Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008745.1 Hibiscus syriacus cultivar Beakdansim tig00111834_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: 1915556
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:736 original size:31 final size:32
Alignment explanation
Indices: 701--769 Score: 95
Period size: 31 Copynumber: 2.2 Consensus size: 32
691 GGGTGACCAC
* *
701 ATCTTAATTAAATGAAAAT-GAAAATGAACAT
1 ATCTTAATTAAATAAAAATAAAAAATGAACAT
* *
732 ATCTTAATTAAATAAAAATAAAAAATTATCAT
1 ATCTTAATTAAATAAAAATAAAAAATGAACAT
764 ATCTTA
1 ATCTTA
770 TGTATTTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
31 18 0.55
32 15 0.45
ACGTcount: A:0.55, C:0.07, G:0.04, T:0.33
Consensus pattern (32 bp):
ATCTTAATTAAATAAAAATAAAAAATGAACAT
Found at i:3869 original size:20 final size:20
Alignment explanation
Indices: 3840--3879 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
3830 GAACCGGCTG
*
3840 AAAACCGGAAAAAATCAGGA
1 AAAACCGGAAAAAACCAGGA
*
3860 AAAACTGGAAAAAACCAGGA
1 AAAACCGGAAAAAACCAGGA
3880 TTTTTGTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.60, C:0.15, G:0.20, T:0.05
Consensus pattern (20 bp):
AAAACCGGAAAAAACCAGGA
Found at i:4577 original size:22 final size:21
Alignment explanation
Indices: 4552--4592 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
4542 TATAAAAAAT
4552 TATTTTTATTAAATATTTTTTG
1 TATTTTTATTAAAT-TTTTTTG
*
4574 TATTTTTATTTAATTTTTT
1 TATTTTTATTAAATTTTTT
4593 AAATAATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (21 bp):
TATTTTTATTAAATTTTTTTG
Found at i:7186 original size:16 final size:17
Alignment explanation
Indices: 7136--7187 Score: 58
Period size: 16 Copynumber: 3.2 Consensus size: 17
7126 ATAAAAAATA
7136 AATTTGAAAGTTAGAGT
1 AATTTGAAAGTTAGAGT
*
7153 GA-TT-AAA-TTAAGAGT
1 AATTTGAAAGTT-AGAGT
7168 AATTTGAAAGTTA-AGT
1 AATTTGAAAGTTAGAGT
7184 AATT
1 AATT
7188 AAATTAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
14 2 0.07
15 9 0.31
16 11 0.38
17 5 0.17
18 2 0.07
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.37
Consensus pattern (17 bp):
AATTTGAAAGTTAGAGT
Found at i:8367 original size:14 final size:14
Alignment explanation
Indices: 8350--8376 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8340 AACGGACATA
8350 AACGAACGTAAACG
1 AACGAACGTAAACG
8364 AACGAACGTAAAC
1 AACGAACGTAAAC
8377 AAACAAATAA
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:0.52, C:0.22, G:0.19, T:0.07
Consensus pattern (14 bp):
AACGAACGTAAACG
Found at i:29478 original size:23 final size:23
Alignment explanation
Indices: 29447--29504 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
29437 TAGGCTACCA
* * *
29447 AAAGGCAGAGAAAAATATGTCAC
1 AAAGACAGAGAAAAACATATCAC
* *
29470 AAAGTCAGAGATAAACATATCAC
1 AAAGACAGAGAAAAACATATCAC
29493 AAAGACAGAGAA
1 AAAGACAGAGAA
29505 CATGTCACAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.55, C:0.14, G:0.19, T:0.12
Consensus pattern (23 bp):
AAAGACAGAGAAAAACATATCAC
Found at i:29512 original size:20 final size:21
Alignment explanation
Indices: 29463--29515 Score: 63
Period size: 23 Copynumber: 2.5 Consensus size: 21
29453 AGAGAAAAAT
*
29463 ATGTCACAAAGTCAGAGATAAAC
1 ATGTCACAAAGACAGAG--AAAC
*
29486 ATATCACAAAGACAGAG-AAC
1 ATGTCACAAAGACAGAGAAAC
29506 ATGTCACAAA
1 ATGTCACAAA
29516 TACATAATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 12 0.44
23 15 0.56
ACGTcount: A:0.51, C:0.19, G:0.15, T:0.15
Consensus pattern (21 bp):
ATGTCACAAAGACAGAGAAAC
Found at i:37939 original size:24 final size:24
Alignment explanation
Indices: 37907--37956 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
37897 TGGAAAGATG
37907 AATTTATAAAAATTTAAAATAAAT
1 AATTTATAAAAATTTAAAATAAAT
* *
37931 AATTTATAATATTTTAAAATAAAT
1 AATTTATAAAAATTTAAAATAAAT
37955 AA
1 AA
37957 ATAAAAATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
AATTTATAAAAATTTAAAATAAAT
Found at i:41749 original size:57 final size:57
Alignment explanation
Indices: 41688--41826 Score: 212
Period size: 57 Copynumber: 2.4 Consensus size: 57
41678 TGCTGGAACT
*
41688 AAATACTACCTATTTTC-AATAATTGCAATAAAATATTAAGTATAGAA-TTGACCAATC
1 AAATACTACCTATTTTCAAATAATTGCAAT--AATATTAAGGATAGAATTTGACCAATC
41745 AAATACTACCTATTTTCAAAATAATTGCAATAATATTAAGGATAGAATTTGACCAATC
1 AAATACTACCTATTTTC-AAATAATTGCAATAATATTAAGGATAGAATTTGACCAATC
*
41803 AAATACTACCTATTTT-AAAAAATT
1 AAATACTACCTATTTTCAAATAATT
41827 ATACTAATTG
Statistics
Matches: 77, Mismatches: 2, Indels: 7
0.90 0.02 0.08
Matches are distributed among these distances:
56 7 0.09
57 32 0.42
58 26 0.34
59 12 0.16
ACGTcount: A:0.46, C:0.14, G:0.06, T:0.34
Consensus pattern (57 bp):
AAATACTACCTATTTTCAAATAATTGCAATAATATTAAGGATAGAATTTGACCAATC
Found at i:46589 original size:39 final size:36
Alignment explanation
Indices: 46506--46620 Score: 117
Period size: 39 Copynumber: 3.1 Consensus size: 36
46496 AAATACAAAT
46506 ATTATGATT-ATTATCTTATTAAAATAAATTATTATAA
1 ATTAT-ATTAATTAT-TTATTAAAATAAATTATTATAA
*
46543 ATTATATTAATTATTTATTAAAATAAAAATATATTATTA
1 ATTATATTAATTATTTATTAAAAT--AAAT-TATTATAA
* * *
46582 ATTATATTAGTCACTTATTAAAAGTAATATTATTA-AA
1 ATTATATTAATTATTTATTAAAA-TAA-ATTATTATAA
46619 AT
1 AT
46621 ATTAAAATTA
Statistics
Matches: 67, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
36 13 0.19
37 13 0.19
38 11 0.16
39 29 0.43
40 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.03, T:0.47
Consensus pattern (36 bp):
ATTATATTAATTATTTATTAAAATAAATTATTATAA
Found at i:46707 original size:23 final size:24
Alignment explanation
Indices: 46668--46723 Score: 82
Period size: 23 Copynumber: 2.4 Consensus size: 24
46658 TTTTAAAGAG
46668 TATTAA-ATATTGATATATTATAA
1 TATTAATATATTGATATATTATAA
46691 -ATATAATATATT-ATATATTATAA
1 TAT-TAATATATTGATATATTATAA
46714 TATTAATATA
1 TATTAATATA
46724 ATTAAAAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
22 2 0.07
23 21 0.70
24 7 0.23
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
TATTAATATATTGATATATTATAA
Found at i:46709 original size:31 final size:28
Alignment explanation
Indices: 46668--46725 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
46658 TTTTAAAGAG
46668 TATTAAATATTGATATATTATAAATATAATA
1 TATTAAATATT-ATA-A-TATAAATATAATA
* *
46699 TATTATATATTATAATATTAATATAAT
1 TATTAAATATTATAATATAAATATAAT
46726 TAAAAATTGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 11 0.44
29 1 0.04
30 3 0.12
31 10 0.40
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (28 bp):
TATTAAATATTATAATATAAATATAATA
Found at i:50461 original size:21 final size:21
Alignment explanation
Indices: 50435--50477 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
50425 ATGTTAAAAG
50435 ATTGAGAGTTATCTTTGAACA
1 ATTGAGAGTTATCTTTGAACA
50456 ATTGAGAGTTATCTTTGAACA
1 ATTGAGAGTTATCTTTGAACA
50477 A
1 A
50478 ATACTCTCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (21 bp):
ATTGAGAGTTATCTTTGAACA
Found at i:60813 original size:19 final size:19
Alignment explanation
Indices: 60789--60827 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
60779 TCGAATGCAT
60789 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
60808 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
60827 T
1 T
60828 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:60952 original size:64 final size:65
Alignment explanation
Indices: 60775--60937 Score: 224
Period size: 65 Copynumber: 2.5 Consensus size: 65
60765 GAATTAATTG
* * *
60775 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCTGAATATTTTCAA
* ** *
60840 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CATG-CTATTTTTC
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTC-TGAATA-TTTTC
60903 -A
64 AA
60904 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
60938 TGGTGCACCG
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 35 0.41
65 51 0.59
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCTGAATATTTTCAA
Found at i:66759 original size:44 final size:44
Alignment explanation
Indices: 66702--66804 Score: 111
Period size: 44 Copynumber: 2.3 Consensus size: 44
66692 TTTTGTGCTT
* * * *
66702 TATGCACCGATGCATTTAACA-ATGCATCGATGCATCCCTTTGAA
1 TATGCATCGATGCATTCAACAGATGCACCGATGCATACC-TTGAA
* * *
66746 TGTGTATCGATGCA-TCACCATGATGCACCGATGCATACCTTGAA
1 TATGCATCGATGCATTCAACA-GATGCACCGATGCATACCTTGAA
66790 TATGCATCGATGCAT
1 TATGCATCGATGCAT
66805 GAGGCCATGC
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
43 4 0.09
44 28 0.60
45 15 0.32
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.29
Consensus pattern (44 bp):
TATGCATCGATGCATTCAACAGATGCACCGATGCATACCTTGAA
Found at i:68355 original size:19 final size:19
Alignment explanation
Indices: 68331--68369 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
68321 TCGAATGCAT
68331 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
68350 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
68369 T
1 T
68370 GAATATTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:68494 original size:64 final size:65
Alignment explanation
Indices: 68317--68479 Score: 224
Period size: 65 Copynumber: 2.5 Consensus size: 65
68307 GAATTAATTG
* * *
68317 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCTGAATATTTTCAA
* ** *
68382 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CATG-CTATTTTTC
1 AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTC-TGAATA-TTTTC
68445 -A
64 AA
68446 AACATCGAATGCATTTCATGCATCGATGCACACT
1 AACATCGAATGCATTTCATGCATCGATGCACACT
68480 TGGTGCACCG
Statistics
Matches: 86, Mismatches: 10, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
64 35 0.41
65 51 0.59
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACACTCCATGCATCGATGCACTCTGAATATTTTCAA
Found at i:71201 original size:20 final size:20
Alignment explanation
Indices: 71107--71475 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
71097 GATTTTCCAT
* ** *
71107 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
71127 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
71147 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
71167 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
71187 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
71207 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
71227 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
71247 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
71267 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
71287 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
71307 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
71327 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
71347 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
71367 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
71387 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
71407 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
71427 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
71447 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
71467 AATCACAAC
1 AATCGCAAC
71476 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:72188 original size:24 final size:24
Alignment explanation
Indices: 72149--72195 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
72139 AAATTTGGTC
72149 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
72173 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
72196 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:74718 original size:19 final size:19
Alignment explanation
Indices: 74696--75018 Score: 378
Period size: 19 Copynumber: 18.4 Consensus size: 19
74686 CGGAAAATAC
*
74696 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
74715 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
74729 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
74749 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
74763 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
74782 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
74801 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
74815 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
74834 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
74852 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
74866 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
*
74884 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
*
74903 AATCGCAATACGAAATGAA
1 AATCGCAATGCGAAATGAA
74922 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
74941 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
74960 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
74974 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
74992 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
75011 AATCGCAA
1 AATCGCAA
75019 CGAGATAATC
Statistics
Matches: 264, Mismatches: 12, Indels: 56
0.80 0.04 0.17
Matches are distributed among these distances:
13 1 0.00
14 49 0.19
15 2 0.01
16 15 0.06
17 10 0.04
18 46 0.17
19 128 0.48
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:74876 original size:51 final size:52
Alignment explanation
Indices: 74724--75040 Score: 523
Period size: 51 Copynumber: 6.0 Consensus size: 52
74714 AAATCCCAAC
74724 ATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
74777 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
74829 ATGAAAATCGCAATGCGAAATG-AAATCGCAACGAGAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
* *
74880 ATG-AAATCGCAATGCGAAATTAAAATCGCAATACGAAATGAAAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGC-A-ACG--A-GAGAATCGCAATGCGAA
*
74936 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAGAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
*
74988 ATG-AAATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAA
1 ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
75039 AT
1 AT
75041 TATAAACGCA
Statistics
Matches: 250, Mismatches: 7, Indels: 16
0.92 0.03 0.06
Matches are distributed among these distances:
50 17 0.07
51 87 0.35
52 77 0.31
53 20 0.08
55 4 0.02
56 20 0.08
57 25 0.10
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.15
Consensus pattern (52 bp):
ATGAAAATCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAA
Found at i:75156 original size:19 final size:19
Alignment explanation
Indices: 75047--75148 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
75037 AAATTATAAA
75047 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
75066 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
75086 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
75102 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
75119 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
75138 CGCATTGCGAT
1 CGCATTGCGAT
75149 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:75274 original size:14 final size:14
Alignment explanation
Indices: 75255--75291 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
75245 CATCAATTAC
75255 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
75269 ACAAATCATCTTTT
1 ACAAATCAACTTTT
75283 ACAAATCAA
1 ACAAATCAA
75292 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:75319 original size:37 final size:37
Alignment explanation
Indices: 75272--75342 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
75262 AACTTTTACA
*
75272 AATCATCTTTTACAAATCAATTAAACAATCAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAATTG
75309 AATCAACTTTTACAAATCAATTAAACAATCAAAA
1 AATCAACTTTTACAAATCAATTAAACAATCAAAA
75343 AACAATCAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.52, C:0.17, G:0.01, T:0.30
Consensus pattern (37 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAATTG
Found at i:75350 original size:37 final size:37
Alignment explanation
Indices: 75272--75351 Score: 124
Period size: 37 Copynumber: 2.2 Consensus size: 37
75262 AACTTTTACA
* ***
75272 AATCATCTTTTACAAATCAATTAAACAATCAAAATTG
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
75309 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
1 AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
75346 AATCAA
1 AATCAA
75352 TTAAACTATT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.54, C:0.17, G:0.01, T:0.28
Consensus pattern (37 bp):
AATCAACTTTTACAAATCAATTAAACAATCAAAAAAC
Found at i:77199 original size:19 final size:19
Alignment explanation
Indices: 77159--77293 Score: 137
Period size: 19 Copynumber: 7.6 Consensus size: 19
77149 TAGTTTACTT
* *
77159 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
77179 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
77198 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
77217 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
77231 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
77250 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
77264 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
77283 TCGCAATGCGA
1 TCGCAACGCGA
77294 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:77234 original size:14 final size:14
Alignment explanation
Indices: 77215--77271 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
77205 GCGAAATGAA
*
77215 AATCGCAACGACAG
1 AATCGCAACGAAAG
77229 AATCGCAACGCGAAATG
1 AATCGCAA--CGAAA-G
77246 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
77262 AATCGCAACG
1 AATCGCAACG
77272 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.25, G:0.21, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:77238 original size:33 final size:33
Alignment explanation
Indices: 77196--77288 Score: 177
Period size: 33 Copynumber: 2.8 Consensus size: 33
77186 GCGAAACCAA
*
77196 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
77229 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
77262 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
77289 TGCGATTTTG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 59 1.00
ACGTcount: A:0.47, C:0.23, G:0.20, T:0.10
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:77285 original size:52 final size:54
Alignment explanation
Indices: 77159--77293 Score: 131
Period size: 52 Copynumber: 2.5 Consensus size: 54
77149 TAGTTTACTT
*
77159 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAATGAAAA
1 TCGCAAC-CGAAA-TGAAAATCGCAACGCGAAACCAAAATCGCAAC-CGAAATG-AAA
* **
77217 TCGCAA-CGACA-G--AATCGCAACGCGAAATGAAAATCGCAA-CGAAA-G-AA
1 TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
*
77264 TCGCAACGCGAAATGAAAATCGCAATGCGA
1 TCGCAAC-CGAAATGAAAATCGCAACGCGA
77294 TTTTGGTTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
47 8 0.12
49 5 0.08
50 6 0.09
52 37 0.56
56 4 0.06
58 6 0.09
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.10
Consensus pattern (54 bp):
TCGCAACCGAAATGAAAATCGCAACGCGAAACCAAAATCGCAACCGAAATGAAA
Found at i:77311 original size:19 final size:19
Alignment explanation
Indices: 77289--77417 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
77279 AAAATCGCAA
77289 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
77308 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
77322 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
77341 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
77355 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
77374 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
77393 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
77413 TGCGA
1 TGCGA
77418 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:77331 original size:33 final size:33
Alignment explanation
Indices: 77289--77380 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
77279 AAAATCGCAA
77289 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
77322 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
77355 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
77381 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:77620 original size:93 final size:93
Alignment explanation
Indices: 77461--77840 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
77451 TTGAATGGAT
77461 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
77526 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
77554 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
77619 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
77647 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
77711 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
77739 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
77804 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
77832 AAATTTACT
1 AAATTTACT
77841 AAGCAATCTA
Statistics
Matches: 285, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 92 0.32
93 193 0.68
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:77774 original size:185 final size:186
Alignment explanation
Indices: 77461--77840 Score: 744
Period size: 185 Copynumber: 2.0 Consensus size: 186
77451 TTGAATGGAT
77461 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
77526 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
77591 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
77647 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
77711 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
77776 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAT
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
77832 AAATTTACT
1 AAATTTACT
77841 AAGCAATCTA
Statistics
Matches: 193, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
185 154 0.80
186 39 0.20
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:79564 original size:14 final size:14
Alignment explanation
Indices: 79545--79633 Score: 88
Period size: 14 Copynumber: 5.7 Consensus size: 14
79535 TTGAAATGAA
79545 AATCGCAACGAGAG
1 AATCGCAACGAGAG
79559 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
79576 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
79592 AATCGCAACGCGAATGAA
1 AATCGCAA--CG-A-GAG
79610 AATCGCAACGAGAG
1 AATCGCAACGAGAG
79624 AATCGCAACG
1 AATCGCAACG
79634 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 18
0.76 0.02 0.21
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 10 0.16
17 7 0.11
18 10 0.16
19 8 0.12
ACGTcount: A:0.42, C:0.24, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:79582 original size:33 final size:32
Alignment explanation
Indices: 79539--79650 Score: 197
Period size: 33 Copynumber: 3.4 Consensus size: 32
79529 TTTTGGTTGA
79539 AATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AATGAAAATCGCAACGAGAGAATCGCAACGCG
*
79571 AGATGACAATCGCAACGAGAGAATCGCAACGCG
1 A-ATGAAAATCGCAACGAGAGAATCGCAACGCG
79604 AATGAAAATCGCAACGAGAGAATCGCAACGCG
1 AATGAAAATCGCAACGAGAGAATCGCAACGCG
79636 AAATGAAAATCGCAA
1 -AATGAAAATCGCAA
79651 TGCGATTTTG
Statistics
Matches: 76, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
32 31 0.41
33 45 0.59
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (32 bp):
AATGAAAATCGCAACGAGAGAATCGCAACGCG
Found at i:79686 original size:14 final size:14
Alignment explanation
Indices: 79667--79721 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
79657 TTTGGTTTCG
79667 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
79681 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
79700 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
79714 CGTTGCGA
1 CGTTGCGA
79722 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:79884 original size:33 final size:33
Alignment explanation
Indices: 79842--79912 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
79832 AATACTAACT
*
79842 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
79875 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
79908 TGAAA
1 TGAAA
79913 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:80145 original size:22 final size:22
Alignment explanation
Indices: 80093--80147 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
80083 TGGTTGTGAG
**
80093 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
80115 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
80137 GGATTTCTTCG
1 GGATTTCTTCG
80148 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:80318 original size:20 final size:20
Alignment explanation
Indices: 80293--80486 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
80283 CTTTAAATAT
80293 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
80313 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
80335 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
80354 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
80374 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
80394 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
80414 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
80434 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
80454 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
80474 CGCGTTGCGATTT
1 CGCGTTGCGATTT
80487 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:80480 original size:60 final size:60
Alignment explanation
Indices: 80293--80486 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
80283 CTTTAAATAT
**
80293 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
80354 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
80414 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
80474 CGCGTTGCGATTT
1 CGCGTTGCGATTT
80487 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:80503 original size:21 final size:20
Alignment explanation
Indices: 80479--80555 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
80469 ATATTCGCGT
80479 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
80500 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
80520 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
80542 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
80556 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:80566 original size:20 final size:20
Alignment explanation
Indices: 80541--80592 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
80531 AAGAATCGCG
*
80541 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
80561 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
80581 TTGCGATTCTGG
1 TTGCGATTCTGG
80593 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:83649 original size:27 final size:27
Alignment explanation
Indices: 83611--83667 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
83601 GCAACAACAG
*
83611 CAGCAGCAGAAGCAACATGAACCACAA
1 CAGCAGCAGAAGCAACAGGAACCACAA
*
83638 CAGCAGCAGAAGCAACCGGAACCACAA
1 CAGCAGCAGAAGCAACAGGAACCACAA
83665 CAG
1 CAG
83668 AAGCTGCCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.46, C:0.32, G:0.21, T:0.02
Consensus pattern (27 bp):
CAGCAGCAGAAGCAACAGGAACCACAA
Found at i:84921 original size:21 final size:21
Alignment explanation
Indices: 84895--84991 Score: 106
Period size: 21 Copynumber: 4.6 Consensus size: 21
84885 CCCATGGGAC
84895 AGATCCCCATATGC-CTGTGAG
1 AGATCCCCATATGCTC-GTGAG
* * *
84916 AGATCCCCATATACCCTTGAG
1 AGATCCCCATATGCTCGTGAG
* *
84937 AAATCCCCATATGCTCGTGAT
1 AGATCCCCATATGCTCGTGAG
** *
84958 AGATCCCTGTATGCTCATGAG
1 AGATCCCCATATGCTCGTGAG
84979 AGATCCCCATATG
1 AGATCCCCATATG
84992 ATCGAAGCCG
Statistics
Matches: 61, Mismatches: 14, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
21 60 0.98
22 1 0.02
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (21 bp):
AGATCCCCATATGCTCGTGAG
Found at i:102035 original size:24 final size:24
Alignment explanation
Indices: 101994--102044 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 24
101984 ATCATTATAT
101994 AATTATAATATTATTTT-GATAAG
1 AATTATAATATTATTTTGGATAAG
102017 AATTATATATATT-TGTTTGGATAAG
1 AATTATA-ATATTAT-TTTGGATAAG
102042 AAT
1 AAT
102045 ATTATTTATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
23 8 0.32
24 8 0.32
25 9 0.36
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (24 bp):
AATTATAATATTATTTTGGATAAG
Found at i:102631 original size:21 final size:21
Alignment explanation
Indices: 102606--102662 Score: 78
Period size: 21 Copynumber: 2.7 Consensus size: 21
102596 TTCCACAGCC
* *
102606 ATTTTAGATGCCACCGTAATA
1 ATTTTAGATGCCACCGCAACA
* *
102627 ATTTTCGATGCCACCGCAACC
1 ATTTTAGATGCCACCGCAACA
102648 ATTTTAGATGCCACC
1 ATTTTAGATGCCACC
102663 ACCGCAAGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (21 bp):
ATTTTAGATGCCACCGCAACA
Found at i:103145 original size:46 final size:47
Alignment explanation
Indices: 103049--103268 Score: 254
Period size: 46 Copynumber: 4.9 Consensus size: 47
103039 ACATCGATAG
*
103049 ACTTGTTTTATTT-TTTTGTTTCTTAATG--TT-TTATTTAATTATGG
1 ACTT-TTTTATTTATTTTGTTTCTTAATGTTTTATTATTTAATTATGA
103093 AC-TTTTTATTTATTTTGTTTCTTAATGTTTT-TTATTTAATTATGA
1 ACTTTTTTATTTATTTTGTTTCTTAATGTTTTATTATTTAATTATGA
*
103138 ACTTTTTTA---A--TT-TTTCTTAATGTTTTTATTATTTAATTATGG
1 ACTTTTTTATTTATTTTGTTTCTTAATG-TTTTATTATTTAATTATGA
*
103180 A-TTTTTTATTTATTTTGTTTCTTAATATTTTTATTATTTAATTATGA
1 ACTTTTTTATTTATTTTGTTTCTTAAT-GTTTTATTATTTAATTATGA
**
103227 AC--TTTTATTTATTTAATTTCTTAATGTTTTTATTATTTAATT
1 ACTTTTTTATTTATTTTGTTTCTTAATG-TTTTATTATTTAATT
103269 GGTTGGATTG
Statistics
Matches: 154, Mismatches: 7, Indels: 28
0.81 0.04 0.15
Matches are distributed among these distances:
40 10 0.06
41 13 0.08
42 22 0.14
43 17 0.11
44 3 0.02
45 17 0.11
46 44 0.29
47 28 0.18
ACGTcount: A:0.23, C:0.04, G:0.06, T:0.66
Consensus pattern (47 bp):
ACTTTTTTATTTATTTTGTTTCTTAATGTTTTATTATTTAATTATGA
Found at i:103190 original size:19 final size:19
Alignment explanation
Indices: 103120--103191 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 19
103110 TTTCTTAATG
*
103120 TTTTTTATTTAATTATGAA
1 TTTTTTATTTAATTATGGA
** *
103139 CTTTTTTAATTTTTCTTAAT-GT
1 -TTTTTT-A-TTTAATT-ATGGA
103161 TTTTATTATTTAATTATGGA
1 TTTT-TTATTTAATTATGGA
103181 TTTTTTATTTA
1 TTTTTTATTTA
103192 TTTTGTTTCT
Statistics
Matches: 40, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
19 9 0.22
20 16 0.40
21 6 0.15
22 7 0.17
23 2 0.05
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.67
Consensus pattern (19 bp):
TTTTTTATTTAATTATGGA
Found at i:103211 original size:87 final size:92
Alignment explanation
Indices: 103079--103268 Score: 309
Period size: 87 Copynumber: 2.1 Consensus size: 92
103069 TCTTAATGTT
*
103079 TTATTTAATTATGGACTTTTTATTTATTTTGTTTCTTAAT-GTTTT-TTATTTAATTATGAAC-T
1 TTATTTAATTATGGACTTTTTATTTATTTTGTTTCTTAATATTTTTATTATTTAATTATGAACTT
103141 TT-TTTAATT-TTTCTTAATGTTTTTA
66 TTATTTAATTATTTCTTAATGTTTTTA
*
103166 TTATTTAATTATGGATTTTTTATTTATTTTGTTTCTTAATATTTTTATTATTTAATTATGAACTT
1 TTATTTAATTATGGACTTTTTATTTATTTTGTTTCTTAATATTTTTATTATTTAATTATGAACTT
*
103231 TTATTTATTTAATTTCTTAATGTTTTTA
66 TTATTTAATT-ATTTCTTAATGTTTTTA
103259 TTATTTAATT
1 TTATTTAATT
103269 GGTTGGATTG
Statistics
Matches: 94, Mismatches: 3, Indels: 6
0.91 0.03 0.06
Matches are distributed among these distances:
87 39 0.41
88 4 0.04
89 16 0.17
90 3 0.03
91 6 0.06
93 26 0.28
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.66
Consensus pattern (92 bp):
TTATTTAATTATGGACTTTTTATTTATTTTGTTTCTTAATATTTTTATTATTTAATTATGAACTT
TTATTTAATTATTTCTTAATGTTTTTA
Found at i:105766 original size:101 final size:102
Alignment explanation
Indices: 105614--105843 Score: 248
Period size: 101 Copynumber: 2.3 Consensus size: 102
105604 AAGCTGGTAG
** ** * * *
105614 TTGAATGTCTTCCCCTTGAACTTGAAGGCATCGTGTCGTACGGGTTTTGAATTGAGTGTTGTGTT
1 TTGAATGTCTTCCCCTTGAACTTGAAGGCATCGTGTCAAACGGGTACTGAATAGAGTGATGTGTC
* * *
105679 GCAGGCATCGCCATATTGAGGTCAAAAAAACTCGTAA
66 GAAGGCATCGCCACATTCAGGTCAAAAAAACTCGTAA
* * *
105716 TTGAATGTC-TCCCC-TGAAACTTGTAGGCATCGTGTCAAATGGGTACTGAATAGATTGATGTGT
1 TTGAATGTCTTCCCCTTG-AACTTGAAGGCATCGTGTCAAACGGGTACTGAATAGAGTGATGTGT
* * * * *
105779 CGAAGGCATCTCCACATTCAGGTCAAAGAAATTGGCAA
65 CGAAGGCATCGCCACATTCAGGTCAAAAAAACTCGTAA
* * *
105817 ATGAATGCCTTCCCCTTGAACTAGAAG
1 TTGAATGTCTTCCCCTTGAACTTGAAG
105844 TGATGTTGCC
Statistics
Matches: 103, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
100 2 0.02
101 78 0.76
102 21 0.20
103 2 0.02
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (102 bp):
TTGAATGTCTTCCCCTTGAACTTGAAGGCATCGTGTCAAACGGGTACTGAATAGAGTGATGTGTC
GAAGGCATCGCCACATTCAGGTCAAAAAAACTCGTAA
Found at i:106662 original size:5 final size:5
Alignment explanation
Indices: 106643--106682 Score: 62
Period size: 5 Copynumber: 7.8 Consensus size: 5
106633 TAGTCAATTA
*
106643 AATAT AAAAT AAATAT AATAT AATAT AATAT AATAT AATA
1 AATAT AATAT -AATAT AATAT AATAT AATAT AATAT AATA
106683 AAAAAATAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 28 0.88
6 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
AATAT
Found at i:106674 original size:15 final size:16
Alignment explanation
Indices: 106643--106692 Score: 66
Period size: 16 Copynumber: 3.2 Consensus size: 16
106633 TAGTCAATTA
*
106643 AATATAAAATAAATAT
1 AATATAATATAAATAT
106659 AATATAATAT-AATAT
1 AATATAATATAAATAT
* *
106674 AATATAATAAAAAAAT
1 AATATAATATAAATAT
106690 AAT
1 AAT
106693 TTTACCTTCT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
15 14 0.47
16 16 0.53
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AATATAATATAAATAT
Found at i:109491 original size:16 final size:18
Alignment explanation
Indices: 109458--109494 Score: 60
Period size: 16 Copynumber: 2.2 Consensus size: 18
109448 ATGACGAACG
109458 AAAACATATATATTTTTA
1 AAAACATATATATTTTTA
109476 AAAACATA-AT-TTTTTA
1 AAAACATATATATTTTTA
109492 AAA
1 AAA
109495 TCCATGATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.47
17 2 0.11
18 8 0.42
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
AAAACATATATATTTTTA
Found at i:110460 original size:16 final size:17
Alignment explanation
Indices: 110434--110466 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
110424 AACATTTAAA
110434 TTTTAATTTTTGAAATT
1 TTTTAATTTTTGAAATT
110451 TTTTAA-TTTTGAAATT
1 TTTTAATTTTTGAAATT
110467 CTAATTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (17 bp):
TTTTAATTTTTGAAATT
Found at i:111164 original size:19 final size:21
Alignment explanation
Indices: 111140--111191 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 21
111130 TCAGACTGAA
*
111140 TTATAATTTAAAAT-TA-ATT
1 TTATAATTTAAAATACATATT
**
111159 TTATAAAGTAAAATACATATT
1 TTATAATTTAAAATACATATT
111180 TTAT-ATTTAAAA
1 TTATAATTTAAAA
111192 GGAGTGAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 12 0.46
20 7 0.27
21 7 0.27
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TTATAATTTAAAATACATATT
Found at i:114437 original size:215 final size:215
Alignment explanation
Indices: 114058--114470 Score: 673
Period size: 215 Copynumber: 1.9 Consensus size: 215
114048 AAAAATATGG
* *
114058 AACAAACCGAAAGAAAAAATAGTGTTTTATTATTCTGACAAAGTGCTACTCCTTATTTCAATTCG
1 AACAAACCGAAAGAAAAAATAGTGATTTATGATTCTGACAAAGTGCTACTCCTTATTTCAATTCG
* * *
114123 ATGACAATGGATCGGTGCTTATTACATGGAAAGGAGCTGGGTGCACCGTACAAAATAAGAAAAAC
66 ATGACAACGGATCGGTGCTTATTACATGGAAAAGAGATGGGTGCACCGTACAAAATAAGAAAAAC
* * * * * *
114188 AAAATTGAGTTTCCACAAGGGTTTTGCCTTGTGCTACGAAGATGGAGATGGCGACAAAAGCAAGA
131 AAAATTGAGTTGCAACAAGAGCTTTGCCTTGTGCTAAGAAGATGGAGATGGAGACAAAAGCAAGA
114253 GAAGGATCTAGTTCTGTTGA
196 GAAGGATCTAGTTCTGTTGA
*
114273 AACAAACCGAAAGAAGAAATAGTGATTTATGATTCTGACAAAGTGCTACTCCTTATTTCAATTCG
1 AACAAACCGAAAGAAAAAATAGTGATTTATGATTCTGACAAAGTGCTACTCCTTATTTCAATTCG
* * * *
114338 ATGGCAACGGATGGGTGCTTATTACATGGAAAAGAGATGGGTGCACCGTACAAAATAAGATAAGC
66 ATGACAACGGATCGGTGCTTATTACATGGAAAAGAGATGGGTGCACCGTACAAAATAAGAAAAAC
*
114403 AAAATTGAGTTGCAACAAGAGCTTTGCGTTGTGCTAAGAAGATGGAGATGGAGACAAAAGCAAGA
131 AAAATTGAGTTGCAACAAGAGCTTTGCCTTGTGCTAAGAAGATGGAGATGGAGACAAAAGCAAGA
114468 GAA
196 GAA
114471 ATATCTAAGT
Statistics
Matches: 181, Mismatches: 17, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
215 181 1.00
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (215 bp):
AACAAACCGAAAGAAAAAATAGTGATTTATGATTCTGACAAAGTGCTACTCCTTATTTCAATTCG
ATGACAACGGATCGGTGCTTATTACATGGAAAAGAGATGGGTGCACCGTACAAAATAAGAAAAAC
AAAATTGAGTTGCAACAAGAGCTTTGCCTTGTGCTAAGAAGATGGAGATGGAGACAAAAGCAAGA
GAAGGATCTAGTTCTGTTGA
Found at i:125916 original size:99 final size:98
Alignment explanation
Indices: 125745--126055 Score: 469
Period size: 99 Copynumber: 3.1 Consensus size: 98
125735 TAGATCCGTC
* *
125745 AGCCTTTTCTTCTCCGGTTTGCTTTGCTGTGGGAGAAACCTTCCTTTGTATTTCCTCTTGTTGCT
1 AGCCTTTTCTTC-CCGGTTTGCTTTGCGGTGGGAGAAACCTTCCTTTGTATTTCTTCTTGTTGCT
125810 TCAATGACGGCAATGCCTCAATCTCCTTCCCTTT
65 TCAATGACGGCAATGCCTCAATCTCCTTCCCTTT
*
125844 AGCCTTTTCTTCCACGGTTTGCTTTGCGGGGGGAGAAACCTTCCTTTGTATTTCTTCTTGTTGCT
1 AGCCTTTTCTTCC-CGGTTTGCTTTGCGGTGGGAGAAACCTTCCTTTGTATTTCTTCTTGTTGCT
* *
125909 TCAATGACGGCAATGCCTCAACCTCTTTCCCTTT
65 TCAATGACGGCAATGCCTCAATCTCCTTCCCTTT
* *
125943 AGCCTTTTCTTTTCTGGTTTGCTTTGCGGTGGGAGAAACCTTCCTTTGTATTTCTTCTTGTTGCT
1 AGCCTTTTC-TTCCCGGTTTGCTTTGCGGTGGGAGAAACCTTCCTTTGTATTTCTTCTTGTTGCT
* * * *
126008 TCAATGGCGGCAATGTCTCGACCTCCTTCTTCCCTTT
65 TCAATGACGGCAATGCCTC-A-AT-CTCCTTCCCTTT
126045 AGCCTTTTCTT
1 AGCCTTTTCTT
126056 TCGGAGTCTG
Statistics
Matches: 193, Mismatches: 14, Indels: 8
0.90 0.07 0.04
Matches are distributed among these distances:
98 1 0.01
99 167 0.87
100 4 0.02
101 2 0.01
102 19 0.10
ACGTcount: A:0.13, C:0.27, G:0.18, T:0.42
Consensus pattern (98 bp):
AGCCTTTTCTTCCCGGTTTGCTTTGCGGTGGGAGAAACCTTCCTTTGTATTTCTTCTTGTTGCTT
CAATGACGGCAATGCCTCAATCTCCTTCCCTTT
Found at i:128672 original size:15 final size:15
Alignment explanation
Indices: 128654--128695 Score: 84
Period size: 15 Copynumber: 2.8 Consensus size: 15
128644 TCTTCATCAA
128654 CTCCGTCGACATCCT
1 CTCCGTCGACATCCT
128669 CTCCGTCGACATCCT
1 CTCCGTCGACATCCT
128684 CTCCGTCGACAT
1 CTCCGTCGACAT
128696 TCACGTCCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.14, C:0.45, G:0.14, T:0.26
Consensus pattern (15 bp):
CTCCGTCGACATCCT
Found at i:131980 original size:29 final size:30
Alignment explanation
Indices: 131938--131997 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
131928 CATTGACACG
131938 ACTCAAATTTTATAAACTAGAA-CAACTCA
1 ACTCAAATTTTATAAACTAGAATCAACTCA
*
131967 ACTCAAATTTTATAAACTCGAATCAACTCA
1 ACTCAAATTTTATAAACTAGAATCAACTCA
131997 A
1 A
131998 AAAAAATTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.47, C:0.22, G:0.03, T:0.28
Consensus pattern (30 bp):
ACTCAAATTTTATAAACTAGAATCAACTCA
Found at i:132005 original size:30 final size:29
Alignment explanation
Indices: 131942--132005 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
131932 GACACGACTC
***
131942 AAATTTTATAAACTAGAACAACTCAACTC
1 AAATTTTATAAACTAGAACAACTCAAAAA
*
131971 AAATTTTATAAACTCGAATCAACTCAAAAA
1 AAATTTTATAAACTAGAA-CAACTCAAAAA
132001 AAATT
1 AAATT
132006 CAAATCAAGT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 17 0.57
30 13 0.43
ACGTcount: A:0.52, C:0.17, G:0.03, T:0.28
Consensus pattern (29 bp):
AAATTTTATAAACTAGAACAACTCAAAAA
Found at i:142215 original size:2 final size:2
Alignment explanation
Indices: 142208--142232 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
142198 TACATATTGA
142208 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
142233 ATCATTATTT
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:144436 original size:24 final size:24
Alignment explanation
Indices: 144379--144443 Score: 78
Period size: 24 Copynumber: 2.7 Consensus size: 24
144369 TTGCAATAGT
* * *
144379 ATGATTGAACTTATTTATTGTCTA
1 ATGATTGAAATTATTTATTATCAA
144403 ATGATTGAAATTATTTATTATCAA
1 ATGATTGAAATTATTTATTATCAA
*
144427 AT-ATTCGAAAGTATTTA
1 ATGATT-GAAATTATTTA
144444 GTTTAATAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
23 3 0.08
24 33 0.92
ACGTcount: A:0.37, C:0.06, G:0.11, T:0.46
Consensus pattern (24 bp):
ATGATTGAAATTATTTATTATCAA
Found at i:145439 original size:185 final size:184
Alignment explanation
Indices: 145206--145581 Score: 608
Period size: 185 Copynumber: 2.0 Consensus size: 184
145196 ATAAAAATTA
*
145206 AATATTTTTTAATTAAAAAAAAGTTTATAATTAATTTAAATAATATATAATTATAAAATAAAAAT
1 AATATTTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAAT
* * *
145271 TTCAGATAAATTTTTTAATTAATTAATATTAATTTATGTTTAAAAGTTATTGGATCTTAAATTAT
66 TTCAGATAAATTTTTTAATTAATTAATATTAATTTAGGTTAAAAAGTTATTAGATCTTAAATTAT
* *
145336 TAATTGGGTTTTAAATGGTTTGGACTTAGCCCATATGTTATATATAATATATAT
131 TAATTGGATTTTAAATGGTTTGGACTGAGCCCATATGTTATATATAATATATAT
145390 AATATTTTTTAATTAAAAAAACAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAA
1 AATATTTTTTAATTAAAAAAA-AGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAA
* * * * *
145455 TTTTATATAATTTTTTTAATTAATTAATATTGATTTAGGTTAAAAATTTATTAGATCTTAAATTA
65 TTTCAGATAAATTTTTTAATTAATTAATATTAATTTAGGTTAAAAAGTTATTAGATCTTAAATTA
* * *
145520 TTAATTGGATTTTAAATGGTTTGGGCTGAGCCCCTATGTTATATATAATATATTT
130 TTAATTGGATTTTAAATGGTTTGGACTGAGCCCATATGTTATATATAATATATAT
*
145575 AAAATTT
1 AATATTT
145582 AATTTCGGTT
Statistics
Matches: 176, Mismatches: 15, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
184 21 0.12
185 155 0.88
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.46
Consensus pattern (184 bp):
AATATTTTTTAATTAAAAAAAAGTTTACAATTAATTTAAATAATATATAATTATAAAATAAAAAT
TTCAGATAAATTTTTTAATTAATTAATATTAATTTAGGTTAAAAAGTTATTAGATCTTAAATTAT
TAATTGGATTTTAAATGGTTTGGACTGAGCCCATATGTTATATATAATATATAT
Found at i:152843 original size:3 final size:3
Alignment explanation
Indices: 152835--152883 Score: 98
Period size: 3 Copynumber: 16.3 Consensus size: 3
152825 ACTGGTGTTC
152835 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
1 CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT CCT
152883 C
1 C
152884 AAGGATGGAT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 46 1.00
ACGTcount: A:0.00, C:0.67, G:0.00, T:0.33
Consensus pattern (3 bp):
CCT
Found at i:154805 original size:60 final size:60
Alignment explanation
Indices: 154730--154848 Score: 202
Period size: 60 Copynumber: 2.0 Consensus size: 60
154720 CAATTAATAC
* * *
154730 ATACTTACACCGGTGTAAGTATGTACATCTCTCAATATCTTGGTACCTAAAAATAAACAT
1 ATACATACACCGGTGTAAGTATGCACATCTCTCAATATCTTGATACCTAAAAATAAACAT
*
154790 ATACATACACCGGTGTCAGTATGCACATCTCTCAATATCTTGATACCTAAAAATAAACA
1 ATACATACACCGGTGTAAGTATGCACATCTCTCAATATCTTGATACCTAAAAATAAACA
154849 CATAATTATA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 55 1.00
ACGTcount: A:0.38, C:0.22, G:0.11, T:0.29
Consensus pattern (60 bp):
ATACATACACCGGTGTAAGTATGCACATCTCTCAATATCTTGATACCTAAAAATAAACAT
Found at i:157019 original size:9 final size:10
Alignment explanation
Indices: 156999--157034 Score: 54
Period size: 10 Copynumber: 3.4 Consensus size: 10
156989 ATTATCATAT
156999 ATTAATAAAAA
1 ATTAA-AAAAA
157010 ATTAAAAAAA
1 ATTAAAAAAA
157020 ATTAAAAAATA
1 ATTAAAAAA-A
157031 ATTA
1 ATTA
157035 TTTTATTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 14 0.58
11 10 0.42
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
ATTAAAAAAA
Found at i:158539 original size:2 final size:2
Alignment explanation
Indices: 158527--158560 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
158517 CTTAGAAATT
158527 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
158561 TAATCACTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:159793 original size:21 final size:23
Alignment explanation
Indices: 159748--159796 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
159738 ACGTGTAATT
*
159748 ATAAATTAGTTGAAAATTTAAAG
1 ATAAATTAGTTGAAAATTAAAAG
*
159771 ATAAATTA-TTTAAAA-TAAAAG
1 ATAAATTAGTTGAAAATTAAAAG
159792 ATAAA
1 ATAAA
159797 ATATACCAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 6 0.25
23 8 0.33
ACGTcount: A:0.59, C:0.00, G:0.08, T:0.33
Consensus pattern (23 bp):
ATAAATTAGTTGAAAATTAAAAG
Found at i:160142 original size:21 final size:21
Alignment explanation
Indices: 160118--160168 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
160108 GACCACTGAT
*
160118 ATAATTTACCTTTTATTTTCA
1 ATAATTTACCTTTAATTTTCA
160139 ATAATTTACCTTTAATTTTCA
1 ATAATTTACCTTTAATTTTCA
160160 ATTAATTTA
1 A-TAATTTA
160169 TAATTATACG
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
21 21 0.75
22 7 0.25
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (21 bp):
ATAATTTACCTTTAATTTTCA
Found at i:160698 original size:21 final size:21
Alignment explanation
Indices: 160674--160918 Score: 172
Period size: 21 Copynumber: 11.7 Consensus size: 21
160664 CATATTCGCA
*
160674 TTGCGA-TAGTCGAAGTTCGCG
1 TTGCGATTAGTCCAAGTTC-CG
* *
160695 TTGCGATTTATTCCAAATT-CG
1 TTGCGA-TTAGTCCAAGTTCCG
* *
160716 TTGCGATTTATTCCAAATT-CG
1 TTGCGA-TTAGTCCAAGTTCCG
*
160737 TTGCGA-TAGTCGAAGTTCGCG
1 TTGCGATTAGTCCAAGTTC-CG
*
160758 TTGCGATTTATTCCAAGTT-CG
1 TTGCGA-TTAGTCCAAGTTCCG
*
160779 TTGCGA-TAGTCAAAGTTCGCG
1 TTGCGATTAGTCCAAGTTC-CG
* *
160800 TTGCGATTTATTCCAAATT-CG
1 TTGCGA-TTAGTCCAAGTTCCG
160821 TTGCGA-TAGTCCAAGTTCACG
1 TTGCGATTAGTCCAAGTTC-CG
*
160842 TTGCGATTTATTCCAAGTT-CG
1 TTGCGA-TTAGTCCAAGTTCCG
*
160863 TTGCGA-TAGTCGAAGTTCGCG
1 TTGCGATTAGTCCAAGTTC-CG
* * *
160884 TTGCAATTTATTCCAAATT-CG
1 TTGCGA-TTAGTCCAAGTTCCG
160905 TTGCGA-TAGTCCAA
1 TTGCGATTAGTCCAA
160919 AATCGCAACA
Statistics
Matches: 182, Mismatches: 24, Indels: 38
0.75 0.10 0.16
Matches are distributed among these distances:
19 42 0.23
21 97 0.53
23 43 0.24
ACGTcount: A:0.22, C:0.20, G:0.22, T:0.36
Consensus pattern (21 bp):
TTGCGATTAGTCCAAGTTCCG
Found at i:160739 original size:42 final size:41
Alignment explanation
Indices: 160706--160918 Score: 320
Period size: 42 Copynumber: 5.1 Consensus size: 41
160696 TGCGATTTAT
*
160706 TCCAAATT-CGTTGCGATTTATTCCAAATTCGTTGCGATAG
1 TCCAAGTTCCGTTGCGATTTATTCCAAATTCGTTGCGATAG
* *
160746 TCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAG
1 TCCAAGTTC-CGTTGCGATTTATTCCAAATTCGTTGCGATAG
*
160788 TCAAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATAG
1 TCCAAGTTC-CGTTGCGATTTATTCCAAATTCGTTGCGATAG
*
160830 TCCAAGTTCACGTTGCGATTTATTCCAAGTTCGTTGCGATAG
1 TCCAAGTTC-CGTTGCGATTTATTCCAAATTCGTTGCGATAG
* *
160872 TCGAAGTTCGCGTTGCAATTTATTCCAAATTCGTTGCGATAG
1 TCCAAGTTC-CGTTGCGATTTATTCCAAATTCGTTGCGATAG
160914 TCCAA
1 TCCAA
160919 AATCGCAACA
Statistics
Matches: 158, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
40 6 0.04
42 152 0.96
ACGTcount: A:0.23, C:0.20, G:0.21, T:0.36
Consensus pattern (41 bp):
TCCAAGTTCCGTTGCGATTTATTCCAAATTCGTTGCGATAG
Found at i:160747 original size:63 final size:63
Alignment explanation
Indices: 160674--160911 Score: 283
Period size: 63 Copynumber: 3.8 Consensus size: 63
160664 CATATTCGCA
160674 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCG
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCG
* *
160737 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGA--TAGT-CAAAGTTCGC
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAA-TT--C
160799 G
63 G
* * * * * *
160800 TTGCGATTTATTCCAAATT--CGTTGCGA--TAGTCCAAGTTCACGTTGCGATTTATTCCAAGTT
1 TTGCGA--TAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT--CGTTGCGATTTATTCCAAATT
160861 CG
62 CG
*
160863 TTGCGATAGTCGAAGTTCGCGTTGCAATTTATTCCAAATTCGTTGCGAT
1 TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGAT
160912 AGTCCAAAAT
Statistics
Matches: 147, Mismatches: 14, Indels: 28
0.78 0.07 0.15
Matches are distributed among these distances:
60 4 0.03
61 23 0.16
63 95 0.65
65 22 0.15
66 3 0.02
ACGTcount: A:0.22, C:0.19, G:0.22, T:0.37
Consensus pattern (63 bp):
TTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATTCGTTGCGATTTATTCCAAATTCG
Found at i:161673 original size:21 final size:21
Alignment explanation
Indices: 161649--161703 Score: 92
Period size: 21 Copynumber: 2.6 Consensus size: 21
161639 TTTGGAATAA
*
161649 ATCGCAACGCGAACTTCGACT
1 ATCGCAATGCGAACTTCGACT
*
161670 ATCGCAATGCGAACTTGGACT
1 ATCGCAATGCGAACTTCGACT
161691 ATCGCAATGCGAA
1 ATCGCAATGCGAA
161704 TATATAAATC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.20
Consensus pattern (21 bp):
ATCGCAATGCGAACTTCGACT
Found at i:161722 original size:41 final size:41
Alignment explanation
Indices: 161670--161812 Score: 126
Period size: 41 Copynumber: 3.3 Consensus size: 41
161660 AACTTCGACT
161670 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATATAA
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATATAA
* * * * ** *
161711 ATCGCAATGCGATAGTCGAAGT-TCGCGTTGCGATAGTCGAATTTGGAAA
1 ATCGCAATGCGA-ACTTGGACTATCGCAATGCGA-A-T---ATAT---AA
*
161760 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATATAA
161801 ATCGCAATGCGA
1 ATCGCAATGCGA
161813 TAGTCGAAGT
Statistics
Matches: 78, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
41 35 0.45
42 6 0.08
43 1 0.01
44 3 0.04
46 3 0.04
47 1 0.01
48 6 0.08
49 23 0.29
ACGTcount: A:0.33, C:0.19, G:0.24, T:0.24
Consensus pattern (41 bp):
ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATATAA
Found at i:161806 original size:20 final size:20
Alignment explanation
Indices: 161748--161812 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 20
161738 TTGCGATAGT
*
161748 CGAATTTGGAAAATCGCAATG
1 CGAACTTGG-AAATCGCAATG
*
161769 CGAACTTGGACTATCGCAATG
1 CGAACTTGGA-AATCGCAATG
*
161790 CGAA-TATGTAAATCGCAATG
1 CGAACT-TGGAAATCGCAATG
161810 CGA
1 CGA
161813 TAGTCGAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
20 14 0.37
21 24 0.63
ACGTcount: A:0.35, C:0.18, G:0.23, T:0.23
Consensus pattern (20 bp):
CGAACTTGGAAATCGCAATG
Found at i:161823 original size:90 final size:90
Alignment explanation
Indices: 161670--161841 Score: 335
Period size: 90 Copynumber: 1.9 Consensus size: 90
161660 AACTTCGACT
161670 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATATAAATCGCAATGCGATAGTCGAAGTTC
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATATAAATCGCAATGCGATAGTCGAAGTTC
161735 GCGTTGCGATAGTCGAATTTGGAAA
66 GCGTTGCGATAGTCGAATTTGGAAA
*
161760 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATGTAAATCGCAATGCGATAGTCGAAGTTC
1 ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATATAAATCGCAATGCGATAGTCGAAGTTC
161825 GCGTTGCGATAGTCGAA
66 GCGTTGCGATAGTCGAA
161842 GTTCGCGTTG
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (90 bp):
ATCGCAATGCGAACTTGGACTATCGCAATGCGAATATATAAATCGCAATGCGATAGTCGAAGTTC
GCGTTGCGATAGTCGAATTTGGAAA
Found at i:161832 original size:21 final size:21
Alignment explanation
Indices: 161808--161854 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
161798 TAAATCGCAA
161808 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCGT
161829 TGCGATAGTCGAAGTTCGCGT
1 TGCGATAGTCGAAGTTCGCGT
161850 TGCGA
1 TGCGA
161855 ATCTGGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.19, C:0.19, G:0.34, T:0.28
Consensus pattern (21 bp):
TGCGATAGTCGAAGTTCGCGT
Found at i:161841 original size:111 final size:113
Alignment explanation
Indices: 161635--161854 Score: 297
Period size: 111 Copynumber: 2.0 Consensus size: 113
161625 ACTATCGTAA
*
161635 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGGACTATCGCAATG
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGGACAATCGCAATG
*
161700 CGAATATATAAATCGCAATGCGATAGTCGAAGTTCGCGTTGCGATAGT
66 CGAATATAGAAATCGCAATGCGATAGTCGAAGTTCGCGTTGCGATAGT
* * *
161748 CGAATTTGG-A-AAATCGCAATGCGAACTTGGACTATCGCAATGCGAA-TATGTA-AATCGCAAT
1 CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGAACT-TGGACAATCGCAAT
* * **
161809 GCG-ATAGTCGAAGTTCGCGTTGCGATAGTCGAAGTTCGCGTTGCGA
65 GCGAATA-TAGAA-ATCGCAATGCGATAGTCGAAGTTCGCGTTGCGA
161855 ATCTGGAAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
109 3 0.03
110 15 0.16
111 67 0.71
112 1 0.01
113 9 0.09
ACGTcount: A:0.30, C:0.20, G:0.25, T:0.25
Consensus pattern (113 bp):
CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAATGCGAACTTGGACAATCGCAATG
CGAATATAGAAATCGCAATGCGATAGTCGAAGTTCGCGTTGCGATAGT
Found at i:163400 original size:20 final size:20
Alignment explanation
Indices: 163347--163405 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
163337 TTTTGAAAAA
163347 TACTTGGGTATCGATACTCC
1 TACTTGGGTATCGATACTCC
* *
163367 TATTTGGAGTATCGATACT-T
1 TACTTGG-GTATCGATACTCC
163387 TACCTTGGGTATCGATACT
1 TA-CTTGGGTATCGATACT
163406 AAAAGGAGTA
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
20 19 0.56
21 15 0.44
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.39
Consensus pattern (20 bp):
TACTTGGGTATCGATACTCC
Found at i:165920 original size:20 final size:22
Alignment explanation
Indices: 165885--165930 Score: 78
Period size: 20 Copynumber: 2.2 Consensus size: 22
165875 CTTAAGAAGA
165885 GTAACAAAAGATGATAAAACCG
1 GTAACAAAAGATGATAAAACCG
165907 GTAAC-AAA-ATGATAAAACCG
1 GTAACAAAAGATGATAAAACCG
165927 GTAA
1 GTAA
165931 AACGTTACCG
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 16 0.67
21 3 0.12
22 5 0.21
ACGTcount: A:0.54, C:0.13, G:0.17, T:0.15
Consensus pattern (22 bp):
GTAACAAAAGATGATAAAACCG
Found at i:166085 original size:20 final size:19
Alignment explanation
Indices: 166062--166108 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
166052 CGATATAACA
166062 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
166082 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
*
166102 GATAAAA
1 GGTAAAA
166109 TGATACCGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 2 0.09
20 18 0.78
21 3 0.13
ACGTcount: A:0.55, C:0.11, G:0.15, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:166110 original size:17 final size:20
Alignment explanation
Indices: 166071--166113 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
166061 AGGTAAAAAT
166071 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGGTATCAAA
166091 ATGATAAAACC-G-AT-AAA
1 ATGATAAAACCGGTATCAAA
166108 ATGATA
1 ATGATA
166114 CCGGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 2 0.09
19 1 0.04
20 11 0.48
ACGTcount: A:0.53, C:0.12, G:0.14, T:0.21
Consensus pattern (20 bp):
ATGATAAAACCGGTATCAAA
Found at i:168223 original size:14 final size:14
Alignment explanation
Indices: 168200--168229 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
168190 TGGTTGTATT
*
168200 GGGGATGACGGTGA
1 GGGGACGACGGTGA
168214 GGGGACGACGGTGA
1 GGGGACGACGGTGA
168228 GG
1 GG
168230 AAAACAGAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.20, C:0.10, G:0.60, T:0.10
Consensus pattern (14 bp):
GGGGACGACGGTGA
Found at i:170253 original size:17 final size:18
Alignment explanation
Indices: 170211--170256 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
170201 AATGTAGGGT
170211 TAATTTTGTATAAGATTA
1 TAATTTTGTATAAGATTA
*
170229 TAATTTTGTATACGATT-
1 TAATTTTGTATAAGATTA
*
170246 TTATTTTGTAT
1 TAATTTTGTAT
170257 GTGAATATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.30, C:0.02, G:0.11, T:0.57
Consensus pattern (18 bp):
TAATTTTGTATAAGATTA
Found at i:171245 original size:199 final size:199
Alignment explanation
Indices: 170365--171516 Score: 2079
Period size: 199 Copynumber: 5.8 Consensus size: 199
170355 GGCAAATTTA
* * *
170365 CCATAAAGTGTCGATCCATATATAAAAAGTGTCAATCCCAAAAACATCGAAAACCAAAAGTATAA
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCG-AACCCAAAAGTATAA
* *
170430 TGTAATATGTAATTTTTCAATCTAACCGGTACAAGTCTACC-GTTTTATGAGAGAATATGTCTAA
65 TGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGATAATATGTCTAA
170494 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGG
130 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGG
170559 TGCAC
195 TGCAC
*
170564 CCATAAAGTGTCGATCCATATAT-AAAAGTGTCGATCCGAAAATCATCGAACCCAAAAGTATAAT
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
170628 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATAATATGTCTAAA
66 GTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGATAATATGTCTAAA
170693 TAATGTGTCGACACT-A-ATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAACAGGGT
131 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
*
170755 GAAC
196 GCAC
170759 CCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
1 CCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
*
170824 TGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGATAATATGTATAA
65 TGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGATAATATGTCTAA
170889 ATAATGTGTCGACACT-A-ATAGTTTGTGTCGATA-TTTTTTTCCAGAATGAATGGAAAACAGGG
130 ATAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGG
170951 TGCAC
195 TGCAC
170956 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
171021 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGATAATATGTATAAA
66 GTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGATAATATGTCTAAA
171086 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
131 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
171151 GCAC
196 GCAC
171155 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
* *
171220 GTAATATGTAATTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
66 GTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGATAATATGTCTAAA
171285 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
131 TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
171350 GCAC
196 GCAC
*
171354 CCATAAAGTGTCGTTCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA-
1 CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
*
171418 GTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGAAAATATGTCTAAA
66 GTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGATAATATGTCTAAA
*
171483 TAATATGTCGACACTAATATAGTTTGTGTCGATA
131 TAATGTGTCGACACTAATATAGTTTGTGTCGATA
171517 CTAATTTAAA
Statistics
Matches: 928, Mismatches: 19, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
195 56 0.06
196 137 0.15
197 246 0.27
198 172 0.19
199 317 0.34
ACGTcount: A:0.37, C:0.15, G:0.16, T:0.31
Consensus pattern (199 bp):
CCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAAT
GTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGATAATATGTCTAAA
TAATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATGGAAAACAGGGT
GCAC
Found at i:172992 original size:12 final size:12
Alignment explanation
Indices: 172975--173033 Score: 82
Period size: 12 Copynumber: 4.9 Consensus size: 12
172965 GGTCGTAGAA
*
172975 GATGAAGCTGAC
1 GATGAAGATGAC
172987 GATGAAGATGAC
1 GATGAAGATGAC
*
172999 GATGATGATGAC
1 GATGAAGATGAC
* *
173011 GATGAAGCTGGC
1 GATGAAGATGAC
173023 GATGAAGATGA
1 GATGAAGATGA
173034 TGACGATGAT
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.36, C:0.10, G:0.36, T:0.19
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:172993 original size:18 final size:18
Alignment explanation
Indices: 172972--173033 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
172962 AGCGGTCGTA
172972 GAAGATGAAGCTGACGAT
1 GAAGATGAAGCTGACGAT
* * *
172990 GAAGATGACGATGATGAT
1 GAAGATGAAGCTGACGAT
* *
173008 GACGATGAAGCTGGCGAT
1 GAAGATGAAGCTGACGAT
173026 GAAGATGA
1 GAAGATGA
173034 TGACGATGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (18 bp):
GAAGATGAAGCTGACGAT
Found at i:172996 original size:6 final size:6
Alignment explanation
Indices: 172972--173033 Score: 52
Period size: 6 Copynumber: 10.3 Consensus size: 6
172962 AGCGGTCGTA
* * * * * *
172972 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
**
173020 GGCGAT GAAGAT GA
1 GAAGAT GAAGAT GA
173034 TGACGATGAT
Statistics
Matches: 42, Mismatches: 14, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
6 42 1.00
ACGTcount: A:0.37, C:0.10, G:0.35, T:0.18
Consensus pattern (6 bp):
GAAGAT
Found at i:173007 original size:3 final size:3
Alignment explanation
Indices: 172987--173063 Score: 66
Period size: 3 Copynumber: 26.0 Consensus size: 3
172977 TGAAGCTGAC
* * * * * ** *
172987 GAT GAA GAT GAC GAT GAT GAT GAC GAT GAA GCT GGC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
173035 GAC GAT GAT GAT GAT GAT GA- GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
173064 CCAAACAAGT
Statistics
Matches: 56, Mismatches: 17, Indels: 2
0.75 0.23 0.03
Matches are distributed among these distances:
2 2 0.04
3 54 0.96
ACGTcount: A:0.35, C:0.06, G:0.35, T:0.23
Consensus pattern (3 bp):
GAT
Found at i:173026 original size:36 final size:36
Alignment explanation
Indices: 172975--173051 Score: 118
Period size: 36 Copynumber: 2.1 Consensus size: 36
172965 GGTCGTAGAA
*
172975 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* * *
173011 GATGAAGCTGGCGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
173047 GATGA
1 GATGA
173052 TGAGATGATG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.35, C:0.09, G:0.35, T:0.21
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:173044 original size:12 final size:12
Alignment explanation
Indices: 172983--173059 Score: 75
Period size: 12 Copynumber: 6.2 Consensus size: 12
172973 AAGATGAAGC
*
172983 TGACGATGAAGA
1 TGACGATGATGA
172995 TGACGATGATGA
1 TGACGATGATGA
* *
173007 TGACGATGAAGC
1 TGACGATGATGA
*
173019 TGGCGATGAAGATGA
1 TGACGAT---GATGA
173034 TGACGATGATGA
1 TGACGATGATGA
*
173046 TGATGATGA-GA
1 TGACGATGATGA
173057 TGA
1 TGA
173060 TGATCCAAAC
Statistics
Matches: 54, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
11 5 0.09
12 40 0.74
15 9 0.17
ACGTcount: A:0.35, C:0.08, G:0.35, T:0.22
Consensus pattern (12 bp):
TGACGATGATGA
Found at i:174201 original size:20 final size:20
Alignment explanation
Indices: 174176--174214 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
174166 TAATATATTG
*
174176 TAAAGTATCTATCCTTTTTA
1 TAAAGTATCTATACTTTTTA
*
174196 TAAAGTGTCTATACTTTTT
1 TAAAGTATCTATACTTTTT
174215 CCACTGTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.13, G:0.08, T:0.51
Consensus pattern (20 bp):
TAAAGTATCTATACTTTTTA
Found at i:174825 original size:183 final size:182
Alignment explanation
Indices: 174517--175189 Score: 1186
Period size: 183 Copynumber: 3.7 Consensus size: 182
174507 TTCAACATAT
* *
174517 TATAAATATACCGGTTTTTTGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
*
174582 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACATTT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACATTT
174647 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
130 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
*
174700 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATCTTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
*
174765 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTTAAAAAGTGTCGACATTT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACATTT
174830 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
130 ACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
174883 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
* *
174948 TCGGTACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTATCGACATTT
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACATTT
* * *
175013 ACACATC-GAGACCCAGATTTATAATGTAATAGATAATTTTGTAATATAACAGG
130 ACACATCGGA-ACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
* *
175066 TATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTATAATATTGTG
1 TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
175131 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
175190 GTAATTTTAA
Statistics
Matches: 475, Mismatches: 12, Indels: 6
0.96 0.02 0.01
Matches are distributed among these distances:
182 2 0.00
183 469 0.99
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.34
Consensus pattern (182 bp):
TATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTG
TCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACATTTA
CACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGG
Found at i:177683 original size:25 final size:25
Alignment explanation
Indices: 177649--177711 Score: 81
Period size: 25 Copynumber: 2.5 Consensus size: 25
177639 TTATCATTAA
177649 TTAGGTATGTACAATAACTACATAT
1 TTAGGTATGTACAATAACTACATAT
****
177674 TTAGGTATGTTTGTTAACTACATAT
1 TTAGGTATGTACAATAACTACATAT
*
177699 TTAGGTATATACA
1 TTAGGTATGTACA
177712 TCTTTTGAGT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.35, C:0.10, G:0.14, T:0.41
Consensus pattern (25 bp):
TTAGGTATGTACAATAACTACATAT
Found at i:177837 original size:61 final size:61
Alignment explanation
Indices: 177766--177897 Score: 255
Period size: 61 Copynumber: 2.2 Consensus size: 61
177756 TCTAATGATT
177766 TATTTTTTATGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTATA
1 TATTTTTTATGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTATA
177827 TATTTTTTATGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTATA
1 TATTTTTTATGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTATA
*
177888 TATTTATTAT
1 TATTTTTTAT
177898 TATCTTTGGT
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
61 70 1.00
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (61 bp):
TATTTTTTATGTTACGGTATATATTATTATTAAATTAAAAACAATAAACATATATATTATA
Found at i:178148 original size:23 final size:23
Alignment explanation
Indices: 178117--178189 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
178107 ATAGGTAAAC
*
178117 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
178140 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
178163 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
178186 ATAT
1 ATAT
178190 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:178634 original size:18 final size:18
Alignment explanation
Indices: 178613--178649 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
178603 GTAATTGGAG
178613 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
178631 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
178649 T
1 T
178650 ATATATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:178657 original size:24 final size:24
Alignment explanation
Indices: 178605--178651 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
178595 TTTCATATGT
* *
178605 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATC
*
178629 AATTTGAGTTTGAATTTCAATAT
1 AATTTGAGTTTGAATTTAAATAT
178652 ATATTTCGGC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.34, C:0.04, G:0.15, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATC
Found at i:178948 original size:38 final size:37
Alignment explanation
Indices: 178906--178985 Score: 105
Period size: 33 Copynumber: 2.2 Consensus size: 37
178896 TCCGATGCTC
*
178906 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAGGAA
1 ATCAAAAT-CAAAGCTCATATGATGCCAAGCAAAGGAA
*
178944 ATC--AA--AAATCTCATATGATGCCAAGCAAAGGAA
1 ATCAAAATCAAAGCTCATATGATGCCAAGCAAAGGAA
178977 ATCAAAATC
1 ATCAAAATC
178986 TACAACTTGA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
33 29 0.81
35 2 0.06
36 2 0.06
38 3 0.08
ACGTcount: A:0.47, C:0.20, G:0.15, T:0.17
Consensus pattern (37 bp):
ATCAAAATCAAAGCTCATATGATGCCAAGCAAAGGAA
Found at i:178957 original size:33 final size:33
Alignment explanation
Indices: 178920--178983 Score: 119
Period size: 33 Copynumber: 1.9 Consensus size: 33
178910 AAATCCAAAG
*
178920 CTCATATGGTGCCAAGCAAAGGAAATCAAAAAT
1 CTCATATGATGCCAAGCAAAGGAAATCAAAAAT
178953 CTCATATGATGCCAAGCAAAGGAAATCAAAA
1 CTCATATGATGCCAAGCAAAGGAAATCAAAA
178984 TCTACAACTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.17
Consensus pattern (33 bp):
CTCATATGATGCCAAGCAAAGGAAATCAAAAAT
Found at i:179427 original size:21 final size:21
Alignment explanation
Indices: 179401--179471 Score: 79
Period size: 21 Copynumber: 3.3 Consensus size: 21
179391 TAAACATATG
179401 ATGTAATAGGTAGCGCTTATA
1 ATGTAATAGGTAGCGCTTATA
* *
179422 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCG-CT-TATA
* *
179445 ATGTAATAGGTAGTGGTTATA
1 ATGTAATAGGTAGCGCTTATA
*
179466 TTGTAA
1 ATGTAA
179472 AGTGTCTATC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
21 23 0.55
22 2 0.05
23 17 0.40
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (21 bp):
ATGTAATAGGTAGCGCTTATA
Found at i:179448 original size:23 final size:22
Alignment explanation
Indices: 179396--179457 Score: 81
Period size: 21 Copynumber: 2.8 Consensus size: 22
179386 ATAGGTAAAC
*
179396 ATATGATGTAATAGGTAGCGCT
1 ATATAATGTAATAGGTAGCGCT
* *
179418 -TATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCG-CT
179440 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
179458 TGGTTATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
21 17 0.50
22 1 0.03
23 16 0.47
ACGTcount: A:0.35, C:0.05, G:0.23, T:0.37
Consensus pattern (22 bp):
ATATAATGTAATAGGTAGCGCT
Found at i:179464 original size:23 final size:23
Alignment explanation
Indices: 179396--179466 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
179386 ATAGGTAAAC
* * *
179396 ATATGATGTAATAGGTAG-CGCT
1 ATATAATGTAATAGGTAGTGGTT
*
179418 -TATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GGTT
179440 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGTGGTT
179463 ATAT
1 ATAT
179467 TGTAAAGTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
21 15 0.38
22 1 0.03
23 23 0.57
24 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.39
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGGTT
Found at i:189018 original size:42 final size:42
Alignment explanation
Indices: 188966--189097 Score: 203
Period size: 42 Copynumber: 3.2 Consensus size: 42
188956 TGATGTTAAT
* *
188966 TTTA-TTTAGACTTATCGAGACTTATTAGTGTTATGGTGTTA
1 TTTATTTTAGACTTATTGAGACTTAATAGTGTTATGGTGTTA
*
189007 TTTATTTTAGACTTATTGAGATTTAATAGTGTTATGGTGTTA
1 TTTATTTTAGACTTATTGAGACTTAATAGTGTTATGGTGTTA
* * *
189049 TTTATTTTAGATTTATTGAGACTTAATGGTATTATGGTGTTA
1 TTTATTTTAGACTTATTGAGACTTAATAGTGTTATGGTGTTA
189091 TTTATTT
1 TTTATTT
189098 ACATGTTTAT
Statistics
Matches: 83, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
41 4 0.05
42 79 0.95
ACGTcount: A:0.25, C:0.04, G:0.18, T:0.53
Consensus pattern (42 bp):
TTTATTTTAGACTTATTGAGACTTAATAGTGTTATGGTGTTA
Found at i:194051 original size:36 final size:35
Alignment explanation
Indices: 194011--194142 Score: 183
Period size: 35 Copynumber: 3.7 Consensus size: 35
194001 AATGAATTAT
* * *
194011 GAATTTAGGGTTGATCATGTAATTGAAGTATTTTTG
1 GAATTTGGGGTTTATAATGTAATTGAAGTA-TTTTG
* *
194047 GAATTTGAGGTTTAAAATGTAATTGAAGTATTTTG
1 GAATTTGGGGTTTATAATGTAATTGAAGTATTTTG
* * *
194082 AAATTTGGGGTTTAGAATGTAATTGAAATATTTTG
1 GAATTTGGGGTTTATAATGTAATTGAAGTATTTTG
194117 GAATTTGGGGTTTATAATGTAATTGA
1 GAATTTGGGGTTTATAATGTAATTGA
194143 TGACTATGTT
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
35 60 0.71
36 25 0.29
ACGTcount: A:0.32, C:0.01, G:0.24, T:0.43
Consensus pattern (35 bp):
GAATTTGGGGTTTATAATGTAATTGAAGTATTTTG
Found at i:198380 original size:16 final size:16
Alignment explanation
Indices: 198359--198405 Score: 85
Period size: 16 Copynumber: 2.9 Consensus size: 16
198349 ATTAAACTTT
198359 AAATTTAAAATAATTA
1 AAATTTAAAATAATTA
198375 AAATTTAAAATAATTA
1 AAATTTAAAATAATTA
*
198391 AAATCTAAAATAATT
1 AAATTTAAAATAATT
198406 TAAACCAAAG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATTTAAAATAATTA
Found at i:198389 original size:10 final size:9
Alignment explanation
Indices: 198363--198394 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
198353 AACTTTAAAT
198363 TTAAAATAA
1 TTAAAATAA
198372 TTAAAAT--
1 TTAAAATAA
198379 TTAAAATAA
1 TTAAAATAA
198388 TTAAAAT
1 TTAAAAT
198395 CTAAAATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
TTAAAATAA
Found at i:199878 original size:31 final size:32
Alignment explanation
Indices: 199843--199910 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 32
199833 TGACAATGGA
* *
199843 GGTAGTACTGTGCTTGTGAATAAGAG-GGAAG
1 GGTAGTACTGTGCATGTCAATAAGAGAGGAAG
* *
199874 GGTAGTGCTGTGCATGTCAGTAAGAGAGGAAG
1 GGTAGTACTGTGCATGTCAATAAGAGAGGAAG
199906 GGTAG
1 GGTAG
199911 GCCGAGGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
31 22 0.69
32 10 0.31
ACGTcount: A:0.28, C:0.07, G:0.41, T:0.24
Consensus pattern (32 bp):
GGTAGTACTGTGCATGTCAATAAGAGAGGAAG
Found at i:205064 original size:2 final size:2
Alignment explanation
Indices: 205057--205081 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
205047 GAAATGCTGG
205057 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
205082 TTTACTCTCA
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:215774 original size:44 final size:45
Alignment explanation
Indices: 215687--215776 Score: 137
Period size: 45 Copynumber: 2.0 Consensus size: 45
215677 CAGCTTTGAA
* **
215687 GCACATAGTGATGATGATTTTCACGTATGATGCTATGCAGGAGCT
1 GCACATAGTGATGACGATCGTCACGTATGATGCTATGCAGGAGCT
*
215732 GCACATAGTGATGACGATCGTCAC-TATGGTGCTATGCAGGAGCT
1 GCACATAGTGATGACGATCGTCACGTATGATGCTATGCAGGAGCT
215776 G
1 G
215777 AAAGGTATAG
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 20 0.49
45 21 0.51
ACGTcount: A:0.26, C:0.18, G:0.29, T:0.28
Consensus pattern (45 bp):
GCACATAGTGATGACGATCGTCACGTATGATGCTATGCAGGAGCT
Found at i:221261 original size:23 final size:23
Alignment explanation
Indices: 221231--221279 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
221221 TTCTAGCTAC
221231 TCACGAGTTCTTCGAGTCGAGTA
1 TCACGAGTTCTTCGAGTCGAGTA
221254 TCACGAGTTCTTCGAGTCGAGTA
1 TCACGAGTTCTTCGAGTCGAGTA
221277 TCA
1 TCA
221280 AGTAGTTCGC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (23 bp):
TCACGAGTTCTTCGAGTCGAGTA
Found at i:222168 original size:101 final size:101
Alignment explanation
Indices: 221907--222154 Score: 338
Period size: 101 Copynumber: 2.5 Consensus size: 101
221897 CCTCTACGTA
* * * *
221907 TAGCGGCTCAACACCGTAACAAGCTGATTCCCC-AGCAAAGAAACGCTGATATTAGTGACGTATC
1 TAGCGGCTCAACACCGTAACAGGCCGATTCCCCTAGCAAAGAAACGCTGATATTAATGATGTATC
* *
221971 TAGTCGACCCGATCGAGTTTTACTCACCCTTCTGTC
66 TAGTCAACCCGATCGAGTTTTACTCACCCTTCTATC
** * * * *
222007 TAGAAGTTCAACACCATAACAGGCCGATTCCCCTAGCAAAGAAATGCTGATATTAATGATGTTTC
1 TAGCGGCTCAACACCGTAACAGGCCGATTCCCCTAGCAAAGAAACGCTGATATTAATGATGTATC
*
222072 TAGTCAACCCGGTCGAGTTTTACTCACCCTTCTATAC
66 TAGTCAACCCGATCGAGTTTTACTCACCCTTCTAT-C
* *
222109 -AGCGGCGCAACACCGTAATAGGCCGATTCCCCTAGCAAAGAAACGC
1 TAGCGGCTCAACACCGTAACAGGCCGATTCCCCTAGCAAAGAAACGC
222155 CGCTGCCAAT
Statistics
Matches: 126, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
100 27 0.21
101 98 0.78
102 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (101 bp):
TAGCGGCTCAACACCGTAACAGGCCGATTCCCCTAGCAAAGAAACGCTGATATTAATGATGTATC
TAGTCAACCCGATCGAGTTTTACTCACCCTTCTATC
Found at i:224124 original size:9 final size:11
Alignment explanation
Indices: 224102--224126 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
224092 AACCAAAATT
224102 TATAAATAATA
1 TATAAATAATA
224113 TATAAATAATA
1 TATAAATAATA
224124 TAT
1 TAT
224127 GTTATATATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TATAAATAATA
Found at i:228867 original size:264 final size:265
Alignment explanation
Indices: 228396--228926 Score: 994
Period size: 264 Copynumber: 2.0 Consensus size: 265
228386 TATCAAAAGC
* *
228396 ATCTACACGCGTCCATCTCTCTTTCCTTAATTTTGGGCTATCCCGGCTCCGATTCAAAAATTCTA
1 ATCTACACGCGTCCATCTCTCTTTCCTTAATTTTGGGCTATCCCGACTCCGATTCAAAAAATCTA
*
228461 TACCTTAATCCGAAATCCGACTCAATTTTAAAAAAAAAGATAGATAATTTTGACCTAAACTAATG
66 TACCTTAATCCGAAATCCGACCCAATTTTAAAAAAAAAGATAGATAATTTTGACCTAAACTAATG
228526 AACATCATAACATTATCGTTTTACAAAGATGAGACTAGAATTTAACCATTTAAGGGTGTTAAACT
131 AACATCATAACATTATCGTTTTACAAAGATGAGACTAGAATTTAACCATTTAAGGGTGTTAAACT
228591 CTTGAGATATTGGGTTCAAGCATCATGAATGTCAGAGATACAAATGCTTAATATCAAATCGTTGA
196 CTTGAGATATTGGGTTCAAGCATCATGAATGTCAGAGATACAAATGCTTAATATCAAATCGTTGA
228656 GAGAT
261 GAGAT
228661 ATCTACACGCGTCCATCTCTCTTTCCTTAATTTTGGGCTATCCCGACTCCGATTCAAAAAAAT-T
1 ATCTACACGCGTCCATCTCTCTTTCCTTAATTTTGGGCTATCCCGACTCCGATTC-AAAAAATCT
*
228725 ATACCTTAATCTGAAATCCGACCCAATTTT-AAAAAAAAGATAGATAATTTTGACCTAAACTAAT
65 ATACCTTAATCCGAAATCCGACCCAATTTTAAAAAAAAAGATAGATAATTTTGACCTAAACTAAT
*
228789 GAACATCATAACATTATCGTTTTACAAAGATGAGACTCGAATTTAACCATTTAAGGGTGTTAAAC
130 GAACATCATAACATTATCGTTTTACAAAGATGAGACTAGAATTTAACCATTTAAGGGTGTTAAAC
228854 TCTTGAGATATTGGGTTCAAGCATCATGAATGTCAGAGATACAAATGCTTAATATCAAATCGTTG
195 TCTTGAGATATTGGGTTCAAGCATCATGAATGTCAGAGATACAAATGCTTAATATCAAATCGTTG
228919 AGAGAT
260 AGAGAT
228925 AT
1 AT
228927 TTTTAAACAT
Statistics
Matches: 260, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
264 171 0.66
265 83 0.32
266 6 0.02
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (265 bp):
ATCTACACGCGTCCATCTCTCTTTCCTTAATTTTGGGCTATCCCGACTCCGATTCAAAAAATCTA
TACCTTAATCCGAAATCCGACCCAATTTTAAAAAAAAAGATAGATAATTTTGACCTAAACTAATG
AACATCATAACATTATCGTTTTACAAAGATGAGACTAGAATTTAACCATTTAAGGGTGTTAAACT
CTTGAGATATTGGGTTCAAGCATCATGAATGTCAGAGATACAAATGCTTAATATCAAATCGTTGA
GAGAT
Found at i:230196 original size:20 final size:20
Alignment explanation
Indices: 230173--230211 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
230163 TTAAAATAAT
*
230173 AATAATTTACAATTAATTTA
1 AATAATATACAATTAATTTA
*
230193 AATAATATATAATTAATTT
1 AATAATATACAATTAATTT
230212 GATTCAAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (20 bp):
AATAATATACAATTAATTTA
Found at i:232763 original size:18 final size:18
Alignment explanation
Indices: 232740--232774 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
232730 AGATTTCGAA
*
232740 ATATATTTAATGATATAT
1 ATATATTTAATAATATAT
232758 ATATATTTAATAATATA
1 ATATATTTAATAATATA
232775 AAATTAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (18 bp):
ATATATTTAATAATATAT
Found at i:234302 original size:34 final size:34
Alignment explanation
Indices: 234264--234370 Score: 142
Period size: 34 Copynumber: 3.1 Consensus size: 34
234254 TAAATTGAAA
* * *
234264 TTTAATGTTAAATTTCGAATACTATAATTTATAT
1 TTTAATTTTAAATTTAGAATAATATAATTTATAT
* * *
234298 TTTAATTTTAAATTTTGAATAATATTATTTTTAT
1 TTTAATTTTAAATTTAGAATAATATAATTTATAT
* *
234332 TTTTATTTTAAATTTAGAATAATATAATTTGTAT
1 TTTAATTTTAAATTTAGAATAATATAATTTATAT
234366 TTTAA
1 TTTAA
234371 AAACATTTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
34 63 1.00
ACGTcount: A:0.37, C:0.02, G:0.05, T:0.56
Consensus pattern (34 bp):
TTTAATTTTAAATTTAGAATAATATAATTTATAT
Found at i:234921 original size:21 final size:20
Alignment explanation
Indices: 234894--235005 Score: 152
Period size: 21 Copynumber: 5.3 Consensus size: 20
234884 GGTATAAAAC
*
234894 CCTGCGGGCTAGGCATGTAA
1 CCTGCGGGCTAGGAATGTAA
234914 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
234935 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
234956 CCTGGCGGGCTAGGAATGTAA
1 CCT-GCGGGCTAGGAATGTAA
*
234977 CCCTGCGGGCTCGGAATGTAA
1 -CCTGCGGGCTAGGAATGTAA
234998 CCCTGCGG
1 -CCTGCGG
235006 AGATGGCATA
Statistics
Matches: 84, Mismatches: 4, Indels: 7
0.88 0.04 0.07
Matches are distributed among these distances:
20 6 0.07
21 72 0.86
22 6 0.07
ACGTcount: A:0.20, C:0.26, G:0.36, T:0.19
Consensus pattern (20 bp):
CCTGCGGGCTAGGAATGTAA
Found at i:234954 original size:42 final size:42
Alignment explanation
Indices: 234891--234999 Score: 200
Period size: 42 Copynumber: 2.6 Consensus size: 42
234881 TATGGTATAA
* *
234891 AACCCTGCGGGCTAGGCATGTAACCTGGCGGGCTAGGAATGT
1 AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
234933 AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
1 AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
234975 AACCCTGCGGGCTCGGAATGTAACC
1 AACCCTGCGGGCTCGGAATGTAACC
235000 CTGCGGAGAT
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 65 1.00
ACGTcount: A:0.22, C:0.26, G:0.34, T:0.18
Consensus pattern (42 bp):
AACCCTGCGGGCTCGGAATGTAACCTGGCGGGCTAGGAATGT
Done.