Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr11
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: 102024878
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 3234766 characters in sequence are not A, C, G, or T
File 274 of 310
Found at i:90492941 original size:16 final size:16
Alignment explanation
Indices: 90492899--90492938 Score: 55
Period size: 17 Copynumber: 2.5 Consensus size: 16
90492889 AAATTTAAAC
90492899 ATTTTATTAAAATAAT
1 ATTTTATTAAAATAAT
*
90492915 ATTTTAATTAAGATAAT
1 ATTTT-ATTAAAATAAT
90492932 -TTTTATT
1 ATTTTATT
90492939 TAATAAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 3 0.14
16 9 0.41
17 10 0.45
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (16 bp):
ATTTTATTAAAATAAT
Found at i:90495968 original size:11 final size:11
Alignment explanation
Indices: 90495946--90495975 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
90495936 TTAATGATTA
90495946 AAAATGAAAAAT
1 AAAAT-AAAAAT
90495958 AAAATAAAAAT
1 AAAATAAAAAT
90495969 AAAATAA
1 AAAATAA
90495976 TTTTCTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 13 0.72
12 5 0.28
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:90500053 original size:26 final size:26
Alignment explanation
Indices: 90500022--90500129 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
90500012 TGAAATGCCC
*
90500022 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
90500048 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
90500074 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
90500100 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
90500126 ATCA
1 ATCA
90500130 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:90505727 original size:21 final size:21
Alignment explanation
Indices: 90505703--90505755 Score: 81
Period size: 21 Copynumber: 2.5 Consensus size: 21
90505693 CATTGTTTCT
90505703 AATCTCACCGCTACAGT-ATCC
1 AATCTCACCGCTACAGTAAT-C
*
90505724 AATCTCACCGCTACAGTAATT
1 AATCTCACCGCTACAGTAATC
90505745 AATCTCACCGC
1 AATCTCACCGC
90505756 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAATC
Found at i:90507003 original size:22 final size:20
Alignment explanation
Indices: 90506973--90507014 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
90506963 TCTCCAAATT
90506973 TTTAATAAACAAAAAACCCAA
1 TTTAATAAA-AAAAAACCCAA
*
90506994 TTTATATAAAAGAAAACCCAA
1 TTTA-ATAAAAAAAAACCCAA
90507015 ACCTTTAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.60, C:0.17, G:0.02, T:0.21
Consensus pattern (20 bp):
TTTAATAAAAAAAAACCCAA
Found at i:90517302 original size:19 final size:20
Alignment explanation
Indices: 90517278--90517317 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
90517268 CTATTTGATT
* *
90517278 ATTTTATTAGTTATAT-TAA
1 ATTTTAATAGTAATATATAA
90517297 ATTTTAATAGTAATATATAA
1 ATTTTAATAGTAATATATAA
90517317 A
1 A
90517318 AAAAATTATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTTTAATAGTAATATATAA
Found at i:90521895 original size:26 final size:26
Alignment explanation
Indices: 90521859--90521940 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
90521849 CATGAAATTC
90521859 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
90521885 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
90521911 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
90521937 TTAT
1 TTAT
90521941 TAATTTGTAT
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.34
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:90523001 original size:14 final size:13
Alignment explanation
Indices: 90522972--90523006 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
90522962 TAAGAATCAA
*
90522972 TTTATTAAAATTT
1 TTTATTAAAATAT
90522985 TTTATTATAAATAT
1 TTTATTA-AAATAT
90522999 TTTATTAA
1 TTTATTAA
90523007 TTATATGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTATTAAAATAT
Found at i:90525659 original size:21 final size:22
Alignment explanation
Indices: 90525633--90525679 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
90525623 CTCTGCTCAA
*
90525633 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
90525654 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
90525676 ACTC
1 ACTC
90525680 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:90533913 original size:31 final size:30
Alignment explanation
Indices: 90533843--90533923 Score: 83
Period size: 31 Copynumber: 2.6 Consensus size: 30
90533833 TGGCGTGGAG
* *
90533843 GGCTTAATTGATTTATTATTATTATTTTACGA
1 GGCTTAATTGATTT-TTA-TAGTATTTTAGGA
90533875 GGTCTTAATTGACTTTTTA-AGTATTTTAGGA
1 GG-CTTAATTGA-TTTTTATAGTATTTTAGGA
*
90533906 GAGCTTAATTCATTTTTA
1 G-GCTTAATTGATTTTTA
90533924 GGGATTATAT
Statistics
Matches: 43, Mismatches: 3, Indels: 8
0.80 0.06 0.15
Matches are distributed among these distances:
30 6 0.14
31 19 0.44
32 3 0.07
33 12 0.28
34 3 0.07
ACGTcount: A:0.27, C:0.07, G:0.15, T:0.51
Consensus pattern (30 bp):
GGCTTAATTGATTTTTATAGTATTTTAGGA
Found at i:90533958 original size:10 final size:10
Alignment explanation
Indices: 90533943--90533977 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
90533933 TAACACTTTC
90533943 AAAAATTATA
1 AAAAATTATA
*
90533953 AAAAATAATA
1 AAAAATTATA
*
90533963 AAAATTTATA
1 AAAAATTATA
90533973 AAAAA
1 AAAAA
90533978 GCAATAATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (10 bp):
AAAAATTATA
Found at i:90534460 original size:30 final size:29
Alignment explanation
Indices: 90534400--90534471 Score: 99
Period size: 29 Copynumber: 2.4 Consensus size: 29
90534390 TTCAATAAGC
* * *
90534400 TTTTCTAACTTTTTTATTAATTTTTATAA
1 TTTTCTATCATTTTAATTAATTTTTATAA
*
90534429 TTTTTTATCATTTTAATTAATTTTATATAA
1 TTTTCTATCATTTTAATTAATTTT-TATAA
90534459 TTTTCTATCATTT
1 TTTTCTATCATTT
90534472 CTAGATTTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
29 20 0.54
30 17 0.46
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTTCTATCATTTTAATTAATTTTTATAA
Found at i:90534471 original size:10 final size:10
Alignment explanation
Indices: 90534411--90534462 Score: 56
Period size: 10 Copynumber: 5.4 Consensus size: 10
90534401 TTTCTAACTT
90534411 TTTTAT-TAA
1 TTTTATATAA
90534420 TTTT-TATAA
1 TTTTATATAA
* *
90534429 TTTTTTATCA
1 TTTTATATAA
90534439 TTTTA-ATTAA
1 TTTTATA-TAA
90534449 TTTTATATAA
1 TTTTATATAA
90534459 TTTT
1 TTTT
90534463 CTATCATTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
8 1 0.03
9 12 0.33
10 22 0.61
11 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (10 bp):
TTTTATATAA
Found at i:90534541 original size:10 final size:9
Alignment explanation
Indices: 90534526--90534593 Score: 50
Period size: 10 Copynumber: 7.2 Consensus size: 9
90534516 CATATTAATA
90534526 AAATTTTAT
1 AAATTTTAT
90534535 AACA-TTTAGT
1 AA-ATTTTA-T
*
90534545 -AATTTTTT
1 AAATTTTAT
90534553 AAAATTTTAT
1 -AAATTTTAT
*
90534563 AATATTTAAT
1 AA-ATTTTAT
*
90534573 AATTTTCTAT
1 AAATTT-TAT
90534583 AAATTTTAT
1 AAATTTTAT
90534592 AA
1 AA
90534594 TAAACTTAAT
Statistics
Matches: 46, Mismatches: 6, Indels: 14
0.70 0.09 0.21
Matches are distributed among these distances:
8 2 0.04
9 20 0.43
10 24 0.52
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (9 bp):
AAATTTTAT
Found at i:90534556 original size:28 final size:28
Alignment explanation
Indices: 90534524--90534593 Score: 104
Period size: 28 Copynumber: 2.5 Consensus size: 28
90534514 AGCATATTAA
* *
90534524 TAAAATTTTATAACATTTAGTAATTTTT
1 TAAAATTTTATAACATTTAATAATTTTC
*
90534552 TAAAATTTTATAATATTTAATAATTTTC
1 TAAAATTTTATAACATTTAATAATTTTC
90534580 TATAAATTTTATAA
1 TA-AAATTTTATAA
90534594 TAAACTTAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
28 27 0.71
29 11 0.29
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (28 bp):
TAAAATTTTATAACATTTAATAATTTTC
Found at i:90538081 original size:34 final size:33
Alignment explanation
Indices: 90538033--90538096 Score: 92
Period size: 34 Copynumber: 1.9 Consensus size: 33
90538023 AGTGAAATAT
*
90538033 AAGAATTAAAATTAAAATTTAACCATAAAATTA
1 AAGAATTAAAATTAAAATTTAACCAAAAAATTA
* *
90538066 AAGAGATTAGAATTAAAATTTAGCCAAAAAA
1 AAGA-ATTAAAATTAAAATTTAACCAAAAAA
90538097 AACATTGGAC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.59, C:0.06, G:0.08, T:0.27
Consensus pattern (33 bp):
AAGAATTAAAATTAAAATTTAACCAAAAAATTA
Found at i:90541535 original size:19 final size:19
Alignment explanation
Indices: 90541511--90541572 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 19
90541501 CTTGGGTGAT
90541511 TTGCAAAAATGGAGATCAA
1 TTGCAAAAATGGAGATCAA
* * *
90541530 TTGCAAATCA-GG-G-TGAT
1 TTGCAAA-AATGGAGATCAA
90541547 TTGCAAAAATGGAGATCAA
1 TTGCAAAAATGGAGATCAA
90541566 TTGCAAA
1 TTGCAAA
90541573 TCAATCTCAG
Statistics
Matches: 33, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 1 0.03
17 11 0.33
18 2 0.06
19 18 0.55
20 1 0.03
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (19 bp):
TTGCAAAAATGGAGATCAA
Found at i:90541551 original size:36 final size:36
Alignment explanation
Indices: 90541504--90541575 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
90541494 TGATTGTCTT
90541504 GGGTGATTTGCAAAAATGGAGATCAATTGCAAATCA
1 GGGTGATTTGCAAAAATGGAGATCAATTGCAAATCA
90541540 GGGTGATTTGCAAAAATGGAGATCAATTGCAAATCA
1 GGGTGATTTGCAAAAATGGAGATCAATTGCAAATCA
90541576 ATCTCAGCTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (36 bp):
GGGTGATTTGCAAAAATGGAGATCAATTGCAAATCA
Found at i:90551591 original size:21 final size:21
Alignment explanation
Indices: 90551565--90551605 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
90551555 ATCTGCTCAA
* *
90551565 ACTCCACCTGTTTTGGAGTAC
1 ACTCCACCTGCTGTGGAGTAC
90551586 ACTCCACCTGCTGTGGAGTA
1 ACTCCACCTGCTGTGGAGTA
90551606 TTGCTCGTCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.29, G:0.22, T:0.29
Consensus pattern (21 bp):
ACTCCACCTGCTGTGGAGTAC
Found at i:90556670 original size:9 final size:9
Alignment explanation
Indices: 90556635--90556686 Score: 50
Period size: 9 Copynumber: 5.3 Consensus size: 9
90556625 CCCATTTTGT
90556635 TTTTGAATTA
1 TTTT-AATTA
90556645 TTTTAATTTAA
1 TTTTAA-TT-A
90556656 TATTTAATTA
1 T-TTTAATTA
90556666 TTTTAATTA
1 TTTTAATTA
* *
90556675 ATTTATTTA
1 TTTTAATTA
90556684 TTT
1 TTT
90556687 ATTAAAATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
9 19 0.53
10 8 0.22
11 4 0.11
12 5 0.14
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TTTTAATTA
Found at i:90559095 original size:31 final size:32
Alignment explanation
Indices: 90559053--90559122 Score: 92
Period size: 31 Copynumber: 2.2 Consensus size: 32
90559043 TCAATATATT
*
90559053 ATATTAT-GTAATTTATAATCCATAAAAT-TAA
1 ATATTATAGTAATATATAAT-CATAAAATGTAA
*
90559084 AT-TTATAGTAATATATAATTATAAAATGTAA
1 ATATTATAGTAATATATAATCATAAAATGTAA
90559115 ATATTATA
1 ATATTATA
90559123 AAAAATAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 11 0.32
31 18 0.53
32 5 0.15
ACGTcount: A:0.50, C:0.03, G:0.04, T:0.43
Consensus pattern (32 bp):
ATATTATAGTAATATATAATCATAAAATGTAA
Found at i:90567109 original size:26 final size:26
Alignment explanation
Indices: 90567080--90567187 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
90567070 TGGTACAAAT
90567080 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
90567106 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90567132 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
90567158 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
90567184 TGAT
1 TGAT
90567188 GGGAATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:90572029 original size:18 final size:19
Alignment explanation
Indices: 90571993--90572034 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
90571983 ATCTTAAAAG
90571993 ATAAAAAAAATTAATAACT
1 ATAAAAAAAATTAATAACT
90572012 ATAAAATAAAATT-A-AACT
1 ATAAAA-AAAATTAATAACT
90572030 ATAAA
1 ATAAA
90572035 CTTTAAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 9 0.41
19 7 0.32
20 6 0.27
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (19 bp):
ATAAAAAAAATTAATAACT
Found at i:90572075 original size:56 final size:55
Alignment explanation
Indices: 90571993--90572111 Score: 188
Period size: 56 Copynumber: 2.2 Consensus size: 55
90571983 ATCTTAAAAG
*
90571993 ATAAAAA-AAATTAATAACTATAAAATAAAATTA-AACTATAAACTTTAAAACACA
1 ATAAAAACAAATTAATAACTACAAAATAAAATTACAA-TATAAACTTTAAAACACA
*
90572047 ATAAAAACAAAGTTAATAACTACAAAATAAAATTACAATCTAAACTTTAAAACACA
1 ATAAAAACAAA-TTAATAACTACAAAATAAAATTACAATATAAACTTTAAAACACA
90572103 ATAAAAACA
1 ATAAAAACA
90572112 GTTGTAAAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
54 7 0.12
55 3 0.05
56 48 0.80
57 2 0.03
ACGTcount: A:0.64, C:0.12, G:0.01, T:0.24
Consensus pattern (55 bp):
ATAAAAACAAATTAATAACTACAAAATAAAATTACAATATAAACTTTAAAACACA
Found at i:90573881 original size:21 final size:21
Alignment explanation
Indices: 90573857--90573906 Score: 91
Period size: 21 Copynumber: 2.4 Consensus size: 21
90573847 GGGTCACATG
90573857 CCCGTGTGATCAAGGAACACA
1 CCCGTGTGATCAAGGAACACA
*
90573878 CCCGTGTGATCAAGGAACACG
1 CCCGTGTGATCAAGGAACACA
90573899 CCCGTGTG
1 CCCGTGTG
90573907 GTCCTGAGAC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.26, C:0.30, G:0.28, T:0.16
Consensus pattern (21 bp):
CCCGTGTGATCAAGGAACACA
Found at i:90575751 original size:24 final size:25
Alignment explanation
Indices: 90575724--90575779 Score: 105
Period size: 24 Copynumber: 2.3 Consensus size: 25
90575714 CCATGTCTGA
90575724 TTCATTATTATATGAAGTAA-TTTC
1 TTCATTATTATATGAAGTAATTTTC
90575748 TTCATTATTATATGAAGTAATTTTC
1 TTCATTATTATATGAAGTAATTTTC
90575773 TTCATTA
1 TTCATTA
90575780 AAGGGAAAGG
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
24 20 0.65
25 11 0.35
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (25 bp):
TTCATTATTATATGAAGTAATTTTC
Found at i:90578504 original size:34 final size:34
Alignment explanation
Indices: 90578461--90578528 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
90578451 TGTTCTTTCA
90578461 AATTAACTCACAAGTATTTTAAAGAAGGCGACTT
1 AATTAACTCACAAGTATTTTAAAGAAGGCGACTT
90578495 AATTAACTCACAAGTATTTTAAAGAAGGCGACTT
1 AATTAACTCACAAGTATTTTAAAGAAGGCGACTT
90578529 TCTCTTTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.29
Consensus pattern (34 bp):
AATTAACTCACAAGTATTTTAAAGAAGGCGACTT
Found at i:90579410 original size:36 final size:36
Alignment explanation
Indices: 90579363--90579434 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
90579353 TTTCTTTAAC
90579363 CACCAAAATTTAAAGTGTATATGATTTGACTTTGAT
1 CACCAAAATTTAAAGTGTATATGATTTGACTTTGAT
90579399 CACCAAAATTTAAAGTGTATATGATTTGACTTTGAT
1 CACCAAAATTTAAAGTGTATATGATTTGACTTTGAT
90579435 GTGCTCTTGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.36, C:0.11, G:0.14, T:0.39
Consensus pattern (36 bp):
CACCAAAATTTAAAGTGTATATGATTTGACTTTGAT
Found at i:90583469 original size:31 final size:32
Alignment explanation
Indices: 90583433--90583495 Score: 101
Period size: 31 Copynumber: 2.0 Consensus size: 32
90583423 CCCTTTTTTT
* *
90583433 TAGTTAAATTTGGCCCTCAACCTTTT-AAAAA
1 TAGTTAAATTTGACCATCAACCTTTTGAAAAA
90583464 TAGTTAAATTTGACCATCAACCTTTTGAAAAA
1 TAGTTAAATTTGACCATCAACCTTTTGAAAAA
90583496 GAGTCGAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
31 24 0.83
32 5 0.17
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (32 bp):
TAGTTAAATTTGACCATCAACCTTTTGAAAAA
Found at i:90583613 original size:16 final size:16
Alignment explanation
Indices: 90583594--90583624 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
90583584 TTTTTGAAAA
90583594 TTTTATTTTTAAATAG
1 TTTTATTTTTAAATAG
90583610 TTTTATTTTTAAATA
1 TTTTATTTTTAAATA
90583625 CTATTATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
TTTTATTTTTAAATAG
Found at i:90583631 original size:16 final size:16
Alignment explanation
Indices: 90583596--90583631 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
90583586 TTTGAAAATT
* *
90583596 TTATTTTTAAATAGTT
1 TTATTTTTAAATACTA
90583612 TTATTTTTAAATACTA
1 TTATTTTTAAATACTA
90583628 TTAT
1 TTAT
90583632 ATAAGCATGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.61
Consensus pattern (16 bp):
TTATTTTTAAATACTA
Found at i:90584736 original size:15 final size:15
Alignment explanation
Indices: 90584716--90584746 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
90584706 CTATCATCTT
90584716 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
90584731 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
90584746 T
1 T
90584747 TACAACGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (15 bp):
TAACTGCTAACAGAC
Found at i:90584780 original size:20 final size:20
Alignment explanation
Indices: 90584755--90584796 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
90584745 CTTACAACGG
*
90584755 TACAACGGTTTTGACTATAT
1 TACAACGGCTTTGACTATAT
*
90584775 TACAACTGCTTTGACTATAT
1 TACAACGGCTTTGACTATAT
90584795 TA
1 TA
90584797 ACTCTAACAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.31, C:0.17, G:0.12, T:0.40
Consensus pattern (20 bp):
TACAACGGCTTTGACTATAT
Found at i:90588197 original size:18 final size:18
Alignment explanation
Indices: 90588164--90588198 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
90588154 ACCAGCAGAT
* *
90588164 GGCATACTGACTTGTTGG
1 GGCATACTAACCTGTTGG
90588182 GGCATACTAACCTGTTG
1 GGCATACTAACCTGTTG
90588199 TGGAGAGCTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.31
Consensus pattern (18 bp):
GGCATACTAACCTGTTGG
Found at i:90589460 original size:15 final size:15
Alignment explanation
Indices: 90589440--90589470 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
90589430 CTATCATCTT
90589440 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
90589455 TAACTGCTAACAGAC
1 TAACTGCTAACAGAC
90589470 T
1 T
90589471 TACAACGGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.23
Consensus pattern (15 bp):
TAACTGCTAACAGAC
Found at i:90589504 original size:20 final size:20
Alignment explanation
Indices: 90589479--90589520 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
90589469 CTTACAACGG
*
90589479 TACAACGGTTTTGACTATAT
1 TACAACGGCTTTGACTATAT
* *
90589499 TACAACTGCTTTGGCTATAT
1 TACAACGGCTTTGACTATAT
90589519 TA
1 TA
90589521 ACTCTAACAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (20 bp):
TACAACGGCTTTGACTATAT
Found at i:90590016 original size:62 final size:63
Alignment explanation
Indices: 90589945--90590063 Score: 195
Period size: 63 Copynumber: 1.9 Consensus size: 63
90589935 TTCCCACTCG
*
90589945 TTATCTTATTATTAAG-GTAAATTATAAAAATAGTCACTTTTATTTATCTCATATTATATTTA
1 TTATCTTATTATTAAGAGTAAACTATAAAAATAGTCACTTTTATTTATCTCATATTATATTTA
* * *
90590007 TTATCTTATTATTAAGAGTAAACTATAAAAATAGTTACTTTTGTTTGTCTCATATTA
1 TTATCTTATTATTAAGAGTAAACTATAAAAATAGTCACTTTTATTTATCTCATATTA
90590064 CACTTTAGTT
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
62 16 0.31
63 36 0.69
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.49
Consensus pattern (63 bp):
TTATCTTATTATTAAGAGTAAACTATAAAAATAGTCACTTTTATTTATCTCATATTATATTTA
Found at i:90592312 original size:31 final size:32
Alignment explanation
Indices: 90592259--90592318 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 32
90592249 TTTTTTTGAG
* *
90592259 TTAAATTTGACCCTCAACCTTTT-AAAAATAA
1 TTAAATTTGACCATCAAACTTTTGAAAAATAA
*
90592290 TTAAATTTGACCATTAAACTTTTGAAAAA
1 TTAAATTTGACCATCAAACTTTTGAAAAA
90592319 GAGTTGGGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 20 0.80
32 5 0.20
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.37
Consensus pattern (32 bp):
TTAAATTTGACCATCAAACTTTTGAAAAATAA
Found at i:90592437 original size:16 final size:16
Alignment explanation
Indices: 90592418--90592455 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
90592408 TTTTTGAAAT
90592418 TTTTATTCTTAAATAC
1 TTTTATTCTTAAATAC
*
90592434 TTTTATTTTTAAATAC
1 TTTTATTCTTAAATAC
*
90592450 TATTAT
1 TTTTAT
90592456 ATAAACATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTATTCTTAAATAC
Found at i:90593508 original size:27 final size:25
Alignment explanation
Indices: 90593469--90593518 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 25
90593459 AAAAAACGAC
90593469 GACATATCTAGAAGAGTAGAATGACAA
1 GACATATCTAGAAGAG--GAATGACAA
90593496 GACATA-CTGAGAAGAGGAATGAC
1 GACATATCT-AGAAGAGGAATGAC
90593519 TTGAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 7 0.32
26 2 0.09
27 13 0.59
ACGTcount: A:0.46, C:0.12, G:0.26, T:0.16
Consensus pattern (25 bp):
GACATATCTAGAAGAGGAATGACAA
Found at i:90593561 original size:19 final size:19
Alignment explanation
Indices: 90593537--90593573 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
90593527 AAATAGCCGA
90593537 AGATTAGTCTTTT-ATTTTT
1 AGATTAGT-TTTTCATTTTT
90593556 AGATTAGTTTTTCATTTT
1 AGATTAGTTTTTCATTTT
90593574 CTATTTATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.22, C:0.05, G:0.11, T:0.62
Consensus pattern (19 bp):
AGATTAGTTTTTCATTTTT
Found at i:90597031 original size:10 final size:11
Alignment explanation
Indices: 90597016--90597044 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
90597006 GTGCTCTGTG
90597016 AAAATAAAAT-
1 AAAATAAAATA
90597026 AAAATAAAATA
1 AAAATAAAATA
90597037 AAAATAAA
1 AAAATAAA
90597045 CACATAGATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:90600500 original size:125 final size:125
Alignment explanation
Indices: 90600332--90600647 Score: 404
Period size: 125 Copynumber: 2.5 Consensus size: 125
90600322 GCCAAACGGT
* ** * *
90600332 AAATCAAAACCCAGCACGATTGGGCATAATTTATCGAATTTCCAAATATGAAATATTGCCTCATT
1 AAATCGAAACCCAGCACGATTGGGCACGATTTCTCGAACTTCCAAATATGAAATATTGCCTCATT
* **
90600397 TTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTG-TATTTTAGTCGAATGAA
66 TTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCAGTTA-TTTAGTCGAACAAA
* * * * * *
90600457 AAATTGAAACCTAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACGAAATATTGCCTCATT
1 AAATCGAAACCCAGCACGATTGGGCACGATTTCTCGAACTTCCAAATATGAAATATTGCCTCATT
* *
90600522 TTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCAGTTATTTGGTTGAACAAA
66 TTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCAGTTATTTAGTCGAACAAA
* * * * *
90600582 AAATCGAAACCCAGCACGGTAGGGTACGATTTCTCGAAC-TCCAAATACT-AAATATTTCCTTAT
1 AAATCGAAACCCAGCACGATTGGGCACGATTTCTCGAACTTCCAAATA-TGAAATATTGCCTCAT
90600645 TTT
65 TTT
90600648 GAGAGGTTTT
Statistics
Matches: 162, Mismatches: 27, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
124 22 0.14
125 138 0.85
126 2 0.01
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (125 bp):
AAATCGAAACCCAGCACGATTGGGCACGATTTCTCGAACTTCCAAATATGAAATATTGCCTCATT
TTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCAGTTATTTAGTCGAACAAA
Found at i:90600757 original size:22 final size:21
Alignment explanation
Indices: 90600732--90600786 Score: 67
Period size: 23 Copynumber: 2.6 Consensus size: 21
90600722 CCATTCAAGA
*
90600732 TAAAATAATATATAAAGCTCTT
1 TAAAATAATATAT-AAGCTATT
90600754 TAAAAATAATATATAAGCTATT
1 T-AAAATAATATATAAGCTATT
*
90600776 CAAAAT-ATATA
1 TAAAATAATATA
90600787 ATGTGTAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
20 5 0.17
21 5 0.17
22 8 0.27
23 12 0.40
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.35
Consensus pattern (21 bp):
TAAAATAATATATAAGCTATT
Found at i:90601046 original size:15 final size:14
Alignment explanation
Indices: 90600988--90601059 Score: 58
Period size: 15 Copynumber: 5.0 Consensus size: 14
90600978 ATATTAGTAT
*
90600988 ATAAATAGAAAT--
1 ATAAATAAAAATAG
90601000 ATAAATATAATAATAG
1 ATAAATA-AA-AATAG
* *
90601016 CAGAAATATAAATAG
1 -ATAAATAAAAATAG
90601031 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
90601046 ATAAATAATAATAG
1 ATAAATAAAAATAG
90601060 TATTAGATTA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
12 7 0.15
13 1 0.02
14 15 0.31
15 18 0.38
16 1 0.02
17 6 0.12
ACGTcount: A:0.64, C:0.01, G:0.08, T:0.26
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:90601622 original size:5 final size:5
Alignment explanation
Indices: 90601614--90601640 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
90601604 CTAATTTAAT
90601614 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
90601641 ATAATATCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:90602489 original size:42 final size:42
Alignment explanation
Indices: 90602442--90602574 Score: 108
Period size: 42 Copynumber: 3.1 Consensus size: 42
90602432 ATCTGCTCCA
**
90602442 CTACTGTTTAGGGATAAGATCTGTATTTTCTAGCCTATTACC
1 CTACTGTTTAGGGATAAGATCTGTATCATCTAGCCTATTACC
* * * ** * * **
90602484 CTACTGCTTAGGAGGTTAAGGCTCACTATCATCGA-TCTGCT-CC
1 CTACTGTTTA-G-GGATAA-GATCTGTATCATCTAGCCTATTACC
*
90602527 ACTACTGTTTAGGGATAAGATCTGTATCCTCTAGCCTATTACC
1 -CTACTGTTTAGGGATAAGATCTGTATCATCTAGCCTATTACC
90602570 CTACT
1 CTACT
90602575 ACTTAGGGGG
Statistics
Matches: 64, Mismatches: 21, Indels: 12
0.66 0.22 0.12
Matches are distributed among these distances:
41 10 0.16
42 22 0.34
43 6 0.09
44 17 0.27
45 9 0.14
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.35
Consensus pattern (42 bp):
CTACTGTTTAGGGATAAGATCTGTATCATCTAGCCTATTACC
Found at i:90602501 original size:86 final size:86
Alignment explanation
Indices: 90602280--90603113 Score: 1064
Period size: 86 Copynumber: 9.6 Consensus size: 86
90602270 GATACATAGA
* * * * *
90602280 GATAAGATCTGTAATTTTC-AGCTTGTTACCCTATTGCTTAGGGGGTTAAGGCTTACCGTCTTCG
1 GATAAGATCTGT-ATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCG
* * *
90602344 ATCTGCTCCGCTATTGATTAGG
65 ATCTGCTCCACTACTGTTTAGG
* * * *
90602366 AAGATAAGATCTATAATTTTC-AGCCTGTTACCCTACTGCTTAAGGGGTTAAGGCTCACTGTCCT
1 --GATAAGATCTGT-ATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTT
90602430 CGATCTGCTCCACTACTGTTTAGG
63 CGATCTGCTCCACTACTGTTTAGG
* * * * *
90602454 GATAAGATCTGTATTTTCTAGCCTATTACCCTACTGCTTAGGAGGTTAAGGCTCACTATCATCGA
1 GATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGA
90602519 TCTGCTCCACTACTGTTTAGG
66 TCTGCTCCACTACTGTTTAGG
* * * **
90602540 GATAAGATCTGTATCCTCTAGCCTATTACCCTACTACTTAGGGGGTTAAGGCTTGCTGTCTTCGA
1 GATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGA
* * *
90602605 TCTGCTCAACTACTATTTATG
66 TCTGCTCCACTACTGTTTAGG
* * *
90602626 GATAAGATCTGTGTTCTCCAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCAA
1 GATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGA
*
90602691 TCTGCTCTACTACTGTTTAAGG
66 TCTGCTCCACTACTGTTT-AGG
* * *
90602713 G-TAAGATCTGTATTCTCCAGCCTGTTACCCTACTGCTTAGGGGTTTAAGGCTCATTGTCTTCGA
1 GATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGA
*
90602777 TCTGCTTCACTACTGTTTAGG
66 TCTGCTCCACTACTGTTTAGG
* * * * * *
90602798 GGTAAGATCTGTATTCTCCAGCCTATTACCCTACTGCTTAGGGGGTTAAGGTTCATTGCCTTCGA
1 GATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGA
* *
90602863 TCTACTCCACTACTATTTAAGG
66 TCTGCTCCACTACTGTTT-AGG
* * * * *
90602885 ATATAAGATCTGTAATTTTC-AGCCTGTTAGCCTACTGCTTAAGGGGTTAAGGCTCACCGTCTTC
1 -GATAAGATCTGT-ATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTC
*
90602949 GATCTGCTCCACTACTGTTTAAG
64 GATCTGCTCCACTACTGTTTAGG
* * * *
90602972 GATAAGATCTGTGTTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGCCTAACCGTCTTCGA
1 GATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGA
*
90603037 TTTGCTCCACTACTGTTTAGG
66 TCTGCTCCACTACTGTTTAGG
* * *
90603058 GATACGATCTGTATTTTTTTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCA
1 GATAAGATCTGTA-TTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCA
90603114 TGAATTCACC
Statistics
Matches: 659, Mismatches: 79, Indels: 17
0.87 0.10 0.02
Matches are distributed among these distances:
85 14 0.02
86 453 0.69
87 46 0.07
88 141 0.21
89 5 0.01
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (86 bp):
GATAAGATCTGTATTCTCTAGCCTGTTACCCTACTGCTTAGGGGGTTAAGGCTCACTGTCTTCGA
TCTGCTCCACTACTGTTTAGG
Found at i:90602747 original size:42 final size:42
Alignment explanation
Indices: 90602614--90602841 Score: 121
Period size: 42 Copynumber: 5.3 Consensus size: 42
90602604 ATCTGCTCAA
* * * *
90602614 CTACTATTTATGGATAAGATCTGTGTTCTCCAGCCTGTTACC
1 CTACTGTTTAGGGGTAAGATCTGTATTCTCCAGCCTGTTACC
* * * * **
90602656 CTACTGCTTAGGGGGTTAAG-GCT-CACTGTCTTCAATCTGCTCTA--
1 CTACTGTTTA-GGGG-TAAGATCTGTA-T-TCTCCAGCCTG-T-TACC
*
90602700 CTACTGTTTAAGGGTAAGATCTGTATTCTCCAGCCTGTTACC
1 CTACTGTTTAGGGGTAAGATCTGTATTCTCCAGCCTGTTACC
* * * * * *
90602742 CTACTGCTTAGGGGTTTAAGGCTCAT-T-GTCTTC-GATCTGCTT-CA
1 CTACTGTTTAGGGG--TAA-GATC-TGTATTCTCCAG-CCTG-TTACC
*
90602786 CTACTGTTTAGGGGTAAGATCTGTATTCTCCAGCCTATTACC
1 CTACTGTTTAGGGGTAAGATCTGTATTCTCCAGCCTGTTACC
*
90602828 CTACTGCTTAGGGG
1 CTACTGTTTAGGGG
90602842 GTTAAGGTTC
Statistics
Matches: 134, Mismatches: 32, Indels: 40
0.65 0.16 0.19
Matches are distributed among these distances:
40 3 0.02
41 7 0.05
42 55 0.41
43 13 0.10
44 46 0.34
45 7 0.05
46 3 0.02
ACGTcount: A:0.19, C:0.24, G:0.21, T:0.36
Consensus pattern (42 bp):
CTACTGTTTAGGGGTAAGATCTGTATTCTCCAGCCTGTTACC
Found at i:90603285 original size:64 final size:64
Alignment explanation
Indices: 90603184--90603307 Score: 221
Period size: 64 Copynumber: 1.9 Consensus size: 64
90603174 TGTATCTATG
* *
90603184 CTTATGCCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCCTAACTAGATGTAATC
1 CTTATGCCAAATAAATAGGATGCTATGATCGAAATGAATCAAATACTCCTAACTAGATGTAATC
*
90603248 CTTATGTCAAATAAATAGGATGCTATGATCGAAATGAATCAAATACTCCTAACTAGATGT
1 CTTATGCCAAATAAATAGGATGCTATGATCGAAATGAATCAAATACTCCTAACTAGATGT
90603308 GTTATTATAT
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 57 1.00
ACGTcount: A:0.39, C:0.16, G:0.15, T:0.30
Consensus pattern (64 bp):
CTTATGCCAAATAAATAGGATGCTATGATCGAAATGAATCAAATACTCCTAACTAGATGTAATC
Found at i:90609281 original size:125 final size:125
Alignment explanation
Indices: 90609152--90609376 Score: 333
Period size: 125 Copynumber: 1.8 Consensus size: 125
90609142 ACGGTCAATC
* * ** * * * **
90609152 GAAACCTAGCACGATTGGGCACAATTTATTGAATTTCTAAATATGAAATATTGCCTCATTTTAAT
1 GAAACCCAGCACGATTGGGCACAATCTATCAAACTTCCAAACACAAAATATTGCCTCATTTTAAT
*
90609217 TTAAGAAAACATGGATGGAATTTCAAAAGGATATTCTATATTTTAGTCGAATGAAAAATT
66 TTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTATATTTTAGTCGAATGAAAAATT
* * *
90609277 GAAACCCAGCACGATTGGGCACGATCTCTCAAACTTCCAAACACAAAATATTGCCTCGTTTTAAT
1 GAAACCCAGCACGATTGGGCACAATCTATCAAACTTCCAAACACAAAATATTGCCTCATTTTAAT
90609342 TTAAGAAAACATGGATGAAATTTCAAAAGGATATT
66 TTAAGAAAACATGGATGAAATTTCAAAAGGATATT
90609377 TAGTTATTTG
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
125 87 1.00
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (125 bp):
GAAACCCAGCACGATTGGGCACAATCTATCAAACTTCCAAACACAAAATATTGCCTCATTTTAAT
TTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTATATTTTAGTCGAATGAAAAATT
Found at i:90609398 original size:125 final size:124
Alignment explanation
Indices: 90609197--90609462 Score: 349
Period size: 125 Copynumber: 2.1 Consensus size: 124
90609187 TCTAAATATG
*
90609197 AAATATTGCCTCATTTTAATTTAAGAAAACATGGATGGAATTTCAAAAGGATATTCTATATTTTA
1 AAATATTGCCTCATTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTATATTTTA
* * * *
90609262 GTCGAATGAAAAATTGAAACCCAGCAC-GATTGGGCACGATCTCTCAAACTTCCAAACACA
66 GTCGAACGAAAAATCGAAACCCAACACAG-TAGGGCACGATCTCTCAAAC-TCCAAACACA
*
90609322 AAATATTGCCTCGTTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATT-TAGT-TATT
1 AAATATTGCCTCATTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTA-TAT-TT
* * * * * *
90609385 TGGTTGAACGAAAAATCGAAACCCAATACAGTAGGGCACGATTTCTCGAACTCCAAACACT
64 TAGTCGAACGAAAAATCGAAACCCAACACAGTAGGGCACGATCTCTCAAACTCCAAACACA
* *
90609446 AAATATTTCCTTATTTT
1 AAATATTGCCTCATTTT
90609463 GAGAGGTATT
Statistics
Matches: 123, Mismatches: 15, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
124 26 0.21
125 96 0.78
126 1 0.01
ACGTcount: A:0.38, C:0.17, G:0.14, T:0.31
Consensus pattern (124 bp):
AAATATTGCCTCATTTTAATTTAAGAAAACATGGATGAAATTTCAAAAGGATATTCTATATTTTA
GTCGAACGAAAAATCGAAACCCAACACAGTAGGGCACGATCTCTCAAACTCCAAACACA
Found at i:90609808 original size:29 final size:29
Alignment explanation
Indices: 90609765--90609867 Score: 79
Period size: 29 Copynumber: 3.6 Consensus size: 29
90609755 ATATATAAGA
* *
90609765 AAATAATAATGAAAATAATATTAGTATAT
1 AAATAAAAATAAAAATAATATTAGTATAT
* *
90609794 AAATAAAAATAAAAATAAAAATA-TA-AT
1 AAATAAAAATAAAAATAATATTAGTATAT
* * *
90609821 AAATATAAAT-ATAATAAT-TGTAGAAATAT
1 AAATAAAAATAAAAATAATAT-TAG-TATAT
90609850 AAATAGATAAATAAAAAT
1 AAATA-A-AAATAAAAAT
90609868 TAGATAAATA
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
26 8 0.14
27 11 0.20
28 3 0.05
29 26 0.46
31 4 0.07
32 4 0.07
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (29 bp):
AAATAAAAATAAAAATAATATTAGTATAT
Found at i:90609830 original size:15 final size:14
Alignment explanation
Indices: 90609792--90609837 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
90609782 ATATTAGTAT
90609792 ATAAATAAAA-ATA
1 ATAAATAAAATATA
90609805 A-AAATAAAAATATA
1 ATAAAT-AAAATATA
90609819 ATAAATATAAATATA
1 ATAAATA-AAATATA
90609834 ATAA
1 ATAA
90609838 TTGTAGAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
12 4 0.14
13 5 0.17
14 5 0.17
15 15 0.52
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
ATAAATAAAATATA
Found at i:90609873 original size:15 final size:14
Alignment explanation
Indices: 90609792--90609884 Score: 56
Period size: 15 Copynumber: 7.0 Consensus size: 14
90609782 ATATTAGTAT
90609792 ATAAATAAAAATA-
1 ATAAATAAAAATAG
90609805 A-AAATAAAAAT--
1 ATAAATAAAAATAG
*
90609816 AT-AATAAATATA-
1 ATAAATAAAAATAG
* * *
90609828 A-ATATAATAATTG
1 ATAAATAAAAATAG
* *
90609841 TAGAAATATAAATAG
1 -ATAAATAAAAATAG
90609856 ATAAATAAAAATTAG
1 ATAAATAAAAA-TAG
*
90609871 ATAAATAATAATAG
1 ATAAATAAAAATAG
90609885 TATTAGATTA
Statistics
Matches: 61, Mismatches: 12, Indels: 13
0.71 0.14 0.15
Matches are distributed among these distances:
11 9 0.15
12 17 0.28
13 1 0.02
14 13 0.21
15 21 0.34
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (14 bp):
ATAAATAAAAATAG
Found at i:90621673 original size:13 final size:13
Alignment explanation
Indices: 90621655--90621684 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
90621645 TTGAATAATT
90621655 AAAATAATTATTC
1 AAAATAATTATTC
*
90621668 AAAATAATTATTT
1 AAAATAATTATTC
90621681 AAAA
1 AAAA
90621685 GTATTTACCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (13 bp):
AAAATAATTATTC
Found at i:90625935 original size:19 final size:19
Alignment explanation
Indices: 90625911--90625967 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
90625901 ATTTAGTCTT
90625911 AATTTTTAAAAAATTATAA
1 AATTTTTAAAAAATTATAA
90625930 AATTTTT-AAAAATT-TAA
1 AATTTTTAAAAAATTATAA
**
90625947 AA-AGTTAAAAAATATATAA
1 AATTTTTAAAAAAT-TATAA
90625966 AA
1 AA
90625968 ACTTTAGCTT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
16 2 0.06
17 11 0.33
18 8 0.24
19 12 0.36
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AATTTTTAAAAAATTATAA
Found at i:90625958 original size:27 final size:28
Alignment explanation
Indices: 90625915--90625973 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 28
90625905 AGTCTTAATT
* * *
90625915 TTTAAAAAATTATAAAATTTTTAAAAA-
1 TTTAAAAAATTAAAAAATATATAAAAAC
*
90625942 TTTAAAAAGTTAAAAAATATATAAAAAC
1 TTTAAAAAATTAAAAAATATATAAAAAC
90625970 TTTA
1 TTTA
90625974 GCTTAAATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
27 23 0.85
28 4 0.15
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (28 bp):
TTTAAAAAATTAAAAAATATATAAAAAC
Found at i:90627095 original size:18 final size:18
Alignment explanation
Indices: 90627072--90627158 Score: 138
Period size: 18 Copynumber: 4.8 Consensus size: 18
90627062 CGTTTAAGGT
90627072 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
*
90627090 ACTATTCACGTATACGGT
1 ACTATTCACGTATACGGC
90627108 ACTATTCACGTATACGGC
1 ACTATTCACGTATACGGC
* *
90627126 ACTATTCATGTATACGGT
1 ACTATTCACGTATACGGC
*
90627144 ACTGTTCACGTATAC
1 ACTATTCACGTATAC
90627159 AGTAGTTGGG
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 63 1.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.32
Consensus pattern (18 bp):
ACTATTCACGTATACGGC
Found at i:90627116 original size:36 final size:36
Alignment explanation
Indices: 90627069--90627158 Score: 162
Period size: 36 Copynumber: 2.5 Consensus size: 36
90627059 GACCGTTTAA
90627069 GGTACTATTCACGTATACGGCACTATTCACGTATAC
1 GGTACTATTCACGTATACGGCACTATTCACGTATAC
*
90627105 GGTACTATTCACGTATACGGCACTATTCATGTATAC
1 GGTACTATTCACGTATACGGCACTATTCACGTATAC
*
90627141 GGTACTGTTCACGTATAC
1 GGTACTATTCACGTATAC
90627159 AGTAGTTGGG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 52 1.00
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (36 bp):
GGTACTATTCACGTATACGGCACTATTCACGTATAC
Found at i:90634391 original size:21 final size:23
Alignment explanation
Indices: 90634361--90634405 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
90634351 ATCCTTCCAA
90634361 ATTAAAATAT-TTAAT-TATTTT
1 ATTAAAATATGTTAATATATTTT
* *
90634382 ATTAAGATATGTTTATATATTTT
1 ATTAAAATATGTTAATATATTTT
90634405 A
1 A
90634406 AGGAAAAGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (23 bp):
ATTAAAATATGTTAATATATTTT
Found at i:90634442 original size:23 final size:22
Alignment explanation
Indices: 90634361--90634449 Score: 74
Period size: 23 Copynumber: 4.0 Consensus size: 22
90634351 ATCCTTCCAA
*
90634361 ATTAAAATAT-TTAATTATTTT
1 ATTAAAATATATTTATTATTTT
* *
90634382 ATTAAGATATGTTTATATATTTT
1 ATTAAAATATATTTAT-TATTTT
** * *
90634405 AAGGAAAAGAGATTTGATTATTTT
1 -ATTAAAATATATTT-ATTATTTT
90634429 ATTAAAATATATTTA-TATTTT
1 ATTAAAATATATTTATTATTTT
90634450 CAGAAGGTAT
Statistics
Matches: 52, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
21 15 0.29
22 5 0.10
23 16 0.31
24 14 0.27
25 2 0.04
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (22 bp):
ATTAAAATATATTTATTATTTT
Found at i:90641155 original size:51 final size:51
Alignment explanation
Indices: 90641079--90641180 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 51
90641069 ACCTCTAAAA
*
90641079 AGGTTGTATGATCACAGGATTCCACTTCATGATGAGAGTAAGGTAGTGAAT
1 AGGTTGCATGATCACAGGATTCCACTTCATGATGAGAGTAAGGTAGTGAAT
*
90641130 AGGTTGCATGATTACAGGATTCCACTTCATGATGAGAGTAAGGTAGTGAAT
1 AGGTTGCATGATCACAGGATTCCACTTCATGATGAGAGTAAGGTAGTGAAT
90641181 GTAAGGCCTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 49 1.00
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.29
Consensus pattern (51 bp):
AGGTTGCATGATCACAGGATTCCACTTCATGATGAGAGTAAGGTAGTGAAT
Found at i:90643455 original size:11 final size:11
Alignment explanation
Indices: 90643410--90643460 Score: 54
Period size: 12 Copynumber: 4.6 Consensus size: 11
90643400 AAATATTCAA
90643410 ATATTTTAATT
1 ATATTTTAATT
90643421 GATATTTT-A-T
1 -ATATTTTAATT
90643431 ATATTTTGTAATT
1 ATA-TTT-TAATT
90643444 ATATTTTAATT
1 ATATTTTAATT
90643455 A-ATTTT
1 ATATTTT
90643461 TTATTATTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
9 3 0.09
10 9 0.26
11 8 0.23
12 11 0.31
13 4 0.11
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (11 bp):
ATATTTTAATT
Found at i:90643750 original size:22 final size:22
Alignment explanation
Indices: 90643725--90643767 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
90643715 AAATTTTGAT
*
90643725 TAAATGTGTAATTATTATGGTA
1 TAAATGTGTAAGTATTATGGTA
90643747 TAAATGTGTAAGTATTATGGT
1 TAAATGTGTAAGTATTATGGT
90643768 TGTAATTTCA
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:0.35, C:0.00, G:0.21, T:0.44
Consensus pattern (22 bp):
TAAATGTGTAAGTATTATGGTA
Found at i:90646393 original size:40 final size:41
Alignment explanation
Indices: 90646334--90646460 Score: 143
Period size: 40 Copynumber: 3.2 Consensus size: 41
90646324 GAATTTGGGT
*
90646334 CGGATATAACAACCAGCACGAATGCCTTCGGGA-CTTAACC
1 CGGATATAATAACCAGCACGAATGCCTTCGGGATCTTAACC
* * **
90646374 CGGTTATAATAACCCGCACGAATGCCTTC-GGATCTTAGTC
1 CGGATATAATAACCAGCACGAATGCCTTCGGGATCTTAACC
* * * **
90646414 CGGATATAGTAACTAGCACAAATGCCTTC-GGATCTTAGTC
1 CGGATATAATAACCAGCACGAATGCCTTCGGGATCTTAACC
90646454 CGGATAT
1 CGGATAT
90646461 CATCCGAATA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
39 3 0.04
40 73 0.96
ACGTcount: A:0.29, C:0.26, G:0.20, T:0.24
Consensus pattern (41 bp):
CGGATATAATAACCAGCACGAATGCCTTCGGGATCTTAACC
Found at i:90649623 original size:32 final size:32
Alignment explanation
Indices: 90649586--90649650 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
90649576 AATGCTTACC
90649586 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
90649618 ATGCCCATCATCCATTAACTATTAAAATGCTA
1 ATGCCCATCATCCATTAACTATTAAAATGCTA
90649650 A
1 A
90649651 AATGCATACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.38, C:0.25, G:0.06, T:0.31
Consensus pattern (32 bp):
ATGCCCATCATCCATTAACTATTAAAATGCTA
Found at i:90651120 original size:34 final size:34
Alignment explanation
Indices: 90651076--90651266 Score: 152
Period size: 34 Copynumber: 5.6 Consensus size: 34
90651066 TGCAATATGG
* *
90651076 TATGCCTATAACAGATCAATACAGTAGTAATTAA
1 TATGCTTATAACAGATCAATACAGTAGCAATTAA
* * * * *
90651110 TATGCTTATAATAGTTCGATATAGTAGCAAATAA
1 TATGCTTATAACAGATCAATACAGTAGCAATTAA
* * *
90651144 TATGCTTCTAGCAGATCAATAC-G-ATGACATTTAA
1 TATGCTTATAACAGATCAATACAGTA-G-CAATTAA
* * * *
90651178 TATGCTTATAATAGATTAATACAATAGCAAATAA
1 TATGCTTATAACAGATCAATACAGTAGCAATTAA
** ** * *
90651212 TATATTTATAATGGATCAATGCGGTAGCAATTAA
1 TATGCTTATAACAGATCAATACAGTAGCAATTAA
* *
90651246 TATGTTTATAACAAATCAATA
1 TATGCTTATAACAGATCAATA
90651267 TACAGTAACA
Statistics
Matches: 118, Mismatches: 35, Indels: 8
0.73 0.22 0.05
Matches are distributed among these distances:
32 1 0.01
33 2 0.02
34 113 0.96
35 1 0.01
36 1 0.01
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.34
Consensus pattern (34 bp):
TATGCTTATAACAGATCAATACAGTAGCAATTAA
Found at i:90651246 original size:68 final size:68
Alignment explanation
Indices: 90651082--90651256 Score: 183
Period size: 68 Copynumber: 2.6 Consensus size: 68
90651072 ATGGTATGCC
* * * * *
90651082 TATAACAGATCAATACAGTAGTAATTAATATGCTTATAATAGTTCGATATAGTAGCAAATAATAT
1 TATAACAGATCAATACGGTAGCAATTAATATGCTTATAATAGTTCAATACAATAGCAAATAATAT
*
90651147 GCT
66 ACT
* * * *
90651150 TCTAGCAGATCAATACGAT-GACATTTAATATGCTTATAATAGATT-AATACAATAGCAAATAAT
1 TATAACAGATCAATACGGTAG-CAATTAATATGCTTATAATAG-TTCAATACAATAGCAAATAAT
*
90651213 ATATT
64 ATACT
** * *
90651218 TATAATGGATCAATGCGGTAGCAATTAATATGTTTATAA
1 TATAACAGATCAATACGGTAGCAATTAATATGCTTATAA
90651257 CAAATCAATA
Statistics
Matches: 85, Mismatches: 19, Indels: 6
0.77 0.17 0.05
Matches are distributed among these distances:
67 1 0.01
68 81 0.95
69 3 0.04
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.34
Consensus pattern (68 bp):
TATAACAGATCAATACGGTAGCAATTAATATGCTTATAATAGTTCAATACAATAGCAAATAATAT
ACT
Found at i:90656775 original size:3 final size:3
Alignment explanation
Indices: 90656767--90656795 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
90656757 GCCCTTTTCT
90656767 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
90656796 TATAAATAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:90659420 original size:18 final size:18
Alignment explanation
Indices: 90659399--90659436 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
90659389 CCAAAAGGAT
90659399 CTGTGAGTGTCGAAGCAC
1 CTGTGAGTGTCGAAGCAC
*
90659417 CTGTGAGTGTTGAAGCAC
1 CTGTGAGTGTCGAAGCAC
90659435 CT
1 CT
90659437 ACAGTTAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.21, C:0.21, G:0.32, T:0.26
Consensus pattern (18 bp):
CTGTGAGTGTCGAAGCAC
Found at i:90659624 original size:201 final size:200
Alignment explanation
Indices: 90659278--90659795 Score: 757
Period size: 201 Copynumber: 2.6 Consensus size: 200
90659268 GAGTGTTGAG
* *
90659278 GCACCTACGGTTAATGAAGTTGATGATGGTGGCTCAAGCGTTACCAGTGGTAAGTTGAGGAGAAG
1 GCACCTACGGTTAATGAAGTTGATAACGGTGGCTCAAGCGTTA-CAGTGGTAAGTTGAGGAGAAG
* * * * *
90659343 GACGTGCTATGAGTGTGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGATCTGTGAGTG
65 GACATGCTACGAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGATATGCGAGTG
* * * * * *
90659408 TCGAAGCACCTGTGAGTGTTGAAGCACCTACAGTTAATGAAGTTGGTAACAGTGGTTCGATGGTT
130 TCAAAGCAACTGTGAGTGTCGAAGCACCTACAGTTAATGAAGTTGGCAACAGTGGTTCAACGGTT
90659473 AATGAA
195 AATGAA
* *
90659479 GCACCTACGGTTAATGAAGTTGATAACGGTGGCTCAAGTGTTACTAGTGGTAAGTTAAGGAGAAG
1 GCACCTACGGTTAATGAAGTTGATAACGGTGGCTCAAGCGTTAC-AGTGGTAAGTTGAGGAGAAG
*
90659544 GACATGCTACGAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGTCCAAAAGGATATGCGAGTG
65 GACATGCTACGAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGATATGCGAGTG
*
90659609 TCAAAGCAACTGTGAGTGTCGAAGCACCTACAGTTAATGAAGTTGGCAACGGTGGTTCAACGGTT
130 TCAAAGCAACTGTGAGTGTCGAAGCACCTACAGTTAATGAAGTTGGCAACAGTGGTTCAACGGTT
90659674 AATGAA
195 AATGAA
* * * ** * * * *
90659680 GCACCTACGGTTAACGAAGTTGCTAACGATGGCTTGACCGTTAGCAGCGGGAAATTGAGGAGAAG
1 GCACCTACGGTTAATGAAGTTGATAACGGTGGCTCAAGCGTTA-CAGTGGTAAGTTGAGGAGAAG
* *
90659745 GACATGCTACGAGTGCGGACAAAAGGGTCATATCTCTTCTGCTTGCCCAAA
65 GACATGCTACGAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAA
90659796 TAAGAAATCT
Statistics
Matches: 284, Mismatches: 31, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
200 1 0.00
201 282 0.99
202 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.29, T:0.25
Consensus pattern (200 bp):
GCACCTACGGTTAATGAAGTTGATAACGGTGGCTCAAGCGTTACAGTGGTAAGTTGAGGAGAAGG
ACATGCTACGAGTGCGGACAAAAGGGCCATATTTCTTCTGCTTGCCCAAAAGGATATGCGAGTGT
CAAAGCAACTGTGAGTGTCGAAGCACCTACAGTTAATGAAGTTGGCAACAGTGGTTCAACGGTTA
ATGAA
Found at i:90663843 original size:45 final size:44
Alignment explanation
Indices: 90663743--90663849 Score: 142
Period size: 44 Copynumber: 2.4 Consensus size: 44
90663733 TGTCTTTAAC
** * * * *
90663743 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCCCCAAAGCCATATATAAT
*
90663787 ATGGACTTACATGGCTCAATCCTGTCCCCAAAGCCATATTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCCCCAAAGCCATA-TATAAT
90663832 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
90663850 TTTCTGTTCT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 32 0.58
45 23 0.42
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCCCCAAAGCCATATATAAT
Found at i:90670619 original size:46 final size:44
Alignment explanation
Indices: 90670515--90670622 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
90670505 TGTCTTTGAC
** * * *
90670515 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
90670559 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
90670605 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
90670623 TTTCTGTTCT
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:90674867 original size:15 final size:15
Alignment explanation
Indices: 90674847--90674876 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
90674837 TTCCGAAGAA
*
90674847 GGAAAGAGGCTAAAC
1 GGAAAGAAGCTAAAC
90674862 GGAAAGAAGCTAAAC
1 GGAAAGAAGCTAAAC
90674877 ATTTCAGAAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.13, G:0.30, T:0.07
Consensus pattern (15 bp):
GGAAAGAAGCTAAAC
Found at i:90675641 original size:3 final size:3
Alignment explanation
Indices: 90675633--90675660 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
90675623 GCTTAATTGT
90675633 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
90675661 AGAAATAGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:90675998 original size:38 final size:38
Alignment explanation
Indices: 90675882--90676045 Score: 112
Period size: 36 Copynumber: 4.4 Consensus size: 38
90675872 ATTAATTTAG
* *
90675882 AATTATTAATTAAAAAGTTGAAATAAAATAGAAGTGAT
1 AATTGTTAATTAAAAAGTTGAAATAAAATTGAAGTGAT
* * * * *
90675920 AATT-ATACATTTAAAAA--T-AAATAGAATTTAAATTAT
1 AATTGTTA-A-TTAAAAAGTTGAAATAAAATTGAAGTGAT
* *
90675956 AATTGTTAATTAAAAAGTTGTAATATAATTGAAGTGAT
1 AATTGTTAATTAAAAAGTTGAAATAAAATTGAAGTGAT
* *
90675994 AATTG-TACATTTAAAAA--T-AAATAAAATT-ATAATTAT
1 AATTGTTA-A-TTAAAAAGTTGAAATAAAATTGA-AGTGAT
*
90676030 AATTATTAATTAAAAA
1 AATTGTTAATTAAAAA
90676046 ATACATGTTG
Statistics
Matches: 99, Mismatches: 17, Indels: 23
0.71 0.12 0.17
Matches are distributed among these distances:
35 15 0.15
36 35 0.35
37 11 0.11
38 24 0.24
39 14 0.14
ACGTcount: A:0.54, C:0.01, G:0.08, T:0.37
Consensus pattern (38 bp):
AATTGTTAATTAAAAAGTTGAAATAAAATTGAAGTGAT
Found at i:90676290 original size:9 final size:9
Alignment explanation
Indices: 90676276--90676316 Score: 50
Period size: 9 Copynumber: 4.8 Consensus size: 9
90676266 TAATATTAGA
90676276 GTTAATTAT
1 GTTAATTAT
90676285 GTTAATTA-
1 GTTAATTAT
90676293 GTT-ATTAT
1 GTTAATTAT
* *
90676301 TTTAATAAT
1 GTTAATTAT
90676310 GTTAATT
1 GTTAATT
90676317 TTTATATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
7 4 0.15
8 5 0.19
9 17 0.65
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (9 bp):
GTTAATTAT
Found at i:90676299 original size:16 final size:17
Alignment explanation
Indices: 90676275--90676316 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
90676265 TTAATATTAG
90676275 AGTTAATTATGTTAATT
1 AGTTAATTATGTTAATT
* *
90676292 AGTT-ATTATTTTAATA
1 AGTTAATTATGTTAATT
90676308 ATGTTAATT
1 A-GTTAATT
90676317 TTTATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 11 0.52
17 7 0.33
18 3 0.14
ACGTcount: A:0.36, C:0.00, G:0.10, T:0.55
Consensus pattern (17 bp):
AGTTAATTATGTTAATT
Found at i:90678196 original size:17 final size:19
Alignment explanation
Indices: 90678154--90678197 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
90678144 ACGAAATTTT
*
90678154 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
90678173 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
90678191 AA-TATTA
1 AATTATTA
90678198 CTGCATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:90680798 original size:21 final size:21
Alignment explanation
Indices: 90680756--90680798 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
90680746 ATTCCCCACA
* *
90680756 GGAAGTGTAGGGATGGACGGG
1 GGAAGTGCAGGGATAGACGGG
* *
90680777 GGAAGTGCAGGGTTAGATGGG
1 GGAAGTGCAGGGATAGACGGG
90680798 G
1 G
90680799 TCATCATGCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.05, G:0.56, T:0.16
Consensus pattern (21 bp):
GGAAGTGCAGGGATAGACGGG
Found at i:90686814 original size:10 final size:10
Alignment explanation
Indices: 90686794--90686844 Score: 54
Period size: 10 Copynumber: 5.1 Consensus size: 10
90686784 AATTAAATTC
90686794 TAAAGATAAA
1 TAAAGATAAA
90686804 TACAA-ATAAA
1 TA-AAGATAAA
90686814 TAAAGAT-AA
1 TAAAGATAAA
90686823 TAAAAGATAAA
1 T-AAAGATAAA
90686834 TGAAA-ATAAA
1 T-AAAGATAAA
90686844 T
1 T
90686845 CCTAAAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
9 5 0.14
10 23 0.64
11 8 0.22
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.22
Consensus pattern (10 bp):
TAAAGATAAA
Found at i:90686819 original size:20 final size:21
Alignment explanation
Indices: 90686794--90686844 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
90686784 AATTAAATTC
*
90686794 TAAAGATAAATACAA-ATAAA
1 TAAAGATAAATAAAAGATAAA
90686814 TAAAGAT-AATAAAAGATAAA
1 TAAAGATAAATAAAAGATAAA
90686834 TGAAA-ATAAAT
1 T-AAAGATAAAT
90686845 CCTAAAATTA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 6 0.22
20 15 0.56
21 6 0.22
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.22
Consensus pattern (21 bp):
TAAAGATAAATAAAAGATAAA
Found at i:90688786 original size:12 final size:11
Alignment explanation
Indices: 90688778--90688874 Score: 58
Period size: 12 Copynumber: 8.5 Consensus size: 11
90688768 AAAATAAAGT
90688778 AATAAATAATAA
1 AATAAATAAT-A
90688790 AATAAAATAATA
1 AAT-AAATAATA
*
90688802 AAT-ACTAATAA
1 AATAAATAAT-A
*
90688813 AATAAAATAAAA
1 AAT-AAATAATA
*
90688825 TAATAAATACT-
1 -AATAAATAATA
90688836 AAT-AA-AATAA
1 AATAAATAAT-A
*
90688846 AATAAAATAAAA
1 AAT-AAATAATA
90688858 TAATAAATAATA
1 -AATAAATAATA
90688870 AATAA
1 AATAA
90688875 TAAAAATTAA
Statistics
Matches: 66, Mismatches: 8, Indels: 23
0.68 0.08 0.24
Matches are distributed among these distances:
8 2 0.03
9 2 0.03
10 11 0.17
11 9 0.14
12 23 0.35
13 19 0.29
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (11 bp):
AATAAATAATA
Found at i:90688795 original size:5 final size:5
Alignment explanation
Indices: 90688785--90688860 Score: 80
Period size: 5 Copynumber: 14.0 Consensus size: 5
90688775 AGTAATAAAT
* *
90688785 AATAA AATAA AATAATA AATACT AATAA AATAA AATAA AATAATA AATACT
1 AATAA AATAA AAT-A-A AATA-A AATAA AATAA AATAA AAT-A-A AATA-A
90688836 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
90688861 TAAATAATAA
Statistics
Matches: 61, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
5 41 0.67
6 12 0.20
7 8 0.13
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (5 bp):
AATAA
Found at i:90688816 original size:28 final size:28
Alignment explanation
Indices: 90688785--90688855 Score: 142
Period size: 28 Copynumber: 2.5 Consensus size: 28
90688775 AGTAATAAAT
90688785 AATAAAATAAAATAATAAATACTAATAA
1 AATAAAATAAAATAATAAATACTAATAA
90688813 AATAAAATAAAATAATAAATACTAATAA
1 AATAAAATAAAATAATAAATACTAATAA
90688841 AATAAAATAAAATAA
1 AATAAAATAAAATAA
90688856 AATAATAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 43 1.00
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (28 bp):
AATAAAATAAAATAATAAATACTAATAA
Found at i:90688869 original size:10 final size:10
Alignment explanation
Indices: 90688777--90688881 Score: 82
Period size: 10 Copynumber: 10.8 Consensus size: 10
90688767 AAAAATAAAG
90688777 TAATAAATAA
1 TAATAAATAA
*
90688787 TAA-AATAAAA
1 TAATAA-ATAA
*
90688797 TAATAAATAC
1 TAATAAATAA
90688807 TAATAAAATAA
1 TAAT-AAATAA
90688818 -AAT-AA-AA
1 TAATAAATAA
*
90688825 TAATAAATAC
1 TAATAAATAA
90688835 TAATAAAATAA
1 TAAT-AAATAA
90688846 -AATAAAATAA
1 TAAT-AAATAA
90688856 -AAT-AATAAA
1 TAATAAAT-AA
90688865 TAATAAATAA
1 TAATAAATAA
90688875 TAA-AAAT
1 TAATAAAT
90688882 TAAGAAAAGT
Statistics
Matches: 79, Mismatches: 6, Indels: 21
0.75 0.06 0.20
Matches are distributed among these distances:
7 2 0.03
8 8 0.10
9 10 0.13
10 44 0.56
11 15 0.19
ACGTcount: A:0.72, C:0.02, G:0.00, T:0.26
Consensus pattern (10 bp):
TAATAAATAA
Found at i:90688881 original size:28 final size:30
Alignment explanation
Indices: 90688770--90688874 Score: 130
Period size: 28 Copynumber: 3.6 Consensus size: 30
90688760 AATATCTAAA
*
90688770 AATAAAGTAATAAAT--AATAAAATAAAAT
1 AATAAACTAATAAATAAAATAAAATAAAAT
*
90688798 AATAAA-TACT-AATAAAATAAAATAAAAT
1 AATAAACTAATAAATAAAATAAAATAAAAT
90688826 AATAAATACTAATAAAATAAAATAAAATAAAAT
1 AAT-AA-ACTAAT-AAATAAAATAAAATAAAAT
90688859 AATAAA-TAATAAATAA
1 AATAAACTAATAAATAA
90688875 TAAAAATTAA
Statistics
Matches: 68, Mismatches: 2, Indels: 13
0.82 0.02 0.16
Matches are distributed among these distances:
26 3 0.04
27 3 0.04
28 22 0.32
29 8 0.12
30 5 0.07
31 4 0.06
32 2 0.03
33 21 0.31
ACGTcount: A:0.72, C:0.02, G:0.01, T:0.25
Consensus pattern (30 bp):
AATAAACTAATAAATAAAATAAAATAAAAT
Found at i:90688881 original size:33 final size:34
Alignment explanation
Indices: 90688785--90688881 Score: 130
Period size: 33 Copynumber: 2.9 Consensus size: 34
90688775 AGTAATAAAT
*
90688785 AATAAAAT-A-AAATAATAAATACTAATAAAATAA
1 AATAAAATAATAAATAATAAATAAT-ATAAAATAA
* *
90688818 AATAAAATAATAAATACT-AATAAAATAAAATAA
1 AATAAAATAATAAATAATAAATAATATAAAATAA
90688851 AATAAAATAATAAATAATAAATAATA-AAAAT
1 AATAAAATAATAAATAATAAATAATATAAAAT
90688882 TAAGAAAAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
33 39 0.70
34 11 0.20
35 6 0.11
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (34 bp):
AATAAAATAATAAATAATAAATAATATAAAATAA
Found at i:90688896 original size:7 final size:7
Alignment explanation
Indices: 90688781--90688901 Score: 68
Period size: 8 Copynumber: 16.0 Consensus size: 7
90688771 ATAAAGTAAT
90688781 AAATAATA
1 AAATAA-A
90688789 AAATAAA
1 AAATAAA
90688796 ATAATAAA
1 A-AATAAA
* *
90688804 TACTAATA
1 AAATAA-A
90688812 AAAT--A
1 AAATAAA
90688817 AAATAAA
1 AAATAAA
90688824 ATAATAAA
1 A-AATAAA
90688832 TACTAATAAA
1 -A--AATAAA
90688842 ATAA-AATA
1 A-AATAA-A
90688850 AAATAAA
1 AAATAAA
90688857 ATAATAAA
1 A-AATAAA
*
90688865 TAATAAA
1 AAATAAA
*
90688872 TAATAAA
1 AAATAAA
*
90688879 AATTAAGA
1 AAATAA-A
90688887 AAAGTAAA
1 AAA-TAAA
90688895 AAATAAA
1 AAATAAA
90688902 GGTTGGGTTA
Statistics
Matches: 93, Mismatches: 8, Indels: 25
0.74 0.06 0.20
Matches are distributed among these distances:
5 5 0.05
7 35 0.38
8 41 0.44
9 5 0.05
10 7 0.08
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (7 bp):
AAATAAA
Found at i:90692493 original size:29 final size:29
Alignment explanation
Indices: 90692451--90692510 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
90692441 AATTTGTATC
90692451 ACTTCATCCCCTATTTATAGTACTAAGAA
1 ACTTCATCCCCTATTTATAGTACTAAGAA
90692480 ACTTCATCCCCTATTTATAGTACTAAGAA
1 ACTTCATCCCCTATTTATAGTACTAAGAA
90692509 AC
1 AC
90692511 CTAGTCTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.35, C:0.25, G:0.07, T:0.33
Consensus pattern (29 bp):
ACTTCATCCCCTATTTATAGTACTAAGAA
Found at i:90692593 original size:20 final size:19
Alignment explanation
Indices: 90692534--90692593 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 19
90692524 AATTAAATTC
90692534 TAAAAGATAAATACAAATCAA
1 TAAAAGATAAATA-AAAT-AA
*
90692555 T-AAAGATAATTAAAGATAA
1 TAAAAGATAAATAAA-ATAA
90692574 TAAAAGATAAATGAAAATAA
1 TAAAAGATAAAT-AAAATAA
90692594 ATCTTAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 5 0.15
20 25 0.74
21 4 0.12
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (19 bp):
TAAAAGATAAATAAAATAA
Found at i:90693068 original size:21 final size:23
Alignment explanation
Indices: 90693039--90693085 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
90693029 TGAATATGAT
90693039 AAAACATTTTAATTAT-TATTTG
1 AAAACATTTTAATTATATATTTG
*
90693061 AAAA-ATTTTTATTATAATATTTG
1 AAAACATTTTAATTAT-ATATTTG
90693084 AA
1 AA
90693086 TTGATAAGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 10 0.45
22 4 0.18
23 8 0.36
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (23 bp):
AAAACATTTTAATTATATATTTG
Found at i:90693184 original size:13 final size:14
Alignment explanation
Indices: 90693161--90693190 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
90693151 ACTACGATTA
90693161 AAAATATAATATTT
1 AAAATATAATATTT
90693175 AAAA-ATAATATTT
1 AAAATATAATATTT
90693188 AAA
1 AAA
90693191 TATTAAATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (14 bp):
AAAATATAATATTT
Found at i:90696847 original size:132 final size:131
Alignment explanation
Indices: 90696608--90697129 Score: 469
Period size: 132 Copynumber: 4.0 Consensus size: 131
90696598 TGATTATACA
* * * *
90696608 TTTAAAAATTCTTTAAAACGAAGAC-GAGATTCGATATTTGGCAATTCGCAGAATAGTGCCCTAA
1 TTTAAAAATCCTTTAAAACGAAGGCAAAG-TTCGATATTTGGCAATTCGCAGAATCGTGCCCTAA
* * ** * *
90696672 CGTGTTGGATTGCAATTTCGCGTTTGCTT-GGAATAATCGAATATCCCTTCAAACTTTCACTCAT
65 CGTGTTGGGTTGCAATTTCTCGTTTG-TTCAAAACAATCGAATATCCCTTCAGA-TTTCACTCAT
*
90696736 GCCT
128 GTCT
* * * *
90696740 TTTAAAAATTCTTTAAAACGAAGGCAAAGTTTGATATTTGGCAATTCGCGGAATCGTACCCTAAC
1 TTTAAAAATCCTTTAAAACGAAGGCAAAGTTCGATATTTGGCAATTCGCAGAATCGTGCCCTAAC
* * * * * * *
90696805 GTGTTGGGTTGTAATTTCTTGTTTGTTCAAAATAATCAAATATCCCTTCTAGATTCCATTCAAGT
66 GTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTC-AGATTTCACTCATGT
90696870 CT
130 CT
* * * * * * * * * *
90696872 TCTAAAAATCCTCTAAAACGAAGGCAATA-CTCGGTGTTTGACAATTCG-GGAACCATGCCCTAT
1 TTTAAAAATCCTTTAAAACGAAGGCAA-AGTTCGATATTTGGCAATTCGCAGAATCGTGCCCTAA
** * * * * *
90696935 CGTGTTGGGTTGTGATTTCTCGTTTGTTCAAAACGATCGAATATTCTTTTAGGTTTTCACTCATG
65 CGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCA-GATTTCACTCATG
90697000 TCT
129 TCT
* * * * * *
90697003 TTTAAGAAAACCCTTTAAAACAAAGGCTATGTTCGATGTTTGGCAATTC-AAGAATCGTGCCCTA
1 TTT-A-AAAATCCTTTAAAACGAAGGCAAAGTTCGATATTTGGCAATTCGCAGAATCGTGCCCTA
* * * * * *
90697067 TCGCGCTGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAATATCTCTTCGGAATTTCACTC
64 ACGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAG-ATTTCACTC
90697130 GTATTTTCTA
Statistics
Matches: 314, Mismatches: 66, Indels: 19
0.79 0.17 0.05
Matches are distributed among these distances:
130 1 0.00
131 69 0.22
132 145 0.46
133 99 0.32
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (131 bp):
TTTAAAAATCCTTTAAAACGAAGGCAAAGTTCGATATTTGGCAATTCGCAGAATCGTGCCCTAAC
GTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCAGATTTCACTCATGTC
T
Found at i:90696978 original size:131 final size:134
Alignment explanation
Indices: 90696798--90697117 Score: 351
Period size: 133 Copynumber: 2.4 Consensus size: 134
90696788 CGGAATCGTA
* * * * *
90696798 CCCTAACGTGTTGGGTTGTAATTTCTTGTTTGTTCAAAATAATCAAATATCCCTTCTA-GATTCC
1 CCCTATCGTGTTGGGTTGTAATTTCTCGTTTGTTCAAAACAATCGAATATCTCTTCTAGGATTCC
* * * * **
90696862 ATTCAAGTCTTCT-A-AAAATCCTCTAAAACGAAGGCAATACTCGGTGTTTGACAATTCGGGAAC
66 ACTCAAGTCTTCTAAGAAAACCCTCTAAAACAAAGGCAATACTCGATGTTTGACAATTCAAGAAC
90696925 CATG
131 CATG
* * * * *
90696929 CCCTATCGTGTTGGGTTGTGATTTCTCGTTTGTTCAAAACGATCGAATAT-TCTTTTAGGTTTTC
1 CCCTATCGTGTTGGGTTGTAATTTCTCGTTTGTTCAAAACAATCGAATATCTCTTCTAGGATTCC
* * * * ** * *
90696993 ACTCATGTCTTTTAAGAAAACCCTTTAAAACAAAGGCTATGTTCGATGTTTGGCAATTCAAGAAT
66 ACTCAAGTCTTCTAAGAAAACCCTCTAAAACAAAGGCAATACTCGATGTTTGACAATTCAAGAAC
*
90697058 CGTG
131 CATG
* * * *
90697062 CCCTATCGCGCTGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAATATCTCTTC
1 CCCTATCGTGTTGGGTTGTAATTTCTCGTTTGTTCAAAACAATCGAATATCTCTTC
90697118 GGAATTTCAC
Statistics
Matches: 153, Mismatches: 32, Indels: 5
0.81 0.17 0.03
Matches are distributed among these distances:
130 5 0.03
131 58 0.38
132 1 0.01
133 85 0.56
134 4 0.03
ACGTcount: A:0.27, C:0.21, G:0.17, T:0.36
Consensus pattern (134 bp):
CCCTATCGTGTTGGGTTGTAATTTCTCGTTTGTTCAAAACAATCGAATATCTCTTCTAGGATTCC
ACTCAAGTCTTCTAAGAAAACCCTCTAAAACAAAGGCAATACTCGATGTTTGACAATTCAAGAAC
CATG
Found at i:90698423 original size:86 final size:86
Alignment explanation
Indices: 90698308--90698478 Score: 306
Period size: 86 Copynumber: 2.0 Consensus size: 86
90698298 TTTGGTCCAA
*
90698308 GTGAACACGACAGAAGAAGGCTAACAGTTCGTGGAGGAAAACAAAACTTTACCTAAGGATTCAAG
1 GTGAACACGACAGAAGAAGGCTAACAGTTCGTGGAGGAAAACAAAACTTTACCTAAGAATTCAAG
*
90698373 CTGATAAAGATTATCCAAAAG
66 CTGATAAAGATCATCCAAAAG
90698394 GTGAACACGACAGAAGAAGGCTAACAGTTCGTGGAGGAAAACAAAACTTTACCTAAGAATTCAAG
1 GTGAACACGACAGAAGAAGGCTAACAGTTCGTGGAGGAAAACAAAACTTTACCTAAGAATTCAAG
* *
90698459 CTGTTAAAGATCATTCAAAA
66 CTGATAAAGATCATCCAAAA
90698479 ACCGTCACGT
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
86 81 1.00
ACGTcount: A:0.43, C:0.16, G:0.21, T:0.19
Consensus pattern (86 bp):
GTGAACACGACAGAAGAAGGCTAACAGTTCGTGGAGGAAAACAAAACTTTACCTAAGAATTCAAG
CTGATAAAGATCATCCAAAAG
Found at i:90698763 original size:19 final size:19
Alignment explanation
Indices: 90698756--90698803 Score: 96
Period size: 19 Copynumber: 2.5 Consensus size: 19
90698746 TCATCCCATG
90698756 CATTTGCATTGCATTGCAT
1 CATTTGCATTGCATTGCAT
90698775 CATTTGCATTGCATTGCAT
1 CATTTGCATTGCATTGCAT
90698794 CATTTGCATT
1 CATTTGCATT
90698804 AAATTTCCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.44
Consensus pattern (19 bp):
CATTTGCATTGCATTGCAT
Found at i:90698767 original size:24 final size:24
Alignment explanation
Indices: 90698740--90698793 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
90698730 TTTCTTTCCT
*
90698740 TTGCATT-CATCCCATGCATTTGCA
1 TTGCATTGCATCACATGCA-TTGCA
**
90698764 TTGCATTGCATCATTTGCATTGCA
1 TTGCATTGCATCACATGCATTGCA
90698788 TTGCAT
1 TTGCAT
90698794 CATTTGCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
24 18 0.69
25 8 0.31
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (24 bp):
TTGCATTGCATCACATGCATTGCA
Found at i:90701363 original size:4 final size:4
Alignment explanation
Indices: 90701356--90701400 Score: 62
Period size: 4 Copynumber: 12.2 Consensus size: 4
90701346 AAAAAAAAAG
90701356 AGAA AGAA AGAA AGAA AGAA AG-A AGAA A-AA A-AA AG-A AGAA AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA
90701400 A
1 A
90701401 AGGAGAGGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
3 12 0.32
4 26 0.68
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:90702540 original size:88 final size:88
Alignment explanation
Indices: 90702391--90703505 Score: 1035
Period size: 88 Copynumber: 12.7 Consensus size: 88
90702381 GCGAATCTTA
* * *** ** * * *
90702391 CAGATTTGGCATCTCTGTGTTGATAGAGAGCAGATTAAATATAGCAGATTTGGCATCTCTGT-GT
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAG-
* * * **
90702455 TGACAGAGAGTAGATTAAAGATAG
65 CGGCAGAGAGCAGATCGAAGATAG
* * * * * **
90702479 CAGATTTGGCGTCTCTGTATTGGCGGAAAGCAGATCAAAGATAGCGGATTTGACGTCTCTGTATT
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGC
90702544 GGCAGAGAGCAGATCGAAGATAG
66 GGCAGAGAGCAGATCGAAGATAG
* * * ** *
90702567 CAGATTTGGCGTCTTTGTATCGGCGGAGAGCAGATCGAAGATAGTA-ATTTTTCGTCTATATAGC
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGC
* *
90702631 GGCGGAGAGCAGATCGAAGATAA
66 GGCAGAGAGCAGATCGAAGATAG
* * *
90702654 CGGATTTGGCATCTCTGTAGCTT--CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATA
1 CAGATTTGGCGTCTCTGTA--TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATA
* *
90702717 GCGGCGGAGAGCAGATCGAAGATAA
64 GCGGCAGAGAGCAGATCGAAGATAG
* * ** * *
90702742 TAGATTTGGTGTCTCTGTAGCGGCGAAGAGCAGATCGAAGATAGCAGATTTGGCATCTCTATAGC
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGC
* * *
90702807 GGC-GAAGAACAGATCAAAAATAG
66 GGCAG-AGAGCAGATCGAAGATAG
* ** * * *
90702830 CAGATTTAGCGTCTCTGTAGCGGCGGAGAGCAAATTGAAGATAACAGATTTGGCGTCTCTATAGC
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGC
*
90702895 GGCGGAGAGCAGATCGAAGATAG
66 GGCAGAGAGCAGATCGAAGATAG
* * * * * *
90702918 CAGATTTGGCGTTTCTGTATTGTCAGA-AGGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAG
1 CAGATTTGGCGTCTCTGTATTGGCGGAGA-GCAGATCGAAGATAGCAGATTTGGCGTCTCTATAG
** * * *
90702982 CGGTGGAAAGCAGATAGAAGATAA
65 CGGCAGAGAGCAGATCGAAGATAG
* ** * * ** * *
90703006 CAAATTCAGCGTCTTTATAGCGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTATAGC
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGC
*
90703071 GGCAGAGAGCAGATCGAAGATAA
66 GGCAGAGAGCAGATCGAAGATAG
* * * * * **
90703094 CAGATTTGCCATCTCTGTGTTGGCGGAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATT
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGC
* * *
90703159 GGCGGAGAGTAGATCAAAGATAG
66 GGCAGAGAGCAGATCGAAGATAG
* * * * * * *
90703182 TAGATTTGGCGTCTCTGTATTGTCAGAG-GACAGATCAAAAATAGCATATTTGGCGTCTCTATAT
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAG-CAGATCGAAGATAGCAGATTTGGCGTCTCTATAG
* * * *
90703246 TGGCTGAGAGCAAATCGAGGATAG
65 CGGCAGAGAGCAGATCGAAGATAG
* * * **
90703270 CAGATTTGGCGTCTCTGTATTGGCGGAAAGCAGATCGAAGATAGCAGATTTGGTGTCTCTGTATT
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGC
* *
90703335 GTCAGAGGGCAGATCGAAGATAG
66 GGCAGAGAGCAGATCGAAGATAG
* * * * * * *
90703358 CAGATTTGGCGTCTCTGTATTGTC-AAAAGGCAAATTGAAGATAGCAGATTTGGCGTCTCTGTAT
1 CAGATTTGGCGTCTCTGTATTGGCGGAGA-GCAGATCGAAGATAGCAGATTTGGCGTCTCTATAG
* * *
90703422 TGTCAGAG-GATAGATCGAAGATAG
65 CGGCAGAGAG-CAGATCGAAGATAG
* * * * * *
90703446 CAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCAAAGAT-GACAGATTTGGCATCTCT
1 CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAG-CAGATTTGGCGTCTCT
90703506 GTATTACAGT
Statistics
Matches: 854, Mismatches: 157, Indels: 32
0.82 0.15 0.03
Matches are distributed among these distances:
87 78 0.09
88 770 0.90
89 6 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.26
Consensus pattern (88 bp):
CAGATTTGGCGTCTCTGTATTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTATAGC
GGCAGAGAGCAGATCGAAGATAG
Found at i:90703509 original size:132 final size:132
Alignment explanation
Indices: 90702391--90703510 Score: 1074
Period size: 132 Copynumber: 8.5 Consensus size: 132
90702381 GCGAATCTTA
* ** * * * *
90702391 CAGATTTGGCATCTCTGTGTTGATAGAGAGCAGATTAAATATAGCAGATTTGGCATCTCTGTGTT
1 CAGATTTGGCGTCTCTGTGTTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT
* * * ** ** * *
90702456 GACAGAGAGTAGATTAAAGATAGCAGATTTGGCGTCTCTGTATTGGCGGAAAGCAGATCAAAGAT
66 GGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
90702521 AG
131 AG
* * * * * *
90702523 CGGATTTGACGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTTTGTATC
1 CAGATTTGGCGTCTCTGTGTTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT
* ** * *
90702588 GGCGGAGAGCAGATCGAAGATAGTA-ATTTTTCGTCTATATAGCGGCGGAGAGCAGATCGAAGAT
66 GGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
*
90702652 AA
131 AG
* * * * * *
90702654 CGGATTTGGCATCTCTGTAGCTT--CGGAGAGCAGATCGAAGATAACAGATTTGGCGTCTCTATA
1 CAGATTTGGCGTCTCTGT-G-TTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTA
** ** * *
90702717 GCGGCGGAGAGCAGATCGAAGATAATAGATTTGGTGTCTCTGTAGCGGCGAAGAGCAGATCGAAG
64 TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAG
90702782 ATAG
129 ATAG
* * * * * *
90702786 CAGATTTGGCATCTCTATAG-CGGC-GAAGAACAGATCAAAAATAGCAGATTTAGCGTCTCTGTA
1 CAGATTTGGCGTCTCTGT-GTTGGCAG-AGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTA
** * * * *
90702849 GCGGCGGAGAGCAAATTGAAGATAACAGATTTGGCGTCTCTATAGCGGCGGAGAGCAGATCGAAG
64 TTGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAG
90702914 ATAG
129 ATAG
* * * * *
90702918 CAGATTTGGCGTTTCTGTATTGTCAGA-AGGCAGATCAAAGATAACAGATTTGGCGTCTCTGTAG
1 CAGATTTGGCGTCTCTGTGTTGGCAGAGA-GCAGATCAAAGATAGCAGATTTGGCGTCTCTGTAT
* * * * * * ** * * * *
90702982 CGGTGGAAAGCAGATAGAAGATAACAAATTCAGCGTCTTTATAGCGGCAGAGAGCAGATCAAAGA
65 TGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGA
90703047 TAG
130 TAG
* * * * * * *
90703050 CAGATTTGGCGTCTCTATAG-CGGCAGAGAGCAGATCGAAGATAACAGATTTGCCATCTCTGTGT
1 CAGATTTGGCGTCTCTGT-GTTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTAT
* ** * *
90703114 TGGCGGAGAGCAGATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCGGAGAGTAGATCAAAGA
65 TGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGA
90703179 TAG
130 TAG
* * * * * *
90703182 TAGATTTGGCGTCTCTGTATTGTCAGAG-GACAGATCAAAAATAGCATATTTGGCGTCTCTATAT
1 CAGATTTGGCGTCTCTGTGTTGGCAGAGAG-CAGATCAAAGATAGCAGATTTGGCGTCTCTGTAT
* * * ** *
90703246 TGGCTGAGAGCAAATCGAGGATAGCAGATTTGGCGTCTCTGTATTGGCGGAAAGCAGATCGAAGA
65 TGGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGA
90703311 TAG
130 TAG
* * * * *
90703314 CAGATTTGGTGTCTCTGTATTGTCAGAGGGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTATT
1 CAGATTTGGCGTCTCTGTGTTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT
* * * * * ** * * *
90703379 GTC-AAAAGGCAAATTGAAGATAGCAGATTTGGCGTCTCTGTATTGTCAGAG-GATAGATCGAAG
66 GGCGGAGA-GCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAG-CAGATCGAAG
90703442 ATAG
129 ATAG
* * *
90703446 CAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCAAAGAT-GACAGATTTGGCATCTCTGTAT
1 CAGATTTGGCGTCTCTGTGTTGGCAGAGAGCAGATCAAAGATAG-CAGATTTGGCGTCTCTGTAT
90703510 T
65 T
90703511 ACAGTGGAGC
Statistics
Matches: 827, Mismatches: 144, Indels: 34
0.82 0.14 0.03
Matches are distributed among these distances:
131 116 0.14
132 706 0.85
133 5 0.01
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (132 bp):
CAGATTTGGCGTCTCTGTGTTGGCAGAGAGCAGATCAAAGATAGCAGATTTGGCGTCTCTGTATT
GGCGGAGAGCAGATCGAAGATAGCAGATTTGGCGTCTCTGTAGCGGCGGAGAGCAGATCGAAGAT
AG
Found at i:90703521 original size:44 final size:44
Alignment explanation
Indices: 90702391--90703530 Score: 859
Period size: 44 Copynumber: 25.9 Consensus size: 44
90702381 GCGAATCTTA
* * ** * ** *
90702391 CAGATTTGGCATCTCTGTGTTGATAGAGAGCAGATTAAATATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAG
* * * * * **
90702435 CAGATTTGGCATCTCTGTGTTGACAGAGAGTAGATTAAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAG
* *
90702479 CAGATTTGGCGTCTCTGTATTGGC-GGAAAGCAGATCAAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* * *
90702523 CGGATTTGACGTCTCTGTATTGGCAGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAG
* *
90702567 CAGATTTGGCGTCTTTGTATCGGC-GGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* ** * * ** *
90702611 TA-ATTTTTCGTCTATATAGCGGC-GGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* * *
90702654 CGGATTTGGCATCTCTGTAGCTT--C-GGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTA--TTGGCAGG-GAGCAGATCGAAGATAG
* ** *
90702698 CAGATTTGGCGTCTCTATAGCGGC-GGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* * ** *
90702742 TAGATTTGGTGTCTCTGTAGCGGC-GAAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAG-GGAGCAGATCGAAGATAG
* * ** * * * *
90702786 CAGATTTGGCATCTCTATAGCGGC-GAAGAACAGATCAAAAATAG
1 CAGATTTGGCGTCTCTGTATTGGCAG-GGAGCAGATCGAAGATAG
* ** * * *
90702830 CAGATTTAGCGTCTCTGTAGCGGC-GGAGAGCAAATTGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* **
90702874 CAGATTTGGCGTCTCTATAGCGGC-GGAGAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* * * * *
90702918 CAGATTTGGCGTTTCTGTATTGTCA-GAAGGCAGATCAAAGATAA
1 CAGATTTGGCGTCTCTGTATTGGCAGGGA-GCAGATCGAAGATAG
** * * * *
90702962 CAGATTTGGCGTCTCTGTAGCGG-TGGAAAGCAGATAGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* ** * * ** * *
90703006 CAAATTCAGCGTCTTTATAGCGGCAGAGAGCAGATCAAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAG
* ** * *
90703050 CAGATTTGGCGTCTCTATAGCGGCAGAGAGCAGATCGAAGATAA
1 CAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAG
* * * *
90703094 CAGATTTGCCATCTCTGTGTTGGC-GGAGAGCAGATCGAGGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* *
90703138 CAGATTTGGCGTCTCTGTATTGGC-GGAGAGTAGATCAAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* * * *
90703182 TAGATTTGGCGTCTCTGTATTGTCAGAGGA-CAGATCAAAAATAG
1 CAGATTTGGCGTCTCTGTATTGGCAG-GGAGCAGATCGAAGATAG
* * * * * *
90703226 CATATTTGGCGTCTCTATATTGGCTGAGAGCAAATCGAGGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAG
*
90703270 CAGATTTGGCGTCTCTGTATTGGC-GGAAAGCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGG-GAGCAGATCGAAGATAG
* *
90703314 CAGATTTGGTGTCTCTGTATTGTCAGAGG-GCAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAG-GGAGCAGATCGAAGATAG
* ** * *
90703358 CAGATTTGGCGTCTCTGTATTGTCA-AAAGGCAAATTGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAGGGA-GCAGATCGAAGATAG
* *
90703402 CAGATTTGGCGTCTCTGTATTGTCAGAGGA-TAGATCGAAGATAG
1 CAGATTTGGCGTCTCTGTATTGGCAG-GGAGCAGATCGAAGATAG
* * * * *
90703446 CAGATTTGGCATCTCTGTGTTGACAGAGAGCAGATCAAAGAT-G
1 CAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAG
* * *
90703489 ACAGATTTGGCATCTCTGTATT-ACAGTGGAGCAAATCGAAGA
1 -CAGATTTGGCGTCTCTGTATTGGCAG-GGAGCAGATCGAAGA
90703531 CGACGAATCT
Statistics
Matches: 909, Mismatches: 158, Indels: 58
0.81 0.14 0.05
Matches are distributed among these distances:
43 49 0.05
44 849 0.93
45 8 0.01
46 3 0.00
ACGTcount: A:0.30, C:0.15, G:0.29, T:0.26
Consensus pattern (44 bp):
CAGATTTGGCGTCTCTGTATTGGCAGGGAGCAGATCGAAGATAG
Found at i:90706925 original size:131 final size:131
Alignment explanation
Indices: 90706555--90707064 Score: 504
Period size: 132 Copynumber: 3.9 Consensus size: 131
90706545 TGATTATACA
* * * * * * *
90706555 TTTAAAAATTCTTTAAAACGAAGACGAGATTCGATATTTGGCAATTCGCAGAATAGTGCCCTAAC
1 TTTAAAAATCCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCG-GGAATCGTGCCCTAAC
* * ** * *
90706620 GTGTTGGGTTGCAATTTCGCGTTTGCTCGGAATAATCGAATATCCCTTC-AAACTTTCACTCATG
65 GTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCTAGA-TTTCACTCATG
*
90706684 CCT
129 TCT
* * * *
90706687 TTTAAAAATTCTTTAAAACGAAGGCAA-AGTTTGATATTTGGCAATTCGCGGAATCGTACCCTAA
1 TTTAAAAATCCTTTAAAACGAAGGCAATA-TTCGATGTTTGGCAATTCG-GGAATCGTGCCCTAA
* * * * * *
90706751 CGTGTTGGGTTGCAATTTCTCATTTGTTCAAAATAATCAAATATCCCTTCTAGATTCCATTCAGG
64 CGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCTAGATTTCACTCATG
90706816 TCT
129 TCT
* * * * * * *
90706819 TCTAAAAATCCTCTAAAACGAAGGCAATACTCGGTGTTTGACAATTCGGGAATCATGCCCTATCG
1 TTTAAAAATCCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCGGGAATCGTGCCCTAACG
** * * * *
90706884 TGTTGGGTTGTGATTTCTCGTTTGTTCAAAACGATCGAATAT-TCTTTTAGGTTTTCACTCATGT
66 TGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCTA-GATTTCACTCATGT
90706948 CT
130 CT
* * * * ** *
90706950 TTTAAGAAAACCCTTTAAAACAAAGGCTATGTTCGATGTTTGGCAATTCAAGAATCGTGCCCTAT
1 TTT-A-AAAATCCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCGGGAATCGTGCCCTAA
* * * *
90707015 CGCGCTGGGTTGCAATCTCTCGTTTGTTCAAAACAATCGAATATCTCTTC
64 CGTGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTC
90707065 GGAATTTCAC
Statistics
Matches: 312, Mismatches: 59, Indels: 12
0.81 0.15 0.03
Matches are distributed among these distances:
130 5 0.02
131 65 0.21
132 149 0.48
133 89 0.29
134 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (131 bp):
TTTAAAAATCCTTTAAAACGAAGGCAATATTCGATGTTTGGCAATTCGGGAATCGTGCCCTAACG
TGTTGGGTTGCAATTTCTCGTTTGTTCAAAACAATCGAATATCCCTTCTAGATTTCACTCATGTC
T
Found at i:90712231 original size:29 final size:29
Alignment explanation
Indices: 90712169--90712225 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
90712159 AAAAAACTTT
* *
90712169 AAGAATTGAGAATTTTGAATAAAAAAATC
1 AAGAATTGACAATTTAGAATAAAAAAATC
90712198 AAGAATTGACAATTTAGAATAAAAAAAT
1 AAGAATTGACAATTTAGAATAAAAAAAT
90712226 TGAGAACCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.58, C:0.04, G:0.12, T:0.26
Consensus pattern (29 bp):
AAGAATTGACAATTTAGAATAAAAAAATC
Found at i:90714399 original size:22 final size:21
Alignment explanation
Indices: 90714372--90714416 Score: 63
Period size: 22 Copynumber: 2.1 Consensus size: 21
90714362 TTTATATGTT
90714372 TTTATTTTTAAAAATTTAAGAA
1 TTTATTTTTAAAAATTTAA-AA
* *
90714394 TTTATTTTTTAAATTTTAAAA
1 TTTATTTTTAAAAATTTAAAA
90714415 TT
1 TT
90714417 CAAATTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTATTTTTAAAAATTTAAAA
Found at i:90714415 original size:29 final size:26
Alignment explanation
Indices: 90714340--90714416 Score: 66
Period size: 29 Copynumber: 2.7 Consensus size: 26
90714330 GTCTTTCTAG
90714340 TTTTTGTAAA-TTTAAAATTTAATTTA
1 TTTTT-TAAATTTTAAAATTTAATTTA
* *
90714366 TATGTTTTTATTTTTAAAAATTTAAGAATTTA
1 T-T-TTTTAAATTTT-AAAATTT---AATTTA
90714398 TTTTTTAAATTTTAAAATT
1 TTTTTTAAATTTTAAAATT
90714417 CAAATTTAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
26 1 0.03
27 3 0.08
28 6 0.15
29 13 0.32
30 9 0.22
31 1 0.03
32 7 0.17
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.58
Consensus pattern (26 bp):
TTTTTTAAATTTTAAAATTTAATTTA
Found at i:90715539 original size:21 final size:21
Alignment explanation
Indices: 90715515--90715555 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
90715505 CGATTAATTC
*
90715515 AGTTTTAATTAAATTTTTCTT
1 AGTTTTAATTAAAATTTTCTT
90715536 AGTTTTAATTAAAATTTTCT
1 AGTTTTAATTAAAATTTTCT
90715556 AATTGTGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.59
Consensus pattern (21 bp):
AGTTTTAATTAAAATTTTCTT
Found at i:90717294 original size:19 final size:19
Alignment explanation
Indices: 90717270--90717310 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
90717260 ATAGAGGATG
90717270 AGGCTAGGTTGTAGAGGCT
1 AGGCTAGGTTGTAGAGGCT
90717289 AGGCTAGGTTGTAGAGGCT
1 AGGCTAGGTTGTAGAGGCT
90717308 AGG
1 AGG
90717311 TTGTTGAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.22, C:0.10, G:0.44, T:0.24
Consensus pattern (19 bp):
AGGCTAGGTTGTAGAGGCT
Found at i:90718307 original size:14 final size:15
Alignment explanation
Indices: 90718278--90718310 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
90718268 TAGCTTGCTC
*
90718278 ATATTAATTTTTTTT
1 ATATTAATTATTTTT
90718293 ATATT-ATTATTTTT
1 ATATTAATTATTTTT
90718307 ATAT
1 ATAT
90718311 AAAATAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 12 0.71
15 5 0.29
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATATTAATTATTTTT
Found at i:90725682 original size:28 final size:28
Alignment explanation
Indices: 90725642--90725703 Score: 115
Period size: 28 Copynumber: 2.2 Consensus size: 28
90725632 AAAAAAGAAG
*
90725642 CATTTCTACTATGATAGAAATGTCTGGC
1 CATTTTTACTATGATAGAAATGTCTGGC
90725670 CATTTTTACTATGATAGAAATGTCTGGC
1 CATTTTTACTATGATAGAAATGTCTGGC
90725698 CATTTT
1 CATTTT
90725704 GAAAAGCAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.40
Consensus pattern (28 bp):
CATTTTTACTATGATAGAAATGTCTGGC
Found at i:90728210 original size:25 final size:25
Alignment explanation
Indices: 90728181--90728230 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
90728171 TAAAATCGAA
*
90728181 GAGTTGTGAAAATTTTATGGTTCTT
1 GAGTTATGAAAATTTTATGGTTCTT
90728206 GAGTTATGAAAATTTTATGGTTCTT
1 GAGTTATGAAAATTTTATGGTTCTT
90728231 ACATATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.04, G:0.22, T:0.48
Consensus pattern (25 bp):
GAGTTATGAAAATTTTATGGTTCTT
Found at i:90729307 original size:18 final size:18
Alignment explanation
Indices: 90729264--90729307 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
90729254 GATAAAAATG
* *
90729264 ATTATTTTATAAAACAAA
1 ATTATTTTAAAAAAAAAA
*
90729282 CTTAATTTTAAAAAAAAAA
1 ATT-ATTTTAAAAAAAAAA
90729301 ATTATTT
1 ATTATTT
90729308 CATTAAATAA
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
ATTATTTTAAAAAAAAAA
Found at i:90730237 original size:15 final size:15
Alignment explanation
Indices: 90730217--90730248 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
90730207 TATATAGACT
90730217 TAAATAACACTAAGA
1 TAAATAACACTAAGA
90730232 TAAATAACACTAAGA
1 TAAATAACACTAAGA
90730247 TA
1 TA
90730249 GATGCAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.59, C:0.12, G:0.06, T:0.22
Consensus pattern (15 bp):
TAAATAACACTAAGA
Found at i:90730299 original size:30 final size:30
Alignment explanation
Indices: 90730265--90730327 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
90730255 ACTTAACAAG
90730265 CAAATACCTCTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
*
90730295 CAAATACCTTTAAAATAATAACAAAATTAA
1 CAAATACCTCTAAAATAATAACAAAATTAA
90730325 CAA
1 CAA
90730328 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (30 bp):
CAAATACCTCTAAAATAATAACAAAATTAA
Found at i:90732329 original size:4 final size:4
Alignment explanation
Indices: 90732320--90732354 Score: 70
Period size: 4 Copynumber: 8.8 Consensus size: 4
90732310 GATCGAGCAA
90732320 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
90732355 ATTACAATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:90738705 original size:22 final size:22
Alignment explanation
Indices: 90738679--90738723 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
90738669 CAGTTGAGTC
90738679 TTAGTTCAATTGACATGAATAT
1 TTAGTTCAATTGACATGAATAT
*
90738701 TTAGTTTAATTGACATGAATAT
1 TTAGTTCAATTGACATGAATAT
90738723 T
1 T
90738724 GTTATCAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (22 bp):
TTAGTTCAATTGACATGAATAT
Found at i:90740497 original size:16 final size:16
Alignment explanation
Indices: 90740478--90740508 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
90740468 TATTTTAGAG
90740478 CATATAAATTTGAAAC
1 CATATAAATTTGAAAC
*
90740494 CATATATATTTGAAA
1 CATATAAATTTGAAA
90740509 ACTCTTTCAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.35
Consensus pattern (16 bp):
CATATAAATTTGAAAC
Found at i:90740705 original size:11 final size:10
Alignment explanation
Indices: 90740601--90740714 Score: 59
Period size: 10 Copynumber: 10.8 Consensus size: 10
90740591 AAAATTATTA
*
90740601 TTTTAGAATT
1 TTTTATAATT
90740611 TTTT-TAACTT
1 TTTTATAA-TT
90740621 TTTTATATATT
1 TTTTATA-ATT
* * *
90740632 CTTTAGAAAT
1 TTTTATAATT
*
90740642 TTTTAGAATTT
1 TTTTATAA-TT
* *
90740653 TTATTTTAAAT
1 TT-TTATAATT
*
90740664 TTTGATAATT
1 TTTTATAATT
*
90740674 TTTTAAAAATAT
1 TTTT-ATAAT-T
* *
90740686 ATATATAATTT
1 TTTTATAA-TT
90740697 TTTTATAATT
1 TTTTATAATT
90740707 TTTTATAA
1 TTTTATAA
90740715 ATATTTGGTT
Statistics
Matches: 77, Mismatches: 19, Indels: 16
0.69 0.17 0.14
Matches are distributed among these distances:
9 2 0.03
10 37 0.48
11 29 0.38
12 9 0.12
ACGTcount: A:0.34, C:0.02, G:0.04, T:0.61
Consensus pattern (10 bp):
TTTTATAATT
Found at i:90743372 original size:12 final size:12
Alignment explanation
Indices: 90743355--90743392 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
90743345 CGGCCCGCCC
90743355 ATATTAATTTTT
1 ATATTAATTTTT
90743367 ATATT-ATTTTT
1 ATATTAATTTTT
*
90743378 ATA-TAATTTTA
1 ATATTAATTTTT
90743389 ATAT
1 ATAT
90743393 ATATATAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 1 0.04
11 17 0.74
12 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTAATTTTT
Done.