Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 60 of 349
Found at i:17441387 original size:23 final size:23
Alignment explanation
Indices: 17441346--17441395 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
17441336 GGTGGGTGCA
17441346 TTCTAGCACTAAGGGGCAACTCG
1 TTCTAGCACTAAGGGGCAACTCG
* * * *
17441369 TTCTAGCTCTATGGTGCAATTCG
1 TTCTAGCACTAAGGGGCAACTCG
17441392 TTCT
1 TTCT
17441396 GGCGCTACAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (23 bp):
TTCTAGCACTAAGGGGCAACTCG
Found at i:17441409 original size:23 final size:23
Alignment explanation
Indices: 17441383--17441444 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
17441373 AGCTCTATGG
*
17441383 TGCAATTCGTTCTGGCGCTACAA
1 TGCAATTCATTCTGGCGCTACAA
* *
17441406 TGCAATTCATTCTGGTGCTACAG
1 TGCAATTCATTCTGGCGCTACAA
*
17441429 TGCAATTCAATCTGGC
1 TGCAATTCATTCTGGC
17441445 ACTTTGATGC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.23, C:0.24, G:0.21, T:0.32
Consensus pattern (23 bp):
TGCAATTCATTCTGGCGCTACAA
Found at i:17445211 original size:2 final size:2
Alignment explanation
Indices: 17445204--17445244 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
17445194 TCAAAACCCT
17445204 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
17445245 TGTCTCATTC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:17446457 original size:21 final size:22
Alignment explanation
Indices: 17446431--17446480 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
17446421 ATATATATAT
17446431 AAAAAAGGAATA-AAAGAAAGA
1 AAAAAAGGAATAGAAAGAAAGA
* *
17446452 AAAAAAAGAATAGAAAGGAAGA
1 AAAAAAGGAATAGAAAGAAAGA
*
17446474 AACAAAG
1 AAAAAAG
17446481 CAAACGAAAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 11 0.46
22 13 0.54
ACGTcount: A:0.74, C:0.02, G:0.20, T:0.04
Consensus pattern (22 bp):
AAAAAAGGAATAGAAAGAAAGA
Found at i:17446458 original size:22 final size:22
Alignment explanation
Indices: 17446431--17446475 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 22
17446421 ATATATATAT
*
17446431 AAAAAAGGAATA-AAAGAAAGA
1 AAAAAAAGAATAGAAAGAAAGA
*
17446452 AAAAAAAGAATAGAAAGGAAGA
1 AAAAAAAGAATAGAAAGAAAGA
17446474 AA
1 AA
17446476 CAAAGCAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.76, C:0.00, G:0.20, T:0.04
Consensus pattern (22 bp):
AAAAAAAGAATAGAAAGAAAGA
Found at i:17447759 original size:12 final size:12
Alignment explanation
Indices: 17447742--17447771 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
17447732 TGTGGAATGG
17447742 AGAGGAGGAGGA
1 AGAGGAGGAGGA
17447754 AGAGGAGGAGGA
1 AGAGGAGGAGGA
*
17447766 GGAGGA
1 AGAGGA
17447772 AAATATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.60, T:0.00
Consensus pattern (12 bp):
AGAGGAGGAGGA
Found at i:17448552 original size:46 final size:46
Alignment explanation
Indices: 17448477--17448843 Score: 473
Period size: 46 Copynumber: 8.0 Consensus size: 46
17448467 AGTGTGCTCT
* * *
17448477 CTGAAATGAAATGTATAAGACCATAGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
17448523 CTGATATGAAATGTGTAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
17448569 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACTATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
17448615 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
17448661 ATGATATAAAATGTGTAAGACCATGGTTGAAAGATACCACGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * **
17448707 GTGACATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** ** *
17448753 ATGACGGGAAAATGAATAAAACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * ** * * * * *
17448800 ATGACAAAAAACGGGTAAAACCATAGTTGAAAGATACTATGGCA
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
17448844 TCATGTCGAA
Statistics
Matches: 292, Mismatches: 28, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
46 250 0.86
47 42 0.14
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:17450521 original size:8 final size:8
Alignment explanation
Indices: 17450508--17450536 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
17450498 TTATGTTTAA
17450508 TATATTAT
1 TATATTAT
17450516 TATATTAT
1 TATATTAT
17450524 TATATTAT
1 TATATTAT
17450532 TATAT
1 TATAT
17450537 AATAAAGATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATATTAT
Found at i:17450569 original size:5 final size:5
Alignment explanation
Indices: 17450559--17450585 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
17450549 TTATGTTTTA
17450559 ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT AT
17450586 AAACTAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:17450582 original size:52 final size:50
Alignment explanation
Indices: 17450496--17450595 Score: 134
Period size: 51 Copynumber: 2.0 Consensus size: 50
17450486 TTAAGATTTT
17450496 TTTTATGTTTAATATATTATTATATTATTATATTATTATATAA-TAAAGATA
1 TTTTATGTTTAATATATTATTATATTATTATATTA-TATA-AACTAAAGATA
17450547 TTTTATGTTTTAAT-TA-TATTATATTATATTATATTATATAAACTAAAGA
1 TTTTATG-TTTAATATATTATTATA-T-TATTATATTATATAAACTAAAGA
17450596 AACAAAAGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
50 9 0.20
51 20 0.44
52 16 0.36
ACGTcount: A:0.41, C:0.01, G:0.04, T:0.54
Consensus pattern (50 bp):
TTTTATGTTTAATATATTATTATATTATTATATTATATAAACTAAAGATA
Found at i:17450629 original size:21 final size:21
Alignment explanation
Indices: 17450593--17450653 Score: 97
Period size: 21 Copynumber: 3.0 Consensus size: 21
17450583 TATAAACTAA
*
17450593 AGAAACA-AAAGAAAGGAAAT
1 AGAAACAGAATGAAAGGAAAT
17450613 AGAAACAGAATGAAAGGAAAT
1 AGAAACAGAATGAAAGGAAAT
*
17450634 AGAAACAGAATGAAACGAAA
1 AGAAACAGAATGAAAGGAAA
17450654 CAGAGAGCAG
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 7 0.18
21 31 0.82
ACGTcount: A:0.66, C:0.07, G:0.21, T:0.07
Consensus pattern (21 bp):
AGAAACAGAATGAAAGGAAAT
Found at i:17452322 original size:21 final size:21
Alignment explanation
Indices: 17452287--17452382 Score: 129
Period size: 21 Copynumber: 4.5 Consensus size: 21
17452277 AGGCACTTTA
17452287 TGTGTCGTATTTCAGGCACCTCG
1 TGTGTCGTA--TCAGGCACCTCG
17452310 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
17452331 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* * * **
17452352 TGTGTCGTTTTAGGCACTTTA
1 TGTGTCGTATCAGGCACCTCG
17452373 TGTGTCGTAT
1 TGTGTCGTAT
17452383 ACTGATCAGG
Statistics
Matches: 67, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
21 58 0.87
23 9 0.13
ACGTcount: A:0.14, C:0.23, G:0.27, T:0.36
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:17452357 original size:42 final size:42
Alignment explanation
Indices: 17452274--17452382 Score: 137
Period size: 42 Copynumber: 2.5 Consensus size: 42
17452264 GGCTTTATCG
* *
17452274 ATCAGGCACTTTATGTGTCGTATTTCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTA--TCAGGCACCTCGTGTGTCGT
*
17452318 ATCAGGCACCTCGTGTGTCGTATCAGGCACCTCGTGTGTCGT
1 ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
* * * *
17452360 TTTAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGTAT
17452383 ACTGATCAGG
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
42 38 0.67
44 19 0.33
ACGTcount: A:0.16, C:0.23, G:0.26, T:0.36
Consensus pattern (42 bp):
ATCAGGCACCTCATGTGTCGTATCAGGCACCTCGTGTGTCGT
Found at i:17454829 original size:26 final size:26
Alignment explanation
Indices: 17454799--17454864 Score: 80
Period size: 26 Copynumber: 2.5 Consensus size: 26
17454789 AGTTTACTTA
17454799 GCGAACTAGGGTTCACAAGATAAGTT
1 GCGAACTAGGGTTCACAAGATAAGTT
* *
17454825 GCGAA-TAAGGGTTCACCAGGTAAGTT
1 GCGAACT-AGGGTTCACAAGATAAGTT
**
17454851 ATGAACTAGGGTTC
1 GCGAACTAGGGTTC
17454865 GCCAGTCTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 32 0.94
27 1 0.03
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.24
Consensus pattern (26 bp):
GCGAACTAGGGTTCACAAGATAAGTT
Found at i:17456601 original size:12 final size:12
Alignment explanation
Indices: 17456584--17456610 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17456574 TGGTTTCAGT
17456584 GTATGACTTGTA
1 GTATGACTTGTA
17456596 GTATGACTTGTA
1 GTATGACTTGTA
17456608 GTA
1 GTA
17456611 GGAGAATACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (12 bp):
GTATGACTTGTA
Found at i:17458411 original size:26 final size:26
Alignment explanation
Indices: 17458343--17458411 Score: 86
Period size: 26 Copynumber: 2.7 Consensus size: 26
17458333 TTTACTTAGC
* *
17458343 GAACTAGGGTTCACAAGATAAGTTGT
1 GAACTAGGGTTCACCAGATAAGTTAT
*
17458369 GAA-TAAGGGTTCACCAGGTAAGTTAT
1 GAACT-AGGGTTCACCAGATAAGTTAT
*
17458395 GAACTAGGGTTCGCCAG
1 GAACTAGGGTTCACCAG
17458412 TCTTGTTGCG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
25 1 0.03
26 35 0.95
27 1 0.03
ACGTcount: A:0.32, C:0.14, G:0.29, T:0.25
Consensus pattern (26 bp):
GAACTAGGGTTCACCAGATAAGTTAT
Found at i:17460142 original size:12 final size:12
Alignment explanation
Indices: 17460125--17460151 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
17460115 TGGTTTCAGT
17460125 GTATGACTTGTA
1 GTATGACTTGTA
17460137 GTATGACTTGTA
1 GTATGACTTGTA
17460149 GTA
1 GTA
17460152 GGAGAATACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.07, G:0.26, T:0.41
Consensus pattern (12 bp):
GTATGACTTGTA
Found at i:17465816 original size:38 final size:38
Alignment explanation
Indices: 17465765--17465841 Score: 145
Period size: 38 Copynumber: 2.0 Consensus size: 38
17465755 CGTCTGGCCA
*
17465765 TATGTATTGAGGGATAGGTAGATAGATCATGGTGATTT
1 TATGTATTGAGGGATAGGTAGATACATCATGGTGATTT
17465803 TATGTATTGAGGGATAGGTAGATACATCATGGTGATTT
1 TATGTATTGAGGGATAGGTAGATACATCATGGTGATTT
17465841 T
1 T
17465842 GTAAAAATTA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.04, G:0.30, T:0.38
Consensus pattern (38 bp):
TATGTATTGAGGGATAGGTAGATACATCATGGTGATTT
Found at i:17467575 original size:32 final size:32
Alignment explanation
Indices: 17467539--17467602 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
17467529 TGCCGAGAGA
17467539 AAGAGTAACGTTAGAATTCTTTCAAACCGAGT
1 AAGAGTAACGTTAGAATTCTTTCAAACCGAGT
*
17467571 AAGAGTAACGTTGGAATTCTTTCAAACCGAGT
1 AAGAGTAACGTTAGAATTCTTTCAAACCGAGT
17467603 TTAGAAAGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (32 bp):
AAGAGTAACGTTAGAATTCTTTCAAACCGAGT
Found at i:17474840 original size:30 final size:30
Alignment explanation
Indices: 17474806--17474865 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
17474796 TGAGCAGGAT
* * *
17474806 AACCAAAAGAGCAAGACTGCCTTTGGTGTC
1 AACCAAAAAAGCAAGACTACCTTCGGTGTC
17474836 AACCAAAAAAGCAAGACTACCTTCGGTGTC
1 AACCAAAAAAGCAAGACTACCTTCGGTGTC
17474866 GTGACATAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.37, C:0.25, G:0.20, T:0.18
Consensus pattern (30 bp):
AACCAAAAAAGCAAGACTACCTTCGGTGTC
Found at i:17476634 original size:20 final size:20
Alignment explanation
Indices: 17476596--17476659 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
17476586 ATGATAGCAC
* * *
17476596 AACAGCACAGAACAAAACAA
1 AACAGAACAGAGCAGAACAA
*
17476616 AATAGAACAGAGCAGAACAA
1 AACAGAACAGAGCAGAACAA
* * *
17476636 AACAGAACATAGTAGAACAG
1 AACAGAACAGAGCAGAACAA
17476656 AACA
1 AACA
17476660 AGAAATGTAT
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.61, C:0.19, G:0.16, T:0.05
Consensus pattern (20 bp):
AACAGAACAGAGCAGAACAA
Found at i:17476656 original size:25 final size:24
Alignment explanation
Indices: 17476597--17476660 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 24
17476587 TGATAGCACA
*
17476597 ACAGCACAGAACAAAACAAAATAG
1 ACAGAACAGAACAAAACAAAATAG
*
17476621 AACAGAGCAGAACAAAACAGAACATAG
1 -ACAGAACAGAACAAAACA-AA-ATAG
*
17476648 -TAGAACAGAACAA
1 ACAGAACAGAACAA
17476661 GAAATGTATG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
25 27 0.82
26 2 0.06
27 4 0.12
ACGTcount: A:0.61, C:0.19, G:0.16, T:0.05
Consensus pattern (24 bp):
ACAGAACAGAACAAAACAAAATAG
Found at i:17478594 original size:31 final size:31
Alignment explanation
Indices: 17478553--17478611 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
17478543 ATTTCACATA
* *
17478553 CCCGTGTGGACTACCTATGTGGGCCCACACG
1 CCCGTATGGACTACCCATGTGGGCCCACACG
*
17478584 CCCGTATGGACTACCCGTGTGGGCCCAC
1 CCCGTATGGACTACCCATGTGGGCCCAC
17478612 GTTCTCGTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.15, C:0.37, G:0.29, T:0.19
Consensus pattern (31 bp):
CCCGTATGGACTACCCATGTGGGCCCACACG
Found at i:17485720 original size:22 final size:22
Alignment explanation
Indices: 17485692--17485742 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
17485682 GCGACAACAA
17485692 GGGTGTGTTTCAAAGCACACGG
1 GGGTGTGTTTCAAAGCACACGG
*
17485714 GGGTGTGTTTCAAAGTACACGG
1 GGGTGTGTTTCAAAGCACACGG
*
17485736 GCGTGTG
1 GGGTGTG
17485743 CATTGCCTCC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.39, T:0.25
Consensus pattern (22 bp):
GGGTGTGTTTCAAAGCACACGG
Found at i:17496798 original size:23 final size:23
Alignment explanation
Indices: 17496772--17496815 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
17496762 AAGTTTAAAG
* *
17496772 TTTAATTTTGGTTAATAAAATTT
1 TTTAATGTTGGTTAAGAAAATTT
17496795 TTTAATGTTGGTTAAGAAAAT
1 TTTAATGTTGGTTAAGAAAAT
17496816 GATAATTTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.14, T:0.50
Consensus pattern (23 bp):
TTTAATGTTGGTTAAGAAAATTT
Found at i:17497520 original size:43 final size:43
Alignment explanation
Indices: 17497459--17497547 Score: 178
Period size: 43 Copynumber: 2.1 Consensus size: 43
17497449 ACGTATATAC
17497459 GTGTGATAGAATTTCTAGTGTTGTATATAAAGATTTTAACTAA
1 GTGTGATAGAATTTCTAGTGTTGTATATAAAGATTTTAACTAA
17497502 GTGTGATAGAATTTCTAGTGTTGTATATAAAGATTTTAACTAA
1 GTGTGATAGAATTTCTAGTGTTGTATATAAAGATTTTAACTAA
17497545 GTG
1 GTG
17497548 GGGTGTCACT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 46 1.00
ACGTcount: A:0.34, C:0.04, G:0.20, T:0.42
Consensus pattern (43 bp):
GTGTGATAGAATTTCTAGTGTTGTATATAAAGATTTTAACTAA
Found at i:17502396 original size:13 final size:12
Alignment explanation
Indices: 17502356--17502399 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
17502346 ATAGTTTTGG
*
17502356 CACGGCCTGGCA
1 CACGGGCTGGCA
**
17502368 CATAGGCTGGCA
1 CACGGGCTGGCA
17502380 CACGGGCTGGTCA
1 CACGGGCTGG-CA
17502393 CACGGGC
1 CACGGGC
17502400 ATGTGGTTGG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 17 0.65
13 9 0.35
ACGTcount: A:0.18, C:0.34, G:0.36, T:0.11
Consensus pattern (12 bp):
CACGGGCTGGCA
Found at i:17508627 original size:25 final size:25
Alignment explanation
Indices: 17508593--17508670 Score: 95
Period size: 25 Copynumber: 3.2 Consensus size: 25
17508583 ATGTTCAAGC
* *
17508593 GAGCC-ATATCAGGAAGCTCACAAA
1 GAGCCTATATCAGGATGCTCATAAA
17508617 GAGCCTATATCAGGATGCTCATAAA
1 GAGCCTATATCAGGATGCTCATAAA
* ** *
17508642 AATTCTATATCAAGATGCTCATAAA
1 GAGCCTATATCAGGATGCTCATAAA
17508667 GAGC
1 GAGC
17508671 TGCGTTTGTG
Statistics
Matches: 44, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
24 5 0.11
25 39 0.89
ACGTcount: A:0.40, C:0.21, G:0.18, T:0.22
Consensus pattern (25 bp):
GAGCCTATATCAGGATGCTCATAAA
Found at i:17509907 original size:18 final size:18
Alignment explanation
Indices: 17509884--17509922 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
17509874 GCAATAATTT
*
17509884 TAAAATAAATTTTTTTTC
1 TAAAATAAATTTTCTTTC
17509902 TAAAATAAATTTTCTTTC
1 TAAAATAAATTTTCTTTC
17509920 TAA
1 TAA
17509923 CTCAGATTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (18 bp):
TAAAATAAATTTTCTTTC
Found at i:17510477 original size:16 final size:16
Alignment explanation
Indices: 17510456--17510486 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17510446 CGTGTTATAG
17510456 CATATAAATTTGAAAT
1 CATATAAATTTGAAAT
*
17510472 CATATATATTTGAAA
1 CATATAAATTTGAAA
17510487 ATTTTTTAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (16 bp):
CATATAAATTTGAAAT
Found at i:17515071 original size:25 final size:24
Alignment explanation
Indices: 17515032--17515084 Score: 88
Period size: 25 Copynumber: 2.2 Consensus size: 24
17515022 TTAGTTTTAC
17515032 TTTTTTTTATATATTATATTAGGT
1 TTTTTTTTATATATTATATTAGGT
*
17515056 TTTTATTTTATCTATTATATTAGGT
1 TTTT-TTTTATATATTATATTAGGT
17515081 TTTT
1 TTTT
17515085 GTTTCCTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
24 4 0.15
25 23 0.85
ACGTcount: A:0.23, C:0.02, G:0.08, T:0.68
Consensus pattern (24 bp):
TTTTTTTTATATATTATATTAGGT
Found at i:17522244 original size:16 final size:18
Alignment explanation
Indices: 17522223--17522255 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
17522213 GATATGATAC
17522223 TAAAAT-TAT-TAAAAAT
1 TAAAATATATATAAAAAT
17522239 TAAAATATATATAAAAA
1 TAAAATATATATAAAAA
17522256 AATCAAGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATATATATAAAAAT
Found at i:17522547 original size:22 final size:21
Alignment explanation
Indices: 17522512--17522587 Score: 59
Period size: 22 Copynumber: 3.7 Consensus size: 21
17522502 AAAAGGTATC
* *
17522512 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
17522533 TACAAAATCATATCTTTTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
17522556 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
17522575 TGC-AATCATATCT
1 TACAAATCATATCT
17522588 AAGATTGTAT
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
18 6 0.14
19 10 0.23
20 1 0.02
21 3 0.07
22 15 0.34
23 9 0.20
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:17522602 original size:35 final size:37
Alignment explanation
Indices: 17522550--17522619 Score: 117
Period size: 35 Copynumber: 1.9 Consensus size: 37
17522540 TCATATCTTT
17522550 TAAGATTGCATATCATATCTAAGATTGCA-ATCATATC
1 TAAGATTG-ATATCATATCTAAGATTGCATATCATATC
17522587 TAAGATTG-TATCATATCTAAGATTGCATATCAT
1 TAAGATTGATATCATATCTAAGATTGCATATCAT
17522620 TGAAGATTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
35 19 0.59
36 5 0.16
37 8 0.25
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (37 bp):
TAAGATTGATATCATATCTAAGATTGCATATCATATC
Found at i:17522627 original size:17 final size:19
Alignment explanation
Indices: 17522550--17522619 Score: 119
Period size: 17 Copynumber: 3.8 Consensus size: 19
17522540 TCATATCTTT
17522550 TAAGATTGCATATCATATC
1 TAAGATTGCATATCATATC
17522569 TAAGATTGCA-ATCATATC
1 TAAGATTGCATATCATATC
17522587 TAAGATTG--TATCATATC
1 TAAGATTGCATATCATATC
17522604 TAAGATTGCATATCAT
1 TAAGATTGCATATCAT
17522620 TGAAGATTAT
Statistics
Matches: 48, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
17 16 0.33
18 16 0.33
19 16 0.33
ACGTcount: A:0.37, C:0.14, G:0.11, T:0.37
Consensus pattern (19 bp):
TAAGATTGCATATCATATC
Found at i:17525052 original size:30 final size:30
Alignment explanation
Indices: 17525018--17525074 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
17525008 CACACCTGTG
* * *
17525018 TGAGCCACACGGGCTGGGCACAGGCCCCTA
1 TGAGCCAAACGGGCTGGCCACACGCCCCTA
17525048 TGAGCCAAACGGGCTGGCCACACGCCC
1 TGAGCCAAACGGGCTGGCCACACGCCC
17525075 ATGTGCCAGC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.39, G:0.32, T:0.09
Consensus pattern (30 bp):
TGAGCCAAACGGGCTGGCCACACGCCCCTA
Found at i:17529667 original size:48 final size:44
Alignment explanation
Indices: 17529593--17529690 Score: 117
Period size: 48 Copynumber: 2.1 Consensus size: 44
17529583 CCTTATTTAA
17529593 TTATTTCTTTATTCTTTATTCCTTATT-TATCATTATTAGTATATTATG
1 TTATTTCTTTATTCTTTATTCCTTATTAT-TC-TTATTA-T-TATTA-G
* **
17529641 TTATTTCTTTATTGTTTATTGTTTATTATTCTTATTATTATTAG
1 TTATTTCTTTATTCTTTATTCCTTATTATTCTTATTATTATTAG
17529685 TTATTT
1 TTATTT
17529691 GAATTATCTT
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
44 7 0.15
45 5 0.11
46 1 0.02
47 6 0.13
48 26 0.57
49 1 0.02
ACGTcount: A:0.21, C:0.07, G:0.05, T:0.66
Consensus pattern (44 bp):
TTATTTCTTTATTCTTTATTCCTTATTATTCTTATTATTATTAG
Found at i:17531375 original size:6 final size:6
Alignment explanation
Indices: 17531364--17531402 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
17531354 TTTTATTCTA
* *
17531364 TTTTAT TTTTAT TTTTAT TTTTAT GTTTAT TGTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTT
17531403 CTTAGACTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:17538332 original size:13 final size:13
Alignment explanation
Indices: 17538314--17538340 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
17538304 CTCTGATTAA
17538314 TCAACTTTTTAGG
1 TCAACTTTTTAGG
17538327 TCAACTTTTTAGG
1 TCAACTTTTTAGG
17538340 T
1 T
17538341 TTCAAGTAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.15, G:0.15, T:0.48
Consensus pattern (13 bp):
TCAACTTTTTAGG
Found at i:17538520 original size:16 final size:16
Alignment explanation
Indices: 17538499--17538539 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
17538489 TTTGGTTCGC
17538499 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
17538515 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
17538531 TGTAATGGA
1 TGTATTGGA
17538540 AAAGCTGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.27, C:0.00, G:0.37, T:0.37
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:17538806 original size:18 final size:17
Alignment explanation
Indices: 17538785--17538819 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
17538775 TTATTATTAA
*
17538785 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
17538803 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
17538820 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:17538955 original size:154 final size:155
Alignment explanation
Indices: 17538672--17538984 Score: 558
Period size: 154 Copynumber: 2.0 Consensus size: 155
17538662 TAGAATACCC
17538672 TTAGCAGAAATTTGTTTTGGCAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGCAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-TA
*
17538737 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
65 TTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
17538802 TATATAATTTAATAAAATTCTTAATAA
130 TATATAATTTAATAAAATTCTTAA-AA
* * *
17538829 TTAGCATAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTA-A-
1 TTAGCAGAAATTTGTTTTGGCAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
17538892 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
66 TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
17538957 ATATAATTTAATAAAATTCTTAAAA
131 ATATAATTTAATAAAATTCTTAAAA
17538982 TTA
1 TTA
17538985 ATATTCTTAT
Statistics
Matches: 152, Mismatches: 4, Indels: 4
0.95 0.03 0.03
Matches are distributed among these distances:
153 5 0.03
154 87 0.57
155 1 0.01
157 59 0.39
ACGTcount: A:0.45, C:0.04, G:0.05, T:0.47
Consensus pattern (155 bp):
TTAGCAGAAATTTGTTTTGGCAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATAT
TATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAAT
ATATAATTTAATAAAATTCTTAAAA
Found at i:17538956 original size:16 final size:16
Alignment explanation
Indices: 17538919--17538960 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
17538909 TTAATCATAT
*
17538919 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
17538935 TT-AAATATATTATAA
1 TTAAAATATATTATAA
17538950 TTAAAATATAT
1 TTAAAATATAT
17538961 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:17538967 original size:14 final size:15
Alignment explanation
Indices: 17538928--17538969 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
17538918 TTTAAACATA
*
17538928 ATTATTATTAAATAT
1 ATTATAATTAAATAT
17538943 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
17538957 A-TATAATTTAATA
1 ATTATAATTAAATA
17538970 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:17539055 original size:119 final size:120
Alignment explanation
Indices: 17538917--17539220 Score: 460
Period size: 119 Copynumber: 2.6 Consensus size: 120
17538907 ATTTAATCAT
*
17538917 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAAA
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAAA
* * *
17538982 TTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAATATAA
66 TTAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGA-AA
17539038 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAA-A
* *
17539101 AATAAAATTCTTCTATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
65 ATTAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
* *
17539157 ATTTCAA-ATAATTAATATTAAATATGATT-TAATT-AAATATATGATTTAATAAAA-T-TTAAA
1 ATTTCAACATAATTATTATTAAATAT-ATTATAATTAAAATATATAATTTAATAAAATTCTTAAA
17539217 ATTA
65 ATTA
17539221 TTATAACTAA
Statistics
Matches: 171, Mismatches: 8, Indels: 13
0.89 0.04 0.07
Matches are distributed among these distances:
116 4 0.02
117 4 0.02
118 1 0.01
119 80 0.47
120 76 0.44
121 6 0.04
ACGTcount: A:0.51, C:0.05, G:0.03, T:0.41
Consensus pattern (120 bp):
ATTTCAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAAAA
TTAAAATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAAGAAA
Found at i:17539060 original size:154 final size:152
Alignment explanation
Indices: 17538733--17539045 Score: 371
Period size: 154 Copynumber: 2.0 Consensus size: 152
17538723 TAATAAGATT
* *
17538733 ATTATTATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATT
1 ATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATT
* * * ** * *
17538798 AAAATATATAATTTAATAAAATTCTTAATAATTAGCATAAATTTGTTTTGGTAAATTATTATTGT
66 AAAATATATAATTTAATAAAATTCTTAATAATTAACATAAATATGATTTACTAAATTAATATTGA
* * * *
17538863 TATTGTTATTTAAATTTTAATAAG
131 TACTGTTA--TAAATATAAATAAC
17538887 ATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATT
1 ATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATT
* **
17538952 AAAATATATAATTTAATAAAATTCTTAA-AATTAATATTCTTATATGAATTTACTCAAATCATAA
66 AAAATATATAATTTAATAAAATTCTTAATAATTAACA-T-AAATATG-ATTTACT-AAAT--TAA
17539016 TATATGATACTG-TA-AAATATAAATTAAC
125 TAT-TGATACTGTTATAAATATAAA-TAAC
17539044 AT
1 AT
17539046 AATTATTATT
Statistics
Matches: 135, Mismatches: 16, Indels: 13
0.82 0.10 0.08
Matches are distributed among these distances:
153 6 0.04
154 92 0.68
155 4 0.03
156 11 0.08
157 9 0.07
159 7 0.05
160 6 0.04
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (152 bp):
ATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATT
AAAATATATAATTTAATAAAATTCTTAATAATTAACATAAATATGATTTACTAAATTAATATTGA
TACTGTTATAAATATAAATAAC
Found at i:17539086 original size:14 final size:15
Alignment explanation
Indices: 17539037--17539088 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
17539027 GTAAAATATA
17539037 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
17539052 TATTAAATATATTAT
1 AATTAAATATATTAT
17539067 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
17539080 AATTTAATA
1 AATTAAATA
17539089 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:17539103 original size:44 final size:43
Alignment explanation
Indices: 17539014--17539104 Score: 103
Period size: 44 Copynumber: 2.1 Consensus size: 43
17539004 CTCAAATCAT
* * *
17539014 AATATATGATACTGTAAAATATAAATTAACATAATTATTATTA
1 AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
* * *
17539057 AATATATTATAAT-TAAAATATATAATTTAATAAAATTCTTAATA
1 AATATATGATAATGTAAAATATA-AA-TTAACAAAATTATTAATA
17539101 AATA
1 AATA
17539105 AAATTCTTCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
42 9 0.22
43 13 0.32
44 18 0.45
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (43 bp):
AATATATGATAATGTAAAATATAAATTAACAAAATTATTAATA
Found at i:17539193 original size:15 final size:15
Alignment explanation
Indices: 17539173--17539211 Score: 51
Period size: 17 Copynumber: 2.5 Consensus size: 15
17539163 AATAATTAAT
17539173 ATTAAATATGATTTA
1 ATTAAATATGATTTA
17539188 ATTAAATATATGATTTA
1 ATT-AA-ATATGATTTA
*
17539205 ATAAAAT
1 ATTAAAT
17539212 TTAAAATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 5 0.24
16 4 0.19
17 12 0.57
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (15 bp):
ATTAAATATGATTTA
Found at i:17539198 original size:17 final size:17
Alignment explanation
Indices: 17539178--17539211 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
17539168 TTAATATTAA
*
17539178 ATATGATTTAATTAAAT
1 ATATGATTTAATAAAAT
17539195 ATATGATTTAATAAAAT
1 ATATGATTTAATAAAAT
17539212 TTAAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (17 bp):
ATATGATTTAATAAAAT
Found at i:17539354 original size:93 final size:92
Alignment explanation
Indices: 17539244--17539438 Score: 286
Period size: 93 Copynumber: 2.1 Consensus size: 92
17539234 GATTATAGTT
* * *
17539244 TATGAATTTGTATAATTTAAAATAA-TAATTATTACATATAATT-TAATAATAATATATAATTTC
1 TATGAATTTATACAATTTAAAATAATTAA-TATTAAATATAATTAT-ATAATAATATATAATTTC
* *
17539307 ATAAAATTCTTGATAATAAAAATTTTCTTA
64 ATAAAATTCTTAATAAT-AAAATGTTCTTA
* *
17539337 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAGTGATATATAATTTCAT
1 TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
17539402 AAAATTCTTAATAATAAAATGTTCTTA
66 AAAATTCTTAATAATAAAATGTTCTTA
17539429 TATGAATTTA
1 TATGAATTTA
17539439 CTAAAATCAA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
92 21 0.23
93 68 0.73
94 4 0.04
ACGTcount: A:0.47, C:0.04, G:0.04, T:0.45
Consensus pattern (92 bp):
TATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTATATAATAATATATAATTTCAT
AAAATTCTTAATAATAAAATGTTCTTA
Found at i:17540853 original size:11 final size:11
Alignment explanation
Indices: 17540839--17540865 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
17540829 AAAAATCAAT
17540839 ACAAAAGTTTC
1 ACAAAAGTTTC
17540850 ACAAAAGTTTC
1 ACAAAAGTTTC
17540861 ACAAA
1 ACAAA
17540866 CTAATTTCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.52, C:0.19, G:0.07, T:0.22
Consensus pattern (11 bp):
ACAAAAGTTTC
Found at i:17543129 original size:15 final size:15
Alignment explanation
Indices: 17543109--17543139 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
17543099 ATATTATGTA
17543109 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
17543124 TAATTGAGGTAAAAT
1 TAATTGAGGTAAAAT
17543139 T
1 T
17543140 TGAAGGTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.19, T:0.35
Consensus pattern (15 bp):
TAATTGAGGTAAAAT
Found at i:17546469 original size:14 final size:14
Alignment explanation
Indices: 17546432--17546486 Score: 51
Period size: 14 Copynumber: 3.9 Consensus size: 14
17546422 AATTTTTTTT
17546432 AATTATAAAAAA-AA
1 AATT-TAAAAAATAA
*
17546446 AA-TCAAAAAATATA
1 AATTTAAAAAATA-A
17546460 AATTTTAAAAAATAA
1 AA-TTTAAAAAATAA
*
17546475 AATTTAATAAAT
1 AATTTAAAAAAT
17546487 TTATAACTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
12 6 0.18
13 2 0.06
14 14 0.41
15 3 0.09
16 9 0.26
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (14 bp):
AATTTAAAAAATAA
Found at i:17546477 original size:15 final size:16
Alignment explanation
Indices: 17546450--17546479 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
17546440 AAAAAAAATC
17546450 AAAAAATATAAATTTT
1 AAAAAATATAAATTTT
17546466 AAAAAATA-AAATTT
1 AAAAAATATAAATTT
17546480 AATAAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AAAAAATATAAATTTT
Found at i:17548399 original size:16 final size:16
Alignment explanation
Indices: 17548357--17548407 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
17548347 TATTGGTTAA
17548357 AATA-ATTTATTATTTT
1 AATATATTT-TTATTTT
*
17548373 ACTAT-TATTTTATTTT
1 AATATAT-TTTTATTTT
*
17548389 AATATATTTTTATATT
1 AATATATTTTTATTTT
17548405 AAT
1 AAT
17548408 TAATGATTAA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 26 0.90
17 3 0.10
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (16 bp):
AATATATTTTTATTTT
Found at i:17552936 original size:16 final size:16
Alignment explanation
Indices: 17552915--17552947 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
17552905 AAAGTGAAAC
17552915 TATAAAACCACTCAAG
1 TATAAAACCACTCAAG
17552931 TATAAAACCACTCAAG
1 TATAAAACCACTCAAG
17552947 T
1 T
17552948 CGAGAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.24, G:0.06, T:0.21
Consensus pattern (16 bp):
TATAAAACCACTCAAG
Found at i:17555805 original size:17 final size:17
Alignment explanation
Indices: 17555783--17555821 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
17555773 GGAGAAAACC
17555783 AATTTTGACAAACGGAT
1 AATTTTGACAAACGGAT
17555800 AATTTTGACAAACGGAT
1 AATTTTGACAAACGGAT
17555817 AATTT
1 AATTT
17555822 AATTGAACAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.10, G:0.15, T:0.33
Consensus pattern (17 bp):
AATTTTGACAAACGGAT
Found at i:17558173 original size:43 final size:43
Alignment explanation
Indices: 17558117--17558229 Score: 140
Period size: 43 Copynumber: 2.6 Consensus size: 43
17558107 CATATATCGT
* * * *
17558117 TGCCACTGCCCCAGACAGGGTCTTACACGAAATCGATT-A-ACGA
1 TGCCAATGTCCCAGACATGGTCTTACACGAAATC--TTAATACAA
*
17558160 TGCCAATGTCCCAGACATGGTCTTACACGTAATCTTAATACAA
1 TGCCAATGTCCCAGACATGGTCTTACACGAAATCTTAATACAA
*
17558203 TGTCAATGTCCCAGACATGGTCTTACA
1 TGCCAATGTCCCAGACATGGTCTTACA
17558230 TGTAATCATA
Statistics
Matches: 62, Mismatches: 6, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 2 0.03
42 1 0.02
43 59 0.95
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (43 bp):
TGCCAATGTCCCAGACATGGTCTTACACGAAATCTTAATACAA
Found at i:17560421 original size:38 final size:38
Alignment explanation
Indices: 17560379--17560672 Score: 201
Period size: 38 Copynumber: 7.0 Consensus size: 38
17560369 TTTCAAAGTA
* * *
17560379 ACATGTATAACCATGGCATATTCACTTAGCACCATGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
17560417 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGCTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
17560458 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * *
17560502 ACATGTTTAACCGTGGTATATCCACTGAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
17560543 GAATCAATATATGTAACCGTAGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* *
17560587 ACATGTATCAATTTGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATG--T--A------TAACCGTGGCATATCCACTTAGCACCACGTT
* *
17560635 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
17560673 TTTTCATTCC
Statistics
Matches: 207, Mismatches: 23, Indels: 52
0.73 0.08 0.18
Matches are distributed among these distances:
38 88 0.43
39 2 0.01
40 5 0.02
41 4 0.02
42 3 0.01
43 2 0.01
44 6 0.03
45 6 0.03
46 3 0.01
47 54 0.26
48 34 0.16
ACGTcount: A:0.30, C:0.25, G:0.15, T:0.30
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:17560478 original size:47 final size:47
Alignment explanation
Indices: 17560424--17560635 Score: 262
Period size: 47 Copynumber: 4.7 Consensus size: 47
17560414 GTTACATGTT
*
17560424 TAACCGTGGTATATCCACTTAGCACCACGCTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* *
17560471 TAACCGTGGCATATCCACTTAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
*
17560509 TAACCGTGGTATATCCACTGAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * * *
17560556 TAACCGTAGCATATCCACTTAGCACCACGTTACATGTATCAATTTGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
*
17560604 TAATCGTGGTATATCCACTTAGCACCACGTTA
1 TAACCGTGGTATATCCACTTAGCACCACGTTA
17560636 CACGTATAAC
Statistics
Matches: 141, Mismatches: 14, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
38 27 0.19
39 2 0.01
40 3 0.02
41 2 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 2 0.01
47 57 0.40
48 41 0.29
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.29
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:17560484 original size:85 final size:85
Alignment explanation
Indices: 17560386--17560592 Score: 360
Period size: 85 Copynumber: 2.4 Consensus size: 85
17560376 GTAACATGTA
* * * *
17560386 TAACCATGGCATATTCACTTAGCACCATGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCA
17560451 CGCTAATGAATCAATATATG
66 CGCTAATGAATCAATATATG
17560471 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCA
*
17560536 CGTTAATGAATCAATATATG
66 CGCTAATGAATCAATATATG
*
17560556 TAACCGTAGCATATCCACTTAGCACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
17560593 ATCAATTTGT
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 116 1.00
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCA
CGCTAATGAATCAATATATG
Found at i:17560618 original size:48 final size:48
Alignment explanation
Indices: 17560509--17560642 Score: 189
Period size: 48 Copynumber: 2.8 Consensus size: 48
17560499 GTTACATGTT
* *
17560509 TAACCGTGGTATATCCACTGAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * * *
17560556 TAACCGTAGCATATCCACTTAGCACCACGTTACATGTATCAATTTGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* *
17560604 TAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
17560643 AACCGTGGTA
Statistics
Matches: 76, Mismatches: 10, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
47 29 0.38
48 47 0.62
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.30
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:17560666 original size:133 final size:132
Alignment explanation
Indices: 17560424--17560672 Score: 390
Period size: 133 Copynumber: 1.9 Consensus size: 132
17560414 GTTACATGTT
* *
17560424 TAACCGTGGTATATCCACTTAGCACCACGCTAATGAATCAATATATGTAACCGTGGCATATCCAC
1 TAACCGTAGCATATCCACTTAGCACCACGCTAATGAATCAATATATGTAACCGTGGCATATCCAC
* *
17560489 TTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCACGTTAATGAATCAATATA
66 TTAGCACCACGTTACACGTATAACCGTGGTATATCCACTGAGCACCACGTTAATGAATCAATATA
17560554 TG
131 TG
* * * * * *
17560556 TAACCGTAGCATATCCACTTAGCACCACGTTACATGTATCAATTTGTGTAATCGTGGTATATCCA
1 TAACCGTAGCATATCCACTTAGCACCACGCTA-ATGAATCAATATATGTAACCGTGGCATATCCA
*
17560621 CTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
65 CTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTGAGCACCACGTT
17560673 TTTTCATTCC
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
132 29 0.28
133 76 0.72
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (132 bp):
TAACCGTAGCATATCCACTTAGCACCACGCTAATGAATCAATATATGTAACCGTGGCATATCCAC
TTAGCACCACGTTACACGTATAACCGTGGTATATCCACTGAGCACCACGTTAATGAATCAATATA
TG
Found at i:17566203 original size:38 final size:38
Alignment explanation
Indices: 17566161--17566454 Score: 210
Period size: 38 Copynumber: 7.0 Consensus size: 38
17566151 TTTCAAAGTA
* *
17566161 ACATGTATAACCATGGCATATTCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
* *
17566199 ACATGTTTAACCGTGGTATATCCACTTAGCACCACGCTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
* *
17566240 GAATCAATATATGTAACCGTGGCATATCCACTCAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* * *
17566284 ACATGTTTAACCGTGGTATATCCACTGAGCACCACGTTAAT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACG-T--T
*
17566325 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGCATATCCACTTAGCACCACGTT
* *
17566369 ACATGTATCAATTTGTGTAATCGTGGTATATCCACTTAGCACCACGTT
1 ACATG--T--A------TAACCGTGGCATATCCACTTAGCACCACGTT
* *
17566417 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
17566455 TTTTCATTCT
Statistics
Matches: 209, Mismatches: 21, Indels: 52
0.74 0.07 0.18
Matches are distributed among these distances:
38 89 0.43
39 2 0.01
40 5 0.02
41 4 0.02
42 3 0.01
43 2 0.01
44 6 0.03
45 6 0.03
46 3 0.01
47 54 0.26
48 35 0.17
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
Found at i:17566260 original size:47 final size:47
Alignment explanation
Indices: 17566206--17566417 Score: 262
Period size: 47 Copynumber: 4.7 Consensus size: 47
17566196 GTTACATGTT
*
17566206 TAACCGTGGTATATCCACTTAGCACCACGCTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * *
17566253 TAACCGTGGCATATCCACTCAGCACCACG-T--T--A-C-ATGT-T-
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
*
17566291 TAACCGTGGTATATCCACTGAGCACCACGTTAATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
* * * *
17566338 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATTTGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTA-ATGAATCAATATATG
*
17566386 TAATCGTGGTATATCCACTTAGCACCACGTTA
1 TAACCGTGGTATATCCACTTAGCACCACGTTA
17566418 CACGTATAAC
Statistics
Matches: 142, Mismatches: 13, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
38 27 0.19
39 2 0.01
40 3 0.02
41 2 0.01
42 1 0.01
43 1 0.01
44 2 0.01
45 3 0.02
46 2 0.01
47 57 0.40
48 42 0.30
ACGTcount: A:0.30, C:0.25, G:0.16, T:0.29
Consensus pattern (47 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTAATGAATCAATATATG
Found at i:17566266 original size:85 final size:85
Alignment explanation
Indices: 17566168--17566374 Score: 369
Period size: 85 Copynumber: 2.4 Consensus size: 85
17566158 GTAACATGTA
* * *
17566168 TAACCATGGCATATTCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTTAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCA
17566233 CGCTAATGAATCAATATATG
66 CGCTAATGAATCAATATATG
*
17566253 TAACCGTGGCATATCCACTCAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCA
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCA
*
17566318 CGTTAATGAATCAATATATG
66 CGCTAATGAATCAATATATG
17566338 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
1 TAACCGTGGCATATCCACTTAGCACCACGTTACATGT
17566375 ATCAATTTGT
Statistics
Matches: 116, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 116 1.00
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.28
Consensus pattern (85 bp):
TAACCGTGGCATATCCACTTAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCA
CGCTAATGAATCAATATATG
Found at i:17566400 original size:48 final size:48
Alignment explanation
Indices: 17566291--17566424 Score: 198
Period size: 48 Copynumber: 2.8 Consensus size: 48
17566281 GTTACATGTT
* *
17566291 TAACCGTGGTATATCCACTGAGCACCACGTTA-ATGAATCAATATATG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* * *
17566338 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATTTGTG
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
* *
17566386 TAATCGTGGTATATCCACTTAGCACCACGTTACACGTAT
1 TAACCGTGGTATATCCACTTAGCACCACGTTACATGTAT
17566425 AACCGTGGTA
Statistics
Matches: 78, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
47 30 0.38
48 48 0.62
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.30
Consensus pattern (48 bp):
TAACCGTGGTATATCCACTTAGCACCACGTTACATGTATCAATATATG
Found at i:17566448 original size:133 final size:132
Alignment explanation
Indices: 17566206--17566454 Score: 390
Period size: 133 Copynumber: 1.9 Consensus size: 132
17566196 GTTACATGTT
*
17566206 TAACCGTGGTATATCCACTTAGCACCACGCTAATGAATCAATATATGTAACCGTGGCATATCCAC
1 TAACCGTGGCATATCCACTTAGCACCACGCTAATGAATCAATATATGTAACCGTGGCATATCCAC
* *
17566271 TCAGCACCACGTTACATGTTTAACCGTGGTATATCCACTGAGCACCACGTTAATGAATCAATATA
66 TCAGCACCACGTTACACGTATAACCGTGGTATATCCACTGAGCACCACGTTAATGAATCAATATA
17566336 TG
131 TG
* * * * * *
17566338 TAACCGTGGCATATCCACTTAGCACCACGTTACATGTATCAATTTGTGTAATCGTGGTATATCCA
1 TAACCGTGGCATATCCACTTAGCACCACGCTA-ATGAATCAATATATGTAACCGTGGCATATCCA
* *
17566403 CTTAGCACCACGTTACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
65 CTCAGCACCACGTTACACGTATAACCGTGGTATATCCACTGAGCACCACGTT
17566455 TTTTCATTCT
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
132 30 0.29
133 75 0.71
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (132 bp):
TAACCGTGGCATATCCACTTAGCACCACGCTAATGAATCAATATATGTAACCGTGGCATATCCAC
TCAGCACCACGTTACACGTATAACCGTGGTATATCCACTGAGCACCACGTTAATGAATCAATATA
TG
Found at i:17576751 original size:3 final size:3
Alignment explanation
Indices: 17576745--17577038 Score: 114
Period size: 3 Copynumber: 96.3 Consensus size: 3
17576735 TTGAATTCTC
* *
17576745 TAT TAT TAT TAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * * * *
17576791 TGT TAT GTACA TAT TAT T-T ATAC TA- TACT TAA TAT TAT TAT CAT TAT
1 TAT TAT -TA-T TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* * *
17576838 TAT TAT TAT TAT TA- TATT TAC TAT TAT TATT TAT AAA TAT TAGT GTA-
1 TAT TAT TAT TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TA-T -TAT
* *
17576885 TAT T-T TAT T-T TAA TAT CAT TA- TAT TAT GT-T TACT T-T T-T TGAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT T--AT
* *
17576928 T-T CTA- TAT ATAT TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC
1 TAT -TAT TAT -TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT
* * * * *
17576974 TGT TAT GTACA TAT TAT T-T ATAC TA- TACT TAA TAT TAT TGT TAT TAT
1 TAT TAT -TA-T TAT TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT
* *
17577021 TA- CAT TAC TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT T
17577039 TATAAATATT
Statistics
Matches: 217, Mismatches: 40, Indels: 68
0.67 0.12 0.21
Matches are distributed among these distances:
2 25 0.12
3 158 0.73
4 30 0.14
5 4 0.02
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.59
Consensus pattern (3 bp):
TAT
Found at i:17576966 original size:19 final size:19
Alignment explanation
Indices: 17576942--17576978 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17576932 ATATATATTA
*
17576942 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
17576961 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
17576979 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:17576973 original size:183 final size:188
Alignment explanation
Indices: 17576698--17577037 Score: 575
Period size: 183 Copynumber: 1.8 Consensus size: 188
17576688 TTTTTTAAAT
* *
17576698 TATTTTATTTTAATATTATTATATTATTTTAGTTTTTTTGAATTCTCTATTATTATTATTATTAT
1 TATTTTATTTTAATATCATTATATTATTTTAGCTTTTTTGAATTCTCTATTATTATTATTATTAT
17576763 TATTATTATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTA
66 TATTATTATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTA
*
17576828 TTATCATTATT-ATTATTATTATTATATTTACTATTATTATTTATAAATATTAGTGTA
131 TTATCATTATTAATTACTATTATTATATTTACTATTATTATTTATAAATATTAGTGTA
17576885 TATTTTATTTTAATATCATTATATTATGTTTA-CTTTTTTGAATT-TCTA-TA-TA-TATTATTA
1 TATTTTATTTTAATATCATTATATTAT-TTTAGCTTTTTTGAATTCTCTATTATTATTATTATTA
17576945 TTATTATTATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATT
65 TTATTATTATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATT
* *
17577010 ATTGTTATTATTACATTACTATTATTAT
130 ATTATCATTATTA-ATTACTATTATTAT
17577038 TTATAAATAT
Statistics
Matches: 145, Mismatches: 5, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
183 83 0.57
184 2 0.01
185 15 0.10
186 4 0.03
187 37 0.26
188 4 0.03
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (188 bp):
TATTTTATTTTAATATCATTATATTATTTTAGCTTTTTTGAATTCTCTATTATTATTATTATTAT
TATTATTATTGTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTA
TTATCATTATTAATTACTATTATTATATTTACTATTATTATTTATAAATATTAGTGTA
Found at i:17577215 original size:20 final size:19
Alignment explanation
Indices: 17577192--17577239 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 19
17577182 CTTTCTTTTG
*
17577192 TATTATTTTACTATTATTGC
1 TATTATTTTA-TATTATTAC
*
17577212 TATTATTGTTATATTATTAT
1 TATTATT-TTATATTATTAC
17577232 TATTATTT
1 TATTATTT
17577240 ATTATATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.27, C:0.04, G:0.04, T:0.65
Consensus pattern (19 bp):
TATTATTTTATATTATTAC
Found at i:17577231 original size:14 final size:13
Alignment explanation
Indices: 17577212--17577262 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
17577202 CTATTATTGC
*
17577212 TATTATTGTTATAT
1 TATTATTATTAT-T
17577226 TATTATTATTATT
1 TATTATTATTATT
*
17577239 TATTA-TATTTATA
1 TATTATTA-TTATT
*
17577252 TAATATTATTA
1 TATTATTATTA
17577263 ATAGGTACTT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 2 0.06
13 17 0.53
14 13 0.41
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (13 bp):
TATTATTATTATT
Found at i:17589668 original size:72 final size:72
Alignment explanation
Indices: 17589582--17590554 Score: 748
Period size: 72 Copynumber: 13.0 Consensus size: 72
17589572 GTATTTTGAT
* * ** *
17589582 ATTTTTATTTCTATTTTCAAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGT
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGC
17589647 TGAGGTA
66 TGAGGTA
* ** *
17589654 ATTTTTATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGT
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGC
17589719 TGAGGTA
66 TGAGGTA
* * * ** *
17589726 ATTTCAATTTCTGTTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGC
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGC
17589791 TGAGGT-
66 TGAGGTA
* * * *
17589797 ATTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAG
1 ATTTT-AATTTCT-ATTTTC-----AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
17589862 GACACGCTGAGGTA
59 GACACGCTGAGGTA
* * * * * *
17589876 ATTTCAATTTCTATTTTCAAAATTCAACTTATATTGCGAGTA-ATGAATTGAACCTTAAGACACG
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAG-AGGTGAGTTGAGCCTCAAGACACG
*
17589940 TTGAGGT-
65 CTGAGGTA
* * * * *
17589947 ATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTC-GGTTCAC
1 ATTTT-AATTTCTATTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---AC
* *
17590011 ATGTTGAGGT-
62 ACGCTGAGGTA
* **
17590021 ATTTTCAATTTCTATCTTTCAAAAAAAAATT-AACTCATAATGCGAGAGGTGAGTTGAGCCTCGG
1 ATTTT-AATTTCTAT-TTTC-----AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAA
*
17590085 GGCACGCTGAGGTATTGGCA
59 GACACGCTGAGG---T---A
** * *** * * * *
17590105 ATTTTTGTTTCTTAATTT-ATGTTTCAAAATTCAACTCATAT-TGTGAGAAATGAGTTGAGCCTC
1 ATTTTAATTTC-TATTTTCAAAATTC--AACTC-A-T-AT-TGCGAGAG--GTGAGTTGAGCCTC
*
17590168 AAGACACGTTGAGGTA
57 AAGACACGCTGAGGTA
* * * *
17590184 ATTTCAATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGC
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGC
17590249 TGAGGT-
66 TGAGGTA
* * *
17590255 ATTTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGA
1 ATTTT-AATTTCTATTTTC----AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGA
17590320 CACGCTGAGGTA
61 CACGCTGAGGTA
* * * * *
17590332 ATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGTA-ATGAGTTAAACCTCAAGACACG
1 ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAG-AGGTGAGTTGAGCCTCAAGACACG
*
17590396 TTGAGGT-
65 CTGAGGTA
* * * *
17590403 ATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCAC
1 ATTTT-AATTTCTATTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG---AC
* *
17590467 ATGTTGAGGT-
62 ACGCTGAGGTA
* * * **
17590477 ATTTTCAATTTCTATCTTTCAAAAAAAAATCAACTTATAATGCGAGAGGTGAGTTGAGCCTCGGG
1 ATTTT-AATTTCTAT-TTTC----AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
*
17590542 GCACGCTGAGGTA
60 ACACGCTGAGGTA
17590555 TTGGCAATTT
Statistics
Matches: 738, Mismatches: 104, Indels: 112
0.77 0.11 0.12
Matches are distributed among these distances:
71 20 0.03
72 352 0.48
73 8 0.01
74 54 0.07
75 9 0.01
76 64 0.09
77 33 0.04
78 57 0.08
79 81 0.11
80 14 0.02
81 1 0.00
82 2 0.00
83 12 0.02
84 8 0.01
85 23 0.03
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (72 bp):
ATTTTAATTTCTATTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGC
TGAGGTA
Found at i:17590322 original size:148 final size:146
Alignment explanation
Indices: 17590130--17590871 Score: 821
Period size: 148 Copynumber: 4.9 Consensus size: 146
17590120 TTTATGTTTC
* * ** * *
17590130 AAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTCAATTTC
* *
17590195 TGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTATTTT
66 TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
17590260 CAATTTCTGTTTTCAAAA
131 CAATTTCTGTTTTC--AA
*
17590278 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTCAATTTC
* * * * *
17590343 TGTTTTCAAAATTCAACTCATATTGCGAGTA-ATGAGTTAAACCTCAAGACACGTTGAGGTATTT
66 TGTTTTCAAAAATCAACTCATATTGCGAG-AGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTT
*
17590407 TCAATTTATGTTTTC--
130 TCAATTTCTGTTTTCAA
* *
17590422 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTC-GGTTCACATGTTGAGGTATTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG---ACACGTTGAGGTAATTTCAAT
* * * ** *
17590486 TTCTATCTTTCAAAAAAAAATCAACTTATAATGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGA
63 TTCTGT-TTTC----AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGA
** * *
17590551 GGTATTGGCAATTTTTGTTTCTTAA
123 GGTATTTTCAATTTCTGTTT-TCAA
** *
17590576 TTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAA
1 ---A------AAAA-TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAA
** *
17590641 TTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATG
56 TTTCAATTTCTGTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACG
*
17590706 CTGAGGTATTTTCAATTTTTGTCTTTCAA
119 CTGAGGTATTTTCAATTTCTGT-TTTCAA
* * ** * *
17590735 AAAAATCAACTC--ATTGCGAGAGGTGAGTTGAGCCTTAGGACGCACTAACGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTCAATTTC
* * *
17590798 TGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAGGGCACGCTGAGGTATTT
66 TG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTT
17590863 TCAATTTCT
130 TCAATTTCT
17590872 ACTTTCCAAT
Statistics
Matches: 504, Mismatches: 64, Indels: 54
0.81 0.10 0.09
Matches are distributed among these distances:
143 2 0.00
144 38 0.08
146 82 0.16
147 48 0.10
148 134 0.27
149 8 0.02
150 5 0.01
151 55 0.11
152 1 0.00
156 1 0.00
157 1 0.00
159 63 0.12
160 2 0.00
161 4 0.01
162 24 0.05
163 4 0.01
164 31 0.06
165 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (146 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGACACGTTGAGGTAATTTCAATTTC
TGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACACGCTGAGGTATTTT
CAATTTCTGTTTTCAA
Found at i:17590382 original size:384 final size:374
Alignment explanation
Indices: 17589727--17590883 Score: 1193
Period size: 384 Copynumber: 3.0 Consensus size: 374
17589717 GTTGAGGTAA
* * *
17589727 TTTCAATTTCTGTTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCT
1 TTTCAATTTATG-TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCT
* * * *
17589792 GAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGC
65 GAGGTAATTTCAATTTTTGTTTTTC-----AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGC
* * * *
17589857 CTCAGGACACGCTGAGGTAATTTCAATTTCTATTTTC--AAAATTCAACTTATATTGCGAGTAAT
125 CTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAG-AAT
* * * *
17589920 GAATTGAACCTTAAGACACGTTGAGGTATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGC
189 GAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGC
*
17589985 GAGAGGTGAGTTAAGCCTCGGTTCACATGTTGAGGTATTTTCAATTTCTATCTTTCAAAAAAAAA
254 GAGAGGTGAGTTAAGCCTCGG--CACA-GTTGAGGTATTTTCAATTTCTGT-TTTC----AAAAA
* * *
17590050 TTAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGGCAATTT-T-TG
311 TCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGGCAATTTCTATC
* *
17590112 TTTCTTAATTTATGTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGT
1 TTTC--AATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGC
17590177 TGAGGTAATTTCAATTTTTG-TTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
64 TGAGGTAATTTCAATTTTTGTTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCA
* * *
17590241 AGACATGCTGAGGTATTTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGA
129 AGACACGCTGAGGTAATTTCAATTTCTGTTTTC--AAAAAAATCAACTCATATTGCGAGA-ATGA
* * * *
17590306 GTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGA
191 GTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGA
* * * *
17590371 GTA-ATGAGTTAAACCTCAAG-ACACGTTGAGGTATTTTCAATTTATGTTTTCAAAAATCAACTC
256 G-AGGTGAGTTAAGCCTC-GGCACA-GTTGAGGTATTTTCAATTTCTGTTTTCAAAAATCAACTC
** * **
17590434 ATATTGCGAGAGGTGAGTTGAGCCTCGGTTCACATGTTGAGGTATTTTCAATTTCTATC
318 ATATTGCGAGAGGTGAGTTGAGCCTCGGGGCAC--GCTGAGGTATTGGCAATTTCTATC
* * * * ** ** *
17590493 TTTCAA---A-----AAAAAATCAACTTATAATGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTG
1 TTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
* **
17590550 AGGT-ATTGGCAATTTTTGTTTCTTAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGA
66 AGGTAATT-TCAATTTTTG----------T-T-TTTCAAAATTCAACTCATATTGCGAGAGGTGA
*
17590614 GTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGC
118 GTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGC
* *
17590679 GAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTTTGTCTTTCAAAAAAATCAA
183 GAG-AATGAGTTGAGCCTCAAGACACGCTGAGGTATTTTCAATTTATGT-TTTC--AAAAATCAA
* * * * * * *
17590744 CTC--ATTGCGAGAGGTGAGTTGAGCCTTAGGACGCA-CTAACGTAATTTCAATTTCTGTTTTTC
244 CTCATATTGCGAGAGGTGAGTTAAGCC-TCGG-CACAGTTGAGGTATTTTCAATTTCTG-TTTTC
* * **
17590806 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAGGGCACGCTGAGGTATTTTCAATTTC
306 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGGCAATTTC
17590871 TA-C
371 TATC
17590874 TTTCCAATTT
1 TTT-CAATTT
17590884 CTGTCTTTCA
Statistics
Matches: 655, Mismatches: 77, Indels: 80
0.81 0.09 0.10
Matches are distributed among these distances:
370 3 0.00
371 52 0.08
376 1 0.00
377 41 0.06
379 18 0.03
380 67 0.10
381 13 0.02
382 112 0.17
383 41 0.06
384 211 0.32
385 24 0.04
386 65 0.10
387 7 0.01
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (374 bp):
TTTCAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTG
AGGTAATTTCAATTTTTGTTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
ACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAATGAGTTGA
GCCTCAAGACACGCTGAGGTATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGT
GAGTTAAGCCTCGGCACAGTTGAGGTATTTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCG
AGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGGCAATTTCTATC
Found at i:17590523 original size:456 final size:456
Alignment explanation
Indices: 17589668--17590869 Score: 2054
Period size: 456 Copynumber: 2.6 Consensus size: 456
17589658 TTATTTCTAT
17589668 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
*
17589733 TTTCTGTTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTA
66 TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTA
*
17589798 TTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGCGAGTTGAGCCTCAGG
131 TTTTCAATTTCTG-TTTTC-AAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGG
* * *
17589863 ACACGCTGAGGTAATTTCAATTTCTATTTTCAAAATTCAACTTATATTGCGAGTAATGAATTGAA
194 ACACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGTAATGAGTTGAA
*
17589928 CCTTAAGACACGTTGAGGTATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTG
259 CCTCAAGACACGTTGAGGTATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTG
*
17589993 AGTTAAGCCTCGGTTCACATGTTGAGGTATTTTCAATTTCTATCTTTCAAAAAAAAATTAACTCA
324 AGTTAAGCCTCGGTTCACATGTTGAGGTATTTTCAATTTCTATCTTTCAAAAAAAAATCAACTCA
17590058 TAATGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGGCAATTTTTGTTTCTTAATTT
389 TAATGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGGCAATTTTTGTTTCTTAATTT
17590123 ATG
454 ATG
*
17590126 TTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
* **
17590191 TTTTTGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACATGCTGAGGTA
66 TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTA
17590256 TTTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
131 TTTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
*
17590321 ACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGTAATGAGTTAAACC
196 ACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGTAATGAGTTGAACC
17590386 TCAAGACACGTTGAGGTATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
261 TCAAGACACGTTGAGGTATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
* *
17590451 TTGAGCCTCGGTTCACATGTTGAGGTATTTTCAATTTCTATCTTTCAAAAAAAAATCAACTTATA
326 TTAAGCCTCGGTTCACATGTTGAGGTATTTTCAATTTCTATCTTTCAAAAAAAAATCAACTCATA
17590516 ATGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGGCAATTTTTGTTTCTTAATTTAT
391 ATGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGGCAATTTTTGTTTCTTAATTTAT
17590581 G
456 G
17590582 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
1 TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
*
17590647 TTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGG
66 TTTCTGTTTTC--AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGG
* *
17590712 TATTTTCAATTTTTGTCTTTC--AAAAAAATCAACTC--ATTGCGAGAGGTGAGTTGAGCCTTAG
129 TATTTTCAATTTCTGT-TTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAG
* * * * * *
17590773 GACGCACTAACGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAG-AGGTGAGTT
193 GACACGCTGAGGTAATTTCAATTTCTG-TTTTCAAAATTCAACTCATATTGCGAGTA-ATGAGTT
* * * * *
17590837 GAGCGTCAGGGCACGCTGAGGTATTTTCAATTT
256 GAACCTCAAGACACGTTGAGGTATTTTCAATTT
17590870 CTACTTTCCA
Statistics
Matches: 706, Mismatches: 33, Indels: 12
0.94 0.04 0.02
Matches are distributed among these distances:
455 49 0.07
456 432 0.61
457 19 0.03
458 202 0.29
459 4 0.01
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.34
Consensus pattern (456 bp):
TTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAA
TTTCTGTTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTA
TTTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGAC
ACGCTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCATATTGCGAGTAATGAGTTGAACC
TCAAGACACGTTGAGGTATTTTCAATTTATGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAG
TTAAGCCTCGGTTCACATGTTGAGGTATTTTCAATTTCTATCTTTCAAAAAAAAATCAACTCATA
ATGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGGCAATTTTTGTTTCTTAATTTAT
G
Found at i:17590671 original size:530 final size:514
Alignment explanation
Indices: 17589588--17590871 Score: 1415
Period size: 530 Copynumber: 2.4 Consensus size: 514
17589578 TGATATTTTT
* * *
17589588 ATTTCTATTTTC--AAAATTCAACTCATATTACGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
** * * **
17589651 GTAATTTTTATTTCTATTTTCAAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACA
66 GTAATTTCAATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
* * * **
17589716 CGTTGAGGTAATTTCAATTTCTGTTTTCAAAATTCAACTCAGATTGCGAGAAATGAGTTGAGCCT
131 CGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
* *
17589781 CAAGACATGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAAAAAATCAACTCATATTGCGAGAG
196 CAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTC----AAAAAATCAACTCATATTGCGAGAG
* * * * * * *
17589846 GCGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTATTTTCAAAATTCAACTTATATT
257 ACGAGTTAAACCTCAAGACACGCTGAGGTAATTTCAATTTATATTTTCAAAAATCAACTCATATT
* *
17589911 GCGAGTAATGAATTGAACCTTAAGACACGTTGAGGTATTTTCAATTTATGTTTTCAAAAATCAAC
322 GCGAGTAATGAATTGAACCTTAACACACGTTGAGGTATTTTCAATTTATATTTTCAAAAATCAAC
* ** * **
17589976 TCATATTGCGAGAGGTGAGTTAAGCCTCGGTTCACATGTTGAGGTATTTTCAATTTCTATCTTTC
387 TCATAATGCGAGAGGTGAGTTAAGCCTCGGGGCACA-GCTGAGGTATTGGCAATTTCTATCTTTC
** ** *
17590041 AAAAAAAAATTAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGGCACGCTGAGGTATTGGCA
451 AAAAAAAAATTAACTCATAATGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTGGCA
* * *
17590105 ATTTTTGTTTCTTAATTTATGTTTCAAAATTCAACTCATATTGTGAGAAATGAGTTGAGCCTCAA
1 ATTTCTGTTT-TCAA---A------AAAA-TCAACTCATATTGCGAGAAATGAGTTGAGCCTCAA
17590170 GACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGA
55 GACACGTTGAGGTAATTTCAATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGA
* *
17590235 GCCTCAAGACATGCTGAGGTATTTTCAATTTCTGTTTTCAAAAAAAAATCAACTCATATTGCGAG
120 GCCTCAAGACACGCTGAGGTAATTTCAATTTCTGTTTTC----AAAAATCAACTCATATTGCGAG
* *
17590300 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTAATTTCAATTTCTG-TTTTC-AAAATTCAACTCA
181 AGGTGAGTTGAGCCTCAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCA
* * * *
17590363 TATTGCGAGTA-ATGAGTTAAACCTCAAGACACGTTGAGGTATTTTCAATTTATGTTTTCAAAAA
246 TATTGCGAG-AGACGAGTTAAACCTCAAGACACGCTGAGGTAATTTCAATTTATATTTTCAAAAA
* * * * * *
17590427 TCAACTCATATTGCGAG-AGGTGAGTTGAGCCTCGGT-TCACATGTTGAGGTATTTTCAATTTCT
310 TCAACTCATATTGCGAGTA-ATGAATTGAACCT---TAACACACGTTGAGGTATTTTCAATTTAT
* *
17590490 ATCTTTCAAAAAAAAATCAACTTATAATGCGAGAGGTGAGTTGAGCCTCGGGGCAC-GCTGAGGT
371 AT-TTTC----AAAAATCAACTCATAATGCGAGAGGTGAGTTAAGCCTCGGGGCACAGCTGAGGT
* ** *
17590554 ATTGGCAATTT-T-TGTTTCTTAATTTATGTTTCAAAATTCAACTCATATTGCGAGAAATGAGTT
431 ATTGGCAATTTCTATCTTTC--AA---A----AAAAAATT-AACTCATAATGCGAGAAATGAGTT
* *
17590617 GAGCCTCAAGACACGTTGAGGTAATT-TCA
486 GAGCCTCAAGACACGCTGAGGT-ATTGGCA
* *
17590646 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAG
1 ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
* * * *
17590711 GTATTTTCAATTTTTGTCTTTCAAAAAAATCAACTC--ATTGCGAGAGGTGAGTTGAGCCTTAGG
66 GTAATTTCAATTTTTGT-TTTC--AAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAG
* * * *
17590774 ACGCACTAACGTAATTTCAATTTCTGTTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
128 ACACGCTGAGGTAATTTCAATTTCTG-TTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* *
17590839 GCGTCAGGGCACGCTGAGGTATTTTCAATTTCT
192 GCCTCAGGACACGCTGAGGTATTTTCAATTTCT
17590872 ACTTTCCAAT
Statistics
Matches: 646, Mismatches: 79, Indels: 73
0.81 0.10 0.09
Matches are distributed among these distances:
517 8 0.01
518 1 0.00
523 1 0.00
527 1 0.00
528 153 0.24
529 4 0.01
530 211 0.33
531 63 0.10
532 6 0.01
533 34 0.05
534 60 0.09
535 40 0.06
536 1 0.00
537 1 0.00
540 9 0.01
541 50 0.08
542 3 0.00
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.34
Consensus pattern (514 bp):
ATTTCTGTTTTCAAAAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAG
GTAATTTCAATTTTTGTTTTCAAAATTCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAAGACA
CGCTGAGGTAATTTCAATTTCTGTTTTCAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCT
CAGGACACGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGACGA
GTTAAACCTCAAGACACGCTGAGGTAATTTCAATTTATATTTTCAAAAATCAACTCATATTGCGA
GTAATGAATTGAACCTTAACACACGTTGAGGTATTTTCAATTTATATTTTCAAAAATCAACTCAT
AATGCGAGAGGTGAGTTAAGCCTCGGGGCACAGCTGAGGTATTGGCAATTTCTATCTTTCAAAAA
AAAATTAACTCATAATGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTATTGGCA
Found at i:17590692 original size:74 final size:74
Alignment explanation
Indices: 17590586--17590871 Score: 355
Period size: 73 Copynumber: 3.9 Consensus size: 74
17590576 TTTATGTTTC
* *
17590586 AAAATTCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGTTGAGGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
17590651 TGTTTTCAA
66 TGTTTTCAA
* * *
17590660 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACATGCTGAGGTATTTTCAATTTT
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
17590725 TGTCTTTCAA
66 TGT-TTTCAA
** * * * * * *
17590735 AAAAATCAACTC--ATTGCGAGAGGTGAGTTGAGCCTTAGGACGCACTAACGTAATTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
17590798 TGTTTTTC--
66 TG-TTTTCAA
** * * * *
17590806 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCGTCAGGGCACGCTGAGGTATTTTCAATTTC
1 AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
17590871 T
66 T
17590872 ACTTTCCAAT
Statistics
Matches: 184, Mismatches: 24, Indels: 9
0.85 0.11 0.04
Matches are distributed among these distances:
71 12 0.07
73 90 0.49
74 64 0.35
75 18 0.10
ACGTcount: A:0.31, C:0.17, G:0.20, T:0.32
Consensus pattern (74 bp):
AAAAATCAACTCATATTGCGAGAAATGAGTTGAGCCTCAAGACACGCTGAGGTAATTTCAATTTC
TGTTTTCAA
Found at i:17592634 original size:3 final size:3
Alignment explanation
Indices: 17592628--17592902 Score: 81
Period size: 3 Copynumber: 89.3 Consensus size: 3
17592618 TGAATTTTTA
* * * * *
17592628 TAT TAT TAT TAT TGT TGT TACT TAT TAT TAT TAC TGT TAT GTACA TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T TAT
* * *
17592676 TAT T-T ATAC TA- TACT TAA TAT TAT TAT TAT TAT CAT TAT TAT TAT
1 TAT TAT -TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
17592721 TAT TA- TATT TAC TAT TAT TATT TAT AAA TAT TAGT GTA- TAT T-T TAT
1 TAT TAT TA-T TAT TAT TAT TA-T TAT TAT TAT TA-T -TAT TAT TAT TAT
* *
17592767 T-T TAA TAT CAT TA- TAT TAT GT-T TACT T-T T-T TGAAT T-T CTA-
1 TAT TAT TAT TAT TAT TAT TAT -TAT TA-T TAT TAT T--AT TAT -TAT
* * * *
17592807 TAT TAT TAT TAT TAT TGT TACT TAT TAT TAT TAC TGT TAT GTACA TAT
1 TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT -TA-T TAT
* * * * *
17592855 TATT TAT ACAA TACT TAA TAT TAT TAT TAT TAC T-T TAC TAT TAT TAT
1 TA-T TAT -TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
17592902 T
1 T
17592903 TATAAATATT
Statistics
Matches: 199, Mismatches: 41, Indels: 64
0.65 0.13 0.21
Matches are distributed among these distances:
2 22 0.11
3 142 0.71
4 31 0.16
5 4 0.02
ACGTcount: A:0.32, C:0.06, G:0.04, T:0.58
Consensus pattern (3 bp):
TAT
Found at i:17592827 original size:179 final size:179
Alignment explanation
Indices: 17592579--17592902 Score: 569
Period size: 179 Copynumber: 1.8 Consensus size: 179
17592569 TTTTTTAAAT
* * * *
17592579 TATTTTATTTTAATATTATTATATTATGTTTAGTTTTTTTGAATTTTTATATTATTATTATTGTT
1 TATTTTATTTTAATATCATTATATTATGTTTAGCTTTTTTGAATTTCTATATTATTATTATTATT
*
17592644 GTTACTTATTATTATTACTGTTATGTACATATTATTTATACTATACTTAATATTATTATTATTAT
66 GTTACTTATTATTATTACTGTTATGTACATATTATTTATACAATACTTAATATTATTATTATTA-
*
17592709 CATTATTATTATTATTATATTTACTATTATTATTTATAAATATTAGTGTA
130 CATTACTATTATTATTATATTTACTATTATTATTTATAAATATTAGTGTA
17592759 TATTTTATTTTAATATCATTATATTATGTTTA-CTTTTTTGAATTTCTATATTATTATTATTATT
1 TATTTTATTTTAATATCATTATATTATGTTTAGCTTTTTTGAATTTCTATATTATTATTATTATT
17592823 GTTACTTATTATTATTACTGTTATGTACATATTATTTATACAATACTTAATATTATTATTATTAC
66 GTTACTTATTATTATTACTGTTATGTACATATTATTTATACAATACTTAATATTATTATTATTAC
*
17592888 TTTACTATTATTATT
131 ATTACTATTATTATT
17592903 TATAAATATT
Statistics
Matches: 137, Mismatches: 7, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
178 14 0.10
179 92 0.67
180 31 0.23
ACGTcount: A:0.31, C:0.05, G:0.04, T:0.60
Consensus pattern (179 bp):
TATTTTATTTTAATATCATTATATTATGTTTAGCTTTTTTGAATTTCTATATTATTATTATTATT
GTTACTTATTATTATTACTGTTATGTACATATTATTTATACAATACTTAATATTATTATTATTAC
ATTACTATTATTATTATATTTACTATTATTATTTATAAATATTAGTGTA
Found at i:17592833 original size:13 final size:13
Alignment explanation
Indices: 17592807--17592841 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
17592797 TGAATTTCTA
17592807 TATTATTA-TTAT
1 TATTATTACTTAT
*
17592819 TATTGTTACTTAT
1 TATTATTACTTAT
17592832 TATTATTACT
1 TATTATTACT
17592842 GTTATGTACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 7 0.35
13 13 0.65
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.63
Consensus pattern (13 bp):
TATTATTACTTAT
Found at i:17592833 original size:19 final size:19
Alignment explanation
Indices: 17592809--17592845 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
17592799 AATTTCTATA
*
17592809 TTATTATTATTATTGTTAC
1 TTATTATTATTACTGTTAC
17592828 TTATTATTATTACTGTTA
1 TTATTATTATTACTGTTA
17592846 TGTACATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.27, C:0.05, G:0.05, T:0.62
Consensus pattern (19 bp):
TTATTATTATTACTGTTAC
Found at i:17593079 original size:3 final size:3
Alignment explanation
Indices: 17593073--17593124 Score: 52
Period size: 3 Copynumber: 16.7 Consensus size: 3
17593063 CTATTATTGC
* *
17593073 TAT TAT TGT TAT TAT TAT TAT TAT TATT TAT TA- TATT TAT ATAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TA-T TAT -TAT TAT
17593120 TAT TA
1 TAT TA
17593125 ATAGGTACTT
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
2 2 0.05
3 32 0.78
4 7 0.17
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:17610532 original size:46 final size:46
Alignment explanation
Indices: 17610482--17610657 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
17610472 TGGTTGAGCA
17610482 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
17610528 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
17610573 CATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
17610621 CCCGAGCTCGTTAAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
17610658 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:17610643 original size:93 final size:93
Alignment explanation
Indices: 17610479--17610650 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
17610469 GGATGGTTGA
* * *
17610479 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAGT
17610544 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
17610572 GCATTCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTAAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAGT
17610637 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
17610651 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTAAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:17617594 original size:2 final size:2
Alignment explanation
Indices: 17617587--17617625 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
17617577 GAGCTTATAT
17617587 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
17617626 GGACAAGAGC
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:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:17618263 original size:21 final size:21
Alignment explanation
Indices: 17618237--17618278 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
17618227 AAAATTAGCG
*
17618237 CTTCTTGTTCTGCTCTTCTTA
1 CTTCTTGTTCCGCTCTTCTTA
17618258 CTTCTTGTTCCGCTCTTCTTA
1 CTTCTTGTTCCGCTCTTCTTA
17618279 GGTTTGATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.05, C:0.31, G:0.10, T:0.55
Consensus pattern (21 bp):
CTTCTTGTTCCGCTCTTCTTA
Found at i:17622268 original size:39 final size:38
Alignment explanation
Indices: 17622145--17622269 Score: 119
Period size: 39 Copynumber: 3.3 Consensus size: 38
17622135 TCTATAAAGA
*
17622145 TGATT-TA-GAGTATTGTGGTATATGCTTGAATGTTATG
1 TGATTATATGAGTA-TGTGATATATGCTTGAATGTTATG
* * * * *
17622182 TGATTTTACGAGTACTATGACATATGCTTAAATGTTATG
1 TGATTATATGAGTA-TGTGATATATGCTTGAATGTTATG
* * *
17622221 AGATTATATGAGTATGGTGATATATGCTTGTATGTTAGG
1 TGATTATATGAGTAT-GTGATATATGCTTGAATGTTATG
*
17622260 TGACTATATG
1 TGATTATATG
17622270 TGAAATATGC
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
37 5 0.07
38 3 0.04
39 62 0.89
ACGTcount: A:0.28, C:0.06, G:0.24, T:0.42
Consensus pattern (38 bp):
TGATTATATGAGTATGTGATATATGCTTGAATGTTATG
Found at i:17627081 original size:69 final size:69
Alignment explanation
Indices: 17626917--17627395 Score: 264
Period size: 69 Copynumber: 6.9 Consensus size: 69
17626907 TAGTGAAAAT
* * * * * * * * * * *
17626917 TAGGAGCTTTGCTCTCGCTAACTATATTGGAAGCTGTGGCTTTTCACCTGCAAGCTTTAATATAA
1 TAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCGCCTACGAGCCTTAATATGA
* **
17626982 TAGT
66 CAAC
* * * * * * * *
17626986 TTGGAGCTTTCCTCTCGTTAATTGTGTTAGAAGTTGCGACTCTTCGCCTGCGAGCCTTAATATGA
1 TAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCGCCTACGAGCCTTAATATGA
17627051 CAAC
66 CAAC
* * * ** *
17627055 TAGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGCGGCTCTTC-ACTAATTAGCCTTAATATA
1 TAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCGCCT-ACGAGCCTTAATATG
*
17627119 ATAGA-
65 ACA-AC
* * ** ** * * ** *
17627124 TGGGAGCTTTGTTCTCAATAACTGCATTGGAGGCTACGATTCTTTACCTACAAGCCTTAATATGA
1 TAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCGCCTACGAGCCTTAATATGA
*
17627189 CAGC
66 CAAC
* *** * * *
17627193 TGGGAGCTTTGCTCTCGCTAACTACATTGGAAGCTG-TAGCTCGTCGCCTACGAGCCTTAATATG
1 TAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGA-CTCTTCGCCTACGAGCCTTAATATG
17627257 ACAA-
65 ACAAC
* * * ** * * * *** * *
17627261 TTGAGAGCTTTACTCTTGCTAACTGTGTCAGAGGTTGTGGCTCTTCTTTTGCTAGCCTTAATATG
1 TAG-GAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCGCCTACGAGCCTTAATATG
*
17627326 ACAGC
65 ACAAC
* * ** * * **
17627331 TAGGAGCTTTGTTCTCGCTGACTGTGTTGGAGGCTATGGCTCTTCTCCTGTGAGCCTTAATATGA
1 TAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCGCCTACGAGCCTTAATATGA
17627396 TATGAATTTT
Statistics
Matches: 307, Mismatches: 95, Indels: 16
0.73 0.23 0.04
Matches are distributed among these distances:
68 5 0.02
69 297 0.97
70 5 0.02
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.34
Consensus pattern (69 bp):
TAGGAGCTTTGCTCTCGCTAACTGTGTTGGAGGCTGCGACTCTTCGCCTACGAGCCTTAATATGA
CAAC
Found at i:17627249 original size:138 final size:137
Alignment explanation
Indices: 17626917--17627255 Score: 338
Period size: 138 Copynumber: 2.5 Consensus size: 137
17626907 TAGTGAAAAT
* * *
17626917 TAGGAGCTTTGCTCTCGCTAACTATATTGGAAGCTGTGGCTTTTCACCTGCAAGCTTTAATATAA
1 TAGGAGCTTTGCTCTCGCTAACTATATTGGAAGCTGTGGCTCTTC-CCTACAAGCCTTAATATAA
* * ** * ** * * * * *
17626982 TAGTTTGGAGCTTTCCTCTCGTTAATTGTGTTAGAAGTTGCGACTCTTCGCCTGCGAGCCTTAAT
65 TAGATGGGAGCTTTCCTCTCAATAACTGCATTAGAAGCTACGACTCTTCACCTACAAGCCTTAAT
17627047 ATGACAAC
130 ATGACAAC
* * * * * *
17627055 TAGGAGCTTTGCTCTTGCTAACTGTGTTGGAGGCTGCGGCTCTTCACTA-ATTAGCCTTAATATA
1 TAGGAGCTTTGCTCTCGCTAACTATATTGGAAGCTGTGGCTCTTCCCTACA--AGCCTTAATATA
** * * * *
17627119 ATAGATGGGAGCTTTGTTCTCAATAACTGCATTGGAGGCTACGATTCTTTACCTACAAGCCTTAA
64 ATAGATGGGAGCTTTCCTCTCAATAACTGCATTAGAAGCTACGACTCTTCACCTACAAGCCTTAA
*
17627184 TATGACAGC
129 TATGACAAC
* * * * *
17627193 TGGGAGCTTTGCTCTCGCTAACTACATTGGAAGCTGTAGCTCGTCGCCTACGAGCCTTAATAT
1 TAGGAGCTTTGCTCTCGCTAACTATATTGGAAGCTGTGGCTCTTC-CCTACAAGCCTTAATAT
17627256 GACAATTGAG
Statistics
Matches: 158, Mismatches: 39, Indels: 8
0.77 0.19 0.04
Matches are distributed among these distances:
136 1 0.01
137 2 0.01
138 152 0.96
139 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.22, T:0.34
Consensus pattern (137 bp):
TAGGAGCTTTGCTCTCGCTAACTATATTGGAAGCTGTGGCTCTTCCCTACAAGCCTTAATATAAT
AGATGGGAGCTTTCCTCTCAATAACTGCATTAGAAGCTACGACTCTTCACCTACAAGCCTTAATA
TGACAAC
Found at i:17635712 original size:21 final size:21
Alignment explanation
Indices: 17635688--17635727 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
17635678 CAAAATGACG
17635688 TAGTTTT-ACCTTTTAACTTAA
1 TAGTTTTGA-CTTTTAACTTAA
17635709 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
17635728 TAAAAAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.25, C:0.12, G:0.07, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTAA
Found at i:17646346 original size:33 final size:34
Alignment explanation
Indices: 17646309--17646399 Score: 98
Period size: 33 Copynumber: 2.7 Consensus size: 34
17646299 AATTTTGAAA
*
17646309 TTTTTATATTTTAAAAAACTTA-TATTTTAT-ATCT
1 TTTTTATATTTTAAAAAA-TTATTATTTT-TCATAT
*
17646343 TTTTTA-ATTTTAAAGAATTATTATTTTTCATAT
1 TTTTTATATTTTAAAAAATTATTATTTTTCATAT
* *
17646376 TTTTTAATTTTTTTAAAAATTATT
1 TTTTT-ATATTTTAAAAAATTATT
17646400 TAAAATATGA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
32 4 0.08
33 24 0.50
34 7 0.15
35 13 0.27
ACGTcount: A:0.34, C:0.03, G:0.01, T:0.62
Consensus pattern (34 bp):
TTTTTATATTTTAAAAAATTATTATTTTTCATAT
Found at i:17658588 original size:43 final size:43
Alignment explanation
Indices: 17658482--17658861 Score: 539
Period size: 43 Copynumber: 8.8 Consensus size: 43
17658472 GTTTATTGGA
* *
17658482 AAAAGACGCCGCTAAAGGTTAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAG-CGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
17658526 -AAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * * *
17658568 GAAAGCGCAGCTAAACGTCAAGGCTTTTAACGGCGTTTGTGGT
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
17658611 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGT
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
17658654 AAAAGCGCCGCTAAA-GATCAAGGCTTTTAGCAGCGTTTGTGCG
1 AAAAGCGCCGCTAAACG-TCAAGGCTTTTAGCGGCGTTTGTGGG
* * *
17658697 TAAAGCGCCGCTAAACGTCAAGGCTTTTAACGGCGTTTGTGGT
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
17658740 AAAAGCGCCGCTAAACGTCAAGGCTTTTTAACGGCGTTTGTGGT
1 AAAAGCGCCGCTAAACGTCAAGGC-TTTTAGCGGCGTTTGTGGG
* *
17658784 AAAAGCGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGCG
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
* * *
17658827 TAAAGCACCGTTAAACGTCAAGGCTTTTAGCGGCG
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCG
17658862 CTTTTTTTAC
Statistics
Matches: 307, Mismatches: 25, Indels: 9
0.90 0.07 0.03
Matches are distributed among these distances:
42 38 0.12
43 226 0.74
44 43 0.14
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (43 bp):
AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:17658682 original size:129 final size:129
Alignment explanation
Indices: 17658482--17658861 Score: 627
Period size: 129 Copynumber: 2.9 Consensus size: 129
17658472 GTTTATTGGA
* * *
17658482 AAAAGACGCCGCTAAAGGTTAAGGCTTTTAGCGGCGTTTGTGG-GAAAGCGCCGCTAAAGGTCAA
1 AAAAG-CGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAA
* * *
17658546 GGCTTTTAGCGGCGTTTGTGGGGAAAGCGCAGCTAAACGTCAAGGCTTTTAACGGCGTTTGTGGT
65 GGCTTTTAGCGGCGTTTGTGCGTAAAGCGCCGCTAAACGTCAAGGCTTTTAACGGCGTTTGTGGT
*
17658611 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGATCAAG
1 AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAG
*
17658676 GCTTTTAGCAGCGTTTGTGCGTAAAGCGCCGCTAAACGTCAAGGCTTTTAACGGCGTTTGTGGT
66 GCTTTTAGCGGCGTTTGTGCGTAAAGCGCCGCTAAACGTCAAGGCTTTTAACGGCGTTTGTGGT
*
17658740 AAAAGCGCCGCTAAACGTCAAGGCTTTTTAACGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAA
1 AAAAGCGCCGCTAAACGTCAAGGC-TTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAA
* * *
17658805 GGCTTTTAGCGGCGTTTGTGCGTAAAGCACCGTTAAACGTCAAGGCTTTTAGCGGCG
65 GGCTTTTAGCGGCGTTTGTGCGTAAAGCGCCGCTAAACGTCAAGGCTTTTAACGGCG
17658862 CTTTTTTTAC
Statistics
Matches: 235, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
128 35 0.15
129 109 0.46
130 91 0.39
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.25
Consensus pattern (129 bp):
AAAAGCGCCGCTAAACGTCAAGGCTTTTAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTCAAG
GCTTTTAGCGGCGTTTGTGCGTAAAGCGCCGCTAAACGTCAAGGCTTTTAACGGCGTTTGTGGT
Found at i:17659013 original size:32 final size:31
Alignment explanation
Indices: 17658936--17659015 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 31
17658926 CTTCCTGCAT
* * *
17658936 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATACAACCAAAAACAACAAATATAACA
* * * *
17658967 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATACAACCAAAAACAACAAATATAACA
17658998 TAAAAATACAACCAAAAA
1 T-AAAATACAACCAAAAA
17659016 TATTAATTCT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
31 26 0.65
32 14 0.35
ACGTcount: A:0.61, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATACAACCAAAAACAACAAATATAACA
Found at i:17659285 original size:21 final size:21
Alignment explanation
Indices: 17659261--17659306 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
17659251 GCTCGTGCCT
*
17659261 CTGCCTCTCTCGCTGCAGCCG
1 CTGCCTCCCTCGCTGCAGCCG
* * *
17659282 CTGCCTCCCTCTCTGCTGCCT
1 CTGCCTCCCTCGCTGCAGCCG
17659303 CTGC
1 CTGC
17659307 TCTAAGTTGT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.02, C:0.50, G:0.20, T:0.28
Consensus pattern (21 bp):
CTGCCTCCCTCGCTGCAGCCG
Found at i:17664901 original size:9 final size:9
Alignment explanation
Indices: 17664887--17665014 Score: 121
Period size: 9 Copynumber: 13.6 Consensus size: 9
17664877 ATGTATTAGT
17664887 TAAGTTATG
1 TAAGTTATG
17664896 TAAGTTGTTATG
1 TAA---GTTATG
*
17664908 TACGTTATG
1 TAAGTTATG
*
17664917 TGAGTTATG
1 TAAGTTATG
*
17664926 TAAATTATG
1 TAAGTTATG
17664935 TAAGTTATG
1 TAAGTTATG
*
17664944 TGAGTTATG
1 TAAGTTATG
17664953 TAAGTTGCTATG
1 TAAG-T--TATG
*
17664965 TAAATTATG
1 TAAGTTATG
*
17664974 TAAGTTATA
1 TAAGTTATG
*
17664983 TGAGTTATG
1 TAAGTTATG
17664992 TAAGTTATG
1 TAAGTTATG
* *
17665001 TAATTTATT
1 TAAGTTATG
17665010 TAAGT
1 TAAGT
17665015 AATGATCAAT
Statistics
Matches: 96, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
9 79 0.82
10 1 0.01
11 1 0.01
12 15 0.16
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:17665014 original size:57 final size:57
Alignment explanation
Indices: 17664887--17665014 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
17664877 ATGTATTAGT
* ** * *
17664887 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGCTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * *
17664944 TGAGTTATGTAAGTTGCTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGCTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
17665001 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
17665015 AATGATCAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.31, C:0.02, G:0.21, T:0.46
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGCTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:17666099 original size:21 final size:20
Alignment explanation
Indices: 17666073--17666112 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
17666063 AATATTTATG
17666073 TATAAAT-TTAATAATTATTCC
1 TATAAATATTAA-AA-TATTCC
17666094 TATAAATATTAAAATATTC
1 TATAAATATTAAAATATTC
17666113 ACTTATTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.28
21 9 0.50
22 4 0.22
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (20 bp):
TATAAATATTAAAATATTCC
Found at i:17666651 original size:64 final size:64
Alignment explanation
Indices: 17666156--17666641 Score: 835
Period size: 64 Copynumber: 7.7 Consensus size: 64
17666146 GATTTTATTG
* *
17666156 ATATTATATTAATAAATAAATTTATT-AAAATCGTGATAGAAATATTTGTATATTAGATGGGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
* * *
17666219 ATATTATATTAATAAATAAATTTATTAAAAATTGTGATAGAAATATTTGTATATTAGATGGGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
17666283 ATATTATAT---T-AATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGAT---AC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
*
17666340 ATATTATATTAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
17666404 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
*
17666468 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTATATATTAGATGAGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
*
17666532 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGGGAC
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
*
17666596 ATATTATATCAATAAATAAATTTATTAAAAATTGTGATAGAAATAT
1 ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATAT
17666642 AGAAATATTA
Statistics
Matches: 408, Mismatches: 7, Indels: 15
0.95 0.02 0.03
Matches are distributed among these distances:
57 11 0.03
60 45 0.11
61 46 0.11
63 26 0.06
64 280 0.69
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (64 bp):
ATATTATATCAATAAATAAATTTATTAAAAATCGTGATAGAAATATTTGTATATTAGATGAGAC
Found at i:17669613 original size:16 final size:17
Alignment explanation
Indices: 17669594--17669629 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
17669584 ATTATTTTAT
17669594 ATATAAA-TAAAAAACA
1 ATATAAATTAAAAAACA
17669610 ATATAAATTAAAAAACA
1 ATATAAATTAAAAAACA
17669627 ATA
1 ATA
17669630 AGTTATATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (17 bp):
ATATAAATTAAAAAACA
Found at i:17670011 original size:80 final size:80
Alignment explanation
Indices: 17669893--17670102 Score: 251
Period size: 80 Copynumber: 2.6 Consensus size: 80
17669883 TAACTTTTTT
* * *
17669893 AACACTAATTACCCTTAACCCATGTCCCCTTAATCCCTAAACCCCTCAACCCTAAACCATTAACC
1 AACACTAA--ACCC-TAAACCATGTCCCCTTAACCCCTAAACCCCTCAACCCTAAACCATAAACC
17669958 ATTAATCCCTAAAATTTA
63 ATTAATCCCTAAAATTTA
* * * * * *
17669976 AACACTAAACCCTAAATCATGTCCCATTAACCCCTAAACCCTTGAACCTTAAACCATAAACCCTT
1 AACACTAAACCCTAAACCATGTCCCCTTAACCCCTAAACCCCTCAACCCTAAACCATAAACCATT
* *
17670041 AATCCTTAAACTTTA
66 AATCCCTAAAATTTA
* * * *
17670056 AACATTAATCCCTAAACCATATCCCCTTAACCCTTAAA-CCCTCAACC
1 AACACTAAACCCTAAACCATGTCCCCTTAACCCCTAAACCCCTCAACC
17670103 TTTAAATATT
Statistics
Matches: 108, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
79 7 0.06
80 89 0.82
81 4 0.04
83 8 0.07
ACGTcount: A:0.37, C:0.36, G:0.01, T:0.26
Consensus pattern (80 bp):
AACACTAAACCCTAAACCATGTCCCCTTAACCCCTAAACCCCTCAACCCTAAACCATAAACCATT
AATCCCTAAAATTTA
Found at i:17670027 original size:22 final size:22
Alignment explanation
Indices: 17670010--17670095 Score: 86
Period size: 22 Copynumber: 4.0 Consensus size: 22
17670000 CATTAACCCC
17670010 TAAACCCTTGAA-CCTTAAACCA
1 TAAACCCTT-AATCCTTAAACCA
**
17670032 TAAACCCTTAATCCTTAAACTT
1 TAAACCCTTAATCCTTAAACCA
* *
17670054 TAAA-CATTAATCCCTAAACCA
1 TAAACCCTTAATCCTTAAACCA
** *
17670075 TATCCCCTTAACCCTTAAACC
1 TAAACCCTTAATCCTTAAACC
17670096 CTCAACCTTT
Statistics
Matches: 51, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
21 17 0.33
22 34 0.67
ACGTcount: A:0.38, C:0.33, G:0.01, T:0.28
Consensus pattern (22 bp):
TAAACCCTTAATCCTTAAACCA
Found at i:17670039 original size:29 final size:29
Alignment explanation
Indices: 17670000--17670073 Score: 78
Period size: 29 Copynumber: 2.6 Consensus size: 29
17669990 AATCATGTCC
* *
17670000 CATTAACCCCTAAACCCTTGAACCTTAAA
1 CATTAAACCCTAAACCCTTAAACCTTAAA
* * *
17670029 CCA-TAAACCCTTAATCCTTAAACTTTAAA
1 -CATTAAACCCTAAACCCTTAAACCTTAAA
*
17670058 CATTAATCCCTAAACC
1 CATTAAACCCTAAACC
17670074 ATATCCCCTT
Statistics
Matches: 35, Mismatches: 8, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
28 2 0.06
29 31 0.89
30 2 0.06
ACGTcount: A:0.39, C:0.32, G:0.01, T:0.27
Consensus pattern (29 bp):
CATTAAACCCTAAACCCTTAAACCTTAAA
Found at i:17670145 original size:51 final size:50
Alignment explanation
Indices: 17670020--17670146 Score: 128
Period size: 51 Copynumber: 2.5 Consensus size: 50
17670010 TAAACCCTTG
* * * * * *
17670020 AACCTTAAACCATAAACCCTTAATCCTTAAACTTTAAACATTAATCCCTA
1 AACCATAAACCCTAAACCCTAAACCCTCAAACTTTAAACATTAACCCCTA
** * * *
17670070 AACCATATCCCCTTAACCCTTAAACCCTCAACCTTTAAATATTAACCCCTA
1 AACCATAAACCCTAAACCC-TAAACCCTCAAACTTTAAACATTAACCCCTA
*
17670121 AACTATAAACCCTAAATCCCTAAACC
1 AACCATAAACCCTAAA-CCCTAAACC
17670147 TTTAGCCATT
Statistics
Matches: 60, Mismatches: 15, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
50 14 0.23
51 43 0.72
52 3 0.05
ACGTcount: A:0.40, C:0.33, G:0.00, T:0.27
Consensus pattern (50 bp):
AACCATAAACCCTAAACCCTAAACCCTCAAACTTTAAACATTAACCCCTA
Found at i:17670148 original size:44 final size:44
Alignment explanation
Indices: 17670084--17670183 Score: 114
Period size: 44 Copynumber: 2.3 Consensus size: 44
17670074 ATATCCCCTT
* * * *
17670084 AACCCTTAAA-CCCTCAACCTTTAAATATT-AACCCCTAAACTATA
1 AACCC-TAAATCCCTAAACCTTTAAACATTGAA-CCATAAACCATA
**
17670128 AACCCTAAATCCCTAAACCTTTAGCCATTGAACCATAAACCATA
1 AACCCTAAATCCCTAAACCTTTAAACATTGAACCATAAACCATA
17670172 AACCCTAAATCC
1 AACCCTAAATCC
17670184 ACAATCAATA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
43 4 0.08
44 42 0.88
45 2 0.04
ACGTcount: A:0.41, C:0.33, G:0.02, T:0.24
Consensus pattern (44 bp):
AACCCTAAATCCCTAAACCTTTAAACATTGAACCATAAACCATA
Found at i:17670596 original size:14 final size:14
Alignment explanation
Indices: 17670577--17670630 Score: 56
Period size: 14 Copynumber: 3.8 Consensus size: 14
17670567 GTGTCATTAA
17670577 TTTAGGGTTTATAG
1 TTTAGGGTTTATAG
*
17670591 TTTAGGGTTTCA-AA
1 TTTAGGGTTT-ATAG
* *
17670605 TTTAAGGTCTATAG
1 TTTAGGGTTTATAG
17670619 TTTATGGGTTTA
1 TTTA-GGGTTTA
17670631 GGGGTTAAAG
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
13 1 0.03
14 24 0.77
15 6 0.19
ACGTcount: A:0.24, C:0.04, G:0.24, T:0.48
Consensus pattern (14 bp):
TTTAGGGTTTATAG
Found at i:17670617 original size:28 final size:29
Alignment explanation
Indices: 17670575--17670629 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
17670565 ATGTGTCATT
* *
17670575 AATTTAGGGTTTATAGTTTA-GGGTTTCA
1 AATTTAAGGTCTATAGTTTATGGGTTTCA
17670603 AATTTAAGGTCTATAGTTTATGGGTTT
1 AATTTAAGGTCTATAGTTTATGGGTTT
17670630 AGGGGTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 18 0.75
29 6 0.25
ACGTcount: A:0.25, C:0.04, G:0.24, T:0.47
Consensus pattern (29 bp):
AATTTAAGGTCTATAGTTTATGGGTTTCA
Found at i:17671234 original size:43 final size:42
Alignment explanation
Indices: 17671155--17671312 Score: 135
Period size: 40 Copynumber: 3.8 Consensus size: 42
17671145 AATAGTTTAC
* ** * *
17671155 ATCTATAGCGGCGTTTTTCCAATAAGCGCCGCTAAAACTCAA
1 ATCTATAGCGGCCTTTTTTGAAAAAACGCCGCTAAAACTCAA
* * * *
17671197 ATCTATTGCGGCCTTTTTTTATAAAAACGCCACTAAAACCCAA
1 ATCTATAGCGGCCTTTTTTGA-AAAAACGCCGCTAAAACTCAA
* * *
17671240 ATCCT-TAGCGG-CGTTTTTGAAAAAGCGCCGCTAATACTC-A
1 AT-CTATAGCGGCCTTTTTTGAAAAAACGCCGCTAAAACTCAA
* **
17671280 ATCTATAGCGG-CGTTTTTGAGGAAACGCCGCTA
1 ATCTATAGCGGCCTTTTTTGAAAAAACGCCGCTA
17671313 TTGCCACTGA
Statistics
Matches: 95, Mismatches: 18, Indels: 8
0.79 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 28 0.29
41 15 0.16
42 24 0.25
43 24 0.25
44 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (42 bp):
ATCTATAGCGGCCTTTTTTGAAAAAACGCCGCTAAAACTCAA
Found at i:17671289 original size:40 final size:42
Alignment explanation
Indices: 17671155--17671312 Score: 155
Period size: 43 Copynumber: 3.8 Consensus size: 42
17671145 AATAGTTTAC
* *
17671155 ATCTATAGCGGCGTTTTTCCA-ATAAGCGCCGCTAAAACTCAA
1 ATCTATAGCGGCGTTTTT-GAGAAAAGCGCCGCTAAAACTCAA
* * * * * * *
17671197 ATCTATTGCGGCCTTTTTTTATAAAAACGCCACTAAAACCCAA
1 ATCTATAGCGG-CGTTTTTGAGAAAAGCGCCGCTAAAACTCAA
*
17671240 ATCCT-TAGCGGCGTTTTTGA-AAAAGCGCCGCTAATACTC-A
1 AT-CTATAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAACTCAA
*
17671280 ATCTATAGCGGCGTTTTTGAGGAAA-CGCCGCTA
1 ATCTATAGCGGCGTTTTTGAGAAAAGCGCCGCTA
17671313 TTGCCACTGA
Statistics
Matches: 96, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
39 2 0.02
40 26 0.27
41 18 0.19
42 18 0.19
43 30 0.31
44 2 0.02
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.28
Consensus pattern (42 bp):
ATCTATAGCGGCGTTTTTGAGAAAAGCGCCGCTAAAACTCAA
Found at i:17671564 original size:146 final size:148
Alignment explanation
Indices: 17671245--17671596 Score: 403
Period size: 146 Copynumber: 2.4 Consensus size: 148
17671235 CCCAAATCCT
* *
17671245 TAGCGGCGTTTTTG-AAAAAGCGCCGCTAATACTCAATCTATAGCGGCGTTTTTGAGGAAACGCC
1 TAGCGGCGCTTTCGTAAAAA-CGCCGCTAATACTCAATCTATAGCGGCG-TTTTGAGGAAACGCC
* * *
17671309 GCTATTGCCACTGAAGCTCAGAATAAACAACGCCGTTCTGCTTAATCTTTTAACAGCGTTTTTGT
64 GCTATTGCCACCGAAGCTCAGAAT----AAC-CCGTTCGGCTTAATCTTTTAACAGCGTTTTTAT
* *
17671374 ACAAACGCCGCTATAAGTCGACCTA
124 AAAAACGCCGCTATAAGTAGACCTA
* * * * *
17671399 TAGCAGCGCTTCCTTAAAAACGCCGCTAATACTCAAACCTATAGCGGCGTTTTG-GTGAAGCGCC
1 TAGCGGCGCTTTCGTAAAAACGCCGCTAATACTC-AATCTATAGCGGCGTTTTGAG-GAAACGCC
* ***
17671463 GCTATTGCCACCGAAGCTC-GCAAT-A-TCGTTCGGCTTAATC-TTTAGTGGCGTTTTTATAAAA
64 GCTATTGCCACCGAAGCTCAG-AATAACCCGTTCGGCTTAATCTTTTAACAGCGTTTTTATAAAA
17671524 ACGCCGCTAT-AGATAGACCTA
128 ACGCCGCTATAAG-TAGACCTA
*
17671545 TAGCGGCGCTTTCGTAAAAACGCCGCTAATACTCAATCTATAGCGGCATTTT
1 TAGCGGCGCTTTCGTAAAAACGCCGCTAATACTCAATCTATAGCGGCGTTTT
17671597 TAAAAAAACG
Statistics
Matches: 172, Mismatches: 21, Indels: 19
0.81 0.10 0.09
Matches are distributed among these distances:
145 18 0.10
146 64 0.37
147 13 0.08
149 1 0.01
153 2 0.01
154 56 0.33
155 18 0.10
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (148 bp):
TAGCGGCGCTTTCGTAAAAACGCCGCTAATACTCAATCTATAGCGGCGTTTTGAGGAAACGCCGC
TATTGCCACCGAAGCTCAGAATAACCCGTTCGGCTTAATCTTTTAACAGCGTTTTTATAAAAACG
CCGCTATAAGTAGACCTA
Found at i:17671739 original size:19 final size:20
Alignment explanation
Indices: 17671700--17671741 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 20
17671690 GTAGTGATTA
17671700 TAAATAATTAAGTTTTTAAAAG
1 TAAATAATTAAG--TTTAAAAG
*
17671722 TAAATAATTAAGTTAAAAAG
1 TAAATAATTAAGTTTAAAAG
17671742 ACAAAATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
22 12 0.63
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.36
Consensus pattern (20 bp):
TAAATAATTAAGTTTAAAAG
Found at i:17672358 original size:7 final size:7
Alignment explanation
Indices: 17672346--17672370 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
17672336 TATGTTTAAT
17672346 AAATATA
1 AAATATA
17672353 AAATATA
1 AAATATA
17672360 AAATATA
1 AAATATA
17672367 AAAT
1 AAAT
17672371 CATGCGTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (7 bp):
AAATATA
Found at i:17673300 original size:25 final size:23
Alignment explanation
Indices: 17673272--17673330 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 23
17673262 AATATAATTA
*
17673272 AAAATATTTTATATTAATATTAAAT
1 AAAA-ATTTTATATCAAT-TTAAAT
*
17673297 AAAAATAATTATATCAATTTAAAT
1 AAAAAT-TTTATATCAATTTAAAT
*
17673321 AAAAAATTTA
1 AAAAATTTTA
17673331 CGTCTCCCCC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 3 0.10
24 13 0.45
25 13 0.45
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.41
Consensus pattern (23 bp):
AAAAATTTTATATCAATTTAAAT
Found at i:17673323 original size:24 final size:26
Alignment explanation
Indices: 17673262--17673325 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 26
17673252 ACACCATTAA
* * *
17673262 AATA-TAATTAAAAATATTTTATATT
1 AATATTAAATAAAAATATATTATATC
17673287 AATATTAAATAAAAATA-ATTATATC
1 AATATTAAATAAAAATATATTATATC
17673312 AAT-TTAAATAAAAA
1 AATATTAAATAAAAA
17673326 ATTTACGTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.31
25 13 0.37
26 11 0.31
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (26 bp):
AATATTAAATAAAAATATATTATATC
Found at i:17678286 original size:53 final size:53
Alignment explanation
Indices: 17678220--17678339 Score: 213
Period size: 53 Copynumber: 2.3 Consensus size: 53
17678210 CACAGGTGTG
* *
17678220 TAGCATGGCCGTGTGCATAATTTAAAGAGTTACACGGGGTTGAACACGACCTC
1 TAGCATGGGCGTGTGCATAATTCAAAGAGTTACACGGGGTTGAACACGACCTC
*
17678273 TAGCATGGGCGTGTGCATAATTCAAAGAGTTACACGGGGTTGAACATGACCTC
1 TAGCATGGGCGTGTGCATAATTCAAAGAGTTACACGGGGTTGAACACGACCTC
17678326 TAGCATGGGCGTGT
1 TAGCATGGGCGTGT
17678340 CCCAGGGTCA
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 64 1.00
ACGTcount: A:0.27, C:0.19, G:0.29, T:0.25
Consensus pattern (53 bp):
TAGCATGGGCGTGTGCATAATTCAAAGAGTTACACGGGGTTGAACACGACCTC
Found at i:17682406 original size:37 final size:37
Alignment explanation
Indices: 17682320--17682394 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
17682310 TGTTTTCGGT
* * * **
17682320 TAGACTAGCTTTTCAGAGCCATTGGTGTGTTATTGGG
1 TAGAGTAGCTCTTCGGAGCCATTGGTGTGTTATCAGG
17682357 TAGAGTAGCTCTTCGGAGCCATTGGTGTGTTATCAGG
1 TAGAGTAGCTCTTCGGAGCCATTGGTGTGTTATCAGG
17682394 T
1 T
17682395 GGATCGACTC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.19, C:0.15, G:0.31, T:0.36
Consensus pattern (37 bp):
TAGAGTAGCTCTTCGGAGCCATTGGTGTGTTATCAGG
Found at i:17682425 original size:37 final size:37
Alignment explanation
Indices: 17682384--17682461 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
17682374 GCCATTGGTG
* *
17682384 TGTTATCAGGTGGATCGA-CTCTTATGTGCATTTGGCA
1 TGTTATCAGGTGGAT-GAGCTCTTACGAGCATTTGGCA
* * *
17682421 TGTTATCGGGTGGATTAGCTCTTACGAGCATTTGGCG
1 TGTTATCAGGTGGATGAGCTCTTACGAGCATTTGGCA
17682458 TGTT
1 TGTT
17682462 TCGATTGGAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
36 1 0.03
37 34 0.97
ACGTcount: A:0.17, C:0.15, G:0.29, T:0.38
Consensus pattern (37 bp):
TGTTATCAGGTGGATGAGCTCTTACGAGCATTTGGCA
Done.