Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 133 of 444
Found at i:35089877 original size:22 final size:23
Alignment explanation
Indices: 35089851--35089896 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
35089841 CAACCAAACC
35089851 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
35089873 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
35089896 A
1 A
35089897 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:35089902 original size:23 final size:23
Alignment explanation
Indices: 35089858--35089902 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
35089848 ACCAATTCAA
*
35089858 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
35089881 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
35089903 CACATACCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:35097465 original size:25 final size:25
Alignment explanation
Indices: 35097436--35097483 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
35097426 GCACATTCTC
*
35097436 GAGCCATATAACAGGATGCTTATGT
1 GAGCCATAGAACAGGATGCTTATGT
*
35097461 GAGCCATGGAACAGGATGCTTAT
1 GAGCCATAGAACAGGATGCTTAT
35097484 CTGGGTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (25 bp):
GAGCCATAGAACAGGATGCTTATGT
Found at i:35100108 original size:31 final size:30
Alignment explanation
Indices: 35100073--35100132 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
35100063 AAATATTAAA
*
35100073 TTTTAA-ATTTTTAAATATAATTTAAAAAAAG
1 TTTTAATATCTTTAAA-A-AATTTAAAAAAAG
*
35100104 TTTTAATATCTTTAAAAAATTTTAAAAAA
1 TTTTAATATCTTTAAAAAATTTAAAAAAA
35100133 TTAATAACTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 11 0.42
31 7 0.27
32 8 0.31
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (30 bp):
TTTTAATATCTTTAAAAAATTTAAAAAAAG
Found at i:35100111 original size:22 final size:22
Alignment explanation
Indices: 35100081--35100129 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
35100071 AATTTTAAAT
35100081 TTTTAAATATAATTTAAAAAAAG
1 TTTTAAATAT-ATTTAAAAAAAG
*
35100104 TTTT-AATATCTTT-AAAAAA-
1 TTTTAAATATATTTAAAAAAAG
35100123 TTTTAAA
1 TTTTAAA
35100130 AAATTAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 8 0.33
21 3 0.12
22 5 0.21
23 4 0.17
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
TTTTAAATATATTTAAAAAAAG
Found at i:35100292 original size:32 final size:33
Alignment explanation
Indices: 35100227--35100292 Score: 82
Period size: 33 Copynumber: 2.0 Consensus size: 33
35100217 TGACATATCT
* * *
35100227 TTAAAAATAATATATTTTAAATGTTTTATAATA
1 TTAAAAATAATATATTTAAAATGTTTAAAAATA
35100260 TTAAAAA-AATTATATTTAAAAT-TTTAAAAATA
1 TTAAAAATAA-TATATTTAAAATGTTTAAAAATA
35100292 T
1 T
35100293 ATTTAAAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
32 11 0.38
33 18 0.62
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (33 bp):
TTAAAAATAATATATTTAAAATGTTTAAAAATA
Found at i:35100293 original size:20 final size:20
Alignment explanation
Indices: 35100264--35100354 Score: 101
Period size: 20 Copynumber: 4.2 Consensus size: 20
35100254 ATAATATTAA
35100264 AAAAATTATATTTAAAATTTT
1 AAAAA-TATATTTAAAATTTT
35100285 AAAAATATATTTAAAATTTT
1 AAAAATATATTTAAAATTTT
*
35100305 AAAAATAATATTATAAAAAATTT
1 AAAAAT-ATATT-T-AAAATTTT
* *
35100328 AAAATATACATTTCAAATTTT
1 AAAA-ATATATTTAAAATTTT
35100349 ATAAAA
1 A-AAAA
35100355 CAATAATAAA
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
20 21 0.34
21 18 0.30
22 5 0.08
23 15 0.25
24 2 0.03
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
AAAAATATATTTAAAATTTT
Found at i:35100346 original size:44 final size:41
Alignment explanation
Indices: 35100264--35100359 Score: 111
Period size: 44 Copynumber: 2.2 Consensus size: 41
35100254 ATAATATTAA
* * *
35100264 AAAAATTATATTTAAAATTTTAAAAATATATTTAAAATTTT
1 AAAAATAATATTTAAAAATTTAAAAATACATTTAAAATTTT
*
35100305 AAAAATAATATTATAAAAAATTTAAAATATACATTTCAAATTTT
1 AAAAATAATATT-T-AAAAATTTAAAA-ATACATTTAAAATTTT
*
35100349 ATAAAACAATA
1 A-AAAATAATA
35100360 ATAAACAAAT
Statistics
Matches: 46, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
41 11 0.24
42 1 0.02
43 11 0.24
44 15 0.33
45 8 0.17
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (41 bp):
AAAAATAATATTTAAAAATTTAAAAATACATTTAAAATTTT
Found at i:35100417 original size:24 final size:22
Alignment explanation
Indices: 35100390--35100443 Score: 83
Period size: 24 Copynumber: 2.4 Consensus size: 22
35100380 AATAAAGGAC
35100390 AAATAAAAAACTTAAAAAGTAAA
1 AAATAAAAAACTTAAAAAG-AAA
35100413 TAAATAAAAAACTTAAAAAGAAA
1 -AAATAAAAAACTTAAAAAGAAA
35100436 AAA-AAAAA
1 AAATAAAAA
35100444 GAGAAAAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
21 5 0.17
22 3 0.10
23 3 0.10
24 19 0.63
ACGTcount: A:0.78, C:0.04, G:0.04, T:0.15
Consensus pattern (22 bp):
AAATAAAAAACTTAAAAAGAAA
Found at i:35103398 original size:88 final size:89
Alignment explanation
Indices: 35103229--35103406 Score: 270
Period size: 88 Copynumber: 2.0 Consensus size: 89
35103219 AACATACTGT
*
35103229 TGAGAGGGAAAACAATTATCAATTTTGGTTAATACAATTTCCTTCATTATTCTCTCCTCTTCTCA
1 TGAGAGGGAAAACAATTATCAATTTTGGTTAATACAA--T-CTTCATTATTCTCTCCTATTCTCA
*
35103294 ATTCCTTCTATCTTTTCTCTTTGCTGC
63 ATTCCCTCTATCTTTTCTCTTTGCTGC
* *
35103321 TGAGAGGGGAAAA-AATTATCAATTTTGGTTAATACAA-CTTCTTTATTCTCTCTTATTCTCAAT
1 TGAGA-GGGAAAACAATTATCAATTTTGGTTAATACAATCTTCATTATTCTCTCCTATTCTCAAT
35103384 TCCCTCTATCTTTTCTCTTTGCT
65 TCCCTCTATCTTTTCTCTTTGCT
35103407 TTCTAATCTT
Statistics
Matches: 81, Mismatches: 4, Indels: 6
0.89 0.04 0.07
Matches are distributed among these distances:
88 45 0.56
92 29 0.36
93 7 0.09
ACGTcount: A:0.24, C:0.21, G:0.10, T:0.45
Consensus pattern (89 bp):
TGAGAGGGAAAACAATTATCAATTTTGGTTAATACAATCTTCATTATTCTCTCCTATTCTCAATT
CCCTCTATCTTTTCTCTTTGCTGC
Found at i:35103455 original size:29 final size:28
Alignment explanation
Indices: 35103413--35103469 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 28
35103403 TGCTTTCTAA
35103413 TCTTTTCTGGTTCAGGCCGTATCAAAGGT
1 TCTTTTCTGGTTCA-GCCGTATCAAAGGT
*
35103442 TCTTTTCTGGTTCAGCTGTATCAAAGGT
1 TCTTTTCTGGTTCAGCCGTATCAAAGGT
35103470 ATTAGAACCT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
28 13 0.48
29 14 0.52
ACGTcount: A:0.18, C:0.19, G:0.23, T:0.40
Consensus pattern (28 bp):
TCTTTTCTGGTTCAGCCGTATCAAAGGT
Found at i:35107731 original size:24 final size:24
Alignment explanation
Indices: 35107674--35107731 Score: 64
Period size: 24 Copynumber: 2.4 Consensus size: 24
35107664 GAGTATTTTA
* *
35107674 TTTATTTAATATTGATACAATTAT
1 TTTATTTAATATTAATACAATAAT
* *
35107698 TTTATGTAATATTAATATAA-AAT
1 TTTATTTAATATTAATACAATAAT
35107721 TTTCATTTAAT
1 TTT-ATTTAAT
35107732 TATATTTTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.53
Consensus pattern (24 bp):
TTTATTTAATATTAATACAATAAT
Found at i:35109226 original size:21 final size:20
Alignment explanation
Indices: 35109202--35109241 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
35109192 ACTAATATTA
*
35109202 TATTAAAAATTTCATAAATAT
1 TATT-AAAATTTCAAAAATAT
*
35109223 TATTATAATTTCAAAAATA
1 TATTAAAATTTCAAAAATA
35109242 AAAGTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (20 bp):
TATTAAAATTTCAAAAATAT
Found at i:35109379 original size:26 final size:26
Alignment explanation
Indices: 35109349--35109407 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
35109339 AAGAAAAAAA
*
35109349 TCAAATAAATAAATAATATAATTTAT
1 TCAAAAAAATAAATAATATAATTTAT
35109375 TCAAAAAAATAAATAATATAATTTAT
1 TCAAAAAAATAAATAATATAATTTAT
35109401 TCAAAAA
1 TCAAAAA
35109408 TATTTATCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (26 bp):
TCAAAAAAATAAATAATATAATTTAT
Found at i:35113870 original size:2 final size:2
Alignment explanation
Indices: 35113863--35113897 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
35113853 TTTTATGTAT
35113863 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
35113898 TATGTTATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:35119530 original size:13 final size:14
Alignment explanation
Indices: 35119502--35119534 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
35119492 TTGAATGGTG
*
35119502 TGCATTTTTCATTT
1 TGCATTTTACATTT
35119516 TGCATTTTACA-TT
1 TGCATTTTACATTT
35119529 TGCATT
1 TGCATT
35119535 AGTCTTTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.44
14 10 0.56
ACGTcount: A:0.18, C:0.15, G:0.09, T:0.58
Consensus pattern (14 bp):
TGCATTTTACATTT
Found at i:35121455 original size:6 final size:6
Alignment explanation
Indices: 35121439--35121469 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
35121429 CGCTCACTCC
35121439 TCCCATT TCCCTT TCCCTT TCCCTT TCCCTT
1 TCCC-TT TCCCTT TCCCTT TCCCTT TCCCTT
35121470 CCTCCATCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.03, C:0.48, G:0.00, T:0.48
Consensus pattern (6 bp):
TCCCTT
Found at i:35121685 original size:32 final size:31
Alignment explanation
Indices: 35121643--35121756 Score: 113
Period size: 32 Copynumber: 3.6 Consensus size: 31
35121633 TTTTCTTTGG
*
35121643 TTTTCTTTTCTTTTATTTAATTATTTATTTAT
1 TTTTATTTTCTTTTATTTAATTATTT-TTTAT
* *
35121675 TTTTATTTTCTTTTATTTACTTCTTTTATTAT
1 TTTTATTTTCTTTTATTTAATTATTTT-TTAT
* * * *
35121707 TATTATTATTCTCTTAGCTT-ATTATTTCTTAT
1 TTTTATT-TTCTTTTA-TTTAATTATTTTTTAT
*
35121739 TTTTATTTTATTTTATTT
1 TTTTATTTTCTTTTATTT
35121757 TAGTATCATT
Statistics
Matches: 66, Mismatches: 13, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
30 2 0.03
31 7 0.11
32 43 0.65
33 12 0.18
34 2 0.03
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.73
Consensus pattern (31 bp):
TTTTATTTTCTTTTATTTAATTATTTTTTAT
Found at i:35121689 original size:16 final size:16
Alignment explanation
Indices: 35121643--35121757 Score: 51
Period size: 16 Copynumber: 7.2 Consensus size: 16
35121633 TTTTCTTTGG
*
35121643 TTTTCTTTTCTTTTAT
1 TTTTATTTTCTTTTAT
*
35121659 TTAATTA-TTT-ATTTAT
1 TT--TTATTTTCTTTTAT
35121675 TTTTATTTTCTTTTAT
1 TTTTATTTTCTTTTAT
* *
35121691 TTACTTCTTTTATTATTAT
1 TT--TTATTTTCTT-TTAT
* * ***
35121710 TATTATTCTCTTAGCT
1 TTTTATTTTCTTTTAT
*
35121726 TATTA-TTTC--TTAT
1 TTTTATTTTCTTTTAT
*
35121739 TTTTATTTTATTTTAT
1 TTTTATTTTCTTTTAT
35121755 TTT
1 TTT
35121758 AGTATCATTA
Statistics
Matches: 71, Mismatches: 18, Indels: 20
0.65 0.17 0.18
Matches are distributed among these distances:
13 5 0.07
14 6 0.08
15 6 0.08
16 29 0.41
17 10 0.14
18 10 0.14
19 5 0.07
ACGTcount: A:0.18, C:0.08, G:0.01, T:0.73
Consensus pattern (16 bp):
TTTTATTTTCTTTTAT
Found at i:35124905 original size:48 final size:47
Alignment explanation
Indices: 35124848--35124939 Score: 175
Period size: 48 Copynumber: 1.9 Consensus size: 47
35124838 GTTTTGTAAG
35124848 ATTGGTTTTGGGTACGGCTTTTTCTTCTTCTTCTTCTTTTCCCTGAA
1 ATTGGTTTTGGGTACGGCTTTTTCTTCTTCTTCTTCTTTTCCCTGAA
35124895 ATTGGTTTTTGGGTACGGCTTTTTCTTCTTCTTCTTCTTTTCCCT
1 ATTGG-TTTTGGGTACGGCTTTTTCTTCTTCTTCTTCTTTTCCCT
35124940 AACTGATCTG
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 5 0.11
48 39 0.89
ACGTcount: A:0.07, C:0.22, G:0.16, T:0.55
Consensus pattern (47 bp):
ATTGGTTTTGGGTACGGCTTTTTCTTCTTCTTCTTCTTTTCCCTGAA
Found at i:35125667 original size:18 final size:18
Alignment explanation
Indices: 35125622--35125685 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
35125612 ATGAAATAAG
35125622 TTATATGTTGTTGTTC-T
1 TTATATGTTGTTGTTCAT
*
35125639 TTAGGGA-GTTGTTGTTCAT
1 TTA--TATGTTGTTGTTCAT
35125658 TTATATGTTGTTGTTCAT
1 TTATATGTTGTTGTTCAT
*
35125676 TTATAAGTTG
1 TTATATGTTG
35125686 AAGTTTCAAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 4 0.10
18 31 0.77
19 5 0.12
ACGTcount: A:0.17, C:0.05, G:0.22, T:0.56
Consensus pattern (18 bp):
TTATATGTTGTTGTTCAT
Found at i:35128733 original size:93 final size:93
Alignment explanation
Indices: 35128621--35128792 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
35128611 CGCCCATAAG
* *
35128621 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35128686 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
35128714 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35128779 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
35128793 TCAACCATCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:35128789 original size:46 final size:46
Alignment explanation
Indices: 35128614--35128789 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
35128604 TGTAACCCGC
* * *
35128614 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* *
35128660 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
35128710 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
35128753 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
35128790 TGCTCAACCA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:35139450 original size:93 final size:93
Alignment explanation
Indices: 35139338--35139509 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
35139328 CGCCCATAAG
* *
35139338 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35139403 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* *
35139431 CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
35139496 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
35139510 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:35139506 original size:46 final size:46
Alignment explanation
Indices: 35139331--35139506 Score: 214
Period size: 46 Copynumber: 3.8 Consensus size: 46
35139321 TGTAACCCGC
* * * *
35139331 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * *
35139377 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
*
35139427 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
35139470 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
35139507 TGCTCAACCA
Statistics
Matches: 110, Mismatches: 13, Indels: 14
0.80 0.09 0.10
Matches are distributed among these distances:
43 6 0.05
44 2 0.02
45 2 0.02
46 63 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:35141073 original size:16 final size:16
Alignment explanation
Indices: 35141049--35141092 Score: 52
Period size: 18 Copynumber: 2.6 Consensus size: 16
35141039 GTAAAATAAT
* *
35141049 TTAAAATATAAGTTTA
1 TTAATATATAAATTTA
35141065 TTAATATATATAAATTTA
1 TT-A-ATATATAAATTTA
35141083 TTAATATATA
1 TTAATATATA
35141093 TGTAAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 9 0.38
17 2 0.08
18 13 0.54
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (16 bp):
TTAATATATAAATTTA
Found at i:35141077 original size:18 final size:18
Alignment explanation
Indices: 35141054--35141093 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
35141044 ATAATTTAAA
*
35141054 ATATAAGTTTATTAATAT
1 ATATAAATTTATTAATAT
35141072 ATATAAATTTATTAATAT
1 ATATAAATTTATTAATAT
35141090 ATAT
1 ATAT
35141094 GTAAAAACAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (18 bp):
ATATAAATTTATTAATAT
Found at i:35141235 original size:14 final size:14
Alignment explanation
Indices: 35141184--35141228 Score: 72
Period size: 14 Copynumber: 3.2 Consensus size: 14
35141174 CCAAAAAAGT
*
35141184 AAATCATTTTTCAG
1 AAATCATTTTCCAG
35141198 AAATCATTTTCCAG
1 AAATCATTTTCCAG
*
35141212 AAATCATTTTCCGG
1 AAATCATTTTCCAG
35141226 AAA
1 AAA
35141229 ATATTTTACC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (14 bp):
AAATCATTTTCCAG
Found at i:35141365 original size:22 final size:24
Alignment explanation
Indices: 35141338--35141387 Score: 70
Period size: 22 Copynumber: 2.2 Consensus size: 24
35141328 ATGAAAAGTG
35141338 TATACATAATA-ATACTA-A-AATA
1 TATACATAATATATA-TACATAATA
35141360 TATACATAATATATATACATAATA
1 TATACATAATATATATACATAATA
35141384 TATA
1 TATA
35141388 TAAATGAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 13 0.52
23 4 0.16
24 8 0.32
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (24 bp):
TATACATAATATATATACATAATA
Found at i:35141370 original size:11 final size:11
Alignment explanation
Indices: 35141338--35141387 Score: 57
Period size: 11 Copynumber: 4.4 Consensus size: 11
35141328 ATGAAAAGTG
35141338 TATACATAATA
1 TATACATAATA
*
35141349 -ATACTAAAATA
1 TATAC-ATAATA
35141360 TATACATAATATA
1 TATACAT-A-ATA
35141373 TATACATAATA
1 TATACATAATA
35141384 TATA
1 TATA
35141388 TAAATGAACA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 4 0.12
11 13 0.39
12 6 0.18
13 10 0.30
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
TATACATAATA
Found at i:35141375 original size:13 final size:13
Alignment explanation
Indices: 35141338--35141389 Score: 67
Period size: 13 Copynumber: 4.3 Consensus size: 13
35141328 ATGAAAAGTG
35141338 TATACAT-A-ATA
1 TATACATAATATA
*
35141349 -ATAC-TAAAATA
1 TATACATAATATA
35141360 TATACATAATATA
1 TATACATAATATA
35141373 TATACATAATATA
1 TATACATAATATA
35141386 TATA
1 TATA
35141390 AATGAACATA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
9 1 0.03
10 5 0.14
11 3 0.08
12 4 0.11
13 23 0.64
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.37
Consensus pattern (13 bp):
TATACATAATATA
Found at i:35141484 original size:47 final size:49
Alignment explanation
Indices: 35141367--35141493 Score: 120
Period size: 50 Copynumber: 2.6 Consensus size: 49
35141357 ATATATACAT
* *
35141367 AATATATATACATAAT-ATATATAAATGAACATATACAATATCTATTATA
1 AATATA-ATACATAATAATATATAAATAAACATATACAATATATATTATA
* * * *
35141416 AATATTAATAACATAAAAATATATTAATAAATATGTAC-ATATATATTGA-A
1 AATA-TAAT-ACATAATAATATATAAATAAACATATACAATATATATT-ATA
35141466 AATA-AATACATAATAATAT-TAAAATAAA
1 AATATAATACATAATAATATAT-AAATAAA
35141494 ATAATAAGTG
Statistics
Matches: 65, Mismatches: 8, Indels: 12
0.76 0.09 0.14
Matches are distributed among these distances:
46 1 0.02
47 17 0.26
48 3 0.05
49 6 0.09
50 21 0.32
51 17 0.26
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (49 bp):
AATATAATACATAATAATATATAAATAAACATATACAATATATATTATA
Found at i:35141496 original size:23 final size:22
Alignment explanation
Indices: 35141433--35141493 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
35141423 ATAACATAAA
* **
35141433 AATATATTAATAAATATGTACAT
1 AATATATTGA-AAATAAATACAT
35141456 -ATATATTGAAAATAAATACAT
1 AATATATTGAAAATAAATACAT
35141477 AATAATATT-AAAATAAA
1 AAT-ATATTGAAAATAAA
35141494 ATAATAAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 10 0.30
22 18 0.55
23 5 0.15
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (22 bp):
AATATATTGAAAATAAATACAT
Found at i:35141500 original size:22 final size:23
Alignment explanation
Indices: 35141451--35141493 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
35141441 AATAAATATG
35141451 TACAT-AT-ATATTGAAAATAAA
1 TACATAATAATATTGAAAATAAA
35141472 TACATAATAATATT-AAAATAAA
1 TACATAATAATATTGAAAATAAA
35141494 ATAATAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (23 bp):
TACATAATAATATTGAAAATAAA
Found at i:35141802 original size:22 final size:22
Alignment explanation
Indices: 35141713--35141829 Score: 94
Period size: 24 Copynumber: 5.0 Consensus size: 22
35141703 AGTGTTTAAG
*
35141713 AATATATACATAAGATGATATAAA
1 AATATATACATAATAT-ATAT-AA
*
35141737 AATATGTACATGGAATAGTATATAA
1 AATATATACAT--AATA-TATATAA
*
35141762 AAAATATA-ACTAATA-ATATTGAA
1 AATATATACA-TAATATATA-T-AA
35141785 AATATATACATAATATATATAA
1 AATATATACATAATATATATAA
*
35141807 AACATATACGATATATATATATA
1 AATATATAC-ATA-ATATATATA
35141830 CATTAGAAAT
Statistics
Matches: 77, Mismatches: 6, Indels: 20
0.75 0.06 0.19
Matches are distributed among these distances:
21 3 0.04
22 11 0.14
23 22 0.29
24 24 0.31
25 9 0.12
26 7 0.09
27 1 0.01
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (22 bp):
AATATATACATAATATATATAA
Found at i:35141824 original size:24 final size:22
Alignment explanation
Indices: 35141716--35141829 Score: 81
Period size: 23 Copynumber: 4.8 Consensus size: 22
35141706 GTTTAAGAAT
*
35141716 ATATACATAAGATGATATAAAA-
1 ATATACATAATAT-ATATAAAAC
*
35141738 ATATGTACATGGAATAGTATATAAAAA
1 ATA--TACAT--AATA-TATATAAAAC
*
35141765 ATATA-ACTAATA-ATATTGAAAAT
1 ATATACA-TAATATATA-T-AAAAC
35141788 ATATACATAATATATATAAAAC
1 ATATACATAATATATATAAAAC
35141810 ATATACGATATATATATATA
1 ATATAC-ATA-ATATATATA
35141830 CATTAGAAAT
Statistics
Matches: 76, Mismatches: 3, Indels: 24
0.74 0.03 0.23
Matches are distributed among these distances:
21 3 0.04
22 14 0.18
23 22 0.29
24 19 0.25
25 3 0.04
26 11 0.14
27 4 0.05
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.32
Consensus pattern (22 bp):
ATATACATAATATATATAAAAC
Found at i:35141937 original size:23 final size:22
Alignment explanation
Indices: 35141902--35141944 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
35141892 CATATATAAA
*
35141902 TAATAATGATATTAGAAATACT
1 TAATAATAATATTAGAAATACT
35141924 TAATATATAATATTAGAAATA
1 TAATA-ATAATATTAGAAATA
35141945 TATACATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.37
Consensus pattern (22 bp):
TAATAATAATATTAGAAATACT
Found at i:35141955 original size:11 final size:11
Alignment explanation
Indices: 35141941--35142006 Score: 57
Period size: 11 Copynumber: 6.1 Consensus size: 11
35141931 TAATATTAGA
35141941 AATATATACAT
1 AATATATACAT
35141952 AATATA-A-A-
1 AATATATACAT
*
35141960 AATATATATAT
1 AATATATACAT
* * *
35141971 AATGTAGTATTAA
1 AATATA-TA-CAT
35141984 AATATATACAT
1 AATATATACAT
35141995 AATATATACAT
1 AATATATACAT
35142006 A
1 A
35142007 TTAAAAATAA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
8 6 0.13
9 2 0.04
10 2 0.04
11 24 0.53
12 4 0.09
13 7 0.16
ACGTcount: A:0.56, C:0.05, G:0.03, T:0.36
Consensus pattern (11 bp):
AATATATACAT
Found at i:35142030 original size:18 final size:20
Alignment explanation
Indices: 35141993--35142031 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
35141983 AAATATATAC
35141993 ATAATATATACATATTAAAA
1 ATAATATATACATATTAAAA
*
35142013 ATAATA-ATA-ATGTTAAAA
1 ATAATATATACATATTAAAA
35142031 A
1 A
35142032 AACTATTGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
ATAATATATACATATTAAAA
Found at i:35142936 original size:12 final size:12
Alignment explanation
Indices: 35142914--35142951 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
35142904 AAAAATTCTC
35142914 TCTCTTTTTTATT
1 TCTC-TTTTTATT
35142927 AT-TCTTTTTATT
1 -TCTCTTTTTATT
35142939 TCTCTTTTTATT
1 TCTCTTTTTATT
35142951 T
1 T
35142952 ATCTATACAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.04
12 19 0.83
13 2 0.09
14 1 0.04
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (12 bp):
TCTCTTTTTATT
Found at i:35144148 original size:87 final size:88
Alignment explanation
Indices: 35143988--35144343 Score: 359
Period size: 87 Copynumber: 4.0 Consensus size: 88
35143978 AACAGACATT
* * * * * *
35143988 AAAAACAGAAATTGAAAATAGCTCAGCACGTGAGCCAAGGCTCAACTCACCTCTCACAATATGAG
1 AAAAGCAGAAATTGAAAATACCTCAGCATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGAG
* **
35144053 TT-AGTTTTT-AAAACTTAGTTTG
65 TTGATTTTTTGAAAACTTAAATTG
**
35144075 AAAAGCAGATTTTGAAAATACCTC-GACATGTGACCCGAGGCTCAACTCACCTCTCGCAATATGA
1 AAAAGCAGAAATTGAAAATACCTCAG-CATGTG-CCCGAGGCTCAACTCACCTCTCGCAATATGA
*
35144139 GTTGA-TTTTTGAAAAATATAAATTG
64 GTTGATTTTTTGAAAACT-TAAATTG
* * * * *
35144164 AAAAAACAGAAATTAAAAATACTTCAGCATGT-TCTGAGGCTCAACTCACCTCTCGCAATATGAG
1 -AAAAGCAGAAATTGAAAATACCTCAGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAG
**
35144228 TTGATTTTTTTGAAAAGCAGAAATTG
65 TTGA-TTTTTTGAAAA-CTTAAATTG
* * *
35144254 AAAAGTAAAAATTGAAAATACCTCAGC--GTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAG
1 AAAAGCAGAAATTGAAAATACCTCAGCATGTGCCC-GAGGCTCAACTCACCTCTCGCAATATGAG
**
35144317 TTGA-TTTTTGACAAACAAAAATTG
65 TTGATTTTTTGA-AAACTTAAATTG
35144341 AAA
1 AAA
35144344 TTACCTCAGC
Statistics
Matches: 227, Mismatches: 30, Indels: 24
0.81 0.11 0.09
Matches are distributed among these distances:
86 1 0.00
87 82 0.36
88 44 0.19
89 59 0.26
90 40 0.18
91 1 0.00
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (88 bp):
AAAAGCAGAAATTGAAAATACCTCAGCATGTGCCCGAGGCTCAACTCACCTCTCGCAATATGAGT
TGATTTTTTGAAAACTTAAATTG
Found at i:35144256 original size:14 final size:14
Alignment explanation
Indices: 35144237--35144271 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
35144227 GTTGATTTTT
*
35144237 TTGAAAAGCAGAAA
1 TTGAAAAGCAAAAA
*
35144251 TTGAAAAGTAAAAA
1 TTGAAAAGCAAAAA
35144265 TTGAAAA
1 TTGAAAA
35144272 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAGCAAAAA
Found at i:35144296 original size:89 final size:87
Alignment explanation
Indices: 35144025--35144343 Score: 328
Period size: 89 Copynumber: 3.6 Consensus size: 87
35144015 ACGTGAGCCA
* * * ** * * **
35144025 AGGCTCAACTCACCTCTCACAATATGAGTT-AGTTTTT-AAAACTTAGTTTGAAAAGCAGATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAATTGAAAAGAAAAAATT
35144088 GAAAATACCTC-GACATGTGACCC-G
66 GAAAATACCTCAG-C--GTG-CCCTG
*
35144112 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATATAAATTGAAAA-AACAGAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTG-AAAACATAAATTGAAAAGAA-A-AA
* * * **
35144175 ATTAAAAATACTTCAGCATGTTCTG
63 ATTGAAAATACCTCAGCGTGCCCTG
* *
35144200 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTGAAAAGTAAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTGAAAA-CATAAATTGAAAAGAAAAAA
35144265 TTGAAAATACCTCAGCGTGCCCTG
64 TTGAAAATACCTCAGCGTGCCCTG
* *
35144289 AGGCTCAACTCACCTCTCGCAATATAAGTTGA-TTTTTGACAAACAAAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGA-AAACATAAATTGAAA
35144344 TTACCTCAGC
Statistics
Matches: 196, Mismatches: 24, Indels: 24
0.80 0.10 0.10
Matches are distributed among these distances:
87 53 0.27
88 40 0.20
89 70 0.36
90 31 0.16
91 2 0.01
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.29
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAACATAAATTGAAAAGAAAAAATT
GAAAATACCTCAGCGTGCCCTG
Found at i:35144379 original size:73 final size:73
Alignment explanation
Indices: 35144260--35144477 Score: 312
Period size: 73 Copynumber: 3.0 Consensus size: 73
35144250 ATTGAAAAGT
* *
35144260 AAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTGATTTT
1 AAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
35144325 TGACAA-AC
66 TGA-AAGAC
*
35144333 AAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
1 AAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TT
**
35144398 TTTGAAAGGT
64 TTTGAAAGAC
* * * **
35144408 AGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCATAATATGAGTTGATTTT
1 AAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
35144473 TGAAA
66 TGAAA
35144478 CAGAAATAAA
Statistics
Matches: 131, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
73 67 0.51
74 2 0.02
75 62 0.47
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.30
Consensus pattern (73 bp):
AAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
TGAAAGAC
Found at i:35144444 original size:75 final size:74
Alignment explanation
Indices: 35144255--35144473 Score: 316
Period size: 75 Copynumber: 3.0 Consensus size: 74
35144245 CAGAAATTGA
* *
35144255 AAAGTAAAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATAAGTTG
1 AAAGTAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
35144320 A--TTTTTG
66 ATTTTTTTG
** *
35144327 ACAAACAAAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
1 A-AAGTAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
35144392 GATTTTTTTG
65 GATTTTTTTG
* * * **
35144402 AAAGGTAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCATAATATGAGTT
1 AAA-GTAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTT
35144467 GATTTTT
65 GATTTTT
35144474 GAAACAGAAA
Statistics
Matches: 130, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
72 1 0.01
73 60 0.46
74 2 0.02
75 67 0.52
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.30
Consensus pattern (74 bp):
AAAGTAAAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTG
ATTTTTTTG
Found at i:35154940 original size:3 final size:3
Alignment explanation
Indices: 35154932--35154957 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
35154922 TAAAAGTATG
35154932 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
35154958 TCTACAATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:35155185 original size:23 final size:25
Alignment explanation
Indices: 35155132--35155185 Score: 67
Period size: 23 Copynumber: 2.2 Consensus size: 25
35155122 ATTTGTAATA
*
35155132 ATAATATATACACAATATGGTATTT
1 ATAATATATACACAATATGGTATAT
* *
35155157 AAAATATATATA-AATAT-GTATAT
1 ATAATATATACACAATATGGTATAT
35155180 ATAATA
1 ATAATA
35155186 GTATTTAAGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 10 0.40
24 5 0.20
25 10 0.40
ACGTcount: A:0.52, C:0.04, G:0.06, T:0.39
Consensus pattern (25 bp):
ATAATATATACACAATATGGTATAT
Found at i:35155254 original size:39 final size:37
Alignment explanation
Indices: 35155157--35155254 Score: 99
Period size: 39 Copynumber: 2.6 Consensus size: 37
35155147 TATGGTATTT
* * * *
35155157 AAAATATATATA-AATATGTATATATAATAGTATTTA
1 AAAATATATACATAATATATATATATAATAGCATTAA
* * * *
35155193 AGAATATATACATAAGAAATATATAACTAATGGCATTAA
1 AAAATATATACATAATATATATAT-A-TAATAGCATTAA
35155232 AAAATATATACATAATATATATA
1 AAAATATATACATAATATATATA
35155255 AAATACCTAA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
36 10 0.21
37 8 0.17
38 1 0.02
39 29 0.60
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (37 bp):
AAAATATATACATAATATATATATATAATAGCATTAA
Found at i:35155783 original size:33 final size:31
Alignment explanation
Indices: 35155735--35155836 Score: 150
Period size: 33 Copynumber: 3.2 Consensus size: 31
35155725 GTGGCTAGGG
**
35155735 TTTTTTTAGTTTTTTTTTTGGGGTTAGGTTT
1 TTTTTTTTCTTTTTTTTTTGGGGTTAGGTTT
35155766 TTATTTTTTCTTCTTTTTTTTGGGGTTAGGTTT
1 TT-TTTTTTCTT-TTTTTTTTGGGGTTAGGTTT
*
35155799 TTCTTTTTTCTTTTTTTTTTTGGGTTAGGTTT
1 TT-TTTTTTCTTTTTTTTTTGGGGTTAGGTTT
35155831 TTTTTT
1 TTTTTT
35155837 GGGGGGTTAA
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
31 6 0.09
32 28 0.43
33 31 0.48
ACGTcount: A:0.05, C:0.04, G:0.18, T:0.74
Consensus pattern (31 bp):
TTTTTTTTCTTTTTTTTTTGGGGTTAGGTTT
Found at i:35156573 original size:75 final size:76
Alignment explanation
Indices: 35156436--35156580 Score: 229
Period size: 75 Copynumber: 1.9 Consensus size: 76
35156426 GACATTAAAA
* *
35156436 ACAGAAATTGAAAATACCTCGGCGTGTGACCTGAGGCTCAACTCGCCGCTCGCAATACGAGTTGA
1 ACAGAAATTGAAAATACCTCAGCGTGT-ACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGA
35156501 TTTTTTTGAAAG
65 TTTTTTTGAAAG
* * *
35156513 ACAGAAATTGAAATTACCTCAGCGTGT-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGAT
1 ACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGAT
35156577 TTTT
66 TTTT
35156581 AAAAAGTAGA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
75 38 0.60
77 25 0.40
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (76 bp):
ACAGAAATTGAAAATACCTCAGCGTGTACCTGAGGCTCAACTCACCGCTCGCAATACGAGTTGAT
TTTTTTGAAAG
Found at i:35156648 original size:54 final size:55
Alignment explanation
Indices: 35156548--35156653 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
35156538 GTCCTGAGGC
* * *
35156548 TCAACTCACCTCTCGCAATATGAGTTGATTTTTAAAAAGTAGAAATT-AAAAGGT
1 TCAACCCACCTCTCGCAATATGAGTTGATTTTGAAAAAGCAGAAATTGAAAAGGT
* *
35156602 TCAACCCACCTCTCGCAATATGAGTTGATTCTTGAACAA-CATAAATTGAAAA
1 TCAACCCACCTCTCGCAATATGAGTTGATT-TTGAAAAAGCAGAAATTGAAAA
35156654 CAGAAATTGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 35 0.78
55 10 0.22
ACGTcount: A:0.39, C:0.19, G:0.13, T:0.29
Consensus pattern (55 bp):
TCAACCCACCTCTCGCAATATGAGTTGATTTTGAAAAAGCAGAAATTGAAAAGGT
Found at i:35156660 original size:13 final size:13
Alignment explanation
Indices: 35156633--35156666 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
35156623 GAGTTGATTC
*
35156633 TTGAACAACATAAA
1 TTGAA-AACAGAAA
35156647 TTGAAAACAGAAA
1 TTGAAAACAGAAA
35156660 TTGAAAA
1 TTGAAAA
35156667 TACCTCAGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.59, C:0.09, G:0.12, T:0.21
Consensus pattern (13 bp):
TTGAAAACAGAAA
Found at i:35156765 original size:140 final size:141
Alignment explanation
Indices: 35156506--35156766 Score: 445
Period size: 140 Copynumber: 1.9 Consensus size: 141
35156496 GTTGATTTTT
* *
35156506 TTGAAAGACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
* *
35156571 GTTGATTTTTAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTG
66 GCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTG
35156636 AACAACATAAA
131 AACAACATAAA
*
35156647 TTGAAA-ACAGAAATTGAAAATACCTCAGCGTGACCTGGGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAGACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
*
35156711 GCTGATTTTGAAAAAGTAGAAATTAAAAGGCTT-AACTCACCTCTCGCAATATGAGT
66 GCTGATTTTGAAAAAGTAGAAATTAAAAGG-TTCAACCCACCTCTCGCAATATGAGT
35156767 CAATTTAAAA
Statistics
Matches: 113, Mismatches: 6, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
140 105 0.93
141 8 0.07
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (141 bp):
TTGAAAGACAGAAATTGAAAATACCTCAGCGTGACCTGAGGCTCAACTCACCTCTCGCAATATGA
GCTGATTTTGAAAAAGTAGAAATTAAAAGGTTCAACCCACCTCTCGCAATATGAGTTGATTCTTG
AACAACATAAA
Found at i:35156867 original size:71 final size:70
Alignment explanation
Indices: 35156738--35156913 Score: 230
Period size: 71 Copynumber: 2.5 Consensus size: 70
35156728 AGAAATTAAA
* * * * * *
35156738 AGGCTTAACTCACCTCTCGCAATATGAG-TCAATTTAAAACATAAATTAAAAATACCTCAGCGTG
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
35156802 CCCCG
66 CCCCG
*
35156807 AGGCTCAACTCACTTCTCGCAATATAAGTTGATTTTGAAAACAAAAATTAAAAATACCTCAACGT
1 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTT-AAAACAAAAATTAAAAATACCTCAACGT
* **
35156872 GTCTTG
65 GCCCCG
35156878 AGGCTCAACTCA-TCTCTCGCAATATGAGTTGATTTT
1 AGGCTCAACTCACT-TCTCGCAATATGAGTTGATTTT
35156914 CCTTGAAAAG
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
69 25 0.27
70 6 0.06
71 62 0.67
ACGTcount: A:0.35, C:0.23, G:0.14, T:0.29
Consensus pattern (70 bp):
AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTAAAACAAAAATTAAAAATACCTCAACGTG
CCCCG
Found at i:35164538 original size:31 final size:32
Alignment explanation
Indices: 35164471--35164563 Score: 145
Period size: 31 Copynumber: 2.9 Consensus size: 32
35164461 GTTTTTTTAG
35164471 TTTTTTTTTTGGGGTTAGGTTTTTCTTTTTTCTTC
1 TTTTTTTTTT-GGGTTAGGTTTTTC--TTTTCTTC
35164506 TTTTTTTTTTGGGTTAGGTTTTTCTTTT-TTC
1 TTTTTTTTTTGGGTTAGGTTTTTCTTTTCTTC
35164537 TTTTTTTTTTGGGTTAGGTTTTT-TTTT
1 TTTTTTTTTTGGGTTAGGTTTTTCTTTT
35164564 GGGGGGGTTA
Statistics
Matches: 58, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
30 4 0.07
31 26 0.45
32 4 0.07
34 14 0.24
35 10 0.17
ACGTcount: A:0.03, C:0.05, G:0.17, T:0.74
Consensus pattern (32 bp):
TTTTTTTTTTGGGTTAGGTTTTTCTTTTCTTC
Found at i:35167053 original size:22 final size:24
Alignment explanation
Indices: 35167026--35167075 Score: 70
Period size: 22 Copynumber: 2.2 Consensus size: 24
35167016 ATGAAAAGTG
35167026 TATACATAATA-ATACTA-A-AATA
1 TATACATAATATATA-TACATAATA
35167048 TATACATAATATATATACATAATA
1 TATACATAATATATATACATAATA
35167072 TATA
1 TATA
35167076 TAAAATGAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 13 0.52
23 4 0.16
24 8 0.32
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (24 bp):
TATACATAATATATATACATAATA
Found at i:35167058 original size:11 final size:11
Alignment explanation
Indices: 35167026--35167075 Score: 57
Period size: 11 Copynumber: 4.4 Consensus size: 11
35167016 ATGAAAAGTG
35167026 TATACATAATA
1 TATACATAATA
*
35167037 -ATACTAAAATA
1 TATAC-ATAATA
35167048 TATACATAATATA
1 TATACAT-A-ATA
35167061 TATACATAATA
1 TATACATAATA
35167072 TATA
1 TATA
35167076 TAAAATGAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 4 0.12
11 13 0.39
12 6 0.18
13 10 0.30
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (11 bp):
TATACATAATA
Found at i:35167063 original size:13 final size:13
Alignment explanation
Indices: 35167026--35167077 Score: 67
Period size: 13 Copynumber: 4.3 Consensus size: 13
35167016 ATGAAAAGTG
35167026 TATACAT-A-ATA
1 TATACATAATATA
*
35167037 -ATAC-TAAAATA
1 TATACATAATATA
35167048 TATACATAATATA
1 TATACATAATATA
35167061 TATACATAATATA
1 TATACATAATATA
35167074 TATA
1 TATA
35167078 AAATGAACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
9 1 0.03
10 5 0.14
11 3 0.08
12 4 0.11
13 23 0.64
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.37
Consensus pattern (13 bp):
TATACATAATATA
Found at i:35167185 original size:23 final size:22
Alignment explanation
Indices: 35167122--35167182 Score: 63
Period size: 22 Copynumber: 2.8 Consensus size: 22
35167112 ATAACATAAA
* **
35167122 AATATATTAATAAATATGTACAT
1 AATATATTGA-AAATAAATACAT
35167145 -ATATATTGAAAATAAATACAT
1 AATATATTGAAAATAAATACAT
35167166 AATAATATT-AAAATAAA
1 AAT-ATATTGAAAATAAA
35167183 ATAATAAGTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
21 10 0.30
22 18 0.55
23 5 0.15
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.34
Consensus pattern (22 bp):
AATATATTGAAAATAAATACAT
Found at i:35167189 original size:22 final size:23
Alignment explanation
Indices: 35167140--35167182 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
35167130 AATAAATATG
35167140 TACAT-AT-ATATTGAAAATAAA
1 TACATAATAATATTGAAAATAAA
35167161 TACATAATAATATT-AAAATAAA
1 TACATAATAATATTGAAAATAAA
35167183 ATAATAAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 10 0.50
23 5 0.25
ACGTcount: A:0.60, C:0.05, G:0.02, T:0.33
Consensus pattern (23 bp):
TACATAATAATATTGAAAATAAA
Found at i:35167243 original size:18 final size:16
Alignment explanation
Indices: 35167222--35167269 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 16
35167212 GTATAATAAT
35167222 AAATATAATGATATATGA
1 AAATATAAT-ATATAT-A
*
35167240 AAATAATACTATATATA
1 AAAT-ATAATATATATA
35167257 AAATAT-ATATATA
1 AAATATAATATATA
35167270 CACGTATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 6 0.22
16 2 0.07
17 5 0.19
18 10 0.37
19 4 0.15
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.35
Consensus pattern (16 bp):
AAATATAATATATATA
Found at i:35167487 original size:22 final size:21
Alignment explanation
Indices: 35167453--35167493 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 21
35167443 AGTATATAAA
35167453 AAATATAACTAATA-ATATTG
1 AAATATAACTAATATATATTG
35167473 AAATATATACATAATATATAT
1 AAATATA-AC-TAATATATAT
35167494 AAAACATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 7 0.39
21 2 0.11
22 5 0.28
23 4 0.22
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (21 bp):
AAATATAACTAATATATATTG
Found at i:35167502 original size:22 final size:21
Alignment explanation
Indices: 35167370--35167516 Score: 75
Period size: 22 Copynumber: 6.4 Consensus size: 21
35167360 AAAAATATGT
* * *
35167370 ATATATATATATATATATATA
1 ATATATATAAAAATATACATA
* *
35167391 ATAGTGTTTAAGAATATATACATA
1 ATA-TATATAA-AA-ATATACATA
*
35167415 AGATGATATAAAAATATGTACATGGA
1 ATAT-ATATAAAAATA--TACAT--A
35167441 ATAGTATATAAAAAATATA-ACTA
1 ATA-TATAT-AAAAATATACA-TA
*
35167464 ATA-ATATTGAAATATATACATA
1 ATATATA-T-AAAAATATACATA
35167486 ATATATATAAAACATATACGAT-
1 ATATATATAAAA-ATATAC-ATA
35167508 ATATATATA
1 ATATATATA
35167517 CACATTAGAA
Statistics
Matches: 98, Mismatches: 12, Indels: 31
0.70 0.09 0.22
Matches are distributed among these distances:
21 9 0.09
22 37 0.38
23 14 0.14
24 20 0.20
25 3 0.03
26 7 0.07
27 8 0.08
ACGTcount: A:0.53, C:0.04, G:0.07, T:0.35
Consensus pattern (21 bp):
ATATATATAAAAATATACATA
Found at i:35167626 original size:23 final size:23
Alignment explanation
Indices: 35167590--35167711 Score: 76
Period size: 23 Copynumber: 5.3 Consensus size: 23
35167580 ATATATATAA
*
35167590 ATAATA-ATGATATTAGAAATACT
1 ATAATATATAATATTAGAAATA-T
35167613 -TAATATATAATATTAGAAATAT
1 ATAATATATAATATTAGAAATAT
* *
35167635 ATACATAATATAATA-TATATATAT
1 ATA-AT-ATATAATATTAGAAATAT
* * *
35167659 AT-A-ATGTAGTATTAAAATATAT
1 ATAATATATAATATTAGAA-ATAT
*
35167681 ACATAATATATACATATTAAAAATA-
1 --ATAATATATA-ATATTAGAAATAT
35167706 ATAATA
1 ATAATA
35167712 ATGTTAAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 22
0.72 0.08 0.20
Matches are distributed among these distances:
20 6 0.08
21 3 0.04
22 11 0.14
23 22 0.28
24 13 0.16
25 9 0.11
26 7 0.09
27 8 0.10
ACGTcount: A:0.55, C:0.03, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAATATATAATATTAGAAATAT
Found at i:35167633 original size:16 final size:17
Alignment explanation
Indices: 35167614--35167660 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
35167604 AGAAATACTT
35167614 AATATATA-ATATTAGA
1 AATATATACATATTAGA
* *
35167630 AATATATACATAATATA
1 AATATATACATATTAGA
*
35167647 ATATATATATATAT
1 A-ATATATACATAT
35167661 AATGTAGTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 8 0.32
17 7 0.28
18 10 0.40
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
AATATATACATATTAGA
Found at i:35167644 original size:11 final size:11
Alignment explanation
Indices: 35167630--35167696 Score: 57
Period size: 11 Copynumber: 6.1 Consensus size: 11
35167620 TAATATTAGA
35167630 AATATATACAT
1 AATATATACAT
*
35167641 AATATA-ATAT
1 AATATATACAT
*
35167651 -ATATATATAT
1 AATATATACAT
* * *
35167661 AATGTAGTATTAA
1 AATATA-TA-CAT
35167674 AATATATACAT
1 AATATATACAT
35167685 AATATATACAT
1 AATATATACAT
35167696 A
1 A
35167697 TTAAAAATAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
9 5 0.11
10 7 0.15
11 23 0.50
12 4 0.09
13 7 0.15
ACGTcount: A:0.54, C:0.04, G:0.03, T:0.39
Consensus pattern (11 bp):
AATATATACAT
Found at i:35167644 original size:20 final size:20
Alignment explanation
Indices: 35167599--35167689 Score: 60
Period size: 20 Copynumber: 4.2 Consensus size: 20
35167589 AATAATAATG
*
35167599 ATATTAGAAATACTTAATATATA
1 ATATTAGAAATA--T-ATACATA
35167622 ATATTAGAAATATATACATA
1 ATATTAGAAATATATACATA
*
35167642 ATATAATATATATATATATA-ATGTA
1 ATAT--TAGA-A-ATATATACA--TA
*
35167667 GTATTA-AAATATATACATA
1 ATATTAGAAATATATACATA
35167686 ATAT
1 ATAT
35167690 ATACATATTA
Statistics
Matches: 57, Mismatches: 4, Indels: 18
0.72 0.05 0.23
Matches are distributed among these distances:
19 5 0.09
20 17 0.30
21 3 0.05
22 4 0.07
23 16 0.28
24 7 0.12
25 5 0.09
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.40
Consensus pattern (20 bp):
ATATTAGAAATATATACATA
Found at i:35167707 original size:44 final size:45
Alignment explanation
Indices: 35167623--35167707 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 45
35167613 TAATATATAA
* * *
35167623 TATTAGAAATATATACATAATATAATATATATATATATAATGTAG
1 TATTAGAAATATATACATAATATAACATATATAAAAATAATGTAG
35167668 TATTA-AAATATATACATAATATATACATAT-TAAAAATAAT
1 TATTAGAAATATATACATAATATA-ACATATATAAAAATAAT
35167708 AATAATGTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
44 26 0.72
45 10 0.28
ACGTcount: A:0.54, C:0.04, G:0.04, T:0.39
Consensus pattern (45 bp):
TATTAGAAATATATACATAATATAACATATATAAAAATAATGTAG
Found at i:35167720 original size:18 final size:20
Alignment explanation
Indices: 35167683--35167721 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 20
35167673 AAATATATAC
35167683 ATAATATATACATATTAAAA
1 ATAATATATACATATTAAAA
*
35167703 ATAATA-ATA-ATGTTAAAA
1 ATAATATATACATATTAAAA
35167721 A
1 A
35167722 AAACTATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 9 0.50
19 3 0.17
20 6 0.33
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
ATAATATATACATATTAAAA
Found at i:35167765 original size:17 final size:16
Alignment explanation
Indices: 35167743--35167787 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
35167733 AATACTTCAT
35167743 AAATATATATATACTAA
1 AAATATATATATA-TAA
*
35167760 AAATATACATA-ATAA
1 AAATATATATATATAA
*
35167775 TAATATATATATA
1 AAATATATATATA
35167788 ATAGTAAGCC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 12 0.50
16 2 0.08
17 10 0.42
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATATATATATATAA
Found at i:35173233 original size:12 final size:12
Alignment explanation
Indices: 35173206--35173235 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
35173196 AAAACCTTAA
35173206 ATTTTTCTTTCC
1 ATTTTTCTTTCC
35173218 -TTTTTCTTTCC
1 ATTTTTCTTTCC
35173229 ATTTTTC
1 ATTTTTC
35173236 CTTCTTTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.65
12 6 0.35
ACGTcount: A:0.07, C:0.23, G:0.00, T:0.70
Consensus pattern (12 bp):
ATTTTTCTTTCC
Found at i:35173373 original size:16 final size:17
Alignment explanation
Indices: 35173317--35173376 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 17
35173307 TTTATTCATT
*
35173317 CTTTATTATAATTATATA
1 CTTTA-TATAATTATTTA
* *
35173335 ATTTA-AT-ATAATTTA
1 CTTTATATAATTATTTA
35173350 CTTTATATAATTATTTA
1 CTTTATATAATTATTTA
35173367 C-TTATATAAT
1 CTTTATATAAT
35173377 AAGTAAATTC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 10 0.29
16 13 0.37
17 8 0.23
18 4 0.11
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (17 bp):
CTTTATATAATTATTTA
Found at i:35173374 original size:30 final size:33
Alignment explanation
Indices: 35173317--35173376 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
35173307 TTTATTCATT
*
35173317 CTTTATTATAATTATATAATTTAATATAATTTA
1 CTTTATTATAATTATATAACTTAATATAATTTA
*
35173350 CTTTA-TATAATTAT-TTACTT-ATATAAT
1 CTTTATTATAATTATATAACTTAATATAAT
35173377 AAGTAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 7 0.28
31 4 0.16
32 9 0.36
33 5 0.20
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.55
Consensus pattern (33 bp):
CTTTATTATAATTATATAACTTAATATAATTTA
Found at i:35180072 original size:40 final size:40
Alignment explanation
Indices: 35180027--35180193 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
35180017 CGGAATATAA
35180027 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
35180067 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
35180107 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
35180147 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
35180186 CCGGATAT
1 CCGGATAT
35180194 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:35180177 original size:80 final size:79
Alignment explanation
Indices: 35180043--35180193 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
35180033 ATAATCACGT
*
35180043 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
35180108 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
35180123 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
35180186 CCGGATAT
64 CCGGATAT
35180194 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:35181446 original size:56 final size:53
Alignment explanation
Indices: 35181380--35181491 Score: 138
Period size: 56 Copynumber: 2.1 Consensus size: 53
35181370 AATCCTCCCT
35181380 TTTCCTTAGTA-ATTTCGGCCAAGAAGAT-GAGAAAGGATGAACAAATTTTTCTTTTC
1 TTTCCTTAGTACA-TTCGGCCAAGAAGATGGAG-AAGGATGAAC--ATTTTT-TTTTC
***
35181436 TTTCCTTAGTACATTCGGCCAAGCCTATGGAGAAGGATGAACATTTTTTTTTC
1 TTTCCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTC
35181489 TTT
1 TTT
35181492 TTTTTTTCAT
Statistics
Matches: 51, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
53 8 0.16
54 6 0.12
56 33 0.65
57 4 0.08
ACGTcount: A:0.28, C:0.16, G:0.18, T:0.38
Consensus pattern (53 bp):
TTTCCTTAGTACATTCGGCCAAGAAGATGGAGAAGGATGAACATTTTTTTTTC
Found at i:35188067 original size:40 final size:40
Alignment explanation
Indices: 35188022--35188188 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
35188012 CGGAATATAA
35188022 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
35188062 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
35188102 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
35188142 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
35188181 CCGGATAT
1 CCGGATAT
35188189 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:35188172 original size:80 final size:79
Alignment explanation
Indices: 35188038--35188188 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
35188028 ATAATCACGT
*
35188038 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
35188103 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
35188118 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
35188181 CCGGATAT
64 CCGGATAT
35188189 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:35196031 original size:40 final size:39
Alignment explanation
Indices: 35195986--35196150 Score: 163
Period size: 40 Copynumber: 4.2 Consensus size: 39
35195976 CGGAATATAA
35195986 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGG-CTTAGC
* * * *
35196026 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
** * *
35196065 CCGGAT-TAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-CTTAGC
** * * * *
35196104 CCGGATATAATTTCCAGCATAATTGTCTTCGGGCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
35196143 CCGGATAT
1 CCGGATAT
35196151 CATTCAATTT
Statistics
Matches: 103, Mismatches: 19, Indels: 7
0.80 0.15 0.05
Matches are distributed among these distances:
38 19 0.18
39 37 0.36
40 47 0.46
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGCTTAGC
Found at i:35196107 original size:39 final size:39
Alignment explanation
Indices: 35196002--35196109 Score: 123
Period size: 39 Copynumber: 2.7 Consensus size: 39
35195992 ATAATCACGT
* *
35196002 GCACAAATGCCTTCGGGTCTTAGCCCGGA-TAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATTAG-ACAACTA
*
35196042 GCACGAATGCCTTCGGG-CTTAGCCCGGATTAG-CCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATTAGACAACTA
*
35196080 GCACAATTGCCTTCGGGTCTTAACCCGGAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGAT
35196110 ATAATTTCCA
Statistics
Matches: 60, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
37 2 0.03
38 17 0.28
39 22 0.37
40 19 0.32
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.23
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATTAGACAACTA
Found at i:35204021 original size:40 final size:40
Alignment explanation
Indices: 35203976--35204142 Score: 176
Period size: 40 Copynumber: 4.2 Consensus size: 40
35203966 CGGAATATAA
35203976 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
35204016 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
35204056 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
35204096 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
35204135 CCGGATAT
1 CCGGATAT
35204143 CATTCAATTT
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
39 14 0.13
40 91 0.87
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:35204126 original size:80 final size:79
Alignment explanation
Indices: 35203992--35204142 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
35203982 ATAATCACGT
*
35203992 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
35204057 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
35204072 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
35204135 CCGGATAT
64 CCGGATAT
35204143 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:35207967 original size:28 final size:28
Alignment explanation
Indices: 35207927--35207982 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
35207917 ATTAATGTGG
35207927 ATGACTTTTTTTAATAACACGTGGCATT
1 ATGACTTTTTTTAATAACACGTGGCATT
35207955 ATGACTTTTTTTAATAACACGTGGCATT
1 ATGACTTTTTTTAATAACACGTGGCATT
35207983 CTTTTTTAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (28 bp):
ATGACTTTTTTTAATAACACGTGGCATT
Found at i:35209161 original size:14 final size:13
Alignment explanation
Indices: 35209134--35209173 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
35209124 TTAACTTCGA
35209134 ATTTTTTAAAATT
1 ATTTTTTAAAATT
*
35209147 ATTTTTTACATATT
1 ATTTTTTA-AAATT
*
35209161 ATTTTTCAAAATT
1 ATTTTTTAAAATT
35209174 TCCACTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (13 bp):
ATTTTTTAAAATT
Found at i:35218782 original size:28 final size:28
Alignment explanation
Indices: 35218739--35218898 Score: 171
Period size: 28 Copynumber: 5.8 Consensus size: 28
35218729 ACACTCCAAA
** *
35218739 AAAAAGGAAGTATTTGTGGCAATCTATG
1 AAAAAGGAAGCCTTTGTGGCGATCTATG
*
35218767 AAAAAGGAAGCCTTTGTGGCGATTTATG
1 AAAAAGGAAGCCTTTGTGGCGATCTATG
* * *
35218795 AAAAAAGAAGCCTTTGTGGCAATCAATG
1 AAAAAGGAAGCCTTTGTGGCGATCTATG
* * * *
35218823 AAAAAAGAAGCCTTCGTGGTGATTTATG
1 AAAAAGGAAGCCTTTGTGGCGATCTATG
* *
35218851 AAAAAGGAAGCCTTTATAGCGATCTATG
1 AAAAAGGAAGCCTTTGTGGCGATCTATG
*
35218879 --AAAGGAAAGCCATTGTGGCG
1 AAAAAGG-AAGCCTTTGTGGCG
35218899 TACTCTAAAG
Statistics
Matches: 109, Mismatches: 22, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
26 5 0.05
27 11 0.10
28 93 0.85
ACGTcount: A:0.38, C:0.12, G:0.26, T:0.25
Consensus pattern (28 bp):
AAAAAGGAAGCCTTTGTGGCGATCTATG
Found at i:35218811 original size:56 final size:56
Alignment explanation
Indices: 35218751--35218898 Score: 192
Period size: 56 Copynumber: 2.7 Consensus size: 56
35218741 AAAGGAAGTA
35218751 TTTGTGGCAATCTATGAAAAAGGAAGCCTTTGTGGCGATTTATGAAAAAAGAAGCC
1 TTTGTGGCAATCTATGAAAAAGGAAGCCTTTGTGGCGATTTATGAAAAAAGAAGCC
* * * * *
35218807 TTTGTGGCAATCAATGAAAAAAGAAGCCTTCGTGGTGATTTATGAAAAAGGAAGCC
1 TTTGTGGCAATCTATGAAAAAGGAAGCCTTTGTGGCGATTTATGAAAAAAGAAGCC
* * * *
35218863 TTTATAGCGATCTATG--AAAGGAAAGCCATTGTGGCG
1 TTTGTGGCAATCTATGAAAAAGG-AAGCCTTTGTGGCG
35218899 TACTCTAAAG
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
54 4 0.05
55 11 0.14
56 63 0.81
ACGTcount: A:0.35, C:0.13, G:0.26, T:0.26
Consensus pattern (56 bp):
TTTGTGGCAATCTATGAAAAAGGAAGCCTTTGTGGCGATTTATGAAAAAAGAAGCC
Found at i:35220991 original size:6 final size:6
Alignment explanation
Indices: 35220980--35221012 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
35220970 AGAAAATAAT
35220980 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAA
35221013 GATAGGAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:35241200 original size:46 final size:47
Alignment explanation
Indices: 35241125--35241284 Score: 136
Period size: 46 Copynumber: 3.4 Consensus size: 47
35241115 GTAATATCCC
35241125 AGACATGGTCTTACACT-G-ACTATCATCTCGTAGCCGATGCATGTCCT
1 AGACATGGTCTTACACTAGCAC--TCATCTCGTAGCCGATGCATGTCCT
* *
35241172 AGACAT-GTCTTACACTAGCACTCGTCTCG-ATGCCGATGCCATGTCCC
1 AGACATGGTCTTACACTAGCACTCATCTCGTA-GCCGATG-CATGTCCT
* * * * * *
35241219 AAACATGGTCTTACACTGGCTCTAATAAT-GTAGCTGATGCATGT-CT
1 AGACATGGTCTTACACTAGCACTCAT-CTCGTAGCCGATGCATGTCCT
*
35241265 CAGACAT-GTTTTACACTAGC
1 -AGACATGGTCTTACACTAGC
35241285 CCACAATAAC
Statistics
Matches: 92, Mismatches: 13, Indels: 17
0.75 0.11 0.14
Matches are distributed among these distances:
45 1 0.01
46 36 0.39
47 29 0.32
48 24 0.26
49 2 0.02
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (47 bp):
AGACATGGTCTTACACTAGCACTCATCTCGTAGCCGATGCATGTCCT
Found at i:35248693 original size:47 final size:47
Alignment explanation
Indices: 35248636--35248861 Score: 185
Period size: 47 Copynumber: 4.8 Consensus size: 47
35248626 GTGGGTAAGG
35248636 TGCCGATGCCATGTCCCAGACACGGTCTTACACTAGCTCATATCTC-A
1 TGCCGATGCCATGTCCCAGACA-GGTCTTACACTAGCTCATATCTCGA
* * * *
35248683 TGTCGATGCCATGTCCCAAACATGGTTTTACACT-GACT-ATCATCT-TA
1 TGCCGATGCCATGTCCCAGACA-GGTCTTACACTAG-CTCAT-ATCTCGA
* * * * * * **
35248730 TAGCTGATG-CGTGTCCCAGACATGTCTTGCACTGGCTTACGTCTCGA
1 T-GCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCATATCTCGA
* * * * * *
35248777 GGCCGATG-CATGTCCTAGACATGTCTTACACTAGCACCTGTCTCGA
1 TGCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCATATCTCGA
*
35248823 TGCCGATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 TGCCGATGCCATGTCCCAGACA-GGTCTTACACTAGCTC
35248862 TCATAATGTG
Statistics
Matches: 141, Mismatches: 29, Indels: 17
0.75 0.16 0.09
Matches are distributed among these distances:
46 59 0.42
47 64 0.45
48 18 0.13
ACGTcount: A:0.21, C:0.30, G:0.20, T:0.28
Consensus pattern (47 bp):
TGCCGATGCCATGTCCCAGACAGGTCTTACACTAGCTCATATCTCGA
Found at i:35248791 original size:46 final size:47
Alignment explanation
Indices: 35248735--35248902 Score: 159
Period size: 46 Copynumber: 3.6 Consensus size: 47
35248725 TCTTATAGCT
* *
35248735 GATGCGTGTCCCAGACATGTCTTGCACTGGCTTA-C-GTCTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGC-TACCTGTCTCGAGGCC
* * *
35248781 GATGCATGTCCTAGACATGTCTTACACTAGC-ACCTGTCTCGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTGGCTACCTGTCTCGAGGCC
** * **
35248827 GATGCCATGTCCCAGACATGGTCTTACACTGGCT-CTCAT-AAT-GTGGTT
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCTAC-C-TGTCTCGAGGCC
35248875 GATGCATGTCCCAGACATGTCTTACACT
1 GATGCATGTCCCAGACATGTCTTACACT
35248903 TGCCCACAAT
Statistics
Matches: 102, Mismatches: 13, Indels: 14
0.79 0.10 0.11
Matches are distributed among these distances:
44 1 0.01
45 1 0.01
46 51 0.50
47 27 0.26
48 19 0.19
49 2 0.02
50 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.23, T:0.29
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTACCTGTCTCGAGGCC
Found at i:35248838 original size:140 final size:141
Alignment explanation
Indices: 35248637--35248902 Score: 356
Period size: 140 Copynumber: 1.9 Consensus size: 141
35248627 TGGGTAAGGT
* *
35248637 GCCGATGCCATGTCCCAGACACGGTCTTACACTAGCTCATATCTCATGTCGATGCCATGTCCCAA
1 GCCGATGCCATGTCCCAGACACGGTCTTACACTAGCACATATCTCATGCCGATGCCATGTCCCAA
* ** * *
35248702 ACATGGTTTTACACTGACTATCATCTTATAGCTGATGCGTGTCCCAGACATGTCTTGCACTGGCT
66 ACATGGTCTTACACTGACTATCATAATATAGCTGATGCATGTCCCAGACATGTCTTACACTGGCT
35248767 TACGTCTCGAG
131 TACGTCTCGAG
* * * *
35248778 GCCGATG-CATGTCCTAGACA-TGTCTTACACTAGCACCTGTCTCGATGCCGATGCCATGTCCCA
1 GCCGATGCCATGTCCCAGACACGGTCTTACACTAGCACATATCTC-ATGCCGATGCCATGTCCCA
* * * * * *
35248841 GACATGGTCTTACACTGGCTCTCATAATGTGGTTGATGCATGTCCCAGACATGTCTTACACT
65 AACATGGTCTTACACTGACTATCATAATATAGCTGATGCATGTCCCAGACATGTCTTACACT
35248903 TGCCCACAAT
Statistics
Matches: 107, Mismatches: 17, Indels: 3
0.84 0.13 0.02
Matches are distributed among these distances:
139 19 0.18
140 81 0.76
141 7 0.07
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (141 bp):
GCCGATGCCATGTCCCAGACACGGTCTTACACTAGCACATATCTCATGCCGATGCCATGTCCCAA
ACATGGTCTTACACTGACTATCATAATATAGCTGATGCATGTCCCAGACATGTCTTACACTGGCT
TACGTCTCGAG
Found at i:35251019 original size:17 final size:17
Alignment explanation
Indices: 35250997--35251029 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
35250987 TTTTTATCAT
*
35250997 TTATCATTTATCGGGCA
1 TTATCATTGATCGGGCA
35251014 TTATCATTGATCGGGC
1 TTATCATTGATCGGGC
35251030 TTTGTCAGAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.21, C:0.18, G:0.21, T:0.39
Consensus pattern (17 bp):
TTATCATTGATCGGGCA
Found at i:35253641 original size:31 final size:31
Alignment explanation
Indices: 35253603--35253664 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
35253593 TTTAACTTAA
35253603 CTTTAAAATCAGTTAATTTAACTCGAAAAGT
1 CTTTAAAATCAGTTAATTTAACTCGAAAAGT
35253634 CTTTAAAATCAGTTAATTTAACTCGAAAAGT
1 CTTTAAAATCAGTTAATTTAACTCGAAAAGT
35253665 TTATCTAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.13, G:0.10, T:0.35
Consensus pattern (31 bp):
CTTTAAAATCAGTTAATTTAACTCGAAAAGT
Found at i:35254466 original size:9 final size:10
Alignment explanation
Indices: 35254449--35254477 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
35254439 TAACAGAATT
35254449 AATATTTTTA
1 AATATTTTTA
35254459 AATATTTTTA
1 AATATTTTTA
35254469 AAT-TTTTTA
1 AATATTTTTA
35254478 TAGTTCTGTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.32
10 13 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
AATATTTTTA
Found at i:35256016 original size:23 final size:23
Alignment explanation
Indices: 35255972--35256016 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
35255962 TTAAGTTTAA
*
35255972 AATTTTTAATATTTAGGGTTTTT
1 AATTTTTAATATTTAGAGTTTTT
35255995 AATTTTTAA-ATTTA-AGATTTTT
1 AATTTTTAATATTTAGAG-TTTTT
35256017 GACTGAAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 1 0.05
22 10 0.50
23 9 0.45
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (23 bp):
AATTTTTAATATTTAGAGTTTTT
Found at i:35261289 original size:14 final size:14
Alignment explanation
Indices: 35261266--35261296 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
35261256 GTGTCGAAAG
35261266 TTCTTCGACGTAAC
1 TTCTTCGACGTAAC
*
35261280 TTCTTTGACGTAAC
1 TTCTTCGACGTAAC
35261294 TTC
1 TTC
35261297 GATTCTGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.19, C:0.26, G:0.13, T:0.42
Consensus pattern (14 bp):
TTCTTCGACGTAAC
Found at i:35264230 original size:12 final size:12
Alignment explanation
Indices: 35264203--35264244 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
35264193 CATGCAAATT
*
35264203 AAGAAAGAACAGA
1 AAGAAA-AAAAGA
35264216 AAGAAAAAAAGA
1 AAGAAAAAAAGA
*
35264228 AAGAAAAAGA-A
1 AAGAAAAAAAGA
35264239 AAGAAA
1 AAGAAA
35264245 GGGAGAAAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
11 7 0.26
12 14 0.52
13 6 0.22
ACGTcount: A:0.79, C:0.02, G:0.19, T:0.00
Consensus pattern (12 bp):
AAGAAAAAAAGA
Found at i:35264670 original size:25 final size:24
Alignment explanation
Indices: 35264617--35264670 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
35264607 AAATGTGAGA
*
35264617 ATAAAAATTAGTCTCGGTTTAGGG
1 ATAAAAATTAGTCTCGATTTAGGG
* *
35264641 ATAAAAATTAGTTTCTATTTAGGG
1 ATAAAAATTAGTCTCGATTTAGGG
35264665 ACTAAA
1 A-TAAA
35264671 TTGGAATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (24 bp):
ATAAAAATTAGTCTCGATTTAGGG
Found at i:35271098 original size:34 final size:35
Alignment explanation
Indices: 35271050--35271116 Score: 93
Period size: 34 Copynumber: 1.9 Consensus size: 35
35271040 AATTTTATTA
* *
35271050 AAAAATTATAAACTTATTA-AAATTTATAAAAATCC
1 AAAAATGATAAACTT-TTAGAAATTTAAAAAAATCC
35271085 AAAAATGA-AAACTTTTAGAAATTTAAAAAAAT
1 AAAAATGATAAACTTTTAGAAATTTAAAAAAAT
35271117 AATTATTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
33 3 0.10
34 19 0.66
35 7 0.24
ACGTcount: A:0.60, C:0.06, G:0.03, T:0.31
Consensus pattern (35 bp):
AAAAATGATAAACTTTTAGAAATTTAAAAAAATCC
Found at i:35274428 original size:29 final size:30
Alignment explanation
Indices: 35274381--35274442 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
35274371 ACTTAACAAG
35274381 CAAATGCCTCTAAAATAATAAAAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
*
35274411 CAAATGCCT-TAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAAAAAAATTAA
35274440 CAA
1 CAA
35274443 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 22 0.71
30 9 0.29
ACGTcount: A:0.60, C:0.13, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAAAAAAATTAA
Found at i:35274966 original size:42 final size:42
Alignment explanation
Indices: 35274907--35274988 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
35274897 AGTTACATAA
35274907 CTTGGACACATGCCTATGTCCTTGCCCATGTGGCTCACACGG
1 CTTGGACACATGCCTATGTCCTTGCCCATGTGGCTCACACGG
* * *
35274949 CTTGGGCACATGCCTATGTCCTTGCCCGTGTGGCTTACAC
1 CTTGGACACATGCCTATGTCCTTGCCCATGTGGCTCACAC
35274989 AGTCTAGGCA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
42 37 1.00
ACGTcount: A:0.15, C:0.33, G:0.24, T:0.28
Consensus pattern (42 bp):
CTTGGACACATGCCTATGTCCTTGCCCATGTGGCTCACACGG
Found at i:35274999 original size:42 final size:42
Alignment explanation
Indices: 35274913--35275023 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 42
35274903 ATAACTTGGA
* *
35274913 CACATGCCTATGTCCTTGCCCATGTGGCTCACACGGCTTGGG
1 CACATGCCTATGTCCTTGCCCGTGTGGCTCACACGGCTTAGG
* *
35274955 CACATGCCTATGTCCTTGCCCGTGTGGCTTACACAG-TCTAGG
1 CACATGCCTATGTCCTTGCCCGTGTGGCTCACACGGCT-TAGG
* * * *
35274997 CACACGCCCATGTCCCTGGCCGTGTGG
1 CACATGCCTATGTCCTTGCCCGTGTGG
35275024 TAGCAACTCA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
41 1 0.02
42 59 0.98
ACGTcount: A:0.14, C:0.34, G:0.26, T:0.25
Consensus pattern (42 bp):
CACATGCCTATGTCCTTGCCCGTGTGGCTCACACGGCTTAGG
Found at i:35276316 original size:22 final size:23
Alignment explanation
Indices: 35276272--35276316 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
35276262 AAAACAGACT
***
35276272 TTTAGCGGCGTTTTTTTTTTGCC
1 TTTAGCGGCGTTTTTTAAGTGCC
35276295 TTTAGCGGCG-TTTTTAAGTGCC
1 TTTAGCGGCGTTTTTTAAGTGCC
35276317 ACTAATACTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.09, C:0.18, G:0.24, T:0.49
Consensus pattern (23 bp):
TTTAGCGGCGTTTTTTAAGTGCC
Found at i:35276511 original size:42 final size:43
Alignment explanation
Indices: 35276403--35276545 Score: 225
Period size: 43 Copynumber: 3.3 Consensus size: 43
35276393 TTTTTTTTGG
* * *
35276403 AAAAAACGCCGCTAAAGACCAGAACTTTTAGCGGTGCTTTTTT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAT
*
35276446 AAAAAACGCCGCTAAGGACCAGGACTTTTAGCGGCGCTTTTAT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAT
* *
35276489 -AAAAACGCCTCTAAAGAACAGGACTTTTAGCGGCGCTTTTAT
1 AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAT
35276531 AAAAAACGCCGCTAA
1 AAAAAACGCCGCTAA
35276546 TTTACCCAGT
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 39 0.43
43 52 0.57
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGACCAGGACTTTTAGCGGCGCTTTTAT
Found at i:35281479 original size:17 final size:18
Alignment explanation
Indices: 35281446--35281479 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35281436 TATCTCTTAA
35281446 ATAATTTAAACTATATTG
1 ATAATTTAAACTATATTG
*
35281464 ATAATTTTAA-TATATT
1 ATAATTTAAACTATATT
35281480 AAAACAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (18 bp):
ATAATTTAAACTATATTG
Found at i:35281715 original size:27 final size:26
Alignment explanation
Indices: 35281680--35281739 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 26
35281670 TCAATTTTCC
35281680 AATAGTAAACCCTA-AACCTAAACCCCA
1 AATA-TAAA-CCTATAACCTAAACCCCA
* *
35281707 AACTATAAACCTATATCCTAAACCCTA
1 AA-TATAAACCTATAACCTAAACCCCA
35281734 AATATA
1 AATATA
35281740 TGTATATTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
26 8 0.28
27 19 0.66
28 2 0.07
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (26 bp):
AATATAAACCTATAACCTAAACCCCA
Found at i:35281735 original size:20 final size:20
Alignment explanation
Indices: 35281685--35281735 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
35281675 TTTCCAATAG
35281685 TAAACCCTAAACCTAAACCC
1 TAAACCCTAAACCTAAACCC
* ** * *
35281705 CAAACTATAAACCTATATCC
1 TAAACCCTAAACCTAAACCC
35281725 TAAACCCTAAA
1 TAAACCCTAAA
35281736 TATATGTATA
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.47, C:0.33, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAACCCTAAACCTAAACCC
Found at i:35281935 original size:14 final size:14
Alignment explanation
Indices: 35281897--35281936 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
35281887 TCCTAACTGT
*
35281897 AAAACAAAAAACCA
1 AAAACAATAAACCA
**
35281911 AAAACTTTAAACCA
1 AAAACAATAAACCA
35281925 AAAACAATAAAC
1 AAAACAATAAAC
35281937 ATTATATCAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.70, C:0.20, G:0.00, T:0.10
Consensus pattern (14 bp):
AAAACAATAAACCA
Found at i:35282240 original size:41 final size:40
Alignment explanation
Indices: 35282195--35282413 Score: 294
Period size: 41 Copynumber: 5.4 Consensus size: 40
35282185 ATTATATGAC
* *
35282195 TTTTAGCGGCGTTTTTCCAAAAGCGCTGCTAATGCTCTGTT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTG-T
* *
35282236 TTTTAGCGACGTTTTGCCAAAAGCGCCACTAATGCTCTAGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCT-GT
*
35282277 TTTTAGCTGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCT-GT
* * * *
35282318 TTTTAGCGGCGTTATACCAAAAGTGCCGCTAATGCTCTGGC
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCT-GT
* * *
35282359 TTTTAGCGGCGTTCTGCCAAAAGCACCGCTAATGCTTTGT
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGT
35282399 TTTTAGCGGCGTTTT
1 TTTTAGCGGCGTTTT
35282414 ATGTTAAAAC
Statistics
Matches: 157, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
40 15 0.10
41 141 0.90
42 1 0.01
ACGTcount: A:0.19, C:0.23, G:0.23, T:0.35
Consensus pattern (40 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGT
Found at i:35282445 original size:82 final size:82
Alignment explanation
Indices: 35282195--35282445 Score: 269
Period size: 82 Copynumber: 3.1 Consensus size: 82
35282185 ATTATATGAC
* * * *
35282195 TTTTAGCGGCGTTTTTCCAAAAGCGCTGCTAATGCTCTGTTTTTTAGCGACGTTT-TGCCAAAAG
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTTTG-TTTTTAGCGGCGTTTATGCCAAAAG
*
35282259 CGCCACTAATGCTCTAGT-
65 CGCCGCTAATGCTC-AGTG
* * *
35282277 TTTTAGCTGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGTTTTTAGCGGCG-TTATACCAAAAG
1 TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCT-TTGTTTTTAGCGGCGTTTATGCCAAAAG
* *
35282341 TGCCGCTAATGCTCTG-G
65 CGCCGCTAATGCTCAGTG
* * **
35282358 CTTTTAGCGGCGTTCTGCCAAAAGCACCGCTAATGCTTTGTTTTTAGCGGCGTTTTATGTTAAAA
1 -TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTTTGTTTTTAGCGGCG-TTTATGCCAAAA
* * *
35282423 -CACCGCTATTGCTCCGTG
64 GCGCCGCTAATGCTCAGTG
35282441 TTTTA
1 TTTTA
35282446 TAATTTTTGC
Statistics
Matches: 141, Mismatches: 21, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
81 17 0.12
82 114 0.81
83 10 0.07
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (82 bp):
TTTTAGCGGCGTTTTGCCAAAAGCGCCGCTAATGCTTTGTTTTTAGCGGCGTTTATGCCAAAAGC
GCCGCTAATGCTCAGTG
Found at i:35282445 original size:123 final size:123
Alignment explanation
Indices: 35282195--35282444 Score: 306
Period size: 123 Copynumber: 2.0 Consensus size: 123
35282185 ATTATATGAC
* * * ** *
35282195 TTTTAGCGGCGTTTTTCCAAAAGCGCTGCTAATGCTCTGTTTTTTAGCGACGTTTTGCCAAAAGC
1 TTTTAGCGGCGTTATACCAAAAGCGCCGCTAATGCTCTGGCTTTTAGCGACGTTCTGCCAAAAGC
* * * *
35282260 GCCACTAATGCTCTAGTTTTTAGCTGCGTTTTGCCAAAAGCGCCGCTAATGCTCTGGT
66 ACCACTAATGCTCTAGTTTTTAGCGGCGTTTTGCCAAAAGCACCGCTAATGCTCCGGT
* *
35282318 TTTTAGCGGCGTTATACCAAAAGTGCCGCTAATGCTCTGGCTTTTAGCGGCGTTCTGCCAAAAGC
1 TTTTAGCGGCGTTATACCAAAAGCGCCGCTAATGCTCTGGCTTTTAGCGACGTTCTGCCAAAAGC
* * ** *
35282383 ACCGCTAATGCT-TTGTTTTTAGCGGCGTTTTATGTTAAAA-CACCGCTATTGCTCCGTGT
66 ACCACTAATGCTCTAGTTTTTAGCGGCG-TTT-TGCCAAAAGCACCGCTAATGCTCCG-GT
35282442 TTT
1 TTT
35282445 ATAATTTTTG
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
122 13 0.12
123 83 0.78
124 11 0.10
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (123 bp):
TTTTAGCGGCGTTATACCAAAAGCGCCGCTAATGCTCTGGCTTTTAGCGACGTTCTGCCAAAAGC
ACCACTAATGCTCTAGTTTTTAGCGGCGTTTTGCCAAAAGCACCGCTAATGCTCCGGT
Found at i:35284732 original size:4 final size:4
Alignment explanation
Indices: 35284723--35284750 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
35284713 AATAGTATTT
35284723 AATA AATA AATA AATA AATA AATA AATA
1 AATA AATA AATA AATA AATA AATA AATA
35284751 TATATATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AATA
Found at i:35284755 original size:2 final size:2
Alignment explanation
Indices: 35284748--35284772 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
35284738 AAATAAATAA
35284748 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
35284773 ATTGTATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:35285148 original size:17 final size:19
Alignment explanation
Indices: 35285108--35285148 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
35285098 AATTTAAATA
35285108 ATTTTATAATTGTTTTTAT
1 ATTTTATAATTGTTTTTAT
* *
35285127 -TTTT-TAAATGTTTTTGT
1 ATTTTATAATTGTTTTTAT
35285144 ATTTT
1 ATTTT
35285149 TTTTACAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.71
Consensus pattern (19 bp):
ATTTTATAATTGTTTTTAT
Found at i:35286601 original size:12 final size:11
Alignment explanation
Indices: 35286582--35286612 Score: 53
Period size: 12 Copynumber: 2.7 Consensus size: 11
35286572 TGTATAAAAC
35286582 TTATTTTATTA
1 TTATTTTATTA
35286593 TTAATTTTATTA
1 TT-ATTTTATTA
35286605 TTATTTTA
1 TTATTTTA
35286613 AAAGTATTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 8 0.42
12 11 0.58
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTTATTA
Found at i:35286627 original size:30 final size:30
Alignment explanation
Indices: 35286593--35286654 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
35286583 TATTTTATTA
35286593 TTAATTTTATTATTATTTTAAAAGTATTTG
1 TTAATTTTATTATTATTTTAAAAGTATTTG
* *
35286623 TTAATTTTGTTATTATTTTAGAAGTATTTG
1 TTAATTTTATTATTATTTTAAAAGTATTTG
35286653 TT
1 TT
35286655 TGTTAAGTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAAGTATTTG
Found at i:35288343 original size:77 final size:77
Alignment explanation
Indices: 35288216--35288371 Score: 285
Period size: 77 Copynumber: 2.0 Consensus size: 77
35288206 AAATATAGAT
* * *
35288216 AAAAGAATAACACAACTTGATATGATCACAGATGGAGAATGTTCAAATATAGAAACTTAAATTAA
1 AAAAGAATAACACAACTTGATATGATCAAAGATGGAGAATGTCCAAATATAAAAACTTAAATTAA
35288281 AGAATAAAAAAA
66 AGAATAAAAAAA
35288293 AAAAGAATAACACAACTTGATATGATCAAAGATGGAGAATGTCCAAATATAAAAACTTAAATTAA
1 AAAAGAATAACACAACTTGATATGATCAAAGATGGAGAATGTCCAAATATAAAAACTTAAATTAA
35288358 AGAATAAAAAAA
66 AGAATAAAAAAA
35288370 AA
1 AA
35288372 GGAGAGGAAG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
77 76 1.00
ACGTcount: A:0.58, C:0.09, G:0.12, T:0.21
Consensus pattern (77 bp):
AAAAGAATAACACAACTTGATATGATCAAAGATGGAGAATGTCCAAATATAAAAACTTAAATTAA
AGAATAAAAAAA
Found at i:35289679 original size:17 final size:18
Alignment explanation
Indices: 35289621--35289681 Score: 52
Period size: 20 Copynumber: 3.3 Consensus size: 18
35289611 GCTCTTGTAC
* *
35289621 TATATTATACAATGTTATA
1 TATATTATATACT-TTATA
* *
35289640 TCATATTATATAGTATATAA
1 T-ATATTATATACTTTAT-A
35289660 TATATTA-ATACTTTATA
1 TATATTATATACTTTATA
35289677 TATAT
1 TATAT
35289682 GCATTAATGA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 6 0.17
18 7 0.20
19 10 0.29
20 12 0.34
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (18 bp):
TATATTATATACTTTATA
Found at i:35291431 original size:8 final size:8
Alignment explanation
Indices: 35291418--35291474 Score: 57
Period size: 8 Copynumber: 7.5 Consensus size: 8
35291408 ATAACACTAT
35291418 TTATTATA
1 TTATTATA
*
35291426 TTATTAAA
1 TTATTATA
*
35291434 TTAATATA
1 TTATTATA
* *
35291442 TTATCACA
1 TTATTATA
35291450 TTA-TATA
1 TTATTATA
35291457 TT-TTATA
1 TTATTATA
35291464 TT-TTATA
1 TTATTATA
35291471 TTAT
1 TTAT
35291475 CTTTAAATTT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
7 17 0.44
8 22 0.56
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.58
Consensus pattern (8 bp):
TTATTATA
Found at i:35291590 original size:15 final size:15
Alignment explanation
Indices: 35291570--35291611 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
35291560 ATATTCAACT
35291570 AATATTTATAAAAAA
1 AATATTTATAAAAAA
*
35291585 AATATTTCACTTAAAAA
1 AATATTT-A-TAAAAAA
35291602 AATA-TTATAA
1 AATATTTATAA
35291612 TTACTTTTGC
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
14 2 0.09
15 8 0.35
16 3 0.13
17 10 0.43
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.36
Consensus pattern (15 bp):
AATATTTATAAAAAA
Done.