Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 193 of 444
Found at i:53879480 original size:29 final size:29
Alignment explanation
Indices: 53879415--53879529 Score: 101
Period size: 29 Copynumber: 4.0 Consensus size: 29
53879405 GCATGAGTAT
* * *
53879415 AATATGATTTGGGCCTAATGGGTCATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
* *
53879444 AA-AGTGAATTGGGCCTAGTGGGCCGTAAG
1 AATA-TGAATTGGGCCTAGTGGGCCATATG
* *
53879473 AATATGAACTGGGCC-AGATGGGCCATTTG
1 AATATGAATTGGGCCTAG-TGGGCCATATG
* * *
53879502 AATAAG-ATTGGGCCTAGTGAGCTATATG
1 AATATGAATTGGGCCTAGTGGGCCATATG
53879530 CATGTATGTA
Statistics
Matches: 68, Mismatches: 14, Indels: 9
0.75 0.15 0.10
Matches are distributed among these distances:
28 18 0.26
29 49 0.72
30 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (29 bp):
AATATGAATTGGGCCTAGTGGGCCATATG
Found at i:53903183 original size:29 final size:28
Alignment explanation
Indices: 53903138--53903230 Score: 116
Period size: 29 Copynumber: 3.2 Consensus size: 28
53903128 GTGAGCATGA
*
53903138 ATATAAATGTGACTTGGGCCTAATGGGCC
1 ATATACATGTGA-TTGGGCCTAATGGGCC
53903167 ATATACATGTGATTTGGGCCTAATGGGCC
1 ATATACATGTGA-TTGGGCCTAATGGGCC
* *
53903196 ATATGA-ATATGATTGGGCTTAATGGGCC
1 ATAT-ACATGTGATTGGGCCTAATGGGCC
*
53903224 AGATACA
1 ATATACA
53903231 GGTATGTGAA
Statistics
Matches: 57, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
27 1 0.02
28 19 0.33
29 36 0.63
30 1 0.02
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (28 bp):
ATATACATGTGATTGGGCCTAATGGGCC
Found at i:53907503 original size:29 final size:28
Alignment explanation
Indices: 53907446--53907526 Score: 83
Period size: 29 Copynumber: 2.9 Consensus size: 28
53907436 TAAATGTGAC
*
53907446 TTGGGCCTAATGGGCCATATACAGGTGA
1 TTGGGCCTAATGGGCCATATACAGATGA
* *
53907474 TTTTGGCCTAATGGGCCATATGA-ATATGA
1 -TTGGGCCTAATGGGCCATAT-ACAGATGA
* * *
53907503 TTGGGCTTAATGGGCTAGATACAG
1 TTGGGCCTAATGGGCCATATACAG
53907527 GTATGTGAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
27 1 0.02
28 17 0.40
29 23 0.55
30 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.30
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATACAGATGA
Found at i:53909210 original size:23 final size:23
Alignment explanation
Indices: 53909182--53909240 Score: 118
Period size: 23 Copynumber: 2.6 Consensus size: 23
53909172 GTTCCAAAGG
53909182 ACACGGGCGTGTGCAATGTCTCC
1 ACACGGGCGTGTGCAATGTCTCC
53909205 ACACGGGCGTGTGCAATGTCTCC
1 ACACGGGCGTGTGCAATGTCTCC
53909228 ACACGGGCGTGTG
1 ACACGGGCGTGTG
53909241 AGACATTAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.17, C:0.29, G:0.34, T:0.20
Consensus pattern (23 bp):
ACACGGGCGTGTGCAATGTCTCC
Found at i:53910485 original size:40 final size:40
Alignment explanation
Indices: 53910434--53910567 Score: 148
Period size: 40 Copynumber: 3.4 Consensus size: 40
53910424 CGTTTGAATG
* *
53910434 AAAAA-CGCCGCTAAAGATCGAGCATTAGCGGCGTTTTTT
1 AAAAAGCGCCGCTAAAGATCGACCTTTAGCGGCGTTTTTT
* *
53910473 AAAAAGCGCCGCTATAGGTAC-ACCTTTAGCGGCGTTTTTT
1 AAAAAGCGCCGCTAAAGAT-CGACCTTTAGCGGCGTTTTTT
* * * * *
53910513 AAAAAGCGCCGCTAATGCTTGATCTTTAGCGGCGTTTTTC
1 AAAAAGCGCCGCTAAAGATCGACCTTTAGCGGCGTTTTTT
*
53910553 AGAAAGCGCCG-TAAA
1 AAAAAGCGCCGCTAAA
53910568 AGAGTTTTGC
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 8 0.10
40 71 0.89
41 1 0.01
ACGTcount: A:0.28, C:0.22, G:0.23, T:0.27
Consensus pattern (40 bp):
AAAAAGCGCCGCTAAAGATCGACCTTTAGCGGCGTTTTTT
Found at i:53910695 original size:40 final size:40
Alignment explanation
Indices: 53910612--53910717 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 40
53910602 CTTTTAGTGG
* *
53910612 CTTTAGCGGCGCTTTTTAAAAA-CGCCGCTATAGGTACAC
1 CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGCTACAC
* *
53910651 CTTTAGCGGCGTTTTTTAAAAAGTGCCGCT-TATGCT-CGAT
1 CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTATA-GCTAC-AC
*
53910691 CTTTAGCGGCGTTTTTAAAAAAGCGCC
1 CTTTAGCGGCGTTTTTTAAAAAGCGCC
53910718 ACAAAAAACA
Statistics
Matches: 58, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
39 24 0.41
40 34 0.59
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.32
Consensus pattern (40 bp):
CTTTAGCGGCGTTTTTTAAAAAGCGCCGCTATAGCTACAC
Found at i:53911365 original size:332 final size:320
Alignment explanation
Indices: 53910870--53911469 Score: 986
Period size: 332 Copynumber: 1.8 Consensus size: 320
53910860 AATATTTGTT
*
53910870 AAAAATGAAAAAATGAAAATACTATTATTTAAAATAATTTTAAAGATTTTTGGTATATGACTGAT
1 AAAAATGAAAAAATGAAAATACTATTATTTAAAATAATTTTAAAGATTTTTGGTATATGACTAAT
53910935 TGTTTTTTAATTTATATGTTAAATATTTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTAA
66 TGTTTTTTAATTTATATGTTAAATATTTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTAA
53911000 AATATTGAATTAATTATCATTATAGTATAGGGTTTACGGTATACGGTATACAATTAAGGGTTTAA
131 AATATTGAATTAATTATCATTATAGTATAGGGTTTACGGTAT----T-T--AATTAAGGGTTTAA
53911065 TGTTTATGAGTTACTATTTTAAGGTTTATAGATTATGGGTTTAGGGATCATGGTTTAAGGGTAGC
189 TGTTTATGAGTTACTATTTTAAGGTTTATAGATTATGGGTTTAGGGATCATGGTTT-AGGGT---
53911130 TTAA-GGTTGGGGTTTAAGGTTTCACTACAGTAAAACATGTTTTTAGCGGTGTTTTTTGAAAAAC
250 TTAAGGGTTGGGGTTTAAGGTTTCACTACAGTAAAACATGTTTTTAGCGGTGTTTTTTGAAAAAC
53911194 GCCACA
315 GCCACA
* *
53911200 AAAAATGAAAAAAAATTAAAATACTATTATTTAAAATAATTTTAAAGATTTTTTGTATATGACTA
1 AAAAATG--AAAAAATGAAAATACTATTATTTAAAATAATTTTAAAGATTTTTGGTATATGACTA
*
53911265 ATTGTTTTTTAATTTATATGTTAAATATTTTCTTATATAATTGTAAAAGAGATAGTGTTAATTTT
64 ATTGTTTTTTAATTTATATGTTAAATATTTTCTTATATAATTGTAAAAGAGATAGTATTAATTTT
* **
53911330 AAAATATTGAATTAATTATCATTATAGTTTAGGGTTTACGGTATTTGGTTAAGGGTTTAATGTTT
129 AAAATATTGAATTAATTATCATTATAGTATAGGGTTTACGGTATTTAATTAAGGGTTTAATGTTT
* * *
53911395 ATGAGTTACTATTTTAAGGTTTATGGATTATGGGTTTAGGGATTATGGTTTATGGTTTAAGGGTT
194 ATGAGTTACTATTTTAAGGTTTATAGATTATGGGTTTAGGGATCATGGTTTAGGGTTTAAGGGTT
53911460 GGGGTTTAAG
259 GGGGTTTAAG
53911470 ACTTAGGGTT
Statistics
Matches: 257, Mismatches: 10, Indels: 14
0.91 0.04 0.05
Matches are distributed among these distances:
321 4 0.02
322 14 0.05
324 4 0.02
325 66 0.26
327 1 0.00
328 1 0.00
330 7 0.03
332 160 0.62
ACGTcount: A:0.35, C:0.04, G:0.18, T:0.43
Consensus pattern (320 bp):
AAAAATGAAAAAATGAAAATACTATTATTTAAAATAATTTTAAAGATTTTTGGTATATGACTAAT
TGTTTTTTAATTTATATGTTAAATATTTTCTTATATAATTGTAAAAGAGATAGTATTAATTTTAA
AATATTGAATTAATTATCATTATAGTATAGGGTTTACGGTATTTAATTAAGGGTTTAATGTTTAT
GAGTTACTATTTTAAGGTTTATAGATTATGGGTTTAGGGATCATGGTTTAGGGTTTAAGGGTTGG
GGTTTAAGGTTTCACTACAGTAAAACATGTTTTTAGCGGTGTTTTTTGAAAAACGCCACA
Found at i:53911432 original size:15 final size:15
Alignment explanation
Indices: 53911412--53911459 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
53911402 ACTATTTTAA
53911412 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
53911427 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
53911441 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
53911456 GGTT
1 GGTT
53911460 GGGGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:53911432 original size:22 final size:21
Alignment explanation
Indices: 53911407--53911456 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
53911397 GAGTTACTAT
*
53911407 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
* *
53911429 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGATTATGG
53911450 TTTAAGG
1 TTTAAGG
53911457 GTTGGGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:53911744 original size:22 final size:22
Alignment explanation
Indices: 53911719--53911761 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
53911709 ATTTATGATA
* * *
53911719 TAGGGTTTTGGGTTTAGGGGTT
1 TAGGGGTTGGGGTTTAAGGGTT
53911741 TAGGGGTTGGGGTTTAAGGGT
1 TAGGGGTTGGGGTTTAAGGGT
53911762 AAATATAGTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.49, T:0.40
Consensus pattern (22 bp):
TAGGGGTTGGGGTTTAAGGGTT
Found at i:53912622 original size:25 final size:25
Alignment explanation
Indices: 53912573--53912645 Score: 107
Period size: 25 Copynumber: 3.0 Consensus size: 25
53912563 TTTCCTCAAA
*
53912573 TCGGTAG-CC-CT-CTGCATCTCTG
1 TCGGTAGCCCGCTGCTGTATCTCTG
53912595 TCGGTAGCCCGCTGCTGTATCTCTG
1 TCGGTAGCCCGCTGCTGTATCTCTG
*
53912620 TCGGTAGCCCGCTGTTGTATCTCTG
1 TCGGTAGCCCGCTGCTGTATCTCTG
53912645 T
1 T
53912646 TGACATCTGC
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
22 7 0.15
23 2 0.04
24 2 0.04
25 35 0.76
ACGTcount: A:0.08, C:0.32, G:0.26, T:0.34
Consensus pattern (25 bp):
TCGGTAGCCCGCTGCTGTATCTCTG
Found at i:53914917 original size:23 final size:23
Alignment explanation
Indices: 53914889--53918543 Score: 2520
Period size: 23 Copynumber: 159.7 Consensus size: 23
53914879 AAATATTGTT
* *
53914889 AATTGAGGTG-TTAAAGTGCTACA
1 AATTGAAGTGTTTAAA-TGCTGCA
* *
53914912 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53914935 AATTGAAATGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53914958 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53914981 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** * *
53915004 AATTGAAGTGTTTAGTTGTTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* ** *
53915027 TATTG-AGATGTTT-TCTCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
53915049 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
53915072 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* *
53915095 AATTGAAGTGCTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53915118 AATTGAAGTG-TTAAAGAGTTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* *
53915141 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53915164 AATTGAAGTGTTTAAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53915187 AATTGAAGT-CTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* ** *
53915209 AATTGAAGTGTTTAAGTATTGAA
1 AATTGAAGTGTTTAAATGCTGCA
** *
53915232 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * * *
53915255 CA-TGGAGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
53915277 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
53915300 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* *
53915323 AATTGAAGTGCTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53915346 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53915369 AATTGAAGTGTTTAAATACTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53915392 AATTGAAGTGCTTAAATGTTGAA
1 AATTGAAGTGTTTAAATGCTGCA
** *
53915415 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * * *
53915438 CATTG-AGATGTTTTAACGCTG-T
1 AATTGAAG-TGTTTAAATGCTGCA
* * * **
53915460 AATTGACGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
53915483 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* * *
53915506 AATTGAAGTGCTTAAATGATGTA
1 AATTGAAGTGTTTAAATGCTGCA
53915529 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* *
53915552 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
*
53915575 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53915598 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53915621 AATTTAAGTGTTTAAGTACTG-A
1 AATTGAAGTGTTTAAATGCTGCA
** *
53915643 AATTTGAAGTGTTTAGTTGCTGGA
1 AA-TTGAAGTGTTTAAATGCTGCA
* * * *
53915667 CA-TGGAGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
53915689 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
53915712 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* *
53915735 AATTGAAGTGATTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
53915758 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* **
53915781 AATTGAAGTGTTTGAATGCTATA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53915804 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53915827 AATTGATGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53915850 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* ** *
53915873 AATTGAAATGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53915896 CATTG-AGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * * **
53915918 AACTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
*
53915941 AATTG-AGATG-TAAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* * *
53915964 AATTGACGTGCTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
53915987 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
*
53916010 AATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
*
53916033 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53916056 AATTGAAGGGTTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53916079 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* ** *
53916102 AATTGTAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53916125 CATTG-AGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
** * * **
53916147 AATTGGGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
*
53916170 AATTG-AGATG-TAAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* *
53916193 AATTGAAGTGCTTAAATGCTGAA
1 AATTGAAGTGTTTAAATGCTGCA
53916216 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* *
53916239 AACTGAAGTGTTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53916262 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* * ** *
53916285 AATTGTAGTGTTCAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53916308 CATTG-AGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
** * * **
53916330 AATTGGGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
*
53916353 AATTG-AGATG-TAAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* *
53916376 AATTGAAGTGCTTAAATGCTGAA
1 AATTGAAGTGTTTAAATGCTGCA
53916399 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* *
53916422 AACTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
**
53916445 AATTGAAGTGTTTAAATGCTATA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53916468 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53916491 AATAGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** *
53916514 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53916537 CATTG-AGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
53916559 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
*
53916582 AATTG-AGATG-TAAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* *
53916605 AATTGAAGTGCTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
53916628 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
*
53916651 AATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
*
53916674 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53916697 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53916720 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** *
53916743 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53916766 CATTG-AGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
53916788 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
* *
53916811 AATTG-AGATG-TAAAAGTGCTACA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* * *
53916834 AATTGAAGTGCTTAAATGTTGTA
1 AATTGAAGTGTTTAAATGCTGCA
53916857 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
*
53916880 AATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
**
53916903 AATTGAAGTGTTTAAATGCTATA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53916926 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53916949 AATAGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* ** *
53916972 AATTAAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53916995 CATTG-AGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
53917017 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
* *
53917040 AATTG-AGATG-TAAAAGTGCTGAA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* *
53917063 AATTGAAGTGCTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
53917086 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
*
53917109 AATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
*
53917132 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53917155 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53917178 AATTGAAGTGTTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** *
53917201 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53917224 CATTG-AGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
53917246 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
*
53917269 AATTG-AGATG-TAAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* *
53917292 AATTGAAGTGCTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
53917315 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
*
53917338 AATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
*
53917361 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53917384 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* * **
53917407 AATTGAAGTGTTTAAGTACTATA
1 AATTGAAGTGTTTAAATGCTGCA
* ** *
53917430 AATTAAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53917453 CATTG-AGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * * *
53917475 AATTCAGGTGTATAAATGTTGTTA
1 AATTGAAGTGTTTAAATGCTG-CA
* * *
53917499 ATTTTG-A-TG-TAAAAGTGCTACA
1 A-ATTGAAGTGTTTAAA-TGCTGCA
* *
53917521 AATTGAAGTGCTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
53917544 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* *
53917567 AATTGAAGTGTTTGAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
*
53917590 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53917613 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** * *
53917636 AATTGAAGTGTTTAGGTACTGAA
1 AATTGAAGTGTTTAAATGCTGCA
* ** *
53917659 AATTTAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * * *
53917682 CA-TGGAGATGTTT-TATCGCT-CT
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
53917704 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
53917727 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* *
53917750 AATTGAAGTGCTTAAATGCTGAA
1 AATTGAAGTGTTTAAATGCTGCA
53917773 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
* **
53917796 AATTGAAGTGTTTGAATGCTATA
1 AATTGAAGTGTTTAAATGCTGCA
*
53917819 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53917842 AATTGATGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** *
53917865 AATTGAAGTGTTTAGGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
** *
53917888 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53917911 CATTG-AGATGTTT-TATCGCTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
53917933 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53917956 AATTGAAATGTATAAGTGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
*
53917979 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
*
53918002 AATTGAAGTG-TTAAAGTGCTGGA
1 AATTGAAGTGTTTAAA-TGCTGCA
* *
53918025 AATTGAAGTGTTTGAATGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
*
53918048 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53918071 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53918094 AATTGAAGTGTTTAAGTACTACA
1 AATTGAAGTGTTTAAATGCTGCA
** *
53918117 AATTGAAGTGTTTAGTTGCTGGA
1 AATTGAAGTGTTTAAATGCTGCA
* * * *
53918140 CATTG-AGATGTTT-TATCACTG-T
1 AATTGAAG-TGTTTAAAT-GCTGCA
* * * **
53918162 AATTGAGGTGTATAAATGTTGTT
1 AATTGAAGTGTTTAAATGCTGCA
*
53918185 AATTG-AGATG-TAAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
* **
53918208 AATTGAAGTGCTTAAATGCTGTG
1 AATTGAAGTGTTTAAATGCTGCA
53918231 AATTGAAGTG-TTAAAGTGCTGCA
1 AATTGAAGTGTTTAAA-TGCTGCA
*
53918254 AATTGAAGTGTTTGAATGCTGCA
1 AATTGAAGTGTTTAAATGCTGCA
*
53918277 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53918300 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* * *
53918323 AATTGAAGTATTTAAGTACTGCA
1 AATTGAAGTGTTTAAATGCTGCA
* **
53918346 AATTGCAGTGTTTAGTTGCTAG-A
1 AATTGAAGTGTTTAAATGCT-GCA
* *
53918369 CATTG-AGATGTTT-TAT-C-GCTA
1 AATTGAAG-TGTTTAAATGCTGC-A
* * **
53918390 TAATTGAGGTGTTTAAATGTTGTT
1 -AATTGAAGTGTTTAAATGCTGCA
53918414 AATTG-AGATG-TTAAAGTGCTGCA
1 AATTGAAG-TGTTTAAA-TGCTGCA
*
53918437 AATTGAAGTG-TTAAAGTGCTGGA
1 AATTGAAGTGTTTAAA-TGCTGCA
* *
53918460 AATTGAAGTGTTTGAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
*
53918483 AATTGAAGTGTTTAAATGCTGTA
1 AATTGAAGTGTTTAAATGCTGCA
* *
53918506 AATTGAAGTGCTTAAATGTTGCA
1 AATTGAAGTGTTTAAATGCTGCA
53918529 AATTGAAGTGTTTAA
1 AATTGAAGTGTTTAA
53918544 GTACTTATTT
Statistics
Matches: 2870, Mismatches: 586, Indels: 352
0.75 0.15 0.09
Matches are distributed among these distances:
19 1 0.00
21 5 0.00
22 376 0.13
23 2328 0.81
24 157 0.05
25 3 0.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (23 bp):
AATTGAAGTGTTTAAATGCTGCA
Found at i:53915100 original size:114 final size:114
Alignment explanation
Indices: 53914929--53915816 Score: 562
Period size: 114 Copynumber: 7.8 Consensus size: 114
53914919 GTGTTTGAAT
* * * * *
53914929 GCTGTAAATTGAAATGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTT
1 GCTGTAAATTGAAGTGTATAAATGTTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAGTGCTT
* * * *
53914994 AAGTACTGCAAATTGAAGTGTTTAGTTGTTGGATATTGAGATGTTTTCTC
65 AAATACTGTAAATTGAAGTGTTTAGTTGTTGGAAATTGAGATGTTTTATC
* *
53915044 GCTGT-AATTGAGGTGTATAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGCT
1 GCTGTAAATTGAAGTGTATAAATGTTGTAAATTGAAG-TGTTAAA-TGCTGCAAATTGAAGTGCT
* * * * *
53915107 TAAATGCTGTAAATTGAAGTGTTAAAG-AGTTGCAAATTGA-AGTGTTTGAAT-
64 TAAATACTGTAAATTGAAGTGTT-TAGTTGTTGGAAATTGAGA-TGTTT-TATC
* * * *
53915158 GCTGTAAATTGAAGTGTTTAAATGTTGTAAATTGAAGTCTTAAATGTTGCAAATTGAAGTGTTTA
1 GCTGTAAATTGAAGTGTATAAATGTTGTAAATTGAAGTGTTAAATGCTGCAAATTGAAGTGCTTA
* * * * * *
53915223 AGTATTGAAAATTGAAGTGTTTAGTTGCTGGACATGGAGATGTTTTATC
66 AATACTGTAAATTGAAGTGTTTAGTTGTTGGAAATTGAGATGTTTTATC
* *
53915272 GCTGT-AATTGAGGTGTATAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGCT
1 GCTGTAAATTGAAGTGTATAAATGTTGTAAATTGAAG-TGTTAAA-TGCTGCAAATTGAAGTGCT
* * * * *
53915335 TAAATGCTGTAAATTGAAGTGTTT-GAATGCTGTAAATTGA-AGTGTTTAAAT-
64 TAAATACTGTAAATTGAAGTGTTTAG-TTGTTGGAAATTGAGA-TGTTT-TATC
* * ** * * *
53915386 ACTGTAAATTGAAGTGCT-TAAATGTTGAAAATTGAAGTGTTTAGTTGCTGGACATTG-AGATGT
1 GCTGTAAATTGAAGTG-TATAAATGTTGTAAATTGAAGTG-TTAAATGCTGCAAATTGAAG-TGC
* ** * * ** ** **
53915449 TTTAACGCTGT-AATTGACGTGTATAAATGTTGTTAATTGAGATGTTAAAGT-
63 TTAAATACTGTAAATTGAAGTGTTTAGTTGTTGGAAATTGAGATGTTTTA-TC
* * *
53915500 GCTGCAAATTGAAGTGCT-TAAATGATGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTT
1 GCTGTAAATTGAAGTG-TATAAATGTTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGCT
* * ** * * **
53915564 TGAATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGA-AGTGCTTAAAT-
64 TAAATACTGTAAATTGAAGTGTTTAGTTGTTGGAAATTGAGA-TG-TTTTATC
* * * * * ** ** * * *
53915615 GTTGCAAATTTAAGTGTTTAAGTACTG-AAATTTGAAGTGTTTAGTTGCTGGACA-TGGAGATG-
1 GCTGTAAATTGAAGTGTATAAATGTTGTAAA-TTGAAGTG-TTAAATGCTGCAAATTGAAG-TGC
** * * * ** ** **
53915677 TTTTATCGCTGT-AATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGT-
63 TTAAAT-ACTGTAAATTGAAGTGTTTAGTTGTTGGAAATTGAGATGTTTTA-TC
* * *
53915729 GCTGCAAATTGAAGTG-ATTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTT
1 GCTGTAAATTGAAGTGTA-TAAATGTTGTAAATTGAAGTGTTAAA-TGCTGCAAATTGAAGTGCT
* * *
53915793 TGAATGCTATAAATTGAAGTGTTT
64 TAAATACTGTAAATTGAAGTGTTT
53915817 GAATGCTGTA
Statistics
Matches: 622, Mismatches: 110, Indels: 82
0.76 0.14 0.10
Matches are distributed among these distances:
112 2 0.00
113 58 0.09
114 362 0.58
115 184 0.30
116 16 0.03
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (114 bp):
GCTGTAAATTGAAGTGTATAAATGTTGTAAATTGAAGTGTTAAATGCTGCAAATTGAAGTGCTTA
AATACTGTAAATTGAAGTGTTTAGTTGTTGGAAATTGAGATGTTTTATC
Found at i:53915294 original size:228 final size:229
Alignment explanation
Indices: 53914889--53915635 Score: 913
Period size: 228 Copynumber: 3.3 Consensus size: 229
53914879 AAATATTGTT
* * * *
53914889 AATTGAGGTGTTAAAGTGCTACAAATTGAAGTGTTTGAATGCTGTAAATTGAAATGTTTAAATGC
1 AATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGT
*
53914954 TGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAG
66 TGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGAAAATTGAAGTGTTTAG
* * * *
53915019 TTGTTGGATATTGAGATGTTTTCTCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTT
131 TTGCTGGACATGGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTT
53915084 AAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTA
196 AAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTA
* *
53915118 AATTGAAGTGTTAAAGAGTTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGT
1 AATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGT
*
53915183 TGTAAATTGAAGT-CTTAAATGTTGCAAATTGAAGTGTTTAAGTATTGAAAATTGAAGTGTTTAG
66 TGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGAAAATTGAAGTGTTTAG
53915247 TTGCTGGACATGGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTT
131 TTGCTGGACATGGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTT
53915312 AAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTA
196 AAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTA
* * * * *
53915346 AATTGAAGTGTTTGAA-TGCTGTAAATTGAAGTGTTTAAATACTGTAAATTGAAGTGCTTAAATG
1 AATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATG
* * ** * * * * *
53915410 TTGAAAATTGAAGTGTTTAGTTGCTGGACATTG-AGATGTTTTAACG--CTG-TAATTGACGTGT
65 TTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAG-TG-TTTAA-GTACTGAAAATTGAAGTGT
* ** * * * ** * * * *
53915471 ATAAATGTTGTTA-ATTGAGATGTTAAAGT-GCTGCAAATTGAAGTGCT-TAAATGATGTAAATT
127 TTAGTTGCTG-GACATGGAGATGTTTTA-TCGCTG-TAATTGAGGTG-TATAAATGTTGTTAATT
* *
53915533 GA-AGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTA
188 GAGA-TGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTA
* * * * * *
53915575 AATTGAAGTGTTTAAA-TGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTTAAGTGTTTAA
1 AATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAA
53915636 GTACTGAAAT
Statistics
Matches: 458, Mismatches: 50, Indels: 20
0.87 0.09 0.04
Matches are distributed among these distances:
228 243 0.53
229 208 0.45
230 6 0.01
231 1 0.00
ACGTcount: A:0.33, C:0.06, G:0.24, T:0.38
Consensus pattern (229 bp):
AATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGT
TGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGAAAATTGAAGTGTTTAG
TTGCTGGACATGGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTT
AAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTA
Found at i:53915598 original size:229 final size:229
Alignment explanation
Indices: 53914889--53918543 Score: 3630
Period size: 229 Copynumber: 16.0 Consensus size: 229
53914879 AAATATTGTT
* * * * * * *
53914889 AATTGAGGTGTTAAAGTGCTACAAATTGAAGTGTTTGAATGCTGTAAATTGAAATGTTTAAAT-G
1 AATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGATG-TTAAATCG
** ** * *
53914953 CTGTAAATTGAAGTGCT-TAAATGTTGCAAATTGA-AGTGTTTAAGTACTGCAAATTGAAGTGTT
65 CTG-AAATTGAAGTG-TATAAATGTTGTTAATTGAGA-TGTAAAAGTGCTGCAAATTGAAGTGCT
** * * * *** * * * * **
53915016 TAGTTGTTGGATATTG-AGATGTT-TTCTCGCTG-TAATTGAGGTGTATAAATGTTGTTAATTG-
127 TAAATGCTGTAAATTGAAG-TGTTAAAGT-GCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGA
* *
53915077 AGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTA
190 AG-TGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGTTGCA
* * * *
53915118 AATTGAAGTGTTAAAG-AGTTGCAAATTGAAGTGTTTGAATGCTGTAAATTGA-AGTGTTTAAAT
1 AATTGAAGTGTTTAAGTA-CTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGA-TG-TTAAAT
* * ** ** ** * *
53915181 -GTTGTAAATTGAAGTCT-TAAATGTTGCAAATTGA-AGTGTTTAAGTATTGAAAATTGAAGTGT
63 CGCTG-AAATTGAAGTGTATAAATGTTGTTAATTGAGA-TGTAAAAGTGCTGCAAATTGAAGTGC
** * * * ** * * * * **
53915243 TTAGTTGCTGGACA-TGGAGATGTTTTA-TCGCTG-TAATTGAGGTGTATAAATGTTGTTAATTG
126 TTAAATGCTGTAAATTGAAG-TGTTAAAGT-GCTGCAAATTGAAGTGTTTAAATGCTGCAAATTG
* *
53915305 -AGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTA
189 AAG-TGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGTTGCA
* * * *
53915346 AATTGAAGTGTTTGAA-TGCTGTAAATTGAAGTGTTTAAATACTGTAAATTGA-AGTGCTTAAAT
1 AATTGAAGTGTTT-AAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGA-TG-TTAAAT
* * ** * * ** * * *
53915409 -GTTGAAAATTGAAGTGTTTAGTTGCTG-GACATTGAGATGTTTTAA-CGCTG-TAATTGACGTG
63 CGCTG-AAATTGAAGTGTATAAATGTTGTTA-ATTGAGATG-TAAAAGTGCTGCAAATTGAAGTG
* * * * *
53915470 -TATAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGATGTAAATT
125 CT-TAAATGCTGTAAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATT
* * * *
53915533 GAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTA
188 GAAGTGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGTTGCA
* * * * * * * *
53915575 AATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTTA-AGTGTTTAAGT-
1 AATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGA-TG-TTAAATC
* * ** * * * *** * *
53915638 ACTGAAATTTGAAGTGTTTAGTTGCTG-GACATGGAGATGTTTTA-TCGCTG-TAATTGAGGTG-
64 GCTGAAA-TTGAAGTGTATAAATGTTGTTA-ATTGAGATGTAAAAGT-GCTGCAAATTGAAGTGC
* * * *
53915699 TATAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGATTAAATGCTGTAAATTG
126 T-TAAATGCTGTAAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTG
* * * **
53915763 AAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTATA
189 AAGTGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGTTGCA
* * * * * * *
53915804 AATTGAAGTGTTTGAA-TGCTGTAAATTGATGTGCTTAAATGTTGCAAATTGA-AGTGTTTAAGT
1 AATTGAAGTGTTT-AAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGA-TG-TTAAAT
* * * ** * * *** * * *
53915867 -ACTGCAAATTGAAATGTTTAGTTGCTG-GACATTGAGATGTTTTA-TCGCTG-TAACTGAGGTG
63 CGCTG-AAATTGAAGTGTATAAATGTTGTTA-ATTGAGATGTAAAAGT-GCTGCAAATTGAAGTG
* * * * * *
53915928 -TATAAATGTTGTTAATTG-AGATGTAAAAGTGCTGCAAATTGACGTGCTTAAATGCTGTAAATT
125 CT-TAAATGCTGTAAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATT
* * *
53915991 GAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCA
188 GAAGTGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGTTGCA
* * * * * * *
53916033 AATTGAAGTGTTTAAATGCTGTAAATTGAAGGGTTTAAATGTTGCAAATTGA-AGTGTTTAAGT-
1 AATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGA-TG-TTAAATC
* * * ** * * *** * **
53916096 ACTGCAAATTGTAGTGTTTAGTTGCTG-GACATTGAGATGTTTTA-TCGCTG-TAATTGGGGTG-
64 GCTG-AAATTGAAGTGTATAAATGTTGTTA-ATTGAGATGTAAAAGT-GCTGCAAATTGAAGTGC
* * * * *
53916157 TATAAATGTTGTTAATTG-AGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGAAAATTG
126 T-TAAATGCTGTAAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTG
* *
53916221 AAGTGTTAAAGTGCTGCAAACTGAAGTGTTTAAATGTTGCA
189 AAGTGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGTTGCA
* * ** * **
53916262 AATTGAAGTGTTTAAGTACTGCAAATTGTAGTGTTCAGTTGCTGGACATTGAGATGTTTTATCGC
1 AATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGATGTTAAATCGC
* **
53916327 TGTAATTGGGGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAA
66 TGAAATTGAAGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAA
* * *
53916392 TGCTGAAAATTGAAGTGTTAAAGTGCTGCAAACTGAAGTGTTTGAATGCTGCAAATTGAAGTGTT
131 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTG-T
**
53916457 TAAA-TGCTATAAATTGAAGTGCTTAAATGTTGCA
195 TAAAGTGCTGCAAATTGAAGTGCTTAAATGTTGCA
* ** * **
53916491 AATAGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGC
1 AATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGATGTTAAATCGC
* *
53916556 TGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAA
66 TGAAATTGAAGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAA
*
53916621 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTT
131 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTG-T
*
53916686 TAAA-TGCTGTAAATTGAAGTGCTTAAATGTTGCA
195 TAAAGTGCTGCAAATTGAAGTGCTTAAATGTTGCA
** * **
53916720 AATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGC
1 AATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGATGTTAAATCGC
* * *
53916785 TGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTACAAATTGAAGTGCTTAAA
66 TGAAATTGAAGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAA
* *
53916850 TGTTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTT
131 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTG-T
**
53916915 TAAA-TGCTATAAATTGAAGTGCTTAAATGTTGCA
195 TAAAGTGCTGCAAATTGAAGTGCTTAAATGTTGCA
* * ** * **
53916949 AATAGAAGTGTTTAAGTACTGCAAATTAAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGC
1 AATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGATGTTAAATCGC
* * *
53917014 TGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGAAAATTGAAGTGCTTAAA
66 TGAAATTGAAGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAA
*
53917079 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTT
131 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTG-T
*
53917144 TAAA-TGCTGTAAATTGAAGTGCTTAAATGTTGCA
195 TAAAGTGCTGCAAATTGAAGTGCTTAAATGTTGCA
** * **
53917178 AATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGC
1 AATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGATGTTAAATCGC
* *
53917243 TGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAA
66 TGAAATTGAAGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAA
*
53917308 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTT
131 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTG-T
*
53917373 TAAA-TGCTGTAAATTGAAGTGCTTAAATGTTGCA
195 TAAAGTGCTGCAAATTGAAGTGCTTAAATGTTGCA
** * ** * **
53917407 AATTGAAGTGTTTAAGTACTATAAATTAAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGC
1 AATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGATGTTAAATCGC
* * * ** *
53917472 TGTAATTCAGGTGTATAAATGTTGTTAATTTTGATGTAAAAGTGCTACAAATTGAAGTGCTTAAA
66 TGAAATTGAAGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAA
* *
53917537 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTT
131 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTG-T
*
53917602 TAAA-TGCTGTAAATTGAAGTGCTTAAATGTTGCA
195 TAAAGTGCTGCAAATTGAAGTGCTTAAATGTTGCA
* * * ** * * **
53917636 AATTGAAGTGTTTAGGTACTGAAAATTTAAGTGTTTAGTTGCTGGACATGGAGATGTTTTATCGC
1 AATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGATGTTAAATCGC
** * *
53917701 TCTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAA
66 TGAAATTGAAGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAA
* * **
53917766 TGCTGAAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTATAAATTGAAGTGTT
131 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTG-T
* *
53917831 TAAA-TGCTGTAAATTGATGTGCTTAAATGTTGCA
195 TAAAGTGCTGCAAATTGAAGTGCTTAAATGTTGCA
* ** * **
53917865 AATTGAAGTGTTTAGGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGC
1 AATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGATGTTAAATCGC
* * * * *
53917930 TGTAATTGAGGTGTATAAATGTTGTTAATTGAAATGTATAAGTGCTGCAAATTGAAGTGTTTAAA
66 TGAAATTGAAGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAA
* * *
53917995 TGCTGTAAATTGAAGTGTTAAAGTGCTGGAAATTGAAGTGTTTGAATGCTGGAAATTGAAGTGTT
131 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTG-T
*
53918060 TAAA-TGCTGTAAATTGAAGTGCTTAAATGTTGCA
195 TAAAGTGCTGCAAATTGAAGTGCTTAAATGTTGCA
* ** * ** *
53918094 AATTGAAGTGTTTAAGTACTACAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCAC
1 AATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGATGTTAAATCGC
* *
53918159 TGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAA
66 TGAAATTGAAGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAA
* *
53918224 TGCTGTGAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTT
131 TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTG-T
*
53918289 TAAA-TGCTGTAAATTGAAGTGCTTAAATGTTGCA
195 TAAAGTGCTGCAAATTGAAGTGCTTAAATGTTGCA
* * ** * * **
53918323 AATTGAAGTATTTAAGTACTGCAAATTGCAGTGTTTAGTTGCTAGACATTGAGATGTTTTATCGC
1 AATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGATGTTAAATCGC
* * *
53918388 T-ATAATTGAGGTGTTTAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGTG-TTAA
66 TGA-AATTGAAGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAA
* * * *
53918451 AGTGCTGGAAATTGAAGTGTTTGAA-TGTTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGT
130 A-TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGT
* *
53918515 GCTTAAA-TGTTGCAAATTGAAGTGTTTAA
193 G-TTAAAGTGCTGCAAATTGAAGTGCTTAA
53918544 GTACTTATTT
Statistics
Matches: 3188, Mismatches: 206, Indels: 64
0.92 0.06 0.02
Matches are distributed among these distances:
227 3 0.00
228 285 0.09
229 2874 0.90
230 26 0.01
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (229 bp):
AATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAAATGCTGGAAATTGAGATGTTAAATCGC
TGAAATTGAAGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAA
TGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGCAAATTGAAGTGTT
AAAGTGCTGCAAATTGAAGTGCTTAAATGTTGCA
Found at i:53915936 original size:458 final size:458
Alignment explanation
Indices: 53915289--53918543 Score: 4064
Period size: 458 Copynumber: 7.2 Consensus size: 458
53915279 TTGAGGTGTA
* * *
53915289 TAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAA
1 TAAATGCTGTAAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAA
* * ** * * * ** *
53915353 GTGTTTGAATGCTGTAAATTGAAGTGTTTAAATACTGTAAATTGAAGTGCTTAAATGTTGAAAAT
65 GTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAAT
* *
53915418 TGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTAACGCTGTAATTGACGTGTATAAATGTTGTT
130 TGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTT
* *
53915483 AATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGATGTAAATTGAAGTGTTAAAGTGC
195 AATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGC
*
53915548 TGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAA
260 TGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAA
* *
53915613 ATGTTGCAAATTTAAGTGTTTAAGTACTG-AAATTTGAAGTGTTTAGTTGCTGGACATGGAGATG
325 ATGTTGCAAATTGAAGTGTTTAAGTACTGCAAA-TTGAAGTGTTTAGTTGCTGGACATTGAGATG
53915677 TTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAA
389 TTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAA
*
53915742 GTGAT
454 GTGCT
* *
53915747 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTATAAATTGAAG
1 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* *
53915812 TGTTTGAATGCTGTAAATTGATGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATT
66 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATT
* *
53915877 GAAATGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAACTGAGGTGTATAAATGTTGTTA
131 GAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
*
53915942 ATTGAGATGTAAAAGTGCTGCAAATTGACGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCT
196 ATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCT
* *
53916007 GCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGGGTTTAAA
261 GCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAA
*
53916072 TGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGTAGTGTTTAGTTGCTGGACATTGAGATGTT
326 TGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTT
* *
53916137 TTATCGCTGTAATTGGGGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGT
391 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGT
53916202 GCT
456 GCT
* * * *
53916205 TAAATGCTGAAAATTGAAGTGTTAAAGTGCTGCAAACTGAAGTGTTTAAATGTTGCAAATTGAAG
1 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* * * * *
53916270 TGTTTAAGTACTGCAAATTGTAGTG-TT-CA-GTTGC----T---G-G---ACA-T--TG---A-
66 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTA-AGTACTGCAAAT
* * * * * ** * * *
53916314 -GATGT-TTTA-TCGCTGTA-ATTGGGGTGTATAAAT-GTTGTTAATTGAGATGTA-AAAGTGCT
130 TGAAGTGTTTAGTTGCTGGACATTGAGATGT-TTTATCGCTG-TAATTGAGGTGTATAAA-TGTT
** * * * *
53916373 GCAAATTGA-AGTGCTTAAA-TGCTGAAAATTGAAGTG-TTAAAGTGCTGCAAACTGAAGTGTTT
192 GTTAATTGAGA-TG-TAAAAGTGCTGCAAATTGAAGTGCTTAAA-TGCTGTAAATTGAAGTG-TT
* * ** * * * *
53916435 GAA-TGCTGCAAATTGAAGTGTTTAAATGCTATAAATTGAAGTGCTTAAATGTTGCAAATAGAAG
253 AAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* * ** * * * * *
53916499 TGTTTAAGTACTGCAAATTGAAGTGTTT-AGTTGCTGGACATTG-AGATGTTTTA-TCGCTGTA-
318 TGCTTAAATGTTGCAAATTGAAGTGTTTAAG-TACTGCAAATTGAAG-TG-TTTAGTTGCTGGAC
* ** * * * **
53916560 ATTGAGGTGTATAAAT-GTTGTTAATTGAGATGTA-AAAGTGCTGCAAATTGA-AGTGCTTAAA-
380 ATTGAGATGT-TTTATCGCTG-TAATTGAGGTGTATAAA-TGTTGTTAATTGAGA-TG-TTAAAG
*
53916621 TGCTGTAAATTGAAGTG-T
440 TGCTGCAAATTGAAGTGCT
* *
53916639 TAAAGTGCTGCAAATTGAAGTGTTTGAA-TGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGA
1 TAAA-TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGA
* * * * * ** * * *
53916703 AGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTT-AGTTGCTGGAC
64 AGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAG-TACTGCAA
* * * ** * *
53916767 ATTG-AGATGTTTTA-TCGCTGTA-ATTGAGGTGTATAAAT-GTTGTTAATTGAGATGTA-AAAG
128 ATTGAAG-TG-TTTAGTTGCTGGACATTGAGATGT-TTTATCGCTG-TAATTGAGGTGTATAAA-
* *** * * * *
53916827 TGCTACAAATTGA-AGTGCTTAAA-TGTTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGT
188 TGTTGTTAATTGAGA-TG-TAAAAGTGCTGCAAATTGAAGTGCTTAAA-TGCTGTAAATTGAAGT
* * ** * * * *
53916889 GTTTGAA-TGCTGCAAATTGAAGTGTTTAAATGCTATAAATTGAAGTGCTTAAATGTTGCAAATA
250 G-TTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATT
* * ** * * * *
53916953 GAAGTGTTTAAGTACTGCAAATTAAAGTGTTT-AGTTGCTGGACATTG-AGATGTTT--TAT-C-
314 GAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAG-TACTGCAAATTGAAG-TGTTTAGT-TGCT
* *
53917012 -G-C--TGT----------------AATTGAGGTGTATAAATGTTGTTAATTGAGATGTAAAAGT
376 GGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGT
*
53917057 GCTGAAAATTGAAGTGCT
441 GCTGCAAATTGAAGTGCT
* *
53917075 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAG
1 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
53917140 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATT
66 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATT
53917205 GAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
131 GAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
53917270 ATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCT
196 ATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCT
53917335 GCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAA
261 GCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAA
** *
53917400 TGTTGCAAATTGAAGTGTTTAAGTACTATAAATTAAAGTGTTTAGTTGCTGGACATTGAGATGTT
326 TGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTT
* ** * *
53917465 TTATCGCTGTAATTCAGGTGTATAAATGTTGTTAATTTTGATGTAAAAGTGCTACAAATTGAAGT
391 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGT
53917530 GCT
456 GCT
*
53917533 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAG
1 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
* *
53917598 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAGGTACTGAAAATT
66 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATT
* * *
53917663 TAAGTGTTTAGTTGCTGGACATGGAGATGTTTTATCGCTCTAATTGAGGTGTATAAATGTTGTTA
131 GAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
* *
53917728 ATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGAAAATTGAAGTGTTAAAGTGCT
196 ATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCT
** *
53917793 GCAAATTGAAGTGTTTGAATGCTATAAATTGAAGTGTTTAAATGCTGTAAATTGATGTGCTTAAA
261 GCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAA
*
53917858 TGTTGCAAATTGAAGTGTTTAGGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTT
326 TGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTT
*
53917923 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAAATG-TATAAGTGCTGCAAATTGAAG
391 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTA-AAGTGCTGCAAATTGAAG
*
53917987 TGTT
455 TGCT
* * *
53917991 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGGAAATTGAAGTGTTTGAATGCTGGAAATTGAAG
1 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
*
53918056 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTACAAATT
66 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATT
*
53918121 GAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCACTGTAATTGAGGTGTATAAATGTTGTTA
131 GAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
*
53918186 ATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTGAATTGAAGTGTTAAAGTGCT
196 ATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCT
53918251 GCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAA
261 GCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAA
* * *
53918316 TGTTGCAAATTGAAGTATTTAAGTACTGCAAATTGCAGTGTTTAGTTGCTAGACATTGAGATGTT
326 TGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTT
* *
53918381 TTATCGCTATAATTGAGGTGTTTAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGT
391 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGT
53918446 G-T
456 GCT
* * *
53918448 TAAAGTGCTGGAAATTGAAGTGTTTGAA-TGTTGCAAATTGAAGTGTTTAAATGCTGTAAATTGA
1 TAAA-TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGA
* * * *
53918512 AGTGCTTAAATGTTGCAAATTGAAGTGTTTAA
64 AGTGTTTAAATGCTGTAAATTGAAGTGCTTAA
53918544 GTACTTATTT
Statistics
Matches: 2476, Mismatches: 228, Indels: 186
0.86 0.08 0.06
Matches are distributed among these distances:
434 65 0.03
435 568 0.23
436 65 0.03
437 5 0.00
438 3 0.00
439 2 0.00
440 1 0.00
442 5 0.00
444 2 0.00
445 2 0.00
446 1 0.00
447 2 0.00
448 1 0.00
449 1 0.00
451 3 0.00
452 2 0.00
454 1 0.00
455 6 0.00
456 5 0.00
457 11 0.00
458 1714 0.69
459 11 0.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (458 bp):
TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAG
TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATT
GAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
ATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCT
GCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAA
TGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATTGAGATGTT
TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGT
GCT
Found at i:53916223 original size:687 final size:686
Alignment explanation
Indices: 53915289--53918543 Score: 4880
Period size: 687 Copynumber: 4.8 Consensus size: 686
53915279 TTGAGGTGTA
* * * * *
53915289 TAAATGTTGTTAATTG-AGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAA
1 TAAATGCTGTAAATTGAAG-TGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAA
* * ** * * * ** *
53915353 GTGTTTGAATGCTGTAAATTGAAGTGTTTAAATACTGTAAATTGAAGTGCTTAAATGTTGAAAAT
65 GTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAAT
* *
53915418 TGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTAACGCTGTAATTGACGTGTATAAATGTTGTT
130 TGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTT
* *
53915483 AATTGAGATGTTAAAGTGCTGCAAATTGAAGTGCTTAAATGATGTAAATTGAAGTGTTAAAGTGC
195 AATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGC
*
53915548 TGCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAA
260 TGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAA
*
53915613 ATGTTGCAAATTTAAGTGTTTAAGTACTG-AAATTTGAAGTGTTTAGTTGCTGGACATGGAGATG
325 ATGTTGCAAATTGAAGTGTTTAAGTACTGCAAA-TTGAAGTGTTTAGTTGCTGGACATGGAGATG
53915677 TTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAA
389 TTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAA
53915742 GTGATTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTATAAAT
454 GTG-TTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTATAAAT
* *
53915807 TGAAGTGTTTGAATGCTGTAAATTGATGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGC
518 TGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGC
*
53915872 AAATTGAAATGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAACTGAGGTGTATAAATGT
583 AAATTGAAATGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGT
*
53915937 TGTTAATTGAGATGTAAAAGTGCTGCAAATTGACGTGCT
648 TGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCT
53915976 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAG
1 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAG
* *
53916041 TGTTTAAATGCTGTAAATTGAAGGGTTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATT
66 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATT
* *
53916106 GTAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGGGGTGTATAAATGTTGTTA
131 GAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
*
53916171 ATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGAAAATTGAAGTGTTAAAGTGCT
196 ATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCT
* * * * * * * *
53916236 GCAAACTGAAGTGTTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGTAGTG-TTCAG
261 GCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTT-AA
* * * * * * * *
53916300 TTGCTGGACATTG-AGATGTTTTA-TCGCTG-TAATTG--G-G----G-TG-T----AT--AAAT
325 ATGTTGCAAATTGAAG-TGTTTAAGT-ACTGCAAATTGAAGTGTTTAGTTGCTGGACATGGAGAT
* * ** *
53916347 G---T-T-G-T-TAATTGAGATGTA-AAAGTGCTGCAAATTGA-AGTGCTTAAA-TGCTGAAAAT
388 GTTTTATCGCTGTAATTGAGGTGTATAAA-TGTTGTTAATTGAGA-TG-TTAAAGTGCTGCAAAT
* * * *
53916402 TGAAGTGTTAAAGTGCTGCAAACTGAAGTGTTTGAA-TGCTGCAAATTGAAGTGTTTAAATGCTA
450 TGAAGTGTTAAA-TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTA
* * * * * * **
53916466 TAAATTGAAGTGCTTAAATGTTGCAAATAGAAGTGTTTAAGTACTGCAAATTGAAGTGTTT-AGT
513 TAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAG-
* * * * * *
53916530 TGCTGGACATTGAGATGTTTTA-TCGCT-G----T-A-A-----T-T-G-AG--------GTGTA
577 TACTGCAAATTGAAATG-TTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTA
53916571 TAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCT
641 TAAATGTTGTTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCT
53916617 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAG
1 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAG
53916682 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATT
66 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATT
53916747 GAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
131 GAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
* *
53916812 ATTGAGATGTAAAAGTGCTACAAATTGAAGTGCTTAAATGTTGTAAATTGAAGTGTTAAAGTGCT
196 ATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCT
*
53916877 GCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTATAAATTGAAGTGCTTAAA
261 GCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAA
* * *
53916942 TGTTGCAAATAGAAGTGTTTAAGTACTGCAAATTAAAGTGTTTAGTTGCTGGACATTGAGATGTT
326 TGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATGGAGATGTT
* *
53917007 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTAAAAGTGCTGAAAATTGAAGT
391 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGT
**
53917072 GCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTG
456 G-TTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTATAAATTG
53917137 AAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAA
520 AAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAA
*
53917202 ATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTG
585 ATTGAAATGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTG
53917267 TTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCT
650 TTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCT
53917304 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAG
1 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAG
**
53917369 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTATAAATT
66 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATT
* *
53917434 AAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTCAGGTGTATAAATGTTGTTA
131 GAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
** *
53917499 ATTTTGATGTAAAAGTGCTACAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCT
196 ATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCT
*
53917564 GCAAATTGAAGTGTTTGAATGCTGTAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAA
261 GCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAA
* * *
53917629 TGTTGCAAATTGAAGTGTTTAGGTACTGAAAATTTAAGTGTTTAGTTGCTGGACATGGAGATGTT
326 TGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATGGAGATGTT
*
53917694 TTATCGCTCTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGT
391 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGT
*
53917759 GCTTAAATGCTGAAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTATAAATTG
456 G-TTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTATAAATTG
* *
53917824 AAGTGTTTAAATGCTGTAAATTGATGTGCTTAAATGTTGCAAATTGAAGTGTTTAGGTACTGCAA
520 AAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAA
*
53917889 ATTGAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTG
585 ATTGAAATGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTG
* * *
53917954 TTAATTGAAATGTATAAGTGCTGCAAATTGAAGTGTT
650 TTAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCT
* *
53917991 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGGAAATTGAAGTGTTTGAATGCTGGAAATTGAAG
1 TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAG
*
53918056 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTACAAATT
66 TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATT
*
53918121 GAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCACTGTAATTGAGGTGTATAAATGTTGTTA
131 GAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
*
53918186 ATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTGAATTGAAGTGTTAAAGTGCT
196 ATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCT
53918251 GCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAA
261 GCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAA
* * * *
53918316 TGTTGCAAATTGAAGTATTTAAGTACTGCAAATTGCAGTGTTTAGTTGCTAGACATTGAGATGTT
326 TGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATGGAGATGTT
* *
53918381 TTATCGCTATAATTGAGGTGTTTAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGT
391 TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGT
* * * * *
53918446 GTTAAAGTGCTGGAAATTGAAGTGTTTGAA-TGTTGCAAATTGAAGTGTTTAAATGCTGTAAATT
456 GTTAAA-TGCTGTAAATTGAAGTG-TTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTATAAATT
* * * *
53918510 GAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAA
519 GAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAA
53918544 GTACTTATTT
Statistics
Matches: 2326, Mismatches: 173, Indels: 138
0.88 0.07 0.05
Matches are distributed among these distances:
641 372 0.16
642 9 0.00
644 1 0.00
645 1 0.00
649 2 0.00
650 3 0.00
651 2 0.00
652 1 0.00
655 2 0.00
657 5 0.00
658 1 0.00
659 1 0.00
660 1 0.00
661 1 0.00
662 1 0.00
663 25 0.01
664 300 0.13
665 26 0.01
666 1 0.00
667 1 0.00
668 1 0.00
669 1 0.00
670 1 0.00
671 5 0.00
673 2 0.00
676 1 0.00
677 2 0.00
678 3 0.00
679 2 0.00
683 1 0.00
684 1 0.00
686 13 0.01
687 1531 0.66
688 6 0.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (686 bp):
TAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTGCAAATTGAAG
TGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAATT
GAAGTGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGTTA
ATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCTTAAATGCTGTAAATTGAAGTGTTAAAGTGCT
GCAAATTGAAGTGTTTGAATGCTGCAAATTGAAGTGTTTAAATGCTGTAAATTGAAGTGCTTAAA
TGTTGCAAATTGAAGTGTTTAAGTACTGCAAATTGAAGTGTTTAGTTGCTGGACATGGAGATGTT
TTATCGCTGTAATTGAGGTGTATAAATGTTGTTAATTGAGATGTTAAAGTGCTGCAAATTGAAGT
GTTAAATGCTGTAAATTGAAGTGTTAAAGTGCTGCAAATTGAAGTGTTTGAATGCTATAAATTGA
AGTGTTTAAATGCTGTAAATTGAAGTGCTTAAATGTTGCAAATTGAAGTGTTTAAGTACTGCAAA
TTGAAATGTTTAGTTGCTGGACATTGAGATGTTTTATCGCTGTAATTGAGGTGTATAAATGTTGT
TAATTGAGATGTAAAAGTGCTGCAAATTGAAGTGCT
Found at i:53919428 original size:42 final size:42
Alignment explanation
Indices: 53919364--53919580 Score: 289
Period size: 42 Copynumber: 5.2 Consensus size: 42
53919354 TGCTAAGGTA
* * *
53919364 ATGACTTTTAGCTGCGTTTTTCCCACAAACGCCGCTAAAAGCC
1 ATGACTTTTGGCGGCG-CTTTCCCACAAACGCCGCTAAAAGCC
*
53919407 ATGACTTTTGGCGGCGCTTTCCCACAAATGCCGCTAAAAGCC
1 ATGACTTTTGGCGGCGCTTTCCCACAAACGCCGCTAAAAGCC
* *
53919449 ATGACTTTTGGCGGTGCTTTCCCACAAACGCCGCTAAAAGCA
1 ATGACTTTTGGCGGCGCTTTCCCACAAACGCCGCTAAAAGCC
*
53919491 ATGACTTTTGGCGACGCTTTCCCAACAAA---CGC-AAAAGCC
1 ATGACTTTTGGCGGCGCTTTCCC-ACAAACGCCGCTAAAAGCC
* * *
53919530 ATGACTTTTAGCTGCACTTTTCCCACAAACGCCGCTAAAAGCC
1 ATGACTTTTGGCGGCGC-TTTCCCACAAACGCCGCTAAAAGCC
53919573 ATGACTTT
1 ATGACTTT
53919581 CTTGTTGCGC
Statistics
Matches: 154, Mismatches: 14, Indels: 12
0.86 0.08 0.07
Matches are distributed among these distances:
39 24 0.16
40 9 0.06
42 87 0.56
43 34 0.22
ACGTcount: A:0.27, C:0.30, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGACTTTTGGCGGCGCTTTCCCACAAACGCCGCTAAAAGCC
Found at i:53929788 original size:29 final size:29
Alignment explanation
Indices: 53929726--53929828 Score: 118
Period size: 29 Copynumber: 3.6 Consensus size: 29
53929716 GTGACGAGAT
* * *
53929726 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
53929755 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
53929784 TGGCACTATGTGTGCGGGCTT-GAATCATA
1 TGGCACTAAGTGTGCGAGCTTGGAAT-ATA
53929813 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
53929829 TGATTGAGTA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
28 3 0.05
29 58 0.95
ACGTcount: A:0.21, C:0.17, G:0.33, T:0.29
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:53934304 original size:37 final size:37
Alignment explanation
Indices: 53934251--53934361 Score: 132
Period size: 37 Copynumber: 3.2 Consensus size: 37
53934241 TATAAAAGAA
*
53934251 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
53934288 GTCTTACCCGGTCATAA--T-----CG--GTCATCGA
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
53934316 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
*
53934353 GTCTCACCC
1 GTCTTACCC
53934362 AGAACATATT
Statistics
Matches: 61, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
28 24 0.39
30 3 0.05
35 3 0.05
37 31 0.51
ACGTcount: A:0.22, C:0.33, G:0.19, T:0.26
Consensus pattern (37 bp):
GTCTTACCCGGTCATAATCTCCACACGTAGTCATCGG
Found at i:53934320 original size:28 final size:28
Alignment explanation
Indices: 53934280--53934334 Score: 101
Period size: 28 Copynumber: 2.0 Consensus size: 28
53934270 TCCACACGTA
*
53934280 GTCATCGGGTCTTACCCGGTCATAATCG
1 GTCATCGAGTCTTACCCGGTCATAATCG
53934308 GTCATCGAGTCTTACCCGGTCATAATC
1 GTCATCGAGTCTTACCCGGTCATAATC
53934335 TCCACACGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (28 bp):
GTCATCGAGTCTTACCCGGTCATAATCG
Found at i:53934525 original size:49 final size:49
Alignment explanation
Indices: 53934465--53934679 Score: 403
Period size: 49 Copynumber: 4.4 Consensus size: 49
53934455 TCTTGCATTA
53934465 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
* *
53934514 GCCATTGGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
53934563 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
*
53934612 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
53934661 GCCATTAGGCCTTATCACA
1 GCCATTAGGCCTTATCACA
53934680 CATATATGTA
Statistics
Matches: 161, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
49 161 1.00
ACGTcount: A:0.30, C:0.32, G:0.09, T:0.29
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATACATACACTTTCACATTCACCACATCG
Found at i:53938795 original size:30 final size:30
Alignment explanation
Indices: 53938740--53938870 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
53938730 ATAGTGAATC
*
53938740 CGCACACTTAGTGCTATAT-ATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
*
53938769 CGCACACTTAGTGCTATATAATTTTCAGCT
1 CGCACACTTAGTGCTATATAATTTTCAACT
53938799 CGCACACTTAGTGCTATATAA---TCAAACT
1 CGCACACTTAGTGCTATATAATTTTC-AACT
* * * *
53938827 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAATTTTCAACT
53938857 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53938871 CAATCTTGTC
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 19 0.21
30 48 0.52
31 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.32
Consensus pattern (30 bp):
CGCACACTTAGTGCTATATAATTTTCAACT
Found at i:53938850 original size:58 final size:58
Alignment explanation
Indices: 53938739--53938870 Score: 176
Period size: 58 Copynumber: 2.3 Consensus size: 58
53938729 TATAGTGAAT
* * * * *
53938739 CCGCACACTTAGTGCTATATATTTTCAGCTCGCACACTTAGTGCTATATAATTTTCAGC
1 CCGCACACTTAGTGCTATATA-TATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
* *
53938798 TCGCACACTTAGTGCTATATA-ATCAAACTCGCACACTTAGTGCTGTACAATTTTAAAC
1 CCGCACACTTAGTGCTATATATATC-AACTCGCACACTTAGTGCTATACAATTTTAAAC
53938856 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
53938871 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
57 2 0.03
58 42 0.66
59 20 0.31
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.32
Consensus pattern (58 bp):
CCGCACACTTAGTGCTATATATATCAACTCGCACACTTAGTGCTATACAATTTTAAAC
Found at i:53947520 original size:37 final size:37
Alignment explanation
Indices: 53947461--53947566 Score: 176
Period size: 37 Copynumber: 2.9 Consensus size: 37
53947451 AGCTCAGACG
* *
53947461 AAATCTCCACACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
53947498 AAATCTCCACATGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
53947535 TAATCTCCACACGTAGTCATCGGGTCTTACCC
1 AAATCTCCACACGTAGTCATCGGGTCTTACCC
53947567 AGAATATATT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 64 1.00
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:53947838 original size:48 final size:48
Alignment explanation
Indices: 53947715--53947899 Score: 291
Period size: 48 Copynumber: 3.8 Consensus size: 48
53947705 GCACATCGCC
* * *
53947715 TACATATTTCACACTAGCCATTCGACTTCACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* *
53947765 TATATATTTCACATT-GACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAG-CCATTCGGCTTTACCACATATACATATCTCA
53947813 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
53947861 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
53947900 TGCATGTTCA
Statistics
Matches: 126, Mismatches: 7, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
48 84 0.67
49 2 0.02
50 40 0.32
ACGTcount: A:0.31, C:0.27, G:0.06, T:0.35
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:53947904 original size:98 final size:97
Alignment explanation
Indices: 53947715--53947898 Score: 300
Period size: 98 Copynumber: 1.9 Consensus size: 97
53947705 GCACATCGCC
*
53947715 TACATATTTCACACTAGCCATTCGACTTCACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGACTTCACCACATATACATATCTCA-ATACATATTTCACATT
53947780 GACCATTCGGCTTTACCACATATGCATATCTCA
65 GACCATTCGGCTTTACCACATATGCATATCTCA
* * *
53947813 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACATT-
1 TACATATTTCACACTAGCCATTCGACTTCACCACATATACATATCTCAATACATATTTCACATTG
53947876 AGCCATTCGGCTTTACCACATAT
66 A-CCATTCGGCTTTACCACATAT
53947899 ATGCATGTTC
Statistics
Matches: 81, Mismatches: 4, Indels: 4
0.91 0.04 0.04
Matches are distributed among these distances:
95 1 0.01
96 36 0.44
98 44 0.54
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.35
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGACTTCACCACATATACATATCTCAATACATATTTCACATTG
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:53947948 original size:47 final size:47
Alignment explanation
Indices: 53947869--53948062 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
53947859 CATACATATT
* * * *
53947869 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * *
53947916 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
53947963 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
53948010 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
53948057 TCACAT
1 TCACAT
53948063 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 133 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:53947989 original size:22 final size:22
Alignment explanation
Indices: 53947962--53948033 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
53947952 GCTCACATTC
53947962 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
53947984 ATCACATATATG-CATGTTC-ACATT
1 ATCACAT-T-GGCCA--TTCGGCCTT
53948008 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
53948031 ATC
1 ATC
53948034 TCATATATAC
Statistics
Matches: 37, Mismatches: 6, Indels: 14
0.65 0.11 0.25
Matches are distributed among these distances:
22 13 0.35
23 7 0.19
24 7 0.19
25 10 0.27
ACGTcount: A:0.24, C:0.29, G:0.14, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:53947990 original size:94 final size:94
Alignment explanation
Indices: 53947822--53948062 Score: 290
Period size: 94 Copynumber: 2.6 Consensus size: 94
53947812 ATACATATTT
* * * *
53947822 CACATTAGCCATTCGGCTTTA-C-CACATATACATATCTCATACATAT-TTCACATTAGCCATTC
1 CACATTGGCCATTCGGCCTTATCACACATATACACA-CTC--ACAT-TCATCACATTAGCCATTC
* *
53947884 GGCTTTACCACATATATGCATGTTCATATTCAC
62 GGCCTTACCACATATATGCATGTTCACATTCAC
* ** *
53947917 CACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTGGCCATTCGGCC
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGGCC
* *
53947982 TTATCACATATATGCATGTTCACATTCAT
66 TTACCACATATATGCATGTTCACATTCAC
* * *
53948011 CACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCATCACAT
1 CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACAT
53948063 AAAATCCTAA
Statistics
Matches: 127, Mismatches: 16, Indels: 7
0.85 0.11 0.05
Matches are distributed among these distances:
93 1 0.01
94 93 0.73
95 19 0.15
96 4 0.03
97 10 0.08
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (94 bp):
CACATTGGCCATTCGGCCTTATCACACATATACACACTCACATTCATCACATTAGCCATTCGGCC
TTACCACATATATGCATGTTCACATTCAC
Found at i:53949741 original size:28 final size:29
Alignment explanation
Indices: 53949674--53949774 Score: 125
Period size: 28 Copynumber: 3.5 Consensus size: 29
53949664 ATAGTGAATC
*
53949674 CGCACACTTAGTGCTATATACATTC-AGCT
1 CGCACACTTAGTGCTATATA-ATTCAAACT
53949703 CGCACACTTAGTGCTATATAA-TCAAACT
1 CGCACACTTAGTGCTATATAATTCAAACT
* * * *
53949731 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA-TTCAAACT
53949761 CGCACACTTAGTGC
1 CGCACACTTAGTGC
53949775 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 2 0.03
28 23 0.36
29 20 0.31
30 19 0.30
ACGTcount: A:0.30, C:0.28, G:0.14, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTATATAATTCAAACT
Found at i:53958223 original size:29 final size:29
Alignment explanation
Indices: 53958184--53958258 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
53958174 GGTTGAGAGA
* *
53958184 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
53958213 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
53958242 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
53958259 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:53966122 original size:29 final size:29
Alignment explanation
Indices: 53966083--53966157 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
53966073 GGTTGAGAGA
* *
53966083 ATGGCACTAAGTGTGCGGGCTTGAAA-TGC
1 ATGGCACTAAGTGTGCGAG-TTGAAAGTAC
*
53966112 ATGGCACTAAGTGTGCGAGTTTAAAGTAC
1 ATGGCACTAAGTGTGCGAGTTGAAAGTAC
53966141 ATGGCACTAAGTGTGCG
1 ATGGCACTAAGTGTGCG
53966158 TGGTTGATTA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
28 5 0.12
29 37 0.88
ACGTcount: A:0.27, C:0.16, G:0.32, T:0.25
Consensus pattern (29 bp):
ATGGCACTAAGTGTGCGAGTTGAAAGTAC
Found at i:53968412 original size:25 final size:25
Alignment explanation
Indices: 53968378--53968439 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
53968368 CCCATTTCAT
*
53968378 AGCTTGTGTGAGCAATTACAGTTAC
1 AGCTTGTGTGAGCAATTACAGTCAC
* * *
53968403 AGCTGGTGTGAGCATTTACAGTCAT
1 AGCTTGTGTGAGCAATTACAGTCAC
53968428 AGCTTGTGTGAG
1 AGCTTGTGTGAG
53968440 GATTGTTCCT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (25 bp):
AGCTTGTGTGAGCAATTACAGTCAC
Found at i:53968529 original size:41 final size:41
Alignment explanation
Indices: 53968479--53968572 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
53968469 GTTATGGTTC
* * * *
53968479 ATTAAGTGAAAAACGAATAAAT-AGGATGGTTATATGAATCT
1 ATTATGTGAAAAACGAATAAATGA-AATGGTTACATGAATCG
*
53968520 ATTATGTGAAAAATGAATAAATGAAATGGTTACATGAATCG
1 ATTATGTGAAAAACGAATAAATGAAATGGTTACATGAATCG
53968561 ATTATGTAGAAA
1 ATTATGT-GAAA
53968573 TATACATATG
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 41 0.89
42 5 0.11
ACGTcount: A:0.47, C:0.04, G:0.19, T:0.30
Consensus pattern (41 bp):
ATTATGTGAAAAACGAATAAATGAAATGGTTACATGAATCG
Found at i:53969934 original size:40 final size:40
Alignment explanation
Indices: 53969856--53969952 Score: 95
Period size: 40 Copynumber: 2.4 Consensus size: 40
53969846 GTATTATCAA
* * ** * * *
53969856 TATATGAATCGGTTATATGGAGCTAGATATATGGAATGAT
1 TATATGAAACAGTTATATGGAAATAGATATACGAAATGAC
*
53969896 TATATGAAACAGTTGTATGGAAATAGATATACGAAATGAC
1 TATATGAAACAGTTATATGGAAATAGATATACGAAATGAC
* * *
53969936 CATATGAATCAGATATA
1 TATATGAAACAGTTATA
53969953 CATAAATAGT
Statistics
Matches: 45, Mismatches: 12, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.31
Consensus pattern (40 bp):
TATATGAAACAGTTATATGGAAATAGATATACGAAATGAC
Found at i:53969978 original size:13 final size:13
Alignment explanation
Indices: 53969962--53969996 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
53969952 ACATAAATAG
53969962 TTATATGAAATGT
1 TTATATGAAATGT
*
53969975 TTATACGAAATGT
1 TTATATGAAATGT
*
53969988 TTTTATGAA
1 TTATATGAA
53969997 TATAGATATG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.37, C:0.03, G:0.14, T:0.46
Consensus pattern (13 bp):
TTATATGAAATGT
Found at i:53981517 original size:40 final size:40
Alignment explanation
Indices: 53981407--53981622 Score: 298
Period size: 40 Copynumber: 5.5 Consensus size: 40
53981397 AAGCCAAGTA
* * *
53981407 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
53981445 CCTTCGGGACATAGCCC-GATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
53981484 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
53981524 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
53981564 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
53981604 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
53981623 TTATCATCCA
Statistics
Matches: 162, Mismatches: 11, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
37 1 0.01
38 25 0.15
39 23 0.14
40 113 0.70
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:53989654 original size:40 final size:40
Alignment explanation
Indices: 53989570--53989786 Score: 289
Period size: 40 Copynumber: 5.5 Consensus size: 40
53989560 AAGCCAAGTA
* * * *
53989570 CCTTCGGGATTTA-ACCGAATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
53989608 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
53989648 CCTTCGGGACTTAGCCCGGATATAGTAACTCACACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
53989688 CCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* * *
53989728 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACAAATG
53989768 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
53989787 TTATCATCCA
Statistics
Matches: 161, Mismatches: 14, Indels: 6
0.89 0.08 0.03
Matches are distributed among these distances:
38 12 0.07
39 17 0.11
40 132 0.82
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:54000094 original size:47 final size:47
Alignment explanation
Indices: 53999673--54000059 Score: 720
Period size: 47 Copynumber: 8.2 Consensus size: 47
53999663 TTTAGGATTT
53999673 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
53999720 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
*
53999767 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
53999814 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
53999861 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* *
53999908 AATGTGATGAATGTGAACATGCATATGTGTGATAAGGTCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
53999955 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
* **
54000002 AATGTGATGAATGTGAACATGCATATATGTGATAGGGTAGAATGGCC
1 AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
54000049 AATGTGATGAA
1 AATGTGATGAA
54000060 CGTGGAAGTG
Statistics
Matches: 331, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 331 1.00
ACGTcount: A:0.34, C:0.12, G:0.28, T:0.26
Consensus pattern (47 bp):
AATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCC
Found at i:54000137 original size:46 final size:46
Alignment explanation
Indices: 54000087--54000255 Score: 302
Period size: 46 Copynumber: 3.7 Consensus size: 46
54000077 GTGGCGAAGC
*
54000087 CGAATGGCTAATGCGAAATGTGTATGAGATGGATATGAGGTAAAGT
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGT
*
54000133 CGAATGGCTAATGCGAAACGTGTATGAGATGGATTTGAGGTAAAGT
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGT
*
54000179 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGC
1 CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGT
*
54000225 CGAATGGCTAATGCGAAACATGTATGAGATG
1 CGAATGGCTAATGCGAAACGTGTATGAGATG
54000256 TGTATATATA
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 118 1.00
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.24
Consensus pattern (46 bp):
CGAATGGCTAATGCGAAACGTGTATGAGATGGATATGAGGTAAAGT
Found at i:54009077 original size:22 final size:22
Alignment explanation
Indices: 54009049--54009124 Score: 64
Period size: 22 Copynumber: 3.3 Consensus size: 22
54009039 TTTCACATCC
54009049 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
** * * *
54009071 ATCACATATATACACTTTC-ACATT
1 ATCACAT-T-GGC-CATTCGGCCTT
54009095 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
54009118 ATCACAT
1 ATCACAT
54009125 ATATACACTT
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 18 0.46
23 5 0.13
24 5 0.13
25 11 0.28
ACGTcount: A:0.26, C:0.30, G:0.11, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:54009084 original size:47 final size:47
Alignment explanation
Indices: 54009021--54009362 Score: 515
Period size: 47 Copynumber: 7.3 Consensus size: 47
54009011 CCCTTCGGGA
* *
54009021 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
54009068 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * * *
54009115 CTTATCACATATATACACTTTCACATTCATCACGTTGGTCACTCGAC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* **
54009162 CCTATCACATATATACACTTTCACATTCATCATGTTGGCCACTT-GGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCA-TTCGGC
* * *
54009209 CCTATCACATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
54009256 CCTATCACATATATATACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
54009303 CTTATCACATATATACACTTCCACATTCATCACATTGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
54009350 CTTATCACATATA
1 CTTATCACATATA
54009363 CATATCTTGT
Statistics
Matches: 272, Mismatches: 21, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 270 0.99
48 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:54014071 original size:38 final size:38
Alignment explanation
Indices: 54014015--54014089 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
54014005 GATGTGTATT
* *
54014015 CGGGTTAAATCCCACAGGCTTCA-TGCTGGTATTATATC
1 CGGGATAAATCCCACAGGCCT-AGTGCTGGTATTATATC
*
54014053 CGGGATAAATCCCGCAGGCCTAGTGCTGGTATTATAT
1 CGGGATAAATCCCACAGGCCTAGTGCTGGTATTATAT
54014090 TTGGGCCTTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.29
Consensus pattern (38 bp):
CGGGATAAATCCCACAGGCCTAGTGCTGGTATTATATC
Found at i:54014296 original size:43 final size:43
Alignment explanation
Indices: 54014066--54014283 Score: 343
Period size: 43 Copynumber: 5.1 Consensus size: 43
54014056 GATAAATCCC
* * *
54014066 GCAGGCCTAGTGCTGGT-AT-TATATTTGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
54014107 GCAGG-TTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
* *
54014149 GCAGGCTTAGTGCCGATGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
*
54014192 GCAGGCTTCGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
* *
54014235 GCAGGCTTCGTGCCGGTGATGTGTATTCGGGCCTTCGTGCCTA
1 GCAGGCTTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
54014278 GCAGGC
1 GCAGGC
54014284 GTAACGCTGG
Statistics
Matches: 165, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
40 9 0.05
41 7 0.04
42 26 0.16
43 123 0.75
ACGTcount: A:0.12, C:0.23, G:0.34, T:0.31
Consensus pattern (43 bp):
GCAGGCTTAGTGCCGGTGATGTGTATTTGGGCCTTCGTGCCTA
Found at i:54016026 original size:42 final size:44
Alignment explanation
Indices: 54015870--54016027 Score: 148
Period size: 42 Copynumber: 3.7 Consensus size: 44
54015860 TATGTGTTAT
* * * *
54015870 CGTGTAAGACAACGTCAGGGACATTGGCATCGACT-TATGATTTA
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGACTTA
* **
54015914 CGTGTAAGACCACATCTGGGATGTTGGCATC-ATATTTGACTT-
1 CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGACTTA
* * *
54015956 TGTGTAAGACC-CTGTCTAGGACAGTGGCATCGATATTTGA-TTA
1 CGTGTAAGACCAC-GTCTGGGACATTGGCATCGATATTTGACTTA
* *
54015999 CATGTAAGACCACGTCTTGGAC-TTGGCAT
1 CGTGTAAGACCACGTCTGGGACATTGGCAT
54016028 TGTACTTGCT
Statistics
Matches: 92, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
41 1 0.01
42 32 0.35
43 32 0.35
44 27 0.29
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (44 bp):
CGTGTAAGACCACGTCTGGGACATTGGCATCGATATTTGACTTA
Found at i:54023514 original size:42 final size:43
Alignment explanation
Indices: 54023451--54023558 Score: 132
Period size: 42 Copynumber: 2.5 Consensus size: 43
54023441 ACAAGTGTTA
54023451 TCGTGTAAGACCATGTCTGGGAC-GTTGGCATC-ATATTTGATT
1 TCGTGTAAGACCATGTCTGGGACAG-TGGCATCGATATTTGATT
*
54023493 TCGTGTAAGACTC-TGTTTGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGAC-CATGTCTGGGACAGTGGCATCGATATTTGATT
* * * *
54023536 ACATGTAAGACCACGTCTTGGAC
1 TCGTGTAAGACCATGTCTGGGAC
54023559 TTGGCACTAT
Statistics
Matches: 56, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
42 28 0.50
43 28 0.50
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (43 bp):
TCGTGTAAGACCATGTCTGGGACAGTGGCATCGATATTTGATT
Found at i:54026533 original size:40 final size:39
Alignment explanation
Indices: 54026484--54026629 Score: 141
Period size: 40 Copynumber: 3.7 Consensus size: 39
54026474 GGGTCTTCAG
* *
54026484 AGTATAAACAGGGGCACGTAAGTGCATTCAGGGGTATCGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTA-CGA
* * * **
54026524 AGTACAAACAAGGGCACGTATGTGTAATCAATGGTACTGA
1 AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTAC-GA
* * *
54026564 AGTACAAACAGGGTCACGTATGTGTAATT-AGGGGTACCAA
1 AGTACAAACAGGGGCACGTATGTG-CATTCAGGGGTA-CGA
* *
54026604 AGTACAAATAGGGGCATGTATGTGCA
1 AGTACAAACAGGGGCACGTATGTGCA
54026630 ATCAACAATA
Statistics
Matches: 85, Mismatches: 18, Indels: 7
0.77 0.16 0.06
Matches are distributed among these distances:
39 2 0.02
40 80 0.94
41 3 0.04
ACGTcount: A:0.35, C:0.14, G:0.29, T:0.22
Consensus pattern (39 bp):
AGTACAAACAGGGGCACGTATGTGCATTCAGGGGTACGA
Found at i:54026625 original size:80 final size:80
Alignment explanation
Indices: 54026484--54026634 Score: 196
Period size: 80 Copynumber: 1.9 Consensus size: 80
54026474 GGGTCTTCAG
* * * * *
54026484 AGTATAAACAGGGGCACGTAAGTGCATTCAGGGGTATCGAAGTACAAACAAGGGCACGTATGTGT
1 AGTACAAACAGGGGCACGTAAGTGAATTCAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGC
54026549 AATCAATGGTACTGA
66 AATCAATGGTACTGA
* * * * *
54026564 AGTACAAACAGGGTCACGTATGTGTAATT-AGGGGTACCAAAGTACAAATAGGGGCATGTATGTG
1 AGTACAAACAGGGGCACGTAAGTG-AATTCAGGGGTACCAAAGTACAAACAAGGGCACGTATGTG
54026628 CAATCAA
65 CAATCAA
54026635 CAATAATTAT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
80 57 0.95
81 3 0.05
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.22
Consensus pattern (80 bp):
AGTACAAACAGGGGCACGTAAGTGAATTCAGGGGTACCAAAGTACAAACAAGGGCACGTATGTGC
AATCAATGGTACTGA
Found at i:54026857 original size:13 final size:13
Alignment explanation
Indices: 54026839--54026863 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
54026829 TAATTAATAT
54026839 GTGTGAAAATTTC
1 GTGTGAAAATTTC
54026852 GTGTGAAAATTT
1 GTGTGAAAATTT
54026864 TATCATTTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.04, G:0.24, T:0.40
Consensus pattern (13 bp):
GTGTGAAAATTTC
Found at i:54028026 original size:44 final size:43
Alignment explanation
Indices: 54027960--54028129 Score: 186
Period size: 42 Copynumber: 4.0 Consensus size: 43
54027950 ATAGGATTCT
54027960 GATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
1 GATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
* * * * *
54028003 GATTTGTGATTTACGCGTAAGACCATGTTTGGGACATTGGCATC
1 GATATGTGATTT-CGTGTAAGACCACGTCTGGGACGTTGGCATC
* * *
54028047 G-TATATGAGTTCGTGTAAGACC-CTGTCT-GTACAG-TGGCATC
1 GATATGTGATTTCGTGTAAGACCAC-GTCTGGGAC-GTTGGCATC
* * *
54028088 GATATGTGATTACATGTAAGATCACGTCTGGGACGTTGGCAT
1 GATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCAT
54028130 TGTGCGAGCT
Statistics
Matches: 101, Mismatches: 19, Indels: 14
0.75 0.14 0.10
Matches are distributed among these distances:
41 11 0.11
42 34 0.34
43 28 0.28
44 28 0.28
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.32
Consensus pattern (43 bp):
GATATGTGATTTCGTGTAAGACCACGTCTGGGACGTTGGCATC
Found at i:54035999 original size:43 final size:42
Alignment explanation
Indices: 54035948--54036117 Score: 173
Period size: 43 Copynumber: 4.0 Consensus size: 42
54035938 TAGGATTCCG
*
54035948 ATATGTGATTTTGTGTAAGACCACGTCTGGGACATTGGCATC
1 ATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATC
* * * *
54035990 AATTTGTGATTTACGTGTAGGACCATGTATGGGACATTGGCATC
1 -ATATGTGATTT-CGTGTAAGACCACGTCTGGGACATTGGCATC
* * *
54036034 GTATATGAGTTT-GTGTAAGACC-CTGTCTGGGACAGTGGCATC
1 ATATGTGA-TTTCGTGTAAGACCAC-GTCTGGGACATTGGCATC
* * * *
54036076 GATATGTGATTACATGTAAGACCACGTCTAGGAGATTGGCAT
1 -ATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCAT
54036118 TGTATGAGCT
Statistics
Matches: 102, Mismatches: 19, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
42 27 0.26
43 44 0.43
44 31 0.30
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (42 bp):
ATATGTGATTTCGTGTAAGACCACGTCTGGGACATTGGCATC
Found at i:54036066 original size:42 final size:42
Alignment explanation
Indices: 54035946--54036125 Score: 143
Period size: 42 Copynumber: 4.2 Consensus size: 42
54035936 CATAGGATTC
*
54035946 CGATATGTGATTTTGTGTAAGACCAC-GTCTGGGACATTGGCAT
1 CGATATGAGA-TTTGTGTAAGACC-CTGTCTGGGACATTGGCAT
* * * * * *
54035989 CAATTTGTGATTTACGTGTAGGACCATGTATGGGACATTGGCAT
1 CGATATGAGATTT--GTGTAAGACCCTGTCTGGGACATTGGCAT
*
54036033 CGTATATGAG-TTTGTGTAAGACCCTGTCTGGGACAGTGGCAT
1 CG-ATATGAGATTTGTGTAAGACCCTGTCTGGGACATTGGCAT
* ** * *
54036075 CGATATGTGATTACATGTAAGACCAC-GTCTAGGAGATTGGCAT
1 CGATATGAGATT-TGTGTAAGACC-CTGTCTGGGACATTGGCAT
*
54036118 TG-TATGAG
1 CGATATGAG
54036126 CTATTTGACC
Statistics
Matches: 110, Mismatches: 20, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
41 6 0.05
42 37 0.34
43 32 0.29
44 30 0.27
45 5 0.05
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (42 bp):
CGATATGAGATTTGTGTAAGACCCTGTCTGGGACATTGGCAT
Found at i:54040230 original size:43 final size:42
Alignment explanation
Indices: 54040150--54040272 Score: 142
Period size: 43 Copynumber: 2.9 Consensus size: 42
54040140 TTAGGGTTAC
*
54040150 TGAGATTTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGACTT-CGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
54040193 TGAGACTTCGTGTAAGACCATAGT-TGGGCTATTGGCATTGATA
1 TGAGACTTCGTGTAAGACCATA-TCTGGGATA-TGGCATCGATA
* * *
54040236 TGAGAACAT-ATGTAAGACCATATCTGGCATATGGCAT
1 TGAG-ACTTCGTGTAAGACCATATCTGGGATATGGCAT
54040273 TGGTACAGTA
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
42 27 0.39
43 39 0.57
44 3 0.04
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (42 bp):
TGAGACTTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:54041349 original size:13 final size:13
Alignment explanation
Indices: 54041326--54041361 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
54041316 AGCACACGGG
*
54041326 CGTGTGACTTGGC
1 CGTGTGTCTTGGC
*
54041339 TGTGTGTCTTGGC
1 CGTGTGTCTTGGC
54041352 CGTGTGTCTT
1 CGTGTGTCTT
54041362 CAATTTGTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.03, C:0.19, G:0.36, T:0.42
Consensus pattern (13 bp):
CGTGTGTCTTGGC
Found at i:54048811 original size:40 final size:39
Alignment explanation
Indices: 54048766--54048973 Score: 218
Period size: 40 Copynumber: 5.2 Consensus size: 39
54048756 CGGAATACAA
*
54048766 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
54048806 CCGGATAGAACGACTTGCACAAATGCCTTCGGGTATTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* * *
54048846 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACAAATGCCTTCGGGTCTTAGC
* ** * *
54048886 CCGGATGTAGTCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
** * * *
54048926 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGC
1 CCGGATATAACCACT-GCACAAATGCCTTCGGGTCTTAGC
54048966 CCGGATAT
1 CCGGATAT
54048974 CATTCAATTG
Statistics
Matches: 142, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
39 1 0.01
40 141 0.99
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (39 bp):
CCGGATATAACCACTGCACAAATGCCTTCGGGTCTTAGC
Found at i:54048906 original size:80 final size:81
Alignment explanation
Indices: 54048766--54048971 Score: 247
Period size: 80 Copynumber: 2.6 Consensus size: 81
54048756 CGGAATACAA
* * *
54048766 CCGGATATAACCACATGCACGAATGCCTTCGGGTCTTAGCCCGGA-TAGAACGACTTGCACAAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
*
54048830 GCCTTCGGGTATTAGC
66 GCCTTCGGGTATTAAC
* * *
54048846 CCGGATTTAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAG-TC-ACTAGCACAAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT-TAGAACGACTAGCACAAA
*
54048909 TGCCTTCGGGTCTTAAC
65 TGCCTTCGGGTATTAAC
** * ** * *
54048926 CCGGATATAATTACTAGCATAAATGTCTTCGGGACTTAGCCCGGAT
1 CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGAT
54048972 ATCATTCAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
80 104 0.96
81 1 0.01
82 3 0.03
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (81 bp):
CCGGATATAACAACTTGCACGAATGCCTTCGGGTCTTAGCCCGGATTAGAACGACTAGCACAAAT
GCCTTCGGGTATTAAC
Found at i:54051413 original size:27 final size:26
Alignment explanation
Indices: 54051383--54051568 Score: 149
Period size: 27 Copynumber: 7.0 Consensus size: 26
54051373 TACCCTATAG
*
54051383 GGGTATTTTGGTAATTTTACAAACCTA
1 GGGTATTTCGGTAATTTTACAAA-CTA
* *
54051410 GGGTATTTCGATAATCTTACAAACTGA
1 GGGTATTTCGGTAATTTTACAAACT-A
* * * * **
54051437 GGGTATTTTGGTAGTGTCACAAATCGG
1 GGGTATTTCGGTAATTTTACAAA-CTA
* *
54051464 GGGTATTCCGATAATTTTACAAA-TA
1 GGGTATTTCGGTAATTTTACAAACTA
* * * *
54051489 GGGGGTATTTCAGTAATCTTACAATCTG
1 --GGGTATTTCGGTAATTTTACAAACTA
* *
54051517 GAGGTATTTCGATAATTTTACAAACTG
1 G-GGTATTTCGGTAATTTTACAAACTA
*
54051544 GGGTATTTCTGTAATTTTACAAACT
1 GGGTATTTCGGTAATTTTACAAACT
54051569 GTGGGTCTTA
Statistics
Matches: 123, Mismatches: 30, Indels: 13
0.74 0.18 0.08
Matches are distributed among these distances:
26 25 0.20
27 96 0.78
28 2 0.02
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (26 bp):
GGGTATTTCGGTAATTTTACAAACTA
Found at i:54051447 original size:54 final size:53
Alignment explanation
Indices: 54051382--54051567 Score: 198
Period size: 54 Copynumber: 3.5 Consensus size: 53
54051372 TTACCCTATA
* *
54051382 GGGGTATTTTGGTAATTTTACAAACCTAGGGTATTTCGATAATCTTACAAACT
1 GGGGTATTTTGGTAATTTTACAAACCTGGGGTATTTCGATAATTTTACAAACT
* * * * * *
54051435 GAGGGTATTTTGGTAGTGTCACAAATCGGGGGTATTCCGATAATTTTACAAA-T
1 G-GGGTATTTTGGTAATTTTACAAACCTGGGGTATTTCGATAATTTTACAAACT
** * *
54051488 AGGGGGTATTTCAGTAATCTTAC-AATCTGGAGGTATTTCGATAATTTTACAAACT
1 --GGGGTATTTTGGTAATTTTACAAACCTGG-GGTATTTCGATAATTTTACAAACT
54051543 GGGGTATTTCT-GTAATTTTACAAAC
1 GGGGTATTT-TGGTAATTTTACAAAC
54051568 TGTGGGTCTT
Statistics
Matches: 108, Mismatches: 18, Indels: 13
0.78 0.13 0.09
Matches are distributed among these distances:
53 26 0.24
54 80 0.74
55 2 0.02
ACGTcount: A:0.30, C:0.12, G:0.22, T:0.37
Consensus pattern (53 bp):
GGGGTATTTTGGTAATTTTACAAACCTGGGGTATTTCGATAATTTTACAAACT
Found at i:54051540 original size:81 final size:79
Alignment explanation
Indices: 54051382--54051568 Score: 193
Period size: 81 Copynumber: 2.3 Consensus size: 79
54051372 TTACCCTATA
** *
54051382 GGGGTATTTTGGTAATTTTACAAACCTAGGGTATTTCGATAATCTTACAAACTGAGGGTATTTTG
1 GGGGTATTTCCGTAATTTTACAAA-CTAGGGTATTTCGATAATCTTACAAACTGAGGGTATTTCG
* *
54051447 GTAGTGTCACAAATCG
65 ATAATGTCACAAA-CG
*
54051463 GGGGTA-TTCCGATAATTTTACAAA-TAGGGGGTATTTC-AGTAATCTTACAATCTG-GAGGTAT
1 GGGGTATTTCCG-TAATTTTACAAACTA--GGGTATTTCGA-TAATCTTACAAACTGAG-GGTAT
* * *
54051524 TTCGATAATTTTACAAACT
61 TTCGATAATGTCACAAACG
*
54051543 GGGGTATTTCTGTAATTTTACAAACT
1 GGGGTATTTCCGTAATTTTACAAACT
54051569 GTGGGTCTTA
Statistics
Matches: 89, Mismatches: 10, Indels: 14
0.79 0.09 0.12
Matches are distributed among these distances:
79 2 0.02
80 24 0.27
81 63 0.71
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.37
Consensus pattern (79 bp):
GGGGTATTTCCGTAATTTTACAAACTAGGGTATTTCGATAATCTTACAAACTGAGGGTATTTCGA
TAATGTCACAAACG
Found at i:54055313 original size:42 final size:42
Alignment explanation
Indices: 54055210--54055367 Score: 232
Period size: 42 Copynumber: 3.8 Consensus size: 42
54055200 GCTCTCGATA
* *
54055210 TAATAAATATATTCGGGTTAAATCCCGCAGGCTTCGTACTGG
1 TAATATATATATTCGGGTTAAATCCCGCAGGCTTCGTGCTGG
* *
54055252 T-A-ATATATATCCGGGTTAAATCCCGCAAGCTTCGTGCTGG
1 TAATATATATATTCGGGTTAAATCCCGCAGGCTTCGTGCTGG
* *
54055292 TAATATATATATTCGGGTTAAATCTCGCAGGCTTCGTGTTGG
1 TAATATATATATTCGGGTTAAATCCCGCAGGCTTCGTGCTGG
54055334 TAATATATATA-TCTGGGTTAAATCCCGCAGGCTT
1 TAATATATATATTC-GGGTTAAATCCCGCAGGCTT
54055368 TGAGCTAGTA
Statistics
Matches: 104, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
40 35 0.34
41 4 0.04
42 65 0.62
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (42 bp):
TAATATATATATTCGGGTTAAATCCCGCAGGCTTCGTGCTGG
Found at i:54055323 original size:82 final size:84
Alignment explanation
Indices: 54055210--54055367 Score: 248
Period size: 82 Copynumber: 1.9 Consensus size: 84
54055200 GCTCTCGATA
54055210 TAATAAATATATTCGGGTTAAATCCCGCAGGCTTCGTACTGGT-A-ATATATATCCGGGTTAAAT
1 TAATAAATATATTCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATATATATCCGGGTTAAAT
54055273 CCCGCAAGCTTCGTGCTGG
66 CCCGCAAGCTTCGTGCTGG
* * ** *
54055292 TAATATATATATTCGGGTTAAATCTCGCAGGCTTCGTGTTGGTAATATATATATCTGGGTTAAAT
1 TAATAAATATATTCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATATATATCCGGGTTAAAT
*
54055357 CCCGCAGGCTT
66 CCCGCAAGCTT
54055368 TGAGCTAGTA
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
82 39 0.57
83 1 0.01
84 28 0.41
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.34
Consensus pattern (84 bp):
TAATAAATATATTCGGGTTAAATCCCGCAGGCTTCGTACTGGTAATATATATATCCGGGTTAAAT
CCCGCAAGCTTCGTGCTGG
Found at i:54059788 original size:21 final size:22
Alignment explanation
Indices: 54059764--54059808 Score: 67
Period size: 21 Copynumber: 2.1 Consensus size: 22
54059754 CTGCTTGTAC
54059764 TTAGGTACA-TTTAGTT-GCATT
1 TTAGG-ACATTTTAGTTAGCATT
54059785 TTAGGACATTTTAGTTAGCATT
1 TTAGGACATTTTAGTTAGCATT
54059807 TT
1 TT
54059809 TAATATTGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.14
21 12 0.55
22 7 0.32
ACGTcount: A:0.24, C:0.09, G:0.18, T:0.49
Consensus pattern (22 bp):
TTAGGACATTTTAGTTAGCATT
Found at i:54061914 original size:2 final size:2
Alignment explanation
Indices: 54061907--54061945 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
54061897 TCATGACATG
54061907 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
54061946 GACTAGTCTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:54065291 original size:29 final size:28
Alignment explanation
Indices: 54065257--54065359 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
54065247 TACTCAATCA
*
54065257 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
54065286 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
54065315 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
54065344 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
54065360 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:54073292 original size:29 final size:28
Alignment explanation
Indices: 54073258--54073360 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
54073248 TACTCAATCA
*
54073258 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
54073287 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
54073316 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
54073345 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
54073361 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:54076491 original size:27 final size:27
Alignment explanation
Indices: 54076450--54076555 Score: 133
Period size: 27 Copynumber: 3.9 Consensus size: 27
54076440 ATATATACAT
* * *
54076450 CACATAGGGGTAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
54076477 CATATAAGGGCAAAACAGTTATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
54076504 CACATAAGGGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
54076531 TACATAAGGG-AAAGACAATCATTTT
1 CACATAAGGGCAAA-ACAGTCATTTT
54076556 GATCAATCAG
Statistics
Matches: 69, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 3 0.04
27 66 0.96
ACGTcount: A:0.41, C:0.18, G:0.16, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:54079670 original size:29 final size:29
Alignment explanation
Indices: 54079606--54079670 Score: 85
Period size: 29 Copynumber: 2.2 Consensus size: 29
54079596 TGGCTAGCTT
* * **
54079606 GTGTGCCCTAAAAATTGCCACACACGCCT
1 GTGTGCCCTAAAAATGGCCACACAAGCAG
*
54079635 GTCTGCCCTAAAAATGGCCACACAAGCAG
1 GTGTGCCCTAAAAATGGCCACACAAGCAG
54079664 GTGTGCC
1 GTGTGCC
54079671 AGGCCGTGTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.28, C:0.32, G:0.22, T:0.18
Consensus pattern (29 bp):
GTGTGCCCTAAAAATGGCCACACAAGCAG
Found at i:54080799 original size:40 final size:40
Alignment explanation
Indices: 54080657--54080842 Score: 205
Period size: 40 Copynumber: 4.6 Consensus size: 40
54080647 ACTCAATATC
* * **
54080657 TCGCACACTAAGTGCCAATACATAGCCAAAGCTAT-TAAAA
1 TCGCACACTAAGTGCC-ATATATAGCCGAAGCTATCTTGAA
* * * *
54080697 TTTCACACACTAAGTGCCTTACATAGCCGAAGCTATCTTGATC
1 --TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTTGA-A
* *
54080740 TCGCACACTAAGTGTCATATATAGCCGAAGCTAT-TCCGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCT-TGAA
* *
54080780 TCGCACACTAGGTGCCATATATAGTCGAAGCTATCTTGAA
1 TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTTGAA
54080820 TCGCACACTAAGTGCCATATATA
1 TCGCACACTAAGTGCCATATATA
54080843 TATCCGAATC
Statistics
Matches: 123, Mismatches: 17, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
40 57 0.46
41 49 0.40
42 17 0.14
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (40 bp):
TCGCACACTAAGTGCCATATATAGCCGAAGCTATCTTGAA
Found at i:54080814 original size:81 final size:81
Alignment explanation
Indices: 54080654--54080842 Score: 238
Period size: 81 Copynumber: 2.3 Consensus size: 81
54080644 AATACTCAAT
* *
54080654 ATCTCGCACACTAAGTGCCAATACATAGCCAAAGCTATTAAAATTTCACACACTAAGTGCCTTAC
1 ATCTCGCACACTAAGTGCC-ATATATAGCCAAAGCTATTAAAA-TTCACACACTAAGTGCCATAC
54080719 ATAGCCGAAGCTATCTTG
64 ATAGCCGAAGCTATCTTG
* * ** * * *
54080737 ATCTCGCACACTAAGTGTCATATATAGCCGAAGCTATTCCGAA-TCGCACACTAGGTGCCATATA
1 ATCTCGCACACTAAGTGCCATATATAGCCAAAGCTATT-AAAATTCACACACTAAGTGCCATACA
*
54080801 TAGTCGAAGCTATCTTG
65 TAGCCGAAGCTATCTTG
*
54080818 A-ATCGCACACTAAGTGCCATATATA
1 ATCTCGCACACTAAGTGCCATATATA
54080843 TATCCGAATC
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
80 22 0.24
81 34 0.37
82 17 0.18
83 20 0.22
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (81 bp):
ATCTCGCACACTAAGTGCCATATATAGCCAAAGCTATTAAAATTCACACACTAAGTGCCATACAT
AGCCGAAGCTATCTTG
Found at i:54082008 original size:18 final size:18
Alignment explanation
Indices: 54081985--54082019 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
54081975 TGCCGGAGAA
54081985 CTTTAGCTATTAGGGTTC
1 CTTTAGCTATTAGGGTTC
*
54082003 CTTTAGCTATTTGGGTT
1 CTTTAGCTATTAGGGTT
54082020 GTTACAATGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.14, C:0.14, G:0.23, T:0.49
Consensus pattern (18 bp):
CTTTAGCTATTAGGGTTC
Found at i:54083439 original size:26 final size:27
Alignment explanation
Indices: 54083409--54083492 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
54083399 AGCACGGCTG
* *
54083409 CCAGAACAGATAA-CGTGACAGTGTCA
1 CCAGAACAGATAATCGTGACAGAGCCA
* *
54083435 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATCGTGACAGAGCCA
* * *
54083462 CCAGATCAGATAATTGT-AGCATAGCCA
1 CCAGAACAGATAATCGTGA-CAGAGCCA
54083489 CCAG
1 CCAG
54083493 GACGCTTCCT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
26 13 0.27
27 36 0.73
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.17
Consensus pattern (27 bp):
CCAGAACAGATAATCGTGACAGAGCCA
Found at i:54083471 original size:27 final size:27
Alignment explanation
Indices: 54083433--54083492 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
54083423 GTGACAGTGT
*
54083433 CACCAGAACAGATAATTGTGGCAGAGC
1 CACCAGAACAGATAATTGTAGCAGAGC
* *
54083460 CACCAGATCAGATAATTGTAGCATAGC
1 CACCAGAACAGATAATTGTAGCAGAGC
54083487 CACCAG
1 CACCAG
54083493 GACGCTTCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.25, G:0.22, T:0.17
Consensus pattern (27 bp):
CACCAGAACAGATAATTGTAGCAGAGC
Found at i:54085746 original size:40 final size:39
Alignment explanation
Indices: 54085554--54085812 Score: 312
Period size: 39 Copynumber: 6.6 Consensus size: 39
54085544 TACTCGTTCA
* * *
54085554 AATGCCTTCGGGA-ATAGCCCGG-TTATAGTAACTCGCACA
1 AATGCCTTC-GGACTTAGCCCGGAAT-TAGTAACTCGCACG
* * *
54085593 AATGCCTTCGGACTTAACCCGGATTTAGTAACTCGCACC
1 AATGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCACG
54085632 AATGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCACG
1 AATGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCACG
54085671 AATGCCTTCGGACTTAGCCC-GAATTAGTAACTCGCACG
1 AATGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCACG
* *
54085709 AACGCCTTCGGATCTTAGTCCGGAATTAGTAACTCGCACG
1 AATGCCTTCGGA-CTTAGCCCGGAATTAGTAACTCGCACG
* * *
54085749 AATGCCTTCGGATCTTAGTCCGG-ATATAGTCACTTAGCAC-
1 AATGCCTTCGGA-CTTAGCCCGGAAT-TAGTAAC-TCGCACG
*
54085789 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTC-GGACTTAGCCCGGA
54085813 CATCATTCGA
Statistics
Matches: 199, Mismatches: 13, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
38 32 0.16
39 94 0.47
40 65 0.33
41 8 0.04
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGACTTAGCCCGGAATTAGTAACTCGCACG
Found at i:54086525 original size:2 final size:2
Alignment explanation
Indices: 54086518--54086543 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
54086508 ATGTGCAAAC
54086518 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
54086544 GTGCAAGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:54093671 original size:40 final size:39
Alignment explanation
Indices: 54093597--54093816 Score: 270
Period size: 40 Copynumber: 5.6 Consensus size: 39
54093587 GCTACTCGTT
*
54093597 CAAATGCCTTCGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATT-TAGTAACTCGCA
*
54093636 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTC-GGACTTAGCCCGGATTTAGTAACTCGCA
*
54093676 C-AATGCCTTCAGACTTAGCCCGGA-TTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* *
54093713 C-AATGCCTTCGGACTTAGTCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
54093751 CGAATGCCTTCGGATCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TCGCA
54093792 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTC-GGACTTAGCCCGGA
54093817 CATCATTCGA
Statistics
Matches: 162, Mismatches: 12, Indels: 13
0.87 0.06 0.07
Matches are distributed among these distances:
37 35 0.22
38 26 0.16
39 32 0.20
40 57 0.35
41 12 0.07
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (39 bp):
CAAATGCCTTCGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:54096342 original size:24 final size:24
Alignment explanation
Indices: 54096295--54096395 Score: 157
Period size: 24 Copynumber: 4.2 Consensus size: 24
54096285 CCAACACCAT
* *
54096295 TCTCCCTAATCTGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
54096319 TCTCCCTTATCAGCTTCTACATCC
1 TCTCCCTTATCAGCTCCTAAATCC
54096343 TCTCCCTTATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
54096367 TCTCCCTTATCAGCTCCTAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
54096391 TCTCC
1 TCTCC
54096396 TGACAGCCTT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 70 1.00
ACGTcount: A:0.19, C:0.42, G:0.04, T:0.36
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:54106267 original size:28 final size:27
Alignment explanation
Indices: 54106212--54106322 Score: 127
Period size: 27 Copynumber: 4.1 Consensus size: 27
54106202 AGCATGGCTG
* *
54106212 CCAGAACAGATAA-TGTGACAGAGTCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
* *
54106238 CCAGATACAGCTAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAATTGTGGCAGAGCCA
*
54106266 CCAGAACAGA-AATATTTGGCAGAGCCA
1 CCAGAACAGATAAT-TGTGGCAGAGCCA
* *
54106293 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGAACAGATAATTGTGGCAGAGCCA
54106320 CCA
1 CCA
54106323 AGACGCTTCC
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 8 0.11
27 45 0.63
28 18 0.25
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (27 bp):
CCAGAACAGATAATTGTGGCAGAGCCA
Found at i:54106473 original size:25 final size:25
Alignment explanation
Indices: 54106419--54106473 Score: 60
Period size: 25 Copynumber: 2.2 Consensus size: 25
54106409 TTTTCAGATA
54106419 AATTTAACCCTAGGGGCATATCGGT
1 AATTTAACCCTAGGGGCATATCGGT
* *
54106444 CATTTACACCC-AGGGGTATCAT-GGT
1 AATTTA-ACCCTAGGGGCAT-ATCGGT
54106469 AATTT
1 AATTT
54106474 CCATACATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
25 19 0.76
26 6 0.24
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (25 bp):
AATTTAACCCTAGGGGCATATCGGT
Found at i:54113673 original size:40 final size:40
Alignment explanation
Indices: 54113626--54113809 Score: 262
Period size: 40 Copynumber: 4.6 Consensus size: 40
54113616 GTCGCACAAG
* *
54113626 GCCTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
* *
54113666 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
54113706 GCCTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAAT
* * * *
54113746 GCCTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
*
54113786 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
54113810 CATTCGAATA
Statistics
Matches: 127, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
39 1 0.01
40 125 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAT
Found at i:54117639 original size:27 final size:27
Alignment explanation
Indices: 54117577--54117668 Score: 80
Period size: 27 Copynumber: 3.4 Consensus size: 27
54117567 ATAATGTAAA
* * * *
54117577 AGAGTCACTAGATACAGATAATCGTGGT
1 AGAGCCACCAGAT-CAGATAATTGTGGC
*
54117605 AGAACCACCAGAAT-AGA-AATATGTGGC
1 AGAGCCACCAG-ATCAGATAAT-TGTGGC
*
54117632 AGAGCCACTAGATCAGATAATTGTGGC
1 AGAGCCACCAGATCAGATAATTGTGGC
*
54117659 ATAGCCACCA
1 AGAGCCACCA
54117669 AGACGCTTCC
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
26 5 0.10
27 33 0.65
28 11 0.22
29 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.23, T:0.20
Consensus pattern (27 bp):
AGAGCCACCAGATCAGATAATTGTGGC
Found at i:54124293 original size:43 final size:44
Alignment explanation
Indices: 54124226--54124350 Score: 148
Period size: 45 Copynumber: 2.9 Consensus size: 44
54124216 CCCAAATTCA
* *
54124226 TTCACCGGTATT-TCGCATGCTAGGCTCGAA-GCCCGATA-TCAT
1 TTCACCGGCATTATAGCATGCTAGGCTCGAAGGCCCGATAGT-AT
* *
54124268 TTCACCGGCATTATAGCTTGCTAGGCTCGAAGGCCCAAATAGTAT
1 TTCACCGGCATTATAGCATGCTAGGCTCGAAGGCCC-GATAGTAT
* * *
54124313 CTCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGA
1 TTCACCGGCATTATAGCATGCTAGGCTCGAAGGCCCGA
54124351 ATAGCACTGT
Statistics
Matches: 71, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
42 11 0.15
43 16 0.23
44 5 0.07
45 38 0.54
46 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (44 bp):
TTCACCGGCATTATAGCATGCTAGGCTCGAAGGCCCGATAGTAT
Found at i:54124327 original size:45 final size:45
Alignment explanation
Indices: 54124243--54124354 Score: 149
Period size: 45 Copynumber: 2.5 Consensus size: 45
54124233 GTATTTCGCA
* * *
54124243 TGCTAGGCTCGAA-GCCCGATA-TCATTTCACCGGCATTATAGCT
1 TGCTAGGCTCGAAGGCCCAATAGTCATCTCACCGGCATTATAGCC
54124286 TGCTAGGCTCGAAGGCCCAAATAGT-ATCTCACCGGCATTATAGCC
1 TGCTAGGCTCGAAGGCCC-AATAGTCATCTCACCGGCATTATAGCC
*
54124331 TGCTAGGCTCAAAGGCCCGAATAG
1 TGCTAGGCTCGAAGGCCC-AATAG
54124355 CACTGTACGA
Statistics
Matches: 61, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
43 13 0.21
44 4 0.07
45 43 0.70
46 1 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (45 bp):
TGCTAGGCTCGAAGGCCCAATAGTCATCTCACCGGCATTATAGCC
Found at i:54128669 original size:40 final size:40
Alignment explanation
Indices: 54128583--54128807 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
54128573 TCGAACGATG
* * *
54128583 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
54128623 TTCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54128663 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
54128702 TCCCGGGCTAAG-CCCGAAGGCATTGGTACAAGTTACTAAA
1 T-CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
54128742 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
54128783 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54128808 AATGAGTAGC
Statistics
Matches: 161, Mismatches: 17, Indels: 14
0.84 0.09 0.07
Matches are distributed among these distances:
39 33 0.20
40 118 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54128743 original size:79 final size:80
Alignment explanation
Indices: 54128583--54128805 Score: 242
Period size: 79 Copynumber: 2.8 Consensus size: 80
54128573 TCGAACGATG
* * ** *
54128583 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGACTATATTCGGACTAAGAT-CCGAAGGCA
1 TCCGGACTAAGTCCCGAAGGCATTTGTGC-GAGCT-ACTATAACCGGGCTAAG-TCCCGAAGGCA
* * *
54128645 TTTGTGCGAGTTACTAAA
63 TTGGTACAAGTTACTAAA
* *
54128663 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATCCCGGGCTAAG-CCCGAAGGCAT
1 TCCGGACTAAG-TCCCGAAGGCATTTGTGCGAGCTACTATA-ACCGGGCTAAGTCCCGAAGGCAT
54128725 TGGTACAAGTTACTAAA
64 TGGTACAAGTTACTAAA
** *
54128742 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATT
54128806 TGAATGAGTA
Statistics
Matches: 122, Mismatches: 13, Indels: 16
0.81 0.09 0.11
Matches are distributed among these distances:
78 1 0.01
79 67 0.55
80 45 0.37
81 9 0.07
ACGTcount: A:0.26, C:0.22, G:0.26, T:0.25
Consensus pattern (80 bp):
TCCGGACTAAGTCCCGAAGGCATTTGTGCGAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTG
GTACAAGTTACTAAA
Found at i:54128806 original size:119 final size:120
Alignment explanation
Indices: 54128584--54128807 Score: 287
Period size: 119 Copynumber: 1.9 Consensus size: 120
54128574 CGAACGATGT
* * * *
54128584 CCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATTCGGACTAAGATCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCTTGGTACTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
*
54128649 TGCGAGTTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
66 TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
* **
54128704 CCGGGCTAAG-CCCGAAGGCATTGGTAC-AAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGC-TTGGTACTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCATT
* *
54128766 TGTGCGAGCTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TGTGCGAGCTACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
54128808 AATGAGTAGC
Statistics
Matches: 90, Mismatches: 10, Indels: 9
0.83 0.09 0.08
Matches are distributed among these distances:
118 2 0.02
119 71 0.79
120 17 0.19
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAAGGCTTGGTACTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTTG
TGCGAGCTACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATC
Found at i:54128829 original size:79 final size:79
Alignment explanation
Indices: 54128653--54128840 Score: 204
Period size: 79 Copynumber: 2.4 Consensus size: 79
54128643 CATTTGTGCG
** * *
54128653 AGTTACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAATCCCGGGCTAAGCCC
1 AGTTACTAAATCCGGGTTAA-ATCCCGAAGGCATTTGTGCGAGCTACTAATACCGGGCTAAGCCC
*
54128717 GAAGGCATTGGTACA
65 GAAGGCATTGGAACA
* *
54128732 AGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTACT-ATAACCGGGCTATGTCC
1 AGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGCTACTAAT-ACCGGGCTAAG-CC
* **
54128796 CGAAGGCATTTGAATG
64 CGAAGGCATTGGAACA
* *
54128812 AG-TAGCTATATCC-GGTTAAATTCCGAAGG
1 AGTTA-CTAAATCCGGGTTAAATCCCGAAGG
54128841 TACGTGATTC
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
78 3 0.03
79 66 0.72
80 23 0.25
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.25
Consensus pattern (79 bp):
AGTTACTAAATCCGGGTTAAATCCCGAAGGCATTTGTGCGAGCTACTAATACCGGGCTAAGCCCG
AAGGCATTGGAACA
Found at i:54135475 original size:45 final size:45
Alignment explanation
Indices: 54135390--54135501 Score: 140
Period size: 45 Copynumber: 2.5 Consensus size: 45
54135380 GTATTTCGCA
* * *
54135390 TGCTAGGCTCGAA-GCCCGATA-TCATTTCACCAGCATTATAGCT
1 TGCTAGGCTCGAAGGCCCAATAGTCATCTCACCAGCATTATAGCC
*
54135433 TGCTAGGCTCGAAGGCCCAAATAGT-ATCTCACCGGCATTATAGCC
1 TGCTAGGCTCGAAGGCCC-AATAGTCATCTCACCAGCATTATAGCC
*
54135478 TGCTAGGCTCAAAGGCCCGAATAG
1 TGCTAGGCTCGAAGGCCC-AATAG
54135502 CACTGTACGA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
43 13 0.22
44 4 0.07
45 42 0.70
46 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (45 bp):
TGCTAGGCTCGAAGGCCCAATAGTCATCTCACCAGCATTATAGCC
Found at i:54139676 original size:29 final size:30
Alignment explanation
Indices: 54139620--54139677 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 30
54139610 CTTTTGGAAA
* **
54139620 TATTTACAAAAAGAGGCATCTAGTTTTTAT
1 TATTTACAAAAAGAGGCATCCAAATTTTAT
54139650 TATTTACAAAAAGA-GCATCCAAATTTTA
1 TATTTACAAAAAGAGGCATCCAAATTTTA
54139678 AAAATACTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 11 0.44
30 14 0.56
ACGTcount: A:0.41, C:0.12, G:0.10, T:0.36
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCATCCAAATTTTAT
Found at i:54149973 original size:93 final size:93
Alignment explanation
Indices: 54149866--54150037 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
54149856 CGCCCATAAG
* *
54149866 CGAACTCGAACTCAACTCAACGAGCTCGGCCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54149931 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
54149959 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
54150024 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
54150038 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.30, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:54150034 original size:46 final size:46
Alignment explanation
Indices: 54149859--54150034 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
54149849 TGTAACCCGC
* * * *
54149859 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCGGCCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
54149905 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
54149955 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
54149998 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
54150035 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.56
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:54150053 original size:46 final size:46
Alignment explanation
Indices: 54149908--54150046 Score: 144
Period size: 47 Copynumber: 3.0 Consensus size: 46
54149898 TTCGCATCCA
54149908 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CTAGTTA-CATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-A---ACCATC
* * * * *
54149956 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA--
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCTCAACCATC
54150001 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
54150047 CTAGTGACAT
Statistics
Matches: 75, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
44 8 0.11
45 2 0.03
46 28 0.37
47 30 0.40
48 2 0.03
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATC
Found at i:54158215 original size:39 final size:39
Alignment explanation
Indices: 54158059--54158240 Score: 222
Period size: 39 Copynumber: 4.6 Consensus size: 39
54158049 TCGTTCAAAC
* * ** * **
54158059 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * *
54158099 GCCTTCGGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* *
54158139 GCCTTCGGGCTTAGCCC-GATATCATAACTCACCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
54158177 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
54158216 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
54158241 CTCGAACATT
Statistics
Matches: 122, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
38 33 0.27
39 51 0.42
40 38 0.31
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:54165568 original size:38 final size:39
Alignment explanation
Indices: 54165431--54165611 Score: 229
Period size: 39 Copynumber: 4.6 Consensus size: 39
54165421 TCGTTCAAAC
* * ** * **
54165431 GCCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAAG
1 GCCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATT
* * * * *
54165471 GCCTTCGGACTTAACCCGGATATCACAATTTGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
*
54165510 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCCCAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
54165549 GCCTTC-GGCTTAGCCCGGATATCATAACTCGCACAATT
1 GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
54165587 GCCTTCGGGCTTAGCCCGGATATCA
1 GCCTTCGGGCTTAGCCCGGATATCA
54165612 CTCGAACATT
Statistics
Matches: 121, Mismatches: 19, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
38 37 0.31
39 76 0.63
40 8 0.07
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
GCCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATT
Found at i:54171593 original size:40 final size:40
Alignment explanation
Indices: 54171482--54171682 Score: 239
Period size: 40 Copynumber: 5.0 Consensus size: 40
54171472 CGGATGATAA
* * * *
54171482 CCGGGCTAAGTCTCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATA-T
* *
54171522 CCGGGCTAAG-CCCGAAGGCAATT-GTGTGAGTTATTATAT
1 CCGGGCTAAGTCCCGAAGGC-ATTCGTGCGAGTTACTATAT
54171561 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
54171601 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTCCTATAA
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
* * *
54171641 CTGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTA-CTATAT
54171681 CC
1 CC
54171683 AGTTGAATTC
Statistics
Matches: 139, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
39 32 0.23
40 107 0.77
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGTTACTATAT
Found at i:54176121 original size:47 final size:47
Alignment explanation
Indices: 54176062--54176596 Score: 881
Period size: 47 Copynumber: 11.4 Consensus size: 47
54176052 GATGTACAAG
* *
54176062 GTGTGTATATGTGATAAGGCCTAATGGCCGACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
54176109 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
54176156 GTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
54176203 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
54176250 GTGTATATATGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
54176297 GTGTGTATATGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
54176344 GTGTATATATGTGATAAGGCCCAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
54176391 GTGTGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
54176438 GTGTATATATGTGATAAGGCCGAATGGCCCATGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * *
54176485 GTGTATATATGTGATAAGGCCGAGTGGCCAACGTGATGAATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* * * *
54176532 GTGTATATATGAGATAAGGCCGAATGGCCAATGTGATGGATGTGAAA
1 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
*
54176579 GTGTATAAATGTGATAAG
1 GTGTATATATGTGATAAG
54176597 TCCCGAAGGG
Statistics
Matches: 465, Mismatches: 23, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 465 1.00
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (47 bp):
GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
Found at i:54176143 original size:22 final size:22
Alignment explanation
Indices: 54176117--54176192 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
54176107 AAGTGTATAT
54176117 ATGTGATAAGGCCTAATGGCCA
1 ATGTGATAAGGCCTAATGGCCA
* *** ***
54176139 ATGTGATGAATGTGAAAGTGTATA
1 ATGTGAT-AAGGCCTAA-TGGCCA
54176163 TATGTGATAAGGCCTAATGGCCA
1 -ATGTGATAAGGCCTAATGGCCA
54176186 ATGTGAT
1 ATGTGAT
54176193 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 14 0.38
23 8 0.22
24 8 0.22
25 7 0.19
ACGTcount: A:0.33, C:0.11, G:0.28, T:0.29
Consensus pattern (22 bp):
ATGTGATAAGGCCTAATGGCCA
Found at i:54176286 original size:22 final size:22
Alignment explanation
Indices: 54176258--54176333 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
54176248 AAGTGTATAT
54176258 ATGTGATAAGGCCCAATGGCCG
1 ATGTGATAAGGCCCAATGGCCG
* *** ***
54176280 ATGTGATGAATGTGAAAGTGTGTAT
1 ATGTGAT-AAGGCCCAA-TG-GCCG
54176305 ATGTGATAAGGCCCAATGGCCG
1 ATGTGATAAGGCCCAATGGCCG
54176327 ATGTGAT
1 ATGTGAT
54176334 GAATGTGAAA
Statistics
Matches: 37, Mismatches: 14, Indels: 6
0.65 0.25 0.11
Matches are distributed among these distances:
22 15 0.41
23 7 0.19
24 7 0.19
25 8 0.22
ACGTcount: A:0.29, C:0.13, G:0.32, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGCCCAATGGCCG
Found at i:54176779 original size:26 final size:26
Alignment explanation
Indices: 54176743--54176794 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
54176733 CTAGGATTCA
54176743 TGTAAGACTTTGGTATTGAGTATCTG
1 TGTAAGACTTTGGTATTGAGTATCTG
54176769 TGTAAGACTTTGGTATTGAGTATCTG
1 TGTAAGACTTTGGTATTGAGTATCTG
54176795 CAATAAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.23, C:0.08, G:0.27, T:0.42
Consensus pattern (26 bp):
TGTAAGACTTTGGTATTGAGTATCTG
Found at i:54187029 original size:40 final size:40
Alignment explanation
Indices: 54186974--54187196 Score: 297
Period size: 40 Copynumber: 5.5 Consensus size: 40
54186964 TATTCGGATG
54186974 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
54187014 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
54187057 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
54187097 ATATCCGGGCTAAGT-CCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
54187136 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
54187176 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
54187197 ATACTTGGGT
Statistics
Matches: 163, Mismatches: 16, Indels: 9
0.87 0.09 0.05
Matches are distributed among these distances:
39 49 0.30
40 76 0.47
41 1 0.01
43 37 0.23
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:54195186 original size:40 final size:40
Alignment explanation
Indices: 54195131--54195280 Score: 192
Period size: 40 Copynumber: 3.7 Consensus size: 40
54195121 TATTCGGATG
* *
54195131 ATATCCGGGCTAAGTCCCGAGGGTATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* *
54195171 ATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * * *
54195214 ATATCTGGGCTAAGTCCCGAAAGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
54195254 ATATCCGGGCTAAGTCTCGAAGGCATT
1 ATATCCGGGCTAAGTCCCGAAGGCATT
54195281 CATGCTAGTT
Statistics
Matches: 94, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
40 58 0.62
41 1 0.01
43 35 0.37
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:54197039 original size:40 final size:40
Alignment explanation
Indices: 54196980--54197081 Score: 114
Period size: 40 Copynumber: 2.5 Consensus size: 40
54196970 AAATTGAATG
* * * *
54196980 ATATCCAGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
54197020 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
54197060 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
54197082 TGTGACATCC
Statistics
Matches: 51, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:54205357 original size:40 final size:40
Alignment explanation
Indices: 54205291--54205441 Score: 164
Period size: 40 Copynumber: 3.8 Consensus size: 40
54205281 AAATTGAATG
* * *
54205291 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
54205330 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
54205370 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* *
54205410 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC
54205442 ACGATATCGC
Statistics
Matches: 93, Mismatches: 15, Indels: 7
0.81 0.13 0.06
Matches are distributed among these distances:
39 16 0.17
40 75 0.81
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:54213375 original size:40 final size:40
Alignment explanation
Indices: 54213316--54213457 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
54213306 AAATTGAATG
* * *
54213316 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ***
54213356 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * ** *
54213396 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTAGAAACT
*
54213436 CTATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
54213458 GCATTTGTGC
Statistics
Matches: 86, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 3 0.03
40 83 0.97
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:54213458 original size:40 final size:39
Alignment explanation
Indices: 54213355--54213483 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
54213345 TGCTGGAAAT
* * *
54213355 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
54213395 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
54213435 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
54213475 TATATCCGG
1 TATATCCGG
54213484 TTATATTCCG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:54215308 original size:40 final size:40
Alignment explanation
Indices: 54215240--54215402 Score: 179
Period size: 40 Copynumber: 4.1 Consensus size: 40
54215230 CGGGATTTAA
** *
54215240 CCGGATATAAC-ACAAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
* *** *
54215279 CCGGATTTGGTAACTTGCACAATTGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
54215319 CCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAACAACTCGCAC-AATTGCCTTCGGGTCTTAGC
* * * *
54215359 CCGGATATAATC-ACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAA-CAACTCGCACAATTGCCTTCGGGTCTTAGC
54215399 CCGG
1 CCGG
54215403 GTATCATTCA
Statistics
Matches: 105, Mismatches: 15, Indels: 7
0.83 0.12 0.06
Matches are distributed among these distances:
39 9 0.09
40 93 0.89
41 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CCGGATATAACAACTCGCACAATTGCCTTCGGGTCTTAGC
Found at i:54215362 original size:80 final size:79
Alignment explanation
Indices: 54215226--54215402 Score: 205
Period size: 80 Copynumber: 2.2 Consensus size: 79
54215216 GAATCACGTA
* * * **
54215226 CCTTCGGGATTTA-ACCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CCTTCGGGACTTAGCCCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
* *
54215290 AACTTGCACAATTG
66 AACTAGCACAAATG
* ** *
54215304 CCTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAA-TGCCTTCGGGTCTTAGCCCGGATATA
1 CCTTCGGGACTTAGCCCGGATATAAC-ACAAGCAC-AATTGCCTTCGGGTCTTAACCCGGATATA
* *
54215368 ATCACTAGCATAAATG
64 ATAACTAGCACAAATG
54215384 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
54215403 GTATCATTCA
Statistics
Matches: 82, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
78 11 0.13
79 11 0.13
80 58 0.71
81 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAACACAAGCACAATTGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATG
Found at i:54218970 original size:52 final size:49
Alignment explanation
Indices: 54218845--54219031 Score: 130
Period size: 43 Copynumber: 4.0 Consensus size: 49
54218835 TTTTCAAGTG
* * * * * *
54218845 TATATTTATGTATTACGTAAGTTAAGAAAGTTTTGTAAGTTATGATATGA
1 TATATTTATATACTACGTAAGTTATGTAAGTTATGTAAATTATGATAT-A
* *
54218895 TATA---A-AT-TTATGTAAGGTT-TGTAAGTTATGTAAATTATGATATGAAA
1 TATATTTATATACTACGTAA-GTTATGTAAGTTATGTAAATTATGATAT---A
*
54218942 TATATTTATATATTACGTAAGTTATGTAAGTTAT-T--A-TATG--ATA
1 TATATTTATATACTACGTAAGTTATGTAAGTTATGTAAATTATGATATA
* * *
54218985 TATATTTATGTACTATGTAAGTTATGTAAGTTATGTAAGTTAT-ATAT
1 TATATTTATATACTACGTAAGTTATGTAAGTTATGTAAATTATGATAT
54219032 TTATGTATTA
Statistics
Matches: 110, Mismatches: 12, Indels: 32
0.71 0.08 0.21
Matches are distributed among these distances:
43 32 0.29
44 1 0.01
45 27 0.25
46 6 0.05
47 9 0.08
48 6 0.05
49 1 0.01
50 5 0.05
51 6 0.05
52 17 0.15
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.46
Consensus pattern (49 bp):
TATATTTATATACTACGTAAGTTATGTAAGTTATGTAAATTATGATATA
Found at i:54218981 original size:43 final size:43
Alignment explanation
Indices: 54218872--54219052 Score: 215
Period size: 43 Copynumber: 4.2 Consensus size: 43
54218862 TAAGTTAAGA
* * *
54218872 AAGTTTTGTAAGTTATGATATGATATAAATTTATGTAAGGTT-TGT
1 AAGTTATGTAAGTTATTATATGATATATATTTATGT-A--TTATGT
* * * * *
54218917 AAGTTATGTAAATTATGATATGAAATATATTTATATATTACGT
1 AAGTTATGTAAGTTATTATATGATATATATTTATGTATTATGT
*
54218960 AAGTTATGTAAGTTATTATATGATATATATTTATGTACTATGT
1 AAGTTATGTAAGTTATTATATGATATATATTTATGTATTATGT
*
54219003 AAGTTATGTAAGTTATGTA-A-GTTATATATTTATGTATTATGT
1 AAGTTATGTAAGTTAT-TATATGATATATATTTATGTATTATGT
54219045 AAGTTATG
1 AAGTTATG
54219053 ATGTCATGTA
Statistics
Matches: 120, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
42 30 0.25
43 56 0.47
44 3 0.03
45 31 0.26
ACGTcount: A:0.36, C:0.01, G:0.16, T:0.47
Consensus pattern (43 bp):
AAGTTATGTAAGTTATTATATGATATATATTTATGTATTATGT
Found at i:54219012 original size:9 final size:9
Alignment explanation
Indices: 54218998--54219052 Score: 71
Period size: 9 Copynumber: 6.4 Consensus size: 9
54218988 ATTTATGTAC
54218998 TATGTAAGT
1 TATGTAAGT
54219007 TATGTAAGT
1 TATGTAAGT
54219016 TATGTAAGT
1 TATGTAAGT
* *
54219025 TATAT-ATT
1 TATGTAAGT
54219033 TATGT-A-T
1 TATGTAAGT
54219040 TATGTAAGT
1 TATGTAAGT
54219049 TATG
1 TATG
54219053 ATGTCATGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
7 6 0.15
8 8 0.20
9 27 0.66
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.49
Consensus pattern (9 bp):
TATGTAAGT
Found at i:54219061 original size:24 final size:24
Alignment explanation
Indices: 54219015--54219064 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
54219005 GTTATGTAAG
* *
54219015 TTATGTAAGTTATATATTTATGTA
1 TTATGTAAGTTATATAGTCATGTA
54219039 TTATGTAAGTTATGAT-GTCATGTA
1 TTATGTAAGTTAT-ATAGTCATGTA
54219063 TT
1 TT
54219065 TAATTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 21 0.91
25 2 0.09
ACGTcount: A:0.30, C:0.02, G:0.16, T:0.52
Consensus pattern (24 bp):
TTATGTAAGTTATATAGTCATGTA
Found at i:54219096 original size:15 final size:14
Alignment explanation
Indices: 54219066--54219099 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
54219056 TCATGTATTT
*
54219066 AATTATTTTAATTA
1 AATTATTTTAAATA
54219080 AATTATATTTAAATA
1 AATTAT-TTTAAATA
54219095 AATTA
1 AATTA
54219100 ATCCAAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.33
15 12 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATTATTTTAAATA
Found at i:54219254 original size:15 final size:15
Alignment explanation
Indices: 54219236--54219319 Score: 81
Period size: 15 Copynumber: 5.7 Consensus size: 15
54219226 AAAAATTTAT
54219236 TTTAATTAAATAATA
1 TTTAATTAAATAATA
54219251 TTT-A-TAAA-AATTA
1 TTTAATTAAATAA-TA
54219264 TTTTAATTAAATAATA
1 -TTTAATTAAATAATA
54219280 TTT-A-TAAA-AATTA
1 TTTAATTAAATAA-TA
54219293 TTTTAATTAAATAATA
1 -TTTAATTAAATAATA
*
54219309 TTTAAATAAAT
1 TTTAATTAAAT
54219320 TAATCCAAAT
Statistics
Matches: 58, Mismatches: 1, Indels: 20
0.73 0.01 0.25
Matches are distributed among these distances:
12 4 0.07
13 12 0.21
14 8 0.14
15 18 0.31
16 12 0.21
17 4 0.07
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
TTTAATTAAATAATA
Found at i:54219264 original size:29 final size:29
Alignment explanation
Indices: 54219226--54219321 Score: 167
Period size: 29 Copynumber: 3.3 Consensus size: 29
54219216 AATCACCTGG
54219226 AAAAATTTATTTTAATTAAATAATATTTAT
1 AAAAA-TTATTTTAATTAAATAATATTTAT
54219256 AAAAATTATTTTAATTAAATAATATTTAT
1 AAAAATTATTTTAATTAAATAATATTTAT
54219285 AAAAATTATTTTAATTAAATAATATTTA-
1 AAAAATTATTTTAATTAAATAATATTTAT
54219313 AATAAATTA
1 AA-AAATTA
54219322 ATCCAAATTA
Statistics
Matches: 65, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
28 2 0.03
29 58 0.89
30 5 0.08
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
AAAAATTATTTTAATTAAATAATATTTAT
Found at i:54219265 original size:13 final size:13
Alignment explanation
Indices: 54219249--54219295 Score: 51
Period size: 13 Copynumber: 3.4 Consensus size: 13
54219239 AATTAAATAA
54219249 TATTTATAAAAAT
1 TATTTATAAAAAT
54219262 TATTT-TAATTAAAT
1 TATTTATAA--AAAT
54219276 AATATTTATAAAAAT
1 --TATTTATAAAAAT
54219291 TATTT
1 TATTT
54219296 TAATTAAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 10
0.74 0.00 0.26
Matches are distributed among these distances:
12 3 0.10
13 10 0.34
14 4 0.14
15 4 0.14
16 5 0.17
17 3 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
TATTTATAAAAAT
Found at i:54219479 original size:15 final size:15
Alignment explanation
Indices: 54219461--54219515 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
54219451 AAAAATTTAT
54219461 TTTAATTAAATAATA
1 TTTAATTAAATAATA
54219476 TTT-A-TAAA-AATTA
1 TTTAATTAAATAA-TA
*
54219489 TATTAATTATATAATA
1 T-TTAATTAAATAATA
*
54219505 TTTAAATAAAT
1 TTTAATTAAAT
54219516 TAATCTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
12 2 0.06
13 7 0.22
14 3 0.09
15 12 0.38
16 6 0.19
17 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAATTAAATAATA
Found at i:54219484 original size:29 final size:29
Alignment explanation
Indices: 54219450--54219517 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
54219440 AATCACATGG
*
54219450 TAAAAATTTATTTTAATTAAATAATATTTA
1 TAAAAA-TTATATTAATTAAATAATATTTA
*
54219480 TAAAAATTATATTAATTATATAATATTTA
1 TAAAAATTATATTAATTAAATAATATTTA
54219509 -AATAAATTA
1 TAA-AAATTA
54219518 ATCTAAATTA
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
28 2 0.06
29 27 0.77
30 6 0.17
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
TAAAAATTATATTAATTAAATAATATTTA
Found at i:54219516 original size:20 final size:20
Alignment explanation
Indices: 54219464--54219517 Score: 56
Period size: 20 Copynumber: 2.7 Consensus size: 20
54219454 AATTTATTTT
54219464 AATTAAATAATATT-TATAAA
1 AATTAAATAA-ATTATATAAA
* * *
54219484 AATTATATTAATTATATAAT
1 AATTAAATAAATTATATAAA
*
54219504 ATTTAAATAAATTA
1 AATTAAATAAATTA
54219518 ATCTAAATTA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
19 3 0.11
20 24 0.89
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AATTAAATAAATTATATAAA
Found at i:54219680 original size:15 final size:16
Alignment explanation
Indices: 54219652--54219709 Score: 56
Period size: 16 Copynumber: 3.9 Consensus size: 16
54219642 GAAAAATTTT
54219652 TATTT-TAATTAAATAA
1 TATTTATAA-TAAATAA
54219668 TATTTATAA-AAAT--
1 TATTTATAATAAATAA
54219681 TATTT-TAATTAAATAA
1 TATTTATAA-TAAATAA
54219697 TATTTA-AATAAAT
1 TATTTATAATAAAT
54219710 TAATCCAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
12 3 0.08
13 5 0.14
14 4 0.11
15 9 0.25
16 12 0.33
17 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TATTTATAATAAATAA
Found at i:54219688 original size:29 final size:29
Alignment explanation
Indices: 54219651--54219711 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
54219641 GGAAAAATTT
54219651 TTATTTTAATTAAATAATATTTATAA-AAA
1 TTATTTTAATTAAATAATATTTA-AATAAA
54219680 TTATTTTAATTAAATAATATTTAAATAAA
1 TTATTTTAATTAAATAATATTTAAATAAA
54219709 TTA
1 TTA
54219712 ATCCAAATTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
28 2 0.06
29 29 0.94
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (29 bp):
TTATTTTAATTAAATAATATTTAAATAAA
Done.