAGTGAGGTTTATATGATGTGTAACAGTGAGGTTAATATGAGGTGT
* *
4218 AACATTGAGGTTTATA-A-GAGGTGTACA-AGAGGTGTTACATTGAGGT-T-TATAAGAG-GATT
66 AACA-TGAGGTTTA-ACATGAGGTGTACATA-AAGTGTAACATTGAGGTCTATATAA-AGTG--T
* * * *
4277 AACATTGAGGTTTATAAGAGGTGTAACATTG
125 AACATTAAGGATTATAAGAAGTGTAACATTA
* * * * * * * *
4308 AGGTTTATAAGAGGAT-TAACATTGAGGTATATAAGAGGTGTAACATTGAGGTTCATATGAGGTG
1 AGGTTCATATGAGG-TGTAACAGTGAGGTTTATATGATGTGTAACAGTGAGGTTAATATGAGGTG
* * * * *
4372 TAGCAGTGAGGTTT-AC---A--TG---AT---GTGTAACAGTGAGGTTTATATGAGGTGTAACA
65 TAACA-TGAGGTTTAACATGAGGTGTACATAAAGTGTAACATTGAGGTCTATATAAAGTGTAACA
* * * *
4425 TTGAGGTTTATATA-AGGTGTAACATTG
129 TTAAGGATTATA-AGAAGTGTAACATTA
* * * * * * *
4452 AGGTGT-ATAAGAGGTGTAACATTGAGGTTTATAAGAGGAT-TAACATTGAGGTTTATAAGAGGT
1 AGGT-TCATATGAGGTGTAACAGTGAGGTTTATATGATG-TGTAACAGTGAGGTTAATATGAGGT
4515 GTAACATTGAGGTT
64 GTAACA-TGAGGTT
4529 CATATGAAGT
Statistics
Matches: 317, Mismatches: 41, Indels: 47
0.78 0.10 0.12
Matches are distributed among these distances:
143 1 0.00
144 109 0.34
145 5 0.02
146 5 0.02
147 1 0.00
150 2 0.01
152 1 0.00
153 7 0.02
154 5 0.02
155 172 0.54
156 1 0.00
157 7 0.02
158 1 0.00
ACGTcount: A:0.33, C:0.05, G:0.28, T:0.34
Consensus pattern (155 bp):
AGGTTCATATGAGGTGTAACAGTGAGGTTTATATGATGTGTAACAGTGAGGTTAATATGAGGTGT
AACATGAGGTTTAACATGAGGTGTACATAAAGTGTAACATTGAGGTCTATATAAAGTGTAACATT
AAGGATTATAAGAAGTGTAACATTA
Found at i:4383 original size:13 final size:12
Alignment explanation
Indices: 4365--4458 Score: 50
Period size: 13 Copynumber: 7.8 Consensus size: 12
4355 GAGGTTCATA
4365 TGAGGTGTAGCAG
1 TGAGGTGTA-CAG
*
4378 TGAGGTTTACA-
1 TGAGGTGTACAG
*
4389 TGATGTGTAACAG
1 TGAGGTGT-ACAG
* *
4402 TGAGGTTTATA-
1 TGAGGTGTACAG
*
4413 TGAGGTGTAACAT
1 TGAGGTGT-ACAG
* *
4426 TGAGGTTTATA-
1 TGAGGTGTACAG
* *
4437 TAAGGTGTAACAT
1 TGAGGTGT-ACAG
4450 TGAGGTGTA
1 TGAGGTGTA
4459 TAAGAGGTGT
Statistics
Matches: 61, Mismatches: 14, Indels: 13
0.69 0.16 0.15
Matches are distributed among these distances:
11 19 0.31
12 14 0.23
13 28 0.46
ACGTcount: A:0.29, C:0.05, G:0.32, T:0.34
Consensus pattern (12 bp):
TGAGGTGTACAG
Found at i:5770 original size:24 final size:24
Alignment explanation
Indices: 5732--6190 Score: 427
Period size: 24 Copynumber: 18.5 Consensus size: 24
5722 CAAAGCCAAT
* *
5732 GTTTACATGATGTGTAACAGTGAG
1 GTTTATATGAGGTGTAACAGTGAG
* * * *
5756 GTTCATATGAGGTGTTATA-TTAG
1 GTTTATATGAGGTGTAACAGTGAG
* **
5779 GTTCATATGATATGTAACAGTGAG
1 GTTTATATGAGGTGTAACAGTGAG
* **
5803 GTTTTTATGATATGTAACAGTGAG
1 GTTTATATGAGGTGTAACAGTGAG
* **
5827 GTTTTTATGATCTGTAACAGTGAG
1 GTTTATATGAGGTGTAACAGTGAG
* *
5851 GTTTATCTATGAGGTGTAACATTTAG
1 GTTTA--TATGAGGTGTAACAGTGAG
*
5877 GTTTATATGAGGAGTAACAGTGAG
1 GTTTATATGAGGTGTAACAGTGAG
* *
5901 GTTTATCTATGAGGTGTAACATTTAG
1 GTTTA--TATGAGGTGTAACAGTGAG
* * *
5927 GTTTATAAGAGGTGTGACAGTAAG
1 GTTTATATGAGGTGTAACAGTGAG
*
5951 GTTTATATGAGGAGTAACAGTGAG
1 GTTTATATGAGGTGTAACAGTGAG
5975 GTTTATCTATGAGGTGTAACAGTGAG
1 GTTTA--TATGAGGTGTAACAGTGAG
* *
6001 GTTTATCTATGAGGTGTAACATTTAG
1 GTTTA--TATGAGGTGTAACAGTGAG
* * * *
6027 GTCTATAAGAGGTGTGACAGTAAG
1 GTTTATATGAGGTGTAACAGTGAG
*
6051 GTTTATATGAGGAGTAACAGTGAG
1 GTTTATATGAGGTGTAACAGTGAG
6075 GTTTATCTATGAGGTGTAACAGTGAG
1 GTTTA--TATGAGGTGTAACAGTGAG
* *
6101 GTTTTATCTATGAGGTGTAACATTTAG
1 G-TTTA--TATGAGGTGTAACAGTGAG
* * *
6128 GTCTAT-TAGAGGTGTGACAGTAAG
1 GTTTATAT-GAGGTGTAACAGTGAG
*
6152 GTTTATATGAGGAGTAACAGTGAG
1 GTTTATATGAGGTGTAACAGTGAG
6176 GTTTATCTATGAGGT
1 GTTTA--TATGAGGT
6191 TTAAATAAGG
Statistics
Matches: 363, Mismatches: 58, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
23 19 0.05
24 203 0.56
25 1 0.00
26 116 0.32
27 24 0.07
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.36
Consensus pattern (24 bp):
GTTTATATGAGGTGTAACAGTGAG
Found at i:5886 original size:74 final size:76
Alignment explanation
Indices: 5791--6181 Score: 435
Period size: 74 Copynumber: 5.2 Consensus size: 76
5781 TCATATGATA
* * **
5791 TGTAACAGTGAGGTTTTTATGA-TATGTAACAGTGAGGTTT-T-TATGATCTGTAACAGTGAGGT
1 TGTAACAGTGAGGTTTATATGAGGA-GTAACAGTGAGGTTTATCTATGAGGTGTAACAGTGAGGT
5853 TTATCTATGAGG
65 TTATCTATGAGG
* * * *
5865 TGTAACATTTAGGTTTATATGAGGAGTAACAGTGAGGTTTATCTATGAGGTGTAACATTTAGGTT
1 TGTAACAGTGAGGTTTATATGAGGAGTAACAGTGAGGTTTATCTATGAGGTGTAACAGTGAGGTT
*
5930 TA--TAAGAGG
66 TATCTATGAGG
* *
5939 TGTGACAGTAAGGTTTATATGAGGAGTAACAGTGAGGTTTATCTATGAGGTGTAACAGTGAGGTT
1 TGTAACAGTGAGGTTTATATGAGGAGTAACAGTGAGGTTTATCTATGAGGTGTAACAGTGAGGTT
6004 TATCTATGAGG
66 TATCTATGAGG
* * * * * * * *
6015 TGTAACATTTAGGTCTATAAGAGGTGTGACAGTAAGGTTTA--TATGAGGAGTAACAGTGAGGTT
1 TGTAACAGTGAGGTTTATATGAGGAGTAACAGTGAGGTTTATCTATGAGGTGTAACAGTGAGGTT
6078 TATCTATGAGG
66 TATCTATGAGG
* * * * * *
6089 TGTAACAGTGAGGTTTTATCTATGAGGTGTAACATTTAGGTCTAT-TA-GAGGTGTGACAGTAAG
1 TGTAACAGTGAGG-TTTA--TATGAGGAGTAACAGTGAGGTTTATCTATGAGGTGTAACAGTGAG
6152 GTTTA--TATGAGG
63 GTTTATCTATGAGG
*
6164 AGTAACAGTGAGGTTTAT
1 TGTAACAGTGAGGTTTAT
6182 CTATGAGGTT
Statistics
Matches: 272, Mismatches: 36, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
72 1 0.00
74 149 0.55
75 24 0.09
76 59 0.22
77 37 0.14
78 2 0.01
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.35
Consensus pattern (76 bp):
TGTAACAGTGAGGTTTATATGAGGAGTAACAGTGAGGTTTATCTATGAGGTGTAACAGTGAGGTT
TATCTATGAGG
Found at i:5987 original size:13 final size:13
Alignment explanation
Indices: 5971--6015 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
5961 GGAGTAACAG
5971 TGAGGTTTATCTA
1 TGAGGTTTATCTA
* *
5984 TGAGGTGTAAC-A
1 TGAGGTTTATCTA
5996 GTGAGGTTTATCTA
1 -TGAGGTTTATCTA
6010 TGAGGT
1 TGAGGT
6016 GTAACATTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
12 1 0.04
13 24 0.92
14 1 0.04
ACGTcount: A:0.24, C:0.07, G:0.31, T:0.38
Consensus pattern (13 bp):
TGAGGTTTATCTA
Found at i:5994 original size:100 final size:100
Alignment explanation
Indices: 5843--6190 Score: 592
Period size: 100 Copynumber: 3.5 Consensus size: 100
5833 ATGATCTGTA
* * * * *
5843 ACAGTGAGGTTTATCTATGAGGTGTAACATTTAGGTTTA--TATGAGGAGTAACAGTGAGGTTTA
1 ACAGTAAGGTTTA--TATGAGGAGTAACAGTGAGGTTTATCTATGAGGTGTAACAGTGAGGTTTA
*
5906 TCTATGAGGTGTAACATTTAGGTTTATAAGAGGTGTG
64 TCTATGAGGTGTAACATTTAGGTCTATAAGAGGTGTG
5943 ACAGTAAGGTTTATATGAGGAGTAACAGTGAGGTTTATCTATGAGGTGTAACAGTGAGGTTTATC
1 ACAGTAAGGTTTATATGAGGAGTAACAGTGAGGTTTATCTATGAGGTGTAACAGTGAGGTTTATC
6008 TATGAGGTGTAACATTTAGGTCTATAAGAGGTGTG
66 TATGAGGTGTAACATTTAGGTCTATAAGAGGTGTG
6043 ACAGTAAGGTTTATATGAGGAGTAACAGTGAGGTTTATCTATGAGGTGTAACAGTGAGGTTTTAT
1 ACAGTAAGGTTTATATGAGGAGTAACAGTGAGGTTTATCTATGAGGTGTAACAGTGAGG-TTTAT
*
6108 CTATGAGGTGTAACATTTAGGTCTATTAGAGGTGTG
65 CTATGAGGTGTAACATTTAGGTCTATAAGAGGTGTG
6144 ACAGTAAGGTTTATATGAGGAGTAACAGTGAGGTTTATCTATGAGGT
1 ACAGTAAGGTTTATATGAGGAGTAACAGTGAGGTTTATCTATGAGGT
6191 TTAAATAAGG
Statistics
Matches: 238, Mismatches: 7, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
98 21 0.09
100 130 0.55
101 87 0.37
ACGTcount: A:0.30, C:0.07, G:0.30, T:0.34
Consensus pattern (100 bp):
ACAGTAAGGTTTATATGAGGAGTAACAGTGAGGTTTATCTATGAGGTGTAACAGTGAGGTTTATC
TATGAGGTGTAACATTTAGGTCTATAAGAGGTGTG
Found at i:6202 original size:24 final size:26
Alignment explanation
Indices: 5791--6190 Score: 431
Period size: 24 Copynumber: 16.0 Consensus size: 26
5781 TCATATGATA
**
5791 TGTAACAGTGAGGTTT-T-TATGATA
1 TGTAACAGTGAGGTTTATCTATGAGG
**
5815 TGTAACAGTGAGGTTT-T-TATGATC
1 TGTAACAGTGAGGTTTATCTATGAGG
5839 TGTAACAGTGAGGTTTATCTATGAGG
1 TGTAACAGTGAGGTTTATCTATGAGG
* *
5865 TGTAACATTTAGGTTTA--TATGAGG
1 TGTAACAGTGAGGTTTATCTATGAGG
*
5889 AGTAACAGTGAGGTTTATCTATGAGG
1 TGTAACAGTGAGGTTTATCTATGAGG
* * *
5915 TGTAACATTTAGGTTTA--TAAGAGG
1 TGTAACAGTGAGGTTTATCTATGAGG
* *
5939 TGTGACAGTAAGGTTTA--TATGAGG
1 TGTAACAGTGAGGTTTATCTATGAGG
*
5963 AGTAACAGTGAGGTTTATCTATGAGG
1 TGTAACAGTGAGGTTTATCTATGAGG
5989 TGTAACAGTGAGGTTTATCTATGAGG
1 TGTAACAGTGAGGTTTATCTATGAGG
* * * *
6015 TGTAACATTTAGGTCTA--TAAGAGG
1 TGTAACAGTGAGGTTTATCTATGAGG
* *
6039 TGTGACAGTAAGGTTTA--TATGAGG
1 TGTAACAGTGAGGTTTATCTATGAGG
*
6063 AGTAACAGTGAGGTTTATCTATGAGG
1 TGTAACAGTGAGGTTTATCTATGAGG
6089 TGTAACAGTGAGGTTTTATCTATGAGG
1 TGTAACAGTGAGG-TTTATCTATGAGG
* * *
6116 TGTAACATTTAGGTCTAT-TA-GAGG
1 TGTAACAGTGAGGTTTATCTATGAGG
* *
6140 TGTGACAGTAAGGTTTA--TATGAGG
1 TGTAACAGTGAGGTTTATCTATGAGG
*
6164 AGTAACAGTGAGGTTTATCTATGAGG
1 TGTAACAGTGAGGTTTATCTATGAGG
6190 T
1 T
6191 TTAAATAAGG
Statistics
Matches: 320, Mismatches: 44, Indels: 22
0.83 0.11 0.06
Matches are distributed among these distances:
23 2 0.01
24 174 0.54
25 3 0.01
26 117 0.37
27 24 0.08
ACGTcount: A:0.29, C:0.07, G:0.29, T:0.35
Consensus pattern (26 bp):
TGTAACAGTGAGGTTTATCTATGAGG
Found at i:7543 original size:35 final size:35
Alignment explanation
Indices: 7497--7652 Score: 163
Period size: 35 Copynumber: 4.5 Consensus size: 35
7487 CAAGCCTGAT
* *
7497 TGTAAGTCTGTTACGTATTGTTATTACATCTTGAG
1 TGTAAGTCTGTTACATATTGTTATTACATCATGAG
* * * *
7532 TGTAAGTCTGTTCCATCTTGTGATTACATCATGAA
1 TGTAAGTCTGTTACATATTGTTATTACATCATGAG
* * * *
7567 TCTAAATTTGTTACATATTGTTATTACATAATGAG
1 TGTAAGTCTGTTACATATTGTTATTACATCATGAG
* *
7602 TGTAAGTCTGTTGCATCA-TGTGATTACATCAT-AG
1 TGTAAGTCTGTTACAT-ATTGTTATTACATCATGAG
* *
7636 TATAAGTTTGTTACATA
1 TGTAAGTCTGTTACATA
7653 CATTATGAAT
Statistics
Matches: 97, Mismatches: 23, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
33 1 0.01
34 15 0.15
35 80 0.82
36 1 0.01
ACGTcount: A:0.28, C:0.12, G:0.17, T:0.43
Consensus pattern (35 bp):
TGTAAGTCTGTTACATATTGTTATTACATCATGAG
Found at i:7624 original size:70 final size:69
Alignment explanation
Indices: 7505--7652 Score: 215
Period size: 70 Copynumber: 2.1 Consensus size: 69
7495 ATTGTAAGTC
* ** * *
7505 TGTTACGTATTGTTATTACATCTTGAGTGTAAGTCTGTTCCATCTTGTGATTACATCATGAATCT
1 TGTTACATATTGTTATTACATAATGAGTGTAAGTCTGTTCCATCATGTGATTACATCAT-AATAT
7570 AAATT
65 AAATT
* *
7575 TGTTACATATTGTTATTACATAATGAGTGTAAGTCTGTTGCATCATGTGATTACATCATAGTATA
1 TGTTACATATTGTTATTACATAATGAGTGTAAGTCTGTTCCATCATGTGATTACATCATAATATA
*
7640 AGTT
66 AATT
7644 TGTTACATA
1 TGTTACATA
7653 CATTATGAAT
Statistics
Matches: 70, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
69 16 0.23
70 54 0.77
ACGTcount: A:0.28, C:0.12, G:0.16, T:0.43
Consensus pattern (69 bp):
TGTTACATATTGTTATTACATAATGAGTGTAAGTCTGTTCCATCATGTGATTACATCATAATATA
AATT
Found at i:9552 original size:92 final size:92
Alignment explanation
Indices: 9365--9632 Score: 445
Period size: 92 Copynumber: 3.0 Consensus size: 92
9355 TTTTCTCCAG
* * * *
9365 TTAGCAGAGAAACTCTATGATTCTACAAGAACGATCATTTATTAGATTACT--A-G-ATGTATCT
1 TTAGCAGAGAAATTGTATGATTCTACAAGAACGGTCATTTATTAGATTACTAGACGTATGTATTT
9426 CACATACTGTTTGCTGGTATCCATTGC
66 CACATACTGTTTGCTGGTATCCATTGC
9453 TTAGCAGAGAAATTGTATGATTCTACAAGAACGGTCATTTATTAGATTACTAGACGTATGTATTT
1 TTAGCAGAGAAATTGTATGATTCTACAAGAACGGTCATTTATTAGATTACTAGACGTATGTATTT
9518 CACATACTGTTTGCTGGTATCCATTGC
66 CACATACTGTTTGCTGGTATCCATTGC
* *
9545 TTAGCAGAGAAATTGTATGATTCTACAAGAACAGTCATTTATTAGATTACTAGACTTATGTATTT
1 TTAGCAGAGAAATTGTATGATTCTACAAGAACGGTCATTTATTAGATTACTAGACGTATGTATTT
*
9610 CACGTACTGTTTGCTGGTATCCA
66 CACATACTGTTTGCTGGTATCCA
9633 CTGCCATTGT
Statistics
Matches: 169, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
88 48 0.28
90 1 0.01
91 1 0.01
92 119 0.70
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.37
Consensus pattern (92 bp):
TTAGCAGAGAAATTGTATGATTCTACAAGAACGGTCATTTATTAGATTACTAGACGTATGTATTT
CACATACTGTTTGCTGGTATCCATTGC
Found at i:11152 original size:37 final size:37
Alignment explanation
Indices: 11101--11527 Score: 755
Period size: 37 Copynumber: 11.5 Consensus size: 37
11091 ACTTAAGAGT
11101 CGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCA
1 CGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCA
* *
11138 TGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCT
1 CGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCA
* *
11175 TGGTGGACTAATTGAAAATGACTAATAGTTAGGTCCA
1 CGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCA
*
11212 CGGTGGACTAATTGAAAATGACTTATAGTTGGGTCCA
1 CGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCA
*
11249 CGGTGGACTAATTGAAAATGACTTATAGTTGGGTCCA
1 CGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCA
11286 CGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCA
1 CGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCA
* *
11323 CGGTGGACTAATTAAAAATGACTTATAGTTGGGTCCA
1 CGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCA
11360 CGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCA
1 CGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCA
*
11397 CGGTGGACTAATTGAAAATGACTTATAGTTGGGTCCA
1 CGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCA
11434 CGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCA
1 CGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCA
* *
11471 CGGTGGACTAATTAAAAATGACTTATAGTTGGGTCCA
1 CGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCA
11508 CGGTGGACTAATTGAAAATG
1 CGGTGGACTAATTGAAAATG
11528 TCCACGGTCA
Statistics
Matches: 373, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 373 1.00
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (37 bp):
CGGTGGACTAATTGAAAATGACTTATAGTTAGGTCCA
Found at i:16366 original size:2 final size:2
Alignment explanation
Indices: 16359--16387 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
16349 NNNNNNNNNN
16359 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
16388 TACATAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20582 original size:34 final size:34
Alignment explanation
Indices: 20539--20668 Score: 199
Period size: 34 Copynumber: 3.8 Consensus size: 34
20529 TAAAGAAATA
* *
20539 TATCTTTCAGTTATATTAAACTGTTAATGAATTT
1 TATCTTTCAGTGATATTAAAATGTTAATGAATTT
* *
20573 TATCTTTCAGTTATATTAAACTGTTAATGAATTT
1 TATCTTTCAGTGATATTAAAATGTTAATGAATTT
*
20607 TATCTTCCAGTGATATTAAAATGTTAATGAATTT
1 TATCTTTCAGTGATATTAAAATGTTAATGAATTT
20641 TAT-TTTCCAGTGATATTAAAATGTTAAT
1 TATCTTT-CAGTGATATTAAAATGTTAAT
20669 TTCTTTCAGT
Statistics
Matches: 91, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
33 2 0.02
34 89 0.98
ACGTcount: A:0.34, C:0.08, G:0.10, T:0.48
Consensus pattern (34 bp):
TATCTTTCAGTGATATTAAAATGTTAATGAATTT
Found at i:21744 original size:2 final size:2
Alignment explanation
Indices: 21737--21781 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
21727 TTTATTTTAC
* *
21737 AG AG AG AG AG AA AG AG AG AG AG AG AG AG AA AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21779 AG A
1 AG A
21782 TGTATTAGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21760 original size:18 final size:18
Alignment explanation
Indices: 21737--21781 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
21727 TTTATTTTAC
21737 AGAGAGAGAGAAAGAGAG
1 AGAGAGAGAGAAAGAGAG
21755 AGAGAGAGAGAAAGAGAG
1 AGAGAGAGAGAAAGAGAG
21773 AGAGAGAGA
1 AGAGAGAGA
21782 TGTATTAGAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (18 bp):
AGAGAGAGAGAAAGAGAG
Found at i:27589 original size:22 final size:22
Alignment explanation
Indices: 27561--27604 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
27551 GCGCCGCAAT
27561 GCAGGGAAGAAAGTGGAGTCTA
1 GCAGGGAAGAAAGTGGAGTCTA
27583 GCAGGGAAGAAAGTGGAGTCTA
1 GCAGGGAAGAAAGTGGAGTCTA
27605 TCTGGAAGGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.41, T:0.14
Consensus pattern (22 bp):
GCAGGGAAGAAAGTGGAGTCTA
Found at i:28548 original size:19 final size:19
Alignment explanation
Indices: 28521--28560 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
28511 TGGTGTCTAG
* *
28521 ATACGGAGTGATGTATGTC
1 ATACAGAGTGATGGATGTC
*
28540 ATACAGAGTGGTGGATGTC
1 ATACAGAGTGATGGATGTC
28559 AT
1 AT
28561 CATTAAAAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.33, T:0.30
Consensus pattern (19 bp):
ATACAGAGTGATGGATGTC
Found at i:30638 original size:17 final size:17
Alignment explanation
Indices: 30616--30648 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30606 ATGATCTATT
*
30616 TTTGATGATTTTAAATC
1 TTTGATGATTCTAAATC
30633 TTTGATGATTCTAAAT
1 TTTGATGATTCTAAAT
30649 GATCTCCCCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.30, C:0.06, G:0.12, T:0.52
Consensus pattern (17 bp):
TTTGATGATTCTAAATC
Found at i:32859 original size:2 final size:2
Alignment explanation
Indices: 32852--32883 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
32842 GTTTCCGACG
32852 CT CT CT CT CT CT CT CT CT C- CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
32884 ATTGCAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.00, C:0.53, G:0.00, T:0.47
Consensus pattern (2 bp):
CT
Found at i:35563 original size:17 final size:17
Alignment explanation
Indices: 35541--35573 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
35531 AAGTCAATAC
35541 AACAATACAAAGAAGAA
1 AACAATACAAAGAAGAA
35558 AACAATACAAAGAAGA
1 AACAATACAAAGAAGA
35574 CATCATACGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.70, C:0.12, G:0.12, T:0.06
Consensus pattern (17 bp):
AACAATACAAAGAAGAA
Found at i:42237 original size:16 final size:16
Alignment explanation
Indices: 42216--42248 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
42206 AGAAAAAAAT
42216 TCTAATGATGTTCTAA
1 TCTAATGATGTTCTAA
*
42232 TCTAATGCTGTTCTAA
1 TCTAATGATGTTCTAA
42248 T
1 T
42249 GATTGAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.45
Consensus pattern (16 bp):
TCTAATGATGTTCTAA
Found at i:45636 original size:15 final size:16
Alignment explanation
Indices: 45616--45664 Score: 64
Period size: 15 Copynumber: 3.0 Consensus size: 16
45606 CCCCCCCCCC
45616 AAAAAAAAAAAACAA-
1 AAAAAAAAAAAACAAT
*
45631 AAAAAAAAAAAAAAAT
1 AAAAAAAAAAAACAAT
45647 AAATAAATAAAAAACAAT
1 AAA-AAA-AAAAAACAAT
45665 TCAGCTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 14 0.48
16 3 0.10
17 3 0.10
18 9 0.31
ACGTcount: A:0.88, C:0.04, G:0.00, T:0.08
Consensus pattern (16 bp):
AAAAAAAAAAAACAAT
Found at i:45639 original size:18 final size:19
Alignment explanation
Indices: 45616--45660 Score: 65
Period size: 18 Copynumber: 2.4 Consensus size: 19
45606 CCCCCCCCCC
45616 AAAAAAAAAAAACAAA-AA
1 AAAAAAAAAAAACAAATAA
*
45634 AAAAAAAAAAAATAAATAA
1 AAAAAAAAAAAACAAATAA
45653 ATAAAAAA
1 A-AAAAAA
45661 CAATTCAGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 15 0.62
19 3 0.12
20 6 0.25
ACGTcount: A:0.91, C:0.02, G:0.00, T:0.07
Consensus pattern (19 bp):
AAAAAAAAAAAACAAATAA
Found at i:45678 original size:1 final size:1
Alignment explanation
Indices: 45616--45660 Score: 54
Period size: 1 Copynumber: 45.0 Consensus size: 1
45606 CCCCCCCCCC
* * * *
45616 AAAAAAAAAAAACAAAAAAAAAAAAAAAAATAAATAAATAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
45661 CAATTCAGCT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:0.91, C:0.02, G:0.00, T:0.07
Consensus pattern (1 bp):
A
Found at i:53049 original size:166 final size:166
Alignment explanation
Indices: 52775--53590 Score: 1310
Period size: 166 Copynumber: 4.9 Consensus size: 166
52765 AAGTACTAAG
* *
52775 TATATTCCTATGTAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCTGGGGACCATGATTT
1 TATATTCCTATGTAAAACTTGATCCCCAAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTT
* * **
52840 GAACAAACTTGAATCTACACCTCCTGAGGATGCTTCCACTCAAATATGAGCTTTTCTGGTTTAAT
66 GAACAAACTTGAATCTACACTTCCTGAGGATGCTTCCACTCAAATTTGAGCTTTTCTGGCCTAAT
*
52905 AGTTTTTGAGAAGAA-ATTTTTTAAAGATGGTCTCTA
131 AGTTTTTGAGAAGAAGA-TTTTTAAAGATTGTCTCTA
*
52941 TATATTCCTATGTAAAACTTGATCCCCAAATTGTGGCCCCACCCTACCCCCAGGGACCATGATTT
1 TATATTCCTATGTAAAACTTGATCCCCAAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTT
* * * *
53006 GAACAAACTTGAATCTACACTGCATGAGGATGCTTCCACTCAAATTTGAGCTTTTCTTGCCTGAT
66 GAACAAACTTGAATCTACACTTCCTGAGGATGCTTCCACTCAAATTTGAGCTTTTCTGGCCTAAT
*
53071 AGTTTTTGAGAAGAAGATTTTTGAAGATTGTCTCTA
131 AGTTTTTGAGAAGAAGATTTTTAAAGATTGTCTCTA
*
53107 TATATTCCTATGTAAAACTTGATCCCCAAATTGTGGCCCCACCCTACCCCCAGGGACCATGATTT
1 TATATTCCTATGTAAAACTTGATCCCCAAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTT
* *
53172 GAACAAACTTGAATCGACACTTCCTGAGGATGCTTCCACTCAAATTTGAGCTTTTCTGGCCTGAT
66 GAACAAACTTGAATCTACACTTCCTGAGGATGCTTCCACTCAAATTTGAGCTTTTCTGGCCTAAT
*
53237 AGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTA
131 AGTTTTTGAGAAGAAGATTTTTAAAGATTGTCTCTA
53273 TATATTCCTATGTAAAACTTGATCCCCAAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTT
1 TATATTCCTATGTAAAACTTGATCCCCAAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTT
* ** * *
53338 GAACAAACTTGAATCTACACTTCCTGAGGATGCTTCCATTTTAATTTGAGCTTTTCTGGTCAAAT
66 GAACAAACTTGAATCTACACTTCCTGAGGATGCTTCCACTCAAATTTGAGCTTTTCTGGCCTAAT
*
53403 GGTTTTTGAGAAGAAGATTTTTAAAGATTGTCTCTA
131 AGTTTTTGAGAAGAAGATTTTTAAAGATTGTCTCTA
* *
53439 TATATTCCTATGTAAAACTTGATCCCCCAATTGTGGCCCCACCCTACCCCTGGGGACCATGATTT
1 TATATTCCTATGTAAAACTTGATCCCCAAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTT
* * * * * * * * *
53504 GAACAAACTTAAATCTATACTACCTGAGGATGCCTCCACACAAGTTTAAGCTTTACCGGCCTAAT
66 GAACAAACTTGAATCTACACTTCCTGAGGATGCTTCCACTCAAATTTGAGCTTTTCTGGCCTAAT
53569 AGTTTTTGAGAAGAAGATTTTT
131 AGTTTTTGAGAAGAAGATTTTT
53591 GAAAAATAAC
Statistics
Matches: 603, Mismatches: 46, Indels: 2
0.93 0.07 0.00
Matches are distributed among these distances:
166 602 1.00
167 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.16, T:0.33
Consensus pattern (166 bp):
TATATTCCTATGTAAAACTTGATCCCCAAATTGTGGCCCCACCCTACCCCCGGGGACCATGATTT
GAACAAACTTGAATCTACACTTCCTGAGGATGCTTCCACTCAAATTTGAGCTTTTCTGGCCTAAT
AGTTTTTGAGAAGAAGATTTTTAAAGATTGTCTCTA
Found at i:54867 original size:21 final size:20
Alignment explanation
Indices: 54823--54867 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
54813 CAAATCAAAC
*
54823 ACATAAAGTAAAACCACCAG
1 ACATAAAGTAAAACCAACAG
* *
54843 ACATAAATGTAAAACGAACAT
1 ACATAAA-GTAAAACCAACAG
54864 ACAT
1 ACAT
54868 CAACATGAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.56, C:0.20, G:0.09, T:0.16
Consensus pattern (20 bp):
ACATAAAGTAAAACCAACAG
Found at i:55088 original size:22 final size:22
Alignment explanation
Indices: 55055--55120 Score: 105
Period size: 22 Copynumber: 3.0 Consensus size: 22
55045 ATGGACAACA
* *
55055 TAGGACTACTCGTATACACTCC
1 TAGGTCTACTCGTATATACTCC
*
55077 TTGGTCTACTCGTATATACTCC
1 TAGGTCTACTCGTATATACTCC
55099 TAGGTCTACTCGTATATACTCC
1 TAGGTCTACTCGTATATACTCC
55121 GGACTGACTG
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.35
Consensus pattern (22 bp):
TAGGTCTACTCGTATATACTCC
Found at i:58684 original size:45 final size:44
Alignment explanation
Indices: 58597--58854 Score: 358
Period size: 45 Copynumber: 5.8 Consensus size: 44
58587 AGGCAAATTT
*
58597 GTTGTCTTGACTAGTGGTCGAG-T-TGTTGTTATGGCCCCGAGA
1 GTTGTCTTGACTGGTGGTCGAGTTGTGTTGTTATGGCCCCGAGA
*
58639 GTTGTCTTAACTGGTGGTCGAGTTGATGTTGTTATGGCCCCGAGA
1 GTTGTCTTGACTGGTGGTCGAGTTG-TGTTGTTATGGCCCCGAGA
*
58684 GTTGTCTTGACTGGTGGTCGAGTTGTTGTTGTTATGGCCCCAAGA
1 GTTGTCTTGACTGGTGGTCGAGTTG-TGTTGTTATGGCCCCGAGA
* * *
58729 GTTGTCTTGACTGGTGGTCGAGTTGTGGTTGTTTTAGCCCCGATA
1 GTTGTCTTGACTGGTGGTCGAGTTGT-GTTGTTATGGCCCCGAGA
* *
58774 TTTGTCTTGACTGGTGGTCGAGTTGTGGTTGTTTTGGCCCCGAGA
1 GTTGTCTTGACTGGTGGTCGAGTTGT-GTTGTTATGGCCCCGAGA
* * *
58819 ATTGTCTTGACTTGTAGTCGAGTTGTTGTTGTTATG
1 GTTGTCTTGACTGGTGGTCGAGTTG-TGTTGTTATG
58855 NGACTGAAAT
Statistics
Matches: 195, Mismatches: 16, Indels: 7
0.89 0.07 0.03
Matches are distributed among these distances:
42 20 0.10
43 1 0.01
44 1 0.01
45 172 0.88
46 1 0.01
ACGTcount: A:0.13, C:0.15, G:0.33, T:0.40
Consensus pattern (44 bp):
GTTGTCTTGACTGGTGGTCGAGTTGTGTTGTTATGGCCCCGAGA
Found at i:61778 original size:2 final size:2
Alignment explanation
Indices: 61771--61808 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
61761 TTAAAAGCAT
**
61771 GA GA GA GA GA GA GA GA GA GA GA GA GA TT GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
61809 TTTAGTCTTT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.47, T:0.05
Consensus pattern (2 bp):
GA
Found at i:84868 original size:105 final size:105
Alignment explanation
Indices: 84686--84897 Score: 415
Period size: 105 Copynumber: 2.0 Consensus size: 105
84676 ACGTTACACC
84686 GGCTATATAGTAGAGTTTCACACTTTCTTTCATTCCATTTATGTTAATGGCAGACCATCAATGGC
1 GGCTATATAGTAGAGTTTCACACTTTCTTTCATTCCATTTATGTTAATGGCAGACCATCAATGGC
*
84751 AATATTTTACAATATCCGAGAAGACAATGATTATTATTAT
66 AATATTTTACAATATCAGAGAAGACAATGATTATTATTAT
84791 GGCTATATAGTAGAGTTTCACACTTTCTTTCATTCCATTTATGTTAATGGCAGACCATCAATGGC
1 GGCTATATAGTAGAGTTTCACACTTTCTTTCATTCCATTTATGTTAATGGCAGACCATCAATGGC
84856 AATATTTTACAATATCAGAGAAGACAATGATTATTATTAT
66 AATATTTTACAATATCAGAGAAGACAATGATTATTATTAT
84896 GG
1 GG
84898 AAGGTAGTAA
Statistics
Matches: 106, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
105 106 1.00
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (105 bp):
GGCTATATAGTAGAGTTTCACACTTTCTTTCATTCCATTTATGTTAATGGCAGACCATCAATGGC
AATATTTTACAATATCAGAGAAGACAATGATTATTATTAT
Found at i:99376 original size:19 final size:20
Alignment explanation
Indices: 99337--99374 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
99327 TTTTTGCGTG
99337 TCTTATTTTACAAGAAAAAT
1 TCTTATTTTACAAGAAAAAT
*
99357 TCTTATTTTACAATAAAA
1 TCTTATTTTACAAGAAAA
99375 TTGTTGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.11, G:0.03, T:0.42
Consensus pattern (20 bp):
TCTTATTTTACAAGAAAAAT
Found at i:100399 original size:17 final size:18
Alignment explanation
Indices: 100368--100401 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
100358 CTAAAAAAAG
*
100368 TTTTACTTAGTAATCATT
1 TTTTACTTAGAAATCATT
100386 TTTTACTTA-AAATCAT
1 TTTTACTTAGAAATCAT
100402 ATTAATAAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.32, C:0.12, G:0.03, T:0.53
Consensus pattern (18 bp):
TTTTACTTAGAAATCATT
Found at i:100689 original size:63 final size:63
Alignment explanation
Indices: 100588--100715 Score: 229
Period size: 63 Copynumber: 2.0 Consensus size: 63
100578 CTAAAAACAA
*
100588 AACATGATTTACTAAGTAATTCCTTTACTGATACTTGTTATGATAAGGAACTATCATATACTT
1 AACATGATTTACTAAGTAATTCCTTTACTGATACTTGTTATGATAAAGAACTATCATATACTT
* *
100651 AACATGATTTACTTAGTAATTCCTTTACTGATATTTGTTATGATAAAGAACTATCATATACTT
1 AACATGATTTACTAAGTAATTCCTTTACTGATACTTGTTATGATAAAGAACTATCATATACTT
100714 AA
1 AA
100716 AGCAAAAAAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
63 62 1.00
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (63 bp):
AACATGATTTACTAAGTAATTCCTTTACTGATACTTGTTATGATAAAGAACTATCATATACTT
Found at i:100756 original size:2 final size:2
Alignment explanation
Indices: 100749--100811 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
100739 AGTATATTAT
100749 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
100791 GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA G
100812 TTTGCACACA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:113233 original size:54 final size:54
Alignment explanation
Indices: 113170--113315 Score: 184
Period size: 54 Copynumber: 2.7 Consensus size: 54
113160 GGGTCATCAT
** * *
113170 TTGTTTTACTGTTTTTCACGAGGCCAGTCTCCTCAGTCATTTTAATGTCAGAAA
1 TTGTTTTACTGTTTTTCACGAGGCCAGTCTCCTCAGTCAAGTCAAGGTCAGAAA
** * * * * *
113224 TTGTTTTACTGTTTTTTGCGATGCCAGTCTCCTCATTAAAGTCCAGGTCAGAAT
1 TTGTTTTACTGTTTTTCACGAGGCCAGTCTCCTCAGTCAAGTCAAGGTCAGAAA
*
113278 TTGTTTTACTGTTTTTCATGAGGCCAGTCTCCTCAGTC
1 TTGTTTTACTGTTTTTCACGAGGCCAGTCTCCTCAGTC
113316 TTGTCAGTCT
Statistics
Matches: 75, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 75 1.00
ACGTcount: A:0.19, C:0.21, G:0.18, T:0.42
Consensus pattern (54 bp):
TTGTTTTACTGTTTTTCACGAGGCCAGTCTCCTCAGTCAAGTCAAGGTCAGAAA
Found at i:115742 original size:166 final size:166
Alignment explanation
Indices: 115307--116600 Score: 1903
Period size: 166 Copynumber: 7.8 Consensus size: 166
115297 GTGAATATGC
* * * * * * * * *
115307 AAAATAAGCAAAGTCGACATTTAACAGAAAGCTGGCATCCGATTGGTACAGAAATATATCCAACA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
*
115372 ATATGGCATGCCTAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
66 ATATGGCATGCCTAAACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
115437 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCT-
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
*
115472 AAAATAAACAAAGTAC-TCATTTAACAGGAAGATGACGTCCGATTGGTACAAAAATATATCCCAC
1 AAAATAAACAAAGT-CGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCAC
* * * * * *
115536 AATATGGCATGCCTTAACAAACACTGTGTAAAAATTTCAAGCATCTCCGATAAATAGCTGCTGAG
65 GATATGGCATGCCTAAACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAG
115601 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* * * * * *
115638 AAAATAAACAAAGTCATTATTTAACAGGATGTTGACGTCTGATAGATACAAAAATATATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* *
115703 ATATGGCATGCCAAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGA-AAACTAGCTGCTGAG
66 ATATGGCATGCCTAAACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAAC-AGCTGCTGAG
115767 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* ** *
115804 AAAATAAACGAAGTCGTCATTTAACAGGAAAG-TGACGTTTGATTGGTACAAAAATACATCCCAC
1 AAAATAAACAAAGTCGTCATTTAACAGG-AAGTTGACGTCCGATTGGTACAAAAATATATCCCAC
* * *
115868 GATATAGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAG
65 GATATGGCATGCCTAAACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAG
*
115933 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAA
130 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCT-A
*
115971 AAAATAAGCAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* * * * * *
116036 ATATGGCATGTCTTAACAAACACTCTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGA
66 ATATGGCATGCCTAAACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
* *
116101 AATCTTTGATGAAAATTTGTTTGAAAATTTTGGTTAA
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCT-A
* * *
116138 AAAATAAGCAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGATACAAAAATATATCCCACA
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* * *
116203 ATATGGCATGCCTAAACAAATAGTGTATTAAAATTTCAAGCATCTGCGATAAATAGCTGCTGAGA
66 ATATGGCATGCCTAAACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
* * *
116268 AATCTTTGACGGAAATCTGTTTGAAAATTTTGGCAA
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
* ** *
116304 AAAATAAACGAAGTCGTCATTTAACAGGAAGTTGACGTTTGATTGGTACAAAAATACATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* * *
116369 ATATAGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGA
66 ATATGGCATGCCTAAACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
*
116434 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAA
131 AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCT-A
* *
116471 AAAATAAGCAAAGTCGTCATTTTACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
1 AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
* * * * * *
116536 ATATGGCATGCCTTAACAAACACTGTGTTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
66 ATATGGCATGCCTAAACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
116601 TAAATGCGAC
Statistics
Matches: 1019, Mismatches: 101, Indels: 16
0.90 0.09 0.01
Matches are distributed among these distances:
165 153 0.15
166 442 0.43
167 424 0.42
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (166 bp):
AAAATAAACAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACG
ATATGGCATGCCTAAACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAGA
AATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
Found at i:116309 original size:500 final size:500
Alignment explanation
Indices: 115307--116600 Score: 2143
Period size: 500 Copynumber: 2.6 Consensus size: 500
115297 GTGAATATGC
* * * * * ** * * *
115307 AAAATAAGCAAAGTCGACATTTAACA-GAAAGCTGGCATCCGATTGGTACAGAAATATATCCAAC
1 AAAATAAACGAAGTCGTCATTTAACAGGAAAGCTGACGTTTGATTGGTACAAAAATACATCCCAC
* * * * *
115371 AATATGGCATGCCTAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGATAAACAGCTGCTGAG
66 GATATAGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAG
* *
115436 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCT--AAAATAAACAAAGTAC-TCATTTAACA
131 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAAAAAATAAGCAAAGT-CGTCATTTAACA
* *
115498 GGAAGATGACGTCCGATTGGTACAAAAATATATCCCACAATATGGCATGCCTTAACAAACACTGT
195 GGAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTTAACAAACACTGT
* *
115563 GTAAAAATTTCAAGCATCTCCGATAAATAGCTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAA
260 GTAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAA
* * *
115628 ATTTTGGCTAAAAATAAACAAAGTCATTATTTAACAGGATGTTGACGTCTGATAGATACAAAAAT
325 ATTTTGGCTAAAAATAAACAAAGTCATCATTTAACAGGAAGTTGACGTCCGATAGATACAAAAAT
* *
115693 ATATCCCACGATATGGCATGCCAAAACAAATAGTGTGTTAAAATTTCAAGCATCTGCGAAAACTA
390 ATATCCCACAATATGGCATGCCAAAACAAATAGTGTATTAAAATTTCAAGCATCTGCGAAAACTA
* *
115758 GCTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAAATTTTGGCTA
455 GCTGCTGAGAAATCTTTGACGAAAATCTGTTTGAAAATTTTGGCAA
115804 AAAATAAACGAAGTCGTCATTTAACAGGAAAG-TGACGTTTGATTGGTACAAAAATACATCCCAC
1 AAAATAAACGAAGTCGTCATTTAACAGGAAAGCTGACGTTTGATTGGTACAAAAATACATCCCAC
115868 GATATAGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAG
66 GATATAGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAG
115933 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAAAAAATAAGCAAAGTCGTCATTTAACAG
131 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAAAAAATAAGCAAAGTCGTCATTTAACAG
* *
115998 GAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGTCTTAACAAACACTCTG
196 GAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTTAACAAACACTGTG
* *
116063 TAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAGAAATCTTTGATGAAAATTTGTTTGAAAA
261 TAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAAA
* * * *
116128 TTTTGGTTAAAAAATAAGCAAAGTCGTCATTTAACAGGAAGTTGACGTCCGATTGATACAAAAAT
326 TTTTGGCT-AAAAATAAACAAAGTCATCATTTAACAGGAAGTTGACGTCCGATAGATACAAAAAT
*
116193 ATATCCCACAATATGGCATGCCTAAACAAATAGTGTATTAAAATTTCAAGCATCTGCGATAAA-T
390 ATATCCCACAATATGGCATGCCAAAACAAATAGTGTATTAAAATTTCAAGCATCTGCGA-AAACT
*
116257 AGCTGCTGAGAAATCTTTGACGGAAATCTGTTTGAAAATTTTGGCAA
454 AGCTGCTGAGAAATCTTTGACGAAAATCTGTTTGAAAATTTTGGCAA
*
116304 AAAATAAACGAAGTCGTCATTTAACAGG-AAGTTGACGTTTGATTGGTACAAAAATACATCCCAC
1 AAAATAAACGAAGTCGTCATTTAACAGGAAAGCTGACGTTTGATTGGTACAAAAATACATCCCAC
116368 GATATAGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAG
66 GATATAGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAG
*
116433 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAAAAAATAAGCAAAGTCGTCATTTTACAG
131 AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAAAAAATAAGCAAAGTCGTCATTTAACAG
116498 GAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTTAACAAACACTGTG
196 GAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTTAACAAACACTGTG
*
116563 TTAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
261 TAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGA
116601 TAAATGCGAC
Statistics
Matches: 747, Mismatches: 43, Indels: 11
0.93 0.05 0.01
Matches are distributed among these distances:
497 143 0.19
498 6 0.01
499 156 0.21
500 439 0.59
501 3 0.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (500 bp):
AAAATAAACGAAGTCGTCATTTAACAGGAAAGCTGACGTTTGATTGGTACAAAAATACATCCCAC
GATATAGCATGCCTATACAAATAGTGTGTAAAAATTTCAAGCATCTGCGATAAACAGTTGCTGAG
AAATCTTTGACGAAAATTTGTTTGAAAATTTTGGTTAAAAAATAAGCAAAGTCGTCATTTAACAG
GAAGTTGACGTCCGATTGGTACAAAAATATATCCCACGATATGGCATGCCTTAACAAACACTGTG
TAAAAATTTCAAGCATCTGCGATAAATAGTTGCTGAGAAATCTTTGACGAAAATTTGTTTGAAAA
TTTTGGCTAAAAATAAACAAAGTCATCATTTAACAGGAAGTTGACGTCCGATAGATACAAAAATA
TATCCCACAATATGGCATGCCAAAACAAATAGTGTATTAAAATTTCAAGCATCTGCGAAAACTAG
CTGCTGAGAAATCTTTGACGAAAATCTGTTTGAAAATTTTGGCAA
Found at i:116633 original size:4 final size:4
Alignment explanation
Indices: 116624--116677 Score: 54
Period size: 4 Copynumber: 13.5 Consensus size: 4
116614 AATTTTTGTT
* * * * * *
116624 ACGG ACGG ACAG ACAG ACGG ACAG ACAG ACAG ACGG ACGG ACAG ACGG
1 ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG ACGG
116672 ACGG AC
1 ACGG AC
116678 AAACAGACAC
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.37, C:0.26, G:0.37, T:0.00
Consensus pattern (4 bp):
ACGG
Found at i:116644 original size:12 final size:12
Alignment explanation
Indices: 116627--116685 Score: 63
Period size: 12 Copynumber: 5.2 Consensus size: 12
116617 TTTTGTTACG
116627 GACGGACAGACA
1 GACGGACAGACA
116639 GACGGACAGAC-
1 GACGGACAGACA
*
116650 -A--GACAGACG
1 GACGGACAGACA
*
116659 GACGGACAGACG
1 GACGGACAGACA
*
116671 GACGGACAAACA
1 GACGGACAGACA
116683 GAC
1 GAC
116686 ACACAAGGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
8 7 0.17
10 2 0.05
12 32 0.78
ACGTcount: A:0.41, C:0.25, G:0.34, T:0.00
Consensus pattern (12 bp):
GACGGACAGACA
Found at i:116685 original size:16 final size:16
Alignment explanation
Indices: 116624--116677 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
116614 AATTTTTGTT
116624 ACGGACGGACAGACAG
1 ACGGACGGACAGACAG
*
116640 ACGGACAGACAGACAG
1 ACGGACGGACAGACAG
*
116656 ACGGACGGACAGACGG
1 ACGGACGGACAGACAG
116672 ACGGAC
1 ACGGAC
116678 AAACAGACAC
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.37, C:0.26, G:0.37, T:0.00
Consensus pattern (16 bp):
ACGGACGGACAGACAG
Found at i:116952 original size:21 final size:20
Alignment explanation
Indices: 116906--116952 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 20
116896 GACTGGAAAG
116906 TGAACA-ATGACAGAATAAC
1 TGAACAGATGACAGAATAAC
* * *
116925 AGGACAGATGTACAGAATGAC
1 TGAACAGATG-ACAGAATAAC
116946 TGAACAG
1 TGAACAG
116953 GGTTACACTA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
19 4 0.19
20 3 0.14
21 14 0.67
ACGTcount: A:0.47, C:0.15, G:0.23, T:0.15
Consensus pattern (20 bp):
TGAACAGATGACAGAATAAC
Found at i:124359 original size:11 final size:11
Alignment explanation
Indices: 124331--124381 Score: 59
Period size: 11 Copynumber: 4.7 Consensus size: 11
124321 TGTCCAAACT
*
124331 TCTTTAAGTCA
1 TCTTTAAGCCA
* *
124342 CCGTTAAGCCA
1 TCTTTAAGCCA
124353 TCTTTAAGCCA
1 TCTTTAAGCCA
*
124364 CCTTTAAG-CA
1 TCTTTAAGCCA
124374 TCTTTAAG
1 TCTTTAAG
124382 TGGCATTTAC
Statistics
Matches: 33, Mismatches: 7, Indels: 1
0.80 0.17 0.02
Matches are distributed among these distances:
10 9 0.27
11 24 0.73
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (11 bp):
TCTTTAAGCCA
Found at i:124377 original size:21 final size:22
Alignment explanation
Indices: 124331--124381 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
124321 TGTCCAAACT
*
124331 TCTTTAAGTCACCGTTAAGCCA
1 TCTTTAAGCCACCGTTAAGCCA
*
124353 TCTTTAAGCCACCTTTAAG-CA
1 TCTTTAAGCCACCGTTAAGCCA
124374 TCTTTAAG
1 TCTTTAAG
124382 TGGCATTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
21 10 0.37
22 17 0.63
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (22 bp):
TCTTTAAGCCACCGTTAAGCCA
Found at i:124759 original size:2 final size:2
Alignment explanation
Indices: 124752--124797 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
124742 AATTGGTGAA
124752 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
124794 CT CT
1 CT CT
124798 TAGTTCATCC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:125367 original size:170 final size:171
Alignment explanation
Indices: 125066--125515 Score: 708
Period size: 172 Copynumber: 2.6 Consensus size: 171
125056 TCACACTTTT
* * *
125066 TTGTAAGCGCTCTTATGCCTACAAATTTTCACGGATTTTCATTAAATTTATACCAAATG-TTACA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
* * *
125130 CCACTATTACCTTGGTCAAGTTTGAAAATCAGCATTGGTCGATACTTTTTGTTGGAGTTCTGGGA
66 CCACTAATACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGAGTTATGGGA
*
125195 CTTTGACCACAATAATGACT-GTTCTATCCAAAAATTGACC
131 CTTTGACCACAATAATGACTCGTTCTATCCAAAAATTCACC
125235 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
*
125300 CCACTAATA-CTTCGGTCAAGTTCGAAAATCAGCTTTGGTCGATACTTTTTGTTGGAGTTATGGG
66 CCACTAATACCTT-GGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGAGTTATGGG
* * * *
125364 ACTTTGATCACAATAATGACTCCGTTTTATCCCAAATTTCACC
130 ACTTTGACCACAATAATGACT-CGTTCTATCCAAAAATTCACC
* *
125407 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTACATGAAATTTATACCAAATGTTTATA
1 TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
** *
125472 CCACTAATACCTTGGTCAAGTTCCTAAATCAGCCTTGGTCGATA
66 CCACTAATACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATA
125516 GACTCGATAC
Statistics
Matches: 259, Mismatches: 17, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
169 60 0.23
170 80 0.31
172 116 0.45
173 3 0.01
ACGTcount: A:0.29, C:0.20, G:0.15, T:0.36
Consensus pattern (171 bp):
TTGTAAGCGCTCTCATGCCTACAAATTTTGACGGATTTTCATTAAATTTATACCAAATGTTTATA
CCACTAATACCTTGGTCAAGTTCGAAAATCAGCATTGGTCGATACTTTTTGTTGGAGTTATGGGA
CTTTGACCACAATAATGACTCGTTCTATCCAAAAATTCACC
Found at i:125629 original size:4 final size:4
Alignment explanation
Indices: 125620--125667 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
125610 AAAAAAGTGT
* * * * *
125620 GACG GACG GACG CACG GACA CACG GACC CACG GACG GACG GACG GACG
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG
125668 CCCGGCATTT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.27, C:0.33, G:0.40, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:125660 original size:16 final size:16
Alignment explanation
Indices: 125620--125662 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
125610 AAAAAAGTGT
*
125620 GACGGACGGACGCACG
1 GACGGACGGACCCACG
**
125636 GACACACGGACCCACG
1 GACGGACGGACCCACG
125652 GACGGACGGAC
1 GACGGACGGAC
125663 GGACGCCCGG
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.28, C:0.35, G:0.37, T:0.00
Consensus pattern (16 bp):
GACGGACGGACCCACG
Found at i:127123 original size:11 final size:11
Alignment explanation
Indices: 127107--127149 Score: 59
Period size: 11 Copynumber: 3.9 Consensus size: 11
127097 TTTTTTTTAA
127107 TGGCTTAAAGG
1 TGGCTTAAAGG
127118 TGGCTTAAAGG
1 TGGCTTAAAGG
* *
127129 TAGCTAAAAGG
1 TGGCTTAAAGG
*
127140 TGTCTTAAAG
1 TGGCTTAAAG
127150 AAGTTTGGAC
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.33, C:0.09, G:0.30, T:0.28
Consensus pattern (11 bp):
TGGCTTAAAGG
Found at i:134548 original size:23 final size:22
Alignment explanation
Indices: 134515--134563 Score: 57
Period size: 24 Copynumber: 2.2 Consensus size: 22
134505 TTGTGACAAT
134515 TAAATGATA-TTCAGTTCATTTATA
1 TAAATGATATTTCA--TCATTT-TA
134539 TAAAT-ATATTTCATCATTTTA
1 TAAATGATATTTCATCATTTTA
134560 TAAA
1 TAAA
134564 GTAATTTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 6 0.25
22 6 0.25
23 3 0.12
24 9 0.38
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (22 bp):
TAAATGATATTTCATCATTTTA
Found at i:135068 original size:5 final size:5
Alignment explanation
Indices: 135058--135083 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
135048 TGGTACTTTG
135058 CGGAA CGGAA CGGAA CGGAA CGGAA C
1 CGGAA CGGAA CGGAA CGGAA CGGAA C
135084 CAGTTAAGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.23, G:0.38, T:0.00
Consensus pattern (5 bp):
CGGAA
Found at i:142180 original size:5 final size:5
Alignment explanation
Indices: 142170--142195 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
142160 CTCTTAACTG
142170 GTTCC GTTCC GTTCC GTTCC GTTCC G
1 GTTCC GTTCC GTTCC GTTCC GTTCC G
142196 CAAAGTACCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.38, G:0.23, T:0.38
Consensus pattern (5 bp):
GTTCC
Found at i:144321 original size:2 final size:2
Alignment explanation
Indices: 144314--144375 Score: 124
Period size: 2 Copynumber: 31.0 Consensus size: 2
144304 ATAAACACTT
144314 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
144356 GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA
144376 AATTACCTAC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 60 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:152061 original size:13 final size:13
Alignment explanation
Indices: 152043--152069 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
152033 CCGAGACGAG
152043 GCATCACCTTTAT
1 GCATCACCTTTAT
152056 GCATCACCTTTAT
1 GCATCACCTTTAT
152069 G
1 G
152070 AAACCCTCTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.30, G:0.11, T:0.37
Consensus pattern (13 bp):
GCATCACCTTTAT
Found at i:152748 original size:20 final size:20
Alignment explanation
Indices: 152725--152764 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
152715 CGATTGATAC
152725 CATATCATAT-AGTACAATAT
1 CATATCATATGA-TACAATAT
152745 CATATCATATGATACAATAT
1 CATATCATATGATACAATAT
152765 TGTATATTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (20 bp):
CATATCATATGATACAATAT
Found at i:153491 original size:20 final size:20
Alignment explanation
Indices: 153468--153521 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
153458 CATATGATAT
* *
153468 AATATTGTATCATATTAAAC
1 AATACTGTATCATATCAAAC
* *
153488 AATAGTGTATCATATCATAC
1 AATACTGTATCATATCAAAC
*
153508 AATACTATATCATA
1 AATACTGTATCATA
153522 GGAATCATGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.44, C:0.13, G:0.06, T:0.37
Consensus pattern (20 bp):
AATACTGTATCATATCAAAC
Found at i:154054 original size:177 final size:177
Alignment explanation
Indices: 153757--154181 Score: 638
Period size: 177 Copynumber: 2.4 Consensus size: 177
153747 ATTCAGCATT
* *
153757 GGTGCATCAGTATCATAAGACGCATCATCCATGCAAGTTTAGTGAAGTTAGGACCAGTAATAACT
1 GGTGCATCAGTATCATAAGACGCACCATCCATGCAAGTTTGGTGAAGTTAGGACCAGTAATAACT
* * *
153822 AAGATATAATCATCAGAGAGCAACCGCTTCTAAAACTTTAACCAGCTCTAAAAACCTTAACCTCC
66 AAGATATAATCATCAGAGAGCAACCGCTCCAAAAACTTTAACCAGCTCCAAAAACCTTAACCTCC
* *
153887 CCCAGCATCCAAAACTTATCACTCAGATTCAGCATTCAAGCCTGTCA
131 CCCAGCATCCAAAACCTATCACTCAGATTCAGCATTCAAGACTGTCA
* ** * *
153934 GGTGCATCAGTTTCATAAGATACACCATCCATGCAAGTTTGGTGAGGTTAGGACCAGTAATAATT
1 GGTGCATCAGTATCATAAGACGCACCATCCATGCAAGTTTGGTGAAGTTAGGACCAGTAATAACT
*
153999 AAGATATAATCATCAGAG-G-ACACCTGCTCCAAAAACTTTTACCAGCTCCAAAAACCTTAACCT
66 AAGATATAATCATCAGAGAGCA-ACC-GCTCCAAAAACTTTAACCAGCTCCAAAAACCTTAACCT
* ** ** *
154062 CCTCCAGCATCTGAAACCTATGGCTCAGATTCAGCATTCATGACTGTCA
129 CCCCCAGCATCCAAAACCTATCACTCAGATTCAGCATTCAAGACTGTCA
*
154111 GGTGCATCAGTATCATAAGACGCACCATCAATGCAAGTTTGGTGAAGTTAGGACCAGTAATAACT
1 GGTGCATCAGTATCATAAGACGCACCATCCATGCAAGTTTGGTGAAGTTAGGACCAGTAATAACT
154176 AAGATA
66 AAGATA
154182 AAGTAACCCT
Statistics
Matches: 221, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
175 1 0.00
176 4 0.02
177 216 0.98
ACGTcount: A:0.35, C:0.24, G:0.16, T:0.25
Consensus pattern (177 bp):
GGTGCATCAGTATCATAAGACGCACCATCCATGCAAGTTTGGTGAAGTTAGGACCAGTAATAACT
AAGATATAATCATCAGAGAGCAACCGCTCCAAAAACTTTAACCAGCTCCAAAAACCTTAACCTCC
CCCAGCATCCAAAACCTATCACTCAGATTCAGCATTCAAGACTGTCA
Found at i:154066 original size:19 final size:19
Alignment explanation
Indices: 154020--154067 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
154010 ATCAGAGGAC
* *
154020 ACCTGCTCCAAAAACTTTT
1 ACCTGCTCCAAAAACCTTA
*
154039 ACCAGCTCCAAAAACCTTA
1 ACCTGCTCCAAAAACCTTA
*
154058 ACCTCCTCCA
1 ACCTGCTCCA
154068 GCATCTGAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.33, C:0.40, G:0.04, T:0.23
Consensus pattern (19 bp):
ACCTGCTCCAAAAACCTTA
Found at i:164070 original size:18 final size:18
Alignment explanation
Indices: 164047--164090 Score: 79
Period size: 18 Copynumber: 2.4 Consensus size: 18
164037 GAAAATGAAA
*
164047 CTCAGTCAAGTCAAGTAT
1 CTCAGTCAAGTCAAATAT
164065 CTCAGTCAAGTCAAATAT
1 CTCAGTCAAGTCAAATAT
164083 CTCAGTCA
1 CTCAGTCA
164091 GAGTTAAGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.34, C:0.25, G:0.14, T:0.27
Consensus pattern (18 bp):
CTCAGTCAAGTCAAATAT
Found at i:166770 original size:41 final size:41
Alignment explanation
Indices: 166713--166792 Score: 151
Period size: 41 Copynumber: 2.0 Consensus size: 41
166703 GATGCTTTTC
*
166713 TGAAACCATGCATTTCATCGTCAGCAACTGTATTAATTAAA
1 TGAAACCACGCATTTCATCGTCAGCAACTGTATTAATTAAA
166754 TGAAACCACGCATTTCATCGTCAGCAACTGTATTAATTA
1 TGAAACCACGCATTTCATCGTCAGCAACTGTATTAATTA
166793 TTGGTAGATG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.31
Consensus pattern (41 bp):
TGAAACCACGCATTTCATCGTCAGCAACTGTATTAATTAAA
Found at i:166836 original size:55 final size:55
Alignment explanation
Indices: 166756--166924 Score: 320
Period size: 55 Copynumber: 3.1 Consensus size: 55
166746 TAATTAAATG
166756 AAACCACGCATTTCATCGTCAGCAACTGTATTAATTATTGGTAGATGGTACAATT
1 AAACCACGCATTTCATCGTCAGCAACTGTATTAATTATTGGTAGATGGTACAATT
166811 AAACCACGCATTTCATCGTCAGCAACTGTATTAATTATTGGTAGATGGTACAATT
1 AAACCACGCATTTCATCGTCAGCAACTGTATTAATTATTGGTAGATGGTACAATT
* *
166866 AAACCACGCATTTCATCGTCAGTAACTGTATTAATTATTGGTAGACGGTACAATT
1 AAACCACGCATTTCATCGTCAGCAACTGTATTAATTATTGGTAGATGGTACAATT
166921 AAAC
1 AAAC
166925 GTGCTCGTCA
Statistics
Matches: 112, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
55 112 1.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (55 bp):
AAACCACGCATTTCATCGTCAGCAACTGTATTAATTATTGGTAGATGGTACAATT
Found at i:170825 original size:23 final size:24
Alignment explanation
Indices: 170798--170844 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
170788 CGCTATACGT
*
170798 TTATAACGAAATCG-TCTAAAATA
1 TTATAACGAAATCGTTATAAAATA
* *
170821 TTATAGCGAATTCGTTATAAAATA
1 TTATAACGAAATCGTTATAAAATA
170845 ATCGGCTTAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.45, C:0.11, G:0.11, T:0.34
Consensus pattern (24 bp):
TTATAACGAAATCGTTATAAAATA
Found at i:171127 original size:15 final size:16
Alignment explanation
Indices: 171090--171130 Score: 57
Period size: 17 Copynumber: 2.6 Consensus size: 16
171080 TTAAAATTAC
171090 TTCGTTATAGCCGTAAA
1 TTCGTTATAGCCGT-AA
*
171107 TTCGTTATAGCCGT-G
1 TTCGTTATAGCCGTAA
171122 TTCGTTATA
1 TTCGTTATA
171131 TACATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
17 14 0.61
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (16 bp):
TTCGTTATAGCCGTAA
Found at i:173897 original size:174 final size:171
Alignment explanation
Indices: 173578--173924 Score: 520
Period size: 174 Copynumber: 2.0 Consensus size: 171
173568 TAATTATGAA
*
173578 ATAATAATAAAGGGGGTTCAATCAGTTTAAGTTAAGGTTCGTTATTCCATATCTCGAAAACATGG
1 ATAATAATAAAGGGGGTTCAATCAGTTTAAGTTAAGGTTCGTTATTCCATATCTCGAAAACAAGG
* * * *
173643 CTCTTTTTTCAAAGCAGCCATTTTTCATGCATGTTAAAAGGGTCAATCTGACAAGATAGATTTGT
66 CTCTATGTTCAAAGCAGCCATTTTTCATGCAAGTTAAAAGGGTCAATCTGACAAGATAGAATTGT
*
173708 TTGTTGTGCAATAGTTAACTTGTGGAGATTATCTTCGAAAC
131 TTGTTGTGCAATAGTTAACTTGTGGAGATAATCTTCGAAAC
* ** *
173749 ATAATGATAAAGGGGGTTCAATCAGTTTATAAGTTTGGGTTCGTTATTCCATATTTCGAAAA-AG
1 ATAATAATAAAGGGGGTTCAATCAG-TT-TAAGTTAAGGTTCGTTATTCCATATCTCGAAAACA-
173813 GAGGCTCTATGTTCAAAGCAGCCATTTTTCATGCAAG-TAAAAGGGTCAATCTGACAAAGATCA-
63 -AGGCTCTATGTTCAAAGCAGCCATTTTTCATGCAAGTTAAAAGGGTCAATCTGAC-AAGAT-AG
*
173876 AATTGTTTGTTGTGCAATAGTTAACTTGTGGTGATAATCTTCGAAAC
125 AATTGTTTGTTGTGCAATAGTTAACTTGTGGAGATAATCTTCGAAAC
173923 AT
1 AT
173925 GCAAGATATA
Statistics
Matches: 159, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
171 24 0.15
172 3 0.02
173 48 0.30
174 83 0.52
175 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.35
Consensus pattern (171 bp):
ATAATAATAAAGGGGGTTCAATCAGTTTAAGTTAAGGTTCGTTATTCCATATCTCGAAAACAAGG
CTCTATGTTCAAAGCAGCCATTTTTCATGCAAGTTAAAAGGGTCAATCTGACAAGATAGAATTGT
TTGTTGTGCAATAGTTAACTTGTGGAGATAATCTTCGAAAC
Found at i:179813 original size:18 final size:18
Alignment explanation
Indices: 179790--179824 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
179780 AGGAGCACAT
* *
179790 AAAATACTCATAAAATAC
1 AAAATACACACAAAATAC
179808 AAAATACACACAAAATA
1 AAAATACACACAAAATA
179825 TAGAAAAGCA
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:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAATACACACAAAATAC
Found at i:199583 original size:2 final size:2
Alignment explanation
Indices: 199576--199645 Score: 131
Period size: 2 Copynumber: 35.0 Consensus size: 2
199566 TTGGGAGCAT
199576 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
*
199618 GA GA GA GA GA GA GA GG GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
199646 NNNNNNNNNN
Statistics
Matches: 66, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:200630 original size:2 final size:2
Alignment explanation
Indices: 200623--200651 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
200613 NNNNNNNNNN
200623 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
200652 GGGGGGGGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:206525 original size:17 final size:16
Alignment explanation
Indices: 206494--206531 Score: 60
Period size: 17 Copynumber: 2.4 Consensus size: 16
206484 AGCTGGAAAA
206494 AGGC-AACCGACTTAT
1 AGGCGAACCGACTTAT
206509 AGGCGAACCGTACTTAT
1 AGGCGAACCG-ACTTAT
206526 AGGCGA
1 AGGCGA
206532 GATTATACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 4 0.19
16 5 0.24
17 12 0.57
ACGTcount: A:0.32, C:0.24, G:0.26, T:0.18
Consensus pattern (16 bp):
AGGCGAACCGACTTAT
Found at i:222959 original size:15 final size:15
Alignment explanation
Indices: 222939--222968 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
222929 ATCAAAATCT
222939 CCTAGTGCATCTCCA
1 CCTAGTGCATCTCCA
222954 CCTAGTGCATCTCCA
1 CCTAGTGCATCTCCA
222969 TCGACAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.40, G:0.13, T:0.27
Consensus pattern (15 bp):
CCTAGTGCATCTCCA
Found at i:223011 original size:51 final size:50
Alignment explanation
Indices: 222952--223231 Score: 305
Period size: 51 Copynumber: 5.5 Consensus size: 50
222942 AGTGCATCTC
*
222952 CACCTAGTGCATCTCCATCGACAAACAGAACATCAAAGAGAGGATCAAAAT
1 CACCTAGTGCATCTCCATCGACAAA-AGAACATCAAAGAAAGGATCAAAAT
** * * * *
223003 CACCTAGTGTGTCTCCTTCAGCCAGAAGAACATCAAAGAAAGAATCAAAAT
1 CACCTAGTGCATCTCCATC-GACAAAAGAACATCAAAGAAAGGATCAAAAT
* *
223054 CCCCTAGTGCATCTCCATTGACAAAAAGAACATC-AAGAAAAGGATCAAAAT
1 CACCTAGTGCATCTCCATCGAC-AAAAGAACATCAAAG-AAAGGATCAAAAT
** * * *
223105 CACCTAGTGTGTCTCCTTCAGACAGAAGAACATCAAAGAAAGAATCAAAAT
1 CACCTAGTGCATCTCCATC-GACAAAAGAACATCAAAGAAAGGATCAAAAT
* ** *
223156 CCCCTAGTGCATCTCCATTAACAAAAAGAACA-CGAAGAAAAGGATCAAAAT
1 CACCTAGTGCATCTCCATCGAC-AAAAGAACATCAAAG-AAAGGATCAAAAT
*
223207 CACCTAGTGCATCTCCTTC-ACAAAA
1 CACCTAGTGCATCTCCATCGACAAAA
223232 ATCTAGCACT
Statistics
Matches: 188, Mismatches: 34, Indels: 16
0.79 0.14 0.07
Matches are distributed among these distances:
49 4 0.02
50 13 0.07
51 161 0.86
52 10 0.05
ACGTcount: A:0.43, C:0.25, G:0.14, T:0.18
Consensus pattern (50 bp):
CACCTAGTGCATCTCCATCGACAAAAGAACATCAAAGAAAGGATCAAAAT
Found at i:223078 original size:102 final size:102
Alignment explanation
Indices: 222954--223226 Score: 451
Period size: 102 Copynumber: 2.7 Consensus size: 102
222944 TGCATCTCCA
* * *
222954 CCTAGTGCATCTCCATCGACAAACAGAACATCAA-AGAGAGGATCAAAATCACCTAGTGTGTCTC
1 CCTAGTGCATCTCCATTGACAAAAAGAACATCAAGA-AAAGGATCAAAATCACCTAGTGTGTCTC
*
223018 CTTCAGCCAGAAGAACATCAAAGAAAGAATCAAAATCC
65 CTTCAGACAGAAGAACATCAAAGAAAGAATCAAAATCC
223056 CCTAGTGCATCTCCATTGACAAAAAGAACATCAAGAAAAGGATCAAAATCACCTAGTGTGTCTCC
1 CCTAGTGCATCTCCATTGACAAAAAGAACATCAAGAAAAGGATCAAAATCACCTAGTGTGTCTCC
223121 TTCAGACAGAAGAACATCAAAGAAAGAATCAAAATCC
66 TTCAGACAGAAGAACATCAAAGAAAGAATCAAAATCC
* **
223158 CCTAGTGCATCTCCATTAACAAAAAGAACA-CGAAGAAAAGGATCAAAATCACCTAGTGCATCTC
1 CCTAGTGCATCTCCATTGACAAAAAGAACATC-AAGAAAAGGATCAAAATCACCTAGTGTGTCTC
223222 CTTCA
65 CTTCA
223227 CAAAAATCTA
Statistics
Matches: 162, Mismatches: 7, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
101 1 0.01
102 160 0.99
103 1 0.01
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.19
Consensus pattern (102 bp):
CCTAGTGCATCTCCATTGACAAAAAGAACATCAAGAAAAGGATCAAAATCACCTAGTGTGTCTCC
TTCAGACAGAAGAACATCAAAGAAAGAATCAAAATCC
Found at i:224680 original size:15 final size:15
Alignment explanation
Indices: 224660--224694 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
224650 GAAATAGAAG
224660 TTCCAGTACTGAGTA
1 TTCCAGTACTGAGTA
224675 TTCCAGTACTGAGTA
1 TTCCAGTACTGAGTA
*
224690 CTCCA
1 TTCCA
224695 AGTAGAAGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (15 bp):
TTCCAGTACTGAGTA
Found at i:232040 original size:16 final size:16
Alignment explanation
Indices: 232019--232052 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
232009 AAAAGATGTT
* *
232019 AACAATTCCTATTATA
1 AACAATCCCCATTATA
232035 AACAATCCCCATTATA
1 AACAATCCCCATTATA
232051 AA
1 AA
232053 TTTCCGTAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (16 bp):
AACAATCCCCATTATA
Found at i:239933 original size:33 final size:32
Alignment explanation
Indices: 239842--239920 Score: 140
Period size: 32 Copynumber: 2.4 Consensus size: 32
239832 CCTAGCCATC
239842 TTTCCCCCCGGAAAAATGGCTATATAGCAGTT
1 TTTCCCCCCGGAAAAATGGCTATATAGCAGTT
*
239874 CTTCCCCCCGGAAAAATGGCTATATAGCAGTT
1 TTTCCCCCCGGAAAAATGGCTATATAGCAGTT
239906 TTTCCCCCACGGAAA
1 TTTCCCCC-CGGAAA
239921 GCTGACTATA
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
32 38 0.86
33 6 0.14
ACGTcount: A:0.28, C:0.29, G:0.18, T:0.25
Consensus pattern (32 bp):
TTTCCCCCCGGAAAAATGGCTATATAGCAGTT
Found at i:245668 original size:32 final size:32
Alignment explanation
Indices: 245627--247233 Score: 2586
Period size: 32 Copynumber: 50.1 Consensus size: 32
245617 ATCTTGCAAA
* *
245627 TGTTGTAGGACTGGTGTTTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
245659 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
245691 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* ** * *
245723 TGGTATAGGACTGACGTGTTCATAAGATGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* ** *
245755 TGCTGGAGGACTGGTGTGTACATAAGGTATAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* * * *
245787 TGCTACAGGACTGGTTTGTACATAAGATGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
245819 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* *
245851 TGTTATAGGACTGATGTGTACATAAAGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
*
245883 TGTTATAGAACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* * *
245915 TGCTATAGGACTGATGTGTACATAAGATGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* *
245947 TGCTT-TAGGACTGGTGTATACATAAGGTATAT
1 TG-TTATAGGACTGGTGTGTACATAAGGTGTAT
* * *
245979 TGCTATAAGACCGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* * *
246011 TGTTGTAGGACTGGTGTGTACACAAGATGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
*
246043 TGTTATAGAACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* *
246075 TGTTATAGGACTGATGTGTACATAAGGTGAAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
246107 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
246139 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* * *
246171 TGTTATAGAACTGGTGTGTACATAAGATTTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* *
246203 TGTTATAGAACTGGTGTGTACATAAGGTGAAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
246235 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* *
246267 TGTTATAGGACTGATGTGTACATAAGGTGAAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
246299 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* *
246331 TGTTATAGGACTGATGTGTACATAAGGTGAAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
246363 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
*
246395 TGTTATAGGACTGATGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
246427 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
246459 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
*
246491 TGTTATAGGACTGATGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
246523 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
246555 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
246587 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
246619 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
246651 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
246683 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* * *
246715 TGTTATAGAACTGGTGTGTACATAAGATTTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
246747 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
246779 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
*
246811 TGCTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* * * *
246843 TGTTGTAGGACTGGTGTGAACATAAGATTTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
*
246875 TGTTATAGGACTGGTGTGTACATAAGATGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* *
246907 TGTTATAGGACTGATGTATACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* *
246939 TGTTGTAGGACTGGTGTGTACATAAGGTGAAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* *
246971 TGTTATAGGACTGGTGTGTACATAAGATTTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
*
247003 TGTTATAGGACTGGTGTGTACACAAGATGATGTAT
1 TGTTATAGGACTGGTGTGTACATAAG--G-TGTAT
* *
247038 TGTTATAGGACGGGTGTGTACATAAGGTGAAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
247070 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
247102 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* *
247134 TGTTATAGGACTGGTGTGTACATAAGATTTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
247166 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
* *
247198 TGTTATAGGACTGGTGTGTACATAAGATGTTT
1 TGTTATAGGACTGGTGTGTACATAAGGTGTAT
247230 TGTT
1 TGTT
247234 TTGTAGGCAC
Statistics
Matches: 1452, Mismatches: 118, Indels: 10
0.92 0.07 0.01
Matches are distributed among these distances:
31 1 0.00
32 1421 0.98
33 2 0.00
35 28 0.02
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (32 bp):
TGTTATAGGACTGGTGTGTACATAAGGTGTAT
Found at i:248502 original size:60 final size:60
Alignment explanation
Indices: 248429--248554 Score: 225
Period size: 60 Copynumber: 2.1 Consensus size: 60
248419 TTATTTTCAG
* *
248429 AATTCCAGATAGTTAACATGTCCAAAAAATAAAAAGGAGATTTTAAAATCCGCAAGAAGT
1 AATTCTAGATAGTTAACATGTCCAAAAAATAAAAACGAGATTTTAAAATCCGCAAGAAGT
248489 AATTCTAGATAGTTAACATGTCCAAAAAATAAAAACGAGATTTTAAAATCCGCAAGAAGT
1 AATTCTAGATAGTTAACATGTCCAAAAAATAAAAACGAGATTTTAAAATCCGCAAGAAGT
*
248549 ACTTCT
1 AATTCT
248555 CCTGACTTTA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
60 63 1.00
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.25
Consensus pattern (60 bp):
AATTCTAGATAGTTAACATGTCCAAAAAATAAAAACGAGATTTTAAAATCCGCAAGAAGT
Found at i:258794 original size:28 final size:28
Alignment explanation
Indices: 258754--258811 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
258744 GTGCAGGGAA
258754 CAGCTCAGTATGATCTATTGCCCAAGGC
1 CAGCTCAGTATGATCTATTGCCCAAGGC
*
258782 CAGCTCAGTATGATCTATTGCCCGAGGC
1 CAGCTCAGTATGATCTATTGCCCAAGGC
258810 CA
1 CA
258812 ACGGCCGAGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.24
Consensus pattern (28 bp):
CAGCTCAGTATGATCTATTGCCCAAGGC
Found at i:261198 original size:37 final size:36
Alignment explanation
Indices: 261145--261246 Score: 123
Period size: 36 Copynumber: 2.8 Consensus size: 36
261135 ACGACTAATT
* * *
261145 GGTGAACATTATTCACCTGGATCTAGACGAATCGATC
1 GGTGAACACTAATCACCTGGATATAGACG-ATCGATC
*
261182 GGTGAACACTACTCACCTGGATATAGACGATCGATC
1 GGTGAACACTAATCACCTGGATATAGACGATCGATC
* * * *
261218 GATGGACACTAATCATCTGGATATGGACG
1 GGTGAACACTAATCACCTGGATATAGACG
261247 TATACAATCA
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
36 31 0.54
37 26 0.46
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.25
Consensus pattern (36 bp):
GGTGAACACTAATCACCTGGATATAGACGATCGATC
Found at i:261564 original size:16 final size:16
Alignment explanation
Indices: 261543--261578 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
261533 GTGTATAAAA
261543 AAACGTAAACTGTTTC
1 AAACGTAAACTGTTTC
261559 AAACGTAAACTGTTTC
1 AAACGTAAACTGTTTC
261575 AAAC
1 AAAC
261579 CATTTTATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (16 bp):
AAACGTAAACTGTTTC
Found at i:264624 original size:2 final size:2
Alignment explanation
Indices: 264617--264667 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
264607 GCGAACACGC
264617 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
264659 AG AG AG AG A
1 AG AG AG AG A
264668 TCTTGCTTTC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:265544 original size:10 final size:10
Alignment explanation
Indices: 265518--265558 Score: 52
Period size: 10 Copynumber: 4.4 Consensus size: 10
265508 GTATGGATCG
265518 TCCA-ATCCA
1 TCCACATCCA
265527 T-C-CATCCA
1 TCCACATCCA
*
265535 TTCACATCCA
1 TCCACATCCA
265545 TCCACATCCA
1 TCCACATCCA
265555 TCCA
1 TCCA
265559 TTCATTAACC
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
8 7 0.25
9 2 0.07
10 19 0.68
ACGTcount: A:0.29, C:0.46, G:0.00, T:0.24
Consensus pattern (10 bp):
TCCACATCCA
Found at i:265556 original size:14 final size:13
Alignment explanation
Indices: 265518--265559 Score: 57
Period size: 14 Copynumber: 3.1 Consensus size: 13
265508 GTATGGATCG
265518 TCCAATCCATCCA
1 TCCAATCCATCCA
*
265531 TCCATTCACATCCA
1 TCCAATC-CATCCA
265545 TCCACATCCATCCA
1 TCCA-ATCCATCCA
265559 T
1 T
265560 TCATTAACCC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 6 0.24
14 17 0.68
15 2 0.08
ACGTcount: A:0.29, C:0.45, G:0.00, T:0.26
Consensus pattern (13 bp):
TCCAATCCATCCA
Found at i:269324 original size:19 final size:19
Alignment explanation
Indices: 269300--269513 Score: 329
Period size: 19 Copynumber: 11.3 Consensus size: 19
269290 CAATATATGA
*
269300 AACAACCACATATTGCCAG
1 AACAACCACATATTGTCAG
*
269319 AACAACCACATACTGTCAG
1 AACAACCACATATTGTCAG
* *
269338 AAAAACCACATACTGTCAG
1 AACAACCACATATTGTCAG
*
269357 AACAACCACATATTGCCAG
1 AACAACCACATATTGTCAG
*
269376 AACAACCACATACTGTCAG
1 AACAACCACATATTGTCAG
* *
269395 AAAAACCACATACTGTCAG
1 AACAACCACATATTGTCAG
*
269414 AACAACCACATATTGCCAG
1 AACAACCACATATTGTCAG
*
269433 AACAACCACATACTGTCAG
1 AACAACCACATATTGTCAG
269452 AACAACCACATATTGTCAG
1 AACAACCACATATTGTCAG
*
269471 AACAACCACATATTGTCCG
1 AACAACCACATATTGTCAG
269490 AACAACCACATATTGTCAG
1 AACAACCACATATTGTCAG
269509 AACAA
1 AACAA
269514 TCACTAATTC
Statistics
Matches: 178, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 178 1.00
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.17
Consensus pattern (19 bp):
AACAACCACATATTGTCAG
Found at i:269513 original size:57 final size:57
Alignment explanation
Indices: 269300--269510 Score: 379
Period size: 57 Copynumber: 3.7 Consensus size: 57
269290 CAATATATGA
269300 AACAACCACATATTGCCAGAACAACCACATACTGTCAGAAAAACCACATACTGTCAG
1 AACAACCACATATTGCCAGAACAACCACATACTGTCAGAAAAACCACATACTGTCAG
269357 AACAACCACATATTGCCAGAACAACCACATACTGTCAGAAAAACCACATACTGTCAG
1 AACAACCACATATTGCCAGAACAACCACATACTGTCAGAAAAACCACATACTGTCAG
* *
269414 AACAACCACATATTGCCAGAACAACCACATACTGTCAGAACAACCACATATTGTCAG
1 AACAACCACATATTGCCAGAACAACCACATACTGTCAGAAAAACCACATACTGTCAG
*
269471 AACAACCACATATTGTCC-GAACAACCACATATTGTCAGAA
1 AACAACCACATATTG-CCAGAACAACCACATACTGTCAGAA
269511 CAATCACTAA
Statistics
Matches: 150, Mismatches: 3, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
57 148 0.99
58 2 0.01
ACGTcount: A:0.43, C:0.29, G:0.10, T:0.17
Consensus pattern (57 bp):
AACAACCACATATTGCCAGAACAACCACATACTGTCAGAAAAACCACATACTGTCAG
Found at i:280487 original size:27 final size:25
Alignment explanation
Indices: 280435--280503 Score: 86
Period size: 27 Copynumber: 2.7 Consensus size: 25
280425 GCAGGTGACG
*
280435 TAAAATTTTA-TTATTTTTTATATT
1 TAAAATTTTATTTTTTTTTTATATT
*
280459 TAAAATATTTATTTTTTTTTTAATTTT
1 TAAAAT-TTTATTTTTTTTTT-ATATT
280486 TAAAATTATTATTTTTTT
1 TAAAATT-TTATTTTTTT
280504 CATTTTCTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
24 6 0.15
25 4 0.10
26 9 0.23
27 20 0.51
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (25 bp):
TAAAATTTTATTTTTTTTTTATATT
Found at i:280508 original size:24 final size:24
Alignment explanation
Indices: 280435--280509 Score: 71
Period size: 24 Copynumber: 3.0 Consensus size: 24
280425 GCAGGTGACG
*
280435 TAAAATT-TTATTATTTTTTATATTT
1 TAAAATTATTATT-TTTTTAAT-TTT
* *
280460 AAAATATTTATTTTTTTTTTAATTTT
1 TAAA-A-TTATTATTTTTTTAATTTT
*
280486 TAAAATTATTATTTTTTTCATTTT
1 TAAAATTATTATTTTTTTAATTTT
280510 CTATTATTTT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
24 17 0.41
25 4 0.10
26 7 0.17
27 9 0.22
28 4 0.10
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.68
Consensus pattern (24 bp):
TAAAATTATTATTTTTTTAATTTT
Found at i:295713 original size:166 final size:165
Alignment explanation
Indices: 295089--296171 Score: 1384
Period size: 166 Copynumber: 6.5 Consensus size: 165
295079 AAAGAATCGT
* * * *
295089 CTGGCTGATTAGTTTCT--G-AGAAGATTTTTAAAGAATTACCCTATATATATATTCCTTTGTTA
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTA--C--TCTATATATTCATATGTTA
* ** *
295151 AACTTTGACCCCCCCCCCATTGTGGCCCCATGCTACCCCCGGGGGATCATGATTTTCACAACTTT
62 AACTTCGA-----CCCCCATTGTGGCCCCACCCTACCCCCGGGGG-TCATGATTTTCACAAATTT
*
295216 GAATCTAAACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTGC
121 GAATCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTT-C
* * * * * *
295262 C-GGCTGATTAGTTTCTGAGAAGAAGATTTTAAAAGATTTACTCTGTTTATTCCTATGTAAAACA
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
* * * * * *
295326 TCGACCTCCCATTGTGGCCCAAACCTACCACC-AGGGTTATGATTTTCATAAATTTGAATCTACA
66 TCGACC-CCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAAATTTGAATCTACA
*
295390 CTACCTGAGGATGCTTCAACACAAGTTTCAGCTTTC
130 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* * * *
295426 CTGGCTAATTAGTTTCT--G-AGAACATTTTTAAAGATTTACTCTTTATAATCATATGTTAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
* * * * *
295488 TCGACCCCCCATTGTGGCCCCACCCTACGCCCAGGGGTTATTATTTTCACAACTTTGAATCTACA
66 TCGA-CCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAAATTTGAATCTACA
295553 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTGC
130 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTT-C
* * * *
295590 C-AGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAAATTTACTCTATATATTCCTATGTTAAAGT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
*
295654 TCGATCCCCCATTGTGGTCCCACCCTACCCCCGGGGGTCATGATTTTCACAAATTTGAATCTACA
66 TCGA-CCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAAATTTGAATCTACA
* * * * *
295719 TTACCTGATGATGCTTTCAAACAAGTTTTAGCTTTC
130 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* * *
295755 CTGGCCGATTAATTTCTGAGAAGAAGATTTTTAAAGATTTACTTTATATATTCATATGTTAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
*
295820 TCGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACA
66 TCGA-CCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAAATTTGAATCTACA
*
295885 CTACCTGAGGATGCTTCCACACAAGTGTCAGCTTTC
130 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
* * * *
295921 CTGGCCGATTAGTTTCT--G-AGAAGATTTTTAAAGATTTACTCTA-A-AATCCTATATTAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
* * *
295981 TCGATCTCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGGTTTTTACAAATTTGAATCTACA
66 TCGA-CCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAAATTTGAATCTACA
* * * * *
296046 TTACCTGATGATGCTTTCAAACAAGTTTTAGCTTTC
130 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
*
296082 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATTTGTTAAACT
1 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
296147 TCGACCCCCATTGTGGCCCCACCCT
66 TCGACCCCCATTGTGGCCCCACCCT
296172 CACATGAGCT
Statistics
Matches: 798, Mismatches: 95, Indels: 42
0.85 0.10 0.04
Matches are distributed among these distances:
161 119 0.15
162 62 0.08
163 103 0.13
164 30 0.04
165 96 0.12
166 311 0.39
167 21 0.03
171 20 0.03
172 15 0.02
173 2 0.00
174 1 0.00
175 18 0.02
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (165 bp):
CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
TCGACCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAAATTTGAATCTACAC
TACCTGAGGATGCTTCCACACAAGTTTCAGCTTTC
Found at i:296132 original size:327 final size:326
Alignment explanation
Indices: 295089--296171 Score: 1503
Period size: 327 Copynumber: 3.3 Consensus size: 326
295079 AAAGAATCGT
* * * *
295089 CTGGCTGATTAGTTTCTGAGAAGATTTTTAAAGAATTACCCTATATATATATTCCTTTGTTAAAC
1 CTGGCTGATTAGTTTCTGAGAAGATTTTTAAAGATTTA--C--TCTATATATTCATATGTTAAAC
* **
295154 TTTGACCCCCCCCCCATTGTGGCCCCATGCTACCCCCGGGGGATCATGATTTTCACAACTTTGAA
62 TTCGA----CCCCCCATTGTGGCCCCACCCTACCCCCGGGGG-TCATGATTTTCACAACTTTGAA
*
295219 TCTAAACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTGCCGGCTGATTAGTTTCTGAGAAG
122 TCTACACTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTGCCGGCTGATTAGTTTCT-AGAAG
* ** * * * * *
295284 AAGATTTTAAAAGATTTACTCTGTTTATTCCTATGTAAAACATCGACCTCCCATTGTGGCCCAAA
186 AAGATTTTTAAAGATTTACTC--TAAATTCCTATGTTAAACTTCGATCTCCCATTGTGGCCCCAC
* * * * * *
295349 CCTACCACC-AGGGTTATGATTTTCATAAATTTGAATCTACACTACCTGAGGATGC-TTCAACAC
249 CCTACCCCCGGGGGTCATGATTTTCACAAATTTGAATCTACATTACCTGATGATGCTTTCAA-AC
*
295412 AAGTTTCAGCTTTC
313 AAGTTTTAGCTTTC
* * * *
295426 CTGGCTAATTAGTTTCTGAGAACATTTTTAAAGATTTACTCTTTATAATCATATGTTAAACTTCG
1 CTGGCTGATTAGTTTCTGAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACTTCG
* * * *
295491 ACCCCCCATTGTGGCCCCACCCTACGCCCAGGGGTTATTATTTTCACAACTTTGAATCTACACTA
66 ACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTA
*
295556 CCTGAGGATGCTTCCACACAAGTTTCAGCTTTGCCAGCTGATTAGTTTCTGAGAAGAAGATTTTT
131 CCTGAGGATGCTTCCACACAAGTTTCAGCTTTGCCGGCTGATTAGTTTCT-AGAAGAAGATTTTT
* * * *
295621 AAAAATTTACTCTATATATTCCTATGTTAAAGTTCGATCCCCCATTGTGGTCCCACCCTACCCCC
195 AAAGATTTACTCTA-A-ATTCCTATGTTAAACTTCGATCTCCCATTGTGGCCCCACCCTACCCCC
295686 GGGGGTCATGATTTTCACAAATTTGAATCTACATTACCTGATGATGCTTTCAAACAAGTTTTAGC
258 GGGGGTCATGATTTTCACAAATTTGAATCTACATTACCTGATGATGCTTTCAAACAAGTTTTAGC
295751 TTTC
323 TTTC
* * *
295755 CTGGCCGATTAATTTCTGAGAAGAAGATTTTTAAAGATTTACTTTATATATTCATATGTTAAACT
1 CTGGCTGATTAGTTTCT--G-AGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
295820 TCGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACA
63 TCGACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACA
* *
295885 CTACCTGAGGATGCTTCCACACAAGTGTCAGCTTT-CCTGGCCGATTAGTTTCT-G-AGAAGATT
128 CTACCTGAGGATGCTTCCACACAAGTTTCAGCTTTGCC-GGCTGATTAGTTTCTAGAAGAAGATT
* *
295947 TTTAAAGATTTACTCTAAAATCCTATATTAAACTTCGATCTCCCATTGTGGCCCCACCCTACCCC
192 TTTAAAGATTTACTCTAAATTCCTATGTTAAACTTCGATCTCCCATTGTGGCCCCACCCTACCCC
* *
296012 CGGGGGTCATGGTTTTTACAAATTTGAATCTACATTACCTGATGATGCTTTCAAACAAGTTTTAG
257 CGGGGGTCATGATTTTCACAAATTTGAATCTACATTACCTGATGATGCTTTCAAACAAGTTTTAG
296077 CTTTC
322 CTTTC
*
296082 CTGGCTGATTAGTTTCTGAGAAGAAGATTTTTAAAGATTTACTCTATATATTCATTTGTTAAACT
1 CTGGCTGATTAGTTTCT--G-AGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACT
296147 TCGA-CCCCCATTGTGGCCCCACCCT
63 TCGACCCCCCATTGTGGCCCCACCCT
296172 CACATGAGCT
Statistics
Matches: 676, Mismatches: 62, Indels: 27
0.88 0.08 0.04
Matches are distributed among these distances:
326 22 0.03
327 175 0.26
328 142 0.21
329 123 0.18
330 6 0.01
331 3 0.00
332 148 0.22
333 21 0.03
335 1 0.00
337 35 0.05
ACGTcount: A:0.26, C:0.24, G:0.16, T:0.34
Consensus pattern (326 bp):
CTGGCTGATTAGTTTCTGAGAAGATTTTTAAAGATTTACTCTATATATTCATATGTTAAACTTCG
ACCCCCCATTGTGGCCCCACCCTACCCCCGGGGGTCATGATTTTCACAACTTTGAATCTACACTA
CCTGAGGATGCTTCCACACAAGTTTCAGCTTTGCCGGCTGATTAGTTTCTAGAAGAAGATTTTTA
AAGATTTACTCTAAATTCCTATGTTAAACTTCGATCTCCCATTGTGGCCCCACCCTACCCCCGGG
GGTCATGATTTTCACAAATTTGAATCTACATTACCTGATGATGCTTTCAAACAAGTTTTAGCTTT
C
Found at i:296315 original size:8 final size:9
Alignment explanation
Indices: 296294--296326 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
296284 TAATCTTTAG
296294 TTTTTAAGA
1 TTTTTAAGA
296303 TTTTTAAGA
1 TTTTTAAGA
296312 TTTTTAAG-
1 TTTTTAAGA
296320 TTTTTAA
1 TTTTTAA
296327 AGGGACTTGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 7 0.29
9 17 0.71
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.61
Consensus pattern (9 bp):
TTTTTAAGA
Found at i:298126 original size:8 final size:8
Alignment explanation
Indices: 298115--298148 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
298105 TAAAAAGTTT
298115 ACAGACGG
1 ACAGACGG
298123 ACAGACGG
1 ACAGACGG
*
298131 ACGGACGG
1 ACAGACGG
298139 AC-GACGG
1 ACAGACGG
298146 ACA
1 ACA
298149 AAATGTGATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 7 0.29
8 17 0.71
ACGTcount: A:0.35, C:0.26, G:0.38, T:0.00
Consensus pattern (8 bp):
ACAGACGG
Found at i:321157 original size:30 final size:30
Alignment explanation
Indices: 321121--321197 Score: 118
Period size: 30 Copynumber: 2.6 Consensus size: 30
321111 GCGCCGCCTT
* *
321121 TCCCTTGACCTACTTTTACTTCGTCTCCTG
1 TCCCTTGACCTACTTCTACTACGTCTCCTG
* *
321151 TCCCTTGACCTACTTCTACTACGTCTCTTT
1 TCCCTTGACCTACTTCTACTACGTCTCCTG
321181 TCCCTTGACCTACTTCT
1 TCCCTTGACCTACTTCT
321198 GTCCCTTGAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.12, C:0.38, G:0.08, T:0.43
Consensus pattern (30 bp):
TCCCTTGACCTACTTCTACTACGTCTCCTG
Found at i:321616 original size:19 final size:17
Alignment explanation
Indices: 321592--321630 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
321582 AGAAGAAGAC
321592 TTTTCTAATTCCCTTTTCT
1 TTTTCTAA-TCCCTTTT-T
*
321611 TTTTCTTATCCCTTTTT
1 TTTTCTAATCCCTTTTT
321628 TTT
1 TTT
321631 CTCTCACTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 4 0.21
18 8 0.42
19 7 0.37
ACGTcount: A:0.08, C:0.23, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTCTAATCCCTTTTT
Found at i:329044 original size:19 final size:18
Alignment explanation
Indices: 329008--329044 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
328998 ACGCCTGCCG
*
329008 ACGCCTGCCGGGGAAAAC
1 ACGCCTGCCGGAGAAAAC
329026 ACGCCTGCCGAGAGAAAAC
1 ACGCCTGCCG-GAGAAAAC
329045 CACACGCCTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.32, C:0.32, G:0.30, T:0.05
Consensus pattern (18 bp):
ACGCCTGCCGGAGAAAAC
Found at i:331587 original size:2 final size:2
Alignment explanation
Indices: 331580--331609 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
331570 TACCCCTACC
*
331580 GA GA GA GA GA TA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
331610 CTGGTCCCTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.47, T:0.03
Consensus pattern (2 bp):
GA
Found at i:333942 original size:13 final size:13
Alignment explanation
Indices: 333924--333962 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
333914 AACATATTGC
333924 AAAGTTCATATTT
1 AAAGTTCATATTT
333937 AAAGTTCATA--T
1 AAAGTTCATATTT
*
333948 AAAGTGCATATTT
1 AAAGTTCATATTT
333961 AA
1 AA
333963 TATTCATTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 10 0.43
13 13 0.57
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (13 bp):
AAAGTTCATATTT
Found at i:346522 original size:14 final size:14
Alignment explanation
Indices: 346503--346530 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
346493 AAAAAGACTA
346503 AATCTCTCTCTCTC
1 AATCTCTCTCTCTC
346517 AATCTCTCTCTCTC
1 AATCTCTCTCTCTC
346531 TCTCTCTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.43, G:0.00, T:0.43
Consensus pattern (14 bp):
AATCTCTCTCTCTC
Found at i:355854 original size:10 final size:10
Alignment explanation
Indices: 355819--355857 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
355809 CATGCGGTGC
355819 ATGAAGGTAT
1 ATGAAGGTAT
* *
355829 ATGAAAGTGT
1 ATGAAGGTAT
355839 ATGAAGGTAT
1 ATGAAGGTAT
355849 ATGAAGGTA
1 ATGAAGGTA
355858 GCGACATTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.41, C:0.00, G:0.31, T:0.28
Consensus pattern (10 bp):
ATGAAGGTAT
Found at i:356332 original size:48 final size:48
Alignment explanation
Indices: 356261--356359 Score: 189
Period size: 48 Copynumber: 2.1 Consensus size: 48
356251 AATCTCAAAT
*
356261 TCATGTTAATATACAAATATTACAACACCCATTATCCTGATATCAGTA
1 TCATGTTAATAAACAAATATTACAACACCCATTATCCTGATATCAGTA
356309 TCATGTTAATAAACAAATATTACAACACCCATTATCCTGATATCAGTA
1 TCATGTTAATAAACAAATATTACAACACCCATTATCCTGATATCAGTA
356357 TCA
1 TCA
356360 ATAATATCTA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 50 1.00
ACGTcount: A:0.40, C:0.21, G:0.06, T:0.32
Consensus pattern (48 bp):
TCATGTTAATAAACAAATATTACAACACCCATTATCCTGATATCAGTA
Found at i:359173 original size:18 final size:19
Alignment explanation
Indices: 359139--359183 Score: 67
Period size: 18 Copynumber: 2.5 Consensus size: 19
359129 ATCAGGGACA
*
359139 TATACACTAGATGTACATG
1 TATATACTAGATGTACATG
359158 TATATACTAG-TGTACATG
1 TATATACTAGATGTACATG
359176 TA-ATACTA
1 TATATACTA
359184 TACATTCTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 6 0.24
18 10 0.40
19 9 0.36
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (19 bp):
TATATACTAGATGTACATG
Found at i:361563 original size:18 final size:19
Alignment explanation
Indices: 361540--361582 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
361530 AATCAAGATT
*
361540 TTTTAT-TATTATACATA-A
1 TTTTATGTAGTATA-ATAGA
361558 TTTTATGTAGTATAATAGA
1 TTTTATGTAGTATAATAGA
361577 TTTTAT
1 TTTTAT
361583 CATAAAGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 9 0.41
19 13 0.59
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (19 bp):
TTTTATGTAGTATAATAGA
Found at i:365991 original size:13 final size:13
Alignment explanation
Indices: 365973--365998 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
365963 AGTATTTGTC
365973 AAAATGTTACATG
1 AAAATGTTACATG
365986 AAAATGTTACATG
1 AAAATGTTACATG
365999 GACCATGACA
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:0.46, C:0.08, G:0.15, T:0.31
Consensus pattern (13 bp):
AAAATGTTACATG
Found at i:374687 original size:180 final size:180
Alignment explanation
Indices: 374374--374832 Score: 776
Period size: 180 Copynumber: 2.6 Consensus size: 180
374364 GTGAAATGGA
* *
374374 GTACCCTATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTAGTGTTTTTTC-ATAAA
1 GTACCCTATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTCGATAAA
* * * *
374438 TAATGAGAAATCAAAATCCTAGCAATATGCACACCTCTGATATATGTACAATTGATCTGCAAAAG
66 TTATCAGAAATCAAAATCCTAGCAATATGCACACCTCTAATATAAGTACAATTGATCTGCAAAAG
* *
374503 AACAATTTCCTATCTTGAGAACTGTAGGAGGAGTTATCCGTACAATGAGG
131 AACAACTTCCTATCTTGAGAACTGTAGGAGGAGTTATCCGTACAATGAAG
* *
374553 GTACCCTATATGCAATATTTTGCCAAAAAATGATTAATTTCAAAAGCTGGTATTTTTTCGATAAA
1 GTACCCTATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTCGATAAA
* *
374618 TTATCAGAAATAAAAATCCTAGCAATATGCCCACCTCTAATATAAGTACAATTGATCTGCAAAAG
66 TTATCAGAAATCAAAATCCTAGCAATATGCACACCTCTAATATAAGTACAATTGATCTGCAAAAG
*
374683 AACAACTTCCTATCTTTAGAACTGTAGGAGGAGTTATCCGTACAATGAAG
131 AACAACTTCCTATCTTGAGAACTGTAGGAGGAGTTATCCGTACAATGAAG
374733 GTACCCTATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTCGATAAA
1 GTACCCTATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTCGATAAA
**
374798 TTATCAGAAATCAAAATCCTAATAATATGCACACC
66 TTATCAGAAATCAAAATCCTAGCAATATGCACACC
374833 CAATTCGGCT
Statistics
Matches: 260, Mismatches: 19, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
179 55 0.21
180 205 0.79
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.30
Consensus pattern (180 bp):
GTACCCTATATGCAATATTTTGCCAAAAAATGACTAAGTTCAAAAGCTGGTATTTTTTCGATAAA
TTATCAGAAATCAAAATCCTAGCAATATGCACACCTCTAATATAAGTACAATTGATCTGCAAAAG
AACAACTTCCTATCTTGAGAACTGTAGGAGGAGTTATCCGTACAATGAAG
Found at i:384759 original size:45 final size:45
Alignment explanation
Indices: 384695--384802 Score: 144
Period size: 45 Copynumber: 2.4 Consensus size: 45
384685 AAATTATTAC
* * *
384695 TTTAGTAGAACTGTCACACTGAATTATAACACTAAATGTCACATA
1 TTTAGTAGAACTGCCACACTGAACTATAACACTAAATGTCACACA
* * *
384740 TTTAGTGGAATTGCCACACTGAACTGTAACACTAAATGTCACACA
1 TTTAGTAGAACTGCCACACTGAACTATAACACTAAATGTCACACA
* *
384785 TTTAGTAAAACTGTCACA
1 TTTAGTAGAACTGCCACA
384803 TTGGATTACA
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (45 bp):
TTTAGTAGAACTGCCACACTGAACTATAACACTAAATGTCACACA
Found at i:393213 original size:21 final size:21
Alignment explanation
Indices: 393200--393274 Score: 132
Period size: 21 Copynumber: 3.6 Consensus size: 21
393190 ATTTTAATGA
*
393200 TATGCTACGAGATTTGTATGG
1 TATGCTATGAGATTTGTATGG
393221 TATGCTATGAGATTTGTATGG
1 TATGCTATGAGATTTGTATGG
*
393242 TATGCTATGAGATTTGTATGC
1 TATGCTATGAGATTTGTATGG
393263 TATGCTATGAGA
1 TATGCTATGAGA
393275 AATTGAAATG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 52 1.00
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (21 bp):
TATGCTATGAGATTTGTATGG
Found at i:393313 original size:10 final size:10
Alignment explanation
Indices: 393298--393331 Score: 68
Period size: 10 Copynumber: 3.4 Consensus size: 10
393288 GGCTTAATGA
393298 TATGGTATGC
1 TATGGTATGC
393308 TATGGTATGC
1 TATGGTATGC
393318 TATGGTATGC
1 TATGGTATGC
393328 TATG
1 TATG
393332 AGATTTGAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.21, C:0.09, G:0.29, T:0.41
Consensus pattern (10 bp):
TATGGTATGC
Found at i:393553 original size:21 final size:21
Alignment explanation
Indices: 393527--393581 Score: 110
Period size: 21 Copynumber: 2.6 Consensus size: 21
393517 ATGAGATTGT
393527 ATGCTATGCTATGAGATTCCA
1 ATGCTATGCTATGAGATTCCA
393548 ATGCTATGCTATGAGATTCCA
1 ATGCTATGCTATGAGATTCCA
393569 ATGCTATGCTATG
1 ATGCTATGCTATG
393582 CTATGCTATG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (21 bp):
ATGCTATGCTATGAGATTCCA
Found at i:395114 original size:107 final size:107
Alignment explanation
Indices: 394928--395141 Score: 392
Period size: 107 Copynumber: 2.0 Consensus size: 107
394918 TACTTATAGA
394928 GAATATATGTATTACTAATATAAAAATGTACAATCATAAGTATTTGTAGAAGCATTTTTGACTTT
1 GAATATATGTATTACTAATATAAAAATGTACAATCATAAGTATTTGTAGAAGCATTTTTGACTTT
*
394993 AAAGATTATAGGACTGAGTGAAATGTATGGATAAAACTAAAC
66 AAAGATAATAGGACTGAGTGAAATGTATGGATAAAACTAAAC
* *
395035 GAATATATGTATTACTAATATCAAAATGTACAATCATGAGTATTTGTAGAAGCATTTTTGACTTT
1 GAATATATGTATTACTAATATAAAAATGTACAATCATAAGTATTTGTAGAAGCATTTTTGACTTT
*
395100 AACGATAATAGGACTGAGTGAAATGTATGGATAAAACTAAAC
66 AAAGATAATAGGACTGAGTGAAATGTATGGATAAAACTAAAC
395142 AGCACATGTT
Statistics
Matches: 103, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
107 103 1.00
ACGTcount: A:0.42, C:0.08, G:0.16, T:0.33
Consensus pattern (107 bp):
GAATATATGTATTACTAATATAAAAATGTACAATCATAAGTATTTGTAGAAGCATTTTTGACTTT
AAAGATAATAGGACTGAGTGAAATGTATGGATAAAACTAAAC
Found at i:408889 original size:2 final size:2
Alignment explanation
Indices: 408882--408966 Score: 152
Period size: 2 Copynumber: 42.5 Consensus size: 2
408872 AGGTGCACTG
* *
408882 GA GA GA GA GA GA GA GA GA GA GA CA GA CA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
408924 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
408966 G
1 G
408967 NGCTATACAT
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.49, C:0.02, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Done.