Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002628.1 Hibiscus syriacus cultivar Beakdansim tig00005356_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: 279074
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:31 original size:23 final size:23
Alignment explanation
Indices: 1--66 Score: 123
Period size: 23 Copynumber: 2.9 Consensus size: 23
1 GTAATAGGTAGCGTTTATATAAT
1 GTAATAGGTAGCGTTTATATAAT
24 GTAATAGGTAGCGTTTATATAAT
1 GTAATAGGTAGCGTTTATATAAT
*
47 GTAATAGGTAGTGTTTATAT
1 GTAATAGGTAGCGTTTATAT
67 TGTAAATTAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.33, C:0.03, G:0.23, T:0.41
Consensus pattern (23 bp):
GTAATAGGTAGCGTTTATATAAT
Found at i:450 original size:23 final size:22
Alignment explanation
Indices: 405--450 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
395 ATTACATAAC
**
405 TTTAAAAAAAGTATCGATTCTT
1 TTTAAAAAAAGTATCGACACTT
*
427 TTTATAAAAAAGTATGGACACTT
1 TTTA-AAAAAAGTATCGACACTT
450 T
1 T
451 CAACATATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.41, C:0.09, G:0.11, T:0.39
Consensus pattern (22 bp):
TTTAAAAAAAGTATCGACACTT
Found at i:626 original size:16 final size:15
Alignment explanation
Indices: 605--645 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
595 TAATATAACA
605 TAACCGGTCTAAATTT
1 TAACCGGTC-AAATTT
**
621 TAACCGGTCACTTTT
1 TAACCGGTCAAATTT
636 TAACCGGTCA
1 TAACCGGTCA
646 CGTATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 14 0.61
16 9 0.39
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.34
Consensus pattern (15 bp):
TAACCGGTCAAATTT
Found at i:638 original size:15 final size:15
Alignment explanation
Indices: 618--646 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
608 CCGGTCTAAA
618 TTTTAACCGGTCACT
1 TTTTAACCGGTCACT
633 TTTTAACCGGTCAC
1 TTTTAACCGGTCAC
647 GTATATTAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.38
Consensus pattern (15 bp):
TTTTAACCGGTCACT
Found at i:657 original size:17 final size:15
Alignment explanation
Indices: 620--658 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
610 GGTCTAAATT
*
620 TTAACCGGTCACTTT
1 TTAACCGGTCACTTA
635 TTAACCGGTCACGTATA
1 TTAACCGGTCAC-T-TA
652 TTAACCG
1 TTAACCG
659 TTTTTTAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 12 0.57
16 1 0.05
17 8 0.38
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (15 bp):
TTAACCGGTCACTTA
Found at i:8875 original size:66 final size:66
Alignment explanation
Indices: 8797--8925 Score: 170
Period size: 66 Copynumber: 2.0 Consensus size: 66
8787 TGTCTGTCTG
* * * *
8797 TTCATGTATATAATATTTATCACATTTCACATTATCATACGTGGATATTATTTTGA-ATAAAATT
1 TTCATGCATATAATATTAATCACATGTCACATTATCATACATGGATATTATTTT-ATATAAAATT
8861 TA
65 TA
* * **
8863 TTCATGCATATAATATTAATCACATGTCATATTATTATTTATGGATATTATTTTATATAAAAT
1 TTCATGCATATAATATTAATCACATGTCACATTATCATACATGGATATTATTTTATATAAAAT
8926 AAAAGATTGG
Statistics
Matches: 54, Mismatches: 8, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
65 1 0.02
66 53 0.98
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (66 bp):
TTCATGCATATAATATTAATCACATGTCACATTATCATACATGGATATTATTTTATATAAAATTT
A
Found at i:9257 original size:28 final size:28
Alignment explanation
Indices: 9214--9268 Score: 83
Period size: 28 Copynumber: 2.0 Consensus size: 28
9204 TGTCCGTTAT
* * *
9214 ATTATGTTGTCGAGCTAGTGCTTAAAAC
1 ATTATGTTGTCAAGCTAATCCTTAAAAC
9242 ATTATGTTGTCAAGCTAATCCTTAAAA
1 ATTATGTTGTCAAGCTAATCCTTAAAA
9269 GGAATGGCGG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (28 bp):
ATTATGTTGTCAAGCTAATCCTTAAAAC
Found at i:12918 original size:17 final size:16
Alignment explanation
Indices: 12896--12941 Score: 56
Period size: 17 Copynumber: 2.8 Consensus size: 16
12886 TTTAAGAATC
*
12896 TTTAATCTTTTTTTATT
1 TTTAAT-TTTTTTTATA
*
12913 TTTAATATTTTATTATA
1 TTTAAT-TTTTTTTATA
12930 TTTAATTTTTTT
1 TTTAATTTTTTT
12942 CACAAAAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (16 bp):
TTTAATTTTTTTTATA
Found at i:26253 original size:2 final size:2
Alignment explanation
Indices: 26246--26282 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
26236 CAATTTATTT
26246 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
26283 TAAATTCTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26711 original size:13 final size:13
Alignment explanation
Indices: 26693--26719 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
26683 AACCTATTAA
26693 TAAAAATAAATTC
1 TAAAAATAAATTC
26706 TAAAAATAAATTC
1 TAAAAATAAATTC
26719 T
1 T
26720 TTCCATCGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.33
Consensus pattern (13 bp):
TAAAAATAAATTC
Found at i:28858 original size:46 final size:46
Alignment explanation
Indices: 28791--28886 Score: 192
Period size: 46 Copynumber: 2.1 Consensus size: 46
28781 GGGATCGCTA
28791 GTCTTCATAAGCAGGAAATGTTCTGTTCAAATGTTGAATTAACCTT
1 GTCTTCATAAGCAGGAAATGTTCTGTTCAAATGTTGAATTAACCTT
28837 GTCTTCATAAGCAGGAAATGTTCTGTTCAAATGTTGAATTAACCTT
1 GTCTTCATAAGCAGGAAATGTTCTGTTCAAATGTTGAATTAACCTT
28883 GTCT
1 GTCT
28887 GTATCATTGT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 50 1.00
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.38
Consensus pattern (46 bp):
GTCTTCATAAGCAGGAAATGTTCTGTTCAAATGTTGAATTAACCTT
Found at i:29602 original size:58 final size:56
Alignment explanation
Indices: 29508--29630 Score: 167
Period size: 58 Copynumber: 2.2 Consensus size: 56
29498 GTTGTGTAAT
* *
29508 CTTTGTTTCGAATGACAACATGCAGTGCAGAAAACTTCTTTGTGTTCGGTTTTAGACG
1 CTTTGTTTCGAATGACAACATGCAGTGCAGAAAAC-T-TATGTGTTCAGTTTTAGACG
* **
29566 CTTTGTTTCGAATGAC-ACTATGCAGTGCAGAGAACTTATGTGTTCAGTTTTAGGTG
1 CTTTGTTTCGAATGACAAC-ATGCAGTGCAGAAAACTTATGTGTTCAGTTTTAGACG
29622 CTTTGTTTC
1 CTTTGTTTC
29631 AGGGTCACGC
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
56 25 0.42
57 3 0.05
58 31 0.53
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (56 bp):
CTTTGTTTCGAATGACAACATGCAGTGCAGAAAACTTATGTGTTCAGTTTTAGACG
Found at i:30870 original size:59 final size:59
Alignment explanation
Indices: 30778--30899 Score: 244
Period size: 59 Copynumber: 2.1 Consensus size: 59
30768 CAGAAAATGA
30778 TTCAATGTATTCTTGACTCTCCCACAGTAGGATCTGGTAATCTCTATCTATATCCTTAT
1 TTCAATGTATTCTTGACTCTCCCACAGTAGGATCTGGTAATCTCTATCTATATCCTTAT
30837 TTCAATGTATTCTTGACTCTCCCACAGTAGGATCTGGTAATCTCTATCTATATCCTTAT
1 TTCAATGTATTCTTGACTCTCCCACAGTAGGATCTGGTAATCTCTATCTATATCCTTAT
30896 TTCA
1 TTCA
30900 GTTAAATTAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (59 bp):
TTCAATGTATTCTTGACTCTCCCACAGTAGGATCTGGTAATCTCTATCTATATCCTTAT
Found at i:31424 original size:34 final size:34
Alignment explanation
Indices: 31378--31442 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
31368 GGTGTCTGCA
31378 AGTTAAAAAAAGAATTACTTGAAGAAAGCTATTC
1 AGTTAAAAAAAGAATTACTTGAAGAAAGCTATTC
*
31412 AGTTAAAGAAAGAATTACTTGAAGAAAGCTA
1 AGTTAAAAAAAGAATTACTTGAAGAAAGCTA
31443 GTTGAATAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.51, C:0.08, G:0.17, T:0.25
Consensus pattern (34 bp):
AGTTAAAAAAAGAATTACTTGAAGAAAGCTATTC
Found at i:34217 original size:19 final size:20
Alignment explanation
Indices: 34185--34252 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 20
34175 AAATTTTCAT
*
34185 AATATATATATATTTGTAGA
1 AATATATATATATTTATAGA
*
34205 AATAT-TATTTATTTATAGA
1 AATATATATATATTTATAGA
*** * *
34224 TGCAT-TTTATTTTTATAGA
1 AATATATATATATTTATAGA
34243 AATATATATA
1 AATATATATA
34253 ATAGAAGGTA
Statistics
Matches: 35, Mismatches: 12, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
19 27 0.77
20 8 0.23
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.50
Consensus pattern (20 bp):
AATATATATATATTTATAGA
Found at i:39386 original size:20 final size:20
Alignment explanation
Indices: 39335--39387 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
39325 AACTTAATAT
*
39335 TATTATTTTTAAATATTAAAA
1 TATTATTTTT-ATTATTAAAA
*
39356 TAATT-TATTTATTATTAAAA
1 T-ATTATTTTTATTATTAAAA
39376 TATTATTTTTAT
1 TATTATTTTTAT
39388 AATTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 3 0.11
20 16 0.59
21 5 0.19
22 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTATTTTTATTATTAAAA
Found at i:39571 original size:22 final size:24
Alignment explanation
Indices: 39531--39588 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
39521 ATTGATTATT
* *
39531 TTATTATAATATTAAAAATA-TAA
1 TTATTATATTTTTAAAAATATTAA
*
39554 -TATTATATTTTTAGAAATATTAA
1 TTATTATATTTTTAAAAATATTAA
*
39577 TTAATATATTTT
1 TTATTATATTTT
39589 AAATATTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 16 0.55
23 3 0.10
24 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTATTATATTTTTAAAAATATTAA
Found at i:46959 original size:2 final size:2
Alignment explanation
Indices: 46952--46984 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
46942 ATCAATTTAT
46952 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
46985 TAAATTTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50244 original size:58 final size:56
Alignment explanation
Indices: 50150--50272 Score: 167
Period size: 58 Copynumber: 2.2 Consensus size: 56
50140 GTTGTGTAAT
* *
50150 CTTTGTTTCGAATGACAACATGCAGTGCAGAAAACTTCTTTGTGTTCGGTTTTAGACG
1 CTTTGTTTCGAATGACAACATGCAGTGCAGAAAAC-T-TATGTGTTCAGTTTTAGACG
* **
50208 CTTTGTTTCGAATGAC-ACTATGCAGTGCAGAGAACTTATGTGTTCAGTTTTAGGTG
1 CTTTGTTTCGAATGACAAC-ATGCAGTGCAGAAAACTTATGTGTTCAGTTTTAGACG
50264 CTTTGTTTC
1 CTTTGTTTC
50273 AGGGTCACGC
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
56 25 0.42
57 3 0.05
58 31 0.53
ACGTcount: A:0.22, C:0.16, G:0.23, T:0.39
Consensus pattern (56 bp):
CTTTGTTTCGAATGACAACATGCAGTGCAGAAAACTTATGTGTTCAGTTTTAGACG
Found at i:51510 original size:59 final size:59
Alignment explanation
Indices: 51418--51539 Score: 244
Period size: 59 Copynumber: 2.1 Consensus size: 59
51408 CAGAAAATGA
51418 TTCAATGTATTCTTGACTCTCCCACAGTAGGATCTGGTAATCTCTATCTATATCCTTAT
1 TTCAATGTATTCTTGACTCTCCCACAGTAGGATCTGGTAATCTCTATCTATATCCTTAT
51477 TTCAATGTATTCTTGACTCTCCCACAGTAGGATCTGGTAATCTCTATCTATATCCTTAT
1 TTCAATGTATTCTTGACTCTCCCACAGTAGGATCTGGTAATCTCTATCTATATCCTTAT
51536 TTCA
1 TTCA
51540 GTTAAATTAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 63 1.00
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (59 bp):
TTCAATGTATTCTTGACTCTCCCACAGTAGGATCTGGTAATCTCTATCTATATCCTTAT
Found at i:52064 original size:34 final size:34
Alignment explanation
Indices: 52018--52082 Score: 121
Period size: 34 Copynumber: 1.9 Consensus size: 34
52008 GGTGTCTGCA
52018 AGTTAAAAAAAGAATTACTTGAAGAAAGCTATTC
1 AGTTAAAAAAAGAATTACTTGAAGAAAGCTATTC
*
52052 AGTTAAAGAAAGAATTACTTGAAGAAAGCTA
1 AGTTAAAAAAAGAATTACTTGAAGAAAGCTA
52083 GTTGAATAGG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 30 1.00
ACGTcount: A:0.51, C:0.08, G:0.17, T:0.25
Consensus pattern (34 bp):
AGTTAAAAAAAGAATTACTTGAAGAAAGCTATTC
Found at i:54857 original size:19 final size:20
Alignment explanation
Indices: 54825--54892 Score: 59
Period size: 19 Copynumber: 3.5 Consensus size: 20
54815 AAATTTTCAT
*
54825 AATATATATATATTTGTAGA
1 AATATATATATATTTATAGA
*
54845 AATAT-TATTTATTTATAGA
1 AATATATATATATTTATAGA
*** * *
54864 TGCAT-TTTATTTTTATAGA
1 AATATATATATATTTATAGA
54883 AATATATATA
1 AATATATATA
54893 ATAGAAGGTA
Statistics
Matches: 35, Mismatches: 12, Indels: 2
0.71 0.24 0.04
Matches are distributed among these distances:
19 27 0.77
20 8 0.23
ACGTcount: A:0.41, C:0.01, G:0.07, T:0.50
Consensus pattern (20 bp):
AATATATATATATTTATAGA
Found at i:60022 original size:20 final size:20
Alignment explanation
Indices: 59971--60023 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
59961 AACTTAATAT
*
59971 TATTATTTTTAAATATTAAAA
1 TATTATTTTT-ATTATTAAAA
*
59992 TAATT-TATTTATTATTAAAA
1 T-ATTATTTTTATTATTAAAA
60012 TATTATTTTTAT
1 TATTATTTTTAT
60024 AATTTTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 3 0.11
20 16 0.59
21 5 0.19
22 3 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTATTTTTATTATTAAAA
Found at i:60214 original size:22 final size:24
Alignment explanation
Indices: 60174--60231 Score: 66
Period size: 22 Copynumber: 2.5 Consensus size: 24
60164 ATTGATTATT
* *
60174 TTATTATAATATTAAAAATA-TAA
1 TTATTATATTTTTAAAAATATTAA
*
60197 -TATTATATTTTTAGAAATATTAA
1 TTATTATATTTTTAAAAATATTAA
*
60220 TTAATATATTTT
1 TTATTATATTTT
60232 AAATATTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 16 0.55
23 3 0.10
24 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (24 bp):
TTATTATATTTTTAAAAATATTAA
Found at i:68643 original size:15 final size:15
Alignment explanation
Indices: 68625--68660 Score: 63
Period size: 15 Copynumber: 2.4 Consensus size: 15
68615 TCTGAAAATT
68625 GTTCTATGTGAAAAC
1 GTTCTATGTGAAAAC
*
68640 GTTCTATGTGAAAAT
1 GTTCTATGTGAAAAC
68655 GTTCTA
1 GTTCTA
68661 CACAAATGTG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.11, G:0.19, T:0.39
Consensus pattern (15 bp):
GTTCTATGTGAAAAC
Found at i:68852 original size:24 final size:23
Alignment explanation
Indices: 68816--68860 Score: 54
Period size: 24 Copynumber: 1.9 Consensus size: 23
68806 TTTCTACGTG
*
68816 GTCCTCCGGGACAAATTCTATGCA
1 GTCCTCCGAGACAAA-TCTATGCA
* *
68840 GTCCTTCGAGACATATCTATG
1 GTCCTCCGAGACAAATCTATG
68861 TGGCACTTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
23 6 0.33
24 12 0.67
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (23 bp):
GTCCTCCGAGACAAATCTATGCA
Found at i:74733 original size:23 final size:23
Alignment explanation
Indices: 74683--74736 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
74673 TAAATGGTTG
*
74683 TTATTTAATTTTATAATTAGATG
1 TTATTTAATTTTATAATTAGATA
* *
74706 CTATTTAATTTTATAATTATATA
1 TTATTTAATTTTATAATTAGATA
74729 TTATTTAA
1 TTATTTAA
74737 ATTAATTATA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (23 bp):
TTATTTAATTTTATAATTAGATA
Found at i:76062 original size:35 final size:35
Alignment explanation
Indices: 76016--76091 Score: 125
Period size: 35 Copynumber: 2.2 Consensus size: 35
76006 AAAACAATCC
* *
76016 TCAATTTCATTCTAAACCCCAATTTCCAAAGTAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
*
76051 TCAATTTCATTCTAAACCCTAAATTCCAAAATAAT
1 TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
76086 TCAATT
1 TCAATT
76092 AAATTCAATT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.39, C:0.24, G:0.01, T:0.36
Consensus pattern (35 bp):
TCAATTTCATTCTAAACCCCAAATTCCAAAATAAT
Found at i:76640 original size:130 final size:130
Alignment explanation
Indices: 76488--76735 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
76478 TATTTATATA
* **
76488 ATCAATTTGGTCCTAAATTAAATAGAATTTAATAAATTAATCATTTAATTAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
76553 TTAGCACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTAATTATTTATACATCCT
66 TTAACACATGATCATGACACATGTCATTGGCGACACATGTCACCACCTAATTATTTATACATCCT
76618 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
1 ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
* * *
76683 TTAACACATGATCATGATATATGTTATTGGCGACACATGTCACCACCTAATTA
66 TTAACACATGATCATGACACATGTCATTGGCGACACATGTCACCACCTAATTA
76736 GAAGAAAATT
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (130 bp):
ATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAACCAGGATCTGACATGTG
TTAACACATGATCATGACACATGTCATTGGCGACACATGTCACCACCTAATTATTTATACATCCT
Found at i:77091 original size:28 final size:27
Alignment explanation
Indices: 77060--77122 Score: 63
Period size: 28 Copynumber: 2.3 Consensus size: 27
77050 AGTTGATACA
*
77060 ATATTTTAAAAGAATAAATTTAAGATTT
1 ATATTTTAAAA-AATAAATTTAAGAATT
** * *
77088 ATATATTTTTAAACTAAATTTAATAATT
1 ATAT-TTTAAAAAATAAATTTAAGAATT
77116 ATATTTT
1 ATATTTT
77123 TCATATTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 3 0.10
28 21 0.72
29 5 0.17
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
ATATTTTAAAAAATAAATTTAAGAATT
Found at i:77221 original size:16 final size:18
Alignment explanation
Indices: 77200--77233 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
77190 ATTTCTTATT
77200 AAAAATA-AAAT-ATTCA
1 AAAAATATAAATGATTCA
77216 AAAAATATAAATGATTCA
1 AAAAATATAAATGATTCA
77234 TACATTAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 7 0.44
17 4 0.25
18 5 0.31
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
AAAAATATAAATGATTCA
Found at i:79091 original size:23 final size:23
Alignment explanation
Indices: 79057--79135 Score: 104
Period size: 23 Copynumber: 3.4 Consensus size: 23
79047 TAGTCGAAGG
*
79057 TTCTACGCGGTCCTTCGGGACAA
1 TTCTACGTGGTCCTTCGGGACAA
79080 TTCTACGTGGTCCTTCGGGACAA
1 TTCTACGTGGTCCTTCGGGACAA
* * * *
79103 TACTATGTGGTCCTTCGAGACAT
1 TTCTACGTGGTCCTTCGGGACAA
*
79126 TTCTATGTGG
1 TTCTACGTGG
79136 CACTTCGATG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.33
Consensus pattern (23 bp):
TTCTACGTGGTCCTTCGGGACAA
Found at i:79141 original size:23 final size:23
Alignment explanation
Indices: 79065--79143 Score: 97
Period size: 23 Copynumber: 3.4 Consensus size: 23
79055 GGTTCTACGC
* *
79065 GGTCCTTCGGGACAATTCTACGT
1 GGTCCTTCGAGACAATTCTATGT
* *
79088 GGTCCTTCGGGACAATACTATGT
1 GGTCCTTCGAGACAATTCTATGT
*
79111 GGTCCTTCGAGACATTTCTATGT
1 GGTCCTTCGAGACAATTCTATGT
79134 GG-CACTTCGA
1 GGTC-CTTCGA
79144 TGTATATTCT
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
22 1 0.02
23 49 0.98
ACGTcount: A:0.19, C:0.24, G:0.25, T:0.32
Consensus pattern (23 bp):
GGTCCTTCGAGACAATTCTATGT
Found at i:80883 original size:23 final size:23
Alignment explanation
Indices: 80851--80905 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
80841 ATTTTTTTAA
*
80851 AAAAAAAAAGAAGAAGAAAAAGG
1 AAAAAAAAAGAAAAAGAAAAAGG
* *
80874 ACAAAAAAAGAAAAAGAAAAAGT
1 AAAAAAAAAGAAAAAGAAAAAGG
80897 AAAAAAAAA
1 AAAAAAAAA
80906 AGTCAAAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.82, C:0.02, G:0.15, T:0.02
Consensus pattern (23 bp):
AAAAAAAAAGAAAAAGAAAAAGG
Found at i:80887 original size:6 final size:6
Alignment explanation
Indices: 80849--80907 Score: 59
Period size: 6 Copynumber: 10.0 Consensus size: 6
80839 CTATTTTTTT
* * * *
80849 AAAAAA AAAAAG AAGAAG AAAAAG GACAA- AAAAAG AAAAAG AAAAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG
80896 TAAAAA- AAAAAG
1 -AAAAAG AAAAAG
80908 TCAAAAAAAT
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
5 8 0.19
6 30 0.70
7 5 0.12
ACGTcount: A:0.81, C:0.02, G:0.15, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:80915 original size:13 final size:12
Alignment explanation
Indices: 80850--80916 Score: 59
Period size: 12 Copynumber: 5.6 Consensus size: 12
80840 TATTTTTTTA
80850 AAAAAAAAAAG-
1 AAAAAAAAAAGT
*
80861 AAGAAGAAAAAG-
1 AA-AAAAAAAAGT
* *
80873 GACAAAAAAAG-
1 AAAAAAAAAAGT
80884 AAAAAGAAAAAGT
1 AAAAA-AAAAAGT
80897 AAAAAAAAAAGT
1 AAAAAAAAAAGT
80909 CAAAAAAA
1 -AAAAAAA
80917 TTGAAAACTT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
11 12 0.26
12 22 0.48
13 12 0.26
ACGTcount: A:0.81, C:0.03, G:0.13, T:0.03
Consensus pattern (12 bp):
AAAAAAAAAAGT
Found at i:85014 original size:22 final size:22
Alignment explanation
Indices: 84973--85040 Score: 127
Period size: 22 Copynumber: 3.0 Consensus size: 22
84963 CTCGTATAAA
84973 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
84996 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
85018 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
85040 T
1 T
85041 ATGTCCATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
22 33 0.73
23 12 0.27
ACGTcount: A:0.26, C:0.28, G:0.26, T:0.19
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:85299 original size:30 final size:30
Alignment explanation
Indices: 85254--85312 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
85244 ATCGCGTAGT
* *
85254 CATATTATTTCCATACCTTTATCACATAGA
1 CATATCATTTACATACCTTTATCACATAGA
85284 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
85313 CTCATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGA
Found at i:85826 original size:66 final size:67
Alignment explanation
Indices: 85679--85851 Score: 224
Period size: 67 Copynumber: 2.6 Consensus size: 67
85669 TTTTTCTCAT
* * *
85679 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGGTATCGGTT-CCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
85744 TGA
65 TGA
* * * *
85747 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTT
1 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
85811 GA
66 GA
* *
85813 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCCTG--GGGGTACCGATTCCCCT
85852 AACCCAGAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 6 0.06
66 19 0.20
67 57 0.61
68 12 0.13
ACGTcount: A:0.17, C:0.27, G:0.28, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:91930 original size:22 final size:22
Alignment explanation
Indices: 91888--91976 Score: 133
Period size: 22 Copynumber: 4.0 Consensus size: 22
91878 CGTATAAATG
91888 CACCGAAGTGCCCCGTAGAATTA
1 CACCGAAGTG-CCCGTAGAATTA
* *
91911 CACCGAAGTGCCTGTAGAATTG
1 CACCGAAGTGCCCGTAGAATTA
* *
91933 CACCGAAGTGCCTGTAGAATTG
1 CACCGAAGTGCCCGTAGAATTA
91955 CACCGAAGTGCCCGTAGAATTA
1 CACCGAAGTGCCCGTAGAATTA
91977 TGTCCATAAG
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
22 52 0.84
23 10 0.16
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (22 bp):
CACCGAAGTGCCCGTAGAATTA
Found at i:92234 original size:30 final size:30
Alignment explanation
Indices: 92189--92247 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
92179 ATCGCGTAGT
* *
92189 CATATTATTTCCATACCTTTATCACATAGA
1 CATATCATTTACATACCTTTATCACATAGA
92219 CATATCATTTACATACCTTTATCACATAG
1 CATATCATTTACATACCTTTATCACATAG
92248 CTCATATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.34, C:0.24, G:0.03, T:0.39
Consensus pattern (30 bp):
CATATCATTTACATACCTTTATCACATAGA
Found at i:92760 original size:66 final size:67
Alignment explanation
Indices: 92614--92786 Score: 224
Period size: 67 Copynumber: 2.6 Consensus size: 67
92604 TTTTTCTCAT
* * * *
92614 GGGGGAATCGGTTCCCCCCCTGGGGGTATCGATTCCCCTCAAGCAATCTGGAATTTCATATACGA
1 GGGGGTATCGGTT-CCCCCTTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGA
92679 TGA
65 TGA
* * * *
92682 GGGGGTATCGGTTCCCCCTTGGGGGTACCGATTCCCCTCTAGCATTCTGGAAATTCAT-TTCGTT
1 GGGGGTATCGGTTCCCCCTTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
92746 GA
66 GA
*
92748 GGGGGTATCGGTT-CCCCTTGAATGGGTACCGATTCCCCT
1 GGGGGTATCGGTTCCCCCTTG--GGGGTACCGATTCCCCT
92787 AACCCAGAAA
Statistics
Matches: 94, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 7 0.07
66 19 0.20
67 56 0.60
68 12 0.13
ACGTcount: A:0.17, C:0.27, G:0.28, T:0.28
Consensus pattern (67 bp):
GGGGGTATCGGTTCCCCCTTGGGGGTACCGATTCCCCTCAAGCAATCTGGAAATTCATATACGAT
GA
Found at i:93656 original size:12 final size:11
Alignment explanation
Indices: 93627--93660 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
93617 ATTTTTTATA
93627 TATCTTGTTTT
1 TATCTTGTTTT
*
93638 AATCTTGTTTCT
1 TATCTTGTTT-T
93650 TATCTTGTTTT
1 TATCTTGTTTT
93661 CAGCACCAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
11 10 0.50
12 10 0.50
ACGTcount: A:0.12, C:0.12, G:0.09, T:0.68
Consensus pattern (11 bp):
TATCTTGTTTT
Found at i:96846 original size:15 final size:15
Alignment explanation
Indices: 96826--96855 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
96816 CTCTTTCAAA
96826 ATTTTATAAGTTCGT
1 ATTTTATAAGTTCGT
96841 ATTTTATAAGTTCGT
1 ATTTTATAAGTTCGT
96856 TTAACATAAC
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:0.27, C:0.07, G:0.13, T:0.53
Consensus pattern (15 bp):
ATTTTATAAGTTCGT
Found at i:100850 original size:28 final size:28
Alignment explanation
Indices: 100818--100872 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
100808 TTGGCTAATG
100818 GCCAATACATGTTACTAATGTAACATTA
1 GCCAATACATGTTACTAATGTAACATTA
100846 GCCAATACATGTTACTAATGTAACATT
1 GCCAATACATGTTACTAATGTAACATT
100873 TTTACATTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.38, C:0.18, G:0.11, T:0.33
Consensus pattern (28 bp):
GCCAATACATGTTACTAATGTAACATTA
Found at i:102587 original size:17 final size:18
Alignment explanation
Indices: 102565--102601 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
102555 CAAAATGGAT
102565 TAACTTTT-AATTAAAAA
1 TAACTTTTAAATTAAAAA
*
102582 TAACTTTTAAATTAATAA
1 TAACTTTTAAATTAAAAA
102600 TA
1 TA
102602 TTTTATTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
TAACTTTTAAATTAAAAA
Found at i:103691 original size:3 final size:3
Alignment explanation
Indices: 103683--103712 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
103673 AAAATAAATA
103683 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
103713 GGTTGACTTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:107704 original size:16 final size:16
Alignment explanation
Indices: 107683--107775 Score: 168
Period size: 16 Copynumber: 5.8 Consensus size: 16
107673 TAATAAATAA
*
107683 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
107699 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
107715 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
107731 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
107747 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
107763 ACGAACATAAACG
1 ACGAACATAAACG
107776 TTAGAAACCC
Statistics
Matches: 74, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 74 1.00
ACGTcount: A:0.56, C:0.23, G:0.13, T:0.09
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:111467 original size:4 final size:4
Alignment explanation
Indices: 111458--111522 Score: 130
Period size: 4 Copynumber: 16.2 Consensus size: 4
111448 CCCCCAAAAC
111458 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA ATAA
111506 ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA A
111523 AAGTTTGTCG
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 61 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAA
Found at i:112056 original size:25 final size:25
Alignment explanation
Indices: 112023--112072 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
112013 AAATTCAGAG
112023 TAATATTATTTAATATTTAA-ATTAT
1 TAATATTATTTAAT-TTTAATATTAT
* *
112048 TAATTTTATTTTATTTTAATATTAT
1 TAATATTATTTAATTTTAATATTAT
112073 GTCGTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 5 0.23
25 17 0.77
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TAATATTATTTAATTTTAATATTAT
Found at i:112841 original size:23 final size:23
Alignment explanation
Indices: 112815--112904 Score: 71
Period size: 25 Copynumber: 3.8 Consensus size: 23
112805 TTTGATCTGT
112815 TTTCTTTCTTCTTCTTCTTTTCC
1 TTTCTTTCTTCTTCTTCTTTTCC
* *
112838 TTTCTTTCTTTTTCTTTTCTTTTGC
1 TTTCTTTCTTCTTC--TTCTTTTCC
*
112863 TTTCTCTTTTTCTCTCTAT-TTTTCCC
1 TTTCT-TTCTTCT-TCT-TCTTTT-CC
112889 TTT-TTT-TTC-TCTTCTT
1 TTTCTTTCTTCTTCTTCTT
112905 CCTTTTTTCT
Statistics
Matches: 55, Mismatches: 5, Indels: 16
0.72 0.07 0.21
Matches are distributed among these distances:
20 1 0.02
21 5 0.09
23 16 0.29
24 2 0.04
25 19 0.35
26 10 0.18
27 2 0.04
ACGTcount: A:0.01, C:0.26, G:0.01, T:0.72
Consensus pattern (23 bp):
TTTCTTTCTTCTTCTTCTTTTCC
Found at i:114357 original size:2 final size:2
Alignment explanation
Indices: 114350--114403 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
114340 AAATGCATGG
114350 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
114392 AT AT AT AT AT AT
1 AT AT AT AT AT AT
114404 GATTGGTCTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:115873 original size:23 final size:23
Alignment explanation
Indices: 115839--115882 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
115829 ATTACATATA
115839 TGTCCCGAAGGACCACGTAGAAT
1 TGTCCCGAAGGACCACGTAGAAT
115862 TGTCCC-ATAGGACCACGTAGA
1 TGTCCCGA-AGGACCACGTAGA
115883 CCCTCGACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 1 0.05
23 19 0.95
ACGTcount: A:0.30, C:0.27, G:0.25, T:0.18
Consensus pattern (23 bp):
TGTCCCGAAGGACCACGTAGAAT
Found at i:118840 original size:24 final size:24
Alignment explanation
Indices: 118739--118830 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
118729 TGAATTTTGT
* **
118739 TATGATACCTGATATGGATTCTGA
1 TATGATACTTGACCTGGATTCTGA
118763 TATGATACTTGACCTGGATTCTGA
1 TATGATACTTGACCTGGATTCTGA
** * * *
118787 TCCGATATTTGACATGAATTCTGA
1 TATGATACTTGACCTGGATTCTGA
118811 TATGATACTTGACCTGGATT
1 TATGATACTTGACCTGGATT
118831 ATGTTTTGAT
Statistics
Matches: 55, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 55 1.00
ACGTcount: A:0.27, C:0.15, G:0.20, T:0.38
Consensus pattern (24 bp):
TATGATACTTGACCTGGATTCTGA
Found at i:119009 original size:2 final size:2
Alignment explanation
Indices: 119002--119048 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
118992 CGGATAGGGG
119002 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
119044 TA TA T
1 TA TA T
119049 GTTTTAAAAG
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:120768 original size:18 final size:18
Alignment explanation
Indices: 120747--120788 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
120737 CATGACCCGT
120747 TGACCCGACCCGTTGACC
1 TGACCCGACCCGTTGACC
120765 TGACCCGACCCGTTGACC
1 TGACCCGACCCGTTGACC
*
120783 CGACCC
1 TGACCC
120789 TACCAGAACG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.48, G:0.21, T:0.14
Consensus pattern (18 bp):
TGACCCGACCCGTTGACC
Found at i:120788 original size:13 final size:13
Alignment explanation
Indices: 120740--120771 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
120730 GACCGGTCAT
120740 GACCCGTTGACCC
1 GACCCGTTGACCC
*
120753 GACCCGTTGACCT
1 GACCCGTTGACCC
120766 GACCCG
1 GACCCG
120772 ACCCGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.16, C:0.44, G:0.25, T:0.16
Consensus pattern (13 bp):
GACCCGTTGACCC
Found at i:120990 original size:29 final size:29
Alignment explanation
Indices: 120834--120984 Score: 116
Period size: 29 Copynumber: 5.3 Consensus size: 29
120824 ATTCGGTTTT
* * * *
120834 GGTGCTATTCTGGGAATTAATTCGAAATA-
1 GGTGCTATTTTGGTAATTAATT-TAAAAAG
*
120863 GGTGCTATTTTGGTAATT--TTTCAAAA-
1 GGTGCTATTTTGGTAATTAATTTAAAAAG
* * * * **
120889 -GTGATATTATGG-AAATATATTCAAAATT
1 GGTGCTATTTTGGTAATTA-ATTTAAAAAG
* *
120917 GGTGCTATTTTGGGAATTAATTTGAAAAG
1 GGTGCTATTTTGGTAATTAATTTAAAAAG
*
120946 GGTGCTATTTTGGTAATTATTTTAAAAAG
1 GGTGCTATTTTGGTAATTAATTTAAAAAG
120975 GGTGCTATTT
1 GGTGCTATTT
120985 GTGTAAAATG
Statistics
Matches: 95, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
24 3 0.03
25 10 0.11
26 3 0.03
27 7 0.07
29 68 0.72
30 4 0.04
ACGTcount: A:0.31, C:0.06, G:0.22, T:0.41
Consensus pattern (29 bp):
GGTGCTATTTTGGTAATTAATTTAAAAAG
Found at i:122330 original size:17 final size:19
Alignment explanation
Indices: 122303--122341 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
122293 ATATCTGTAT
122303 TATTAATATTT-TGTTCTA
1 TATTAATATTTATGTTCTA
122321 TATT-ATATTTAATGTTCTA
1 TATTAATATTT-ATGTTCTA
122340 TA
1 TA
122342 AGTTATATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 4 0.21
19 9 0.47
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
TATTAATATTTATGTTCTA
Found at i:128164 original size:29 final size:29
Alignment explanation
Indices: 128132--128255 Score: 97
Period size: 29 Copynumber: 4.3 Consensus size: 29
128122 ATTTAGTTTT
*
128132 GGTGCTATACTGGGAATTAATTCGAAATG
1 GGTGCTATTCTGGGAATTAATTCGAAATG
* ** ** * *
128161 GGTGCTATTTTGATAATTTTTTTGAAA-A
1 GGTGCTATTCTGGGAATTAATTCGAAATG
* * * *
128189 AGTGATATTCTGGGAATTAATTCAAAATT
1 GGTGCTATTCTGGGAATTAATTCGAAATG
* * *
128218 GGTGCTATTTTTGGAATTAATTCGAAAAG
1 GGTGCTATTCTGGGAATTAATTCGAAATG
*
128247 TGTGCTATT
1 GGTGCTATT
128256 TTGGTTATTA
Statistics
Matches: 68, Mismatches: 26, Indels: 2
0.71 0.27 0.02
Matches are distributed among these distances:
28 18 0.26
29 50 0.74
ACGTcount: A:0.31, C:0.07, G:0.22, T:0.40
Consensus pattern (29 bp):
GGTGCTATTCTGGGAATTAATTCGAAATG
Found at i:128225 original size:86 final size:85
Alignment explanation
Indices: 128108--128275 Score: 219
Period size: 86 Copynumber: 2.0 Consensus size: 85
128098 TGACCGGTGT
* *** *
128108 TATTCTGGGAATTAATTTAGTTTTGGTGCTATACTGGGAATTAATTCGAAATGGGTGCTATTTTG
1 TATTCTGGGAATTAATTCAAAATTGGTGCTATACTGGGAATTAATTCGAAAAGGGTGCTATTTTG
*
128173 ATAATTTTTTTGAAAAAGTGA
66 ATAATTATTTT-AAAAAGTGA
** * *
128194 TATTCTGGGAATTAATTCAAAATTGGTGCTATTTTTGGAATTAATTCGAAAAGTGTGCTATTTTG
1 TATTCTGGGAATTAATTCAAAATTGGTGCTATACTGGGAATTAATTCGAAAAGGGTGCTATTTTG
* *
128259 GTTATTATTTTAAAAAG
66 ATAATTATTTTAAAAAG
128276 GGTGCTATTT
Statistics
Matches: 70, Mismatches: 12, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
85 6 0.09
86 64 0.91
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.43
Consensus pattern (85 bp):
TATTCTGGGAATTAATTCAAAATTGGTGCTATACTGGGAATTAATTCGAAAAGGGTGCTATTTTG
ATAATTATTTTAAAAAGTGA
Found at i:129631 original size:17 final size:19
Alignment explanation
Indices: 129604--129642 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
129594 ATATATGTAT
129604 TATTAATATTT-TGTTCTA
1 TATTAATATTTATGTTCTA
129622 TATT-ATATTTAATGTTCTA
1 TATTAATATTT-ATGTTCTA
129641 TA
1 TA
129643 AGTTATAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 4 0.21
19 9 0.47
ACGTcount: A:0.31, C:0.05, G:0.05, T:0.59
Consensus pattern (19 bp):
TATTAATATTTATGTTCTA
Found at i:129662 original size:2 final size:2
Alignment explanation
Indices: 129655--129744 Score: 180
Period size: 2 Copynumber: 45.0 Consensus size: 2
129645 TTATAAGTTT
129655 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
129697 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
129739 TA TA TA
1 TA TA TA
129745 AACCTCTGAA
Statistics
Matches: 88, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 88 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:133139 original size:51 final size:50
Alignment explanation
Indices: 133042--133139 Score: 119
Period size: 51 Copynumber: 1.9 Consensus size: 50
133032 GCATAAAATA
* * *
133042 AAATAAAAGTGACTAAAATGCAAGAAAATAAAAGTTAGTAGTTAAATAAG
1 AAATAAAAGTGACCAAAACGCAAGAAAATAAAAGTTAGAAGTTAAATAAG
*
133092 AAATAAATAGTGACCAAAACGCAA-AAATTAAAA-TAATAGAAGTTAAAT
1 AAATAAA-AGTGACCAAAACGCAAGAAAATAAAAGT--TAGAAGTTAAAT
133140 CATAAATTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
49 1 0.02
50 15 0.37
51 25 0.61
ACGTcount: A:0.59, C:0.06, G:0.13, T:0.21
Consensus pattern (50 bp):
AAATAAAAGTGACCAAAACGCAAGAAAATAAAAGTTAGAAGTTAAATAAG
Found at i:134904 original size:24 final size:24
Alignment explanation
Indices: 134877--134922 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
134867 TATGTCCCTG
134877 TCGATCTATCCTTACCTTTAGCCA
1 TCGATCTATCCTTACCTTTAGCCA
*
134901 TCGATCTATTCTTACCTTTAGC
1 TCGATCTATCCTTACCTTTAGC
134923 GATGGATTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.20, C:0.30, G:0.09, T:0.41
Consensus pattern (24 bp):
TCGATCTATCCTTACCTTTAGCCA
Found at i:135003 original size:43 final size:42
Alignment explanation
Indices: 134940--135024 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 42
134930 TATAATTTCC
*
134940 AACATACAAGTTTCTCAAAAAATTAAAGTATATTCATAACAT
1 AACATACAAGTTTCTAAAAAAATTAAAGTATATTCATAACAT
*
134982 AACATGACAAGTTTCTAAAAAAATTGAAGTATATTCATAACAT
1 AACAT-ACAAGTTTCTAAAAAAATTAAAGTATATTCATAACAT
135025 TATTAAGCAA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 5 0.12
43 35 0.88
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (42 bp):
AACATACAAGTTTCTAAAAAAATTAAAGTATATTCATAACAT
Found at i:136534 original size:21 final size:20
Alignment explanation
Indices: 136505--136570 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 20
136495 ATTATAAAAT
136505 TCAAGAAGATGAAAATAAATTA
1 TCAA-AAGAT-AAAATAAATTA
*
136527 TCAAAAGAAAATATAATAAATTA
1 TCAAAAG---ATAAAATAAATTA
* *
136550 TCTAAAATATATAATAAATTA
1 TC-AAAAGATAAAATAAATTA
136571 AAATTTTCAG
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
21 16 0.42
22 4 0.11
23 12 0.32
24 6 0.16
ACGTcount: A:0.61, C:0.05, G:0.06, T:0.29
Consensus pattern (20 bp):
TCAAAAGATAAAATAAATTA
Found at i:136534 original size:24 final size:24
Alignment explanation
Indices: 136507--136556 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
136497 TATAAAATTC
*
136507 AAGAAGATGAAAATAAATTATC-AA
1 AAGAAAAT-AAAATAAATTATCTAA
*
136531 AAGAAAATATAATAAATTATCTAA
1 AAGAAAATAAAATAAATTATCTAA
136555 AA
1 AA
136557 TATATAATAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 12 0.52
24 11 0.48
ACGTcount: A:0.64, C:0.04, G:0.08, T:0.24
Consensus pattern (24 bp):
AAGAAAATAAAATAAATTATCTAA
Found at i:136545 original size:23 final size:21
Alignment explanation
Indices: 136518--136570 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
136508 AGAAGATGAA
136518 AATAAATTATCAAAAGAAAATAT
1 AATAAATTATC-AAA-AAAATAT
* *
136541 AATAAATTATCTAAAATATAT
1 AATAAATTATCAAAAAAATAT
136562 AATAAATTA
1 AATAAATTA
136571 AAATTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 15 0.54
22 2 0.07
23 11 0.39
ACGTcount: A:0.62, C:0.04, G:0.02, T:0.32
Consensus pattern (21 bp):
AATAAATTATCAAAAAAATAT
Found at i:140478 original size:16 final size:16
Alignment explanation
Indices: 140457--140489 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
140447 TATAAGAAAG
*
140457 GATATATGTGTTATAT
1 GATATATGTGATATAT
140473 GATATATGTGATATAT
1 GATATATGTGATATAT
140489 G
1 G
140490 TGGTATATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (16 bp):
GATATATGTGATATAT
Found at i:140497 original size:11 final size:9
Alignment explanation
Indices: 140457--140498 Score: 52
Period size: 9 Copynumber: 4.9 Consensus size: 9
140447 TATAAGAAAG
140457 GATATATGT
1 GATATATGT
*
140466 G-T-TATAT
1 GATATATGT
140473 GATATATGT
1 GATATATGT
140482 GATATATGT
1 GATATATGT
*
140491 GGTATATG
1 GATATATG
140499 AGAAACATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
7 5 0.18
8 2 0.07
9 21 0.75
ACGTcount: A:0.31, C:0.00, G:0.24, T:0.45
Consensus pattern (9 bp):
GATATATGT
Found at i:140740 original size:31 final size:31
Alignment explanation
Indices: 140702--140762 Score: 122
Period size: 31 Copynumber: 2.0 Consensus size: 31
140692 AAGAGTCGAG
140702 GGTTACCTATGTCCTTCGGGACATATGGACA
1 GGTTACCTATGTCCTTCGGGACATATGGACA
140733 GGTTACCTATGTCCTTCGGGACATATGGAC
1 GGTTACCTATGTCCTTCGGGACATATGGAC
140763 TGGTCCTTCG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.30
Consensus pattern (31 bp):
GGTTACCTATGTCCTTCGGGACATATGGACA
Found at i:140769 original size:22 final size:22
Alignment explanation
Indices: 140743--140800 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
140733 GGTTACCTAT
*
140743 GTCCTTCGGGACATATGGACTG-
1 GTCCTTCGGGACATATAGA-TGA
140765 GTCCTTCGGG--ATATAGATGA
1 GTCCTTCGGGACATATAGATGA
140785 CGTCCTTCGGGACATA
1 -GTCCTTCGGGACATA
140801 GATTTCGCAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
19 2 0.06
20 6 0.19
21 10 0.32
22 10 0.32
23 3 0.10
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (22 bp):
GTCCTTCGGGACATATAGATGA
Found at i:144542 original size:64 final size:65
Alignment explanation
Indices: 144392--144553 Score: 199
Period size: 64 Copynumber: 2.5 Consensus size: 65
144382 TTGTTGAAGG
* *
144392 TGCATCGATGCATAAGGAGTGCATCGATGCA-CTCATTTAAATTAATGAACATCGAATGCCATTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCACCTCACTTAAAATAA-GAACATCGAATGCCATTA
144456 A
65 A
*
144457 TGCATCGATGCATAAGGAGTGCATCGATGCACCT-ACTTAAAATACA-AACATCGAATAG-GATT
1 TGCATCGATGCATAAGGAGTGCATCGATGCACCTCACTTAAAATA-AGAACATCGAAT-GCCATT
*
144519 TA
64 AA
* *
144521 TGCACCGATGCAT-TGGTAGTGCATCGATGCACC
1 TGCATCGATGCATAAGG-AGTGCATCGATGCACC
144554 CGTCAAGGGA
Statistics
Matches: 87, Mismatches: 6, Indels: 9
0.85 0.06 0.09
Matches are distributed among these distances:
63 2 0.02
64 42 0.48
65 40 0.46
66 3 0.03
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.26
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCACCTCACTTAAAATAAGAACATCGAATGCCATTAA
Found at i:145143 original size:22 final size:22
Alignment explanation
Indices: 145115--145195 Score: 117
Period size: 22 Copynumber: 3.7 Consensus size: 22
145105 TTCCGGACAT
*
145115 AGTGGTCCTTCGGGACGTATCG
1 AGTGGTCCTTCGGGACGTATCC
* *
145137 AGTGGTCCTTCAGGACATATCC
1 AGTGGTCCTTCGGGACGTATCC
*
145159 AGTGGTCCTTTGGGACGTATCC
1 AGTGGTCCTTCGGGACGTATCC
*
145181 AGTGGTCATTCGGGA
1 AGTGGTCCTTCGGGA
145196 TAAATACTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.17, C:0.22, G:0.32, T:0.28
Consensus pattern (22 bp):
AGTGGTCCTTCGGGACGTATCC
Found at i:146799 original size:65 final size:64
Alignment explanation
Indices: 146694--146851 Score: 169
Period size: 64 Copynumber: 2.5 Consensus size: 64
146684 TTGTTGAAGG
* * * * *
146694 TGCATCGATGCATAAGGAGTGCAACGATGCACTCATTTAAATTA-ATGAACATCGAATGCCATTA
1 TGCATCGATGCATAAGGAGTGCATCGATGAACTCACTTAAAATACA--AACATCGAATACCATTA
146758 A
64 A
** *
146759 TGCATCGATGCATAAGGAGTGCATCGATGAAC-CTACTTAAAATACAAACATCGAATATGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGAACTC-ACTTAAAATACAAACATCGAATACCATTAA
* *
146823 TGCACCGATGCAT-TGGTAGTGCATCGATG
1 TGCATCGATGCATAAGG-AGTGCATCGATG
146852 CACCCGTCAA
Statistics
Matches: 80, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
63 2 0.03
64 39 0.49
65 38 0.47
66 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (64 bp):
TGCATCGATGCATAAGGAGTGCATCGATGAACTCACTTAAAATACAAACATCGAATACCATTAA
Found at i:147445 original size:22 final size:22
Alignment explanation
Indices: 147417--147497 Score: 117
Period size: 22 Copynumber: 3.7 Consensus size: 22
147407 TTCCGGACAT
*
147417 AGTGGTCCTTCGGGACGTATCG
1 AGTGGTCCTTCGGGACGTATCC
* *
147439 AGTGGTCCTTCAGGACATATCC
1 AGTGGTCCTTCGGGACGTATCC
*
147461 AGTGGTCCTTTGGGACGTATCC
1 AGTGGTCCTTCGGGACGTATCC
*
147483 AGTGGTCATTCGGGA
1 AGTGGTCCTTCGGGA
147498 TAAATACTGA
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 51 1.00
ACGTcount: A:0.17, C:0.22, G:0.32, T:0.28
Consensus pattern (22 bp):
AGTGGTCCTTCGGGACGTATCC
Found at i:154374 original size:22 final size:22
Alignment explanation
Indices: 154346--154405 Score: 102
Period size: 22 Copynumber: 2.7 Consensus size: 22
154336 TTTGGGACAT
*
154346 AGTGGTCCTTCAGGACGTATCC
1 AGTGGTCCTTCGGGACGTATCC
*
154368 AGTGGTCATTCGGGACGTATCC
1 AGTGGTCCTTCGGGACGTATCC
154390 AGTGGTCCTTCGGGAC
1 AGTGGTCCTTCGGGAC
154406 ATAGTGGTTA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 35 1.00
ACGTcount: A:0.17, C:0.25, G:0.32, T:0.27
Consensus pattern (22 bp):
AGTGGTCCTTCGGGACGTATCC
Found at i:156707 original size:74 final size:76
Alignment explanation
Indices: 156562--156725 Score: 192
Period size: 74 Copynumber: 2.2 Consensus size: 76
156552 TAAATAGGGA
* *
156562 GGTACTGATACCCCTCATAGGGTGTAGCGATACCCCTATGCCAAATTTTCGCACCGAGAAAATAG
1 GGTACTGATACCCCTCATAGGGTGTACCAATACCCCTATGCCAAATTTTCGCACCGAGAAAATAG
*
156627 ATTGCCCAATG
66 AATGCCCAATG
* * *
156638 GGTACTGATA-CCCTACATA-GG-GTACCAATACCCCTATG-CAAGTTTTGGCTCCGAGAAAAAT
1 GGTACTGATACCCCT-CATAGGGTGTACCAATACCCCTATGCCAAATTTTCGCACCGAG-AAAAT
*
156699 AGAATGCCCTATG
64 AGAATGCCCAATG
* **
156712 AGTACCAATACCCC
1 GGTACTGATACCCC
156726 CTTAGAGGTA
Statistics
Matches: 75, Mismatches: 10, Indels: 7
0.82 0.11 0.08
Matches are distributed among these distances:
73 14 0.19
74 38 0.51
75 9 0.12
76 14 0.19
ACGTcount: A:0.30, C:0.27, G:0.20, T:0.23
Consensus pattern (76 bp):
GGTACTGATACCCCTCATAGGGTGTACCAATACCCCTATGCCAAATTTTCGCACCGAGAAAATAG
AATGCCCAATG
Found at i:156743 original size:74 final size:74
Alignment explanation
Indices: 156589--156747 Score: 178
Period size: 74 Copynumber: 2.1 Consensus size: 74
156579 TAGGGTGTAG
* * **
156589 CGATACCCCTATGCCAAATTTTCGCACCGAGAAAATAGATTGCCCAATGGGTACTGATACCCTAC
1 CGATACCCCTATGCCAAATTTTCGCACCGAGAAAATAGAATGCCCAATGAGTACCAATACCCTAC
156654 ATAGGGTAC
66 ATAGGGTAC
* * * * * *
156663 CAATACCCCTATG-CAAGTTTTGGCTCCGAGAAAAATAGAATGCCCTATGAGTACCAATACCC-C
1 CGATACCCCTATGCCAAATTTTCGCACCGAG-AAAATAGAATGCCCAATGAGTACCAATACCCTA
* *
156726 CTTAGAGGTAT
65 CATAG-GGTAC
156737 CGATACCCCTA
1 CGATACCCCTA
156748 GTCATTTAAA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
73 18 0.26
74 52 0.74
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (74 bp):
CGATACCCCTATGCCAAATTTTCGCACCGAGAAAATAGAATGCCCAATGAGTACCAATACCCTAC
ATAGGGTAC
Found at i:159565 original size:20 final size:20
Alignment explanation
Indices: 159540--159613 Score: 112
Period size: 20 Copynumber: 3.7 Consensus size: 20
159530 AATGTAATTA
159540 GTGCATCGATGCATCCTGAT
1 GTGCATCGATGCATCCTGAT
* *
159560 GTGCATCGATGCATCATGTT
1 GTGCATCGATGCATCCTGAT
*
159580 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGAT
*
159600 GTGCATCCATGCAT
1 GTGCATCGATGCAT
159614 GAAGGCTGCA
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 49 1.00
ACGTcount: A:0.19, C:0.26, G:0.24, T:0.31
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGAT
Found at i:160007 original size:34 final size:32
Alignment explanation
Indices: 159968--160037 Score: 86
Period size: 34 Copynumber: 2.1 Consensus size: 32
159958 TTTTGTAAAG
* * *
159968 GGGAAATGTTCTAGCTTATCCCGTGTAAAAGCTA
1 GGGAAAGGTTCTAGCTTAGCCCG-G-AAAAACTA
*
160002 GGGAAAGGTTCTAGTTTAGCCCGGAAAAACTA
1 GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
160034 GGGA
1 GGGA
160038 GTTGTAAGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
32 11 0.34
33 1 0.03
34 20 0.62
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (32 bp):
GGGAAAGGTTCTAGCTTAGCCCGGAAAAACTA
Found at i:160660 original size:19 final size:20
Alignment explanation
Indices: 160636--160683 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
160626 AACAATTTTC
*
160636 TTTTGAAAACAAAAAT-ATA
1 TTTTGAAAACAAAAATAAAA
* *
160655 TTTTGAAAGCCAAAATAAAA
1 TTTTGAAAACAAAAATAAAA
160675 TTTTGAAAA
1 TTTTGAAAA
160684 AGGATTTAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.54, C:0.06, G:0.08, T:0.31
Consensus pattern (20 bp):
TTTTGAAAACAAAAATAAAA
Found at i:161823 original size:21 final size:21
Alignment explanation
Indices: 161797--161836 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
161787 CAACAATTGG
161797 TAACAATTGATATCATTTTGT
1 TAACAATTGATATCATTTTGT
* *
161818 TAACAATTGGTATCTTTTT
1 TAACAATTGATATCATTTT
161837 CATTAAACAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (21 bp):
TAACAATTGATATCATTTTGT
Found at i:162087 original size:21 final size:20
Alignment explanation
Indices: 162061--162155 Score: 111
Period size: 21 Copynumber: 4.5 Consensus size: 20
162051 TGTCAAAGTT
162061 CATCCATGCACCCTTGCAGTG
1 CATCCATGCACCC-TGCAGTG
162082 CATCCATGCACCCCTGCAGTG
1 CATCCATGCA-CCCTGCAGTG
162103 CATCCATGCA-CCTGCACTAGTG
1 CATCCATGCACCCTG--C-AGTG
* *
162125 CATCGATGCACCATGCAGTG
1 CATCCATGCACCCTGCAGTG
*
162145 CATTCATGCAC
1 CATCCATGCAC
162156 TCAAACACCG
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
19 4 0.06
20 13 0.20
21 29 0.45
22 16 0.25
23 3 0.05
ACGTcount: A:0.22, C:0.37, G:0.19, T:0.22
Consensus pattern (20 bp):
CATCCATGCACCCTGCAGTG
Found at i:162201 original size:20 final size:20
Alignment explanation
Indices: 162176--162228 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
162166 AATGCAATTA
162176 GTGCATCGATGCATCCTGAT
1 GTGCATCGATGCATCCTGAT
*
162196 GTGCATCGATGCATCCTGCT
1 GTGCATCGATGCATCCTGAT
*
162216 GTGCATCCATGCA
1 GTGCATCGATGCA
162229 CGAAGGCTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.28
Consensus pattern (20 bp):
GTGCATCGATGCATCCTGAT
Found at i:165986 original size:21 final size:22
Alignment explanation
Indices: 165960--166016 Score: 71
Period size: 23 Copynumber: 2.6 Consensus size: 22
165950 TGTGCATTAG
165960 GTATCGATACCCC-TTCAACGT
1 GTATCGATACCCCTTTCAACGT
* *
165981 GTATCGATACCCCCTTTGAATGT
1 GTATCGATA-CCCCTTTCAACGT
*
166004 GTATCAATACCCC
1 GTATCGATACCCC
166017 CCTTTGAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 9 0.29
22 8 0.26
23 14 0.45
ACGTcount: A:0.25, C:0.32, G:0.14, T:0.30
Consensus pattern (22 bp):
GTATCGATACCCCTTTCAACGT
Found at i:166013 original size:23 final size:23
Alignment explanation
Indices: 165979--166043 Score: 103
Period size: 24 Copynumber: 2.8 Consensus size: 23
165969 CCCCTTCAAC
*
165979 GTGTATCGATACCCCCTTTGAAT
1 GTGTATCAATACCCCCTTTGAAT
166002 GTGTATCAATACCCCCCTTTGAAT
1 GTGTATCAATA-CCCCCTTTGAAT
*
166026 ATGTATCAATACCCCCTT
1 GTGTATCAATACCCCCTT
166044 AAGGGTACCC
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
23 17 0.44
24 22 0.56
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (23 bp):
GTGTATCAATACCCCCTTTGAAT
Found at i:166484 original size:20 final size:22
Alignment explanation
Indices: 166459--166506 Score: 57
Period size: 20 Copynumber: 2.3 Consensus size: 22
166449 AAATAAAAAA
166459 TGTTTTGTTT-TTAAAAT-TGT
1 TGTTTTGTTTATTAAAATATGT
* *
166479 TGTTTT-TTTATTTAATTATGT
1 TGTTTTGTTTATTAAAATATGT
166500 TGTTTTG
1 TGTTTTG
166507 AAAACTACAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
19 3 0.13
20 11 0.48
21 9 0.39
ACGTcount: A:0.17, C:0.00, G:0.15, T:0.69
Consensus pattern (22 bp):
TGTTTTGTTTATTAAAATATGT
Found at i:168706 original size:74 final size:73
Alignment explanation
Indices: 168576--168757 Score: 222
Period size: 74 Copynumber: 2.4 Consensus size: 73
168566 AGGGAGGAAT
* *
168576 CGATACCCCTCATAGGGTGTACCGATACCCCTATGCCAAATTTTGGCTCTGAGAAAAACAGATTG
1 CGATACCCC-CATA-GG-GTA-CGATACCCCTATGCCAAATTTTGGCTCCGAGAAAAACAGAATG
168641 CCCAATGGGTAC
62 CCCAATGGGTAC
* * *
168653 TGATACCCCACATAGGGTATCGATACCCCTATG-CAAGTTTTGGCTCCGAGAAAAACATAATGCC
1 CGATACCCC-CATAGGGTA-CGATACCCCTATGCCAAATTTTGGCTCCGAGAAAAACAGAATGCC
*
168717 CTATGGGTAC
64 CAATGGGTAC
*
168727 CGATACCCCCTTAGAGGTACTGATACCCCTA
1 CGATACCCCCATAG-GGTAC-GATACCCCTA
168758 GTCATTTAAC
Statistics
Matches: 93, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
73 5 0.05
74 58 0.62
75 16 0.17
76 2 0.02
77 12 0.13
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.24
Consensus pattern (73 bp):
CGATACCCCCATAGGGTACGATACCCCTATGCCAAATTTTGGCTCCGAGAAAAACAGAATGCCCA
ATGGGTAC
Found at i:170538 original size:18 final size:18
Alignment explanation
Indices: 170515--170550 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
170505 ATATAACACA
170515 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
170533 TATGTCCCGAAGGACCAC
1 TATGTCCCGAAGGACCAC
170551 ATATAACACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.33, G:0.22, T:0.17
Consensus pattern (18 bp):
TATGTCCCGAAGGACCAC
Found at i:170549 original size:46 final size:46
Alignment explanation
Indices: 170488--170594 Score: 187
Period size: 46 Copynumber: 2.3 Consensus size: 46
170478 GACCACTTAG
*
170488 ATGTCCCGAATGACCACATATAACACATATGTCCCGAAGGACCACT
1 ATGTCCCGAAGGACCACATATAACACATATGTCCCGAAGGACCACT
*
170534 ATGTCCCGAAGGACCACATATAACACATATGTCTCGAAGGACCACT
1 ATGTCCCGAAGGACCACATATAACACATATGTCCCGAAGGACCACT
*
170580 ATATCCCGAAGGACC
1 ATGTCCCGAAGGACC
170595 GCGTAGACCC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 58 1.00
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.19
Consensus pattern (46 bp):
ATGTCCCGAAGGACCACATATAACACATATGTCCCGAAGGACCACT
Found at i:176156 original size:20 final size:20
Alignment explanation
Indices: 176127--176165 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
176117 TTTTCACCAC
*
176127 ATGCAACTATATGCTCCTAA
1 ATGCAACTATATGATCCTAA
*
176147 ATGCATCTATATGATCCTA
1 ATGCAACTATATGATCCTA
176166 TATGAGCTCT
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:0.33, C:0.23, G:0.10, T:0.33
Consensus pattern (20 bp):
ATGCAACTATATGATCCTAA
Found at i:177767 original size:59 final size:59
Alignment explanation
Indices: 177695--178104 Score: 730
Period size: 59 Copynumber: 6.9 Consensus size: 59
177685 TAAATTCAAT
* * *
177695 TGGAAATCCATACAATTAGTACGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
177754 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
*
177813 TAGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
*
177872 TGGAAATTCATACAATTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
*
177931 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGAACACAAAGTGCCCTATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
* * *
177990 TGAAAATTCATACACTTAGTATGATTTTCTTACTATTTTAGCACACAAAGTGCCCTATC
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
*
178049 TGGAAATTCATACACTTAGTATGATTTTCTTACCATTTTAGCACACAAAGTGCCCT
1 TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCT
178105 TTGGTAATTC
Statistics
Matches: 337, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 337 1.00
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (59 bp):
TGGAAATTCATACACTTAGTATGATTTCCTTACCATTTTAGCACACAAAGTGCCCTATC
Found at i:178469 original size:22 final size:20
Alignment explanation
Indices: 178426--178480 Score: 74
Period size: 22 Copynumber: 2.6 Consensus size: 20
178416 TAGCCCTTCA
178426 GTATCGATACCCCTACCATG
1 GTATCGATACCCCTACCATG
**
178446 GTATCGATACTACCCTACTTTG
1 GTATCGATAC--CCCTACCATG
178468 GTATCGATACCCC
1 GTATCGATACCCC
178481 CCATCCAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.42
22 18 0.58
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.29
Consensus pattern (20 bp):
GTATCGATACCCCTACCATG
Found at i:178564 original size:22 final size:19
Alignment explanation
Indices: 178539--178593 Score: 65
Period size: 19 Copynumber: 2.7 Consensus size: 19
178529 CACCCTTAAC
178539 ATGGTATCGATACTACTATACT
1 ATGGTATCGATAC--CTATA-T
* *
178561 ATGGTATTGATACCTCTAT
1 ATGGTATCGATACCTATAT
178580 ATGGTATCGATACC
1 ATGGTATCGATACC
178594 AAAATTAGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
19 14 0.47
20 4 0.13
22 12 0.40
ACGTcount: A:0.29, C:0.18, G:0.16, T:0.36
Consensus pattern (19 bp):
ATGGTATCGATACCTATAT
Found at i:178638 original size:95 final size:95
Alignment explanation
Indices: 178424--178646 Score: 241
Period size: 95 Copynumber: 2.3 Consensus size: 95
178414 TCTAGCCCTT
* * * *
178424 CAGTATCGATACCCCTACCATGGTATCGATACTACCCTACTTTGGTATCGATACCCCCCATCCAG
1 CAGTATCGATACCCTTA-CATGGTATCGATACTACCATACTATGGTATCGATACCCCCCATACAG
*
178489 TATCAATACCAAAATTAGATTCAATGTGGCC
65 TATCAATACCAAAATTAGATTCAATGTGACC
* * * * * * **
178520 CAGTATGGACACCCTTAACATGGTATCGATACTACTATACTATGGTATTGATA-CCTCTATATGG
1 CAGTATCGATACCCTT-ACATGGTATCGATACTACCATACTATGGTATCGATACCCCCCATACAG
* * * *
178584 TATCGATACCAAAATTAGGTTCGATGTTACC
65 TATCAATACCAAAATTAGATTCAATGTGACC
**
178615 TGGTATCGATACCCTTACGATGGTATCGATAC
1 CAGTATCGATACCCTTAC-ATGGTATCGATAC
178647 CACTTCGTTA
Statistics
Matches: 104, Mismatches: 21, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
94 2 0.02
95 57 0.55
96 44 0.42
97 1 0.01
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.30
Consensus pattern (95 bp):
CAGTATCGATACCCTTACATGGTATCGATACTACCATACTATGGTATCGATACCCCCCATACAGT
ATCAATACCAAAATTAGATTCAATGTGACC
Found at i:179241 original size:13 final size:13
Alignment explanation
Indices: 179223--179247 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
179213 TACGGGGGAA
179223 AGAGAAAGAAAAG
1 AGAGAAAGAAAAG
179236 AGAGAAAGAAAA
1 AGAGAAAGAAAA
179248 CTTTATAACC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (13 bp):
AGAGAAAGAAAAG
Found at i:189171 original size:3 final size:3
Alignment explanation
Indices: 189165--189218 Score: 63
Period size: 3 Copynumber: 17.3 Consensus size: 3
189155 ATAATAGACA
* * *
189165 AAT AAT AAT AAAT ATT AAT AAT AAT AAT AGT AAT ATT AAAT AAT AAT
1 AAT AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT
189212 AAT AAT A
1 AAT AAT A
189219 TTAAATTAGA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
3 38 0.88
4 5 0.12
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:189223 original size:19 final size:19
Alignment explanation
Indices: 189165--189224 Score: 84
Period size: 19 Copynumber: 3.0 Consensus size: 19
189155 ATAATAGACA
189165 AATAATAATAAATATTAATAAT
1 AATAATAAT-AATATT-A-AAT
*
189187 AATAATAGTAATATTAAAT
1 AATAATAATAATATTAAAT
189206 AATAATAATAATATTAAAT
1 AATAATAATAATATTAAAT
189225 TAGAACTCGG
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
19 21 0.58
20 1 0.03
21 6 0.17
22 8 0.22
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AATAATAATAATATTAAAT
Found at i:194268 original size:2 final size:2
Alignment explanation
Indices: 194263--194298 Score: 63
Period size: 2 Copynumber: 17.5 Consensus size: 2
194253 GTGTGTGTGT
194263 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GTA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA G-A GA GA G
194299 TTGAGAGTGA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 31 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.50, T:0.03
Consensus pattern (2 bp):
GA
Found at i:194370 original size:18 final size:17
Alignment explanation
Indices: 194339--194374 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
194329 GAGGATGTAT
*
194339 AAATAAATATATTATAA
1 AAATAAATAAATTATAA
194356 AAATATAATAAATTATAA
1 AAATA-AATAAATTATAA
194374 A
1 A
194375 TCTCGGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATAAATAAATTATAA
Found at i:194631 original size:18 final size:17
Alignment explanation
Indices: 194600--194635 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
194590 GAGGATGTAT
*
194600 AAATAAATATATTATAA
1 AAATAAATAAATTATAA
194617 AAATATAATAAATTATAA
1 AAATA-AATAAATTATAA
194635 A
1 A
194636 TCTCGGGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATAAATAAATTATAA
Found at i:195240 original size:21 final size:21
Alignment explanation
Indices: 195211--195263 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
195201 ATTCTGACTA
195211 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* * *
195232 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
195253 TCGCAATGCGA
1 TCGCATTGCGA
195264 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.26, G:0.19, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:195897 original size:21 final size:20
Alignment explanation
Indices: 195836--195911 Score: 93
Period size: 20 Copynumber: 3.8 Consensus size: 20
195826 TTCTAAACTT
195836 AAAATCGCAAC-ATGAAAATG
1 AAAATCGCAACGA-GAAAATG
195856 AAAATCGCAAC-ACGAAAATG
1 AAAATCGCAACGA-GAAAATG
**
195876 ACTATCGCAACGAGAGAAATG
1 AAAATCGCAACGAGA-AAATG
195897 AAAATCGCAACGAGA
1 AAAATCGCAACGAGA
195912 TAATCGCAAC
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
20 30 0.61
21 19 0.39
ACGTcount: A:0.51, C:0.18, G:0.18, T:0.12
Consensus pattern (20 bp):
AAAATCGCAACGAGAAAATG
Found at i:195956 original size:19 final size:19
Alignment explanation
Indices: 195934--196079 Score: 123
Period size: 19 Copynumber: 8.1 Consensus size: 19
195924 GAAACCAAAA
*
195934 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
195953 TCGCGTTGCGATTTTAATT
1 TCGCGTTGCGATTTTCATT
*
195972 TCGCATTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
195986 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
196005 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * **
196019 TCTCGTTACGATAGTCATT
1 TCGCGTTGCGATTTTCATT
196038 TCCGCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT
*
196058 CTCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
196078 TC
1 TC
196080 AACCAAAAGA
Statistics
Matches: 100, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
14 18 0.18
16 5 0.05
17 5 0.05
19 40 0.40
20 31 0.31
21 1 0.01
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.45
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:195998 original size:33 final size:33
Alignment explanation
Indices: 195956--196030 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
195946 TTTCATTTCG
195956 CGTTGCGATTTTAATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTAATTTCGCATTGCGATTCTCT
* *
195989 CGTTGCGATTTTCATTTCGCGTTGCGATTCTCT
1 CGTTGCGATTTTAATTTCGCATTGCGATTCTCT
*
196022 CGTTACGAT
1 CGTTGCGAT
196031 AGTCATTTCC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTAATTTCGCATTGCGATTCTCT
Found at i:196037 original size:33 final size:33
Alignment explanation
Indices: 195969--196051 Score: 121
Period size: 33 Copynumber: 2.5 Consensus size: 33
195959 TGCGATTTTA
* * **
195969 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTC
1 ATTTCGCGTTGCGATTCTCTCGTTACGATAGTC
196002 ATTTCGCGTTGCGATTCTCTCGTTACGATAGTC
1 ATTTCGCGTTGCGATTCTCTCGTTACGATAGTC
196035 ATTTCCGCGTTGCGATT
1 ATTT-CGCGTTGCGATT
196052 TTCATTCTCT
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 33 0.73
34 12 0.27
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.42
Consensus pattern (33 bp):
ATTTCGCGTTGCGATTCTCTCGTTACGATAGTC
Found at i:197954 original size:94 final size:92
Alignment explanation
Indices: 197766--198047 Score: 426
Period size: 94 Copynumber: 3.1 Consensus size: 92
197756 TAGATTGCTT
* * *
197766 AGTAAATTTATTCGGTTGCTGCCAATACTGCTAAA-CTGT-TT-ATTAACACTGTGAAGTTAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAATGTGTATTCTTTAACACTGTGAAGTTAGTA
*
197828 TTTGTCTTTTGTTTTATCTTTTGGTTGA
66 TTTGTC-TTTGTTTTGTCTTTTGGTTGA
197856 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAATTGTGTATTCTTTAACACTGTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAA-TGTGTATTCTTTAACACTGTGAAGTTAGT
*
197921 ATTTATCTTTGTTTTGTCTTTTGGTTGAA
65 ATTTGTCTTTGTTTTGTCTTTTGGTTG-A
* * * *
197950 AGTAAATTTGTTCGTTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAATACTCTGAAGTTAGT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAA-TGTGTATTCTTTAACACTGTGAAGTTAGT
198015 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
65 ATTTGTCTTTGTTTTGTCTTTTGGTTGA
198043 AGTAA
1 AGTAA
198048 TGCAATCCAT
Statistics
Matches: 176, Mismatches: 11, Indels: 7
0.91 0.06 0.04
Matches are distributed among these distances:
90 34 0.19
92 3 0.02
93 27 0.15
94 112 0.64
ACGTcount: A:0.22, C:0.12, G:0.18, T:0.48
Consensus pattern (92 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAATGTGTATTCTTTAACACTGTGAAGTTAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGA
Found at i:198175 original size:33 final size:33
Alignment explanation
Indices: 198138--198222 Score: 116
Period size: 33 Copynumber: 2.5 Consensus size: 33
198128 TCTTTTGGTT
* *
198138 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGACAAAATCGCAACGC
*
198171 GAAATGAAAATCGTAACGACAAAATCGCAACGC
1 GAAATGAAAATCGCAACGACAAAATCGCAACGC
**
198204 GAAACCAAAAATCGCAACG
1 GAAA-TGAAAATCGCAACG
198223 CGAAACTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
33 34 0.76
34 11 0.24
ACGTcount: A:0.48, C:0.22, G:0.20, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGACAAAATCGCAACGC
Found at i:198214 original size:20 final size:20
Alignment explanation
Indices: 198191--198228 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
198181 TCGTAACGAC
198191 AAAATCGCAACGCGAAACCA
1 AAAATCGCAACGCGAAACCA
198211 AAAATCGCAACGCGAAAC
1 AAAATCGCAACGCGAAAC
198229 TATAATCCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.29, G:0.16, T:0.05
Consensus pattern (20 bp):
AAAATCGCAACGCGAAACCA
Found at i:198279 original size:33 final size:35
Alignment explanation
Indices: 198237--198322 Score: 122
Period size: 33 Copynumber: 2.5 Consensus size: 35
198227 ACTATAATCC
*
198237 CGTTGCGATTTTCATTTCGCATTGCGA-TTC-TCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTTCGTCG
*
198270 CGTTGCGATTTTCATTTCGCGTTGCGATTTTCGTTCG
1 CGTTGCGATTTTCATTTCGCATTGCGA-TTTCG-TCG
198307 CGTTGCGATTTTCATT
1 CGTTGCGATTTTCATT
198323 CTCTCGTTGC
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
33 26 0.55
35 3 0.06
37 18 0.38
ACGTcount: A:0.10, C:0.22, G:0.21, T:0.47
Consensus pattern (35 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTTCGTCG
Found at i:198308 original size:18 final size:19
Alignment explanation
Indices: 198237--198359 Score: 114
Period size: 19 Copynumber: 6.6 Consensus size: 19
198227 ACTATAATCC
198237 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
* *
198256 CATTGCGA--TTC---TCT
1 CGTTGCGATTTTCATTTCG
198270 CGTTGCGATTTTCATTTCG
1 CGTTGCGATTTTCATTTCG
*
198289 CGTTGCGATTTTC-GTTCG
1 CGTTGCGATTTTCATTTCG
*
198307 CGTTGCGATTTTCATTCTCT
1 CGTTGCGATTTTCATT-TCG
** *
198327 CGTTGCGATAGTCATTTTTCA
1 CGTTGCGATTTTCA--TTTCG
198348 CGTTGCGATTTT
1 CGTTGCGATTTT
198360 AAGTTCCAGA
Statistics
Matches: 83, Mismatches: 12, Indels: 16
0.75 0.11 0.14
Matches are distributed among these distances:
14 9 0.11
16 3 0.04
17 3 0.04
18 17 0.20
19 23 0.28
20 14 0.17
21 12 0.14
22 2 0.02
ACGTcount: A:0.11, C:0.22, G:0.20, T:0.46
Consensus pattern (19 bp):
CGTTGCGATTTTCATTTCG
Found at i:198816 original size:42 final size:42
Alignment explanation
Indices: 198756--198878 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
198746 GCCCGACTCG
* * *
198756 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
198798 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
198840 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
198879 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:198836 original size:21 final size:21
Alignment explanation
Indices: 198812--198878 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
198802 TCATTCCTCG
198812 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
198833 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
198854 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
198875 AGAG
1 AGAG
198879 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:200250 original size:14 final size:14
Alignment explanation
Indices: 200231--200266 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
200221 ATTGTTTAAT
200231 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
200245 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
200259 TGATTTGT
1 TGATTTGT
200267 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:200450 original size:33 final size:33
Alignment explanation
Indices: 200408--200471 Score: 112
Period size: 33 Copynumber: 1.9 Consensus size: 33
200398 ACGCGAAATA
200408 AAAATCGCAACGCGAAA-TAAAAATCGCAACGAC
1 AAAATCGCAACGCGAAACT-AAAATCGCAACGAC
200441 AAAATCGCAACGCGAAACTAAAATCGCAACG
1 AAAATCGCAACGCGAAACTAAAATCGCAACG
200472 CGAAACTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (33 bp):
AAAATCGCAACGCGAAACTAAAATCGCAACGAC
Found at i:200486 original size:19 final size:19
Alignment explanation
Indices: 200373--200481 Score: 131
Period size: 19 Copynumber: 5.9 Consensus size: 19
200363 AAAAATGACT
* *
200373 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATAAAA
200392 ATCGCAACGCGAAATAAAA
1 ATCGCAACGCGAAATAAAA
200411 ATCGCAACGCGAAATAAAA
1 ATCGCAACGCGAAATAAAA
*
200430 ATCGCAA--CG--A-CAAA
1 ATCGCAACGCGAAATAAAA
200444 ATCGCAACGCGAAACT-AAA
1 ATCGCAACGCGAAA-TAAAA
200463 ATCGCAACGCGAAACTAAA
1 ATCGCAACGCGAAA-TAAA
200482 TTCGCGTTGC
Statistics
Matches: 80, Mismatches: 3, Indels: 13
0.83 0.03 0.14
Matches are distributed among these distances:
14 10 0.12
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 62 0.77
20 2 0.03
ACGTcount: A:0.50, C:0.23, G:0.17, T:0.11
Consensus pattern (19 bp):
ATCGCAACGCGAAATAAAA
Found at i:200504 original size:19 final size:19
Alignment explanation
Indices: 200482--200566 Score: 63
Period size: 19 Copynumber: 4.7 Consensus size: 19
200472 CGAAACTAAA
200482 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
200501 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
200516 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
** **
200534 TTCGTATTGCGATAGTCAT
1 TTCGCGTTGCGATTTTCAT
200553 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
200567 AGATATTAAG
Statistics
Matches: 48, Mismatches: 12, Indels: 11
0.68 0.17 0.15
Matches are distributed among these distances:
14 8 0.17
16 3 0.06
17 3 0.06
19 25 0.52
20 9 0.19
ACGTcount: A:0.13, C:0.24, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:200612 original size:20 final size:19
Alignment explanation
Indices: 200520--200612 Score: 64
Period size: 20 Copynumber: 4.7 Consensus size: 19
200510 CGATTCCCTC
**
200520 GTTGCGATTTTCATTTCGT
1 GTTGCGATAGTCATTTCGT
* *
200539 ATTGCGATAGTCATTTCCGC
1 GTTGCGATAGTCATTT-CGT
**
200559 GTTGCGATAGAT-ATTAAGAT
1 GTTGCGATAG-TCATTTCG-T
200579 GATTGCGA-ACGTCATTTCTGT
1 G-TTGCGATA-GTCATTTC-GT
200600 GTTGCGATAGTCA
1 GTTGCGATAGTCA
200613 AATGAATGCC
Statistics
Matches: 56, Mismatches: 10, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
19 14 0.25
20 27 0.48
21 14 0.25
22 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.24, T:0.39
Consensus pattern (19 bp):
GTTGCGATAGTCATTTCGT
Done.