Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D01
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: 64473564
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1880000 characters in sequence are not A, C, G, or T
File 35 of 213
Found at i:9401012 original size:30 final size:31
Alignment explanation
Indices: 9400956--9401029 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 31
9400946 CTGCTAGTTT
*
9400956 ACAACTCTCACTCTTTTCTTTCTTTTTT-TC
1 ACAACACTCACTCTTTTCTTTCTTTTTTCTC
* *
9400986 TCAACACTCACT-TTTTCTTCTTTTTTTTCTC
1 ACAACACTCACTCTTTTCTT-TCTTTTTTCTC
*
9401017 ACAACATTCACTC
1 ACAACACTCACTC
9401030 AGTTTTTCAG
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
29 7 0.19
30 17 0.47
31 12 0.33
ACGTcount: A:0.18, C:0.31, G:0.00, T:0.51
Consensus pattern (31 bp):
ACAACACTCACTCTTTTCTTTCTTTTTTCTC
Found at i:9401022 original size:31 final size:31
Alignment explanation
Indices: 9400955--9401029 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 31
9400945 ACTGCTAGTT
*
9400955 TACAACTCTCACTCTTTTCTTTCTTTTTTTC
1 TACAACACTCACTCTTTTCTTTCTTTTTTTC
9400986 T-CAACACTCACT-TTTTC-TTCTTTTTTTTC
1 TACAACACTCACTCTTTTCTTTC-TTTTTTTC
*
9401015 TCACAACATTCACTC
1 T-ACAACACTCACTC
9401030 AGTTTTTCAG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
28 3 0.08
29 14 0.37
30 10 0.26
31 11 0.29
ACGTcount: A:0.17, C:0.31, G:0.00, T:0.52
Consensus pattern (31 bp):
TACAACACTCACTCTTTTCTTTCTTTTTTTC
Found at i:9405331 original size:41 final size:41
Alignment explanation
Indices: 9405286--9405384 Score: 128
Period size: 41 Copynumber: 2.4 Consensus size: 41
9405276 TAATTCAGTA
*
9405286 CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTTT
1 CACCGGCA-TTAAGCCTGCTAGACATAAAGTCTGAAATGTTT
* *
9405327 CACCGGCATTAAGCTTGCTAGACGTAAAGTCTGAAATGTTT
1 CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATGTTT
* * *
9405368 CACTGGCAATAAACCTG
1 CACCGGCATTAAGCCTG
9405385 ATAGGCACTA
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 2 0.04
41 48 0.96
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.27
Consensus pattern (41 bp):
CACCGGCATTAAGCCTGCTAGACATAAAGTCTGAAATGTTT
Found at i:9408642 original size:32 final size:34
Alignment explanation
Indices: 9408605--9408677 Score: 105
Period size: 34 Copynumber: 2.2 Consensus size: 34
9408595 AACTCTCACT
*
9408605 CTTTTTCTT-TCTTTTT-TCTCAACACTCACTTA
1 CTTTTTCTTCTCTTTTTCTCTCAACACTCACTCA
* *
9408637 CTTTTTCTTCTTTTTTTCTCTCAACATTCACTCA
1 CTTTTTCTTCTCTTTTTCTCTCAACACTCACTCA
9408671 CTTTTTC
1 CTTTTTC
9408678 AGTTGCTATT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
32 9 0.25
33 6 0.17
34 21 0.58
ACGTcount: A:0.14, C:0.29, G:0.00, T:0.58
Consensus pattern (34 bp):
CTTTTTCTTCTCTTTTTCTCTCAACACTCACTCA
Found at i:9415588 original size:25 final size:25
Alignment explanation
Indices: 9415551--9415643 Score: 82
Period size: 25 Copynumber: 3.7 Consensus size: 25
9415541 CCCATAAGAA
9415551 CATGTAAACGGGAAGCTCTTTCGAGC
1 CATGT-AACGGGAAGCTCTTTCGAGC
*
9415577 CATGTAACGGGAAGCTCATGT-GAGC
1 CATGTAACGGGAAGCTC-TTTCGAGC
** * * *
9415602 TGTATAACGGAAAGCTCTTGCGAGC
1 CATGTAACGGGAAGCTCTTTCGAGC
*
9415627 CAAT-TATCGGGAAGCTC
1 C-ATGTAACGGGAAGCTC
9415644 ATATGAGCCA
Statistics
Matches: 53, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 1 0.02
25 44 0.83
26 8 0.15
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (25 bp):
CATGTAACGGGAAGCTCTTTCGAGC
Found at i:9415638 original size:50 final size:49
Alignment explanation
Indices: 9415553--9415651 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 49
9415543 CATAAGAACA
* * *
9415553 TGTAAACGGGAAGCTCTTTCGAGCCATGTAACGGGAAGCTCATGTGAGC
1 TGTAAACGGAAAGCTCTTGCGAGCCATGTAACGGGAAGCTCATATGAGC
*
9415602 TGTATAACGGAAAGCTCTTGCGAGCCAAT-TATCGGGAAGCTCATATGAGC
1 TGTA-AACGGAAAGCTCTTGCGAGCC-ATGTAACGGGAAGCTCATATGAGC
9415652 CATAAATGGG
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
49 4 0.09
50 38 0.86
51 2 0.05
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (49 bp):
TGTAAACGGAAAGCTCTTGCGAGCCATGTAACGGGAAGCTCATATGAGC
Found at i:9415651 original size:25 final size:24
Alignment explanation
Indices: 9415559--9415717 Score: 65
Period size: 25 Copynumber: 6.4 Consensus size: 24
9415549 AACATGTAAA
* *
9415559 CGGGAAGCTC-TTTCGAGCCATGTAA
1 CGGGAAGCTCATAT-GAGCCAT-TAT
* ** *
9415584 CGGGAAGCTCATGTGAGCTGTATAA
1 CGGGAAGCTCATATGAGCCAT-TAT
* * **
9415609 CGGAAAGCTCTTGCGAGCCAATTAT
1 CGGGAAGCTCATATGAGCC-ATTAT
*
9415634 CGGGAAGCTCATATGAGCCATAAAT
1 CGGGAAGCTCATATGAGCCAT-TAT
* *
9415659 -GGGAAGCTCA-AGAGAGTCATTAAT
1 CGGGAAGCTCATA-TGAGCCATT-AT
** *
9415683 CGAAAAGCTCAT-TAGAGCCAAATAT
1 CGGGAAGCTCATAT-GAGCC-ATTAT
9415708 CGGGAAGCTC
1 CGGGAAGCTC
9415718 GTGAGAGCCA
Statistics
Matches: 100, Mismatches: 25, Indels: 18
0.70 0.17 0.13
Matches are distributed among these distances:
23 1 0.01
24 20 0.20
25 74 0.74
26 5 0.05
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.21
Consensus pattern (24 bp):
CGGGAAGCTCATATGAGCCATTAT
Found at i:9415724 original size:25 final size:25
Alignment explanation
Indices: 9415584--9415767 Score: 101
Period size: 25 Copynumber: 7.4 Consensus size: 25
9415574 AGCCATGTAA
* *** *
9415584 CGGGAAGCTCATGTGAGCTGTATAA
1 CGGGAAGCTCATGAGAGCCAAATAT
* * * *
9415609 CGGAAAGCTCTTGCGAGCCAATTAT
1 CGGGAAGCTCATGAGAGCCAAATAT
9415634 CGGGAAGCTCAT-ATGAGCCATAA-AT
1 CGGGAAGCTCATGA-GAGCCA-AATAT
* * *
9415659 -GGGAAGCTCAAGAGAGTC-ATTAAT
1 CGGGAAGCTCATGAGAGCCAAAT-AT
** *
9415683 CGAAAAGCTCATTAGAGCCAAATAT
1 CGGGAAGCTCATGAGAGCCAAATAT
* * *
9415708 CGGGAAGCTCGTGAGAGCCATATAA
1 CGGGAAGCTCATGAGAGCCAAATAT
* *
9415733 C-GGAATGCTCATAAGAGCTAAATAAT
1 CGGGAA-GCTCATGAGAGCCAAAT-AT
9415759 -GGGAAGCTC
1 CGGGAAGCTC
9415768 TTGCGAACTG
Statistics
Matches: 117, Mismatches: 32, Indels: 20
0.69 0.19 0.12
Matches are distributed among these distances:
22 1 0.01
24 20 0.17
25 88 0.75
26 8 0.07
ACGTcount: A:0.35, C:0.18, G:0.26, T:0.21
Consensus pattern (25 bp):
CGGGAAGCTCATGAGAGCCAAATAT
Found at i:9415724 original size:50 final size:49
Alignment explanation
Indices: 9415638--9415767 Score: 131
Period size: 50 Copynumber: 2.6 Consensus size: 49
9415628 AATTATCGGG
*
9415638 AAGCTCA-TATGAGCCATAA-ATGGGAAGCTCAAGAGAGTCAT-TAATCGAA
1 AAGCTCATTA-GAGCCA-AATATGGGAAGCTCAAGAGAGCCATATAA-CGAA
** *
9415687 AAGCTCATTAGAGCCAAATATCGGGAAGCTCGTGAGAGCCATATAACGGA
1 AAGCTCATTAGAGCCAAATAT-GGGAAGCTCAAGAGAGCCATATAACGAA
* * *
9415737 ATGCTCATAAGAGCTAAATAATGGGAAGCTC
1 AAGCTCATTAGAGCCAAAT-ATGGGAAGCTC
9415768 TTGCGAACTG
Statistics
Matches: 69, Mismatches: 7, Indels: 9
0.81 0.08 0.11
Matches are distributed among these distances:
48 2 0.03
49 15 0.22
50 47 0.68
51 5 0.07
ACGTcount: A:0.38, C:0.18, G:0.24, T:0.20
Consensus pattern (49 bp):
AAGCTCATTAGAGCCAAATATGGGAAGCTCAAGAGAGCCATATAACGAA
Found at i:9423307 original size:28 final size:28
Alignment explanation
Indices: 9423250--9423307 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
9423240 TCTGTTGAAA
* *
9423250 GTTCTCAACAATGCAGCAACATGTAAAT
1 GTTCACAACAATGCAGCAACATGCAAAT
* * *
9423278 GTTCACAAGAATGGAGCAACATGCACAT
1 GTTCACAACAATGCAGCAACATGCAAAT
9423306 GT
1 GT
9423308 CCAAAAAAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.38, C:0.21, G:0.19, T:0.22
Consensus pattern (28 bp):
GTTCACAACAATGCAGCAACATGCAAAT
Found at i:9423318 original size:28 final size:28
Alignment explanation
Indices: 9423259--9423320 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 28
9423249 AGTTCTCAAC
* * * *
9423259 AATGCAGCAACATGTAAATGTTCACAAG
1 AATGCAGCAACATGCAAATGTCCAAAAA
* *
9423287 AATGGAGCAACATGCACATGTCCAAAAA
1 AATGCAGCAACATGCAAATGTCCAAAAA
9423315 AATGCA
1 AATGCA
9423321 ACAGCAAGCT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.45, C:0.19, G:0.18, T:0.18
Consensus pattern (28 bp):
AATGCAGCAACATGCAAATGTCCAAAAA
Found at i:9425642 original size:60 final size:61
Alignment explanation
Indices: 9425531--9425657 Score: 154
Period size: 60 Copynumber: 2.1 Consensus size: 61
9425521 TTCTTTTAAA
* * *
9425531 TTTTTAGAATTAGAACTAAATTAACATATTTTGTAAATGTTGAAACTTAAATTTATTG-AT
1 TTTTTAGAATTAGAACTAAAATAACAAATTTTGTAAATATTGAAACTTAAATTTATTGAAT
* *
9425591 TTTTTAGAATTCA-AACTAAAATAATAAATTTTGTAAATATT-AAAGGC-TAAATTTGTTGAAT
1 TTTTTAGAATT-AGAACTAAAATAACAAATTTTGTAAATATTGAAA--CTTAAATTTATTGAAT
9425652 TTTTTA
1 TTTTTA
9425658 TTAAAACAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
59 3 0.05
60 45 0.78
61 10 0.17
ACGTcount: A:0.41, C:0.05, G:0.09, T:0.45
Consensus pattern (61 bp):
TTTTTAGAATTAGAACTAAAATAACAAATTTTGTAAATATTGAAACTTAAATTTATTGAAT
Found at i:9426337 original size:15 final size:14
Alignment explanation
Indices: 9426317--9426422 Score: 56
Period size: 14 Copynumber: 7.2 Consensus size: 14
9426307 CTCGTAACTC
9426317 TGAACCCATAAACCT
1 TGAACCCA-AAACCT
*
9426332 TGAACCCAAACCCT
1 TGAACCCAAAACCT
9426346 TGAAGCCCAAACCTGAACCT
1 TGAA-CCC-AA----AACCT
*
9426366 TGAACCCCAAA-CT
1 TGAACCCAAAACCT
*
9426379 TGAAACCCAAATCC-
1 TG-AACCCAAAACCT
* * *
9426393 TCAACCCTAAATCT
1 TGAACCCAAAACCT
*
9426407 CGAACCC-AAACCT
1 TGAACCCAAAACCT
9426420 TGA
1 TGA
9426423 CCCGCAAGGT
Statistics
Matches: 69, Mismatches: 13, Indels: 20
0.68 0.13 0.20
Matches are distributed among these distances:
13 19 0.28
14 24 0.35
15 12 0.17
16 2 0.03
18 1 0.01
19 3 0.04
20 8 0.12
ACGTcount: A:0.38, C:0.37, G:0.08, T:0.17
Consensus pattern (14 bp):
TGAACCCAAAACCT
Found at i:9426348 original size:14 final size:14
Alignment explanation
Indices: 9426317--9426358 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
9426307 CTCGTAACTC
*
9426317 TGAACCCATAAACCT
1 TGAACCCA-AACCCT
9426332 TGAACCCAAACCCT
1 TGAACCCAAACCCT
9426346 TGAAGCCCAAACC
1 TGAA-CCCAAACC
9426359 TGAACCTTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 9 0.36
15 16 0.64
ACGTcount: A:0.38, C:0.38, G:0.10, T:0.14
Consensus pattern (14 bp):
TGAACCCAAACCCT
Found at i:9426368 original size:20 final size:20
Alignment explanation
Indices: 9426343--9426382 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
9426333 GAACCCAAAC
*
9426343 CCTTGAAGCCCAAACCTGAA
1 CCTTGAACCCCAAACCTGAA
*
9426363 CCTTGAACCCCAAACTTGAA
1 CCTTGAACCCCAAACCTGAA
9426383 ACCCAAATCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.35, G:0.12, T:0.17
Consensus pattern (20 bp):
CCTTGAACCCCAAACCTGAA
Found at i:9426369 original size:34 final size:34
Alignment explanation
Indices: 9426327--9426398 Score: 94
Period size: 34 Copynumber: 2.1 Consensus size: 34
9426317 TGAACCCATA
* *
9426327 AACCTTGAA-CCCAAACCCTTGAAGCCCAAA-CCTG
1 AACCTTGAACCCCAAA--CTTGAAACCCAAATCCTC
9426361 AACCTTGAACCCCAAACTTGAAACCCAAATCCTC
1 AACCTTGAACCCCAAACTTGAAACCCAAATCCTC
9426395 AACC
1 AACC
9426399 CTAAATCTCG
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 12 0.35
34 16 0.47
35 6 0.18
ACGTcount: A:0.38, C:0.39, G:0.08, T:0.15
Consensus pattern (34 bp):
AACCTTGAACCCCAAACTTGAAACCCAAATCCTC
Found at i:9436053 original size:3 final size:3
Alignment explanation
Indices: 9436045--9436100 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
9436035 ATCACATGTT
9436045 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9436093 TTA TTA TT
1 TTA TTA TT
9436101 TGGATGTAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9436182 original size:72 final size:72
Alignment explanation
Indices: 9436101--9436284 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
9436091 TATTATTATT
9436101 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
9436166 TTTTAAG
66 TTTTAAG
9436173 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
9436238 TTTTAAG
66 TTTTAAG
*
9436245 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
9436285 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:9440510 original size:3 final size:3
Alignment explanation
Indices: 9440502--9440551 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
9440492 ATCACATGTT
9440502 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
9440550 TT
1 TT
9440552 TGGATGTAAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:9440629 original size:72 final size:72
Alignment explanation
Indices: 9440552--9440735 Score: 359
Period size: 72 Copynumber: 2.6 Consensus size: 72
9440542 TATTATTATT
9440552 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
9440617 TTTTAAG
66 TTTTAAG
9440624 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
9440689 TTTTAAG
66 TTTTAAG
*
9440696 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTT
9440736 GTCAAGTTGT
Statistics
Matches: 111, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 111 1.00
ACGTcount: A:0.28, C:0.07, G:0.24, T:0.42
Consensus pattern (72 bp):
TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGTAGTAGGTGGTGATTTA
TTTTAAG
Found at i:9445960 original size:12 final size:12
Alignment explanation
Indices: 9445939--9446028 Score: 52
Period size: 12 Copynumber: 8.0 Consensus size: 12
9445929 ACATATGGCA
9445939 AAAAATTATAAAT
1 AAAAA-TATAAAT
9445952 AAAAATATAAAT
1 AAAAATATAAAT
* *
9445964 AAAAAAAT-TAT
1 AAAAATATAAAT
9445975 AAAAA-AT--AT
1 AAAAATATAAAT
* *
9445984 -TAAATATTAAT
1 AAAAATATAAAT
*
9445995 AAAAATAT--TT
1 AAAAATATAAAT
*
9446005 AAAATTATAAA-
1 AAAAATATAAAT
9446016 AAAAATTATAAAT
1 AAAAA-TATAAAT
9446029 TTTATAAAAA
Statistics
Matches: 61, Mismatches: 8, Indels: 16
0.72 0.09 0.19
Matches are distributed among these distances:
8 3 0.05
9 4 0.07
10 10 0.16
11 13 0.21
12 26 0.43
13 5 0.08
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAAATATAAAT
Found at i:9445973 original size:27 final size:25
Alignment explanation
Indices: 9445938--9445989 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 25
9445928 GACATATGGC
9445938 AAAAAATTATAAATAAAAATATAAATA
1 AAAAAATTATAAA-AAAAAT-TAAATA
*
9445965 AAAAAATTATAAAAAATATTAAATA
1 AAAAAATTATAAAAAAAATTAAATA
9445990 TTAATAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 6 0.25
26 5 0.21
27 13 0.54
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (25 bp):
AAAAAATTATAAAAAAAATTAAATA
Found at i:9445988 original size:37 final size:38
Alignment explanation
Indices: 9445938--9446023 Score: 61
Period size: 37 Copynumber: 2.3 Consensus size: 38
9445928 GACATATGGC
* * *
9445938 AAAAAAT-TATAAATAAAAATATAAATAAAAAAATTATA-
1 AAAAAATAT-TAAATAAAAATAAAAATATAAAAAAT-TAT
** **
9445976 AAAAA-TATTAAATATTAATAAAAATATTTAAAATTAT
1 AAAAAATATTAAATAAAAATAAAAATATAAAAAATTAT
*
9446013 AAAAAAAATTA
1 AAAAAATATTA
9446024 TAAATTTTAT
Statistics
Matches: 37, Mismatches: 8, Indels: 6
0.73 0.16 0.12
Matches are distributed among these distances:
36 2 0.05
37 25 0.68
38 10 0.27
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (38 bp):
AAAAAATATTAAATAAAAATAAAAATATAAAAAATTAT
Found at i:9445998 original size:19 final size:18
Alignment explanation
Indices: 9445967--9446017 Score: 68
Period size: 20 Copynumber: 2.7 Consensus size: 18
9445957 TATAAATAAA
9445967 AAAATTATAAAAA-ATATT
1 AAAATTATAAAAATAT-TT
9445985 AAATATTAATAAAAATATTT
1 AAA-ATT-ATAAAAATATTT
9446005 AAAATTATAAAAA
1 AAAATTATAAAAA
9446018 AAATTATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 10 0.33
19 6 0.20
20 12 0.40
21 2 0.07
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATTATAAAAATATTT
Found at i:9446018 original size:19 final size:20
Alignment explanation
Indices: 9445970--9446038 Score: 81
Period size: 19 Copynumber: 3.5 Consensus size: 20
9445960 AAATAAAAAA
9445970 ATTATAAAAAATA-TTAAAT
1 ATTATAAAAAATATTTAAAT
9445989 ATTA-ATAAAAATATTTAAA-
1 ATTATA-AAAAATATTTAAAT
*
9446008 ATTATAAAAAAAATTATAAAT
1 ATTATAAAAAATATT-TAAAT
*
9446029 TTTATAAAAA
1 ATTATAAAAA
9446039 TTATAAATTG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
18 1 0.02
19 23 0.53
20 10 0.23
21 9 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATTATAAAAAATATTTAAAT
Found at i:9446056 original size:18 final size:18
Alignment explanation
Indices: 9446016--9446057 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
9446006 AAATTATAAA
**
9446016 AAAAATTATAAATTTTAT
1 AAAAATTATAAATTGCAT
9446034 AAAAATTATAAATTGCAT
1 AAAAATTATAAATTGCAT
9446052 CAAAAA
1 -AAAAA
9446058 GACCATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 16 0.76
19 5 0.24
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (18 bp):
AAAAATTATAAATTGCAT
Found at i:9446343 original size:11 final size:11
Alignment explanation
Indices: 9446327--9446363 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
9446317 TATATTTTAT
9446327 ATTTTTTTACA
1 ATTTTTTTACA
*
9446338 ATTTTTTTATA
1 ATTTTTTTACA
9446349 A-TTTTTTACA
1 ATTTTTTTACA
9446359 ATTTT
1 ATTTT
9446364 ATACTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.27, C:0.05, G:0.00, T:0.68
Consensus pattern (11 bp):
ATTTTTTTACA
Found at i:9446347 original size:21 final size:21
Alignment explanation
Indices: 9446321--9446363 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
9446311 TTTCTATATA
*
9446321 TTTTATATTTTTTTACAATTT
1 TTTTATAATTTTTTACAATTT
9446342 TTTTATAATTTTTTACAATTT
1 TTTTATAATTTTTTACAATTT
9446363 T
1 T
9446364 ATACTTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.70
Consensus pattern (21 bp):
TTTTATAATTTTTTACAATTT
Found at i:9446352 original size:29 final size:29
Alignment explanation
Indices: 9446265--9446459 Score: 105
Period size: 29 Copynumber: 6.8 Consensus size: 29
9446255 TTTGTATTTC
* * ** *
9446265 TTTACATA-TTTTATAATTTTCTTACGAC
1 TTTATATATTTTTATAATTTTTTTATAAT
* * * *
9446293 TTTATAAAATTTTAT-ATATTTCTATATAT
1 TTTATATATTTTTATAATTTTTTTATA-AT
* *
9446322 TTTATATTTTTTTACAATTTTTTTATAAT
1 TTTATATATTTTTATAATTTTTTTATAAT
* * * *
9446351 TTTTTACAATTTTATACTTTTTTCTA-AAT
1 TTTATATATTTTTATAATTTTTT-TATAAT
* *
9446380 TTTAAATATTTTTATAGTTTTTTT-TAAT
1 TTTATATATTTTTATAATTTTTTTATAAT
* * * *
9446408 TTAATATTTTTTTATAAATTTTATTGAT-TT
1 TTTATATATTTTTAT-AATTTT-TTTATAAT
* *
9446438 TTTTTAT-TTTTTATCATTTTTT
1 TTTATATATTTTTATAATTTTTT
9446460 GCCACATGCC
Statistics
Matches: 125, Mismatches: 34, Indels: 17
0.71 0.19 0.10
Matches are distributed among these distances:
27 2 0.02
28 33 0.26
29 70 0.56
30 19 0.15
31 1 0.01
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (29 bp):
TTTATATATTTTTATAATTTTTTTATAAT
Found at i:9446352 original size:48 final size:49
Alignment explanation
Indices: 9446233--9446353 Score: 122
Period size: 48 Copynumber: 2.5 Consensus size: 49
9446223 AGTACGATAA
* * *
9446233 TTTTTATAATTTTTTTATGAATTTTGTATTTCTTTACATATTTTATAATT
1 TTTTTACAATTTTTTTAT-AATTTTATATTTCTCTACATATTTTATAATT
* * * * * *
9446283 TTCTTACGA-CTTTATAAAATTTTATATATT-TCTATATATTTTAT-ATT
1 TTTTTACAATTTTTTTATAATTTTATAT-TTCTCTACATATTTTATAATT
9446330 TTTTTACAATTTTTTTATAATTTT
1 TTTTTACAATTTTTTTATAATTTT
9446354 TTACAATTTT
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
47 10 0.18
48 32 0.58
49 7 0.13
50 6 0.11
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (49 bp):
TTTTTACAATTTTTTTATAATTTTATATTTCTCTACATATTTTATAATT
Found at i:9446361 original size:10 final size:10
Alignment explanation
Indices: 9446329--9446363 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
9446319 TATTTTATAT
9446329 TTTTTTACAA
1 TTTTTTACAA
*
9446339 TTTTTTTATAA
1 -TTTTTTACAA
9446350 TTTTTTACAA
1 TTTTTTACAA
9446360 TTTT
1 TTTT
9446364 ATACTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 13 0.59
11 9 0.41
ACGTcount: A:0.26, C:0.06, G:0.00, T:0.69
Consensus pattern (10 bp):
TTTTTTACAA
Found at i:9446401 original size:47 final size:48
Alignment explanation
Indices: 9446331--9446430 Score: 130
Period size: 47 Copynumber: 2.1 Consensus size: 48
9446321 TTTTATATTT
* * *
9446331 TTTTACAATTTTTTTATAATTTTTTACAATTTTATACTTTTTTCTAAA
1 TTTTACAATATTTTTATAATTTTTTACAATTTAATACTTTTTTATAAA
* ** *
9446379 TTTTA-AATATTTTTATAGTTTTTTTTAATTTAATATTTTTTTATAAA
1 TTTTACAATATTTTTATAATTTTTTACAATTTAATACTTTTTTATAAA
9446426 TTTTA
1 TTTTA
9446431 TTGATTTTTT
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 40 0.89
48 5 0.11
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (48 bp):
TTTTACAATATTTTTATAATTTTTTACAATTTAATACTTTTTTATAAA
Found at i:9446448 original size:47 final size:45
Alignment explanation
Indices: 9446331--9446450 Score: 114
Period size: 47 Copynumber: 2.5 Consensus size: 45
9446321 TTTTATATTT
* *
9446331 TTTTACAATTTTTTTATAATTTTTTACAATTTTATACTTTTTTCTAAA
1 TTTTA-AATTTTTTT-T-ATTTTTTACAATTTAATACTTTTTTATAAA
* ** *
9446379 TTTTAAATATTTTTATAGTTTTTTTTAATTTAATATTTTTTTATAAA
1 TTTTAAAT-TTTTTTTA-TTTTTTACAATTTAATACTTTTTTATAAA
*
9446426 TTTTATTGATTTTTTTTATTTTTTA
1 TTTTA--AATTTTTTTTATTTTTTA
9446451 TCATTTTTTG
Statistics
Matches: 59, Mismatches: 9, Indels: 9
0.77 0.12 0.12
Matches are distributed among these distances:
46 1 0.02
47 39 0.66
48 17 0.29
49 2 0.03
ACGTcount: A:0.28, C:0.03, G:0.02, T:0.68
Consensus pattern (45 bp):
TTTTAAATTTTTTTTATTTTTTACAATTTAATACTTTTTTATAAA
Found at i:9446469 original size:7 final size:7
Alignment explanation
Indices: 9446459--9446486 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
9446449 TATCATTTTT
9446459 TGCCACA
1 TGCCACA
9446466 TGCCACA
1 TGCCACA
9446473 TGCCACA
1 TGCCACA
9446480 TGCCACA
1 TGCCACA
9446487 CTATGGTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.29, C:0.43, G:0.14, T:0.14
Consensus pattern (7 bp):
TGCCACA
Found at i:9448583 original size:30 final size:30
Alignment explanation
Indices: 9448547--9448637 Score: 155
Period size: 30 Copynumber: 3.0 Consensus size: 30
9448537 TTTCCTTTAC
* *
9448547 ATAACAAACAAACTTATTTTTATGACTTAT
1 ATAACAAACAAACTTACTTTTATGACTCAT
9448577 ATAACAAACAAACTTACTTTTATGACTCAT
1 ATAACAAACAAACTTACTTTTATGACTCAT
*
9448607 ATAAGAAACAAACTTACTTTTATGACTCAT
1 ATAACAAACAAACTTACTTTTATGACTCAT
9448637 A
1 A
9448638 CAAAATAGTG
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 58 1.00
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.35
Consensus pattern (30 bp):
ATAACAAACAAACTTACTTTTATGACTCAT
Found at i:9450039 original size:30 final size:30
Alignment explanation
Indices: 9450003--9450060 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
9449993 TCCGAACTTT
9450003 GGGGTAAAAGTGTAATTATGCAAAAGTTTA
1 GGGGTAAAAGTGTAATTATGCAAAAGTTTA
* * *
9450033 GGGGTAAAATTGTAATTTTTCAAAAGTT
1 GGGGTAAAAGTGTAATTATGCAAAAGTT
9450061 CGAGTCAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.38, C:0.03, G:0.24, T:0.34
Consensus pattern (30 bp):
GGGGTAAAAGTGTAATTATGCAAAAGTTTA
Found at i:9450503 original size:50 final size:49
Alignment explanation
Indices: 9450449--9450641 Score: 172
Period size: 50 Copynumber: 3.9 Consensus size: 49
9450439 ATTGAGATTG
* * * *
9450449 TGAGAGGTCTCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGA
1 TGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA-CGACA
** * *
9450499 TGAGAGGTCCCCCGTAAGACCATGTCTAGGACATGGCATGGGCACTGATA
1 TGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCAC-GACA
** ** * *
9450549 TGAGAACTCCCATGTAAGACCACATATAGGATATGGCATTGGCA-GTACA
1 TGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACG-ACA
* * ** * *
9450598 AGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 TGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA
9450642 TGTTATTATC
Statistics
Matches: 114, Mismatches: 27, Indels: 5
0.78 0.18 0.03
Matches are distributed among these distances:
48 1 0.01
49 37 0.32
50 76 0.67
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.22
Consensus pattern (49 bp):
TGAGAGGTCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACGACA
Found at i:9456110 original size:22 final size:22
Alignment explanation
Indices: 9456076--9456120 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
9456066 AATAATAACG
*
9456076 AAATTATTTTTATTTTATAAAAT
1 AAATTATTATTATTTTA-AAAAT
9456099 AAATTA-TATTATTTTAAAAAT
1 AAATTATTATTATTTTAAAAAT
9456120 A
1 A
9456121 TTTTTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 9 0.43
23 6 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAATTATTATTATTTTAAAAAT
Found at i:9456933 original size:12 final size:12
Alignment explanation
Indices: 9456916--9456940 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
9456906 AGTAATACAT
9456916 TAATATGTATTA
1 TAATATGTATTA
9456928 TAATATGTATTA
1 TAATATGTATTA
9456940 T
1 T
9456941 TAGGGGCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TAATATGTATTA
Found at i:9470948 original size:5 final size:5
Alignment explanation
Indices: 9470938--9470963 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
9470928 CGCCTAAAAC
9470938 CCTTT CCTTT CCTTT CCTTT CCTTT C
1 CCTTT CCTTT CCTTT CCTTT CCTTT C
9470964 TTTTACGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (5 bp):
CCTTT
Found at i:9473631 original size:21 final size:21
Alignment explanation
Indices: 9473605--9473659 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
9473595 ATAGCGGCGG
*
9473605 CGGTGAGATTAGTTACTATAA
1 CGGTGAGATTAGATACTATAA
*
9473626 CGGTGAGATTAGATACTATAG
1 CGGTGAGATTAGATACTATAA
9473647 CGGTGAGATTAGA
1 CGGTGAGATTAGA
9473660 AACAACGGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (21 bp):
CGGTGAGATTAGATACTATAA
Found at i:9476159 original size:21 final size:21
Alignment explanation
Indices: 9476135--9476174 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9476125 TTTGCCTAAG
* *
9476135 ATGTGAATTGGATTGAATTGA
1 ATGTAAATTGGATTAAATTGA
*
9476156 ATGTAAATTGTATTAAATT
1 ATGTAAATTGGATTAAATT
9476175 TATGTTAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (21 bp):
ATGTAAATTGGATTAAATTGA
Found at i:9476767 original size:24 final size:24
Alignment explanation
Indices: 9476730--9476803 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
9476720 TATATGGCTA
* *
9476730 TTCGGTGCTTCCCGTTAAGTGCTC
1 TTCGGAGCTACCCGTTAAGTGCTC
*
9476754 TTCGGAGCTACCCGTTAATTGCTC
1 TTCGGAGCTACCCGTTAAGTGCTC
*
9476778 TTTGGAGCTACCCGTTATAG-GCTC
1 TTCGGAGCTACCCGTTA-AGTGCTC
9476802 TT
1 TT
9476804 TGTGAGCTTC
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
24 43 0.98
25 1 0.02
ACGTcount: A:0.14, C:0.27, G:0.23, T:0.36
Consensus pattern (24 bp):
TTCGGAGCTACCCGTTAAGTGCTC
Found at i:9476795 original size:73 final size:75
Alignment explanation
Indices: 9476640--9476813 Score: 171
Period size: 73 Copynumber: 2.4 Consensus size: 75
9476630 TTATGAGTGT
* * * *
9476640 CCCGTTATATGGCTCTTCGTGAGCTTTCCGATTAAAGGCTCTTTGTGAGCTTCCCGTTAGTGCTC
1 CCCGTTATATGGCTATTCGTGAGCTTCCCGATTAAAGGCTCTTCGTGAGCTACCCGTTAGTGCTC
*
9476705 GCTTGAACTT
66 GCTTGAACTA
* * *
9476715 CCAGTTATATGGCTATTCG-GTGCTTCCCG-TT-AAGTGCTCTTCG-GAGCTACCCGTTAATTGC
1 CCCGTTATATGGCTATTCGTGAGCTTCCCGATTAAAG-GCTCTTCGTGAGCTACCCGTT-AGTGC
* *
9476776 TC-TTTGGAGCTA
64 TCGCTT-GAACTA
* *
9476788 CCCGTTATA-GGCTCTTTGTGAGCTTC
1 CCCGTTATATGGCTATTCGTGAGCTTC
9476814 TCGTTATATT
Statistics
Matches: 81, Mismatches: 14, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
72 23 0.28
73 33 0.41
74 8 0.10
75 17 0.21
ACGTcount: A:0.15, C:0.25, G:0.23, T:0.37
Consensus pattern (75 bp):
CCCGTTATATGGCTATTCGTGAGCTTCCCGATTAAAGGCTCTTCGTGAGCTACCCGTTAGTGCTC
GCTTGAACTA
Found at i:9476804 original size:24 final size:23
Alignment explanation
Indices: 9476740--9476811 Score: 90
Period size: 24 Copynumber: 3.0 Consensus size: 23
9476730 TTCGGTGCTT
*
9476740 CCCGTTAAGTGCTCTTCGGAGCTA
1 CCCGTTAAG-GCTCTTTGGAGCTA
*
9476764 CCCGTTAATTGCTCTTTGGAGCTA
1 CCCGTTAA-GGCTCTTTGGAGCTA
9476788 CCCGTTATAGGCTCTTTGTGAGCT
1 CCCGTTA-AGGCTCTTTG-GAGCT
9476812 TCTCGTTATA
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
24 36 0.86
25 6 0.14
ACGTcount: A:0.15, C:0.26, G:0.24, T:0.35
Consensus pattern (23 bp):
CCCGTTAAGGCTCTTTGGAGCTA
Found at i:9478484 original size:36 final size:37
Alignment explanation
Indices: 9478444--9478519 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 37
9478434 TGAAACATAG
* *
9478444 AAAATATATAAAA-GTATGTGTATATATATAT-TTATA
1 AAAAT-TAAAAAATGTATATGTATATATATATATTATA
* *
9478480 AAAATTAAAAAATGTGTATGTATATGTATATATTATA
1 AAAATTAAAAAATGTATATGTATATATATATATTATA
9478517 AAA
1 AAA
9478520 CGTATGTATG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
35 6 0.18
36 20 0.59
37 8 0.24
ACGTcount: A:0.51, C:0.00, G:0.09, T:0.39
Consensus pattern (37 bp):
AAAATTAAAAAATGTATATGTATATATATATATTATA
Found at i:9479077 original size:23 final size:24
Alignment explanation
Indices: 9479047--9479093 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
9479037 AAATTAAATC
9479047 TCTAAGATTACA-AAATCATATCT
1 TCTAAGATTACATAAATCATATCT
* *
9479070 TCTAAGATTGCATATATCATATCT
1 TCTAAGATTACATAAATCATATCT
9479094 AAGATTGCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.38
Consensus pattern (24 bp):
TCTAAGATTACATAAATCATATCT
Found at i:9483034 original size:15 final size:14
Alignment explanation
Indices: 9483009--9483043 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
9482999 ATTAATGGTG
9483009 ATTAAGTTTAATTA
1 ATTAAGTTTAATTA
9483023 ATTAAGGTTTAATTA
1 ATTAA-GTTTAATTA
9483038 AGTTAA
1 A-TTAA
9483044 ATAAGTAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 10 0.53
16 4 0.21
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (14 bp):
ATTAAGTTTAATTA
Found at i:9485134 original size:22 final size:22
Alignment explanation
Indices: 9485104--9485146 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
9485094 ACACTAAAAC
*
9485104 AGGCTTTTAGCGGCGCTTTTTT
1 AGGCCTTTAGCGGCGCTTTTTT
*
9485126 AGGCCTTTAGCGGCTCTTTTT
1 AGGCCTTTAGCGGCGCTTTTT
9485147 AGCGCTGCAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.09, C:0.21, G:0.26, T:0.44
Consensus pattern (22 bp):
AGGCCTTTAGCGGCGCTTTTTT
Found at i:9485278 original size:43 final size:44
Alignment explanation
Indices: 9485247--9485373 Score: 184
Period size: 44 Copynumber: 2.9 Consensus size: 44
9485237 TGCTTCTAGC
* * *
9485247 ACAAACGCCGCTAAAGATCAGGGTCTTTAGCGGCG-TTTTTGCG
1 ACAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGCTTTTTGCA
* * *
9485290 AGAAGCGCCGCTAAAGATAATGGTCTTTAGCGGCGTTTTTTGCA
1 ACAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGCTTTTTGCA
*
9485334 ACAAGCGCCGCTAAAGATTAGGGTCTTTAGCGGCGCTTTT
1 ACAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGCTTTT
9485374 CCCTAAAACG
Statistics
Matches: 74, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
43 31 0.42
44 43 0.58
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (44 bp):
ACAAGCGCCGCTAAAGATAAGGGTCTTTAGCGGCGCTTTTTGCA
Found at i:9485563 original size:86 final size:86
Alignment explanation
Indices: 9485357--9485564 Score: 254
Period size: 86 Copynumber: 2.4 Consensus size: 86
9485347 AAGATTAGGG
* * *
9485357 TCTTTAGCGGCGCTTTTCCCTAAAACGCCGCAAAAGACCCTGATCTATAGCGGCGCTTCGACCAC
1 TCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCATGATCTATAGCGGCGCTTCGACCAC
*
9485422 AAACGCCACTAAAAAACCTAA
66 AAACGCCACGAAAAAACCTAA
* * * * *** *
9485443 TCTTTAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGATCTTTAGGGGCGCTTTTTCCGC
1 TCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCATGATCTATAGCGGCGCTTCGACCAC
* * * *
9485508 AAACGCCGCGAAAGACCCTTA
66 AAACGCCACGAAAAAACCTAA
* *
9485529 TCTTTAGCGGCGCTTTTACCAAAAACGCCACTAAAG
1 TCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAG
9485565 GCCAACACCT
Statistics
Matches: 102, Mismatches: 20, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
86 102 1.00
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.22
Consensus pattern (86 bp):
TCTTTAGCGGCGCTTTTCCCAAAAACGCCGCTAAAGACCATGATCTATAGCGGCGCTTCGACCAC
AAACGCCACGAAAAAACCTAA
Found at i:9485578 original size:43 final size:43
Alignment explanation
Indices: 9485231--9485564 Score: 202
Period size: 43 Copynumber: 7.7 Consensus size: 43
9485221 TGTTCGTCTA
* * * * * * * *
9485231 TAGCGGTGCTTCTAGCACAAACGCCGCTAAAGATCAGGGTCTT
1 TAGCGGCGCTTTTACCAAAAACGCCACTAAAGACCATGATCTT
* * * * * * ** *
9485274 TAGCGGCGTTTTTGCGAGAAGCGCCGCTAAAGATAATGGTCTT
1 TAGCGGCGCTTTTACCAAAAACGCCACTAAAGACCATGATCTT
* ** * * ** * *
9485317 TAGCGGCGTTTTTTGCAACAAGCGCCGCTAAAGATTAGGGTCTT
1 TAGCGGCGCTTTTACCAA-AAACGCCACTAAAGACCATGATCTT
* * * * * *
9485361 TAGCGGCGCTTTTCCCTAAAACGCCGCAAAAGACCCTGATCTA
1 TAGCGGCGCTTTTACCAAAAACGCCACTAAAGACCATGATCTT
** * * *
9485404 TAGCGGCGCTTCGACCACAAACGCCACTAAAAAACC-TAATCTT
1 TAGCGGCGCTTTTACCAAAAACGCCACT-AAAGACCATGATCTT
** * *
9485447 TAGCGGCGCTTTCCCCACAAACGCCGCTAAAGACCATGATCTT
1 TAGCGGCGCTTTTACCAAAAACGCCACTAAAGACCATGATCTT
* * ** * * * *
9485490 TAGGGGCGCTTTTTCCGCAAACGCCGCGAAAGACCCTTATCTT
1 TAGCGGCGCTTTTACCAAAAACGCCACTAAAGACCATGATCTT
9485533 TAGCGGCGCTTTTACCAAAAACGCCACTAAAG
1 TAGCGGCGCTTTTACCAAAAACGCCACTAAAG
9485565 GCCAACACCT
Statistics
Matches: 231, Mismatches: 57, Indels: 6
0.79 0.19 0.02
Matches are distributed among these distances:
42 6 0.03
43 182 0.79
44 43 0.19
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (43 bp):
TAGCGGCGCTTTTACCAAAAACGCCACTAAAGACCATGATCTT
Found at i:9485974 original size:21 final size:21
Alignment explanation
Indices: 9485915--9485985 Score: 79
Period size: 21 Copynumber: 3.4 Consensus size: 21
9485905 TTTGACGCTG
* *
9485915 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCTCTCGCTGCCGC
* * *
9485936 CTTTACTTCTCTCACTGCCGC
1 CTCTGCTTCTCTCGCTGCCGC
*
9485957 CTCTGCTTCTCTTGCTGCCGC
1 CTCTGCTTCTCTCGCTGCCGC
*
9485978 ATCTGCTT
1 CTCTGCTT
9485986 TAAGCTGCTG
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 40 1.00
ACGTcount: A:0.06, C:0.42, G:0.15, T:0.37
Consensus pattern (21 bp):
CTCTGCTTCTCTCGCTGCCGC
Found at i:9486033 original size:66 final size:66
Alignment explanation
Indices: 9485956--9486102 Score: 210
Period size: 66 Copynumber: 2.2 Consensus size: 66
9485946 CTCACTGCCG
* *
9485956 CCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCT-GCTGGAGTTCTTCATA-CTTTCATT
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTG-TAGCTGGAGTTCTTCATATCTTT--TT
9486019 -GAA
63 CGAA
* *
9486022 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTTTTCGA
1 CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTTTCGA
9486087 A
66 A
9486088 CCTCAGCTTCTCTCG
1 CCTCAGCTTCTCTCG
9486103 ATGTTGCCTC
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
65 3 0.04
66 67 0.91
67 4 0.05
ACGTcount: A:0.14, C:0.29, G:0.18, T:0.39
Consensus pattern (66 bp):
CCTCAGCTTCTCTCGCTGCCGCATCTGCTTTAAGCTGTAGCTGGAGTTCTTCATATCTTTTTCGA
A
Found at i:9486118 original size:66 final size:64
Alignment explanation
Indices: 9485956--9486126 Score: 200
Period size: 66 Copynumber: 2.6 Consensus size: 64
9485946 CTCACTGCCG
* * * * * *
9485956 CCTCTGCTTCTCTTGCTGCCGCATCTGCTTTAAGCTGCTGCTGGAGTTCTTCATACTTTCATTGA
1 CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTG-TGCTGGAGTTCTTCATACTTT-ATTGA
9486021 A
64 A
* *
9486022 CCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATATCTTT-TTCG
1 CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGT-GCTGGAGTTCTTCATA-CTTTATT-G
9486086 AA
63 AA
* *
9486088 CCTCAGCTTCTCTCGATGTTGCCTCCGCTTTAAGTTGTG
1 CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTG
9486127 TAATTTGCTC
Statistics
Matches: 94, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
65 4 0.04
66 86 0.91
67 4 0.04
ACGTcount: A:0.13, C:0.28, G:0.19, T:0.40
Consensus pattern (64 bp):
CCTCAGCTTCTCTCGATGCTGCATCCGCTTTAAGTTGTGCTGGAGTTCTTCATACTTTATTGAA
Found at i:9491558 original size:9 final size:9
Alignment explanation
Indices: 9491541--9492009 Score: 151
Period size: 9 Copynumber: 53.2 Consensus size: 9
9491531 TAAGTATAAT
*
9491541 TAAGCTATG
1 TAAGTTATG
9491550 TAAGTTATG
1 TAAGTTATG
9491559 T-A-TTATG
1 TAAGTTATG
9491566 TAAGTTAT-
1 TAAGTTATG
*
9491574 TTA-TTATG
1 TAAGTTATG
* *
9491582 AAAATTATG
1 TAAGTTATG
*
9491591 TAAGTTGTG
1 TAAGTTATG
9491600 T-A-TTATG
1 TAAGTTATG
* *
9491607 AAAATTATG
1 TAAGTTATG
9491616 CT-A-TATATG
1 -TAAGT-TATG
9491625 TAAGTTATG
1 TAAGTTATG
* *
9491634 TAAGTCATA
1 TAAGTTATG
9491643 TAAGTTATG
1 TAAGTTATG
9491652 T-A-TTATG
1 TAAGTTATG
9491659 TAAGTTATG
1 TAAGTTATG
9491668 TAAGTTAT-
1 TAAGTTATG
*
9491676 TTA-TTATG
1 TAAGTTATG
* *
9491684 AAAATTAATG
1 TAAGTT-ATG
9491694 TAAGTTATG
1 TAAGTTATG
*
9491703 TAATTTATG
1 TAAGTTATG
*
9491712 -AA-TAAT-
1 TAAGTTATG
*** *
9491718 TAAAAAAAAG
1 T-AAGTTATG
9491728 TAAGTTATG
1 TAAGTTATG
9491737 TAAG-T-TG
1 TAAGTTATG
9491744 TAAGTTATG
1 TAAGTTATG
9491753 TAAGTTATG
1 TAAGTTATG
*
9491762 TATA-ATAT-
1 TA-AGTTATG
9491770 TAA-TTAAT-
1 TAAGTT-ATG
9491778 TAAGTTATG
1 TAAGTTATG
* *
9491787 CAATTTATG
1 TAAGTTATG
*
9491796 TATTGCATTAATG
1 TA-AG--TT-ATG
9491809 TAAGTTATG
1 TAAGTTATG
*
9491818 TAATTTATG
1 TAAGTTATG
9491827 AATAA-TTA--
1 --TAAGTTATG
* *** *
9491835 AAAAAAAAG
1 TAAGTTATG
9491844 TAAGTTATG
1 TAAGTTATG
9491853 TAAG-T-TG
1 TAAGTTATG
9491860 TAAGTTATG
1 TAAGTTATG
9491869 TAAGTTATG
1 TAAGTTATG
*
9491878 TATA-ATAT-
1 TA-AGTTATG
9491886 TAA-TTAAT-
1 TAAGTT-ATG
9491894 TAAGTTATG
1 TAAGTTATG
*
9491903 TAATTTATG
1 TAAGTTATG
*
9491912 TATTGCATTAATG
1 TA-AG--TT-ATG
9491925 TAAGTTATG
1 TAAGTTATG
*
9491934 TAATTTATG
1 TAAGTTATG
*
9491943 TATAATATTAATG
1 --TAA-GTT-ATG
*
9491956 CAAGTTATG
1 TAAGTTATG
*
9491965 CAAGTTATG
1 TAAGTTATG
*
9491974 TATA-ATAT-
1 TA-AGTTATG
9491982 TAA-TTAAT-
1 TAAGTT-ATG
9491990 TAAGTTATG
1 TAAGTTATG
*
9491999 TAATTTATG
1 TAAGTTATG
9492008 TA
1 TA
9492010 TAATATTAAT
Statistics
Matches: 350, Mismatches: 58, Indels: 104
0.68 0.11 0.20
Matches are distributed among these distances:
6 2 0.01
7 46 0.13
8 49 0.14
9 203 0.58
10 21 0.06
11 8 0.02
12 8 0.02
13 13 0.04
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (9 bp):
TAAGTTATG
Found at i:9491588 original size:25 final size:25
Alignment explanation
Indices: 9491560--9491719 Score: 135
Period size: 25 Copynumber: 6.2 Consensus size: 25
9491550 TAAGTTATGT
9491560 ATTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
9491585 ATTATGTAAGTTGTGTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
* *
9491610 ATTATGCT-A-TATATGTAAGTTATGTAA
1 ATTATG-TAAGT-TAT-TTA-TTATGAAA
* * * * *
9491637 GTCATATAAGTTATGTATTATGTAA
1 ATTATGTAAGTTATTTATTATGAAA
*
9491662 GTTATGTAAGTTATTTATTATGAAA
1 ATTATGTAAGTTATTTATTATGAAA
*
9491687 ATTAATGTAAGTTATGTAATTTATGAATA
1 ATT-ATGTAAGTTAT-TTA-TTATGAA-A
9491716 ATTA
1 ATTA
9491720 AAAAAAAGTA
Statistics
Matches: 108, Mismatches: 17, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
24 1 0.01
25 63 0.58
26 15 0.14
27 16 0.15
28 9 0.08
29 4 0.04
ACGTcount: A:0.38, C:0.01, G:0.15, T:0.46
Consensus pattern (25 bp):
ATTATGTAAGTTATTTATTATGAAA
Found at i:9491683 original size:16 final size:16
Alignment explanation
Indices: 9491546--9491669 Score: 109
Period size: 16 Copynumber: 7.9 Consensus size: 16
9491536 ATAATTAAGC
9491546 TATGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
9491562 TATGTAAGTTATTTAT
1 TATGTAAGTTATGTAT
9491578 TATG-AA---A---AT
1 TATGTAAGTTATGTAT
*
9491587 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* *
9491603 TATGAAAATTATGCTAT
1 TATGTAAGTTATG-TAT
9491620 ATATGTAAGTTATGTAAGT
1 -TATGTAAGTTATGT-A-T
* *
9491639 CATATAAGTTATGTAT
1 TATGTAAGTTATGTAT
9491655 TATGTAAGTTATGTA
1 TATGTAAGTTATGTA
9491670 AGTTATTTAT
Statistics
Matches: 86, Mismatches: 11, Indels: 22
0.72 0.09 0.18
Matches are distributed among these distances:
9 6 0.07
10 2 0.02
12 1 0.01
15 2 0.02
16 45 0.52
17 5 0.06
18 24 0.28
19 1 0.01
ACGTcount: A:0.35, C:0.02, G:0.17, T:0.46
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:9491748 original size:16 final size:16
Alignment explanation
Indices: 9491727--9491758 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9491717 TTAAAAAAAA
9491727 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
9491743 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
9491759 ATGTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (16 bp):
GTAAGTTATGTAAGTT
Found at i:9491816 original size:31 final size:31
Alignment explanation
Indices: 9491656--9492156 Score: 289
Period size: 31 Copynumber: 16.5 Consensus size: 31
9491646 GTTATGTATT
* *
9491656 ATGTAAGTTATGTAAGTTATTTATTATGAAAATTA
1 ATGTAAGTTATGTAATTTATGTA-T-T--AAATTA
**
9491691 ATGTAAGTTATGTAATTTATGAATAATTAAAAAA
1 ATGTAAGTTATGTAATTTATG--T-ATTAAATTA
* * *
9491725 AAGTAAGTTATGTAA-GT-TG---TAAGTT-
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
*
9491750 ATGTAAGTTATGT-A--TA-ATATT-AATTA
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
* **
9491776 AT-TAAGTTATGCAATTTATGTATTGCATTA
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
**
9491806 ATGTAAGTTATGTAATTTATGAATAATTAAAAAAA
1 ATGTAAGTTATGTAATTTATG--T-ATT-AAATTA
* * *
9491841 AAGTAAGTTATGTAA-GT-TG---TAAGTT-
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
*
9491866 ATGTAAGTTATGT-A--TA-ATATT-AATTA
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
**
9491892 AT-TAAGTTATGTAATTTATGTATTGCATTA
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
9491922 ATGTAAGTTATGTAATTTATGTA-TAATATTA
1 ATGTAAGTTATGTAATTTATGTATTAA-ATTA
* * *
9491953 ATGCAAGTTATGCAAGTTATGTATAATATTAATTA
1 ATGTAAGTTATGTAATTTATGTAT--TA--AATTA
9491988 AT-TAAGTTATGTAATTTATGTATAATATTAATTA
1 ATGTAAGTTATGTAATTTATGTAT--TA--AATTA
*
9492022 AT-TAATATTAATGTAATTTATGTA-TAATATTA
1 ATGTAA-GTT-ATGTAATTTATGTATTAA-ATTA
*** *
9492054 ATGTAAGTTATGTAATTCCGGTGTT---TTA
1 ATGTAAGTTATGTAATTTATGTATTAAATTA
9492082 AT-TAA-TTATGTAATTTATGTA-TAATATTA
1 ATGTAAGTTATGTAATTTATGTATTAA-ATTA
9492111 ATGTAAGTTATGTAATTTATGT-TTAATATTA
1 ATGTAAGTTATGTAATTTATGTATTAA-ATTA
9492142 ATGTAAGTTATGTAA
1 ATGTAAGTTATGTAA
9492157 GTTGTAAGTT
Statistics
Matches: 371, Mismatches: 48, Indels: 98
0.72 0.09 0.19
Matches are distributed among these distances:
23 2 0.01
24 2 0.01
25 50 0.13
26 25 0.07
27 4 0.01
28 9 0.02
29 13 0.04
30 16 0.04
31 110 0.30
32 11 0.03
33 9 0.02
34 58 0.16
35 43 0.12
36 16 0.04
37 2 0.01
38 1 0.00
ACGTcount: A:0.40, C:0.01, G:0.14, T:0.45
Consensus pattern (31 bp):
ATGTAAGTTATGTAATTTATGTATTAAATTA
Found at i:9491864 original size:16 final size:16
Alignment explanation
Indices: 9491843--9491874 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
9491833 TAAAAAAAAA
9491843 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
9491859 GTAAGTTATGTAAGTT
1 GTAAGTTATGTAAGTT
9491875 ATGTATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (16 bp):
GTAAGTTATGTAAGTT
Found at i:9491885 original size:116 final size:115
Alignment explanation
Indices: 9491687--9491948 Score: 497
Period size: 116 Copynumber: 2.3 Consensus size: 115
9491677 TATTATGAAA
9491687 ATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAAAGTAAGTTATGTAAGTTGTAAGTTAT
1 ATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAAAGTAAGTTATGTAAGTTGTAAGTTAT
9491752 GTAAGTTATGTATAATATTAATTAATTAAGTTATGCAATTTATGTATTGC
66 GTAAGTTATGTATAATATTAATTAATTAAGTTATGCAATTTATGTATTGC
9491802 ATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAAAAGTAAGTTATGTAAGTTGTAAGTTA
1 ATTAATGTAAGTTATGTAATTTATGAATAATT-AAAAAAAAGTAAGTTATGTAAGTTGTAAGTTA
*
9491867 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGTAATTTATGTATTGC
65 TGTAAGTTATGTATAATATTAATTAATTAAGTTATGCAATTTATGTATTGC
*
9491918 ATTAATGTAAGTTATGTAATTTATGTATAAT
1 ATTAATGTAAGTTATGTAATTTATGAATAAT
9491949 ATTAATGCAA
Statistics
Matches: 144, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
115 32 0.22
116 112 0.78
ACGTcount: A:0.41, C:0.01, G:0.15, T:0.44
Consensus pattern (115 bp):
ATTAATGTAAGTTATGTAATTTATGAATAATTAAAAAAAAGTAAGTTATGTAAGTTGTAAGTTAT
GTAAGTTATGTATAATATTAATTAATTAAGTTATGCAATTTATGTATTGC
Found at i:9492029 original size:14 final size:14
Alignment explanation
Indices: 9491976--9492039 Score: 56
Period size: 14 Copynumber: 4.1 Consensus size: 14
9491966 AAGTTATGTA
9491976 TAATATTAATTAAT
1 TAATATTAATTAAT
*
9491990 TAAGTTATGTAATTTATGT
1 TAA--TAT-TAA-TTA-AT
9492009 ATAATATTAATTAAT
1 -TAATATTAATTAAT
9492024 TAATATTAATGTAAT
1 TAATATTAAT-TAAT
9492039 T
1 T
9492040 TATGTATAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 13
0.73 0.04 0.23
Matches are distributed among these distances:
14 13 0.32
15 6 0.15
16 6 0.15
17 6 0.15
18 6 0.15
19 1 0.02
20 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (14 bp):
TAATATTAATTAAT
Found at i:9492052 original size:22 final size:22
Alignment explanation
Indices: 9492024--9492067 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9492014 ATTAATTAAT
*
9492024 TAATATTAATGTAATTTATGTA
1 TAATATTAATGTAAGTTATGTA
9492046 TAATATTAATGTAAGTTATGTA
1 TAATATTAATGTAAGTTATGTA
9492068 ATTCCGGTGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (22 bp):
TAATATTAATGTAAGTTATGTA
Found at i:9492125 original size:9 final size:9
Alignment explanation
Indices: 9492111--9492210 Score: 68
Period size: 9 Copynumber: 11.1 Consensus size: 9
9492101 TATAATATTA
9492111 ATGTAAGTT
1 ATGTAAGTT
*
9492120 ATGTAATTT
1 ATGTAAGTT
*
9492129 ATGTTTAATATT
1 ATG--TAA-GTT
9492141 AATGTAAGTT
1 -ATGTAAGTT
9492151 ATGTAAG-T
1 ATGTAAGTT
9492159 -TGTAAGTT
1 ATGTAAGTT
9492167 ATGTAAGTT
1 ATGTAAGTT
* *
9492176 ATATATA-AT
1 ATGTA-AGTT
9492185 AT-TAA-TT
1 ATGTAAGTT
9492192 AAT-TAAGTT
1 -ATGTAAGTT
9492201 ATGTAAGTT
1 ATGTAAGTT
9492210 A
1 A
9492211 ACTATTTTAA
Statistics
Matches: 75, Mismatches: 6, Indels: 20
0.74 0.06 0.20
Matches are distributed among these distances:
7 8 0.11
8 11 0.15
9 42 0.56
10 3 0.04
11 6 0.08
12 2 0.03
13 3 0.04
ACGTcount: A:0.38, C:0.00, G:0.15, T:0.47
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:9492164 original size:16 final size:16
Alignment explanation
Indices: 9492143--9492175 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9492133 TTAATATTAA
9492143 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
9492159 TGTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGT
9492175 T
1 T
9492176 ATATATAATA
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:0.30, C:0.00, G:0.24, T:0.45
Consensus pattern (16 bp):
TGTAAGTTATGTAAGT
Found at i:9492164 original size:47 final size:49
Alignment explanation
Indices: 9492112--9492209 Score: 137
Period size: 47 Copynumber: 2.0 Consensus size: 49
9492102 ATAATATTAA
* * *
9492112 TGTAAGTTATGTAATTTATGTTTAATATTAA-T-GTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATATATAATATTAATTAGTAAGTTATGTAAGT
*
9492159 TGTAAGTTATGTAAGTTATATATAATATTAATTAATTAAGTTATGTAAGT
1 TGTAAGTTATGTAAGTTATATATAATATTAATT-AGTAAGTTATGTAAGT
9492209 T
1 T
9492210 AACTATTTTA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
47 28 0.64
48 1 0.02
50 15 0.34
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (49 bp):
TGTAAGTTATGTAAGTTATATATAATATTAATTAGTAAGTTATGTAAGT
Found at i:9492295 original size:16 final size:16
Alignment explanation
Indices: 9492274--9492306 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
9492264 AACTCAATTA
9492274 TATCTTCAAACTTATT
1 TATCTTCAAACTTATT
9492290 TATCTTCAAACTTATT
1 TATCTTCAAACTTATT
9492306 T
1 T
9492307 CTACAAGTTT
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:0.30, C:0.18, G:0.00, T:0.52
Consensus pattern (16 bp):
TATCTTCAAACTTATT
Found at i:9493206 original size:33 final size:32
Alignment explanation
Indices: 9493169--9493230 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
9493159 GAAAAATAAT
* *
9493169 AATTAAACTATACAACTAAAATATAACCAAAAA
1 AATTAAACTATACAA-AAAAAAATAACCAAAAA
9493202 AATTAAACTATACAAAAAAAAATAACCAA
1 AATTAAACTATACAAAAAAAAATAACCAA
9493231 CTTAAAGATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 12 0.44
33 15 0.56
ACGTcount: A:0.66, C:0.15, G:0.00, T:0.19
Consensus pattern (32 bp):
AATTAAACTATACAAAAAAAAATAACCAAAAA
Found at i:9493631 original size:38 final size:38
Alignment explanation
Indices: 9493587--9493676 Score: 171
Period size: 38 Copynumber: 2.4 Consensus size: 38
9493577 AATTTGTAAT
9493587 GATAAATGACAGGAAGTTGAAATTATTCAAACAAACCG
1 GATAAATGACAGGAAGTTGAAATTATTCAAACAAACCG
*
9493625 GATAAATGACTGGAAGTTGAAATTATTCAAACAAACCG
1 GATAAATGACAGGAAGTTGAAATTATTCAAACAAACCG
9493663 GATAAATGACAGGA
1 GATAAATGACAGGA
9493677 TTATCTAAGT
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
38 50 1.00
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (38 bp):
GATAAATGACAGGAAGTTGAAATTATTCAAACAAACCG
Found at i:9495043 original size:7 final size:7
Alignment explanation
Indices: 9495033--9495073 Score: 55
Period size: 7 Copynumber: 5.9 Consensus size: 7
9495023 CTTAAATCAC
*
9495033 TAACTCT
1 TAACCCT
*
9495040 TAACTCT
1 TAACCCT
9495047 TAACCCT
1 TAACCCT
9495054 TAACCCT
1 TAACCCT
9495061 TAACCCT
1 TAACCCT
*
9495068 AAACCC
1 TAACCC
9495074 CAAACCCCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.32, C:0.39, G:0.00, T:0.29
Consensus pattern (7 bp):
TAACCCT
Found at i:9495055 original size:14 final size:14
Alignment explanation
Indices: 9495002--9495067 Score: 53
Period size: 14 Copynumber: 4.6 Consensus size: 14
9494992 TTAATCTGAG
*
9495002 CTTAAACCTTAA-T
1 CTTAACCCTTAACT
* *
9495015 CTCTAAACCTTAAAT
1 CT-TAACCCTTAACT
* *
9495030 CACTAACTCTTAACT
1 C-TTAACCCTTAACT
*
9495045 CTTAACCCTTAACC
1 CTTAACCCTTAACT
9495059 CTTAACCCT
1 CTTAACCCT
9495068 AAACCCCAAA
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
13 2 0.05
14 29 0.67
15 12 0.28
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (14 bp):
CTTAACCCTTAACT
Found at i:9495057 original size:21 final size:21
Alignment explanation
Indices: 9495033--9495113 Score: 56
Period size: 21 Copynumber: 3.9 Consensus size: 21
9495023 CTTAAATCAC
* * *
9495033 TAACTCTTAACTCTTAACCCT
1 TAACCCTTAACCCTAAACCCT
*
9495054 TAACCCTTAACCCTAAACCCC
1 TAACCCTTAACCCTAAACCCT
* ** * *
9495075 AAACCCCAAACCCCAAACCCC
1 TAACCCTTAACCCTAAACCCT
*
9495096 T-ACCACTAAACCCTAAAC
1 TAACC-CTTAACCCTAAAC
9495114 ATTGTTTAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
20 3 0.06
21 45 0.94
ACGTcount: A:0.37, C:0.44, G:0.00, T:0.19
Consensus pattern (21 bp):
TAACCCTTAACCCTAAACCCT
Found at i:9495078 original size:7 final size:7
Alignment explanation
Indices: 9495062--9495095 Score: 59
Period size: 7 Copynumber: 4.9 Consensus size: 7
9495052 CTTAACCCTT
*
9495062 AACCCTA
1 AACCCCA
9495069 AACCCCA
1 AACCCCA
9495076 AACCCCA
1 AACCCCA
9495083 AACCCCA
1 AACCCCA
9495090 AACCCC
1 AACCCC
9495096 TACCACTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.41, C:0.56, G:0.00, T:0.03
Consensus pattern (7 bp):
AACCCCA
Found at i:9495111 original size:7 final size:7
Alignment explanation
Indices: 9495048--9495113 Score: 55
Period size: 7 Copynumber: 9.4 Consensus size: 7
9495038 CTTAACTCTT
*
9495048 AACCCTT
1 AACCCTA
*
9495055 AACCCTT
1 AACCCTA
9495062 AACCCTA
1 AACCCTA
*
9495069 AACCCCA
1 AACCCTA
*
9495076 AACCCCA
1 AACCCTA
*
9495083 AACCCCA
1 AACCCTA
9495090 AACCCCT-
1 AA-CCCTA
9495097 -ACCACTA
1 AACC-CTA
9495104 AACCCTA
1 AACCCTA
9495111 AAC
1 AAC
9495114 ATTGTTTAAT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
5 2 0.04
6 3 0.06
7 41 0.79
8 6 0.12
ACGTcount: A:0.39, C:0.48, G:0.00, T:0.12
Consensus pattern (7 bp):
AACCCTA
Found at i:9495230 original size:87 final size:89
Alignment explanation
Indices: 9495101--9495331 Score: 414
Period size: 87 Copynumber: 2.6 Consensus size: 89
9495091 ACCCCTACCA
* *
9495101 CTAAACCCTAAACATTGTTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAA-CCT
1 CTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAATCC-
9495165 TAACTCGACCCCGAATCACTAACCC
65 TAACTCGACCCCGAATCACTAACCC
9495190 CTAACCCCTAAACATTATTT-A-ATATAAATTAAAAAACACTAATTAATCTAAATCCTAAATCCT
1 CTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAATCCT
9495253 AACTCGACCCCGAATCACTAACCC
66 AACTCGACCCCGAATCACTAACCC
9495277 CTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAAT
1 CTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAAT
9495332 TAACCCTAAA
Statistics
Matches: 137, Mismatches: 2, Indels: 6
0.94 0.01 0.04
Matches are distributed among these distances:
87 83 0.61
88 4 0.03
89 50 0.36
ACGTcount: A:0.45, C:0.24, G:0.02, T:0.28
Consensus pattern (89 bp):
CTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATCCTAAATCCT
AACTCGACCCCGAATCACTAACCC
Found at i:9495419 original size:70 final size:65
Alignment explanation
Indices: 9495275--9495415 Score: 162
Period size: 67 Copynumber: 2.1 Consensus size: 65
9495265 AATCACTAAC
9495275 CCCTAACCCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAAATTAACCCTA
1 CCCTAA-CCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCT-AA-TAACCCTA
9495340 AAT
63 AAT
* * * *
9495343 CCCTAACCCTAAACATTATTTAATATTATATAATTTAAAATATATTAATTAGTCT-A-AACCCTA
1 CCCTAACCCTAAACATTATTTAATA-TATA-AA-TTAAAAAACACTAATTAATCTAATAACCCTA
9495406 AA-
63 AAT
*
9495408 CTCTAACC
1 CCCTAACC
9495416 TAACACCGAA
Statistics
Matches: 65, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
65 7 0.11
66 9 0.14
67 19 0.29
68 11 0.17
69 2 0.03
70 17 0.26
ACGTcount: A:0.45, C:0.21, G:0.01, T:0.33
Consensus pattern (65 bp):
CCCTAACCCTAAACATTATTTAATATATAAATTAAAAAACACTAATTAATCTAATAACCCTAAAT
Found at i:9495468 original size:20 final size:20
Alignment explanation
Indices: 9495443--9495481 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9495433 ACCCTAAACT
* *
9495443 TCTAACCTTTAACCTCTAAC
1 TCTAACCCTTAACCCCTAAC
9495463 TCTAACCCTTAACCCCTAA
1 TCTAACCCTTAACCCCTAA
9495482 ATAAACCTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.38, G:0.00, T:0.31
Consensus pattern (20 bp):
TCTAACCCTTAACCCCTAAC
Found at i:9496251 original size:41 final size:41
Alignment explanation
Indices: 9496183--9496362 Score: 272
Period size: 41 Copynumber: 4.4 Consensus size: 41
9496173 TTTCGGGGGC
*
9496183 TTTAGCGGCGTTTTTATGTAAGCGCCGCTAATGTTCTGGGA
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
*
9496224 TTTAGCGGCGTTTTGT-TTTAAGTGCCGCTAATGTTCTGGGA
1 TTTAGCGGCGTTTT-TATTTAAGCGCCGCTAATGTTCTGGGA
*
9496265 TTTAGCGGCGTTTTTATTTAAGCGCTGCTAATGTTCTGGGA
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
* * * *
9496306 TTTAGTGGCGTTTTTAATTAAGCGCCGCTAATGTTCTAGGC
1 TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
9496347 TTTAGCGGCGCTTTTT
1 TTTAGCGGCG-TTTTT
9496363 TAAAAAACGC
Statistics
Matches: 126, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
40 1 0.01
41 119 0.94
42 6 0.05
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.41
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTATTTAAGCGCCGCTAATGTTCTGGGA
Found at i:9496836 original size:16 final size:16
Alignment explanation
Indices: 9496815--9496884 Score: 56
Period size: 16 Copynumber: 4.4 Consensus size: 16
9496805 CTATAGTATG
9496815 TAGTTTAAGGGTTTTA
1 TAGTTTAAGGGTTTTA
*
9496831 TAGTTTAA-GGTTTAA
1 TAGTTTAAGGGTTTTA
** * *
9496846 T-GTTTACTATAG-TATG
1 TAGTTTA--AGGGTTTTA
9496862 TAGTTTAAGGGTTTTA
1 TAGTTTAAGGGTTTTA
9496878 TAGTTTA
1 TAGTTTA
9496885 TGGTTTAGGG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
14 5 0.12
15 9 0.22
16 20 0.50
17 6 0.15
ACGTcount: A:0.27, C:0.01, G:0.21, T:0.50
Consensus pattern (16 bp):
TAGTTTAAGGGTTTTA
Found at i:9496843 original size:23 final size:23
Alignment explanation
Indices: 9496817--9496897 Score: 80
Period size: 23 Copynumber: 3.5 Consensus size: 23
9496807 ATAGTATGTA
9496817 GTTTAAGGGTTTTATAGTTTAAG
1 GTTTAAGGGTTTTATAGTTTAAG
*
9496840 GTTTAA-TGTTTACTATAGTATGT-A-
1 GTTTAAGGGTTT--TATAGT-T-TAAG
*
9496864 GTTTAAGGGTTTTATAGTTTATG
1 GTTTAAGGGTTTTATAGTTTAAG
9496887 GTTT-AGGGTTT
1 GTTTAAGGGTTT
9496898 GTTATATTGG
Statistics
Matches: 48, Mismatches: 3, Indels: 15
0.73 0.05 0.23
Matches are distributed among these distances:
21 1 0.02
22 12 0.25
23 16 0.33
24 12 0.25
25 6 0.12
26 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.25, T:0.51
Consensus pattern (23 bp):
GTTTAAGGGTTTTATAGTTTAAG
Found at i:9496933 original size:22 final size:21
Alignment explanation
Indices: 9496908--9496948 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
9496898 GTTATATTGG
9496908 GTTTGTGA-TTTAGTGTTTTAAA
1 GTTTG-GAGTTTAGT-TTTTAAA
9496930 GTTTGGAGTTTAGTTTTTA
1 GTTTGGAGTTTAGTTTTTA
9496949 TAGTCAGAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.20, C:0.00, G:0.24, T:0.56
Consensus pattern (21 bp):
GTTTGGAGTTTAGTTTTTAAA
Found at i:9501101 original size:29 final size:29
Alignment explanation
Indices: 9501059--9501116 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
9501049 TAAATCTTCT
9501059 TCCATTTGTCAACTATTTCATTTCCAAAA
1 TCCATTTGTCAACTATTTCATTTCCAAAA
9501088 TCCATTTGTCAACTATTTCATTTCCAAAA
1 TCCATTTGTCAACTATTTCATTTCCAAAA
9501117 ATATATTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (29 bp):
TCCATTTGTCAACTATTTCATTTCCAAAA
Found at i:9501276 original size:9 final size:9
Alignment explanation
Indices: 9501245--9501301 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
9501235 TTAAAGTTCA
9501245 AATTT-CAT
1 AATTTACAT
* *
9501253 AACTTACGT
1 AATTTACAT
*
9501262 ATTTTACAT
1 AATTTACAT
9501271 AATTTACAT
1 AATTTACAT
9501280 AA-TT-CAT
1 AATTTACAT
*
9501287 AATTTACAA
1 AATTTACAT
9501296 AATTTA
1 AATTTA
9501302 AATATATAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
7 5 0.13
8 8 0.21
9 26 0.67
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (9 bp):
AATTTACAT
Found at i:9501289 original size:16 final size:16
Alignment explanation
Indices: 9501268--9501299 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9501258 ACGTATTTTA
*
9501268 CATAATTTACATAATT
1 CATAATTTACAAAATT
9501284 CATAATTTACAAAATT
1 CATAATTTACAAAATT
9501300 TAAATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (16 bp):
CATAATTTACAAAATT
Found at i:9501426 original size:12 final size:12
Alignment explanation
Indices: 9501394--9501463 Score: 81
Period size: 12 Copynumber: 6.0 Consensus size: 12
9501384 CATAATATCC
*
9501394 TAACTTACATAG
1 TAACTTACATAA
* *
9501406 TATCGTACATAA
1 TAACTTACATAA
9501418 TAACTTACA-AA
1 TAACTTACATAA
9501429 -AACTTACATAA
1 TAACTTACATAA
*
9501440 TAACCTACATAA
1 TAACTTACATAA
*
9501452 TAACTTATATAA
1 TAACTTACATAA
9501464 CAATACATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
10 8 0.17
11 4 0.08
12 36 0.75
ACGTcount: A:0.49, C:0.17, G:0.03, T:0.31
Consensus pattern (12 bp):
TAACTTACATAA
Found at i:9501439 original size:22 final size:24
Alignment explanation
Indices: 9501411--9501463 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 24
9501401 CATAGTATCG
*
9501411 TACATAATAACTTACA-AA-AACT
1 TACATAATAACCTACATAATAACT
9501433 TACATAATAACCTACATAATAACT
1 TACATAATAACCTACATAATAACT
*
9501457 TATATAA
1 TACATAA
9501464 CAATACATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 15 0.56
23 2 0.07
24 10 0.37
ACGTcount: A:0.53, C:0.17, G:0.00, T:0.30
Consensus pattern (24 bp):
TACATAATAACCTACATAATAACT
Found at i:9501531 original size:9 final size:9
Alignment explanation
Indices: 9501517--9501865 Score: 348
Period size: 9 Copynumber: 38.2 Consensus size: 9
9501507 CACAAAAACA
9501517 ATAACTTAC
1 ATAACTTAC
9501526 ATAACTTAC
1 ATAACTTAC
9501535 ATAACTTAC
1 ATAACTTAC
*
9501544 ATAAACTTGC
1 AT-AACTTAC
* *
9501554 ATAAATTAA
1 ATAACTTAC
*
9501563 ATAACTTGC
1 ATAACTTAC
* *
9501572 ATAAATTAA
1 ATAACTTAC
9501581 ATAACTTAC
1 ATAACTTAC
9501590 ATAACTTAC
1 ATAACTTAC
*
9501599 ATAACCTAC
1 ATAACTTAC
9501608 ATAACTTAC
1 ATAACTTAC
*
9501617 ATAAATTA-
1 ATAACTTAC
9501625 AGTAACTTTAC
1 A-TAAC-TTAC
9501636 GGA-AACTTAC
1 --ATAACTTAC
9501646 ATAACTTAC
1 ATAACTTAC
*
9501655 ATAACCTAC
1 ATAACTTAC
9501664 ATAACTTAC
1 ATAACTTAC
* *
9501673 GTAAATTA-
1 ATAACTTAC
9501681 AGTAACTTAC
1 A-TAACTTAC
9501691 ATAACTTAC
1 ATAACTTAC
*
9501700 ATAAACTTGC
1 AT-AACTTAC
* *
9501710 ATAAATTAA
1 ATAACTTAC
*
9501719 ATAACTTGC
1 ATAACTTAC
* *
9501728 ATAAATTAA
1 ATAACTTAC
9501737 ATAACTTAC
1 ATAACTTAC
9501746 ATAACTTAC
1 ATAACTTAC
*
9501755 ATAACCTAC
1 ATAACTTAC
9501764 ATAACTTAC
1 ATAACTTAC
*
9501773 ATAAATTA-
1 ATAACTTAC
9501781 AGTAACTTTAC
1 A-TAAC-TTAC
**
9501792 GGAACTTAC
1 ATAACTTAC
9501801 ATAACTTAC
1 ATAACTTAC
*
9501810 ATAACCTAC
1 ATAACTTAC
9501819 ATAACTTAC
1 ATAACTTAC
* *
9501828 GTAAATTA-
1 ATAACTTAC
9501836 AGTAACTTAC
1 A-TAACTTAC
9501846 ATAACTTAC
1 ATAACTTAC
*
9501855 ATAACCTAC
1 ATAACTTAC
9501864 AT
1 AT
9501866 TAGAGGTGCT
Statistics
Matches: 276, Mismatches: 49, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
8 3 0.01
9 238 0.86
10 31 0.11
11 3 0.01
13 1 0.00
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:9501710 original size:156 final size:155
Alignment explanation
Indices: 9501527--9501858 Score: 655
Period size: 156 Copynumber: 2.1 Consensus size: 155
9501517 ATAACTTACA
9501527 TAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTGCATAAATTAAATAACTTACAT
1 TAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTGCATAAATTAAATAACTTACAT
9501592 AACTTACATAACCTACATAACTTACATAAATTAAGTAACTTTACGGAAACTTACATAACTTACAT
66 AACTTACATAACCTACATAACTTACATAAATTAAGTAACTTTACGG-AACTTACATAACTTACAT
9501657 AACCTACATAACTTACGTAAATTAAG
130 AACCTACATAACTTACGTAAATTAAG
9501683 TAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTGCATAAATTAAATAACTTACAT
1 TAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTGCATAAATTAAATAACTTACAT
9501748 AACTTACATAACCTACATAACTTACATAAATTAAGTAACTTTACGGAACTTACATAACTTACATA
66 AACTTACATAACCTACATAACTTACATAAATTAAGTAACTTTACGGAACTTACATAACTTACATA
9501813 ACCTACATAACTTACGTAAATTAAG
131 ACCTACATAACTTACGTAAATTAAG
9501838 TAACTTACATAACTTACATAA
1 TAACTTACATAACTTACATAA
9501859 CCTACATTAG
Statistics
Matches: 176, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
155 65 0.37
156 111 0.63
ACGTcount: A:0.46, C:0.18, G:0.04, T:0.32
Consensus pattern (155 bp):
TAACTTACATAACTTACATAAACTTGCATAAATTAAATAACTTGCATAAATTAAATAACTTACAT
AACTTACATAACCTACATAACTTACATAAATTAAGTAACTTTACGGAACTTACATAACTTACATA
ACCTACATAACTTACGTAAATTAAG
Found at i:9501771 original size:100 final size:100
Alignment explanation
Indices: 9501639--9501865 Score: 348
Period size: 100 Copynumber: 2.3 Consensus size: 100
9501629 ACTTTACGGA
* *
9501639 AACTTACATAACTTACATAACCTACATAACTTACGTAAATTAAGTAAC-TTACATAACTTACATA
1 AACTTACATAACTTACATAACCTACATAACTTACATAAATTAAGTAACTTTACAGAACTTACAT-
* * *
9501703 AACTTGCATAAATTAAATAACTTGCATAAATTAAAT
65 AACTTACATAAACTAAATAACTTACATAAATTAAAT
*
9501739 AACTTACATAACTTACATAACCTACATAACTTACATAAATTAAGTAACTTTACGGAACTTACATA
1 AACTTACATAACTTACATAACCTACATAACTTACATAAATTAAGTAACTTTACAGAACTTACATA
* * * *
9501804 ACTTACATAACCTACATAACTTACGTAAATTAAGT
66 ACTTACATAAACTAAATAACTTACATAAATTAAAT
9501839 AACTTACATAACTTACATAACCTACAT
1 AACTTACATAACTTACATAACCTACAT
9501866 TAGAGGTGCT
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
100 103 0.89
101 13 0.11
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.31
Consensus pattern (100 bp):
AACTTACATAACTTACATAACCTACATAACTTACATAAATTAAGTAACTTTACAGAACTTACATA
ACTTACATAAACTAAATAACTTACATAAATTAAAT
Found at i:9502100 original size:12 final size:11
Alignment explanation
Indices: 9502074--9502249 Score: 80
Period size: 11 Copynumber: 17.2 Consensus size: 11
9502064 ATTTTTTTAA
9502074 TTTTAAATATT
1 TTTTAAATATT
*
9502085 TTTTACATACTT
1 TTTTAAATA-TT
9502097 TTTT-AAT-TT
1 TTTTAAATATT
9502106 TTTT-AA-A-T
1 TTTTAAATATT
*
9502114 TTTAAAATATT
1 TTTTAAATATT
*
9502125 TTTAAAATACTT
1 TTTTAAATA-TT
9502137 TTTT-AAT-TT
1 TTTTAAATATT
*
9502146 TTTT---TAAT
1 TTTTAAATATT
*
9502154 TTTAAAATATT
1 TTTTAAATATT
*
9502165 TTTAAAATA-T
1 TTTTAAATATT
*
9502175 TTTAAAATACTT
1 TTTTAAATA-TT
9502187 TTTT---TATT
1 TTTTAAATATT
* *
9502195 TTTT--TTAAT
1 TTTTAAATATT
*
9502204 TTTAAAATATT
1 TTTTAAATATT
*
9502215 TTTAAAATACTT
1 TTTTAAATA-TT
* *
9502227 TTTAAAATACT
1 TTTTAAATATT
9502238 TTTTAAA-ATT
1 TTTTAAATATT
9502248 TT
1 TT
9502250 AAAAATTTTT
Statistics
Matches: 134, Mismatches: 15, Indels: 33
0.74 0.08 0.18
Matches are distributed among these distances:
7 1 0.01
8 14 0.10
9 24 0.18
10 15 0.11
11 54 0.40
12 26 0.19
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (11 bp):
TTTTAAATATT
Found at i:9502122 original size:40 final size:39
Alignment explanation
Indices: 9502064--9502265 Score: 192
Period size: 40 Copynumber: 4.8 Consensus size: 39
9502054 AAATATAGTT
* *
9502064 ATTTTTTTAATTTT-AAATATTTTTTACATACTTTTTTA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTA
9502102 ATTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTA
1 ATTTTTTT-AATTTTAAAATATTTTTAAAATACTTTTTTA
9502142 ATTTTTTTTAATTTTAAAATATTTTTAAAATATTTTAAAATACTTTTTTTA
1 A-TTTTTTTAATTTT-AAA-A----T---AT-TTTTAAAATAC-TTTTTTA
* *
9502193 TTTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTAAA
1 ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTT-TA
*
9502233 ATACTTTTTAAAATTTTAAAA-ATTTTTAAAATA
1 AT--TTTTT-TAATTTTAAAATATTTTTAAAATA
9502266 AAAATGGGCC
Statistics
Matches: 140, Mismatches: 6, Indels: 32
0.79 0.03 0.18
Matches are distributed among these distances:
38 8 0.06
39 11 0.08
40 42 0.30
41 12 0.09
42 18 0.13
43 10 0.07
44 1 0.01
46 1 0.01
48 1 0.01
49 5 0.04
50 24 0.17
51 7 0.05
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (39 bp):
ATTTTTTTAATTTTAAAATATTTTTAAAATACTTTTTTA
Found at i:9502149 original size:50 final size:51
Alignment explanation
Indices: 9502113--9502241 Score: 233
Period size: 50 Copynumber: 2.5 Consensus size: 51
9502103 TTTTTTTAAA
9502113 TTTTAAAATATTTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATATTTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAATAT
*
9502164 TTTTAAAATA-TTTTAAAATACTTTTTTTATTTTTTTTAATTTTAAAATAT
1 TTTTAAAATATTTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAATAT
9502214 TTTTAAAATACTTTTTAAAATACTTTTT
1 TTTTAAAATA-TTTTTAAAATACTTTTT
9502242 AAAATTTTAA
Statistics
Matches: 75, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
50 49 0.65
51 10 0.13
52 16 0.21
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (51 bp):
TTTTAAAATATTTTTAAAATACTTTTTTAATTTTTTTTAATTTTAAAATAT
Found at i:9502165 original size:10 final size:11
Alignment explanation
Indices: 9502153--9502265 Score: 93
Period size: 11 Copynumber: 10.9 Consensus size: 11
9502143 TTTTTTTTAA
9502153 TTTTAAAATAT
1 TTTTAAAATAT
9502164 TTTTAAAATA-
1 TTTTAAAATAT
9502174 TTTTAAAATACT
1 TTTTAAAATA-T
*
9502186 TTTT---TTAT
1 TTTTAAAATAT
** *
9502194 TTTT--TTTAA
1 TTTTAAAATAT
9502203 TTTTAAAATAT
1 TTTTAAAATAT
9502214 TTTTAAAATACT
1 TTTTAAAATA-T
9502226 TTTTAAAATACT
1 TTTTAAAATA-T
9502238 TTTT-AAA-A-
1 TTTTAAAATAT
9502246 TTTTAAAA-AT
1 TTTTAAAATAT
9502256 TTTTAAAATA
1 TTTTAAAATA
9502266 AAAATGGGCC
Statistics
Matches: 88, Mismatches: 5, Indels: 18
0.79 0.05 0.16
Matches are distributed among these distances:
8 9 0.10
9 13 0.15
10 19 0.22
11 26 0.30
12 21 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:9502461 original size:9 final size:9
Alignment explanation
Indices: 9502449--9503076 Score: 602
Period size: 9 Copynumber: 69.0 Consensus size: 9
9502439 CATAAATAAA
9502449 ATAACTTAC
1 ATAACTTAC
*
9502458 ATAACTTAT
1 ATAACTTAC
*
9502467 ATAACCTAC
1 ATAACTTAC
9502476 ATAACTTAC
1 ATAACTTAC
9502485 ATAACTTAC
1 ATAACTTAC
*
9502494 ATAAACTTGC
1 AT-AACTTAC
* *
9502504 ATAAATTAA
1 ATAACTTAC
9502513 ATAACTTAC
1 ATAACTTAC
9502522 ATAACTTAC
1 ATAACTTAC
*
9502531 ATAACGTAC
1 ATAACTTAC
* *
9502540 ATAAATTAA
1 ATAACTTAC
9502549 ATAACTTAC
1 ATAACTTAC
*
9502558 ATAAATTA-
1 ATAACTTAC
9502566 AGTAACTTAC
1 A-TAACTTAC
9502576 ATAACTTAC
1 ATAACTTAC
*
9502585 ATAAACTTGC
1 AT-AACTTAC
* *
9502595 ATAAATTAA
1 ATAACTTAC
*
9502604 ATAACTTGC
1 ATAACTTAC
* *
9502613 ATAAATTAA
1 ATAACTTAC
9502622 ATAACTTAC
1 ATAACTTAC
*
9502631 ATAACCTAC
1 ATAACTTAC
9502640 ATAACTTAC
1 ATAACTTAC
*
9502649 ATAAATTA-
1 ATAACTTAC
9502657 AGTAACTTTAC
1 A-TAAC-TTAC
**
9502668 GGAACTTAC
1 ATAACTTAC
9502677 ATAACTTAC
1 ATAACTTAC
**
9502686 ATAACCCAC
1 ATAACTTAC
9502695 ATAACTTAC
1 ATAACTTAC
* *
9502704 GTAAATTA-
1 ATAACTTAC
9502712 AGTAACTTAC
1 A-TAACTTAC
9502722 ATAACTTAC
1 ATAACTTAC
*
9502731 ATAACCTAC
1 ATAACTTAC
* * *
9502740 ATAAATAAA
1 ATAACTTAC
9502749 ATAACTTAC
1 ATAACTTAC
9502758 ATAACTTAC
1 ATAACTTAC
*
9502767 ATAACCTAC
1 ATAACTTAC
*
9502776 ATAAGTTAC
1 ATAACTTAC
9502785 ATAACTTAC
1 ATAACTTAC
*
9502794 ATAAACTTGC
1 AT-AACTTAC
* *
9502804 ATAAATTAA
1 ATAACTTAC
9502813 ATAACTTAC
1 ATAACTTAC
*
9502822 GTAACTTAC
1 ATAACTTAC
*
9502831 ATAAACTTGC
1 AT-AACTTAC
* *
9502841 ATAAATTAA
1 ATAACTTAC
9502850 ATAACTTAC
1 ATAACTTAC
9502859 ATAACTTAC
1 ATAACTTAC
*
9502868 ATAACGTAC
1 ATAACTTAC
* *
9502877 ATAAATTAA
1 ATAACTTAC
9502886 ATAACTTAC
1 ATAACTTAC
9502895 ATAACTTAC
1 ATAACTTAC
*
9502904 ATAAATTA-
1 ATAACTTAC
9502912 AGTAACTTAC
1 A-TAACTTAC
*
9502922 ATAAATTA-
1 ATAACTTAC
9502930 AGTAACTTAC
1 A-TAACTTAC
9502940 ATAACTTAC
1 ATAACTTAC
*
9502949 ATAAACTTGC
1 AT-AACTTAC
* *
9502959 ATAAATTAA
1 ATAACTTAC
9502968 ATAACTTAC
1 ATAACTTAC
9502977 ATAACTTAC
1 ATAACTTAC
*
9502986 ATAACCTAC
1 ATAACTTAC
* *
9502995 ATAAATTTC
1 ATAACTTAC
***
9503004 AATGGGTTAC
1 -ATAACTTAC
9503014 ATAACTTAC
1 ATAACTTAC
* *
9503023 ATAACCTAT
1 ATAACTTAC
* *
9503032 ATAAATTAA
1 ATAACTTAC
9503041 ATAACTTAC
1 ATAACTTAC
9503050 ATAACTTAC
1 ATAACTTAC
*
9503059 ATAAATTA-
1 ATAACTTAC
9503067 AGTAACTTAC
1 A-TAACTTAC
9503077 CCGTGCAAAT
Statistics
Matches: 492, Mismatches: 108, Indels: 37
0.77 0.17 0.06
Matches are distributed among these distances:
8 5 0.01
9 432 0.88
10 55 0.11
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:9502592 original size:91 final size:90
Alignment explanation
Indices: 9502449--9503076 Score: 602
Period size: 91 Copynumber: 6.9 Consensus size: 90
9502439 CATAAATAAA
* * ** *
9502449 ATAACTTACATAACTTATATAACCTACA-TAACTTACATAACTTACATAAACTTGCATAAATTAA
1 ATAAATTACATAACTTACATAAATTA-AGTAACTTACATAACTTACAT-AACTTACATAAATTAA
*
9502513 ATAACTTACATAACTTACATAACGTAC
64 ATAACTTACATAACTTACATAACTTAC
* *
9502540 ATAAATTAAATAACTTACATAAATTAAGTAACTTACATAACTTACATAAACTTGCATAAATTAAA
1 ATAAATTACATAACTTACATAAATTAAGTAACTTACATAACTTACAT-AACTTACATAAATTAAA
* * *
9502605 TAACTTGCATAAATTAAATAACTTAC
65 TAACTTACATAACTTACATAACTTAC
** ** *** *
9502631 ATAACCTACATAACTTACATAAATTAAGTAACTTTACGGAACTTACATAACTTACATAACCCACA
1 ATAAATTACATAACTTACATAAATTAAGTAAC-TTACATAACTTACATAACTTACATAAATTAAA
* *
9502696 TAACTTACGTAAATTA-AGTAACTTAC
65 TAACTTACATAACTTACA-TAACTTAC
* * * * * * *
9502722 ATAACTTACATAACCTACATAAATAAAATAACTTACATAACTTACATAACCTACATAAGTTACAT
1 ATAAATTACATAACTTACATAAATTAAGTAACTTACATAACTTACATAACTTACATAAATTAAAT
* * *
9502787 AACTTACATAAACTTGCATAAATTAA
66 AACTTACAT-AACTTACATAACTTAC
* * * * * ** *
9502813 ATAACTTACGTAACTTACATAAACTTGCA-TAAATTAAATAACTTACATAACTTACATAACGTAC
1 ATAAATTACATAACTTACATAAA-TT-AAGTAACTTACATAACTTACATAACTTACATAAATTAA
* *
9502877 ATAAATTAAATAACTTACATAACTTAC
64 ATAACTTACATAACTTACATAACTTAC
*
9502904 ATAAATTA-AGTAACTTACATAAATTAAGTAACTTACATAACTTACATAAACTTGCATAAATTAA
1 ATAAATTACA-TAACTTACATAAATTAAGTAACTTACATAACTTACAT-AACTTACATAAATTAA
*
9502968 ATAACTTACATAACTTACATAACCTAC
64 ATAACTTACATAACTTACATAACTTAC
* *** * * * * * * *
9502995 ATAAATTTCAATGGGTTACATAACTTACA-TAACCTATATAAATTAAATAACTTACATAACTTAC
1 ATAAATTAC-ATAACTTACATAAATTA-AGTAACTTACATAACTTACATAACTTACATAAATTAA
*
9503059 ATAAATTA-AGTAACTTAC
64 ATAACTTACA-TAACTTAC
9503077 CCGTGCAAAT
Statistics
Matches: 448, Mismatches: 75, Indels: 28
0.81 0.14 0.05
Matches are distributed among these distances:
89 1 0.00
90 57 0.13
91 306 0.68
92 81 0.18
93 3 0.01
ACGTcount: A:0.47, C:0.17, G:0.04, T:0.32
Consensus pattern (90 bp):
ATAAATTACATAACTTACATAAATTAAGTAACTTACATAACTTACATAACTTACATAAATTAAAT
AACTTACATAACTTACATAACTTAC
Found at i:9503014 original size:155 final size:152
Alignment explanation
Indices: 9502432--9503076 Score: 440
Period size: 155 Copynumber: 4.2 Consensus size: 152
9502422 TGAGCACCTC
* * * * * * * *
9502432 TAACCTACATAAATAAAATAACTTACATAACTTATATAACCTACATAACTTACATAACTTACATA
1 TAACTTACATAAATTACATAACTTACATAAATTACATAACTTACATAAATTAAATAACTT-CAT-
* * * *
9502497 AACTTGCATAAATTAAATAACTTACATAACTTACAT-AACGTACATAAATTAAATAACTTACATA
64 AACTTACATAACTTACATAACTTACATAACTTACATAAAC-TGCATAAATTAAATAACTTACATA
* * *
9502561 AATTA-AGTAACTTACATAACTTACA
128 ACTTACA-TAAATTACATAAATTACA
* * * * ** *
9502586 TAAACTTGCATAAATTAAATAACTTGCATAAATTAAATAACTTACATAACCTACATAACTTACAT
1 T-AACTTACATAAATTACATAACTTACATAAATTACATAACTTACATAAATTAAATAACTT-CAT
* ** * ** * ** *
9502651 AAATTA-AGTAACTTTACGGAACTTACATAACTTACATAACCCACATAACTTACGTAAATTA-AG
64 AACTTACA-TAAC-TTACATAACTTACATAACTTACATAAACTGCATAAATTAAATAACTTACA-
* **
9502714 TAACTTACATAACTTACATAACCTACA
126 TAACTTACATAAATTACATAAATTACA
* * * * ** * * *
9502741 TAAATAAAATAACTTACATAACTTACATAACCTACATAAGTTACATAACTTACATAAACTTGCAT
1 TAACTTACATAAATTACATAACTTACATAAATTACATAACTTACATAAATTAAAT-AACTT-CAT
* * * * * ** * *
9502806 AAATTAAATAACTTACGTAACTTACATAAACTTGCATAAATTAAATAACTTACATAACTTACATA
64 AACTTACATAACTTACATAACTTACAT-AACTTACATAAACTGCATAAATTAAATAACTTACATA
* * *
9502871 ACGTACATAAATTAAATAACTTACA
128 ACTTACATAAATTACATAAATTACA
* *
9502896 TAACTTACATAAATTA-AGTAACTTACATAAATTA-AGTAACTTACATAACTTACATAAACTTGC
1 TAACTTACATAAATTACA-TAACTTACATAAATTACA-TAACTTACATAAATTAAAT-AACTT-C
* * * * * *** *
9502959 ATAAATTAAATAACTTACATAACTTACATAACCTACATAAATTTCAATGGGTTACATAACTTACA
62 ATAACTTACATAACTTACATAACTTACATAACTTACATAAACTGC-ATAAATTAAATAACTTACA
* * * *
9503024 TAACCTATATAAATTAAATAACTTACA
126 TAACTTACATAAATTACATAAATTACA
9503051 TAACTTACATAAATTA-AGTAACTTAC
1 TAACTTACATAAATTACA-TAACTTAC
9503077 CCGTGCAAAT
Statistics
Matches: 414, Mismatches: 64, Indels: 25
0.82 0.13 0.05
Matches are distributed among these distances:
153 1 0.00
154 79 0.19
155 329 0.79
156 5 0.01
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.31
Consensus pattern (152 bp):
TAACTTACATAAATTACATAACTTACATAAATTACATAACTTACATAAATTAAATAACTTCATAA
CTTACATAACTTACATAACTTACATAACTTACATAAACTGCATAAATTAAATAACTTACATAACT
TACATAAATTACATAAATTACA
Found at i:9508487 original size:66 final size:66
Alignment explanation
Indices: 9508416--9508551 Score: 209
Period size: 66 Copynumber: 2.1 Consensus size: 66
9508406 GACTACAGTT
* * * * *
9508416 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAGAGCAGATGTGGCAGCGAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGACAGCCAGAGAAGC
9508481 A
66 A
* *
9508482 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCTGATGCGACATCCAGAGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGACAGCCAGAGAAGC
9508547 A
66 A
9508548 GAGG
1 GAGG
9508552 CTGCAGCGAG
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.41, C:0.18, G:0.26, T:0.15
Consensus pattern (66 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCGACAACTTAAAGCAGATGCGACAGCCAGAGAAGC
A
Found at i:9508960 original size:42 final size:43
Alignment explanation
Indices: 9508900--9509071 Score: 253
Period size: 43 Copynumber: 4.1 Consensus size: 43
9508890 AACAAAAAGT
* *
9508900 GGCGTTTGTGTTAGAAGCGCCGCTAAAGAACATGTTC-TTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
*
9508942 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTGCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
* *
9508985 GGCGGTTGTGTAAAAAGCGCCGGTAAAGAACATGTTCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
* *
9509028 GGCGTTTGTAT-AAATGCG-CGCT-AAGAACATGTTCTTTAGC
1 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
9509068 GGCG
1 GGCG
9509072 CTTTAAAATA
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
40 22 0.18
41 3 0.03
42 40 0.34
43 54 0.45
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (43 bp):
GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
Found at i:9509012 original size:85 final size:83
Alignment explanation
Indices: 9508900--9509071 Score: 247
Period size: 85 Copynumber: 2.0 Consensus size: 83
9508890 AACAAAAAGT
* * * *
9508900 GGCGTTTGTGTTAGAAGCGCCGCTAAAGAACATGTTC-TTAGCGGCGTTTGTGTAAAAAGCGCCG
1 GGCGGTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTAT-AAAAGCG-CG
9508964 CTAAAGAACATGTGCTTTAGC
64 CT-AAGAACATGTGCTTTAGC
* *
9508985 GGCGGTTGTGTAAAAAGCGCCGGTAAAGAACATGTTCTTTAGCGGCGTTTGTATAAATGCGCGCT
1 GGCGGTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTATAAAAGCGCGCT
*
9509050 AAGAACATGTTCTTTAGC
66 AAGAACATGTGCTTTAGC
9509068 GGCG
1 GGCG
9509072 CTTTAAAATA
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
83 21 0.27
84 4 0.05
85 39 0.49
86 15 0.19
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (83 bp):
GGCGGTTGTGTAAAAAGCGCCGCTAAAGAACATGTTCTTTAGCGGCGTTTGTATAAAAGCGCGCT
AAGAACATGTGCTTTAGC
Found at i:9509062 original size:40 final size:42
Alignment explanation
Indices: 9508900--9509071 Score: 226
Period size: 42 Copynumber: 4.1 Consensus size: 42
9508890 AACAAAAAGT
* *
9508900 GGCGTTTGTGTTAGAAGCGCCGCTAAAGAACATGTTC-TTAGC
1 GGCGTTTGT-ATAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
* *
9508942 GGCGTTTGTGTAAAAAGCGCCGCTAAAGAACATGTGCTTTAGC
1 GGCGTTTGTAT-AAAAGCGCCGCTAAAGAACATGTTCTTTAGC
*
9508985 GGCGGTTGTGTA-AAAAGCGCCGGTAAAGAACATGTTCTTTAGC
1 GGC-GTT-TGTATAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
*
9509028 GGCGTTTGTATAAATGCG-CGCT-AAGAACATGTTCTTTAGC
1 GGCGTTTGTATAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
9509068 GGCG
1 GGCG
9509072 CTTTAAAATA
Statistics
Matches: 117, Mismatches: 8, Indels: 12
0.85 0.06 0.09
Matches are distributed among these distances:
40 22 0.19
41 8 0.07
42 41 0.35
43 40 0.34
44 3 0.03
45 3 0.03
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.27
Consensus pattern (42 bp):
GGCGTTTGTATAAAAGCGCCGCTAAAGAACATGTTCTTTAGC
Found at i:9509371 original size:41 final size:39
Alignment explanation
Indices: 9509218--9509348 Score: 187
Period size: 39 Copynumber: 3.4 Consensus size: 39
9509208 TGGTGTTGTG
*
9509218 GCATTAGCGGTGCTTATTAAAAACGCCGCTAAGACCTGA
1 GCATTAGCGGCGCTTATTAAAAACGCCGCTAAGACCTGA
*
9509257 GAATTAGCGGCGCTTA--AAAAACGCCGCTAAGACCTGA
1 GCATTAGCGGCGCTTATTAAAAACGCCGCTAAGACCTGA
* *
9509294 G-ATTAGTGGCGCTTATTTAAAAACGCCGCTAAAGACCTAA
1 GCATTAGCGGCGCTTA-TTAAAAACGCCGCT-AAGACCTGA
9509334 GCATTAGCGGCGCTT
1 GCATTAGCGGCGCTT
9509349 TTCAGAAAAT
Statistics
Matches: 82, Mismatches: 5, Indels: 8
0.86 0.05 0.08
Matches are distributed among these distances:
36 13 0.16
37 22 0.27
39 26 0.32
40 9 0.11
41 12 0.15
ACGTcount: A:0.31, C:0.23, G:0.24, T:0.22
Consensus pattern (39 bp):
GCATTAGCGGCGCTTATTAAAAACGCCGCTAAGACCTGA
Found at i:9525739 original size:23 final size:22
Alignment explanation
Indices: 9525681--9525741 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
9525671 ACATAAAATT
*
9525681 TATAAAATTAAATAATAATATA
1 TATAAAATAAAATAATAATATA
** * *
9525703 TGGAAAACACAAATAATACTATA
1 TATAAAATA-AAATAATAATATA
9525726 TAATAAAATAAAATAA
1 T-ATAAAATAAAATAA
9525742 ATGTATATAA
Statistics
Matches: 29, Mismatches: 8, Indels: 3
0.73 0.20 0.08
Matches are distributed among these distances:
22 5 0.17
23 19 0.66
24 5 0.17
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (22 bp):
TATAAAATAAAATAATAATATA
Found at i:9536819 original size:27 final size:28
Alignment explanation
Indices: 9536789--9536842 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
9536779 AATATATATA
9536789 TTTTTA-ATATTTTTAATTTT-AAAATAC
1 TTTTTATAT-TTTTTAATTTTGAAAATAC
* *
9536816 TTTTTTTATTTTTTTATTTTGAAAATA
1 TTTTTATATTTTTTAATTTTGAAAATA
9536843 AATTTTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 15 0.65
28 8 0.35
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTTTATATTTTTTAATTTTGAAAATAC
Found at i:9536820 original size:28 final size:28
Alignment explanation
Indices: 9536789--9536842 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
9536779 AATATATATA
9536789 TTTTTAATATTTTTAATTTT-AAAATACT
1 TTTTTAAT-TTTTTAATTTTGAAAATACT
* *
9536817 TTTTTTATTTTTTTATTTTGAAAATA
1 TTTTTAATTTTTTAATTTTGAAAATA
9536843 AATTTTTGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 10 0.43
28 13 0.57
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
TTTTTAATTTTTTAATTTTGAAAATACT
Found at i:9536848 original size:28 final size:28
Alignment explanation
Indices: 9536788--9536849 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 28
9536778 AAATATATAT
*
9536788 ATTTTTAATATTTTTAATTTTAAAATAC
1 ATTTTTAATATTTTTAATTTTAAAATAA
* * *
9536816 TTTTTTTAT-TTTTTTATTTTGAAAATAA
1 ATTTTTAATATTTTTAATTTT-AAAATAA
9536844 ATTTTT
1 ATTTTT
9536850 GGTGTTTATT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
27 10 0.36
28 18 0.64
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (28 bp):
ATTTTTAATATTTTTAATTTTAAAATAA
Found at i:9539883 original size:44 final size:42
Alignment explanation
Indices: 9539815--9539963 Score: 194
Period size: 44 Copynumber: 3.4 Consensus size: 42
9539805 TTTTGAGGGT
*
9539815 TTTAGCGGCGTTTTTATGTAAGCGCTGCTAATTGTTCTGGGA
1 TTTAGCGGCGTTTTTATTTAAGCGCTGCTAATTGTTCTGGGA
9539857 TTATAGCCGGCGTTTTGT-TTTAAGCGCCTTGCTAA-TGTTCTGGGA
1 TT-TAG-CGGCGTTTT-TATTTAAGCG-C-TGCTAATTGTTCTGGGA
*
9539902 TTTAGCGGCGTTTTTAATTTAAGCGCCGCTAATTGTTCTGGGA
1 TTTAGCGGCGTTTTT-ATTTAAGCGCTGCTAATTGTTCTGGGA
*
9539945 TTTAGTGGGCGTTTTTATT
1 TTTAG-CGGCGTTTTTATT
9539964 GATGCGCCGC
Statistics
Matches: 95, Mismatches: 3, Indels: 17
0.83 0.03 0.15
Matches are distributed among these distances:
42 8 0.08
43 31 0.33
44 36 0.38
45 14 0.15
46 6 0.06
ACGTcount: A:0.16, C:0.15, G:0.27, T:0.42
Consensus pattern (42 bp):
TTTAGCGGCGTTTTTATTTAAGCGCTGCTAATTGTTCTGGGA
Found at i:9539939 original size:43 final size:43
Alignment explanation
Indices: 9539815--9539975 Score: 195
Period size: 43 Copynumber: 3.7 Consensus size: 43
9539805 TTTTGAGGGT
* *
9539815 TTTAG-CGGCGTTTTTATGTAAGCGCTGCTAATTGTTCTGGGA
1 TTTAGCCGGCGTTTTTATTTAAGCGCCGCTAATTGTTCTGGGA
9539857 TTATAGCCGGCGTTTTGT-TTTAAGCGCCTTGCTAA-TGTTCTGGGA
1 TT-TAGCCGGCGTTTT-TATTTAAGCGCC--GCTAATTGTTCTGGGA
9539902 TTTAG-CGGCGTTTTTAATTTAAGCGCCGCTAATTGTTCTGGGA
1 TTTAGCCGGCGTTTTT-ATTTAAGCGCCGCTAATTGTTCTGGGA
** * *
9539945 TTTAGTGGGCGTTTTTATTGATGCGCCGCTA
1 TTTAGCCGGCGTTTTTATTTAAGCGCCGCTA
9539976 GTTCGCAGGG
Statistics
Matches: 105, Mismatches: 5, Indels: 17
0.83 0.04 0.13
Matches are distributed among these distances:
42 8 0.08
43 40 0.38
44 39 0.37
45 13 0.12
46 5 0.05
ACGTcount: A:0.16, C:0.16, G:0.27, T:0.40
Consensus pattern (43 bp):
TTTAGCCGGCGTTTTTATTTAAGCGCCGCTAATTGTTCTGGGA
Found at i:9540540 original size:22 final size:22
Alignment explanation
Indices: 9540505--9540546 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
9540495 GTTATATTGG
*
9540505 GTTTGTGATTTTAGTGTTTTAAA
1 GTTTGTGAGTTTAGT-TTTTAAA
9540528 GTTTG-GAGTTTAGTTTTTA
1 GTTTGTGAGTTTAGTTTTTA
9540547 TAGTCAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 8 0.44
23 5 0.28
ACGTcount: A:0.19, C:0.00, G:0.24, T:0.57
Consensus pattern (22 bp):
GTTTGTGAGTTTAGTTTTTAAA
Found at i:9544553 original size:29 final size:29
Alignment explanation
Indices: 9544511--9544568 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
9544501 TAAATCTTCT
9544511 TCCATTTGTCAACTATTTCATTTCCAAAA
1 TCCATTTGTCAACTATTTCATTTCCAAAA
9544540 TCCATTTGTCAACTATTTCATTTCCAAAA
1 TCCATTTGTCAACTATTTCATTTCCAAAA
9544569 ATATATTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (29 bp):
TCCATTTGTCAACTATTTCATTTCCAAAA
Found at i:9544727 original size:9 final size:9
Alignment explanation
Indices: 9544696--9544752 Score: 57
Period size: 9 Copynumber: 6.7 Consensus size: 9
9544686 TTAAAGTTCA
9544696 AATTT-CAT
1 AATTTACAT
* *
9544704 AACTTACGT
1 AATTTACAT
*
9544713 ATTTTACAT
1 AATTTACAT
9544722 AATTTACAT
1 AATTTACAT
9544731 AA-TT-CAT
1 AATTTACAT
*
9544738 AATTTACAA
1 AATTTACAT
9544747 AATTTA
1 AATTTA
9544753 AATATATAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
7 5 0.13
8 8 0.21
9 26 0.67
ACGTcount: A:0.42, C:0.12, G:0.02, T:0.44
Consensus pattern (9 bp):
AATTTACAT
Found at i:9544740 original size:16 final size:16
Alignment explanation
Indices: 9544719--9544750 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
9544709 ACGTATTTTA
*
9544719 CATAATTTACATAATT
1 CATAATTTACAAAATT
9544735 CATAATTTACAAAATT
1 CATAATTTACAAAATT
9544751 TAAATATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.47, C:0.12, G:0.00, T:0.41
Consensus pattern (16 bp):
CATAATTTACAAAATT
Found at i:9544877 original size:12 final size:12
Alignment explanation
Indices: 9544845--9544913 Score: 72
Period size: 12 Copynumber: 6.0 Consensus size: 12
9544835 CATAATATCC
*
9544845 TAACTTACATAG
1 TAACTTACATAA
* *
9544857 TATCGTACATAA
1 TAACTTACATAA
9544869 TAACTTAC--AA
1 TAACTTACATAA
9544879 -AACTTACATAA
1 TAACTTACATAA
*
9544890 TAACCTACATAA
1 TAACTTACATAA
*
9544902 TAACTTATATAA
1 TAACTTACATAA
9544914 CAATACATAA
Statistics
Matches: 46, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
9 7 0.15
10 2 0.04
11 2 0.04
12 35 0.76
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (12 bp):
TAACTTACATAA
Found at i:9544888 original size:33 final size:33
Alignment explanation
Indices: 9544846--9544932 Score: 99
Period size: 33 Copynumber: 2.7 Consensus size: 33
9544836 ATAATATCCT
* * *
9544846 AACTTACATAGTATCGTACATAATAACTTACAA
1 AACTTACATAATAACCTACATAATAACTTACAA
* *
9544879 AACTTACATAATAACCTACATAATAACTTATAT
1 AACTTACATAATAACCTACATAATAACTTACAA
9544912 AAC--A-ATACATAACCTACATAA
1 AACTTACATA-ATAACCTACATAA
9544933 ATTAAAAAAG
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
30 3 0.06
31 14 0.29
33 31 0.65
ACGTcount: A:0.49, C:0.20, G:0.02, T:0.29
Consensus pattern (33 bp):
AACTTACATAATAACCTACATAATAACTTACAA
Found at i:9544978 original size:9 final size:9
Alignment explanation
Indices: 9544966--9545313 Score: 355
Period size: 9 Copynumber: 38.2 Consensus size: 9
9544956 ACACAAAACA
9544966 ATAACTTAC
1 ATAACTTAC
9544975 ATAACTTAC
1 ATAACTTAC
9544984 ATAACTTAC
1 ATAACTTAC
*
9544993 ATAACTTGC
1 ATAACTTAC
* *
9545002 ATAAATTAA
1 ATAACTTAC
*
9545011 ATAACTTGC
1 ATAACTTAC
* *
9545020 ATAAATTAA
1 ATAACTTAC
9545029 ATAACTTAC
1 ATAACTTAC
9545038 ATAACTTAC
1 ATAACTTAC
*
9545047 ATAACCTAC
1 ATAACTTAC
9545056 ATAACTTAC
1 ATAACTTAC
*
9545065 ATAAATTA-
1 ATAACTTAC
9545073 AGTAACTTTAC
1 A-TAAC-TTAC
9545084 GGA-AACTTAC
1 --ATAACTTAC
9545094 ATAACTTAC
1 ATAACTTAC
*
9545103 ATAACCTAC
1 ATAACTTAC
9545112 ATAACTTAC
1 ATAACTTAC
* *
9545121 GTAAATTA-
1 ATAACTTAC
9545129 AGTAACTTAC
1 A-TAACTTAC
9545139 ATAACTTAC
1 ATAACTTAC
*
9545148 ATAAACTTGC
1 AT-AACTTAC
* *
9545158 ATAAATTAA
1 ATAACTTAC
*
9545167 ATAACTTGC
1 ATAACTTAC
* *
9545176 ATAAATTAA
1 ATAACTTAC
9545185 ATAACTTAC
1 ATAACTTAC
9545194 ATAACTTAC
1 ATAACTTAC
*
9545203 ATAACCTAC
1 ATAACTTAC
9545212 ATAACTTAC
1 ATAACTTAC
*
9545221 ATAAATTA-
1 ATAACTTAC
9545229 AGTAACTTTAC
1 A-TAAC-TTAC
**
9545240 GGAACTTAC
1 ATAACTTAC
9545249 ATAACTTAC
1 ATAACTTAC
*
9545258 ATAACCTAC
1 ATAACTTAC
9545267 ATAACTTAC
1 ATAACTTAC
* *
9545276 GTAAATTA-
1 ATAACTTAC
9545284 AGTAACTTAC
1 A-TAACTTAC
9545294 ATAACTTAC
1 ATAACTTAC
*
9545303 ATAACCTAC
1 ATAACTTAC
9545312 AT
1 AT
9545314 TAGAGGTGCT
Statistics
Matches: 276, Mismatches: 49, Indels: 28
0.78 0.14 0.08
Matches are distributed among these distances:
8 3 0.01
9 246 0.89
10 23 0.08
11 3 0.01
13 1 0.00
ACGTcount: A:0.46, C:0.19, G:0.04, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:9545219 original size:100 final size:100
Alignment explanation
Indices: 9545087--9545313 Score: 348
Period size: 100 Copynumber: 2.3 Consensus size: 100
9545077 ACTTTACGGA
* *
9545087 AACTTACATAACTTACATAACCTACATAACTTACGTAAATTAAGTAAC-TTACATAACTTACATA
1 AACTTACATAACTTACATAACCTACATAACTTACATAAATTAAGTAACTTTACAGAACTTACAT-
* * *
9545151 AACTTGCATAAATTAAATAACTTGCATAAATTAAAT
65 AACTTACATAAACTAAATAACTTACATAAATTAAAT
*
9545187 AACTTACATAACTTACATAACCTACATAACTTACATAAATTAAGTAACTTTACGGAACTTACATA
1 AACTTACATAACTTACATAACCTACATAACTTACATAAATTAAGTAACTTTACAGAACTTACATA
* * * *
9545252 ACTTACATAACCTACATAACTTACGTAAATTAAGT
66 ACTTACATAAACTAAATAACTTACATAAATTAAAT
9545287 AACTTACATAACTTACATAACCTACAT
1 AACTTACATAACTTACATAACCTACAT
9545314 TAGAGGTGCT
Statistics
Matches: 116, Mismatches: 10, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
100 103 0.89
101 13 0.11
ACGTcount: A:0.45, C:0.19, G:0.04, T:0.31
Consensus pattern (100 bp):
AACTTACATAACTTACATAACCTACATAACTTACATAAATTAAGTAACTTTACAGAACTTACATA
ACTTACATAAACTAAATAACTTACATAAATTAAAT
Found at i:9545566 original size:50 final size:49
Alignment explanation
Indices: 9545519--9545699 Score: 209
Period size: 50 Copynumber: 3.8 Consensus size: 49
9545509 GTTATTTTTT
* *
9545519 TAATTTTAAAATATTTTTTACATACTTTTTTAA----TTTT--TTTT-A
1 TAATTTTAAAATATTTTTAAAATACTTTTTTAATTTTTTTTAATTTTAA
9545561 -AATTTTAAAATATTTTTAAAATACTTTTTTTAA-TTTTTTTAATTTTAAA
1 TAATTTTAAAATATTTTTAAAATAC-TTTTTTAATTTTTTTTAATTTT-AA
*
9545610 TATTTTTAAAATATTTTTAAAATACTTTTTTAATTTTTTTTAATTTTAA
1 TAATTTTAAAATATTTTTAAAATACTTTTTTAATTTTTTTTAATTTTAA
* * *
9545659 AATATTTTAAAATACTTTTTAAAATACTTTTTAAAATTTTT
1 TA-ATTTTAAAATA-TTTTTAAAATACTTTTTTAATTTTTT
9545700 AAAAATTTTT
Statistics
Matches: 120, Mismatches: 7, Indels: 15
0.85 0.05 0.11
Matches are distributed among these distances:
41 22 0.18
42 8 0.07
45 4 0.03
47 4 0.03
49 12 0.10
50 46 0.38
51 24 0.20
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.60
Consensus pattern (49 bp):
TAATTTTAAAATATTTTTAAAATACTTTTTTAATTTTTTTTAATTTTAA
Found at i:9545577 original size:40 final size:40
Alignment explanation
Indices: 9545513--9545712 Score: 199
Period size: 40 Copynumber: 4.7 Consensus size: 40
9545503 AATATAGTTA
*
9545513 TTTTTTT-AATTTTAAAATATTTTTTACATACTTTTTTAAT
1 TTTTTTTAAATTTTAAAATA-TTTTTAAATACTTTTTTAAT
9545553 TTTTTTTAAATTTTAAAATATTTTTAAAATACTTTTTTTAATTTT
1 TTTTTTTAAATTTTAAAATATTTTT-AAATAC-TTTTTTAA---T
9545598 TTTAATTTTAAATATTTTTAAAATATTTTTAAAATACTTTTTTAAT
1 TTT--TTTT-AA-A-TTTTAAAATATTTTT-AAATACTTTTTTAAT
* *
9545644 TTTTTTT-AATTTTAAAATATTTTAAAATACTTTTTAAAAT
1 TTTTTTTAAATTTTAAAATATTTTTAAATACTTTTT-TAAT
* *
9545684 ACTTTTTAAAATTTTTAAAA-ATTTTTAAA
1 -TTTTTTTAAA-TTTTAAAATATTTTTAAA
9545713 ATAAAATGGG
Statistics
Matches: 139, Mismatches: 6, Indels: 28
0.80 0.03 0.16
Matches are distributed among these distances:
39 11 0.08
40 29 0.21
41 23 0.17
42 19 0.14
43 8 0.06
44 4 0.03
45 4 0.03
46 4 0.03
47 4 0.03
48 2 0.01
49 9 0.06
50 22 0.16
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (40 bp):
TTTTTTTAAATTTTAAAATATTTTTAAATACTTTTTTAAT
Found at i:9545689 original size:11 final size:10
Alignment explanation
Indices: 9545602--9545715 Score: 76
Period size: 11 Copynumber: 11.1 Consensus size: 10
9545592 AATTTTTTTA
9545602 ATTTT-AAAT
1 ATTTTAAAAT
9545611 ATTTTTAAAAT
1 A-TTTTAAAAT
9545622 ATTTTTAAAAT
1 A-TTTTAAAAT
**
9545633 ACTTTTTTAAT
1 A-TTTTAAAAT
***
9545644 -TTTTTTTA-
1 ATTTTAAAAT
9545652 ATTTTAAAAT
1 ATTTTAAAAT
9545662 ATTTTAAAAT
1 ATTTTAAAAT
9545672 ACTTTTTAAAAT
1 A--TTTTAAAAT
9545684 ACTTTTTAAAAT
1 A--TTTTAAAAT
9545696 -TTTTAAAA-
1 ATTTTAAAAT
9545704 ATTTTTAAAAT
1 A-TTTTAAAAT
9545715 A
1 A
9545716 AAATGGGCCG
Statistics
Matches: 89, Mismatches: 7, Indels: 16
0.79 0.06 0.14
Matches are distributed among these distances:
9 21 0.24
10 23 0.26
11 24 0.27
12 21 0.24
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (10 bp):
ATTTTAAAAT
Found at i:9545713 original size:10 final size:10
Alignment explanation
Indices: 9545603--9545713 Score: 70
Period size: 10 Copynumber: 10.8 Consensus size: 10
9545593 ATTTTTTTAA
*
9545603 TTTTAAATAT
1 TTTTAAAAAT
9545613 TTTTAAAATAT
1 TTTTAAAA-AT
9545624 TTTTAAAATACT
1 TTTTAAAA-A-T
*
9545636 TTTT--TAAT
1 TTTTAAAAAT
***
9545644 TTTTTTTAA-
1 TTTTAAAAAT
9545653 TTTT-AAAAT
1 TTTTAAAAAT
9545662 ATTTTAAAATACT
1 -TTTTAAAA-A-T
9545675 TTTTAAAATACT
1 TTTTAAAA-A-T
9545687 TTTT-AAAAT
1 TTTTAAAAAT
9545696 TTTTAAAAAT
1 TTTTAAAAAT
9545706 TTTTAAAA
1 TTTTAAAA
9545714 TAAAATGGGC
Statistics
Matches: 87, Mismatches: 4, Indels: 20
0.78 0.04 0.18
Matches are distributed among these distances:
8 7 0.08
9 10 0.11
10 29 0.33
11 18 0.21
12 22 0.25
13 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (10 bp):
TTTTAAAAAT
Done.