Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 184 of 284
Found at i:62255864 original size:26 final size:25
Alignment explanation
Indices: 62255768--62255875 Score: 132
Period size: 25 Copynumber: 4.4 Consensus size: 25
62255758 CTAGAGGCCT
*
62255768 AGCCTCTTTTAAT-AACTGGGGC-AA
1 AGCC-CTTTTGATAAACTGGGGCAAA
62255792 AGCCCTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
*
62255817 AGCCCTTTTAATAAACTGGGGCAAA
1 AGCCCTTTTGATAAACTGGGGCAAA
* * *
62255842 AGCCCTATTCGGTAAACTGGGGC-AT
1 AGCCCT-TTTGATAAACTGGGGCAAA
62255867 AGCCCTTTT
1 AGCCCTTTT
62255876 TGCACTTCCT
Statistics
Matches: 74, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
23 7 0.09
24 15 0.20
25 39 0.53
26 13 0.18
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (25 bp):
AGCCCTTTTGATAAACTGGGGCAAA
Found at i:62255946 original size:20 final size:20
Alignment explanation
Indices: 62255923--62255969 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
62255913 TTATGAATAC
62255923 ATCATGTGCATATCATA-CA
1 ATCATGTGCATATCATATCA
62255942 TATCATGTGCATATCATATCA
1 -ATCATGTGCATATCATATCA
62255963 ATCATGT
1 ATCATGT
62255970 ATATCAAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
20 24 0.92
21 2 0.08
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATATCA
Found at i:62263873 original size:21 final size:22
Alignment explanation
Indices: 62263847--62263887 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
62263837 CACTTGACAC
62263847 AGGGGC-ACACACCCGTGTGGG
1 AGGGGCAACACACCCGTGTGGG
62263868 AGGGGCAACACACCCGTGTG
1 AGGGGCAACACACCCGTGTG
62263888 AGCATTCCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 6 0.32
22 13 0.68
ACGTcount: A:0.22, C:0.29, G:0.39, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACACCCGTGTGGG
Found at i:62264880 original size:9 final size:9
Alignment explanation
Indices: 62264866--62264891 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
62264856 ATGAAAATAA
62264866 TAAAACCAT
1 TAAAACCAT
62264875 TAAAACCAT
1 TAAAACCAT
62264884 TAAAACCA
1 TAAAACCA
62264892 AAGTGTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.23, G:0.00, T:0.19
Consensus pattern (9 bp):
TAAAACCAT
Found at i:62274625 original size:46 final size:46
Alignment explanation
Indices: 62274542--62274658 Score: 148
Period size: 46 Copynumber: 2.5 Consensus size: 46
62274532 AAGTAGAAGC
62274542 CATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GCCAACG
1 CATGTCCCAGACAT-GTCTTACACTGACTATCATCTCG-AGGCCAACG
* * * *
62274589 CATGTCCTAGACATGTCTTACACTGGCT-TACGTCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTGACTAT-CATCTCGAGGCCAACG
*
62274635 CATGTCCCCGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
62274659 AGCACTCGTC
Statistics
Matches: 62, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
45 2 0.03
46 47 0.76
47 13 0.21
ACGTcount: A:0.23, C:0.32, G:0.18, T:0.27
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTGACTATCATCTCGAGGCCAACG
Found at i:62279753 original size:13 final size:14
Alignment explanation
Indices: 62279734--62279766 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
62279724 ATTTATTTTA
62279734 AAAAGTAA-TAATT
1 AAAAGTAATTAATT
*
62279747 TAAAGTAATTAATT
1 AAAAGTAATTAATT
62279761 AAAAGT
1 AAAAGT
62279767 TTCCAATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.58, C:0.00, G:0.09, T:0.33
Consensus pattern (14 bp):
AAAAGTAATTAATT
Found at i:62290167 original size:32 final size:32
Alignment explanation
Indices: 62290119--62290186 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
62290109 AAATTATTGA
62290119 TGCAACTAATTGTTCATGCAATCATTACAATT
1 TGCAACTAATTGTTCATGCAATCATTACAATT
* *
62290151 TGCAACTATTTTTTCATGCAATCATTACAATT
1 TGCAACTAATTGTTCATGCAATCATTACAATT
62290183 TGCA
1 TGCA
62290187 GATGGTTCCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.32, C:0.19, G:0.09, T:0.40
Consensus pattern (32 bp):
TGCAACTAATTGTTCATGCAATCATTACAATT
Found at i:62290672 original size:30 final size:30
Alignment explanation
Indices: 62290638--62290695 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
62290628 ACTTAATAAG
62290638 CAAATACCTCTAAAATAATAACAAAATTGA
1 CAAATACCTCTAAAATAATAACAAAATTGA
* *
62290668 CAAATGCCTTTAAAATAATAACAAAATT
1 CAAATACCTCTAAAATAATAACAAAATT
62290696 AATAATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.55, C:0.16, G:0.03, T:0.26
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTGA
Found at i:62292413 original size:15 final size:16
Alignment explanation
Indices: 62292387--62292424 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
62292377 GGTTGAACCG
62292387 ATTTTCTTTATTT-TAA
1 ATTTT-TTTATTTGTAA
*
62292403 ATTTTTTTATTTGTAT
1 ATTTTTTTATTTGTAA
62292419 ATTTTT
1 ATTTTT
62292425 AATAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.21, C:0.03, G:0.03, T:0.74
Consensus pattern (16 bp):
ATTTTTTTATTTGTAA
Found at i:62292703 original size:19 final size:19
Alignment explanation
Indices: 62292681--62292738 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
62292671 GGTTATGGAG
62292681 CATTACCAAACTTATCACA
1 CATTACCAAACTTATCACA
* * ***
62292700 CATT--TAAACATA-CTGG
1 CATTACCAAACTTATCACA
62292716 CATTACCAAACTTATCACA
1 CATTACCAAACTTATCACA
62292735 CATT
1 CATT
62292739 TAAACATACA
Statistics
Matches: 26, Mismatches: 10, Indels: 6
0.62 0.24 0.14
Matches are distributed among these distances:
16 5 0.19
17 6 0.23
18 6 0.23
19 9 0.35
ACGTcount: A:0.40, C:0.28, G:0.03, T:0.29
Consensus pattern (19 bp):
CATTACCAAACTTATCACA
Found at i:62292726 original size:35 final size:35
Alignment explanation
Indices: 62292680--62292747 Score: 136
Period size: 35 Copynumber: 1.9 Consensus size: 35
62292670 AGGTTATGGA
62292680 GCATTACCAAACTTATCACACATTTAAACATACTG
1 GCATTACCAAACTTATCACACATTTAAACATACTG
62292715 GCATTACCAAACTTATCACACATTTAAACATAC
1 GCATTACCAAACTTATCACACATTTAAACATAC
62292748 ATTTCTCATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.41, C:0.26, G:0.04, T:0.28
Consensus pattern (35 bp):
GCATTACCAAACTTATCACACATTTAAACATACTG
Found at i:62298024 original size:16 final size:16
Alignment explanation
Indices: 62298003--62298043 Score: 82
Period size: 16 Copynumber: 2.6 Consensus size: 16
62297993 AGGACTTCCA
62298003 CTATTTAATTTCATAG
1 CTATTTAATTTCATAG
62298019 CTATTTAATTTCATAG
1 CTATTTAATTTCATAG
62298035 CTATTTAAT
1 CTATTTAAT
62298044 ACCTTTAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.32, C:0.12, G:0.05, T:0.51
Consensus pattern (16 bp):
CTATTTAATTTCATAG
Found at i:62299762 original size:20 final size:21
Alignment explanation
Indices: 62299729--62299769 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
62299719 ATAAATAATT
* *
62299729 AAAAAATCATTAAAAATGCAA
1 AAAAAAGCATTAAAAAAGCAA
62299750 AAAAAAGCA-TAAAAAAGCAA
1 AAAAAAGCATTAAAAAAGCAA
62299770 TACAAAACCC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.71, C:0.10, G:0.07, T:0.12
Consensus pattern (21 bp):
AAAAAAGCATTAAAAAAGCAA
Found at i:62299925 original size:22 final size:21
Alignment explanation
Indices: 62299897--62299943 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
62299887 AAAATCTCAT
62299897 AATTTTATGA-ATTTTTAAAAA
1 AATTTTATGATA-TTTTAAAAA
*
62299918 GAATTTTATGGTATTTTAAAAA
1 -AATTTTATGATATTTTAAAAA
62299940 AATT
1 AATT
62299944 AGCCATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 4 0.17
22 18 0.78
23 1 0.04
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.47
Consensus pattern (21 bp):
AATTTTATGATATTTTAAAAA
Found at i:62299939 original size:23 final size:22
Alignment explanation
Indices: 62299897--62299940 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
62299887 AAAATCTCAT
*
62299897 AATTTTATGAATTTTTAAAAAG
1 AATTTTATGAATTTTAAAAAAG
*
62299919 AATTTTATGGTATTTTAAAAAA
1 AATTTTAT-GAATTTTAAAAAA
62299941 ATTAGCCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.45, C:0.00, G:0.09, T:0.45
Consensus pattern (22 bp):
AATTTTATGAATTTTAAAAAAG
Found at i:62301346 original size:26 final size:26
Alignment explanation
Indices: 62301317--62301371 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
62301307 TTTTTTGGTA
* *
62301317 TTTTGTATTTTGTAATTTTTCATTTT
1 TTTTATATTTTGTAATTTTTCATATT
62301343 TTTTATATTTTGTAATTTTTCATATT
1 TTTTATATTTTGTAATTTTTCATATT
62301369 TTT
1 TTT
62301372 GGGGATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.18, C:0.04, G:0.05, T:0.73
Consensus pattern (26 bp):
TTTTATATTTTGTAATTTTTCATATT
Found at i:62303297 original size:26 final size:25
Alignment explanation
Indices: 62303253--62303301 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
62303243 ATCATGAGTA
*
62303253 TAGTAAATTTTATTATTATATATTTT
1 TAGTAAATTATATTATTAT-TATTTT
62303279 TAGTAAATATATATT-TTATTATT
1 TAGTAAAT-TATATTATTATTATT
62303302 GATCTATACT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 4 0.19
26 12 0.57
27 5 0.24
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (25 bp):
TAGTAAATTATATTATTATTATTTT
Found at i:62305609 original size:5 final size:5
Alignment explanation
Indices: 62305599--62305642 Score: 88
Period size: 5 Copynumber: 8.8 Consensus size: 5
62305589 ACTAACTATG
62305599 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
62305643 AACACACAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:62313024 original size:43 final size:43
Alignment explanation
Indices: 62312926--62313084 Score: 148
Period size: 43 Copynumber: 3.7 Consensus size: 43
62312916 CAATGCCATA
* ** * **
62312926 TCCCAGATATGGTCTTACATGTTATCACAT-ATCGATGCTGATAG
1 TCCCAGACATGGTCTTACACATAATCACATAAT-GATGCAAAT-G
* *
62312970 -CCCA-ACTATGGTCTTACACGA-AATTA-ATTAATGATGCTAATG
1 TCCCAGAC-ATGGTCTTACAC-ATAATCACA-TAATGATGCAAATG
*
62313012 TCCTAGACATGGTCTTACACATAATCACATAATGATGCAAATG
1 TCCCAGACATGGTCTTACACATAATCACATAATGATGCAAATG
*
62313055 TCCCAGATATGGTCTTACACATAATCACAT
1 TCCCAGACATGGTCTTACACATAATCACAT
62313085 CTCGAAAATC
Statistics
Matches: 96, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
42 4 0.04
43 87 0.91
44 5 0.05
ACGTcount: A:0.33, C:0.21, G:0.14, T:0.31
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACATAATCACATAATGATGCAAATG
Found at i:62315232 original size:42 final size:43
Alignment explanation
Indices: 62315077--62315221 Score: 170
Period size: 42 Copynumber: 3.4 Consensus size: 43
62315067 TGTGTTTTTG
** * * *
62315077 TGTAAGACCACATCTGGGACGTTGGCATTGACT-TTTGATTTACA
1 TGTAAGACCATGTTTGGGACATTGGCATCGA-TATTTGA-TTACA
* *
62315121 TGTAAGACCATGTTTGGGACATTGGCATCG-TATTTGATTTCG
1 TGTAAGACCATGTTTGGGACATTGGCATCGATATTTGATTACA
* *
62315163 TGTAAGACCCTGTTTGGGACAATGGCATCGATATTTGATTACA
1 TGTAAGACCATGTTTGGGACATTGGCATCGATATTTGATTACA
62315206 TGTAAGA-CATGTTTGG
1 TGTAAGACCATGTTTGG
62315222 AATGTTGGCA
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
42 40 0.46
43 22 0.25
44 25 0.29
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (43 bp):
TGTAAGACCATGTTTGGGACATTGGCATCGATATTTGATTACA
Found at i:62316507 original size:23 final size:23
Alignment explanation
Indices: 62316477--62316522 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
62316467 TGCATGTTTT
*
62316477 GAGATTGAAATTGGCTAAAAATG
1 GAGATTGAAATTGGATAAAAATG
62316500 GAGATTGAAATTGGATAAAAATG
1 GAGATTGAAATTGGATAAAAATG
62316523 TGGTATATTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.46, C:0.02, G:0.26, T:0.26
Consensus pattern (23 bp):
GAGATTGAAATTGGATAAAAATG
Found at i:62320722 original size:16 final size:17
Alignment explanation
Indices: 62320701--62320738 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
62320691 TTTTATATGG
*
62320701 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
62320717 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
62320735 ATTT
1 ATTT
62320739 AAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:62327490 original size:48 final size:48
Alignment explanation
Indices: 62327417--62327612 Score: 286
Period size: 48 Copynumber: 4.0 Consensus size: 48
62327407 AGATATGCAC
*
62327417 GATCCCATGTAAGACCGTGTCTGGGACATGGCATTGGCATCGATATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* * *
62327465 GATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCAATATGA
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* *
62327513 GA-CACCATGTATGACCATGTCTGGGACATGGCATTGACATCGATATGT
1 GATC-CCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
* *
62327561 GATCCCATGTAAGACCATATCTGGGATATGGCATTGGCATCCGACTATGT
1 GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT-CGA-TATGT
62327611 GA
1 GA
62327613 ATGTGATTTC
Statistics
Matches: 131, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.01
48 119 0.91
49 4 0.03
50 7 0.05
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.27
Consensus pattern (48 bp):
GATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATGT
Found at i:62328595 original size:20 final size:20
Alignment explanation
Indices: 62328567--62328606 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
62328557 ACACGGACAT
*
62328567 GTGTTTAGGCCGTGTGTGAC
1 GTGTCTAGGCCGTGTGTGAC
62328587 GTGTCTAGGCCGTGTGTGAC
1 GTGTCTAGGCCGTGTGTGAC
62328607 ACACGGTTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.17, G:0.40, T:0.33
Consensus pattern (20 bp):
GTGTCTAGGCCGTGTGTGAC
Found at i:62329386 original size:5 final size:6
Alignment explanation
Indices: 62329370--62329426 Score: 64
Period size: 6 Copynumber: 9.8 Consensus size: 6
62329360 TAATTGAACC
* * *
62329370 ATTTTT ATTTTT ATTTTT A-TTGT A-TTTT ATTTTT ATTTTT AATTTA
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
*
62329416 ATTTTT GTTTT
1 ATTTTT ATTTT
62329427 CTAATTCTTC
Statistics
Matches: 43, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
5 8 0.19
6 35 0.81
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (6 bp):
ATTTTT
Found at i:62333393 original size:14 final size:15
Alignment explanation
Indices: 62333374--62333417 Score: 56
Period size: 15 Copynumber: 2.9 Consensus size: 15
62333364 TCCTTTTCTC
62333374 ATTATTA-TTTATTT
1 ATTATTATTTTATTT
62333388 ATTATTATTTTATTTT
1 ATTATTATTTTA-TTT
62333404 ATT-TTATCTTTATT
1 ATTATTAT-TTTATT
62333418 AGTTTTAGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.26
15 10 0.37
16 10 0.37
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTATTATTTTATTT
Found at i:62342165 original size:12 final size:12
Alignment explanation
Indices: 62342148--62342173 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
62342138 GGCATGTGGC
62342148 TGCACACGGCCA
1 TGCACACGGCCA
62342160 TGCACACGGCCA
1 TGCACACGGCCA
62342172 TG
1 TG
62342174 TCGCACGGTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.38, G:0.27, T:0.12
Consensus pattern (12 bp):
TGCACACGGCCA
Found at i:62347352 original size:5 final size:5
Alignment explanation
Indices: 62347338--62347398 Score: 54
Period size: 6 Copynumber: 11.6 Consensus size: 5
62347328 GACCTTTGAG
*
62347338 TTTA- TTTAT TTTAT TCTAT TTTATT TTTAAT TTTA- TTTATT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTT-AT TTTAT TTTA-T TTTAT
62347384 GTTTATT TTTAT TTT
1 -TTTA-T TTTAT TTT
62347399 CTTAGACTTA
Statistics
Matches: 48, Mismatches: 2, Indels: 13
0.76 0.03 0.21
Matches are distributed among these distances:
4 8 0.17
5 18 0.38
6 20 0.42
7 2 0.04
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:62347359 original size:10 final size:9
Alignment explanation
Indices: 62347338--62347380 Score: 50
Period size: 9 Copynumber: 4.3 Consensus size: 9
62347328 GACCTTTGAG
62347338 TTTATTTAT
1 TTTATTTAT
62347347 TTTATTCTAT
1 TTTATT-TAT
62347357 TTTATTTTTAAT
1 TTTA--TTT-AT
62347369 TTTATTTAT
1 TTTATTTAT
62347378 TTT
1 TTT
62347381 TATGTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 11 0.37
10 10 0.33
11 1 0.03
12 8 0.27
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTATTTAT
Found at i:62347373 original size:22 final size:22
Alignment explanation
Indices: 62347345--62347397 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
62347335 GAGTTTATTT
*
62347345 ATTTTATTCTA-TTTTATTTTTA
1 ATTTTATT-TATTTTTATGTTTA
62347367 ATTTTATTTATTTTTATGTTTA
1 ATTTTATTTATTTTTATGTTTA
*
62347389 TTTTTATTT
1 ATTTTATTT
62347398 TCTTAGACTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.75
Consensus pattern (22 bp):
ATTTTATTTATTTTTATGTTTA
Found at i:62347376 original size:16 final size:15
Alignment explanation
Indices: 62347338--62347391 Score: 65
Period size: 16 Copynumber: 3.5 Consensus size: 15
62347328 GACCTTTGAG
62347338 TTTATTTA-TTTTAT
1 TTTATTTATTTTTAT
*
62347352 TCTATTTTATTTTTAAT
1 TTTA-TTTATTTTT-AT
62347369 TTTATTTATTTTTAT
1 TTTATTTATTTTTAT
62347384 GTTTATTT
1 -TTTATTT
62347392 TTATTTTCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 3 0.09
15 6 0.18
16 20 0.59
17 5 0.15
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.76
Consensus pattern (15 bp):
TTTATTTATTTTTAT
Found at i:62350094 original size:43 final size:43
Alignment explanation
Indices: 62349975--62350129 Score: 127
Period size: 42 Copynumber: 3.6 Consensus size: 43
62349965 AGCTCGTACA
* ** * * * *
62349975 ATGCCAACGTCCCAGATGTGGTCTTACATG-TATCAAATATTG
1 ATGCCAATGTCCCAGACATGGTCTTAAACGAAATCAAATATCG
* *
62350017 ATGCCACTGTCCCAGACATGGTCTTACACGAAATCAAATA-CG
1 ATGCCAATGTCCCAGACATGGTCTTAAACGAAATCAAATATCG
* * *
62350059 ATGCCAATGTCCTAGACATGGTCTTAAACATAAATCTCAATATC-
1 ATGCCAATGTCCCAGACATGGTCTTAAAC-GAAATC-AAATATCG
* * *
62350103 AGCGCCAATGTCCCGGACGTGGTCTTA
1 A-TGCCAATGTCCCAGACATGGTCTTA
62350130 CATGAAAATA
Statistics
Matches: 92, Mismatches: 16, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
42 52 0.57
43 13 0.14
44 5 0.05
45 22 0.24
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.26
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTAAACGAAATCAAATATCG
Found at i:62353599 original size:23 final size:24
Alignment explanation
Indices: 62353555--62353599 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
62353545 CAAGTCCTAC
*
62353555 CCATCCAGCCTCTACACTCCATCT
1 CCATCCAACCTCTACACTCCATCT
*
62353579 CCATCCAACC-CTATACTCCAT
1 CCATCCAACCTCTACACTCCAT
62353600 GTGGGGATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.24, C:0.49, G:0.02, T:0.24
Consensus pattern (24 bp):
CCATCCAACCTCTACACTCCATCT
Found at i:62360221 original size:46 final size:45
Alignment explanation
Indices: 62360171--62360346 Score: 212
Period size: 46 Copynumber: 3.8 Consensus size: 45
62360161 TGTTTGGGCA
62360171 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
62360217 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
62360264 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
62360310 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
62360347 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 69 0.62
47 32 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.30, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:62360326 original size:93 final size:93
Alignment explanation
Indices: 62360167--62360338 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
62360157 AGGATGTTTG
* *
62360167 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62360232 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
62360260 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
62360325 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
62360339 ACTTATGGGC
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:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:62362966 original size:147 final size:147
Alignment explanation
Indices: 62362717--62363010 Score: 588
Period size: 147 Copynumber: 2.0 Consensus size: 147
62362707 GAGTAATTTG
62362717 AACTAATTTGTAAAAATGAGAAATTGAAGGACTAAAATGTGAAATAAATGAAACATATGGGCTTA
1 AACTAATTTGTAAAAATGAGAAATTGAAGGACTAAAATGTGAAATAAATGAAACATATGGGCTTA
62362782 TATGAACACTAGGAATATTCAACTAAGAATGTGTCTAAAGAAATTTGGTGTATATTGTGATTTTA
66 TATGAACACTAGGAATATTCAACTAAGAATGTGTCTAAAGAAATTTGGTGTATATTGTGATTTTA
62362847 TGAATTATGGACTAAAT
131 TGAATTATGGACTAAAT
62362864 AACTAATTTGTAAAAATGAGAAATTGAAGGACTAAAATGTGAAATAAATGAAACATATGGGCTTA
1 AACTAATTTGTAAAAATGAGAAATTGAAGGACTAAAATGTGAAATAAATGAAACATATGGGCTTA
62362929 TATGAACACTAGGAATATTCAACTAAGAATGTGTCTAAAGAAATTTGGTGTATATTGTGATTTTA
66 TATGAACACTAGGAATATTCAACTAAGAATGTGTCTAAAGAAATTTGGTGTATATTGTGATTTTA
62362994 TGAATTATGGACTAAAT
131 TGAATTATGGACTAAAT
62363011 TGTCAAAATA
Statistics
Matches: 147, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
147 147 1.00
ACGTcount: A:0.43, C:0.07, G:0.18, T:0.32
Consensus pattern (147 bp):
AACTAATTTGTAAAAATGAGAAATTGAAGGACTAAAATGTGAAATAAATGAAACATATGGGCTTA
TATGAACACTAGGAATATTCAACTAAGAATGTGTCTAAAGAAATTTGGTGTATATTGTGATTTTA
TGAATTATGGACTAAAT
Found at i:62363552 original size:43 final size:42
Alignment explanation
Indices: 62363406--62363563 Score: 142
Period size: 43 Copynumber: 3.7 Consensus size: 42
62363396 ATGTGTTTTT
* * *
62363406 GTGTAAGACCACATCTGGGACTTTGGCATCGACT-TATGATTTAC
1 GTGTAAGACCACATCTAGGAC-GTGGCATCGA-TATTTGA-TTAC
* * * *
62363450 GTGTAAGAACACGTCTGGGACGTTGGCATCG-TATTTGATTTC
1 GTGTAAGACCACATCTAGGACG-TGGCATCGATATTTGATTAC
62363492 GTGTAAGACC-CTATCTAGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-ATCTAGGAC-GTGGCATCGATATTTGATTAC
* * *
62363535 ATGTAAGACCACGTCTAGGATGTTGGCAT
1 GTGTAAGACCACATCTAGGACG-TGGCAT
62363564 TGTACGACCT
Statistics
Matches: 95, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
41 1 0.01
42 29 0.31
43 37 0.39
44 28 0.29
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (42 bp):
GTGTAAGACCACATCTAGGACGTGGCATCGATATTTGATTAC
Found at i:62364332 original size:10 final size:10
Alignment explanation
Indices: 62364292--62364334 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
62364282 GATTGAAATA
*
62364292 TATGCTTTGG
1 TATGATTTGG
62364302 TATGATTTTGG
1 TATGA-TTTGG
*
62364313 TTTAGATTTGG
1 TAT-GATTTGG
62364324 TATGATTTGG
1 TATGATTTGG
62364334 T
1 T
62364335 TGGTGAATTG
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
10 12 0.43
11 14 0.50
12 2 0.07
ACGTcount: A:0.16, C:0.02, G:0.28, T:0.53
Consensus pattern (10 bp):
TATGATTTGG
Found at i:62371291 original size:6 final size:6
Alignment explanation
Indices: 62371280--62371308 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
62371270 CACCCCTCCC
62371280 ATGCAT ATGCAT ATGCAT ATGCA- ATGCAT
1 ATGCAT ATGCAT ATGCAT ATGCAT ATGCAT
62371309 CCATTATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.23
6 17 0.77
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.31
Consensus pattern (6 bp):
ATGCAT
Found at i:62373142 original size:4 final size:4
Alignment explanation
Indices: 62373133--62373160 Score: 56
Period size: 4 Copynumber: 7.0 Consensus size: 4
62373123 GAGTTTGTGG
62373133 TTGA TTGA TTGA TTGA TTGA TTGA TTGA
1 TTGA TTGA TTGA TTGA TTGA TTGA TTGA
62373161 ATTTAAGCTT
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:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TTGA
Found at i:62378231 original size:41 final size:41
Alignment explanation
Indices: 62378186--62378282 Score: 167
Period size: 41 Copynumber: 2.4 Consensus size: 41
62378176 ATCAATAGGT
* *
62378186 CTGCTCACACAAGTTGTCAGTCAAGACGTAGCTACGCGGTG
1 CTGCTCACACAAGTTGTCAGTCAAGACATAGCTACGCGATG
*
62378227 CTGCTCACACAAGTTGTCAGTCAAGACATAGCTATGCGATG
1 CTGCTCACACAAGTTGTCAGTCAAGACATAGCTACGCGATG
62378268 CTGCTCACACAAGTT
1 CTGCTCACACAAGTT
62378283 TTCAAGTATC
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 53 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (41 bp):
CTGCTCACACAAGTTGTCAGTCAAGACATAGCTACGCGATG
Found at i:62382025 original size:16 final size:17
Alignment explanation
Indices: 62382000--62382037 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
62381990 AGATATGAAA
62382000 TTTA-TTTTTTT-ACAG
1 TTTATTTTTTTTAACAG
62382015 TTTATTTTTTTTAACAG
1 TTTATTTTTTTTAACAG
*
62382032 TATATT
1 TTTATT
62382038 GAGAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 4 0.20
16 7 0.35
17 9 0.45
ACGTcount: A:0.24, C:0.05, G:0.05, T:0.66
Consensus pattern (17 bp):
TTTATTTTTTTTAACAG
Found at i:62385867 original size:40 final size:40
Alignment explanation
Indices: 62385812--62385936 Score: 118
Period size: 40 Copynumber: 3.2 Consensus size: 40
62385802 ACTGATGATA
62385812 GTGTGCCC-TGCACTAGTCAGATAAATCGACGATATCAAAT
1 GTGTGCCCAT-CACTAGTCAGATAAATCGACGATATCAAAT
* * * *
62385852 GTGTGCCCATCACTAGTCAGATAAATC-A-AAAAT-GAGT
1 GTGTGCCCATCACTAGTCAGATAAATCGACGATATCAAAT
* * * *
62385889 -TATGCCCAGT-GCTAGTCGGATAAACCGACGATATCAAAT
1 GTGTGCCCA-TCACTAGTCAGATAAATCGACGATATCAAAT
62385928 GTGTGCCCA
1 GTGTGCCCA
62385937 ACAGTAGTTG
Statistics
Matches: 66, Mismatches: 13, Indels: 12
0.73 0.14 0.13
Matches are distributed among these distances:
36 20 0.30
37 4 0.06
38 6 0.09
39 3 0.05
40 32 0.48
41 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (40 bp):
GTGTGCCCATCACTAGTCAGATAAATCGACGATATCAAAT
Found at i:62385905 original size:76 final size:76
Alignment explanation
Indices: 62385824--62385980 Score: 208
Period size: 76 Copynumber: 2.1 Consensus size: 76
62385814 GTGCCCTGCA
* *
62385824 CTAGTCAGATAAATCGACGATATCAAATGTGTGCCCATCACTAGTCAGATAAATCA-AAAATGAG
1 CTAGTCAGATAAACCGACGATATCAAATGTGTGCCCAACACTAGTCAGATAAA-CAGAAAATGAG
62385888 TTATGCCCAGTG
65 TTATGCCCAGTG
* * ** * *
62385900 CTAGTCGGATAAACCGACGATATCAAATGTGTGCCCAACAGTAGTTGGATAAACAGACAATGATT
1 CTAGTCAGATAAACCGACGATATCAAATGTGTGCCCAACACTAGTCAGATAAACAGAAAATGAGT
*
62385965 TGTGCCCAGTG
66 TATGCCCAGTG
*
62385976 TTAGT
1 CTAGT
62385981 TGGGTAAATA
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
75 2 0.03
76 68 0.97
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (76 bp):
CTAGTCAGATAAACCGACGATATCAAATGTGTGCCCAACACTAGTCAGATAAACAGAAAATGAGT
TATGCCCAGTG
Found at i:62390116 original size:16 final size:15
Alignment explanation
Indices: 62390095--62390138 Score: 52
Period size: 16 Copynumber: 2.7 Consensus size: 15
62390085 AAAAGTGATA
62390095 AAAATATAGAAAAAAG
1 AAAATA-AGAAAAAAG
*
62390111 AAAATACGAAAAAAAG
1 AAAATAAG-AAAAAAG
62390127 AACAATAAGAAA
1 AA-AATAAGAAA
62390139 GTATTCTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 1 0.04
16 18 0.75
17 5 0.21
ACGTcount: A:0.75, C:0.05, G:0.11, T:0.09
Consensus pattern (15 bp):
AAAATAAGAAAAAAG
Found at i:62390124 original size:17 final size:17
Alignment explanation
Indices: 62390104--62390138 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
62390094 AAAAATATAG
*
62390104 AAAAAAGAA-AATACGA
1 AAAAAAGAACAATAAGA
62390120 AAAAAAGAACAATAAGA
1 AAAAAAGAACAATAAGA
62390137 AA
1 AA
62390139 GTATTCTGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.77, C:0.06, G:0.11, T:0.06
Consensus pattern (17 bp):
AAAAAAGAACAATAAGA
Found at i:62396414 original size:177 final size:176
Alignment explanation
Indices: 62396105--62396521 Score: 593
Period size: 177 Copynumber: 2.4 Consensus size: 176
62396095 TAGTCTTTCA
* ** * * * * *
62396105 GCAACTTCAGGAAGATCAGGTTTGTGA-CTTCAACCTACTTCACTGCAACTTCAGAGAGACAAAG
1 GCAACTTCAGGAAGATAAGACTAGT-ATCTTCAACCTGC-TCTCTGCAACTTCAGAGAGATAAGG
* * *
62396169 CTGATGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTGACCTACTC
64 TTGGTGGCTAAAATCTGATCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTGACCTACTC
* *
62396234 CATAGCCGATACATGGAAATAAGATCTGTTATTTTCAGTCTGCTTCCT
129 CATAGCCGATACATGGAAATAAGATCTGTAATTTTCAGTATGCTTCCT
* * * *
62396282 GCAACTTTAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACTTTAGAGAGATAAGGT
1 GCAACTTCAGGAAGATAAGACTAGTATCTTCAACCTGCTCTC-TGCAACTTCAGAGAGATAAGGT
* * * *
62396347 TGGTGGCTAAAATCTGATCCATAGCTGATACATGGAGATAAGACTCGCCATTTTTGATCTGCTCC
65 TGGTGGCTAAAATCTGATCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTGACCTACTCC
* *
62396412 ATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTATGTTTCCT
130 ATAGCCGATACATGGAAATAAGATCTGTAATTTTCAGTATGCTTCCT
62396459 GCAACTTCAGGAAGATAAGACTAGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGG
1 GCAACTTCAGGAAGATAAGACTAGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGG
62396522 CTTGTAATCT
Statistics
Matches: 213, Mismatches: 25, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
176 23 0.11
177 190 0.89
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (176 bp):
GCAACTTCAGGAAGATAAGACTAGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGTT
GGTGGCTAAAATCTGATCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTGACCTACTCCA
TAGCCGATACATGGAAATAAGATCTGTAATTTTCAGTATGCTTCCT
Found at i:62396562 original size:45 final size:43
Alignment explanation
Indices: 62396457--62396564 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
62396447 AGTATGTTTC
* * *
62396457 CTGCAACTTCAGGAAGATAAGACTAGTATCTTCAACCTGCTCT
1 CTGCAACTTCAGGGAGATAAGACTAGTATCTTCAACCTACTCG
* * * * *
62396500 CTGCAACTTCAGAGAGATAAGGCTTGTAATCTTCAATCTATTCCG
1 CTGCAACTTCAGGGAGATAAGACTAGT-ATCTTCAACCTACT-CG
*
62396545 CTGCAACTTTAGGGAGATAA
1 CTGCAACTTCAGGGAGATAA
62396565 TATCTGACTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 23 0.43
44 11 0.21
45 19 0.36
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (43 bp):
CTGCAACTTCAGGGAGATAAGACTAGTATCTTCAACCTACTCG
Found at i:62396735 original size:64 final size:64
Alignment explanation
Indices: 62396634--62396760 Score: 227
Period size: 64 Copynumber: 2.0 Consensus size: 64
62396624 TCATATATCT
62396634 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCGCCTAACTACATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCGCCTAACTACATGTG
* * *
62396698 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGT
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCGCCTAACTACATGT
62396761 ATTATGAATG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCGCCTAACTACATGTG
Found at i:62401088 original size:177 final size:176
Alignment explanation
Indices: 62400779--62401195 Score: 593
Period size: 177 Copynumber: 2.4 Consensus size: 176
62400769 TAGTCTTTCA
* ** * * * * *
62400779 GCAACTTCAGGAAGATCAGGTTTGTGA-CTTCAACCTACTTCACTGCAACTTCAGAGAGACAAAG
1 GCAACTTCAGGAAGATAAGACTAGT-ATCTTCAACCTGC-TCTCTGCAACTTCAGAGAGATAAGG
* * *
62400843 CTGATGGCTAAAATCTGCTCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTGACCTACTC
64 TTGGTGGCTAAAATCTGATCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTGACCTACTC
* *
62400908 CATAGCCGATACATGGAAATAAGATCTGTTATTTTCAGTCTGCTTCCT
129 CATAGCCGATACATGGAAATAAGATCTGTAATTTTCAGTATGCTTCCT
* * * *
62400956 GCAACTTTAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTGCTACTTTAGAGAGATAAGGT
1 GCAACTTCAGGAAGATAAGACTAGTATCTTCAACCTGCTCTC-TGCAACTTCAGAGAGATAAGGT
* * * *
62401021 TGGTGGCTAAAATCTGATCCATAGCTGATACATGGAGATAAGACTCGCCATTTTTGATCTGCTCC
65 TGGTGGCTAAAATCTGATCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTGACCTACTCC
* *
62401086 ATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTATGTTTCCT
130 ATAGCCGATACATGGAAATAAGATCTGTAATTTTCAGTATGCTTCCT
62401133 GCAACTTCAGGAAGATAAGACTAGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGG
1 GCAACTTCAGGAAGATAAGACTAGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGG
62401196 CTTGTAATCT
Statistics
Matches: 213, Mismatches: 25, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
176 23 0.11
177 190 0.89
ACGTcount: A:0.29, C:0.22, G:0.20, T:0.29
Consensus pattern (176 bp):
GCAACTTCAGGAAGATAAGACTAGTATCTTCAACCTGCTCTCTGCAACTTCAGAGAGATAAGGTT
GGTGGCTAAAATCTGATCCATAGCCGATACATGGAGATAAGACTCGCCATCTTTGACCTACTCCA
TAGCCGATACATGGAAATAAGATCTGTAATTTTCAGTATGCTTCCT
Found at i:62401236 original size:45 final size:43
Alignment explanation
Indices: 62401131--62401238 Score: 117
Period size: 43 Copynumber: 2.5 Consensus size: 43
62401121 AGTATGTTTC
* * *
62401131 CTGCAACTTCAGGAAGATAAGACTAGTATCTTCAACCTGCTCT
1 CTGCAACTTCAGGGAGATAAGACTAGTATCTTCAACCTACTCG
* * * * *
62401174 CTGCAACTTCAGAGAGATAAGGCTTGTAATCTTCAATCTATTCCG
1 CTGCAACTTCAGGGAGATAAGACTAGT-ATCTTCAACCTACT-CG
*
62401219 CTGCAACTTTAGGGAGATAA
1 CTGCAACTTCAGGGAGATAA
62401239 TATCTGACTT
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
43 23 0.43
44 11 0.21
45 19 0.36
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.29
Consensus pattern (43 bp):
CTGCAACTTCAGGGAGATAAGACTAGTATCTTCAACCTACTCG
Found at i:62401409 original size:64 final size:64
Alignment explanation
Indices: 62401308--62401434 Score: 227
Period size: 64 Copynumber: 2.0 Consensus size: 64
62401298 TCATATATCT
62401308 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCGCCTAACTACATGTG
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCGCCTAACTACATGTG
* * *
62401372 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGT
1 ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCGCCTAACTACATGT
62401435 ATTATGAATG
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 60 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (64 bp):
ATGCTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCGCCTAACTACATGTG
Found at i:62413322 original size:18 final size:17
Alignment explanation
Indices: 62413286--62413329 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
62413276 TTCGAAATAG
*
62413286 ATAAAAATAATAATTAA
1 ATAAAAATAATAATGAA
*
62413303 ATAAAAATCATATATGAA
1 ATAAAAATAATA-ATGAA
*
62413321 ATAATAATA
1 ATAAAAATA
62413330 TTTGAAAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
ATAAAAATAATAATGAA
Found at i:62418523 original size:18 final size:17
Alignment explanation
Indices: 62418487--62418530 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
62418477 TTCAAAATAG
*
62418487 ATAAAAATAATAATTAA
1 ATAAAAATAATAATGAA
*
62418504 ATAAAAATCATATATGAA
1 ATAAAAATAATA-ATGAA
*
62418522 ATAATAATA
1 ATAAAAATA
62418531 TTTGAAAGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 11 0.50
18 11 0.50
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
ATAAAAATAATAATGAA
Found at i:62418850 original size:477 final size:477
Alignment explanation
Indices: 62417956--62418910 Score: 1779
Period size: 477 Copynumber: 2.0 Consensus size: 477
62417946 CAATATGCAA
*
62417956 ACAAACAAACATATATACAAATCTTAAAGTAGCATACATGAAAGTTCGAAATAGATAAAAAAATA
1 ACAAACAAACATATATACAAATCTTAAAGTAGCATACATGAAAGTTCAAAATAGATAAAAAAATA
*
62418021 ATTAAATAAAAATCATATATGAAATAATAATATTTGAATGAAATTTCAAAAGACATAATGTATAT
66 ATTAAATAAAAATCATATATGAAATAATAATATTTGAAAGAAATTTCAAAAGACATAATGTATAT
62418086 ATAAAGAAAAGTGAATAACATATAACATAGTATTTGTCAATCTAAATAAATAATATACATTAAAA
131 ATAAAGAAAAGTGAATAACATATAACATAGTATTTGTCAATCTAAATAAATAATATACATTAAAA
* ** *
62418151 TGGAAATTTTATATATAAAAACAAAGATACTAGCATATGAAAATATTCAAAATCGATATAATATA
196 TGAAAATTTTATATATAAAAACAAAGATACTAGCATATGAAAATATTCAAAATAAATAAAATATA
62418216 CCATTTAAAATAGGATCCTTAGAAGAAGATATACATACATAAAATAATATAAAATCAATAATATA
261 CCATTTAAAATAGGATCCTTAGAAGAAGATATACATACATAAAATAATATAAAATCAATAATATA
62418281 TATATGCATATAAAGAGAAAATAATGAAAAAAGAAATTTAAAGGAAATATTTACATAAAATAATA
326 TATATGCATATAAAGAGAAAATAATGAAAAAAGAAATTTAAAGGAAATATTTACATAAAATAATA
62418346 TGAAATCAATAATGTATACTTAAGAGTAAAAAAAAAGTATAAGTTATGTATATACATGTATAATG
391 TGAAATCAATAATGTATACTTAAGAGTAAAAAAAAAGTATAAGTTATGTATATACATGTATAATG
62418411 GTATTGAATTGGACATCTATAG
456 GTATTGAATTGGACATCTATAG
62418433 ACAAACAAACATATATACAAATCTTAAAGTAGCATACATGAAAGTTCAAAATAGATAAAAATAAT
1 ACAAACAAACATATATACAAATCTTAAAGTAGCATACATGAAAGTTCAAAATAGATAAAAA-AAT
62418498 AATTAAATAAAAATCATATATGAAATAATAATATTTGAAAGAAATTTCAAAAGACATAATGTATA
65 AATTAAATAAAAATCATATATGAAATAATAATATTTGAAAGAAATTTCAAAAGACATAATGTATA
* *
62418563 TATAAAGAAAAGT-AAGTAACATATAACATGGTATTTGTCAATCTAAATAAATAATATACA-TGA
130 TATAAAGAAAAGTGAA-TAACATATAACATAGTATTTGTCAATCTAAATAAATAATATACATTAA
* *
62418626 AATGAAAATTTTATATATAAAAACAAAGATACTAGTATATGAAAGTATTCAAAATAAATAAAATA
194 AATGAAAATTTTATATATAAAAACAAAGATACTAGCATATGAAAATATTCAAAATAAATAAAATA
*
62418691 TACCATTTAAAATAGGGTCCTTAGAAGAAGATATACATACATAAAATAATATAAAATCAATAATA
259 TACCATTTAAAATAGGATCCTTAGAAGAAGATATACATACATAAAATAATATAAAATCAATAATA
62418756 TATATATGCATATAAAGAGAAAATAATGAAAAAAGAAATTTAAAGGAAATATTTACATAAAATAA
324 TATATATGCATATAAAGAGAAAATAATGAAAAAAGAAATTTAAAGGAAATATTTACATAAAATAA
62418821 TATGAAATCAATAATGTATACTTAAGAGTAAAAAAAAAGTATAAGTTATGTATATACATGTATAA
389 TATGAAATCAATAATGTATACTTAAGAGTAAAAAAAAAGTATAAGTTATGTATATACATGTATAA
62418886 TGGTATTGAATTGGACATCTATAG
454 TGGTATTGAATTGGACATCTATAG
62418910 A
1 A
62418911 TTATTAAATA
Statistics
Matches: 465, Mismatches: 11, Indels: 4
0.97 0.02 0.01
Matches are distributed among these distances:
477 342 0.74
478 123 0.26
ACGTcount: A:0.54, C:0.07, G:0.10, T:0.29
Consensus pattern (477 bp):
ACAAACAAACATATATACAAATCTTAAAGTAGCATACATGAAAGTTCAAAATAGATAAAAAAATA
ATTAAATAAAAATCATATATGAAATAATAATATTTGAAAGAAATTTCAAAAGACATAATGTATAT
ATAAAGAAAAGTGAATAACATATAACATAGTATTTGTCAATCTAAATAAATAATATACATTAAAA
TGAAAATTTTATATATAAAAACAAAGATACTAGCATATGAAAATATTCAAAATAAATAAAATATA
CCATTTAAAATAGGATCCTTAGAAGAAGATATACATACATAAAATAATATAAAATCAATAATATA
TATATGCATATAAAGAGAAAATAATGAAAAAAGAAATTTAAAGGAAATATTTACATAAAATAATA
TGAAATCAATAATGTATACTTAAGAGTAAAAAAAAAGTATAAGTTATGTATATACATGTATAATG
GTATTGAATTGGACATCTATAG
Found at i:62424012 original size:19 final size:19
Alignment explanation
Indices: 62423979--62424024 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
62423969 AGTTGTAAGT
* *
62423979 ATATATATGTGAATAATTTG
1 ATAT-TATGTAAATAATGTG
62423999 ATATTATGTAAATAATGTG
1 ATATTATGTAAATAATGTG
*
62424018 ACATTAT
1 ATATTAT
62424025 TATATGTTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.41, C:0.02, G:0.13, T:0.43
Consensus pattern (19 bp):
ATATTATGTAAATAATGTG
Found at i:62427685 original size:30 final size:31
Alignment explanation
Indices: 62427620--62427687 Score: 79
Period size: 30 Copynumber: 2.3 Consensus size: 31
62427610 CCGTGTACTT
* *
62427620 GCCCGTGTGACTCACATGGCCAGGGTACACA
1 GCCCGTGTAACTCACATAGCCAGGGTACACA
*
62427651 -CCCGTGTAACTCACATAGCCTA-GGTTCA-A
1 GCCCGTGTAACTCACATAGCC-AGGGTACACA
62427680 GCCCGTGT
1 GCCCGTGT
62427688 CCCTGGCTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
29 1 0.03
30 30 0.94
31 1 0.03
ACGTcount: A:0.22, C:0.32, G:0.25, T:0.21
Consensus pattern (31 bp):
GCCCGTGTAACTCACATAGCCAGGGTACACA
Found at i:62437779 original size:17 final size:17
Alignment explanation
Indices: 62437757--62437797 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
62437747 TGAGTTCTAG
62437757 TAGCTATAAGTATCAAA
1 TAGCTATAAGTATCAAA
62437774 TAGCTATAAGTATCAAA
1 TAGCTATAAGTATCAAA
62437791 TAGCTAT
1 TAGCTAT
62437798 GAAATTCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (17 bp):
TAGCTATAAGTATCAAA
Found at i:62437806 original size:17 final size:17
Alignment explanation
Indices: 62437757--62437807 Score: 68
Period size: 17 Copynumber: 3.0 Consensus size: 17
62437747 TGAGTTCTAG
*
62437757 TAGCTATAAGTATCAAA
1 TAGCTATAAATATCAAA
*
62437774 TAGCTATAAGTATCAAA
1 TAGCTATAAATATCAAA
62437791 TAGCTATGAAAT-TCAAA
1 TAGCTAT-AAATATCAAA
62437808 ACTTGAGGCC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
17 29 0.91
18 3 0.09
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (17 bp):
TAGCTATAAATATCAAA
Found at i:62442092 original size:12 final size:12
Alignment explanation
Indices: 62442075--62442101 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
62442065 ATTCCGAAGT
62442075 ATATATATATAC
1 ATATATATATAC
62442087 ATATATATATAC
1 ATATATATATAC
62442099 ATA
1 ATA
62442102 AGTATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:62442616 original size:27 final size:27
Alignment explanation
Indices: 62442585--62442762 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
62442575 TAAATTGTAC
62442585 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
62442612 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62442638 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
62442666 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
62442694 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
62442721 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
62442748 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
62442763 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:62442699 original size:82 final size:81
Alignment explanation
Indices: 62442586--62442741 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
62442576 AAATTGTACA
* *
62442586 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
62442650 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
62442667 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
62442732 TGCGAGTTGA
65 TGCGAATTGA
62442742 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:62442753 original size:82 final size:81
Alignment explanation
Indices: 62442582--62442762 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
62442572 GATTAAATTG
* *
62442582 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
62442647 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
62442663 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
62442727 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
62442745 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
62442763 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:62450782 original size:40 final size:40
Alignment explanation
Indices: 62450693--62450956 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
62450683 TTGAATGATG
* *
62450693 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * *
62450732 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
62450772 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62450811 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
62450851 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
62450891 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
62450932 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
62450957 AACGAGGAGC
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
39 53 0.26
40 143 0.69
41 10 0.05
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:62450974 original size:120 final size:118
Alignment explanation
Indices: 62450693--62450989 Score: 338
Period size: 119 Copynumber: 2.5 Consensus size: 118
62450683 TTGAATGATG
* *
62450693 TCCGGGCTAAGTCCCGAAGGC-TTGTG--CTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
1 TCCGGGCTAAGTCCCGAAGGCATT-TGAAC-GAGTGACTAA-ATCCGG-TTAA-ATCCCGAAGGC
* *
62450753 ATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
61 ATTTGTGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
* ** * *
62450811 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTT
* *
62450876 GTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
65 GTGCGAGATACTAAATCCGGGCTAAG-CCCGAAGGCATTTGTGCGAATTACTA-AA
* * *
62450932 -CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
62450990 TACGTGATTT
Statistics
Matches: 153, Mismatches: 17, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
118 23 0.15
119 64 0.42
120 64 0.42
121 2 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (118 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTG
TGCGAGATACTAAATCCGGGCTAAGCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:62485295 original size:42 final size:42
Alignment explanation
Indices: 62485127--62485295 Score: 144
Period size: 42 Copynumber: 4.0 Consensus size: 42
62485117 CACGGTACTG
* * *
62485127 TACCAATGCCATATCCCAGATATGGTCTTACATGTAATCTCG
1 TACCAGTGCCATATCCCAGATATGGTCTTACATGAAATCTCA
* * * * * **
62485169 TATC-GATGCCAATAGCCTAGCTATGGTCTTATACAAAATCTCA
1 TACCAG-TGCC-ATATCCCAGATATGGTCTTACATGAAATCTCA
* * * * * *
62485212 TATCGGTGCCATATCCCAGATATGATTTTATA-CAAAGTCTCA
1 TACCAGTGCCATATCCCAGATATGGTCTTACATGAAA-TCTCA
*
62485254 TACCAGTGCCATATCCCAGATATGGTCTTACATGTAATCTCA
1 TACCAGTGCCATATCCCAGATATGGTCTTACATGAAATCTCA
62485296 GTAACCCTAA
Statistics
Matches: 99, Mismatches: 23, Indels: 10
0.75 0.17 0.08
Matches are distributed among these distances:
41 3 0.03
42 61 0.62
43 34 0.34
44 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.31
Consensus pattern (42 bp):
TACCAGTGCCATATCCCAGATATGGTCTTACATGAAATCTCA
Found at i:62491378 original size:18 final size:18
Alignment explanation
Indices: 62491355--62491393 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
62491345 CAAAGTAGTT
62491355 CTTTAAAACTTTCTCAAG
1 CTTTAAAACTTTCTCAAG
*
62491373 CTTTAAATCTTTCTCAAG
1 CTTTAAAACTTTCTCAAG
62491391 CTT
1 CTT
62491394 CATATAACGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.28, C:0.23, G:0.05, T:0.44
Consensus pattern (18 bp):
CTTTAAAACTTTCTCAAG
Found at i:62493111 original size:59 final size:61
Alignment explanation
Indices: 62493003--62493148 Score: 190
Period size: 60 Copynumber: 2.4 Consensus size: 61
62492993 TTAATATTAC
* * * * *
62493003 ATTTGGTACCTGAACTTGAC-ACTTTTCCTAATTTGGTATCTAATCTTTTTTTTG-GCTCA
1 ATTTGGTACCTGAACTTGACAATTTTTCCTAATTTGCTACCTAATATTTTTTTTGAGCCCA
* *
62493062 GTTTGGTACCTGAACTTGACAATTTTTCTTAATTTGCTACCTAA-ATTTTTTTTGAGCCCA
1 ATTTGGTACCTGAACTTGACAATTTTTCCTAATTTGCTACCTAATATTTTTTTTGAGCCCA
* *
62493122 ATCTGGTACCTGAACTTGACATTTTTT
1 ATTTGGTACCTGAACTTGACAATTTTT
62493149 TCTATACCTA
Statistics
Matches: 75, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
59 28 0.37
60 47 0.63
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.46
Consensus pattern (61 bp):
ATTTGGTACCTGAACTTGACAATTTTTCCTAATTTGCTACCTAATATTTTTTTTGAGCCCA
Found at i:62493713 original size:58 final size:58
Alignment explanation
Indices: 62493560--62493729 Score: 207
Period size: 60 Copynumber: 2.9 Consensus size: 58
62493550 CAAATCAAAA
* * *
62493560 AAAAAAGATTAGATACCAAATTAGGAAAAATAGTCAAGTTTAGGTACCAAATTAGACCCC
1 AAAAAAGTTTAGGTACCAAATTAGAAAAAAT-GTCAAGTTTAGGTACCAAATTAGA-CCC
* * * * *
62493620 AAAAAAGTTTAAGTACCAACTTAAGAAAAAGTGTCAAGTTTAGGTACTAAATTGGA-CC
1 AAAAAAGTTTAGGTACCAAATT-AGAAAAAATGTCAAGTTTAGGTACCAAATTAGACCC
* *
62493678 AAAAATAGTTTAGGTACCAAATTAGAAAAAATGTCAAATTCAGGTACCAAAT
1 AAAAA-AGTTTAGGTACCAAATTAGAAAAAATGTCAAGTTTAGGTACCAAAT
62493730 GTTATATTAA
Statistics
Matches: 94, Mismatches: 14, Indels: 6
0.82 0.12 0.05
Matches are distributed among these distances:
58 32 0.34
59 15 0.16
60 40 0.43
61 7 0.07
ACGTcount: A:0.48, C:0.13, G:0.15, T:0.24
Consensus pattern (58 bp):
AAAAAAGTTTAGGTACCAAATTAGAAAAAATGTCAAGTTTAGGTACCAAATTAGACCC
Found at i:62498602 original size:14 final size:14
Alignment explanation
Indices: 62498583--62498610 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
62498573 TCATTATTAT
62498583 ACCAGCTTGTGTTA
1 ACCAGCTTGTGTTA
62498597 ACCAGCTTGTGTTA
1 ACCAGCTTGTGTTA
62498611 GATTCATCTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.36
Consensus pattern (14 bp):
ACCAGCTTGTGTTA
Found at i:62503179 original size:15 final size:15
Alignment explanation
Indices: 62503159--62503203 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
62503149 TTTGCTCAGA
62503159 TTACATTTTAGTCAC
1 TTACATTTTAGTCAC
* *
62503174 TTACA-TTT-G-AAA
1 TTACATTTTAGTCAC
62503186 TTACATTTTAGTCAC
1 TTACATTTTAGTCAC
62503201 TTA
1 TTA
62503204 TGTTATCATT
Statistics
Matches: 23, Mismatches: 4, Indels: 6
0.70 0.12 0.18
Matches are distributed among these distances:
12 6 0.26
13 4 0.17
14 4 0.17
15 9 0.39
ACGTcount: A:0.31, C:0.16, G:0.07, T:0.47
Consensus pattern (15 bp):
TTACATTTTAGTCAC
Found at i:62504516 original size:11 final size:11
Alignment explanation
Indices: 62504500--62504533 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
62504490 TAATTGTTAC
62504500 TAAAATTATTT
1 TAAAATTATTT
*
62504511 TAAAATTATTG
1 TAAAATTATTT
62504522 TAAAATTATTT
1 TAAAATTATTT
62504533 T
1 T
62504534 TATTTTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (11 bp):
TAAAATTATTT
Found at i:62504629 original size:27 final size:27
Alignment explanation
Indices: 62504599--62504661 Score: 83
Period size: 27 Copynumber: 2.3 Consensus size: 27
62504589 AATTACAAAT
* *
62504599 AAAACCCAAA-CACAACAAAAGTAGAAC
1 AAAACCCAAACCA-AACAAAAGCAAAAC
62504626 AAAACCCAAACCAAACAAAAGCAAAAC
1 AAAACCCAAACCAAACAAAAGCAAAAC
*
62504653 AACACCCAA
1 AAAACCCAA
62504662 CAAAAGTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
27 30 0.94
28 2 0.06
ACGTcount: A:0.63, C:0.30, G:0.05, T:0.02
Consensus pattern (27 bp):
AAAACCCAAACCAAACAAAAGCAAAAC
Found at i:62508162 original size:31 final size:31
Alignment explanation
Indices: 62508127--62508219 Score: 85
Period size: 31 Copynumber: 3.2 Consensus size: 31
62508117 CTAAGAACAA
62508127 TTAAAAGGTAAAAAATTCCAATGCACGATTT
1 TTAAAAGGTAAAAAATTCCAATGCACGATTT
* * * *
62508158 TTAAAAAGT---AAGTT-TAAT-CA--A-TA
1 TTAAAAGGTAAAAAATTCCAATGCACGATTT
62508181 TTAAAAGGTAAAAAATTCCAATGCACGATTT
1 TTAAAAGGTAAAAAATTCCAATGCACGATTT
62508212 TTGAAAAG
1 TT-AAAAG
62508220 TAAGTTTAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 17
0.64 0.11 0.24
Matches are distributed among these distances:
23 9 0.20
24 1 0.02
26 6 0.13
27 6 0.13
28 6 0.13
30 1 0.02
31 11 0.24
32 5 0.11
ACGTcount: A:0.47, C:0.10, G:0.13, T:0.30
Consensus pattern (31 bp):
TTAAAAGGTAAAAAATTCCAATGCACGATTT
Found at i:62508185 original size:54 final size:54
Alignment explanation
Indices: 62508126--62508235 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
62508116 ACTAAGAACA
62508126 ATTAAAAGGTAAAAAATTCCAATGCACGATTTTTAAAAAGTAAGTTTAATCAAT
1 ATTAAAAGGTAAAAAATTCCAATGCACGATTTTTAAAAAGTAAGTTTAATCAAT
*
62508180 ATTAAAAGGTAAAAAATTCCAATGCACGATTTTTGAAAAGTAAGTTTAATCAAT
1 ATTAAAAGGTAAAAAATTCCAATGCACGATTTTTAAAAAGTAAGTTTAATCAAT
62508234 AT
1 AT
62508236 GACATAATTG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.47, C:0.09, G:0.12, T:0.32
Consensus pattern (54 bp):
ATTAAAAGGTAAAAAATTCCAATGCACGATTTTTAAAAAGTAAGTTTAATCAAT
Found at i:62539792 original size:43 final size:43
Alignment explanation
Indices: 62539731--62539816 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
62539721 TGGTAATTAG
62539731 ACCATTAATAAAAGTATGTAGATTTTTATGGTAACTCATCTAT
1 ACCATTAATAAAAGTATGTAGATTTTTATGGTAACTCATCTAT
62539774 ACCATTAATAAAAGTATGTAGATTTTTATGGTAACTCATCTAT
1 ACCATTAATAAAAGTATGTAGATTTTTATGGTAACTCATCTAT
62539817 GGAATTATAG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.40
Consensus pattern (43 bp):
ACCATTAATAAAAGTATGTAGATTTTTATGGTAACTCATCTAT
Found at i:62545405 original size:22 final size:22
Alignment explanation
Indices: 62545377--62545419 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
62545367 CTTGGGAGGT
*
62545377 ACCAAATAAATGACTACTTGAC
1 ACCAAATAAATAACTACTTGAC
*
62545399 ACCAAATAACTAACTACTTGA
1 ACCAAATAAATAACTACTTGA
62545420 ATCAGGGTTT
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:0.47, C:0.23, G:0.07, T:0.23
Consensus pattern (22 bp):
ACCAAATAAATAACTACTTGAC
Found at i:62547147 original size:43 final size:43
Alignment explanation
Indices: 62547099--62547204 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 43
62547089 TTAACGAGAT
* *
62547099 GTGATTATGTGTAAGACCATGTTTGGGACATTGGCATCATTAC
1 GTGATTATGTGTAAGACCATGTCTAGGACATTGGCATCATTAC
* * *
62547142 GTGATTACGTGTAAGACCATGTCTAGGACATTGGCATCGTTAT
1 GTGATTATGTGTAAGACCATGTCTAGGACATTGGCATCATTAC
*
62547185 TTGATT-TCGTGTAAGACCAT
1 GTGATTAT-GTGTAAGACCAT
62547205 AATTGGGCTA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (43 bp):
GTGATTATGTGTAAGACCATGTCTAGGACATTGGCATCATTAC
Found at i:62557283 original size:42 final size:42
Alignment explanation
Indices: 62557181--62557289 Score: 114
Period size: 42 Copynumber: 2.6 Consensus size: 42
62557171 CCGTATCAAT
* *
62557181 GCCATACCCCAGATATGGTCTTACATGAAACATCATAACGAC
1 GCCATATCCCAGATATGGTCTTACACGAAACATCATAACGAC
* * * * *
62557223 GCCATGTCCCTA-ACATGGTCTTATACGAAATCA-CATACCGAT
1 GCCATATCCC-AGATATGGTCTTACACGAAA-CATCATAACGAC
*
62557265 TCCATATCCCAGATATGGTCTTACA
1 GCCATATCCCAGATATGGTCTTACA
62557290 AGGAATCTCA
Statistics
Matches: 53, Mismatches: 11, Indels: 6
0.76 0.16 0.09
Matches are distributed among these distances:
41 1 0.02
42 49 0.92
43 3 0.06
ACGTcount: A:0.32, C:0.28, G:0.14, T:0.26
Consensus pattern (42 bp):
GCCATATCCCAGATATGGTCTTACACGAAACATCATAACGAC
Found at i:62559559 original size:50 final size:50
Alignment explanation
Indices: 62559438--62559733 Score: 231
Period size: 50 Copynumber: 5.9 Consensus size: 50
62559428 ATTGTGAGAA
* * ***
62559438 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG--TTAGGT
*
62559490 CACATCTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
* * * * * * * * * *
62559540 CGCATGTGTAATACTAAGTGCGGGCTACGATGCGTACCCGACAACTTCA-AT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TAGTT-AGGT
* * *
62559591 CACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCAGAT-GATTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG-TTAGGT
* * * * ** *
62559641 CACGTGTGTTGTACTAAGTACATGCTACTACGTGTTTC-GAATTGTT-GGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATAGTTAGGT
* * * * *
62559690 CGCATGTGTGGTACTAAGTGCAGGCTACTATGCGTACCAAATAG
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
62559734 CTTCGGTTAC
Statistics
Matches: 191, Mismatches: 46, Indels: 17
0.75 0.18 0.07
Matches are distributed among these distances:
49 37 0.19
50 79 0.41
51 36 0.19
52 39 0.20
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTTAGGT
Found at i:62559759 original size:150 final size:153
Alignment explanation
Indices: 62559445--62559765 Score: 344
Period size: 150 Copynumber: 2.1 Consensus size: 153
62559435 GAACACATGT
* * * * *
62559445 GTAGTACTATGTGCAGGCTACTATGTGTTTAAGATAGTTTTAGGTCACATCTGTAGTACTAAGTG
1 GTAGTAATATGTGCAGGCTACTACGTGTATAAGATAGTATTAGGTCACATCTGTAGTACTAAGTA
*
62559510 CAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAATACTAAGTGCGGGCTACGATGCGT
66 CAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAATACTAAGTGCAGGCTACGATGCGT
** ** *
62559575 ACCCGACAACTTCAATCACGTGT
131 ACCAAACAACTTCAATCACAAGG
* * * * *
62559598 GTAGTACTATGTGCAGGCTACTACGTGTATCAGAT-G-ATTAGGTCACGTGTGTTGTACTAAGTA
1 GTAGTAATATGTGCAGGCTACTACGTGTATAAGATAGTATTAGGTCACATCTGTAGTACTAAGTA
* ** * ** *
62559661 CATGCTACTACGTGTTTC-GAATTGTT-GGTCGCATGTGTGGTACTAAGTGCAGGCTACTATGCG
66 CAGGCTACTACGTGTACCAG-ATAGTTAGGTCGCATGTGTAATACTAAGTGCAGGCTACGATGCG
* * ** *
62559724 TACCAAATAGCTTCGGTTACAAGG
130 TACCAAACAACTTCAATCACAAGG
*
62559748 GTGGTAATATGTGCAGGC
1 GTAGTAATATGTGCAGGC
62559766 AACCGTGTAT
Statistics
Matches: 139, Mismatches: 28, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
150 64 0.46
151 42 0.30
152 1 0.01
153 32 0.23
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (153 bp):
GTAGTAATATGTGCAGGCTACTACGTGTATAAGATAGTATTAGGTCACATCTGTAGTACTAAGTA
CAGGCTACTACGTGTACCAGATAGTTAGGTCGCATGTGTAATACTAAGTGCAGGCTACGATGCGT
ACCAAACAACTTCAATCACAAGG
Found at i:62562211 original size:15 final size:14
Alignment explanation
Indices: 62562191--62562237 Score: 58
Period size: 15 Copynumber: 3.2 Consensus size: 14
62562181 TATGATATTG
62562191 TATCTTGGATTTCT
1 TATCTTGGATTTCT
*
62562205 CTATCTTGGACTTCT
1 -TATCTTGGATTTCT
*
62562220 TAATCTTGGTTTTCT
1 T-ATCTTGGATTTCT
62562235 TAT
1 TAT
62562238 TATCTATATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 3 0.11
15 25 0.89
ACGTcount: A:0.15, C:0.17, G:0.13, T:0.55
Consensus pattern (14 bp):
TATCTTGGATTTCT
Found at i:62564590 original size:46 final size:44
Alignment explanation
Indices: 62564499--62564624 Score: 132
Period size: 46 Copynumber: 2.8 Consensus size: 44
62564489 GGGTTATTTG
* * **
62564499 TGTGCCAGTGTAAGACATGTCTAGGACATGCATTGGCCTCAAGA
1 TGTGTCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGA
62564543 TGTAAG-CTAGTGTAAGACATGTCTGGGACATGCATCAG-CT-ATGAGA
1 TGT--GTC-AGTGTAAGACATGTCTGGGACATGCATCAGCCTCA--AGA
62564589 TGTGTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 TGTGTCAGTGTAAGA-CATGTCTGGGACAT-GCATC
62564625 GGCACGGATA
Statistics
Matches: 71, Mismatches: 3, Indels: 14
0.81 0.03 0.16
Matches are distributed among these distances:
44 14 0.20
45 18 0.25
46 39 0.55
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.26
Consensus pattern (44 bp):
TGTGTCAGTGTAAGACATGTCTGGGACATGCATCAGCCTCAAGA
Found at i:62564717 original size:49 final size:50
Alignment explanation
Indices: 62564595--62564724 Score: 158
Period size: 49 Copynumber: 2.6 Consensus size: 50
62564585 GAGATGTGTC
* *
62564595 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACGGATATGTGATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTAATAGTT
* * **
62564645 AGTGTAAGACCATGTTTGAGACATGGTGTCGGC-CTCGAT-T-TCAATAGTT
1 AGTGTAAGACCATGTCTGGGACATGGCATCGGCAC-CGATATGT-AATAGTT
*
62564694 AGTGTAAGACCATGTCTGGGACATGGAATCG
1 AGTGTAAGACCATGTCTGGGACATGGCATCG
62564725 ACTTGATGGA
Statistics
Matches: 68, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
48 1 0.01
49 35 0.51
50 32 0.47
ACGTcount: A:0.26, C:0.16, G:0.30, T:0.28
Consensus pattern (50 bp):
AGTGTAAGACCATGTCTGGGACATGGCATCGGCACCGATATGTAATAGTT
Found at i:62565319 original size:171 final size:171
Alignment explanation
Indices: 62565034--62565370 Score: 629
Period size: 171 Copynumber: 2.0 Consensus size: 171
62565024 TTTAGTGAAG
*
62565034 ATGTAAATAGGCAATTCATGCTTATGAGAATGATTTTGTGATGAACTTGTGATTATAGGTCTATA
1 ATGTAAATAGGCAATTCAGGCTTATGAGAATGATTTTGTGATGAACTTGTGATTATAGGTCTATA
*
62565099 CTTATGATTTATGAATATGTAACCTTACCAATGTGGTGAAAATGAATTAATATGGTGTGATAAAC
66 CTTATGATGTATGAATATGTAACCTTACCAATGTGGTGAAAATGAATTAATATGGTGTGATAAAC
62565164 TTAGTATCGTTAATTTACACAAACAGTTTTGGACAGAAAAT
131 TTAGTATCGTTAATTTACACAAACAGTTTTGGACAGAAAAT
* * *
62565205 ATGTAAATAGGTAATTCAGGCTTATGAGAATGATTTTGTTATGACCTTGTGATTATAGGTCTATA
1 ATGTAAATAGGCAATTCAGGCTTATGAGAATGATTTTGTGATGAACTTGTGATTATAGGTCTATA
62565270 CTTATGATGTATGAATATGTAACCTTACCAATGTGGTGAAAATGAATTAATATGGTGTGATAAAC
66 CTTATGATGTATGAATATGTAACCTTACCAATGTGGTGAAAATGAATTAATATGGTGTGATAAAC
62565335 TTAGTATCGTTAATTTACACAAACAGTTTTGGACAG
131 TTAGTATCGTTAATTTACACAAACAGTTTTGGACAG
62565371 CAGCCATAAT
Statistics
Matches: 161, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
171 161 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.36
Consensus pattern (171 bp):
ATGTAAATAGGCAATTCAGGCTTATGAGAATGATTTTGTGATGAACTTGTGATTATAGGTCTATA
CTTATGATGTATGAATATGTAACCTTACCAATGTGGTGAAAATGAATTAATATGGTGTGATAAAC
TTAGTATCGTTAATTTACACAAACAGTTTTGGACAGAAAAT
Found at i:62568804 original size:100 final size:101
Alignment explanation
Indices: 62568678--62568858 Score: 278
Period size: 100 Copynumber: 1.8 Consensus size: 101
62568668 TGGTTTTAGG
* *
62568678 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGT-TCCTGAT-GTTAGGTCGCATGTGTAGT-
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAT-ATGGTTAGGTCACATGTGTAGTC
62568740 ATTAAGTGCAGGCTACTATGCCTACCCGGTAACTTCAA
65 A-TAAGTGCAGGCTACTATGCCTACCCGGTAACTTCAA
* * *
62568778 TCACGTGTGTAGTATTAAGTGCAGGCTACTACGTGTATCATATGGTTAGGTCACGTGTGTAGTCA
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCATATGGTTAGGTCACATGTGTAGTCA
62568843 TAAGTGCAGGCTACTA
66 TAAGTGCAGGCTACTA
62568859 CGTGTACCGG
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
100 36 0.49
101 36 0.49
102 1 0.01
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.31
Consensus pattern (101 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCATATGGTTAGGTCACATGTGTAGTCA
TAAGTGCAGGCTACTATGCCTACCCGGTAACTTCAA
Found at i:62568862 original size:28 final size:28
Alignment explanation
Indices: 62568780--62568863 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 28
62568770 AACTTCAATC
62568780 ACGTGTGTAGT-ATTAAGTGCAGGCTACT
1 ACGTGTGTAGTCA-TAAGTGCAGGCTACT
* *
62568808 AC--GTGTA-TCATATG-GTTAGG-T-C-
1 ACGTGTGTAGTCATAAGTG-CAGGCTACT
62568830 ACGTGTGTAGTCATAAGTGCAGGCTACT
1 ACGTGTGTAGTCATAAGTGCAGGCTACT
62568858 ACGTGT
1 ACGTGT
62568864 ACCGGATTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 18
0.66 0.06 0.28
Matches are distributed among these distances:
22 2 0.05
23 1 0.02
24 7 0.16
25 16 0.37
26 8 0.19
27 1 0.02
28 8 0.19
ACGTcount: A:0.24, C:0.15, G:0.29, T:0.32
Consensus pattern (28 bp):
ACGTGTGTAGTCATAAGTGCAGGCTACT
Found at i:62568913 original size:48 final size:50
Alignment explanation
Indices: 62568627--62568918 Score: 206
Period size: 49 Copynumber: 5.8 Consensus size: 50
62568617 ATTGTGAGAA
* * ***
62568627 CACATGTGTAGT-ACTATGTGCAGGCTACTATGTGTTTAAGATGGTTTTAGGT
1 CACATGTGTAGTCA-TAAGTGCAGGCTACTACGTGTACCAGATGG--TTAGGT
* * * *
62568679 CACGTGTGTAGT-ACTAAGTGCAGGCTACTACATGTTCCTGAT-GTTAGGT
1 CACATGTGTAGTCA-TAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* * ** * * ** *
62568728 CGCATGTGTAGT-ATTAAGTGCAGGCTACTATGCCTACCCGGTAACTTCA-AT
1 CACATGTGTAGTCA-TAAGTGCAGGCTACTACGTGTACCAGAT-GGTT-AGGT
* * *
62568779 CACGTGTGTAGT-ATTAAGTGCAGGCTACTACGTGTATCATATGGTTAGGT
1 CACATGTGTAGTCA-TAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* * *
62568829 CACGTGTGTAGTCATAAGTGCAGGCTACTACGTGTACCGGATTGTT-GGT
1 CACATGTGTAGTCATAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
* *
62568878 CGCATGT-TAGTTC-TAAGTGCAGGCTACTATGTGTACCAGAT
1 CACATGTGTAG-TCATAAGTGCAGGCTACTACGTGTACCAGAT
62568919 AGCTTCGGTT
Statistics
Matches: 195, Mismatches: 39, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
48 29 0.15
49 49 0.25
50 43 0.22
51 38 0.19
52 36 0.18
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.33
Consensus pattern (50 bp):
CACATGTGTAGTCATAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGT
Found at i:62571829 original size:46 final size:46
Alignment explanation
Indices: 62571779--62571931 Score: 177
Period size: 46 Copynumber: 3.3 Consensus size: 46
62571769 TGGTTGAGCA
*
62571779 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * * *
62571825 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
62571870 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
*
62571918 CCCGAACTCGTTGA
1 TCCGAACTCGTTGA
62571932 TCCGAGTTCA
Statistics
Matches: 88, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
43 5 0.06
45 4 0.05
46 41 0.47
47 28 0.32
48 4 0.05
50 6 0.07
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:62575064 original size:29 final size:29
Alignment explanation
Indices: 62575031--62575087 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
62575021 GGTAATTAGA
62575031 CCATTAGGTTTTCATGGAAAAAAATGGAG
1 CCATTAGGTTTTCATGGAAAAAAATGGAG
*
62575060 CCATTAGGTTTTCATGGACAAAAATGGA
1 CCATTAGGTTTTCATGGAAAAAAATGGA
62575088 CATATATAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (29 bp):
CCATTAGGTTTTCATGGAAAAAAATGGAG
Found at i:62577420 original size:22 final size:22
Alignment explanation
Indices: 62577395--62577437 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
62577385 TAGTTAACCA
62577395 CACCACCGTTGAACCACCACCT
1 CACCACCGTTGAACCACCACCT
*
62577417 CACCACCGTTGGACCACCACC
1 CACCACCGTTGAACCACCACC
62577438 AGACAACCGC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.26, C:0.51, G:0.12, T:0.12
Consensus pattern (22 bp):
CACCACCGTTGAACCACCACCT
Found at i:62577446 original size:22 final size:22
Alignment explanation
Indices: 62577391--62577446 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
62577381 CCATTAGTTA
*
62577391 ACCACACCACCGTTGAACCACC
1 ACCACACAACCGTTGAACCACC
* * *
62577413 ACCTCACCACCGTTGGACCACC
1 ACCACACAACCGTTGAACCACC
*
62577435 ACCAGACAACCG
1 ACCACACAACCG
62577447 CCAGACCACC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.30, C:0.48, G:0.12, T:0.09
Consensus pattern (22 bp):
ACCACACAACCGTTGAACCACC
Found at i:62581249 original size:35 final size:35
Alignment explanation
Indices: 62581176--62581313 Score: 123
Period size: 35 Copynumber: 3.9 Consensus size: 35
62581166 ACGTATGTGC
* * * * *
62581176 TGATGTATTGAACTTATATATATTTGGCCACATGTGA
1 TGATTTATTGAAC-T-TGTATATTCGGCCATATATGA
* *
62581213 TGTTTTATTGAACTTGTATATTCGGTCATATATGA
1 TGATTTATTGAACTTGTATATTCGGCCATATATGA
* *
62581248 TGATTTATTGTACTTGTATATTCGGCCATATGTGA
1 TGATTTATTGAACTTGTATATTCGGCCATATATGA
* ** * *
62581283 TGATATAACGAACCATGTGTATTCGGCCATA
1 TGATTTATTGAA-CTTGTATATTCGGCCATA
62581314 CAAGTAAGTA
Statistics
Matches: 83, Mismatches: 17, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
35 55 0.66
36 17 0.20
37 11 0.13
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (35 bp):
TGATTTATTGAACTTGTATATTCGGCCATATATGA
Found at i:62588192 original size:37 final size:37
Alignment explanation
Indices: 62588109--62588192 Score: 123
Period size: 37 Copynumber: 2.3 Consensus size: 37
62588099 GCCACATAGG
* *
62588109 TATTGAACTTATATATATTTGGCCACAAGTGATGATG
1 TATTGAACTTATATATATTTGGCCACAAGAGATGATA
* *
62588146 TATTGAACTTATATATATTTGGCCACATGAGATGTTA
1 TATTGAACTTATATATATTTGGCCACAAGAGATGATA
*
62588183 TATTAAACTT
1 TATTGAACTT
62588193 GAATATTCGA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.33, C:0.11, G:0.15, T:0.40
Consensus pattern (37 bp):
TATTGAACTTATATATATTTGGCCACAAGAGATGATA
Found at i:62588249 original size:35 final size:35
Alignment explanation
Indices: 62588176--62588312 Score: 112
Period size: 35 Copynumber: 3.9 Consensus size: 35
62588166 GGCCACATGA
* * * * * * *
62588176 GATGTTATATTAAACTTGAATATTCGACTACATGT
1 GATGATATATTGAACATGTATATTCGACCATATAT
* * *
62588211 GATGTTTTATTGAACATGTATATTCGATCATATAT
1 GATGATATATTGAACATGTATATTCGACCATATAT
* * * *
62588246 GATGATATATTGTACTTGTATATTCGGCCATATGT
1 GATGATATATTGAACATGTATATTCGACCATATAT
* * *
62588281 GATGATGTAATGAACCATGTGTATTCGACCAT
1 GATGATATATTGAA-CATGTATATTCGACCAT
62588313 CTAAGTAAGT
Statistics
Matches: 80, Mismatches: 21, Indels: 1
0.78 0.21 0.01
Matches are distributed among these distances:
35 66 0.82
36 14 0.17
ACGTcount: A:0.31, C:0.12, G:0.18, T:0.40
Consensus pattern (35 bp):
GATGATATATTGAACATGTATATTCGACCATATAT
Found at i:62591253 original size:15 final size:15
Alignment explanation
Indices: 62591233--62591266 Score: 68
Period size: 15 Copynumber: 2.3 Consensus size: 15
62591223 CAAAACATGC
62591233 TCTCGAATGGGTCTA
1 TCTCGAATGGGTCTA
62591248 TCTCGAATGGGTCTA
1 TCTCGAATGGGTCTA
62591263 TCTC
1 TCTC
62591267 TATCATTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.18, C:0.24, G:0.24, T:0.35
Consensus pattern (15 bp):
TCTCGAATGGGTCTA
Found at i:62598797 original size:39 final size:39
Alignment explanation
Indices: 62598741--62598817 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
62598731 CTTAAGGGGT
*
62598741 TTTATGGAAGAGGTGGAGAACTTGTTTATTGAAAGTTCG
1 TTTATGGAAGAGGTGGAGAACTTGTTCATTGAAAGTTCG
*
62598780 TTTATGGAAGAGTTGGAGAACTTGTTCATTGAAAGTTC
1 TTTATGGAAGAGGTGGAGAACTTGTTCATTGAAAGTTC
62598818 ACGATGAAGA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.29, C:0.06, G:0.29, T:0.36
Consensus pattern (39 bp):
TTTATGGAAGAGGTGGAGAACTTGTTCATTGAAAGTTCG
Found at i:62605401 original size:35 final size:35
Alignment explanation
Indices: 62605362--62605431 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
62605352 AAATTGTGAA
62605362 TTATTTTGTTTTAGAGGGGTTAATGTAAAAATTTC
1 TTATTTTGTTTTAGAGGGGTTAATGTAAAAATTTC
*
62605397 TTATTTTGTTTTAGAGGGGTTAATTTAAAAATTTC
1 TTATTTTGTTTTAGAGGGGTTAATGTAAAAATTTC
62605432 GTAATTATAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.29, C:0.03, G:0.19, T:0.50
Consensus pattern (35 bp):
TTATTTTGTTTTAGAGGGGTTAATGTAAAAATTTC
Found at i:62609252 original size:15 final size:15
Alignment explanation
Indices: 62609232--62609260 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
62609222 CTTAGTAAGA
62609232 AATATCAATACATAC
1 AATATCAATACATAC
62609247 AATATCAATACATA
1 AATATCAATACATA
62609261 GGATGATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATCAATACATAC
Found at i:62611107 original size:31 final size:32
Alignment explanation
Indices: 62611040--62611109 Score: 85
Period size: 31 Copynumber: 2.3 Consensus size: 32
62611030 ACATTTTATA
*
62611040 ATTA-TTTAATTAGATAATTATTATTTATTTG
1 ATTATTTTAATAAGATAATTATTATTTATTTG
*
62611071 A-TATTTTAATAAGATATTTATTA-TTATCTT-
1 ATTATTTTAATAAGATAATTATTATTTAT-TTG
62611101 ATTATTTTA
1 ATTATTTTA
62611110 TTTAGTATCT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
30 7 0.21
31 27 0.79
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (32 bp):
ATTATTTTAATAAGATAATTATTATTTATTTG
Found at i:62624714 original size:712 final size:710
Alignment explanation
Indices: 62623117--62625254 Score: 3097
Period size: 712 Copynumber: 3.0 Consensus size: 710
62623107 GCTGCTTTTT
* * *
62623117 AAAATCGTTTCATGAAGTCCTGCACAAGATTAGTGTTTAGGAATGCAAACGAGAAAGTCTTGGGT
1 AAAATCATTTCATGAAGTCCTGCACAAGATTAGTGTTTAGGAATGCAAACAAGAGAGTCTTGGGT
62623182 TCCAGATTAGTAGTTAATAACCATATACCTTTGTCGTTTGTTGTAGAAGCCCTTGCATGTTACCA
66 TCCAGATTAGTAGTTAATAACCATATACCTTTGTCGTTTGTTGTAGAAGCCCTTGCATGTTACCA
* * * *
62623247 GGTGGTGCAGATAGGATTAGATTTGGTGTTTTAGGAGGTGGAAATAGAAGGGGATGCTTTGACAT
131 GGTGGTGCAGATGGGATTAGATTTGGGGTTTTAGGAGGTGGAAATAGAAGGGGACGCTTTGACAA
* * *
62623312 TTGTAAAAAGCTTCTTGCAGATAGGGTGGATAGATCTACCATTTATGCATATATAAGAAACTCAA
196 TTGTAAAAAGCTTCTTGCAGATAGGGTGGATAGATCTACCATTTGTCCGTATATAAGAAACTCAA
* * * * * * *
62623377 TATCGCTACGGGAAAGCTACAGTCA-TTGTCCTTTTTGGCATGCACCGAGAAAGACAAATCGTGT
261 AATAGCTACGGGAAAGCTACAGTCACTT-TAC-TTTAGGCATGCACCAAGAAAGACGAATAGTGT
*
62623441 AGCTCACCTTTTTAGCAACAGAAAGATTAAAGAGAGGACAAACAATTTATCTGACTCAAGGAGTG
324 GGCTCACCTTTTTAGCAACAGAAAGATTAAAGAGAGGACAAACAATTTATCTGACTCAAGGAGTG
** * * * *
62623506 CTTACGTTTTTTGCTATAGTAGAGGAGGACCAATGGTGGATGGACCCACCATATTAGACAACGGT
389 CTTACGTTTACTGCTACAGTAGAGGAGGACCGATGGTGGACGGACCC-CCATATTAGACCACGGT
* *
62623571 GGAGGCCAGGTATGTGGAGAGTCTCCGAAATTTGTTA-CTTTCAGGATACACTAGAGTTGAAAGG
453 GGAGGCCAGGTATGTGGAGAGTCTCCGAAATTTGTTACCTTT-A-GATACATTGGAGTTGAAAGG
* * * *
62623635 CCTAGGAATGTTTTTTATGCTTCAAATGAAGTTTCACCATAACGTTATTCAACAATTGGCTTTTT
516 CCTAGGAATGTTTTTGATGCTTCGAATGAAGTTTCACCCTAACGTTATTCAACAGTTGG-TTTTT
* *
62623700 TTTTCAAGATGAACGGTTCATTTTCTTTTTGTGATACAACTAGTGTGATGTAACTGTTCAATTTT
580 TTTTCAAGCTGAACGGTTCATTTTC-TTTTGTGATACAACTAGTGTGATGTAACTGTTCAGTTTT
* * * * *
62623765 AGTTATTTTATTTATAAATACCAATTGCTTTACTTTAAAAAATAAGTGTCGTAAATTATAGGATC
644 AGTTATTTCATTTATAAATACCAATTGCTTTACTTCAAAAAATAAGTGTCGTAAATCATGGGATT
62623830 TC
709 TC
* *
62623832 AAAATCATTTCATGAAGTCCTACATAAGATTAGTGTTTAGGAATGCAAACAAGAGAGTCTTGGGT
1 AAAATCATTTCATGAAGTCCTGCACAAGATTAGTGTTTAGGAATGCAAACAAGAGAGTCTTGGGT
* * * * *
62623897 TCCAGATTAGTAGTTAATGACTATATACATTTGT-GATTTGTTGTAAAAGCCCTTGCATGTTACT
66 TCCAGATTAGTAGTTAATAACCATATACCTTTGTCG-TTTGTTGTAGAAGCCCTTGCATGTTACC
* *
62623961 AGGTGGTGCATATGGGATTAGATTTGGGGTTTTAGGAGGTGGAAATAGAAGGGGACGCTTTGAAA
130 AGGTGGTGCAGATGGGATTAGATTTGGGGTTTTAGGAGGTGGAAATAGAAGGGGACGCTTTGACA
*
62624026 ATTGTAAAAAGCTTCTTGCAAATAGGGTGGATAGATCTACCATTTGTCCGTATATAAGAAACTCA
195 ATTGTAAAAAGCTTCTTGCAGATAGGGTGGATAGATCTACCATTTGTCCGTATATAAGAAACTCA
62624091 AAATAGCTACGGGAAAGCTACAGTCACTATTACTTTAGGCATGCACCAAGAAAGACGAATAGTGT
260 AAATAGCTACGGGAAAGCTACAGTCACT-TTACTTTAGGCATGCACCAAGAAAGACGAATAGTGT
* * *
62624156 GGCTCACCTTTTTAGCAATAGAATGATTAAATAGAGGTA-AAACAATTTATCTGACTCAAGGAGT
324 GGCTCACCTTTTTAGCAACAGAAAGATTAAAGAGAGG-ACAAACAATTTATCTGACTCAAGGAGT
* * * * * *
62624220 GCTTACATTTGCTACTGCAGCAGAGGAGGACCGATGGTGGACGGACCCCCATATTAGGCCACGGT
388 GCTTACGTTTACTGCTACAGTAGAGGAGGACCGATGGTGGACGGACCCCCATATTAGACCACGGT
** *
62624285 GGAGGCCAGGTATGCAGAGAGTCTCCGATATTTGTTACCTTTAGTATACATTGGAGTTGAAAGGC
453 GGAGGCCAGGTATGTGGAGAGTCTCCGAAATTTGTTACCTTTAG-ATACATTGGAGTTGAAAGGC
*
62624350 CTAGGAATGTTTTTGATGCTTCGAATGACA-TTTCACCCTAACATTATTCAACAGTTGGTTTTTT
517 CTAGGAATGTTTTTGATGCTTCGAATGA-AGTTTCACCCTAACGTTATTCAACAGTTGGTTTTTT
* * * * * *
62624414 TTTTAGGCTGAACGATTCATTTTCTTTTGTGATACAACTAGTGTGATATAACTATTCGGTTTTAG
581 TTTCAAGCTGAACGGTTCATTTTCTTTTGTGATACAACTAGTGTGATGTAACTGTTCAGTTTTAG
* *
62624479 TTATTTCATTTATAAATACCAATTGTTTTACTTCAAAAAATAAGTGTTGTAAATCATGGGATTTC
646 TTATTTCATTTATAAATACCAATTGCTTTACTTCAAAAAATAAGTGTCGTAAATCATGGGATTTC
* * * * *
62624544 AAAATTATTTCATGAAATCCTGCACAAGATTAGTGTTTAAGAATGCAAATAAGAGAGTATTGGGT
1 AAAATCATTTCATGAAGTCCTGCACAAGATTAGTGTTTAGGAATGCAAACAAGAGAGTCTTGGGT
* * *
62624609 TCTAGATTAGTAGTTAATAACCATATACCTTTGTCGTTTGTTGTAGAAGCCCTTGTATGTTGCCA
66 TCCAGATTAGTAGTTAATAACCATATACCTTTGTCGTTTGTTGTAGAAGCCCTTGCATGTTACCA
* * *
62624674 GGTGGTGCAGATGGGATTAGATTTGGGGTTTTATGAGGTGGAAATAGAAGGGGACACTTTGACAG
131 GGTGGTGCAGATGGGATTAGATTTGGGGTTTTAGGAGGTGGAAATAGAAGGGGACGCTTTGACAA
* ** *
62624739 TTGTAAAAAGCTTTTTGCAGATAGGGTGGATAGATCTACCATTTGTTTGTATATAAGGAACTCAA
196 TTGTAAAAAGCTTCTTGCAGATAGGGTGGATAGATCTACCATTTGTCCGTATATAAGAAACTCAA
* * * * * *
62624804 AATCA-CTACGAGAAAGCTACAGTAACTGTCACTTCAGGCATGCACCAAGAAAGACGAATGGCGT
261 AAT-AGCTACGGGAAAGCTACAGTCACT-TTACTTTAGGCATGCACCAAGAAAGACGAATAGTGT
* * * * * * *
62624868 GTCTTACCTTTTTAGCAACAGAAGGATTAAAGAGAGGAGAAACAATTTATCTAACTTAATGAGTG
324 GGCTCACCTTTTTAGCAACAGAAAGATTAAAGAGAGGACAAACAATTTATCTGACTCAAGGAGTG
* **
62624933 CTTACGTTTACTGCTACAGTAGAAGAGGACCGATGGTGGACGGACCCCCATATTAGACCACAATG
389 CTTACGTTTACTGCTACAGTAGAGGAGGACCGATGGTGGACGGACCCCCATATTAGACCACGGTG
* *
62624998 GAGGCCAGGTATGTGGAGAGTCTCTGAAATTTGTTACCTTCAAGATACATTGGAGTTGAAAGGCC
454 GAGGCCAGGTATGTGGAGAGTCTCCGAAATTTGTTACCTT-TAGATACATTGGAGTTGAAAGGCC
* *
62625063 TAGGAATGTTTTTGATGCTTCGAATGAAGTTTCA-CCTCAACGTTATTCAATAGTTGGCTTTTTT
518 TAGGAATGTTTTTGATGCTTCGAATGAAGTTTCACCCT-AACGTTATTCAACAGTTGGTTTTTTT
*
62625127 TTCAAGCTGAACGGTTCATTTTCTTTT-TGCAATAC-AGTAGTGTGATGTAACTGTTCAGTTTTA
582 TTCAAGCTGAACGGTTCATTTTCTTTTGTG--ATACAACTAGTGTGATGTAACTGTTCAGTTTTA
* *
62625190 GTTACTTCATTTATAAATACCAGTTGCTTTACTTCAAAAAATAAGTGTCGTAAATCATGGGATTT
645 GTTATTTCATTTATAAATACCAATTGCTTTACTTCAAAAAATAAGTGTCGTAAATCATGGGATTT
62625255 TTTTATTGGT
Statistics
Matches: 1273, Mismatches: 135, Indels: 33
0.88 0.09 0.02
Matches are distributed among these distances:
711 7 0.01
712 715 0.56
713 35 0.03
714 120 0.09
715 391 0.31
716 4 0.00
717 1 0.00
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.33
Consensus pattern (710 bp):
AAAATCATTTCATGAAGTCCTGCACAAGATTAGTGTTTAGGAATGCAAACAAGAGAGTCTTGGGT
TCCAGATTAGTAGTTAATAACCATATACCTTTGTCGTTTGTTGTAGAAGCCCTTGCATGTTACCA
GGTGGTGCAGATGGGATTAGATTTGGGGTTTTAGGAGGTGGAAATAGAAGGGGACGCTTTGACAA
TTGTAAAAAGCTTCTTGCAGATAGGGTGGATAGATCTACCATTTGTCCGTATATAAGAAACTCAA
AATAGCTACGGGAAAGCTACAGTCACTTTACTTTAGGCATGCACCAAGAAAGACGAATAGTGTGG
CTCACCTTTTTAGCAACAGAAAGATTAAAGAGAGGACAAACAATTTATCTGACTCAAGGAGTGCT
TACGTTTACTGCTACAGTAGAGGAGGACCGATGGTGGACGGACCCCCATATTAGACCACGGTGGA
GGCCAGGTATGTGGAGAGTCTCCGAAATTTGTTACCTTTAGATACATTGGAGTTGAAAGGCCTAG
GAATGTTTTTGATGCTTCGAATGAAGTTTCACCCTAACGTTATTCAACAGTTGGTTTTTTTTTCA
AGCTGAACGGTTCATTTTCTTTTGTGATACAACTAGTGTGATGTAACTGTTCAGTTTTAGTTATT
TCATTTATAAATACCAATTGCTTTACTTCAAAAAATAAGTGTCGTAAATCATGGGATTTC
Found at i:62626981 original size:24 final size:26
Alignment explanation
Indices: 62626918--62626981 Score: 89
Period size: 25 Copynumber: 2.6 Consensus size: 26
62626908 CAAAGGTTTT
*
62626918 GCCACAAAGGCTTT-CAAGATAAATC
1 GCCACAAAGGCTTTCCAAGAAAAATC
*
62626943 GCCACAAAGGTTTTCCAA-AAAAATC
1 GCCACAAAGGCTTTCCAAGAAAAATC
62626968 GCCA-AAAGGCTTTC
1 GCCACAAAGGCTTTC
62626982 TAGAGAATTC
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
24 9 0.26
25 23 0.66
26 3 0.09
ACGTcount: A:0.39, C:0.25, G:0.16, T:0.20
Consensus pattern (26 bp):
GCCACAAAGGCTTTCCAAGAAAAATC
Found at i:62638033 original size:28 final size:30
Alignment explanation
Indices: 62637977--62638034 Score: 75
Period size: 28 Copynumber: 2.0 Consensus size: 30
62637967 GCTTTCCTTT
* *
62637977 CAGAGTCTTGCCACGAAGGCATCCTTTTAA
1 CAGAGTCTTGCCACAAAGGCATCCATTTAA
*
62638007 CAGAGT-TTGCCA-AAAGGCATTCATTTAA
1 CAGAGTCTTGCCACAAAGGCATCCATTTAA
62638035 TTGAGATAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 13 0.52
29 6 0.24
30 6 0.24
ACGTcount: A:0.31, C:0.22, G:0.19, T:0.28
Consensus pattern (30 bp):
CAGAGTCTTGCCACAAAGGCATCCATTTAA
Found at i:62638061 original size:28 final size:29
Alignment explanation
Indices: 62637992--62638087 Score: 79
Period size: 29 Copynumber: 3.3 Consensus size: 29
62637982 TCTTGCCACG
* * * * *
62637992 AAGGCATCCTTTTAACAGAGTTTGCCA-A
1 AAGGCATCCTTTAAACTGAGATAGGCACA
* *
62638020 AAGGCATTCATTT-AATTGAGATAGGCACA
1 AAGGCA-TCCTTTAAACTGAGATAGGCACA
* *
62638049 AAGGCATCCTTTAAACTGAGATAGTCATA
1 AAGGCATCCTTTAAACTGAGATAGGCACA
*
62638078 AAGGCTTCCT
1 AAGGCATCCT
62638088 GTAACAAAGA
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
28 20 0.37
29 34 0.63
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (29 bp):
AAGGCATCCTTTAAACTGAGATAGGCACA
Found at i:62638087 original size:29 final size:28
Alignment explanation
Indices: 62638019--62638120 Score: 87
Period size: 28 Copynumber: 3.6 Consensus size: 28
62638009 GAGTTTGCCA
* * * *
62638019 AAAGGCATTCATTTAATTGAGATAGGCAC
1 AAAGGC-TTCCTTTAACTGAGATAGTCAT
*
62638048 AAAGGCATCCTTTAAACTGAGATAGTCAT
1 AAAGGCTTCCTTT-AACTGAGATAGTCAT
* ** *
62638077 AAAGGCTTCCTGTAACAAAGATCGTCAT
1 AAAGGCTTCCTTTAACTGAGATAGTCAT
**
62638105 AAAAACTTCCTTTAAC
1 AAAGGCTTCCTTTAAC
62638121 AGAAATCACC
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
28 30 0.51
29 29 0.49
ACGTcount: A:0.38, C:0.19, G:0.16, T:0.27
Consensus pattern (28 bp):
AAAGGCTTCCTTTAACTGAGATAGTCAT
Found at i:62638142 original size:28 final size:28
Alignment explanation
Indices: 62638111--62638164 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
62638101 TCATAAAAAC
62638111 TTCCTTTAACAGAAATCACCACAAAGGA
1 TTCCTTTAACAGAAATCACCACAAAGGA
* * *
62638139 TTCCTTTAATAGATATCGCCACAAAG
1 TTCCTTTAACAGAAATCACCACAAAG
62638165 ACTACTTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.39, C:0.24, G:0.11, T:0.26
Consensus pattern (28 bp):
TTCCTTTAACAGAAATCACCACAAAGGA
Found at i:62641250 original size:29 final size:30
Alignment explanation
Indices: 62641195--62641252 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
62641185 CCAATATAGT
* * *
62641195 GGACGAAAAAAAAGTTTAGGTACCAATCTG
1 GGACGAAAAAAAACTATAAGTACCAATCTG
*
62641225 GGAC-AAAAAAAACTATAAGTATCAATCT
1 GGACGAAAAAAAACTATAAGTACCAATCT
62641253 AGGATAAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 20 0.83
30 4 0.17
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.21
Consensus pattern (30 bp):
GGACGAAAAAAAACTATAAGTACCAATCTG
Found at i:62643942 original size:25 final size:25
Alignment explanation
Indices: 62643908--62643957 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
62643898 ATCTAATTTC
62643908 TTTTTATAATATCTATTTATTTCTA
1 TTTTTATAATATCTATTTATTTCTA
62643933 TTTTTATAATATCTATTTATTTCTA
1 TTTTTATAATATCTATTTATTTCTA
62643958 ATAAATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTTATAATATCTATTTATTTCTA
Found at i:62643949 original size:15 final size:15
Alignment explanation
Indices: 62643908--62643950 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 15
62643898 ATCTAATTTC
62643908 TTTTTATAATATCTA
1 TTTTTATAATATCTA
62643923 --TTTAT--T-TCTA
1 TTTTTATAATATCTA
62643933 TTTTTATAATATCTA
1 TTTTTATAATATCTA
62643948 TTT
1 TTT
62643951 ATTTCTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 10
0.70 0.00 0.30
Matches are distributed among these distances:
10 4 0.17
11 1 0.04
12 5 0.22
13 5 0.22
14 1 0.04
15 7 0.30
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTTTATAATATCTA
Found at i:62643964 original size:21 final size:23
Alignment explanation
Indices: 62643903--62643965 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 23
62643893 ATATAATCTA
* *
62643903 ATTTCTTTTTATAATATCTATTT
1 ATTTCTATATATAATATCTATTT
*
62643926 ATTTCTATTTTTATAATATCTATTT
1 ATTTCTA--TATATAATATCTATTT
62643951 ATTTCTA-ATA-AATAT
1 ATTTCTATATATAATAT
62643966 TTATATAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
21 5 0.14
22 2 0.06
23 6 0.17
25 23 0.64
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTCTATATATAATATCTATTT
Found at i:62644248 original size:49 final size:49
Alignment explanation
Indices: 62644186--62644284 Score: 171
Period size: 49 Copynumber: 2.0 Consensus size: 49
62644176 TCGTCTAGCG
* *
62644186 GTTCGGGACACCTCTCTTTCAAGGAGGCAGCGGGGATTCGACTTCCCCT
1 GTTCAGGACACCTCTCTTTCAAGGAGGCAGCGGGAATTCGACTTCCCCT
*
62644235 GTTCAGGACACCTCTCTTTCAATGAGGCAGCGGGAATTCGACTTCCCCT
1 GTTCAGGACACCTCTCTTTCAAGGAGGCAGCGGGAATTCGACTTCCCCT
62644284 G
1 G
62644285 GGGGTAGGGT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
49 47 1.00
ACGTcount: A:0.18, C:0.30, G:0.26, T:0.25
Consensus pattern (49 bp):
GTTCAGGACACCTCTCTTTCAAGGAGGCAGCGGGAATTCGACTTCCCCT
Found at i:62645784 original size:51 final size:52
Alignment explanation
Indices: 62645724--62645824 Score: 195
Period size: 52 Copynumber: 2.0 Consensus size: 52
62645714 AGCAGTATCC
62645724 TATAAAACTCGATAGTATGGTAG-AAAAAAAATATGAATCTTTCTACCATCT
1 TATAAAACTCGATAGTATGGTAGAAAAAAAAATATGAATCTTTCTACCATCT
62645775 TATAAAACTCGATAGTATGGTAGAAAAAAAAATATGAATCTTTCTACCAT
1 TATAAAACTCGATAGTATGGTAGAAAAAAAAATATGAATCTTTCTACCAT
62645825 ACTATCTATA
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
51 23 0.47
52 26 0.53
ACGTcount: A:0.45, C:0.13, G:0.12, T:0.31
Consensus pattern (52 bp):
TATAAAACTCGATAGTATGGTAGAAAAAAAAATATGAATCTTTCTACCATCT
Found at i:62650607 original size:22 final size:22
Alignment explanation
Indices: 62650582--62650625 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
62650572 TAGTCATATA
62650582 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
62650604 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
62650626 TATTTAAAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:62650736 original size:15 final size:15
Alignment explanation
Indices: 62650716--62650772 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
62650706 ATTCAATATT
62650716 AATATTTTAATAATA
1 AATATTTTAATAATA
*
62650731 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
62650750 AATATATTAATAATA
1 AATATTTTAATAATA
*
62650765 AATGTTTT
1 AATATTTT
62650773 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:62651011 original size:4 final size:4
Alignment explanation
Indices: 62650998--62651030 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
62650988 TGGTTTTTTG
62650998 AATT -ATT AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AATT AATT AA
62651031 AGTTTAAAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.11
4 25 0.89
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:62653500 original size:57 final size:57
Alignment explanation
Indices: 62653354--62653501 Score: 217
Period size: 57 Copynumber: 2.6 Consensus size: 57
62653344 TAGACTCTAA
* * * * *
62653354 ATAACATTTATACATAATGT-GAAAATACTTAGATTTGGTGGATACCATAAAATTTAG
1 ATAACATCTATACATAACGTAGACAA-ACTTAGTTTTGGTGGATACCACAAAATTTAG
* *
62653411 ATAACTTCTGTACATAACGTAGACAAACTTAGTTTTGGTGGATACCACAAAATTTAG
1 ATAACATCTATACATAACGTAGACAAACTTAGTTTTGGTGGATACCACAAAATTTAG
62653468 ATAACATCTATACATAACGTAGACAAACTTAGTT
1 ATAACATCTATACATAACGTAGACAAACTTAGTT
62653502 CTAGCTAGCA
Statistics
Matches: 81, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
57 77 0.95
58 4 0.05
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.32
Consensus pattern (57 bp):
ATAACATCTATACATAACGTAGACAAACTTAGTTTTGGTGGATACCACAAAATTTAG
Found at i:62653811 original size:23 final size:23
Alignment explanation
Indices: 62653788--62653874 Score: 93
Period size: 23 Copynumber: 3.8 Consensus size: 23
62653778 ATAATGCGCT
* *
62653788 ACAAAGGCATAATAGAATATGCT
1 ACAAAGGCATAACAGAATATGCC
* **
62653811 ACAAAGGTATTGCAGAATATGCC
1 ACAAAGGCATAACAGAATATGCC
* * *
62653834 ACAAAGGCATTATAAAATATGCC
1 ACAAAGGCATAACAGAATATGCC
*
62653857 AAAAAGGCATAACAGAAT
1 ACAAAGGCATAACAGAAT
62653875 TGATCTTCTC
Statistics
Matches: 51, Mismatches: 13, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (23 bp):
ACAAAGGCATAACAGAATATGCC
Found at i:62655120 original size:26 final size:26
Alignment explanation
Indices: 62655083--62655140 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
62655073 TGATACAAAT
62655083 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
62655109 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
62655135 TGATAA
1 TGATAA
62655141 GAATTTCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:62658983 original size:30 final size:29
Alignment explanation
Indices: 62658942--62659000 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
62658932 TGATGAGCAT
* * *
62658942 CTCCGTATAGTGCTGCGAGTGTTAAGGGA
1 CTCCATATAGTGCTGCAAGTATTAAGGGA
*
62658971 NCTCCATATAGTGCTGTAAGTATTAAGGGA
1 -CTCCATATAGTGCTGCAAGTATTAAGGGA
62659001 GAAGGAACTC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.29
Consensus pattern (29 bp):
CTCCATATAGTGCTGCAAGTATTAAGGGA
Found at i:62660335 original size:26 final size:26
Alignment explanation
Indices: 62660299--62660382 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
62660289 TGATACAAAT
*
62660299 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTTCA
62660325 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
*
62660351 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTTCA
62660377 TGATAA
1 TGATAA
62660383 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.35, C:0.05, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTTCA
Done.