Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003412.1 Hibiscus syriacus cultivar Beakdansim tig00007189_pilon, whole genome shotgun sequence
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: 162836
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Found at i:1757 original size:21 final size:21
Alignment explanation
Indices: 1731--1770 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1721 CCAAAGCATG
*
1731 AATACTCGCTCTCATATCATC
1 AATACTAGCTCTCATATCATC
1752 AATACTAGCTCTCATATCA
1 AATACTAGCTCTCATATCA
1771 ACAACATTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.30, G:0.05, T:0.33
Consensus pattern (21 bp):
AATACTAGCTCTCATATCATC
Found at i:1781 original size:21 final size:21
Alignment explanation
Indices: 1738--1787 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
1728 ATGAATACTC
* *
1738 GCTCTCATATCATCAATACTA
1 GCTCTCATATCAACAACACTA
*
1759 GCTCTCATATCAACAACATTA
1 GCTCTCATATCAACAACACTA
*
1780 GCTTTCAT
1 GCTCTCAT
1788 GGCATCAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (21 bp):
GCTCTCATATCAACAACACTA
Found at i:5922 original size:2 final size:2
Alignment explanation
Indices: 5915--5939 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5905 TTTATCATGA
5915 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5940 ATTTTTATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11569 original size:21 final size:20
Alignment explanation
Indices: 11505--11569 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 20
11495 GCAACACCAA
11505 TCTTTTTCTTCTATTCAACTTC
1 TCTTTTTCTTCTATTC--CTTC
* *
11527 -CTTCTTTTCTTCATCTTTCTTC
1 TC-T-TTTTCTTC-TATTCCTTC
11549 TCTTTTTCTTCTTATTCCTTC
1 TCTTTTTCTTC-TATTCCTTC
11570 ACTATCAGTT
Statistics
Matches: 34, Mismatches: 5, Indels: 9
0.71 0.10 0.19
Matches are distributed among these distances:
21 16 0.47
22 6 0.18
23 9 0.26
24 3 0.09
ACGTcount: A:0.08, C:0.29, G:0.00, T:0.63
Consensus pattern (20 bp):
TCTTTTTCTTCTATTCCTTC
Found at i:14302 original size:30 final size:30
Alignment explanation
Indices: 14266--14337 Score: 144
Period size: 30 Copynumber: 2.4 Consensus size: 30
14256 TGGACGAACT
14266 TAATTGATTTTTTAGTTATGTTCAAGGACC
1 TAATTGATTTTTTAGTTATGTTCAAGGACC
14296 TAATTGATTTTTTAGTTATGTTCAAGGACC
1 TAATTGATTTTTTAGTTATGTTCAAGGACC
14326 TAATTGATTTTT
1 TAATTGATTTTT
14338 AGAAATATCG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.26, C:0.08, G:0.15, T:0.50
Consensus pattern (30 bp):
TAATTGATTTTTTAGTTATGTTCAAGGACC
Found at i:14713 original size:17 final size:16
Alignment explanation
Indices: 14677--14729 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 16
14667 GTTAGACAAA
14677 AAAATAATAATAAATGAAT
1 AAAATAATAAT-AA--AAT
14696 AAGAATAATAATAAAAT
1 AA-AATAATAATAAAAT
*
14713 AAAAAAATAATATAAAT
1 AAAATAATAATA-AAAT
14730 TATAAAAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 9 0.29
17 9 0.29
19 4 0.13
20 9 0.29
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (16 bp):
AAAATAATAATAAAAT
Found at i:14736 original size:17 final size:18
Alignment explanation
Indices: 14677--14741 Score: 69
Period size: 20 Copynumber: 3.4 Consensus size: 18
14667 GTTAGACAAA
14677 AAAATAATAATAAATGAAT
1 AAAATAATAATAAAT-AAT
*
14696 AAGAATAATAATAAAATAAA
1 AA-AATAATAAT-AAATAAT
*
14716 AAAATAAT-ATAAATTAT
1 AAAATAATAATAAATAAT
14733 AAAAATAAT
1 -AAAATAAT
14742 TAAACAAATA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
17 5 0.12
18 10 0.25
19 8 0.20
20 13 0.32
21 4 0.10
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAATAATAATAAATAAT
Found at i:14736 original size:20 final size:20
Alignment explanation
Indices: 14674--14741 Score: 72
Period size: 18 Copynumber: 3.5 Consensus size: 20
14664 AATGTTAGAC
14674 AAAAAAATAATAATAAATGA-
1 AAAAAAATAATAATAAAT-AT
* *
14694 ATAAGAATAATAATAAA-AT
1 AAAAAAATAATAATAAATAT
14713 AAAAAAATAAT-ATAAAT-T
1 AAAAAAATAATAATAAATAT
*
14731 ATAAAAATAAT
1 AAAAAAATAAT
14742 TAAACAAATA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
18 17 0.41
19 9 0.22
20 15 0.37
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (20 bp):
AAAAAAATAATAATAAATAT
Found at i:14738 original size:9 final size:9
Alignment explanation
Indices: 14676--14741 Score: 62
Period size: 9 Copynumber: 7.0 Consensus size: 9
14666 TGTTAGACAA
14676 AAAAATAAT
1 AAAAATAAT
14685 AATAAATGAAT
1 AA-AAAT-AAT
*
14696 AAGAATAAT
1 AAAAATAAT
14705 AATAAAATAA-
1 -A-AAAATAAT
14715 AAAAATAAT
1 AAAAATAAT
* *
14724 ATAAATTAT
1 AAAAATAAT
14733 AAAAATAAT
1 AAAAATAAT
14742 TAAACAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
8 7 0.15
9 20 0.43
10 8 0.17
11 11 0.24
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (9 bp):
AAAAATAAT
Found at i:14742 original size:12 final size:12
Alignment explanation
Indices: 14727--14775 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
14717 AAATAATATA
14727 AATTATAAAAAT
1 AATTATAAAAAT
14739 AATTA-AACAAAT
1 AATTATAA-AAAT
*
14751 ATATTGT-AAAAT
1 A-ATTATAAAAAT
14763 AATT-TAAAAAT
1 AATTATAAAAAT
14774 AA
1 AA
14776 AAAAGAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 9
0.76 0.02 0.21
Matches are distributed among these distances:
10 1 0.03
11 12 0.38
12 15 0.47
13 4 0.12
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (12 bp):
AATTATAAAAAT
Found at i:14983 original size:20 final size:19
Alignment explanation
Indices: 14954--14994 Score: 64
Period size: 20 Copynumber: 2.1 Consensus size: 19
14944 GTGGAATATT
14954 AAATAGTAATAAAGAAATA
1 AAATAGTAATAAAGAAATA
*
14973 AAATAAGTAATAAATAAATA
1 AAAT-AGTAATAAAGAAATA
14993 AA
1 AA
14995 TATATACTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.71, C:0.00, G:0.07, T:0.22
Consensus pattern (19 bp):
AAATAGTAATAAAGAAATA
Found at i:16380 original size:47 final size:44
Alignment explanation
Indices: 16329--16508 Score: 144
Period size: 37 Copynumber: 4.4 Consensus size: 44
16319 GTTTTCAAAA
*
16329 TATATATATTTTTCAAAAAAATAATTTTTTTAAAAAAAACTATATAG
1 TATATATATTTTTCAAAAAAAT-AGTTTTTT--AAAAAACTATATAG
* * *
16376 TATATATATGTTTTCAAAAAAATGGTTTTTTCAAAAACTATATAT
1 TATATATAT-TTTTCAAAAAAATAGTTTTTTAAAAAACTATATAG
*
16421 TATATATA-TTTTC---AAAATA---TTTT-CAAAACTATATA-
1 TATATATATTTTTCAAAAAAATAGTTTTTTAAAAAACTATATAG
*
16456 -ATATAT-GTTTTC--AAAAATA--TTTTTAAAAAACTATATA-
1 TATATATATTTTTCAAAAAAATAGTTTTTTAAAAAACTATATAG
16493 T-TATATA-TTTTCAAAA
1 TATATATATTTTTCAAAA
16509 TGATTTCAAA
Statistics
Matches: 117, Mismatches: 7, Indels: 26
0.78 0.05 0.17
Matches are distributed among these distances:
34 11 0.09
35 6 0.05
36 15 0.13
37 25 0.21
39 2 0.02
40 5 0.04
43 5 0.04
45 20 0.17
47 15 0.13
48 13 0.11
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (44 bp):
TATATATATTTTTCAAAAAAATAGTTTTTTAAAAAACTATATAG
Found at i:16412 original size:45 final size:45
Alignment explanation
Indices: 16328--16437 Score: 136
Period size: 43 Copynumber: 2.4 Consensus size: 45
16318 TGTTTTCAAA
*
16328 ATATATATATTTTTCAAAAAAATAATTTTTTTAAAAAAAACTATAT
1 ATATATATATTTTTCAAAAAAATAAGTTTTTT-AAAAAAACTATAT
* *
16374 AGTATATATATGTTTTCAAAAAAAT-GGTTTTTT-CAAAAACTATAT
1 A-TATATATAT-TTTTCAAAAAAATAAGTTTTTTAAAAAAACTATAT
16419 AT-TATATATATTTTCAAAA
1 ATATATATAT-TTTTCAAAA
16438 TATTTTCAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
43 16 0.28
44 1 0.02
45 12 0.21
46 1 0.02
47 15 0.26
48 13 0.22
ACGTcount: A:0.47, C:0.05, G:0.04, T:0.44
Consensus pattern (45 bp):
ATATATATATTTTTCAAAAAAATAAGTTTTTTAAAAAAACTATAT
Found at i:16449 original size:36 final size:37
Alignment explanation
Indices: 16403--16608 Score: 198
Period size: 36 Copynumber: 5.6 Consensus size: 37
16393 AAAAATGGTT
16403 TTTTCAAAAACTATATATTATATATATTTTC-AAAATA
1 TTTTC-AAAACTATATATTATATATATTTTCAAAAATA
*
16440 TTTTCAAAACTATATA--ATATATGTTTTCAAAAATA
1 TTTTCAAAACTATATATTATATATATTTTCAAAAATA
*
16475 TTTTTAAAAAACTATATA-T-TATATATTTTC-AAAATGA
1 -TTTT-CAAAACTATATATTATATATATTTTCAAAAAT-A
* * *
16512 -TTTCAAAAATTATATATATATTATATATTTTCTAAAATG
1 TTTTC-AAAACTATATAT-TA-TATATATTTTCAAAAATA
*
16551 TTTT-AAAAATATATATTATATA-ATTTTCAAAAATCA
1 TTTTCAAAACTATATATTATATATATTTTCAAAAAT-A
* *
16587 TTTGC-AAACTATATAATATATA
1 TTTTCAAAACTATATATTATATA
16609 GATATATATG
Statistics
Matches: 143, Mismatches: 12, Indels: 29
0.78 0.07 0.16
Matches are distributed among these distances:
34 11 0.08
35 30 0.21
36 42 0.29
37 30 0.21
38 11 0.08
39 11 0.08
40 8 0.06
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.45
Consensus pattern (37 bp):
TTTTCAAAACTATATATTATATATATTTTCAAAAATA
Found at i:16498 original size:37 final size:37
Alignment explanation
Indices: 16363--16589 Score: 182
Period size: 37 Copynumber: 5.9 Consensus size: 37
16353 TTTTTTTAAA
*
16363 AAAAACTATATAGTATATATATGTTTTCAAAAAAATGGTTTTTT
1 AAAAACTATATA-T-TATATA--TTTTC--AAAAAT-GATTTTT
16407 CAAAAACTATATATTATATATATTTTC-AAAAT-A-TTTT
1 -AAAAACTATATA-T-TATATATTTTCAAAAATGATTTTT
* * *
16444 CAAAACTATATAATATATGTTTTCAAAAAT-ATTTTT
1 AAAAACTATATATTATATATTTTCAAAAATGATTTTT
**
16480 AAAAAACTATATATTATATATTTTC-AAAATGATTTCA
1 -AAAAACTATATATTATATATTTTCAAAAATGATTTTT
* *
16517 AAAATTATATATATATTATATATTTTCTAAAATG--TTTT
1 AAAA--A-CTATATATTATATATTTTCAAAAATGATTTTT
*
16555 AAAAA-TATATATTATATAATTTTCAAAAATCATTT
1 AAAAACTATATATTATAT-ATTTTCAAAAATGATTT
16590 GCAAACTATA
Statistics
Matches: 156, Mismatches: 15, Indels: 30
0.78 0.07 0.15
Matches are distributed among these distances:
34 22 0.14
35 17 0.11
36 25 0.16
37 31 0.20
38 7 0.04
39 18 0.12
40 11 0.07
43 5 0.03
45 20 0.13
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (37 bp):
AAAAACTATATATTATATATTTTCAAAAATGATTTTT
Found at i:16623 original size:75 final size:75
Alignment explanation
Indices: 16403--16623 Score: 194
Period size: 73 Copynumber: 3.0 Consensus size: 75
16393 AAAAATGGTT
* * *
16403 TTTTCAAAAACTATATATTATATATATTTTCAAAAT-ATTTTC-AAAACTATATA-ATAT-ATGT
1 TTTTAAAAAACTATATA-T-TATATATTTTCAAAATCA-TTTCAAAAATTATATATATATGATAT
* *
16464 -TT-TCAAAAATAT
63 ATTATCTAAAAT-G
* *
16476 TTTTAAAAAACTATATATTATATATTTTCAAAATGATTTCAAAAATTATATATATATTATATATT
1 TTTTAAAAAACTATATATTATATATTTTCAAAATCATTTCAAAAATTATATATATATGATATATT
*
16541 TTCTAAAATG
66 ATCTAAAATG
*
16551 TTTT-AAAAA-TATATATTATATAATTTTCAAAAATCATTTGC--AAACTATATAATATATAGAT
1 TTTTAAAAAACTATATATTATAT-ATTTTC-AAAATCATTT-CAAAAATTATAT-ATATAT-GAT
*
16612 ATA-TATGTAAAA
61 ATATTATCTAAAA
16624 AAATGTGGAC
Statistics
Matches: 127, Mismatches: 10, Indels: 20
0.81 0.06 0.13
Matches are distributed among these distances:
71 20 0.16
72 12 0.09
73 32 0.25
74 22 0.17
75 28 0.22
76 13 0.10
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (75 bp):
TTTTAAAAAACTATATATTATATATTTTCAAAATCATTTCAAAAATTATATATATATGATATATT
ATCTAAAATG
Found at i:18027 original size:80 final size:80
Alignment explanation
Indices: 17943--18192 Score: 405
Period size: 80 Copynumber: 3.1 Consensus size: 80
17933 ATTACCTTTT
* *
17943 TTGTTGATGTATATAGATTGAATAAGATCTGGACCGATTAGTATCATGCGGGTGAATGTCTATGT
1 TTGTTGATGTATACAGATTGAATAAGATCTGGACCGATTAGTATCATGCGGGTGAATATCTATGT
*
18008 CTGCTGGTTTAATTC
66 CTGCTGGTTTGATTC
*
18023 TTGTTGATGTATACAGATTGAATAAGATCTGGACCGATTAGTATCATGC-GG-GAATATCTATAT
1 TTGTTGATGTATACAGATTGAATAAGATCTGGACCGATTAGTATCATGCGGGTGAATATCTATGT
*
18086 CTTCTGGTTTGATTC
66 CTGCTGGTTTGATTC
*
18101 TTCTTGATGTATACAGATTGAATAAGATCTGGACCGATTAGTATCATGCGGGTGAATATCTATGT
1 TTGTTGATGTATACAGATTGAATAAGATCTGGACCGATTAGTATCATGCGGGTGAATATCTATGT
*
18166 CTGCTGTTTTGATTC
66 CTGCTGGTTTGATTC
* *
18181 TTGGTGGTGTAT
1 TTGTTGATGTAT
18193 TTTGGGGGTG
Statistics
Matches: 156, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
78 71 0.46
79 4 0.03
80 81 0.52
ACGTcount: A:0.25, C:0.12, G:0.24, T:0.39
Consensus pattern (80 bp):
TTGTTGATGTATACAGATTGAATAAGATCTGGACCGATTAGTATCATGCGGGTGAATATCTATGT
CTGCTGGTTTGATTC
Found at i:18123 original size:78 final size:80
Alignment explanation
Indices: 17946--18182 Score: 397
Period size: 78 Copynumber: 3.0 Consensus size: 80
17936 ACCTTTTTTG
* *
17946 TTGATGTATATAGATTGAATAAGATCTGGACCGATTAGTATCATGCGGGTGAATGTCTATGTCTG
1 TTGATGTATACAGATTGAATAAGATCTGGACCGATTAGTATCATGCGGGTGAATATCTATGTCTG
* *
18011 CTGGTTTAATTCTTG
66 CTGGTTTGATTCTTC
* *
18026 TTGATGTATACAGATTGAATAAGATCTGGACCGATTAGTATCATGC-GG-GAATATCTATATCTT
1 TTGATGTATACAGATTGAATAAGATCTGGACCGATTAGTATCATGCGGGTGAATATCTATGTCTG
18089 CTGGTTTGATTCTTC
66 CTGGTTTGATTCTTC
18104 TTGATGTATACAGATTGAATAAGATCTGGACCGATTAGTATCATGCGGGTGAATATCTATGTCTG
1 TTGATGTATACAGATTGAATAAGATCTGGACCGATTAGTATCATGCGGGTGAATATCTATGTCTG
*
18169 CTGTTTTGATTCTT
66 CTGGTTTGATTCTT
18183 GGTGGTGTAT
Statistics
Matches: 146, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
78 71 0.49
79 4 0.03
80 71 0.49
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (80 bp):
TTGATGTATACAGATTGAATAAGATCTGGACCGATTAGTATCATGCGGGTGAATATCTATGTCTG
CTGGTTTGATTCTTC
Found at i:19910 original size:96 final size:93
Alignment explanation
Indices: 19741--19953 Score: 250
Period size: 96 Copynumber: 2.3 Consensus size: 93
19731 CGGAGACGGT
* * * * * *
19741 AGAACAAGATGAAGAGAAAGAAGAGAAGAAAAAAGACAAGGATGAGAAGGAGAAGAAAAAGAAAA
1 AGAAGAAGATGAAGTGAAAGATGAGAAGAAAAAAAAAAAGCATGAGAAGGAGAAGAAAAAGAAAA
19806 AGAAGCACAA-GAAAAAGGAGGTCGAGGG
66 AGAAGCACAAGGAAAAA-GAGGTCGAGGG
* * * *
19834 AGAAGGAGATGAAGTGAAAGATGAGAAGAAAAAGAAAAAAGAACATGGGAAGGATAAGAAAAAGG
1 AGAAGAAGATGAAGTGAAAGATGAGAAGAAAAA-AAAAAAG--CATGAGAAGGAGAAGAAAAAGA
* * *
19899 AAAATACGCACAAGGAAAAAGAGGTCGAGGT
63 AAAAGAAGCACAAGGAAAAAGAGGTCGAGGG
19930 AGAAGAAGATGAAGATG-AAGATGA
1 AGAAGAAGATGAAG-TGAAAGATGA
19954 AGCGGAAGAA
Statistics
Matches: 101, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
93 29 0.29
94 5 0.05
96 59 0.58
97 8 0.08
ACGTcount: A:0.57, C:0.05, G:0.32, T:0.07
Consensus pattern (93 bp):
AGAAGAAGATGAAGTGAAAGATGAGAAGAAAAAAAAAAAGCATGAGAAGGAGAAGAAAAAGAAAA
AGAAGCACAAGGAAAAAGAGGTCGAGGG
Found at i:19968 original size:108 final size:108
Alignment explanation
Indices: 19840--20055 Score: 254
Period size: 108 Copynumber: 2.0 Consensus size: 108
19830 AGGGAGAAGG
* * * * * *
19840 AGATGAAGTGAAAGATGAGAAGAAAAAGAAAAAAGAA-CATGGGAAGGATAAGAAAAAGGAAAAT
1 AGATGAAGCGAAAGAAGAGAAGAAAAA-AAAAAACAAGCATGAGAAGGAGAAGAAAAAGGAAAAG
* * * *
19904 ACGCACAAGGAAAAAGAGGTCGAGGTAGAAGAAGATGAAGATGA
65 AAGCACAAGGAAAAAGAGGTCGAGGTAAAAGAAGAAGAAAATGA
* * ** * **
19948 AGATGAAGCGGAAGAAGAGAAGAAGAAAAATGACAAGGATGAGAAGGAGAAGAAAAAGGATGAGA
1 AGATGAAGCGAAAGAAGAGAAGAAAAAAAAAAACAAGCATGAGAAGGAGAAGAAAAAGGAAAAGA
*
20013 AGCATAAGGAAAAAGAGGTCGAGGTAAAAGAAGAAGAAAATGA
66 AGCACAAGGAAAAAGAGGTCGAGGTAAAAGAAGAAGAAAATGA
20056 GAAGAAAAAG
Statistics
Matches: 89, Mismatches: 18, Indels: 2
0.82 0.17 0.02
Matches are distributed among these distances:
107 6 0.07
108 83 0.93
ACGTcount: A:0.56, C:0.04, G:0.32, T:0.08
Consensus pattern (108 bp):
AGATGAAGCGAAAGAAGAGAAGAAAAAAAAAAACAAGCATGAGAAGGAGAAGAAAAAGGAAAAGA
AGCACAAGGAAAAAGAGGTCGAGGTAAAAGAAGAAGAAAATGA
Found at i:19995 original size:96 final size:95
Alignment explanation
Indices: 19741--19992 Score: 217
Period size: 96 Copynumber: 2.6 Consensus size: 95
19731 CGGAGACGGT
* * * * * * * * *
19741 AGAACAAGATGAAGAGAAAGAAGAGAAGAAAAA-AGACAAG--GATGAGAAGGAGAAGAAAAAGA
1 AGAAGAAGATGAAGTGAAAGATGAGAAGAAAAAGAAAAAAGAAAATGACAAGGA-TAGAAAAAGG
* *
19803 AAAAGAAGCACAAGAAAAAGGAGGTCGAGGG
65 AAAATACGCACAAGAAAAAGGAGGTCGAGGG
* * **
19834 AGAAGGAGATGAAGTGAAAGATGAGAAGAAAAAGAAAAAAGAACATGGGAAGGATAAGAAAAAGG
1 AGAAGAAGATGAAGTGAAAGATGAGAAGAAAAAGAAAAAAGAAAATGACAAGGAT-AGAAAAAGG
*
19899 AAAATACGCACAAGGAAAAA-GAGGTCGAGGT
65 AAAATACGCACAA-GAAAAAGGAGGTCGAGGG
** * *
19930 AGAAGAAGATGAAGATG-AAGATGAAGCGGAAGAAGAGAAGAAGAAAAATGACAAGGATGAGAA
1 AGAAGAAGATGAAG-TGAAAGATG-AGAAGAAAAAGA-AAAAAG-AAAATGACAAGGAT-AGAA
19993 GGAGAAGAAA
Statistics
Matches: 128, Mismatches: 22, Indels: 12
0.79 0.14 0.07
Matches are distributed among these distances:
93 29 0.23
94 5 0.04
96 57 0.45
97 17 0.13
98 5 0.04
99 15 0.12
ACGTcount: A:0.57, C:0.05, G:0.32, T:0.06
Consensus pattern (95 bp):
AGAAGAAGATGAAGTGAAAGATGAGAAGAAAAAGAAAAAAGAAAATGACAAGGATAGAAAAAGGA
AAATACGCACAAGAAAAAGGAGGTCGAGGG
Found at i:20025 original size:21 final size:21
Alignment explanation
Indices: 19982--20027 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
19972 GAAAAATGAC
*
19982 AAGGATGAGAAGGAGAAGAAA
1 AAGGATGAGAAGCAGAAGAAA
*
20003 AAGGATGAGAAGCATAAGGAAA
1 AAGGATGAGAAGCAGAA-GAAA
20025 AAG
1 AAG
20028 AGGTCGAGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.57, C:0.02, G:0.35, T:0.07
Consensus pattern (21 bp):
AAGGATGAGAAGCAGAAGAAA
Found at i:20229 original size:93 final size:93
Alignment explanation
Indices: 20059--20229 Score: 227
Period size: 93 Copynumber: 1.8 Consensus size: 93
20049 AAAATGAGAA
* * ***
20059 GAAAAAGAAGATAGACAAGGATGATAAGGAGAAAAAGAAAGGAAAGAAGTTGAAAGATGAAGAGG
1 GAAAAAGAAGATAGACAAGGATGAAAAGGAGAAAAAGAAAGAAAAGAAAAAGAAAGATGAAGAGG
*
20124 AAGAGGGAGAAGAGAAAGTGAAAAAGAC
66 AAGAGAGAGAAGAGAAAGTGAAAAAGAC
* * * * *
20152 GAAAAAGAAGATAGACAAGGATGAAAAGGAGGAGAAGAAAGAAAAGAAAAAGAAGGATGAGGTGG
1 GAAAAAGAAGATAGACAAGGATGAAAAGGAGAAAAAGAAAGAAAAGAAAAAGAAAGATGAAGAGG
20217 AAGA-AGATGAAGA
66 AAGAGAGA-GAAGA
20230 AATAGAAGAG
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
92 2 0.03
93 64 0.97
ACGTcount: A:0.57, C:0.02, G:0.34, T:0.07
Consensus pattern (93 bp):
GAAAAAGAAGATAGACAAGGATGAAAAGGAGAAAAAGAAAGAAAAGAAAAAGAAAGATGAAGAGG
AAGAGAGAGAAGAGAAAGTGAAAAAGAC
Found at i:20472 original size:12 final size:12
Alignment explanation
Indices: 20455--20511 Score: 51
Period size: 12 Copynumber: 4.5 Consensus size: 12
20445 ACGGTGAAAT
20455 GAAAGAGAAAAA
1 GAAAGAGAAAAA
* *
20467 GAAAGATAAGAA
1 GAAAGAGAAAAA
*
20479 GAAAGATAAACAA
1 GAAAGAGAAA-AA
*
20492 GAGAAGGAGAAGAA
1 GA-AA-GAGAAAAA
20506 GAAAGA
1 GAAAGA
20512 AAAGGAGGAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
12 21 0.57
13 6 0.16
14 6 0.16
15 4 0.11
ACGTcount: A:0.67, C:0.02, G:0.28, T:0.04
Consensus pattern (12 bp):
GAAAGAGAAAAA
Found at i:20573 original size:105 final size:105
Alignment explanation
Indices: 20265--20650 Score: 287
Period size: 111 Copynumber: 3.6 Consensus size: 105
20255 AAGAAAGATG
* * * *
20265 AGAAGAAAGAAAAAC-ATGAGAAGGAGAAGAAGAAAGATAAGAAGGATAAAGAGGTAGA---AGA
1 AGAAG-AAGAAAGACAAAGAGAAGGAGAAGAAGAAAGAAAAGAAGGATAAAGAGGAAGAGGTAGA
* * * * * * ** *
20326 AGATGACGATGATGAAATAAAAGAGAGGAAGAAAGATAAGA
65 AAAAGATGACGGTGAAATGAAAGAGAAAAAGAAAGAGAAGA
* *
20367 AGAAAGACA-AAGAGGAGAAGGAGAAGGAGAAGAAGAAAGAAAATATGAAGGATAAAGAGGAAGA
1 AG-AAGA-AGAA-A-GACAAAGAGAAGGAGAAGAAGAAAG-AAA-A-GAAGGATAAAGAGGAAGA
*
20431 GGTAGAAAAAGATGACGGTGAAATGAAAGAGAAAAAGAAAGATAAGA
59 GGTAGAAAAAGATGACGGTGAAATGAAAGAGAAAAAGAAAGAGAAGA
* *
20478 AG-A-AAGATAA-AC-AAGAGAAGGAGAAGAAGAAAGAAAAGGAGGATAATGAGGAAGAGGTAGA
1 AGAAGAAGA-AAGACAAAGAGAAGGAGAAGAAGAAAGAAAAGAAGGATAAAGAGGAAGAGGTAGA
** *
20539 TGAAGATGA-GGCTGACGAAATTG-AAGATG-GAAAGAAAGAGAAGA
65 AAAAGATGACGG-T---GAAA-TGAAAGA-GAAAAAGAAAGAGAAGA
*
20583 AGAAGAAGAAAGACAAAGAGGTGAAGGAAAAGAAGAAAGAAAAGAA-GATCAAAGATGG-AGAGG
1 AGAAGAAGAAAGACAAAGA---GAAGGAGAAGAAGAAAGAAAAGAAGGAT-AAAGA-GGAAGAGG
*
20646 AAGAA
61 TAGAA
20651 GGTGAAGAGA
Statistics
Matches: 230, Mismatches: 26, Indels: 47
0.76 0.09 0.16
Matches are distributed among these distances:
101 2 0.01
102 35 0.15
103 6 0.03
104 4 0.02
105 63 0.27
106 9 0.04
107 8 0.03
108 24 0.10
109 2 0.01
110 3 0.01
111 72 0.31
112 2 0.01
ACGTcount: A:0.58, C:0.02, G:0.32, T:0.08
Consensus pattern (105 bp):
AGAAGAAGAAAGACAAAGAGAAGGAGAAGAAGAAAGAAAAGAAGGATAAAGAGGAAGAGGTAGAA
AAAGATGACGGTGAAATGAAAGAGAAAAAGAAAGAGAAGA
Found at i:20602 original size:24 final size:24
Alignment explanation
Indices: 20568--20627 Score: 63
Period size: 27 Copynumber: 2.5 Consensus size: 24
20558 ATTGAAGATG
20568 GAAAG-AAAGA-GAA-GAAGAAGAA
1 GAAAGAAAAGAGGAAGGAA-AAGAA
20590 GAAAGACAAAGAGGTGAAGGAAAAGAA
1 GAAAGA-AAAGA-G-GAAGGAAAAGAA
20617 GAAAGAAAAGA
1 GAAAGAAAAGA
20628 AGATCAAAGA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
22 5 0.16
24 5 0.16
26 5 0.16
27 14 0.44
28 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.32, T:0.02
Consensus pattern (24 bp):
GAAAGAAAAGAGGAAGGAAAAGAA
Found at i:20626 original size:12 final size:12
Alignment explanation
Indices: 20569--20630 Score: 52
Period size: 12 Copynumber: 4.7 Consensus size: 12
20559 TTGAAGATGG
20569 AAAGAAAGAGAAGA
1 AAAG-AAGA-AAGA
20583 AGAAGAAGAAAGA
1 A-AAGAAGAAAGA
* *
20596 CAAAGAGGTGAAGGA
1 -AAAGA--AGAAAGA
20611 AAAGAAGAAAGA
1 AAAGAAGAAAGA
20623 AAAGAAGA
1 AAAGAAGA
20631 TCAAAGATGG
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
12 13 0.32
13 8 0.20
14 11 0.28
15 8 0.20
ACGTcount: A:0.66, C:0.02, G:0.31, T:0.02
Consensus pattern (12 bp):
AAAGAAGAAAGA
Found at i:20647 original size:36 final size:37
Alignment explanation
Indices: 20562--20647 Score: 92
Period size: 36 Copynumber: 2.4 Consensus size: 37
20552 GACGAAATTG
*
20562 AAGATGGA-AAGAAAGAGAAGAAGAAGAAGAAAGACA
1 AAGATGGAGAGGAAAGAGAAGAAGAAGAAGAAAGACA
*
20598 AAGA-GGTGAAGGAAA-AGAAGAAAGAA-AAG-AAGATCA
1 AAGATGGAG-AGGAAAGAGAAG-AAGAAGAAGAAAGA-CA
20634 AAGATGGAGAGGAA
1 AAGATGGAGAGGAA
20648 GAAGGTGAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
35 6 0.14
36 23 0.55
37 13 0.31
ACGTcount: A:0.60, C:0.02, G:0.33, T:0.05
Consensus pattern (37 bp):
AAGATGGAGAGGAAAGAGAAGAAGAAGAAGAAAGACA
Found at i:20676 original size:15 final size:15
Alignment explanation
Indices: 20658--20700 Score: 61
Period size: 15 Copynumber: 2.8 Consensus size: 15
20648 GAAGGTGAAG
20658 AGAAAGAAGAGACAA
1 AGAAAGAAGAGACAA
20673 AG-AAGAAAGAGACAA
1 AGAAAG-AAGAGACAA
20688 AGAAAGATAGAGA
1 AGAAAGA-AGAGA
20701 TAAGAAGGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 3 0.12
15 14 0.56
16 8 0.32
ACGTcount: A:0.65, C:0.05, G:0.28, T:0.02
Consensus pattern (15 bp):
AGAAAGAAGAGACAA
Found at i:20681 original size:210 final size:210
Alignment explanation
Indices: 20254--20716 Score: 452
Period size: 210 Copynumber: 2.2 Consensus size: 210
20244 AAGAGGAGAC
* * * *
20254 GAAGAAAGATGAGAAGAAAGAAAAACATGAGAAGGAGAAGAAGAAAGATAAGAAGGATAAAGAGG
1 GAAGAAAGATAAGAAGAAAGATAAACAAGAGAAGGAGAAGAAGAAAGAAAAGAAGGATAAAGAGG
* * * **
20319 TAGAAGAAGATGACGATGATGAAATAAAAGAGAGGAAGAAAGATAAGAAGAAAGACAAAGAGGAG
66 TAGAAGAAGATGACGATGACGAAATAAAAGAGAGAAAGAAAGAGAAGAAGAAAGACAAAGAAAAG
* *
20384 AAGGAGAAGGAGAAGAAGAAAGAAAATATGAAGGATAAAGAGGAAGAGGTAGAAAAAGATGACGG
131 AAGGAGAAGGAAAAGAAGAAAGAAAATATGAAGGATAAAGAGGAAGAGG-AGAAAAAGATGACAG
* *
20449 TGAAATGAAAGAGAAA
195 AGAAATGAAAGACAAA
*
20465 -AAGAAAGATAAGAAGAAAGATAAACAAGAGAAGGAGAAGAAGAAAGAAAAGGAGGATAATGAGG
1 GAAGAAAGATAAGAAGAAAGATAAACAAGAGAAGGAGAAGAAGAAAGAAAAGAAGG---AT-A--
* * * ** *
20529 AAGAGGTAGATGAAGATGAGGCTGACGAAATTGAAGATG-GAAAGAAAGAGAAGAAG-AAGAAGA
60 AAGAGGTAGAAGAAGATGACGATGACGAAATAAAAGA-GAGAAAGAAAGAGAAGAAGAAAG-ACA
* *
20592 AAGACAAAG-AGGTGAAGGAAAAGAAGAAAG-AAA-A-GAA-GATCAAAGATGG-AGA-G-GAAG
123 AAGA-AAAGAAGGAGAAGGAAAAGAAGAAAGAAAATATGAAGGAT-AAAGA-GGAAGAGGAGAAA
*
20649 AAGGTGA-AGAGAAA-GAAGAGACAAA
185 AAGATGACAGAGAAATGAA-AGACAAA
* * *
20674 GAAGAAAGAGACA-AAGAAAGATAGAGATA-AGAAGGAGAAGAAG
1 GAAGAAAGATA-AGAAGAAAGATAAACA-AGAGAAGGAGAAGAAG
20717 CACAAGGATA
Statistics
Matches: 211, Mismatches: 26, Indels: 31
0.79 0.10 0.12
Matches are distributed among these distances:
208 3 0.01
209 11 0.05
210 94 0.45
211 2 0.01
212 4 0.02
213 13 0.06
214 4 0.02
215 6 0.03
216 71 0.34
217 3 0.01
ACGTcount: A:0.58, C:0.02, G:0.33, T:0.07
Consensus pattern (210 bp):
GAAGAAAGATAAGAAGAAAGATAAACAAGAGAAGGAGAAGAAGAAAGAAAAGAAGGATAAAGAGG
TAGAAGAAGATGACGATGACGAAATAAAAGAGAGAAAGAAAGAGAAGAAGAAAGACAAAGAAAAG
AAGGAGAAGGAAAAGAAGAAAGAAAATATGAAGGATAAAGAGGAAGAGGAGAAAAAGATGACAGA
GAAATGAAAGACAAA
Found at i:20839 original size:27 final size:27
Alignment explanation
Indices: 20809--20861 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
20799 GAAAGGCAAA
* *
20809 GAAGATAAAGATA-AGAAGCACAAGAAC
1 GAAGAAAAAGA-AGAGAAGAACAAGAAC
20836 GAAGAAAAAGAAGAGAAGAACAAGAA
1 GAAGAAAAAGAAGAGAAGAACAAGAA
20862 GAAAGATGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 1 0.04
27 22 0.96
ACGTcount: A:0.64, C:0.08, G:0.25, T:0.04
Consensus pattern (27 bp):
GAAGAAAAAGAAGAGAAGAACAAGAAC
Found at i:26564 original size:20 final size:20
Alignment explanation
Indices: 26527--26563 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
26517 CAAACCTTAA
*
26527 TTTAATATTTTAAATATATT
1 TTTAATATTATAAATATATT
26547 TTTAATA-TAT-AATATAT
1 TTTAATATTATAAATATAT
26564 AAAATTAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 7 0.44
19 2 0.12
20 7 0.44
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (20 bp):
TTTAATATTATAAATATATT
Found at i:27312 original size:7 final size:7
Alignment explanation
Indices: 27293--27334 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
27283 TTATAGGTAA
27293 TAGGG-T
1 TAGGGTT
*
27299 TATGGTT
1 TAGGGTT
27306 TAGGGTT
1 TAGGGTT
27313 TAGGGTT
1 TAGGGTT
**
27320 TAGAATT
1 TAGGGTT
27327 TAGGGTT
1 TAGGGTT
27334 T
1 T
27335 TAAGTTAGGG
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
6 4 0.14
7 25 0.86
ACGTcount: A:0.19, C:0.00, G:0.36, T:0.45
Consensus pattern (7 bp):
TAGGGTT
Found at i:27869 original size:26 final size:27
Alignment explanation
Indices: 27816--27877 Score: 83
Period size: 26 Copynumber: 2.3 Consensus size: 27
27806 TTTTCATAAA
27816 AAATTATTTTCTCTCTTAAAATTATAT
1 AAATTATTTTCTCTCTTAAAATTATAT
*
27843 AAATTATTTT-T-TACTTAAAATTTTAT
1 AAATTATTTTCTCT-CTTAAAATTATAT
27869 AAACTTATT
1 AAA-TTATT
27878 CACTAACATG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
25 1 0.03
26 16 0.50
27 15 0.47
ACGTcount: A:0.39, C:0.08, G:0.00, T:0.53
Consensus pattern (27 bp):
AAATTATTTTCTCTCTTAAAATTATAT
Found at i:27966 original size:2 final size:2
Alignment explanation
Indices: 27961--27987 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
27951 TGTGTGTGTG
27961 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
27988 CGAATGGTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:34664 original size:17 final size:17
Alignment explanation
Indices: 34626--34662 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
34616 TATATTAGTG
34626 AAATATTAAATAAAGTA
1 AAATATTAAATAAAGTA
*
34643 AAATACTTAAATAAATTA
1 AAATA-TTAAATAAAGTA
34661 AA
1 AA
34663 TATAGAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.30
Consensus pattern (17 bp):
AAATATTAAATAAAGTA
Found at i:34900 original size:50 final size:50
Alignment explanation
Indices: 34846--34967 Score: 113
Period size: 51 Copynumber: 2.4 Consensus size: 50
34836 AGATAAATAG
* * *
34846 GTATAGCGCGGAGCAGGGGGCACGCTAT-AGCCACGT-GTAACCCAGTCAGC
1 GTATAGCGCGG-GCAGGGGGCACGCTATAACCCACGTGGT-ACCAAATCAGC
* * ** *
34896 GTATAGTGCGGTGCAAGGGGTGCGCTATAACCCACGTGGTGCCAAATCAGC
1 GTATAGCGCGG-GCAGGGGGCACGCTATAACCCACGTGGTACCAAATCAGC
*
34947 ATATAGCGCGGGTCAGGGGGC
1 GTATAGCGCGGG-CAGGGGGC
34968 GTGCTTTACT
Statistics
Matches: 56, Mismatches: 13, Indels: 5
0.76 0.18 0.07
Matches are distributed among these distances:
50 24 0.43
51 30 0.54
52 2 0.04
ACGTcount: A:0.23, C:0.25, G:0.36, T:0.16
Consensus pattern (50 bp):
GTATAGCGCGGGCAGGGGGCACGCTATAACCCACGTGGTACCAAATCAGC
Found at i:35276 original size:23 final size:23
Alignment explanation
Indices: 35234--35277 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
35224 CGTAATAACA
*
35234 TAATAAGTAGCGCTTATTTAATG
1 TAATAAGTAGCGCATATTTAATG
*
35257 TAATAAGTAGCGCATGTTTAA
1 TAATAAGTAGCGCATATTTAA
35278 AGTTGATGAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.09, G:0.18, T:0.36
Consensus pattern (23 bp):
TAATAAGTAGCGCATATTTAATG
Found at i:35634 original size:131 final size:131
Alignment explanation
Indices: 35358--35835 Score: 647
Period size: 131 Copynumber: 3.7 Consensus size: 131
35348 AATATATTAT
* * * *
35358 CGTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCAAAAATATAAGTGTTGATAC
1 CGTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATAC
* * * * * *
35423 -TTATATGATAA-TATCAATATTTGTACATTTA-CACCTTTTTTCATTATACCGGTAGAAATGTT
66 TTTATAT-ATAAGTATCGATACTTGAACATTTATGA-CTATTTTCATTATACCGGTAGAAACGTT
35485 TAC
129 TAC
* * * * *
35488 CATATACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTTGAAATTATAAGTATTGATAT
1 CGTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATAC
* *
35553 TTTATATAAAAGTATCGATACTTGGACATTTATGACTATTTTCATTATACCGGTAGAAACGTTTA
66 TTTATATATAAGTATCGATACTTGAACATTTATGACTATTTTCATTATACCGGTAGAAACGTTTA
35618 C
131 C
* ** *
35619 CGTGTACATTGTTAATTTACCTATTAATTTAAAGTAATATATTTTGAAATTATAAGTATCGATAC
1 CGTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATAC
* * * * *
35684 ATTGTATGTGAGTATCGATACTTGAACATTTATGCCTATTTTCATTATACCGGTAGAAACGTTTA
66 TTTATATATAAGTATCGATACTTGAACATTTATGACTATTTTCATTATACCGGTAGAAACGTTTA
35749 C
131 C
* *
35750 CGTGTACATTATTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAGATTATAAGTATCGATAC
1 CGTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATAC
**
35815 TTTATATATGTGTATCGATAC
66 TTTATATATAAGTATCGATAC
35836 ATTTTGCGTG
Statistics
Matches: 307, Mismatches: 38, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
130 61 0.20
131 245 0.80
132 1 0.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.42
Consensus pattern (131 bp):
CGTGTACATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTATAAGTATCGATAC
TTTATATATAAGTATCGATACTTGAACATTTATGACTATTTTCATTATACCGGTAGAAACGTTTA
C
Found at i:36347 original size:198 final size:199
Alignment explanation
Indices: 35871--36462 Score: 796
Period size: 199 Copynumber: 3.0 Consensus size: 199
35861 GCATACTGGA
* * * * ** * *
35871 ATAAAAGTATTGATACTTGGTATTTACGCCTATTATCAATATACCGAAATAATTTTACCGTTTAC
1 ATAAAAGTATCGATACATAGTATTTACGCCTATTATCATTATACCGGTAGACTTTTACCGTTTAC
* * * * *
35936 ATTGTTAATTTACCTATTACTTTAAAGTAATAGGTTTCGAAATTCCAAGTATCGATACTTTATAT
66 ATTATTAATTTACATATTACTTTAAAGTAATAGGTTCCAAAATTCCAAGTATCGATACTTTATAC
* * * *
36001 ATGTGTATCGATACATTTTGCGTGCAAATTGTTTGAGAAGCACT-CTGAAATAAAAGTATCCATA
131 ATGTGTACCAATACATTTTGCATACAAATTGTTTGAGAAGCA-TACTGAAATAAAAGTATCCATA
36065 CCTAT
195 CCTAT
* *
36070 ATAAAAGTATCGATACATGGTATTTACGCCTATTATCATTATATCGGTAGACTTTTACCGTTTAC
1 ATAAAAGTATCGATACATAGTATTTACGCCTATTATCATTATACCGGTAGACTTTTACCGTTTAC
* *
36135 ATTATTAATTTACATATTACTTTAAAGTAATAGGTTTCGAAATTCCAAGTATCGATACTTTATAC
66 ATTATTAATTTACATATTACTTTAAAGTAATAGGTTCCAAAATTCCAAGTATCGATACTTTATAC
* * *
36200 AT-T-TACCAATACGTTTTGCATATAAATTGTTTGAGAAGCATACTGAAATAAAAGTATCTATAC
131 ATGTGTACCAATACATTTTGCATACAAATTGTTTGAGAAGCATACTGAAATAAAAGTATCCATAC
36263 CTAT
196 CTAT
* * *
36267 ATAAAGAGTATCGATACTTAGTATTTATGCCTATTATCATTATACCGGTAGATTTTTACCGTTTA
1 ATAAA-AGTATCGATACATAGTATTTACGCCTATTATCATTATACCGGTAGACTTTTACCGTTTA
* * * *
36332 TATTGTTAGTTTACATATTACTTTAAAGTAATAGGTTCCAAAATTTCAAGTATCGATACTTTATA
65 CATTATTAATTTACATATTACTTTAAAGTAATAGGTTCCAAAATTCCAAGTATCGATACTTTATA
* * ** * * *
36397 TATGTGTACCGATACATTTTGTGTGCAAATTGTTTGAGAATCATA-TGGAATAAAAGTATCCATA
130 CATGTGTACCAATACATTTTGCATACAAATTGTTTGAGAAGCATACTGAAATAAAAGTATCCATA
36461 CC
195 CC
36463 AGCATAATAA
Statistics
Matches: 350, Mismatches: 39, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
196 1 0.00
197 60 0.17
198 116 0.33
199 141 0.40
200 32 0.09
ACGTcount: A:0.34, C:0.14, G:0.13, T:0.39
Consensus pattern (199 bp):
ATAAAAGTATCGATACATAGTATTTACGCCTATTATCATTATACCGGTAGACTTTTACCGTTTAC
ATTATTAATTTACATATTACTTTAAAGTAATAGGTTCCAAAATTCCAAGTATCGATACTTTATAC
ATGTGTACCAATACATTTTGCATACAAATTGTTTGAGAAGCATACTGAAATAAAAGTATCCATAC
CTAT
Found at i:36620 original size:21 final size:21
Alignment explanation
Indices: 36584--36632 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
36574 TTTGACAAAT
*
36584 ATAC-TGGAATAAAAGTATCC
1 ATACTTGGTATAAAAGTATCC
*
36604 ATA-TTGGTATAAGAAGTATCT
1 ATACTTGGTATAA-AAGTATCC
36625 ATACTTGG
1 ATACTTGG
36633 ACATTTTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 10 0.42
21 10 0.42
22 4 0.17
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (21 bp):
ATACTTGGTATAAAAGTATCC
Found at i:36638 original size:146 final size:146
Alignment explanation
Indices: 36382--36718 Score: 464
Period size: 146 Copynumber: 2.3 Consensus size: 146
36372 AAATTTCAAG
* * * *
36382 TATCGATACTTT-ATATATGTGTACCGATACATTTTGTGTGCAAATTGTTTGAGAATCATATGGA
1 TATCGATACTTTAATA-ATGTGTATCGATACATTTAGCGTGCAAATTGTTTGAAAATCATATGGA
*
36446 ATAAAAGTATCCATACCAGCATAATAAGTATCAATACTTGGACATTTTCATACTTTGCATACATT
65 ATAAAAGTATCCATACCAGCATAAGAAGTATCAATACTTGGACATTTTCATACTTTGCATACATT
36511 GTTTT-GAAATTATAAA
130 GTTTTCGAAATTATAAA
*
36527 TATTGATACTTTAATAATGTGTATCGATACATTTAGCGTGCAAATTGTTTGACAAAT-ATACTGG
1 TATCGATACTTTAATAATGTGTATCGATACATTTAGCGTGCAAATTGTTTGA-AAATCATA-TGG
*** * *
36591 AATAAAAGTATCCATATTGGTATAAGAAGTATCTATACTTGGACATTTTCATACTTTGCATACAT
64 AATAAAAGTATCCATACCAGCATAAGAAGTATCAATACTTGGACATTTTCATACTTTGCATACAT
* *
36656 TTTTTTCGTAATTATAAA
129 TGTTTTCGAAATTATAAA
* * * * *
36674 TATCAATACTTTAATAATATGTATCAATACATTTGGCATGCAAAT
1 TATCGATACTTTAATAATGTGTATCGATACATTTAGCGTGCAAAT
36719 ATTGATACTT
Statistics
Matches: 169, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
145 47 0.28
146 73 0.43
147 49 0.29
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (146 bp):
TATCGATACTTTAATAATGTGTATCGATACATTTAGCGTGCAAATTGTTTGAAAATCATATGGAA
TAAAAGTATCCATACCAGCATAAGAAGTATCAATACTTGGACATTTTCATACTTTGCATACATTG
TTTTCGAAATTATAAA
Found at i:37555 original size:35 final size:32
Alignment explanation
Indices: 37488--37551 Score: 110
Period size: 32 Copynumber: 2.0 Consensus size: 32
37478 CTTAATATAC
* *
37488 GGCTAAAAAAAGGTGGTACCGGTTTTGTTATT
1 GGCTAAAAAAAAGCGGTACCGGTTTTGTTATT
37520 GGCTAAAAAAAAGCGGTACCGGTTTTGTTATT
1 GGCTAAAAAAAAGCGGTACCGGTTTTGTTATT
37552 ATTGTGCATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.30, C:0.11, G:0.27, T:0.33
Consensus pattern (32 bp):
GGCTAAAAAAAAGCGGTACCGGTTTTGTTATT
Found at i:38091 original size:30 final size:30
Alignment explanation
Indices: 38057--38124 Score: 86
Period size: 30 Copynumber: 2.3 Consensus size: 30
38047 TATATCTATA
*
38057 ATTTTA-TAAATAAAAAATTATGATTATTAT
1 ATTTTATTAAA-AAAAAATTATGATAATTAT
* *
38087 ATTTTATTAAAATAAAATTATTATAATTAT
1 ATTTTATTAAAAAAAAATTATGATAATTAT
38117 A-TTTATTA
1 ATTTTATTA
38125 TTTATTATAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
29 7 0.21
30 23 0.68
31 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (30 bp):
ATTTTATTAAAAAAAAATTATGATAATTAT
Found at i:38126 original size:42 final size:42
Alignment explanation
Indices: 38079--38161 Score: 98
Period size: 42 Copynumber: 2.0 Consensus size: 42
38069 AAAAATTATG
* * *
38079 ATTATTATATTTTATTAA-AATAAAATTATTA-TAATTATATTT
1 ATTATT-TATTATAATAAGAATAAAA-TATCATTAATTATATTT
*
38121 ATTATTTATTATAATAAGAATAATATATCATTAATTATATT
1 ATTATTTATTATAATAAGAATAAAATATCATTAATTATATT
38162 ATAATGAGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
41 13 0.37
42 22 0.63
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (42 bp):
ATTATTTATTATAATAAGAATAAAATATCATTAATTATATTT
Found at i:38129 original size:36 final size:38
Alignment explanation
Indices: 38082--38163 Score: 93
Period size: 38 Copynumber: 2.3 Consensus size: 38
38072 AATTATGATT
*
38082 ATTATA-T-TTTATTAAAATAA-AATTAT-TATAATTA
1 ATTATATTATTTATTAAAATAAGAATAATATATAATTA
* *
38116 TATT-TATTATTTATTATAATAAGAATAATATATCATTA
1 -ATTATATTATTTATTAAAATAAGAATAATATATAATTA
38154 ATTATATTAT
1 ATTATATTAT
38164 AATGAGAGAA
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
34 2 0.05
35 4 0.10
36 12 0.31
37 8 0.21
38 13 0.33
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (38 bp):
ATTATATTATTTATTAAAATAAGAATAATATATAATTA
Found at i:38294 original size:15 final size:16
Alignment explanation
Indices: 38259--38292 Score: 54
Period size: 14 Copynumber: 2.2 Consensus size: 16
38249 TAATAGGTAA
38259 ATTTATAATATAACCG
1 ATTTATAATATAACCG
38275 ATTTA-AATAT-ACCG
1 ATTTATAATATAACCG
38289 ATTT
1 ATTT
38293 TATGAGAGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 5 0.28
16 5 0.28
ACGTcount: A:0.41, C:0.12, G:0.06, T:0.41
Consensus pattern (16 bp):
ATTTATAATATAACCG
Found at i:38654 original size:197 final size:197
Alignment explanation
Indices: 38225--38855 Score: 880
Period size: 197 Copynumber: 3.2 Consensus size: 197
38215 CACATATGTT
* * *
38225 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTATAATATAAC-CGATTTAAATATACCG
1 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGT-ACTCGATATAAATATACCG
* * * * *
38289 ATTTTATGAGAGAATAGGTCAACATAATGTATCGACACAAATTTAA-AAAGTGTCGATACATTTT
65 ATTTTATAAGAAAATAGGTCTACATAATGTATCGACAC-ATTTTAAGTAAGTGTCGATAC-TTTT
* * *
38353 TTTCAGAATGAATGCCAAACGAGGTACACACATAAAGTGTCGATACATTTATTAAAAATATCGAT
128 TTCCAGAATGAATG-C-AACGAGGTGCACACATAAAGTGTCGATACATTTATTAAAAGTATCGAT
38418 CCCAAAA
191 CCCAAAA
38425 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTACTC-AGTATAAATATACC-
1 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTACTCGA-TATAAATATACCG
* **
38488 AGTTTTATAAGAAAATAGGTCTACATAATGTATCGGCACATTTTAAGTTTGTGTCGATACTTTTT
65 A-TTTTATAAGAAAATAGGTCTACATAATGTATCGACACATTTTAAGTAAGTGTCGATACTTTTT
* *
38553 TCCAGAATGAATGCAACGAGGTGCACACATAAAGTATCAATACATTTATTAAAAGTATCGATCCC
129 TCCAGAATGAATGCAACGAGGTGCACACATAAAGTGTCGATACATTTATTAAAAGTATCGATCCC
38618 AAAA
194 AAAA
* * *
38622 ACATCGAAACCAATAATTACAATGTAATAGGTAAATTTACAATGTACTCGATATAAATATATCGG
1 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTACTCGATATAAATATA-CCG
* * * **
38687 TTTTTATAAGAAAATAGGTATACATAATGTATCGACATATTTTAAGTCCGTGTCGATACTTTTTT
65 ATTTTATAAGAAAATAGGTCTACATAATGTATCGACACATTTTAAGTAAGTGTCGATACTTTTTT
* * *
38752 CCAGAATGAAT-AAACGAGGTGCACACATAAAATGTCGATACATTTA--AAATTGTATCGATCCC
130 CCAGAATGAATGCAACGAGGTGCACACATAAAGTGTCGATACATTTATTAAA-AGTATCGATCCC
38814 AAAA
194 AAAA
*
38818 ACATCGAAACCGATAATTATAATGTAATAGATAAATTT
1 ACATCGAAACCGATAATTATAATGTAATAGGTAAATTT
38856 GTAATATTTA
Statistics
Matches: 390, Mismatches: 33, Indels: 20
0.88 0.07 0.05
Matches are distributed among these distances:
195 3 0.01
196 50 0.13
197 139 0.36
198 73 0.19
199 27 0.07
200 98 0.25
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (197 bp):
ACATCGAAACCGATAATTATAATGTAATAGGTAAATTTACAATGTACTCGATATAAATATACCGA
TTTTATAAGAAAATAGGTCTACATAATGTATCGACACATTTTAAGTAAGTGTCGATACTTTTTTC
CAGAATGAATGCAACGAGGTGCACACATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAA
AA
Found at i:38887 original size:24 final size:24
Alignment explanation
Indices: 38868--38917 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
38858 AATATTTATT
38868 TTAA-AAATAATATTATTATTTTG
1 TTAATAAATAATATTATTATTTTG
*
38891 TTAATAACTAATATTATT-TTATTG
1 TTAATAAATAATATTATTATT-TTG
38915 TTA
1 TTA
38918 TCCTCGGTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 6 0.25
24 18 0.75
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (24 bp):
TTAATAAATAATATTATTATTTTG
Found at i:39570 original size:39 final size:39
Alignment explanation
Indices: 39516--39606 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 39
39506 TCCGACCCGA
*
39516 TCGGGTCGGATTTTTTTTAAA-AAAAAATTCGGGTTCGGG
1 TCGGGTCGGGTTTTTTTTAAATAAAAAATTCGGG-TCGGG
** ***
39555 TCGGGTCGGGTTTTTTTTAAATGTACTGTTCGGGTCGGG
1 TCGGGTCGGGTTTTTTTTAAATAAAAAATTCGGGTCGGG
39594 TCGGGTCGGGTTT
1 TCGGGTCGGGTTT
39607 AGGGTGAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 38 0.84
40 7 0.16
ACGTcount: A:0.15, C:0.12, G:0.34, T:0.38
Consensus pattern (39 bp):
TCGGGTCGGGTTTTTTTTAAATAAAAAATTCGGGTCGGG
Found at i:39972 original size:23 final size:23
Alignment explanation
Indices: 39928--39973 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
39918 GCCATCCCTA
*
39928 ATAAGCACTACCTATTACGTTAT
1 ATAAGCACTACCTAATACGTTAT
* * *
39951 ATAAGCGCTACTTAATATGTTAT
1 ATAAGCACTACCTAATACGTTAT
39974 TGTGCTTGAT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (23 bp):
ATAAGCACTACCTAATACGTTAT
Found at i:40036 original size:23 final size:23
Alignment explanation
Indices: 40001--40060 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
39991 CTGGTAATTA
** *
40001 ACCTATTTTATTATATAAGTGTT
1 ACCTATTACATTATATAAGTGAT
40024 ACCTATTACATTATATAAGTGAT
1 ACCTATTACATTATATAAGTGAT
* *
40047 ACCTAATACGTTAT
1 ACCTATTACATTAT
40061 TTTACTTGAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 32 1.00
ACGTcount: A:0.35, C:0.13, G:0.08, T:0.43
Consensus pattern (23 bp):
ACCTATTACATTATATAAGTGAT
Found at i:40087 original size:87 final size:87
Alignment explanation
Indices: 39935--40138 Score: 273
Period size: 87 Copynumber: 2.3 Consensus size: 87
39925 CTAATAAGCA
* * * * * ** *
39935 CTACCTATTACGTTATATAAGCGCTACTTAATATGTTATTGTGCTTGATAATGTTTCTGGTAATT
1 CTACCTATTACATTATATAAGCGCTACCTAATACGTTATTGTACTTGATAATATTTCCAGCAATT
40000 AACCTATTTTATTATATAAGTG
66 AACCTATTTTATTATATAAGTG
* * * *
40022 TTACCTATTACATTATATAAGTGATACCTAATACGTTATTTTACTTGATAATATTTCCAGCAATT
1 CTACCTATTACATTATATAAGCGCTACCTAATACGTTATTGTACTTGATAATATTTCCAGCAATT
*
40087 AGCCTATTTTATTATATAAGTG
66 AACCTATTTTATTATATAAGTG
**
40109 CTACCTATTTTATTATATAAGCGCTACCTA
1 CTACCTATTACATTATATAAGCGCTACCTA
40139 TTTTATTATA
Statistics
Matches: 99, Mismatches: 18, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
87 99 1.00
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.44
Consensus pattern (87 bp):
CTACCTATTACATTATATAAGCGCTACCTAATACGTTATTGTACTTGATAATATTTCCAGCAATT
AACCTATTTTATTATATAAGTG
Found at i:40115 original size:23 final size:23
Alignment explanation
Indices: 40089--40184 Score: 147
Period size: 23 Copynumber: 4.2 Consensus size: 23
40079 CAGCAATTAG
*
40089 CCTATTTTATTATATAAGTGCTA
1 CCTATTTTATTATATAAGCGCTA
40112 CCTATTTTATTATATAAGCGCTA
1 CCTATTTTATTATATAAGCGCTA
* *
40135 CCTATTTTATTATATAAGCGTTT
1 CCTATTTTATTATATAAGCGCTA
**
40158 CCTATTACATTATATAAGCGCTA
1 CCTATTTTATTATATAAGCGCTA
40181 CCTA
1 CCTA
40185 ATATGTTATT
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 66 1.00
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (23 bp):
CCTATTTTATTATATAAGCGCTA
Found at i:40239 original size:133 final size:133
Alignment explanation
Indices: 40001--40280 Score: 380
Period size: 133 Copynumber: 2.1 Consensus size: 133
39991 CTGGTAATTA
* * *
40001 ACCTATTTTATTATATAAGTGTTACCTATTACATTATATAAGTGATACCTAATACGTTATTTTAC
1 ACCTATTTTATTATATAAGCGTTACCTATTACATTATATAAGCGATACCTAATACGTTATTGTAC
* * * * **
40066 TTGATAATATTTCCAGCAATTAGCCTATTTTATTATATAAGTGCTACCTATTTTATTATATAAGC
66 TTGATAATATTTCCAGCAATTAACATATTTTATTATATAAGTGATACATATTACATTATATAAGC
40131 GCT
131 GCT
* * * **
40134 ACCTATTTTATTATATAAGCGTTTCCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGT
1 ACCTATTTTATTATATAAGCGTTACCTATTACATTATATAAGCGATACCTAATACGTTATTGTAC
* * *
40199 TTGATAATGTTTCCTGTAATTAACATATTTTATTATATAAGTGATACATATTACATTATATAAGC
66 TTGATAATATTTCCAGCAATTAACATATTTTATTATATAAGTGATACATATTACATTATATAAGC
*
40264 GGT
131 GCT
* *
40267 ACCTAATATATTAT
1 ACCTATTTTATTAT
40281 TGTGCTTGAT
Statistics
Matches: 127, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
133 127 1.00
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.44
Consensus pattern (133 bp):
ACCTATTTTATTATATAAGCGTTACCTATTACATTATATAAGCGATACCTAATACGTTATTGTAC
TTGATAATATTTCCAGCAATTAACATATTTTATTATATAAGTGATACATATTACATTATATAAGC
GCT
Found at i:40279 original size:23 final size:23
Alignment explanation
Indices: 40229--40280 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
40219 TAACATATTT
* *
40229 TATTATATAAGTGATACATATTA
1 TATTATATAAGCGATACATAATA
* * *
40252 CATTATATAAGCGGTACCTAATA
1 TATTATATAAGCGATACATAATA
40275 TATTAT
1 TATTAT
40281 TGTGCTTGAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (23 bp):
TATTATATAAGCGATACATAATA
Found at i:40283 original size:87 final size:87
Alignment explanation
Indices: 40137--40380 Score: 362
Period size: 87 Copynumber: 2.8 Consensus size: 87
40127 AAGCGCTACC
* * * *
40137 TATTTTATTATATAAGCGTTTCCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGTTTG
1 TATTTTATTATATAAGCGATACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGCTTG
*
40202 ATAATGTTTCCTGTAATTAACA
66 ATAATGTTTCCAGTAATTAACA
* * *
40224 TATTTTATTATATAAGTGATACATATTACATTATATAAGCGGTACCTAATATATTATTGTGCTTG
1 TATTTTATTATATAAGCGATACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGCTTG
*
40289 ATAATGTTTCCAGTAATTAACC
66 ATAATGTTTCCAGTAATTAACA
* * * * *
40311 TATTTTATTATATAAGCGCTACCTATTACATTATGTAAGCGGTATCTAATATGTTATTATACTTG
1 TATTTTATTATATAAGCGATACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGCTTG
40376 ATAAT
66 ATAAT
40381 ATTTTTAATT
Statistics
Matches: 140, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 140 1.00
ACGTcount: A:0.32, C:0.12, G:0.11, T:0.44
Consensus pattern (87 bp):
TATTTTATTATATAAGCGATACCTATTACATTATATAAGCGGTACCTAATATGTTATTGTGCTTG
ATAATGTTTCCAGTAATTAACA
Found at i:40320 original size:220 final size:220
Alignment explanation
Indices: 39938--40351 Score: 641
Period size: 220 Copynumber: 1.9 Consensus size: 220
39928 ATAAGCACTA
* *
39938 CCTATTACGTTATATAAGCGCTACTTAATATGTTATTGTGCTTGATAATGTTTCTGGTAATTAAC
1 CCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCTGGTAATTAAC
* * * * * *
40003 CTATTTTATTATATAAGTGTTACCTATTACATTATATAAGTGATACCTAATACGTTATTTTACTT
66 ATATTTTATTATATAAGTGATACATATTACATTATATAAGCGATACCTAATACATTATTGTACTT
* * **
40068 GATAATATTTCCAGCAATTAGCCTATTTTATTATATAAGTGCTACCTATTTTATTATATAAGCGC
131 GATAATATTTCCAGCAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGC
40133 TACCTATTTTATTATATAAGCGTTT
196 TACCTATTTTATTATATAAGCGTTT
*
40158 CCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGTTTGATAATGTTTCCT-GTAATTAA
1 CCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTT-CTGGTAATTAA
* * *
40222 CATATTTTATTATATAAGTGATACATATTACATTATATAAGCGGTACCTAATATATTATTGTGCT
65 CATATTTTATTATATAAGTGATACATATTACATTATATAAGCGATACCTAATACATTATTGTACT
* * *
40287 TGATAATGTTTCCAGTAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATGTAAGCG
130 TGATAATATTTCCAGCAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCG
40352 GTATCTAATA
Statistics
Matches: 174, Mismatches: 19, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
220 172 0.99
221 2 0.01
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (220 bp):
CCTATTACATTATATAAGCGCTACCTAATATGTTATTGTGCTTGATAATGTTTCTGGTAATTAAC
ATATTTTATTATATAAGTGATACATATTACATTATATAAGCGATACCTAATACATTATTGTACTT
GATAATATTTCCAGCAATTAACCTATTTTATTATATAAGCGCTACCTATTACATTATATAAGCGC
TACCTATTTTATTATATAAGCGTTT
Found at i:40343 original size:23 final size:23
Alignment explanation
Indices: 40308--40351 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
40298 CCAGTAATTA
**
40308 ACCTATTTTATTATATAAGCGCT
1 ACCTATTACATTATATAAGCGCT
*
40331 ACCTATTACATTATGTAAGCG
1 ACCTATTACATTATATAAGCG
40352 GTATCTAATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.18, G:0.11, T:0.39
Consensus pattern (23 bp):
ACCTATTACATTATATAAGCGCT
Found at i:43590 original size:36 final size:35
Alignment explanation
Indices: 43508--43621 Score: 158
Period size: 35 Copynumber: 3.2 Consensus size: 35
43498 AAAACAATCC
*
43508 TCAATTTCATTCTAAACCAC-AAATTCCAAAGTAAT
1 TCAATTTCATTCTAAACC-CTAAATTCCAAAATAAT
43543 TCAATTTCATTCTAAACCCTAAATTCCAAAAATAAT
1 TCAATTTCATTCTAAACCCTAAATTCC-AAAATAAT
* * * *
43579 TCAATTACATTCTAAAACCTAAATTCTAAAATACT
1 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
43614 TCAATTTC
1 TCAATTTC
43622 TGTCTTTTTT
Statistics
Matches: 71, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
34 1 0.01
35 39 0.55
36 31 0.44
ACGTcount: A:0.43, C:0.22, G:0.01, T:0.34
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
Found at i:44723 original size:35 final size:34
Alignment explanation
Indices: 44675--44786 Score: 161
Period size: 35 Copynumber: 3.2 Consensus size: 34
44665 ATTCCTCCTT
*
44675 AAATTGAAATATTTTAGAATTTGGGTTTTAGAATG
1 AAATTGAATTATTTTAGAATTTGGG-TTTAGAATG
* *
44710 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTT-GGGTTTAGAATG
*
44745 AAATTGAATTACTTTAGAATTTGGGGTTTAGAATG
1 AAATTGAATTATTTTAGAATTT-GGGTTTAGAATG
44780 AAATTGA
1 AAATTGA
44787 TGAATGTTTT
Statistics
Matches: 69, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 66 0.96
36 3 0.04
ACGTcount: A:0.36, C:0.01, G:0.21, T:0.42
Consensus pattern (34 bp):
AAATTGAATTATTTTAGAATTTGGGTTTAGAATG
Found at i:51187 original size:25 final size:26
Alignment explanation
Indices: 51152--51224 Score: 76
Period size: 31 Copynumber: 2.7 Consensus size: 26
51142 ACTCCCCCTT
51152 ACTTTAACACTTCTCCCATTTAAAAC
1 ACTTTAACACTTCTCCCATTTAAAAC
*
51178 ACTTAACACTAACACTTCTCGCATTTAAAAC
1 ACTT-----TAACACTTCTCCCATTTAAAAC
*
51209 AC-TTAACAGTTCTCCC
1 ACTTTAACACTTCTCCC
51225 CCTTTTTGTT
Statistics
Matches: 39, Mismatches: 3, Indels: 11
0.74 0.06 0.21
Matches are distributed among these distances:
25 11 0.28
26 4 0.10
30 1 0.03
31 23 0.59
ACGTcount: A:0.34, C:0.32, G:0.03, T:0.32
Consensus pattern (26 bp):
ACTTTAACACTTCTCCCATTTAAAAC
Found at i:51194 original size:31 final size:31
Alignment explanation
Indices: 51156--51216 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
51146 CCCCTTACTT
51156 TAACACTTCTCCCATTTAAAACACTTAACAC
1 TAACACTTCTCCCATTTAAAACACTTAACAC
*
51187 TAACACTTCTCGCATTTAAAACACTTAACA
1 TAACACTTCTCCCATTTAAAACACTTAACA
51217 GTTCTCCCCC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.39, C:0.30, G:0.02, T:0.30
Consensus pattern (31 bp):
TAACACTTCTCCCATTTAAAACACTTAACAC
Found at i:53489 original size:19 final size:20
Alignment explanation
Indices: 53460--53543 Score: 62
Period size: 20 Copynumber: 4.1 Consensus size: 20
53450 ATAACCAGAA
* *
53460 CCCTCAGGGGGTATCGATTC
1 CCCTAAGGGGGAATCGATTC
*
53480 CCCT-AGGGGGAATCGGTTC
1 CCCTAAGGGGGAATCGATTC
* *
53499 CCCTTCAAAGGGGGAATTGGTTC
1 CCC-T--AAGGGGGAATCGATTC
* * *
53522 CCTTATGGGGGTATCGATTC
1 CCCTAAGGGGGAATCGATTC
53542 CC
1 CC
53544 TCTGCACCAA
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
19 16 0.31
20 19 0.37
22 1 0.02
23 16 0.31
ACGTcount: A:0.17, C:0.26, G:0.31, T:0.26
Consensus pattern (20 bp):
CCCTAAGGGGGAATCGATTC
Found at i:57401 original size:22 final size:21
Alignment explanation
Indices: 57359--57398 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
57349 GAGTTTATTT
*
57359 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
57380 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
57399 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:62629 original size:17 final size:17
Alignment explanation
Indices: 62607--62654 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
62597 CTATTGACCT
**
62607 TTGATCGTTGATCGTTA
1 TTGATCGTTGATCGCCA
*
62624 TTGATCGTT-AACTGCCA
1 TTGATCGTTGATC-GCCA
62641 TTGATCGTTGATCG
1 TTGATCGTTGATCG
62655 ATGTTAACTT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.08
17 21 0.84
18 2 0.08
ACGTcount: A:0.19, C:0.17, G:0.23, T:0.42
Consensus pattern (17 bp):
TTGATCGTTGATCGCCA
Found at i:65971 original size:60 final size:59
Alignment explanation
Indices: 65872--66089 Score: 215
Period size: 60 Copynumber: 3.7 Consensus size: 59
65862 CCCATAACAA
* * ** * * *
65872 ACATCAATAAGAACTTACTTTAGACCCCTAGAATCTAGGAGTCTATTATAGAAGATACGT
1 ACATCCATAAGGACTTACCCTAGACCCTTAGGATCTAGGAGTCTATTAT-GAAGATACAT
* * *
65932 ACATCCATAAGGACTTACCCTAGACCCTTAGGATATAGGAGTCCATTATGGATGATACAT
1 ACATCCATAAGGACTTACCCTAGACCCTTAGGATCTAGGAGTCTATTAT-GAAGATACAT
* * * * * *
65992 GCATCCATATGTACTTACTCTAGACCCTTAGGATCTATGAGTCTA-CATGAAAGATACAT
1 ACATCCATAAGGACTTACCCTAGACCCTTAGGATCTAGGAGTCTATTATG-AAGATACAT
* * *
66051 GCATTCATTTA-GACTTACCCTAGACCCTTAGGATCTAGG
1 ACATCCA-TAAGGACTTACCCTAGACCCTTAGGATCTAGG
66090 GGTCCAATAT
Statistics
Matches: 130, Mismatches: 26, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
58 1 0.01
59 41 0.32
60 88 0.68
ACGTcount: A:0.33, C:0.22, G:0.17, T:0.29
Consensus pattern (59 bp):
ACATCCATAAGGACTTACCCTAGACCCTTAGGATCTAGGAGTCTATTATGAAGATACAT
Found at i:68573 original size:23 final size:23
Alignment explanation
Indices: 68547--68624 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
68537 CACCACAGCT
68547 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
* *
68570 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGAAGTGCCA
* *
68593 CATAGAATTGCACCGTAGTGCCA
1 CATATAATTGCACCGAAGTGCCA
*
68616 TATAATAAT
1 CAT-ATAAT
68625 GTCCATAAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 43 0.91
24 4 0.09
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGAAGTGCCA
Found at i:68813 original size:103 final size:103
Alignment explanation
Indices: 68631--68848 Score: 391
Period size: 103 Copynumber: 2.1 Consensus size: 103
68621 TAATGTCCAT
* *
68631 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
68696 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
*
68734 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
68799 GACTTCACATATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
68837 AAGGACCACATA
1 AAGGACCACATA
68849 GACCCTCGAC
Statistics
Matches: 110, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 110 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:73071 original size:28 final size:28
Alignment explanation
Indices: 73031--73128 Score: 124
Period size: 28 Copynumber: 3.4 Consensus size: 28
73021 TATTTTTCAC
* *
73031 CCGACCCGAATATCACACTTTAAAAAAT
1 CCGACCCGAATATCACACTTAAAAAAAA
73059 CCGACCCGAATATCACACTTAAAAAAACCCGA
1 CCGACCCGAATATCACACTTAAAAAAA----A
* *
73091 CCGACCCGAATATCAAACTTAAAAAAAC
1 CCGACCCGAATATCACACTTAAAAAAAA
73119 CCGACCCGAA
1 CCGACCCGAA
73129 CCCGATTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
28 36 0.58
32 26 0.42
ACGTcount: A:0.44, C:0.33, G:0.09, T:0.14
Consensus pattern (28 bp):
CCGACCCGAATATCACACTTAAAAAAAA
Found at i:73100 original size:32 final size:32
Alignment explanation
Indices: 73031--73133 Score: 133
Period size: 32 Copynumber: 3.3 Consensus size: 32
73021 TATTTTTCAC
* *
73031 CCGACCCGAATATCACACTTTAAAAAA----T
1 CCGACCCGAATATCACACTTAAAAAAACCCGA
73059 CCGACCCGAATATCACACTTAAAAAAACCCGA
1 CCGACCCGAATATCACACTTAAAAAAACCCGA
*
73091 CCGACCCGAATATCAAACTTAAAAAAACCCGA
1 CCGACCCGAATATCACACTTAAAAAAACCCGA
73123 CCCGAACCCGA
1 -CCG-ACCCGA
73134 TTTTTTTTAA
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
28 26 0.39
32 31 0.47
33 3 0.05
34 6 0.09
ACGTcount: A:0.43, C:0.34, G:0.10, T:0.14
Consensus pattern (32 bp):
CCGACCCGAATATCACACTTAAAAAAACCCGA
Found at i:73149 original size:34 final size:32
Alignment explanation
Indices: 73111--73293 Score: 177
Period size: 33 Copynumber: 5.4 Consensus size: 32
73101 TATCAAACTT
* *
73111 AAAAAAACCCGACCCGAACCCGATTTTTTTTA
1 AAAAAAATCCGACCCGATCCCGATTTTTTTTA
* *
73143 AAAAAAATCTGACCCGATCCTGAATTTTTTTTTTGA
1 AAAAAAATCCGACCCGATCCCG-A--TTTTTTTT-A
* *
73179 AAAAATATGACCCGACCCGAACCCGAATTTTTTTTA
1 AAAAA-A--ATCCGACCCGATCCCG-ATTTTTTTTA
* **
73215 AAAAAAATCCGTCCCGATCCTAAATTTTTTTTA
1 AAAAAAATCCGACCCGATCC-CGATTTTTTTTA
* * *
73248 AAAAAAATCCGTCCCGATCCTGAATTTTTTTA
1 AAAAAAATCCGACCCGATCCCGATTTTTTTTA
73280 AAAAAAATCCGACC
1 AAAAAAATCCGACC
73294 TGAATACCAA
Statistics
Matches: 126, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
32 40 0.32
33 42 0.33
35 9 0.07
36 12 0.10
37 9 0.07
39 14 0.11
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (32 bp):
AAAAAAATCCGACCCGATCCCGATTTTTTTTA
Found at i:73210 original size:71 final size:65
Alignment explanation
Indices: 73111--73293 Score: 231
Period size: 72 Copynumber: 2.7 Consensus size: 65
73101 TATCAAACTT
* * *
73111 AAAAAAACCCGACCCGAACCCGATTTTTTTTAAAAAAAATCTGACCCGATCCTGAATTTTTTTTT
1 AAAAAAACCCGACCCGAACCCGAATTTTTTTAAAAAAAATCCGACCCGATCCT-AA-ATTTTTTT
73176 TGA
64 T-A
*
73179 AAAAATATGACCCGACCCGAACCCGAATTTTTTTTAAAAAAAATCCGTCCCGATCCTAAATTTTT
1 AAAAA-A--ACCCGACCCGAACCCGAA-TTTTTTTAAAAAAAATCCGACCCGATCCTAAATTTTT
73244 TTTA
62 TTTA
* * * *
73248 AAAAAAATCCGTCCCGATCCTGAATTTTTTTAAAAAAAATCCGACC
1 AAAAAAACCCGACCCGAACCCGAATTTTTTTAAAAAAAATCCGACC
73294 TGAATACCAA
Statistics
Matches: 102, Mismatches: 9, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
65 21 0.21
66 14 0.14
68 6 0.06
69 7 0.07
70 8 0.08
71 19 0.19
72 27 0.26
ACGTcount: A:0.37, C:0.23, G:0.09, T:0.31
Consensus pattern (65 bp):
AAAAAAACCCGACCCGAACCCGAATTTTTTTAAAAAAAATCCGACCCGATCCTAAATTTTTTTTA
Found at i:74232 original size:16 final size:15
Alignment explanation
Indices: 74211--74243 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
74201 TTATTTATAC
74211 AATAAATAATAAAATT
1 AATAAATAA-AAAATT
74227 AATAAATAAAAAATT
1 AATAAATAAAAAATT
74242 AA
1 AA
74244 GAATATTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAAATAAAAAATT
Found at i:79256 original size:13 final size:13
Alignment explanation
Indices: 79240--79277 Score: 69
Period size: 12 Copynumber: 3.0 Consensus size: 13
79230 TATAGTATAA
79240 TTTTTGAAAATAT
1 TTTTTGAAAATAT
79253 TTTTTGAAAATA-
1 TTTTTGAAAATAT
79265 TTTTTGAAAATAT
1 TTTTTGAAAATAT
79278 ATATAATATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.50
13 12 0.50
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (13 bp):
TTTTTGAAAATAT
Found at i:79297 original size:38 final size:36
Alignment explanation
Indices: 79254--79413 Score: 159
Period size: 35 Copynumber: 4.4 Consensus size: 36
79244 TGAAAATATT
*
79254 TTTTGAAAATATTTTTGAAAATATATATAATATATGG
1 TTTTGAAAATATTTTTGAAAA-ATATATAATATATAG
* * *
79291 TCTTTGAAAACATTTTTTAAAAAACAAATATAATATATAG
1 T-TTTGAAAATA-TTTTT-GAAAA-ATATATAATATATAG
* *
79331 TTTT-AAAACA-TTTTGAAAACTATATAATATATAG
1 TTTTGAAAATATTTTTGAAAAATATATAATATATAG
** *
79365 TTTTGAAAATATTTTT-TTAAATATATAATATATGG
1 TTTTGAAAATATTTTTGAAAAATATATAATATATAG
79400 TTTT--AAATATTTTT
1 TTTTGAAAATATTTTT
79414 ATATAGTGTA
Statistics
Matches: 105, Mismatches: 13, Indels: 14
0.80 0.10 0.11
Matches are distributed among these distances:
33 10 0.10
34 17 0.16
35 28 0.27
36 8 0.08
37 1 0.01
38 15 0.14
39 8 0.08
40 18 0.17
ACGTcount: A:0.44, C:0.03, G:0.07, T:0.46
Consensus pattern (36 bp):
TTTTGAAAATATTTTTGAAAAATATATAATATATAG
Found at i:79450 original size:15 final size:15
Alignment explanation
Indices: 79423--79465 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
79413 TATATAGTGT
*
79423 ATATTATTATTATTC
1 ATATTATTTTTATTC
* *
79438 ATTTTATTTTTATTT
1 ATATTATTTTTATTC
79453 ATATT-TTTTTATT
1 ATATTATTTTTATT
79466 TTTCAGGTCC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
14 8 0.33
15 16 0.67
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (15 bp):
ATATTATTTTTATTC
Found at i:80680 original size:27 final size:29
Alignment explanation
Indices: 80635--80707 Score: 75
Period size: 29 Copynumber: 2.7 Consensus size: 29
80625 TTTTCTTTGA
*
80635 TTTA-TTT-TTTAATTTTTATCTA-T-TT
1 TTTACTTTATTTATTTTTTATCTATTGTT
*
80660 TTT-CTTTGATTTATTTTTTATTTATTGTT
1 TTTACTTT-ATTTATTTTTTATCTATTGTT
*
80689 TTTACTTTTTTTATTTTTT
1 TTTACTTTATTTATTTTTT
80708 TATTTTTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
25 6 0.15
27 13 0.33
28 1 0.03
29 15 0.38
30 4 0.10
ACGTcount: A:0.15, C:0.04, G:0.03, T:0.78
Consensus pattern (29 bp):
TTTACTTTATTTATTTTTTATCTATTGTT
Found at i:80699 original size:9 final size:8
Alignment explanation
Indices: 80635--80786 Score: 76
Period size: 9 Copynumber: 17.4 Consensus size: 8
80625 TTTTCTTTGA
80635 TTTATTTT
1 TTTATTTT
*
80643 TTAATTTT
1 TTTATTTT
80651 TATCTATTTT
1 T-T-TATTTT
80661 TTCT-TTGATT
1 TT-TATT--TT
80671 TATT-TTTT
1 T-TTATTTT
80679 ATTTATTGTT
1 -TTTATT-TT
80689 TTTACTTTT
1 TTTA-TTTT
80698 TTTATTTT
1 TTTATTTT
80706 TTTA-TTT
1 TTTATTTT
80713 TTTATTTT
1 TTTATTTT
*
80721 GATTTGTTATT
1 --TTTATT-TT
*
80732 ATTATTATT
1 TTTATT-TT
*
80741 ATTATTATT
1 TTTATT-TT
*
80750 ATTATTATT
1 TTTATT-TT
* *
80759 ATTATGTT
1 TTTATTTT
80767 TTTATTTT
1 TTTATTTT
80775 TTTATTATT
1 TTTATT-TT
80784 TTT
1 TTT
80787 TATCTAACAT
Statistics
Matches: 122, Mismatches: 8, Indels: 27
0.78 0.05 0.17
Matches are distributed among these distances:
7 7 0.06
8 39 0.32
9 52 0.43
10 21 0.17
11 3 0.02
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (8 bp):
TTTATTTT
Found at i:80705 original size:6 final size:6
Alignment explanation
Indices: 80669--80786 Score: 64
Period size: 6 Copynumber: 19.5 Consensus size: 6
80659 TTTTCTTTGA
* *
80669 TTTATTT TTTATT TATTGTT TTTACTT TTT-TT ATT-TT TTTATTT TTTATT
1 TTTA-TT TTTATT T-TTATT TTTA-TT TTTATT TTTATT TTTA-TT TTTATT
* * * * * * * *
80719 TTGATT TGTTATT ATTATT ATTATT ATTATT ATTATT ATTA-T TATGTT
1 TTTATT T-TTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
*
80767 TTTATT TTT-TT ATTATT TTT
1 TTTATT TTTATT TTTATT TTT
80787 TATCTAACAT
Statistics
Matches: 90, Mismatches: 14, Indels: 15
0.76 0.12 0.13
Matches are distributed among these distances:
5 14 0.16
6 52 0.58
7 24 0.27
ACGTcount: A:0.19, C:0.01, G:0.03, T:0.76
Consensus pattern (6 bp):
TTTATT
Found at i:80735 original size:3 final size:3
Alignment explanation
Indices: 80727--80783 Score: 75
Period size: 3 Copynumber: 19.7 Consensus size: 3
80717 TTTTGATTTG
80727 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TGT- TT- TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA
*
80771 TT- TTT TTA TTA TT
1 TTA TTA TTA TTA TT
80784 TTTTATCTAA
Statistics
Matches: 50, Mismatches: 1, Indels: 6
0.88 0.02 0.11
Matches are distributed among these distances:
2 5 0.10
3 44 0.88
4 1 0.02
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (3 bp):
TTA
Found at i:83864 original size:33 final size:34
Alignment explanation
Indices: 83766--83876 Score: 163
Period size: 34 Copynumber: 3.3 Consensus size: 34
83756 TTAAGCACTA
* *
83766 TCATACTAACATTCTAACATTTTTATTTTATTAT
1 TCATACTAACATTCTAACACTTTTATTTTATTGT
83800 TCATACTAACATTCTAACACTTTTATTTTATTGT
1 TCATACTAACATTCTAACACTTTTATTTTATTGT
*
83834 TCATACTAAC-TTGCTAACA-TTTTATCTTATTGT
1 TCATACTAACATT-CTAACACTTTTATTTTATTGT
*
83867 TCAAACTAAC
1 TCATACTAAC
83877 CCGCTAACTT
Statistics
Matches: 72, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
33 24 0.33
34 48 0.67
ACGTcount: A:0.32, C:0.18, G:0.03, T:0.48
Consensus pattern (34 bp):
TCATACTAACATTCTAACACTTTTATTTTATTGT
Found at i:92987 original size:262 final size:258
Alignment explanation
Indices: 92398--93138 Score: 965
Period size: 262 Copynumber: 2.8 Consensus size: 258
92388 AAACAATTTT
*
92398 CAAAGTTTCTTACCTC-GTAAACTATTTCCAAAATTGGTAAGTCCTTTTGGCCATCAGTAAGTCT
1 CAAAGTTTCTTACC-CAGTAAACTATTTCCAAAATTGGTAAGTCCTTTGGGCCATCAGTAAGTCT
* * *
92462 TTCGAGCATGAT-ATTTAAATCATTCGGGTCATCTGTAAGCCTTTCGAGCAAGATGATAAGTCCT
65 TTCGAGCATGATGA-TTAAATCATTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCAT
* ** * ** *
92526 TTGGACCATCTATAAGACCTTCAAGCAGGATGTTTTCACTTGATTTTCGAAAAATGAGAAAGCGA
129 TTGGGCCATCTATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTAAAAAAATAAGAAAGCGA
* * * *
92591 TTTCAAAAGTTTCTCATTTAATATTTTTAGAAAATGAAATTTTTGAAAAGTAAGAAAATGATTTC
194 TTTCAAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATCTTTGAAAAGTAAGAAAACGAATTC
* * * *
92656 CAAAGTTTCTTACCTAGTAAACTATTTCCAAAATTGGTAAGTCCTTTGAGCCATCAGGAAGTATT
1 CAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTGGTAAGTCCTTTGGGCCATCAGTAAGTCTT
* *
92721 TCGAGCATGATGATTAAATCTTTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAACTCATTT
66 TCGAGCATGATGATTAAATCATTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCATTT
*
92786 GGGTCATCTATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTTTAAAAAAAATAAGAAAAGC
131 GGGCCATCTATAAGACCTTCGGGCAGGATGTTTTCACATGA--TTTT-AAAAAAATAAG-AAAGC
92851 -ATTTTTC-AAAGTTTCTCATTTAATATTTTCAGAAAATGAAATCTTTGAAAAGTAAGAAAACGA
192 GA--TTTCAAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATCTTTGAAAAGTAAGAAAACGA
92914 ATTC
255 ATTC
* * * *
92918 CAAAGTTTCTTACCCAATAAACTATTTCCAAAATTGTTAAGTCCTTCGGGCCATCTGTAAGTCTT
1 CAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTGGTAAGTCCTTTGGGCCATCAGTAAGTCTT
* * * * * *
92983 TCGAGCATGATGATTAAATCCTTCGGGTCATCTGTCAATCTTTCGATCAAGACGATAAGTTATTC
66 TCGAGCATGATGATTAAATCATTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCATTT
* * ** * * *
93048 GGGCCATCTATAAGACCCTT-GGGCAAGATGCTTTCATTTGGTATTTGTAAGAGAATGAGAAAGC
131 GGGCCATCTATAAGA-CCTTCGGGCAGGATGTTTTCACAT-G-ATTT-TAAAAAAATAAGAAAGC
93112 GACTTTC-AAAGTTTCTCATTTAA-ATTT
192 GA-TTTCAAAAGTTTCTCATTTAATATTT
93139 AAAAAAAAGA
Statistics
Matches: 424, Mismatches: 46, Indels: 24
0.86 0.09 0.05
Matches are distributed among these distances:
258 153 0.36
259 1 0.00
260 8 0.02
261 34 0.08
262 217 0.51
263 10 0.02
264 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Consensus pattern (258 bp):
CAAAGTTTCTTACCCAGTAAACTATTTCCAAAATTGGTAAGTCCTTTGGGCCATCAGTAAGTCTT
TCGAGCATGATGATTAAATCATTCGGGTCATCTGTCAGTCTTTCGAGCAAGATGATAAGTCATTT
GGGCCATCTATAAGACCTTCGGGCAGGATGTTTTCACATGATTTTAAAAAAATAAGAAAGCGATT
TCAAAAGTTTCTCATTTAATATTTTCAGAAAATGAAATCTTTGAAAAGTAAGAAAACGAATTC
Found at i:95107 original size:34 final size:34
Alignment explanation
Indices: 95068--95247 Score: 238
Period size: 34 Copynumber: 5.3 Consensus size: 34
95058 TTTAACCACT
95068 TTCATACTAACATTCTAACACTTTTATTTTATTG
1 TTCATACTAACATTCTAACACTTTTATTTTATTG
* * * *
95102 TTCATATTAACATTCTAACATTTTTATTCTATCG
1 TTCATACTAACATTCTAACACTTTTATTTTATTG
* * *
95136 TTCATATTAACATTCTAACATTTTTATTTTATTA
1 TTCATACTAACATTCTAACACTTTTATTTTATTG
*
95170 TTCATACTAACATTCTAACACTTTTATTTTTTTG
1 TTCATACTAACATTCTAACACTTTTATTTTATTG
* *
95204 TTAATACTAAC-TTACCAACA-TTTTATTTTATTG
1 TTCATACTAACATT-CTAACACTTTTATTTTATTG
*
95237 TTCAAACTAAC
1 TTCATACTAAC
95248 CCTCTAACTT
Statistics
Matches: 129, Mismatches: 16, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
33 23 0.18
34 106 0.82
ACGTcount: A:0.31, C:0.17, G:0.02, T:0.50
Consensus pattern (34 bp):
TTCATACTAACATTCTAACACTTTTATTTTATTG
Found at i:97576 original size:43 final size:43
Alignment explanation
Indices: 97498--97579 Score: 112
Period size: 43 Copynumber: 1.9 Consensus size: 43
97488 TAAGTTGTTG
* * * *
97498 CTGCCAATGCGGTCCAGCTTTTGTGGTTGTTCGGGCACTATTA
1 CTGCCAATACGATCCAGCTTTTGTGGATGTCCGGGCACTATTA
97541 CTGCCAATACGATCCAG-TTTTGGTGGATGTCCGGGCACT
1 CTGCCAATACGATCCAGCTTTT-GTGGATGTCCGGGCACT
97580 TTCAGATTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
42 4 0.12
43 30 0.88
ACGTcount: A:0.16, C:0.24, G:0.28, T:0.32
Consensus pattern (43 bp):
CTGCCAATACGATCCAGCTTTTGTGGATGTCCGGGCACTATTA
Found at i:99756 original size:22 final size:22
Alignment explanation
Indices: 99721--99771 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 22
99711 CACCGACGTG
99721 CCACATA-TTTGTCC-GAAGGA
1 CCACATAGTTTGTCCTGAAGGA
99741 CCACATAGTTTTGTCCTGAAGGA
1 CCACATAG-TTTGTCCTGAAGGA
99764 CCACATAG
1 CCACATAG
99772 AACCTTTAAC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
20 7 0.25
22 7 0.25
23 14 0.50
ACGTcount: A:0.29, C:0.25, G:0.20, T:0.25
Consensus pattern (22 bp):
CCACATAGTTTGTCCTGAAGGA
Found at i:100340 original size:15 final size:15
Alignment explanation
Indices: 100320--100350 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
100310 GTACTCCCAC
*
100320 TACAGTATCGATACT
1 TACAGTACCGATACT
100335 TACAGTACCGATACT
1 TACAGTACCGATACT
100350 T
1 T
100351 CCCTTCTATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (15 bp):
TACAGTACCGATACT
Found at i:106617 original size:23 final size:22
Alignment explanation
Indices: 106580--106631 Score: 79
Period size: 23 Copynumber: 2.4 Consensus size: 22
106570 CACCAAAGTG
*
106580 CCACATA-TTTTTCCCGAAGGA
1 CCACATAGTTTTTCCCGAAAGA
106601 CCACATAGTTTTTTCCCGAAAGA
1 CCACATAG-TTTTTCCCGAAAGA
106624 CCACATAG
1 CCACATAG
106632 AACCTCGACT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
21 7 0.25
23 21 0.75
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (22 bp):
CCACATAGTTTTTCCCGAAAGA
Found at i:106844 original size:14 final size:14
Alignment explanation
Indices: 106825--106851 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
106815 AGCATCTAAC
106825 ATAGCTTGAATAAT
1 ATAGCTTGAATAAT
106839 ATAGCTTGAATAA
1 ATAGCTTGAATAA
106852 AACATTGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.33
Consensus pattern (14 bp):
ATAGCTTGAATAAT
Found at i:108744 original size:23 final size:20
Alignment explanation
Indices: 108698--108749 Score: 54
Period size: 23 Copynumber: 2.5 Consensus size: 20
108688 CCTAAAATTC
108698 AAATA-AAATAAAAAAAGAT
1 AAATATAAATAAAAAAAGAT
108717 AAATATTAAATAAGAAGAAAGACT
1 AAATA-TAAATAA-AA-AAAGA-T
108741 -AATATAAAT
1 AAATATAAAT
108750 GGAAATGCAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
19 5 0.18
21 6 0.21
22 7 0.25
23 9 0.32
24 1 0.04
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (20 bp):
AAATATAAATAAAAAAAGAT
Found at i:112723 original size:18 final size:19
Alignment explanation
Indices: 112702--112740 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
112692 TTTAAATAGT
112702 AATAAAAATGATTAAA-TA
1 AATAAAAATGATTAAAGTA
* *
112720 AATAAAAGTTATTAAAGTA
1 AATAAAAATGATTAAAGTA
112739 AA
1 AA
112741 AATAAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.64, C:0.00, G:0.08, T:0.28
Consensus pattern (19 bp):
AATAAAAATGATTAAAGTA
Found at i:114132 original size:24 final size:24
Alignment explanation
Indices: 114087--114132 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
114077 TCAACCTACT
* * *
114087 GAGTTAGCCGAGTTAACCCAGACC
1 GAGTCAGCCAAGTCAACCCAGACC
*
114111 GAGTCAGCCAAGTCAACTCAGA
1 GAGTCAGCCAAGTCAACCCAGA
114133 TCGATTCAAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.24, T:0.15
Consensus pattern (24 bp):
GAGTCAGCCAAGTCAACCCAGACC
Found at i:121382 original size:23 final size:23
Alignment explanation
Indices: 121338--121400 Score: 83
Period size: 23 Copynumber: 2.8 Consensus size: 23
121328 TACAGGGCAG
* *
121338 AGGGAATCGATACCCCC-GTGAA
1 AGGGAACCGATTCCCCCTGTGAA
* *
121360 GGGGAACCGATTCCCCCTTTGAA
1 AGGGAACCGATTCCCCCTGTGAA
121383 AGGGAACCGATTCCCCCT
1 AGGGAACCGATTCCCCCT
121401 AGGGGAATCG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
22 14 0.40
23 21 0.60
ACGTcount: A:0.25, C:0.32, G:0.25, T:0.17
Consensus pattern (23 bp):
AGGGAACCGATTCCCCCTGTGAA
Found at i:121423 original size:18 final size:19
Alignment explanation
Indices: 121384--121423 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
121374 CCCTTTGAAA
*
121384 GGGAACCGATTCCCCCTAG
1 GGGAACCGATACCCCCTAG
*
121403 GGGAATCGATACCCCCT-G
1 GGGAACCGATACCCCCTAG
121421 GGG
1 GGG
121424 TTCTGGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.15
Consensus pattern (19 bp):
GGGAACCGATACCCCCTAG
Found at i:125665 original size:31 final size:32
Alignment explanation
Indices: 125598--125671 Score: 80
Period size: 31 Copynumber: 2.3 Consensus size: 32
125588 GTAGGATTTG
* * *
125598 AGGCCCCAAGGTGCTTTCTTGGGTAGGCTCTG
1 AGGCCCCAAGGTGATTTCTTGAGTAGGCTCTA
*
125630 AGGCCCCAAGGT-A-TTCTTTGAGTATGCTCTA
1 AGGCCCCAAGGTGATTTC-TTGAGTAGGCTCTA
*
125661 AGGCCCTAAGG
1 AGGCCCCAAGG
125672 CACTCCCTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 3 0.08
31 21 0.58
32 12 0.33
ACGTcount: A:0.19, C:0.24, G:0.30, T:0.27
Consensus pattern (32 bp):
AGGCCCCAAGGTGATTTCTTGAGTAGGCTCTA
Found at i:127100 original size:28 final size:28
Alignment explanation
Indices: 127081--127148 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
127071 AAATAAGTAT
127081 AAAACAAATAAAATTG-AAAATAAATTCA
1 AAAACAAATAAAATTGAAAAATAAATT-A
127109 AAAACAAATAAAATTG-AAAATAAATTCA
1 AAAACAAATAAAATTGAAAAATAAATT-A
127137 AAAACAAA-AAAA
1 AAAACAAATAAAA
127149 CAAAAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
27 4 0.10
28 36 0.90
ACGTcount: A:0.72, C:0.07, G:0.03, T:0.18
Consensus pattern (28 bp):
AAAACAAATAAAATTGAAAAATAAATTA
Found at i:127156 original size:28 final size:28
Alignment explanation
Indices: 127081--127160 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 28
127071 AAATAAGTAT
***
127081 AAAACAAATAAAATTGAAAATAAATTCA
1 AAAACAAATAAAAAAAAAAATAAATTCA
***
127109 AAAACAAATAAAATTGAAAATAAATTCA
1 AAAACAAATAAAAAAAAAAATAAATTCA
127137 AAAACAAA-AAAACAAAAAAA-AAAT
1 AAAACAAATAAAA-AAAAAAATAAAT
127161 AAATCAAATG
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
27 8 0.17
28 40 0.83
ACGTcount: A:0.74, C:0.07, G:0.03, T:0.16
Consensus pattern (28 bp):
AAAACAAATAAAAAAAAAAATAAATTCA
Found at i:128718 original size:23 final size:23
Alignment explanation
Indices: 128683--128747 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
128673 CGAGGGTTTT
* *
128683 ACGCGGTCATTCGGGACAATTCT
1 ACGCGGTCCTTCGGGACAATTCA
* *
128706 ATGTGGTCCTTCGGGACAATTCA
1 ACGCGGTCCTTCGGGACAATTCA
*
128729 ACGCGATCCTTCGGGACAA
1 ACGCGGTCCTTCGGGACAA
128748 ATCCATATGG
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (23 bp):
ACGCGGTCCTTCGGGACAATTCA
Found at i:137337 original size:2 final size:2
Alignment explanation
Indices: 137330--137354 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
137320 ATGTTTTCTT
137330 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
137355 GTTATTAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:137513 original size:81 final size:81
Alignment explanation
Indices: 137417--138235 Score: 1164
Period size: 81 Copynumber: 10.2 Consensus size: 81
137407 ATTTTAAATA
* * * * *
137417 AAAGATTAATTGCCTAGTTGT-CAATTTGATAGAAATGTGTCAATTATGCTAGTTAGATGAAAGG
1 AAAGATTAAATGCCTAGTTGTGC-ATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGG
* * *
137481 TTAAATACCTTTGAGTA
65 CTAAATGCCTTTGAGTT
* *
137498 AAAGATTAATTGCCTAGTTGTGCATTTTG-CAGAAAGGTTTCAATCATGCCAGTTAGATGAAAGG
1 AAAGATTAAATGCCTAGTTGTGCA-TTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGG
137562 CTAAATGCCTTTGAGTT
65 CTAAATGCCTTTGAGTT
* * ** * *
137579 AAAGATTAATTGCCTAGCTGTGCATTTGGTAGAAAAGTGTTAATCATGCCAG-T--ATGAAAGGC
1 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
* *
137641 TAAATGCATTTGAATT
66 TAAATGCCTTTGAGTT
* * *
137657 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGATGTCAATCATGACAGTTAGATGAAAGTC
1 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
137722 TAAATGCCTTTGAGTT
66 TAAATGCCTTTGAGTT
* *
137738 AAAGATTAAATGCCTAGTTGTGCATTTGATAGAAAGGTGTCAATCATGTCAGTTAGATGAAAGGC
1 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
137803 TAAATGCCTTTGAGTT
66 TAAATGCCTTTGAGTT
* * *
137819 AAAGATTAAATGCCTAGTTGTGCATTTGACATAAATGTGTTAATCATGCCAGTTAGATGAAAGGC
1 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
137884 TAAATGCCTTTGAGTT
66 TAAATGCCTTTGAGTT
* * *
137900 AAAGATTAAATGCCTAGTTGTGCATTTGATAGAAAGGTGTCAATCATGTCAGTTAAATGAAAGGC
1 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
*
137965 TAAATGCGTTTGAGTT
66 TAAATGCCTTTGAGTT
* * * * * *
137981 AAAGATTAAATGCCTAGGTGTGTATTTAACAGAAAGGTGTAAATCATGTCAGTTAGATGAAATGC
1 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
138046 TAAATGCCTTTGAGTT
66 TAAATGCCTTTGAGTT
** *
138062 AAAGATTAAATGCCTAACTGTGCATTTGACAGAAAAGTGTCAATCATGCCAGTTAGATGAAAGGC
1 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
138127 TAAAT-CCTTTGAGTT
66 TAAATGCCTTTGAGTT
* * *
138142 AAAGATTAAATGCCTTGTTGTGCATTTGGCAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGGC
1 AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
* * *
138207 TAAATACCTTTGGGTA
66 TAAATGCCTTTGAGTT
*
138223 AAAGAGTAAATGC
1 AAAGATTAAATGC
138236 ATAACGGTGC
Statistics
Matches: 664, Mismatches: 67, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
78 67 0.10
79 1 0.00
80 79 0.12
81 512 0.77
82 5 0.01
ACGTcount: A:0.35, C:0.12, G:0.22, T:0.32
Consensus pattern (81 bp):
AAAGATTAAATGCCTAGTTGTGCATTTGACAGAAAGGTGTCAATCATGCCAGTTAGATGAAAGGC
TAAATGCCTTTGAGTT
Found at i:138302 original size:46 final size:46
Alignment explanation
Indices: 138230--138382 Score: 189
Period size: 46 Copynumber: 3.3 Consensus size: 46
138220 GTAAAAGAGT
* * * *
138230 AAATGCATAACGGTGCATTATCGGCATGAAAGGATGCCATAAATGA
1 AAATACATAACGGTACATTATAGGCATGAAAGGATGCCATCAATGA
* *
138276 AAATGCATAATGGTACATTATAGGCATGAAAGGATGCCATCAATGA
1 AAATACATAACGGTACATTATAGGCATGAAAGGATGCCATCAATGA
* * * * * *
138322 AAATACTTAACGGTGCATAATTGGCATGAAATGATGCCACCAATGA
1 AAATACATAACGGTACATTATAGGCATGAAAGGATGCCATCAATGA
*
138368 AAATACATAATGGTA
1 AAATACATAACGGTA
138383 TATTTACGGC
Statistics
Matches: 92, Mismatches: 15, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 92 1.00
ACGTcount: A:0.41, C:0.14, G:0.21, T:0.24
Consensus pattern (46 bp):
AAATACATAACGGTACATTATAGGCATGAAAGGATGCCATCAATGA
Found at i:139689 original size:23 final size:23
Alignment explanation
Indices: 139621--139683 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
139611 GTAGTGCTTT
139621 GGGACAATTCTATGTGGTCCTTC
1 GGGACAATTCTATGTGGTCCTTC
* *
139644 GGGACAATTCTACGCGGTCCTTC
1 GGGACAATTCTATGTGGTCCTTC
*
139667 GGGACAAATCTATGTGG
1 GGGACAATTCTATGTGG
139684 CACTTCCATG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.29
Consensus pattern (23 bp):
GGGACAATTCTATGTGGTCCTTC
Found at i:139702 original size:24 final size:24
Alignment explanation
Indices: 139671--139733 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 24
139661 TCCTTCGGGA
*
139671 CAAA-TCTATGTGGCACTTCCATG
1 CAAATTCTACGTGGCACTTCCATG
* **
139694 CATATTCTACGTGGCACTTTGATG
1 CAAATTCTACGTGGCACTTCCATG
*
139718 CAAATTCTACGCGGCA
1 CAAATTCTACGTGGCA
139734 GTTTCGACTG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
23 3 0.09
24 30 0.91
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.30
Consensus pattern (24 bp):
CAAATTCTACGTGGCACTTCCATG
Found at i:141726 original size:15 final size:15
Alignment explanation
Indices: 141706--141735 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
141696 AAACTTTAAC
141706 TACTTAACAATTCAT
1 TACTTAACAATTCAT
141721 TACTTAACAATTCAT
1 TACTTAACAATTCAT
141736 GAACATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (15 bp):
TACTTAACAATTCAT
Found at i:142112 original size:23 final size:23
Alignment explanation
Indices: 142085--142175 Score: 105
Period size: 23 Copynumber: 4.0 Consensus size: 23
142075 TTCCATATAG
**
142085 AATGTCCCGAATGACTGCGTAGA
1 AATGTCCCGAATGACCACGTAGA
*
142108 AATGTCCCGAAGGACCACGTAGA
1 AATGTCCCGAATGACCACGTAGA
* *
142131 ATTGTCCCGAATGACCAC--ATA
1 AATGTCCCGAATGACCACGTAGA
* *
142152 TATGTCCCGAAGGACCACGTAGA
1 AATGTCCCGAATGACCACGTAGA
142175 A
1 A
142176 CCCTTAACTC
Statistics
Matches: 55, Mismatches: 11, Indels: 4
0.79 0.16 0.06
Matches are distributed among these distances:
21 17 0.31
23 38 0.69
ACGTcount: A:0.33, C:0.25, G:0.23, T:0.19
Consensus pattern (23 bp):
AATGTCCCGAATGACCACGTAGA
Found at i:157394 original size:17 final size:16
Alignment explanation
Indices: 157363--157401 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
157353 TAGGGTTTCG
157363 ATGGTGATGGGTGATA
1 ATGGTGATGGGTGATA
* *
157379 ATGGTGATTTGGTGATG
1 ATGGTGA-TGGGTGATA
157396 ATGGTG
1 ATGGTG
157402 GAGTTGTGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 7 0.35
17 13 0.65
ACGTcount: A:0.21, C:0.00, G:0.44, T:0.36
Consensus pattern (16 bp):
ATGGTGATGGGTGATA
Done.