Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007417.1 Hibiscus syriacus cultivar Beakdansim tig00020059_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: 140289
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:15707 original size:31 final size:31
Alignment explanation
Indices: 15605--15707 Score: 81
Period size: 31 Copynumber: 3.3 Consensus size: 31
15595 AAACTACATA
* *
15605 TTTAGCACATAAACTATTAATTTTG-TTCTG-T
1 TTTAGTACCTAAACT-TTAATTTTGTTTC-GAT
* *
15636 TTTTGTACCTAAACTTTTTAATTTT-TTTCGAA
1 TTTAGTACCTAAAC--TTTAATTTTGTTTCGAT
*
15668 ATTA-TACCTAAACTTTAATTTTTGTTTC-AT
1 TTTAGTACCTAAACTTTAA-TTTTGTTTCGAT
15698 TTTAGTACCT
1 TTTAGTACCT
15708 CTTCGTTAAA
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
29 5 0.09
30 8 0.14
31 30 0.53
32 13 0.23
33 1 0.02
ACGTcount: A:0.27, C:0.14, G:0.07, T:0.52
Consensus pattern (31 bp):
TTTAGTACCTAAACTTTAATTTTGTTTCGAT
Found at i:28832 original size:2 final size:2
Alignment explanation
Indices: 28821--28860 Score: 64
Period size: 2 Copynumber: 20.0 Consensus size: 2
28811 TGTATATCAC
28821 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT AT
28861 GAGTATAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
1 1 0.03
2 33 0.92
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:33893 original size:16 final size:16
Alignment explanation
Indices: 33872--33947 Score: 64
Period size: 16 Copynumber: 4.8 Consensus size: 16
33862 GTAGTTGTTT
33872 TTTTTTTCTTTCTCTG
1 TTTTTTTCTTTCTCTG
*
33888 TTTTTTTCTTTCTCCG
1 TTTTTTTCTTTCTCTG
* * * *
33904 GTTCTGTCTCTCTCT-
1 TTTTTTTCTTTCTCTG
* * * *
33919 TTTTTCTGTCTCTGTG
1 TTTTTTTCTTTCTCTG
33935 TTTTTTTCTTTCT
1 TTTTTTTCTTTCT
33948 TTTTTTCAGG
Statistics
Matches: 45, Mismatches: 14, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
15 10 0.22
16 35 0.78
ACGTcount: A:0.00, C:0.22, G:0.09, T:0.68
Consensus pattern (16 bp):
TTTTTTTCTTTCTCTG
Found at i:34420 original size:3 final size:3
Alignment explanation
Indices: 34412--34513 Score: 161
Period size: 3 Copynumber: 34.0 Consensus size: 3
34402 TTTAATATAT
*
34412 ATA ATA ATA ATA ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
34460 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG ATA ATA AT- ATGG ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA
34505 ATA ATA ATA
1 ATA ATA ATA
34514 TGGATAAAAA
Statistics
Matches: 92, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
2 2 0.02
3 88 0.96
4 2 0.02
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:35079 original size:113 final size:113
Alignment explanation
Indices: 34834--35609 Score: 1383
Period size: 113 Copynumber: 6.9 Consensus size: 113
34824 AGAATTATGC
* * * * *
34834 AAAAAGTTGAACAAGTTCTTCTTATTATGAACTTCTTCTTTCTTCTTCAGATGAATTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * *
34899 TATGAAC-TTCTCTGGGAATGCTGATCCATCAATTGATGAATTCATGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
*
34946 AAAAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
35011 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
*
35059 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATAAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
35124 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
35172 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
35237 TATGAACCTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
35285 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
35350 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
35398 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
*
35463 TATGAACTTTCTCTGGAAAAGTTGATCCATCAAATGATGGATTCAGGT
66 TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
*
35511 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTTTTCAGATGAGTTCTTCTCAT
1 AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* *
35576 TATGAACCTTCTCTGGCAAAAACTGATCCATCAA
66 TATGAACTTTCTCTGG-AAAAGCTGATCCATCAA
35610 GTGGATTCGA
Statistics
Matches: 643, Mismatches: 19, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
112 68 0.11
113 560 0.87
114 15 0.02
ACGTcount: A:0.28, C:0.20, G:0.14, T:0.38
Consensus pattern (113 bp):
AAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTCAGGT
Found at i:36482 original size:83 final size:83
Alignment explanation
Indices: 36339--36648 Score: 543
Period size: 83 Copynumber: 3.7 Consensus size: 83
36329 GTCCTTACCA
* *
36339 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATATTCCAAATT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAATT
36404 CAATGATTAGTTCTGTCC
66 CAATGATTAGTTCTGTCC
*
36422 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GTAAATTCATCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTTCCAAAT
36486 TCAATGATTAGTTCTGTCC
65 TCAATGATTAGTTCTGTCC
36505 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTG-GCAAATTCATCTTCCAAAT
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCAAATTCATCTTCCAAAT
*
36569 TCAATGATTGGTTCTGTCC
65 TCAATGATTAGTTCTGTCC
*
36588 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCACATTCATCTTCCA
1 AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCA
36649 GTTAATGTTT
Statistics
Matches: 219, Mismatches: 6, Indels: 4
0.96 0.03 0.02
Matches are distributed among these distances:
82 2 0.01
83 215 0.98
84 2 0.01
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (83 bp):
AACCAGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATGAGCAAATTCATCTTCCAAATT
CAATGATTAGTTCTGTCC
Found at i:37797 original size:9 final size:9
Alignment explanation
Indices: 37784--37888 Score: 68
Period size: 9 Copynumber: 12.2 Consensus size: 9
37774 CTTGACCCCC
37784 TTTCT-TTT
1 TTTCTCTTT
37792 TCTTCT-TTT
1 T-TTCTCTTT
*
37801 TTTTTCTCTT
1 TTTCTCT-TT
37811 TTT-TC-TT
1 TTTCTCTTT
37818 TTT-TCTTT
1 TTTCTCTTT
*
37826 TTTCTATTT
1 TTTCTCTTT
37835 TTT-TCTTT
1 TTTCTCTTT
37843 TCTT-TCTTT
1 T-TTCTCTTT
*
37852 TTTCTATTT
1 TTTCTCTTT
37861 TCTT-TCTTT
1 T-TTCTCTTT
37870 TCTT-TCTTT
1 T-TTCTCTTT
37879 TTTCT-TTT
1 TTTCTCTTT
37887 TT
1 TT
37889 CTTCAAGCGT
Statistics
Matches: 83, Mismatches: 5, Indels: 18
0.78 0.05 0.17
Matches are distributed among these distances:
7 7 0.08
8 23 0.28
9 46 0.55
10 7 0.08
ACGTcount: A:0.02, C:0.16, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTCTCTTT
Found at i:37817 original size:7 final size:7
Alignment explanation
Indices: 37784--37891 Score: 109
Period size: 7 Copynumber: 15.9 Consensus size: 7
37774 CTTGACCCCC
37784 TTTC-TT
1 TTTCTTT
37790 TTTCTTCT
1 TTTCTT-T
37798 TTT-TTT
1 TTTCTTT
37804 TTCTCTTT
1 TT-TCTTT
37812 TTTCTTT
1 TTTCTTT
37819 TTTCTTT
1 TTTCTTT
*
37826 TTTCTAT
1 TTTCTTT
37833 TTT-TTT
1 TTTCTTT
* *
37839 CTT-TTC
1 TTTCTTT
37845 TTTCTTT
1 TTTCTTT
*
37852 TTTCTAT
1 TTTCTTT
37859 TTTCTTT
1 TTTCTTT
* *
37866 CTT-TTC
1 TTTCTTT
37872 TTTCTTT
1 TTTCTTT
37879 TTTCTTT
1 TTTCTTT
37886 TTTCTT
1 TTTCTT
37892 CAAGCGTAAT
Statistics
Matches: 84, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
6 19 0.23
7 56 0.67
8 9 0.11
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (7 bp):
TTTCTTT
Found at i:37889 original size:27 final size:27
Alignment explanation
Indices: 37784--37891 Score: 140
Period size: 27 Copynumber: 4.2 Consensus size: 27
37774 CTTGACCCCC
*
37784 TTTCTTT-TTCTTCTTT-TTTTTTCT-C
1 TTTCTTTCTT-TTCTTTCTTTTTTCTAT
37809 TTT-TTTC-TTT-TTTCTTTTTTCTAT
1 TTTCTTTCTTTTCTTTCTTTTTTCTAT
37833 TTT-TTTCTTTTCTTTCTTTTTTCTAT
1 TTTCTTTCTTTTCTTTCTTTTTTCTAT
*
37859 TTTCTTTCTTTTCTTTCTTTTTTCTTT
1 TTTCTTTCTTTTCTTTCTTTTTTCTAT
37886 TTTCTT
1 TTTCTT
37892 CAAGCGTAAT
Statistics
Matches: 75, Mismatches: 2, Indels: 10
0.86 0.02 0.11
Matches are distributed among these distances:
22 3 0.04
23 10 0.13
24 11 0.15
25 6 0.08
26 17 0.23
27 28 0.37
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (27 bp):
TTTCTTTCTTTTCTTTCTTTTTTCTAT
Found at i:50227 original size:30 final size:30
Alignment explanation
Indices: 50182--50259 Score: 81
Period size: 29 Copynumber: 2.7 Consensus size: 30
50172 TTGTTTTTTT
* *
50182 TTCTT-TCTCTGTTTTTTTCTTTCTCCG-G
1 TTCTTCTCTCTCTTTTTTTCTGTCTCCGTG
*
50210 TTCTGTCTCTCTC-TTTTTTCTGTCTCTGTG
1 TTCT-TCTCTCTCTTTTTTTCTGTCTCCGTG
* *
50240 TTCTTTTCTTTCTTTTTTTC
1 TTCTTCTCTCTCTTTTTTTC
50260 AGGTTGGGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
28 4 0.10
29 20 0.49
30 17 0.41
ACGTcount: A:0.00, C:0.24, G:0.09, T:0.67
Consensus pattern (30 bp):
TTCTTCTCTCTCTTTTTTTCTGTCTCCGTG
Found at i:50717 original size:11 final size:11
Alignment explanation
Indices: 50694--50725 Score: 55
Period size: 11 Copynumber: 2.8 Consensus size: 11
50684 TGTAATTAAT
50694 TATTTATATATA
1 TATTTA-ATATA
50706 TATTTAATATA
1 TATTTAATATA
50717 TATTTAATA
1 TATTTAATA
50726 ATAATAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.70
12 6 0.30
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTAATATA
Found at i:50729 original size:3 final size:3
Alignment explanation
Indices: 50721--50836 Score: 180
Period size: 3 Copynumber: 38.7 Consensus size: 3
50711 AATATATATT
*
50721 TAA TAA TAA TAA TAA TGA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* *
50769 TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
50817 TAA T-A TGGA TAA TAA TAA TA
1 TAA TAA T-AA TAA TAA TAA TA
50837 TGGATAAAAA
Statistics
Matches: 104, Mismatches: 7, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
2 2 0.02
3 100 0.96
4 2 0.02
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:53122 original size:18 final size:18
Alignment explanation
Indices: 53095--53131 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
53085 TGAAAAAAAC
*
53095 ATAAACGAACTAACATAA
1 ATAAACGAACAAACATAA
*
53113 ATAAATGAACAAACATAA
1 ATAAACGAACAAACATAA
53131 A
1 A
53132 CGAATGTATT
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:0.65, C:0.14, G:0.05, T:0.16
Consensus pattern (18 bp):
ATAAACGAACAAACATAA
Found at i:54728 original size:17 final size:17
Alignment explanation
Indices: 54706--54739 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
54696 CCTTAGTGGA
54706 AACATTTAAAAAATAAT
1 AACATTTAAAAAATAAT
* *
54723 AACATTTTAAAATTAAT
1 AACATTTAAAAAATAAT
54740 CAAGAGGGTA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (17 bp):
AACATTTAAAAAATAAT
Found at i:61169 original size:21 final size:21
Alignment explanation
Indices: 61143--61182 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
61133 CCCCCTTTGA
*
61143 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
61164 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
61183 TGGGGTTCTG
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:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:61592 original size:23 final size:23
Alignment explanation
Indices: 61552--61597 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
61542 AAGAATTTTC
*
61552 AAAAAAATTTAATTTTTTGAAATA
1 AAAAAAATTTAA-TTTTTCAAATA
61576 AAAAAAATGTTAA-TTTTCAAAT
1 AAAAAAAT-TTAATTTTTCAAAT
61598 TATTGTGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 8 0.40
24 8 0.40
25 4 0.20
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (23 bp):
AAAAAAATTTAATTTTTCAAATA
Found at i:65182 original size:29 final size:30
Alignment explanation
Indices: 65106--65220 Score: 119
Period size: 30 Copynumber: 3.8 Consensus size: 30
65096 TATATCCTGT
* *
65106 TTTAAAACATATATTTTATTATCTA-TCTAAC
1 TTTAAAA-ATATATTTTATT-TTTATTTTAAC
* *
65137 -TTATTAAATATATTTTATTTTTATTTTTA-
1 TTTA-AAAATATATTTTATTTTTATTTTAAC
* * *
65166 TTTTAAAATATATTTTATTCTTATCTTAAC
1 TTTAAAAATATATTTTATTTTTATTTTAAC
65196 TTTAAAAATATATTTTATTTTTATT
1 TTTAAAAATATATTTTATTTTTATT
65221 ACCTTAAAAA
Statistics
Matches: 68, Mismatches: 12, Indels: 9
0.76 0.13 0.10
Matches are distributed among these distances:
29 24 0.35
30 42 0.62
31 2 0.03
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (30 bp):
TTTAAAAATATATTTTATTTTTATTTTAAC
Found at i:65183 original size:59 final size:61
Alignment explanation
Indices: 65105--65220 Score: 168
Period size: 59 Copynumber: 1.9 Consensus size: 61
65095 TTATATCCTG
*
65105 TTTTAAAACATATATTTTATTATCTATC-TAAC-TTATTAAATATATTTTATTTTTATTTTTA
1 TTTTAAAACATATATTTTATTAT-TATCTTAACTTTA-AAAATATATTTTATTTTTATTTTTA
*
65166 TTTT-AAA-ATATATTTTATTCTTATCTTAACTTTAAAAATATATTTTATTTTTATT
1 TTTTAAAACATATATTTTATTATTATCTTAACTTTAAAAATATATTTTATTTTTATT
65221 ACCTTAAAAA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
58 4 0.08
59 37 0.73
60 6 0.12
61 4 0.08
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.59
Consensus pattern (61 bp):
TTTTAAAACATATATTTTATTATTATCTTAACTTTAAAAATATATTTTATTTTTATTTTTA
Found at i:65596 original size:21 final size:19
Alignment explanation
Indices: 65540--65611 Score: 83
Period size: 21 Copynumber: 3.6 Consensus size: 19
65530 AATTGGAGGA
65540 AATTAAATTTAATGAA-TT
1 AATTAAATTTAATGAATTT
*
65558 AAGTAAATTATAAATGAATTT
1 AATTAAATT-T-AATGAATTT
65579 AGGATTAAATTTAATGAATTT
1 A--ATTAAATTTAATGAATTT
*
65600 AATTAAAATTAA
1 AATTAAATTTAA
65612 GATTAAATTG
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
18 8 0.17
19 11 0.24
20 6 0.13
21 13 0.28
22 1 0.02
23 7 0.15
ACGTcount: A:0.51, C:0.00, G:0.08, T:0.40
Consensus pattern (19 bp):
AATTAAATTTAATGAATTT
Found at i:67315 original size:2 final size:2
Alignment explanation
Indices: 67308--67333 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
67298 ATAATATTGG
67308 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
67334 TCCATGATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68870 original size:30 final size:31
Alignment explanation
Indices: 68806--68871 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 31
68796 ATGATTGAGA
* *
68806 GACTAAAATCGAATGGATCAATAATGTTAGG
1 GACTAAAATCGAACGGATCAATAATGTTAAG
** *
68837 GACTAAAA-CGAACGGATTGATAATTTTAAG
1 GACTAAAATCGAACGGATCAATAATGTTAAG
68867 GACTA
1 GACTA
68872 TTCCTCCTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 22 0.73
31 8 0.27
ACGTcount: A:0.42, C:0.11, G:0.21, T:0.26
Consensus pattern (31 bp):
GACTAAAATCGAACGGATCAATAATGTTAAG
Found at i:71454 original size:21 final size:21
Alignment explanation
Indices: 71424--71463 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
71414 TTCTCATTCG
* *
71424 TTGTTTGGCGAAATCGAAACA
1 TTGTTGGGCGAAACCGAAACA
71445 TTGTTGGGCGAAACCGAAA
1 TTGTTGGGCGAAACCGAAA
71464 TGACTCCGGC
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:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (21 bp):
TTGTTGGGCGAAACCGAAACA
Found at i:78224 original size:17 final size:17
Alignment explanation
Indices: 78194--78227 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
78184 AATATACGGG
78194 GCAAAGTGACTATTTGT
1 GCAAAGTGACTATTTGT
* *
78211 GCAAATTGATTATTTGT
1 GCAAAGTGACTATTTGT
78228 AAAATGTTAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.09, G:0.21, T:0.41
Consensus pattern (17 bp):
GCAAAGTGACTATTTGT
Found at i:78428 original size:21 final size:20
Alignment explanation
Indices: 78343--78499 Score: 84
Period size: 21 Copynumber: 7.8 Consensus size: 20
78333 AATGACCAAT
** *
78343 AAAATCGCAACGCGA-AATA
1 AAAATCGCAACGCGATTTTC
***
78362 AAAATCGCAACGCGATCCCC
1 AAAATCGCAACGCGATTTTC
* ** *
78382 AGAATCGCAAATC-AGTTTCC
1 AAAATCGCAACGCGA-TTTTC
*
78402 AAAATCGCAACGCGATTCTTG
1 AAAATCGCAACGCGATT-TTC
* * *
78423 AAAATCGCAATGCGATAGTAC
1 AAAATCGCAACGCGAT-TTTC
* **
78444 AAATTCGCATTGCGATTTTCC
1 AAAATCGCAACGCGATTTT-C
* * *
78465 AAAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTTTC
78485 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
78500 ACACATAAAT
Statistics
Matches: 104, Mismatches: 28, Indels: 11
0.73 0.20 0.08
Matches are distributed among these distances:
19 16 0.15
20 41 0.39
21 47 0.45
ACGTcount: A:0.39, C:0.25, G:0.17, T:0.19
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTTC
Found at i:78528 original size:20 final size:20
Alignment explanation
Indices: 78466--78658 Score: 228
Period size: 20 Copynumber: 9.7 Consensus size: 20
78456 CGATTTTCCA
* ** *
78466 AAATCGCAACGCGAATATGA
1 AAATCGCAACGCGTATCCGT
* *
78486 AAATCGCAACGCG-AACACAT
1 AAATCGCAACGCGTATC-CGT
78506 AAATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
78526 AAATCGCAACGTGTATCCGT
1 AAATCGCAACGCGTATCCGT
**
78546 AAATCGCAACGCGTATGGGT
1 AAATCGCAACGCGTATCCGT
*
78566 AAATCGCAATGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
78586 ATATCGCAACGCGTATCCGT
1 AAATCGCAACGCGTATCCGT
*
78606 AAATCGCAACG-ATAATCCGT
1 AAATCGCAACGCGT-ATCCGT
* *
78626 AAATCGCAACGAGAATCCGT
1 AAATCGCAACGCGTATCCGT
78646 AAATCGCAACGCG
1 AAATCGCAACGCG
78659 ATATTTAAAG
Statistics
Matches: 148, Mismatches: 21, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
19 2 0.01
20 144 0.97
21 2 0.01
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AAATCGCAACGCGTATCCGT
Found at i:79182 original size:20 final size:20
Alignment explanation
Indices: 79156--79213 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 20
79146 TTTGCAGAAG
*
79156 AGTCGCAACGAGAGAATGAC
1 AGTCGCAACGAGAGAATGAA
*
79176 TGTCGCAACGAGAGAAATGAA
1 AGTCGCAACGAGAG-AATGAA
*
79197 AATCGCAACGAGAGAAT
1 AGTCGCAACGAGAGAAT
79214 CGCAACGCGA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 16 0.48
21 17 0.52
ACGTcount: A:0.43, C:0.17, G:0.28, T:0.12
Consensus pattern (20 bp):
AGTCGCAACGAGAGAATGAA
Found at i:79216 original size:14 final size:14
Alignment explanation
Indices: 79197--79253 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
79187 GAGAAATGAA
79197 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
79211 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
79230 AATCGCAACGAGAG
1 AATCGCAACGAGAG
79244 AATCGCAACG
1 AATCGCAACG
79254 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:79229 original size:33 final size:33
Alignment explanation
Indices: 79189--79269 Score: 144
Period size: 33 Copynumber: 2.5 Consensus size: 33
79179 CGCAACGAGA
79189 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
79222 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
**
79255 GAAACCAAAATCGCA
1 GAAATGAAAATCGCA
79270 TTGCGATTTT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.22, G:0.22, T:0.09
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:79287 original size:19 final size:19
Alignment explanation
Indices: 79265--79329 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
79255 GAAACCAAAA
*
79265 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
79284 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* *
79298 TCTCGTTGCGATTGTCATT
1 TCGCGTTGCGATTTTCATT
79317 TCGCGTTGCGATT
1 TCGCGTTGCGATT
79330 CTCTCGTTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
14 10 0.27
16 2 0.05
17 3 0.08
19 22 0.59
ACGTcount: A:0.11, C:0.23, G:0.23, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:79306 original size:14 final size:14
Alignment explanation
Indices: 79287--79343 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
79277 TTTCATTTCG
79287 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
79301 CGTTGCGATTGTCATTTCG
1 CGTTGCGA-T-TC---TCT
79320 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
79334 CGTTGCGATT
1 CGTTGCGATT
79344 TTCATTTCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.09, C:0.25, G:0.25, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:79316 original size:33 final size:33
Alignment explanation
Indices: 79270--79351 Score: 155
Period size: 33 Copynumber: 2.5 Consensus size: 33
79260 CAAAATCGCA
79270 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
*
79303 TTGCGATTGTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
79336 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
79352 AACCCAAAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.10, C:0.23, G:0.21, T:0.46
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:81209 original size:93 final size:93
Alignment explanation
Indices: 81050--81425 Score: 727
Period size: 93 Copynumber: 4.1 Consensus size: 93
81040 TAGATTGCTT
*
81050 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
81115 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
81143 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
81208 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
81236 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
81301 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
81329 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
*
81394 TTTGTCTTTGTTTTGTCTATTGGTTG-A
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
81421 AGTAA
1 AGTAA
81426 TGCAATCCAT
Statistics
Matches: 281, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
92 6 0.02
93 275 0.98
ACGTcount: A:0.22, C:0.13, G:0.19, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:81513 original size:19 final size:18
Alignment explanation
Indices: 81473--81600 Score: 101
Period size: 19 Copynumber: 7.3 Consensus size: 18
81463 TAGTTTACTT
*
81473 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC--AAAA
81493 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAA-CAAAA
**
81512 TCGCAACGCGAAATGAAA
1 TCGCAACGCGAAACAAAA
*
81530 TCGCAA--CG--ACAGAA
1 TCGCAACGCGAAACAAAA
*
81544 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAA-CAAAA
*
81563 TCGCAA--CG--ACAAGA
1 TCGCAACGCGAAACAAAA
81577 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAA-CAAAA
81596 TCGCA
1 TCGCA
81601 TTGCGATTTT
Statistics
Matches: 86, Mismatches: 11, Indels: 23
0.72 0.09 0.19
Matches are distributed among these distances:
14 18 0.21
15 1 0.01
16 6 0.07
17 2 0.02
18 11 0.13
19 35 0.41
20 12 0.14
21 1 0.01
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.09
Consensus pattern (18 bp):
TCGCAACGCGAAACAAAA
Found at i:81569 original size:33 final size:32
Alignment explanation
Indices: 81509--81600 Score: 141
Period size: 33 Copynumber: 2.8 Consensus size: 32
81499 CGCGAAACCA
81509 AAATCGCAACGCGAAATG-AAATCGCAACGAC
1 AAATCGCAACGCGAAATGAAAATCGCAACGAC
81540 AGAATCGCAACGCGAAATGAAAATCGCAACGAC
1 A-AATCGCAACGCGAAATGAAAATCGCAACGAC
**
81573 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAATGAAAATCGCA
81601 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
31 1 0.02
32 18 0.32
33 37 0.66
ACGTcount: A:0.46, C:0.26, G:0.20, T:0.09
Consensus pattern (32 bp):
AAATCGCAACGCGAAATGAAAATCGCAACGAC
Found at i:81618 original size:19 final size:18
Alignment explanation
Indices: 81596--81714 Score: 110
Period size: 19 Copynumber: 6.8 Consensus size: 18
81586 GAAACCAAAA
*
81596 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
81615 TCGCGTTGCGA--TTCTT
1 TCGCGTTGCGATTTTCTT
*
81631 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
*
81648 TCGCGTTGCGA--TTCTG
1 TCGCGTTGCGATTTTCTT
81664 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTC-TT
*
81681 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTT-CTT
81700 TCGCGTTGCGATTTT
1 TCGCGTTGCGATTTT
81715 AAGTTTCGTG
Statistics
Matches: 83, Mismatches: 6, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
14 16 0.19
16 10 0.12
17 10 0.12
19 47 0.57
ACGTcount: A:0.08, C:0.19, G:0.25, T:0.47
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCTT
Found at i:81637 original size:14 final size:14
Alignment explanation
Indices: 81618--81674 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
81608 TTTCATTTCG
81618 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
*
81632 CGTTGCGATTTTGGTTT
1 CGTTGCGA--TT-CTTT
*
81649 CGCGTTGCGATTCTGT
1 --CGTTGCGATTCTTT
81665 CGTTGCGATT
1 CGTTGCGATT
81675 TTCATTTCGC
Statistics
Matches: 35, Mismatches: 3, Indels: 10
0.73 0.06 0.21
Matches are distributed among these distances:
14 18 0.51
16 4 0.11
17 5 0.14
19 8 0.23
ACGTcount: A:0.07, C:0.19, G:0.28, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:81643 original size:33 final size:33
Alignment explanation
Indices: 81601--81693 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
81591 CAAAATCGCA
*
81601 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
**
81634 TTGCGATTTTGGTTTCGCGTTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
81667 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
81694 TTGGTTTCGC
Statistics
Matches: 55, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 55 1.00
ACGTcount: A:0.09, C:0.19, G:0.25, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:81722 original size:20 final size:19
Alignment explanation
Indices: 81596--81730 Score: 105
Period size: 19 Copynumber: 7.6 Consensus size: 19
81586 GAAACCAAAA
*
81596 TCGCATTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
81615 TCGCGTTGCGA--TT-CTT
1 TCGCGTTGCGATTTTAGTT
*
81631 T--CGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
*
81648 TCGCGTTGCGATTCT-G--
1 TCGCGTTGCGATTTTAGTT
81664 T--CGTTGCGATTTTCA-TT
1 TCGCGTTGCGATTTT-AGTT
*
81681 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTAGTT
81700 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTT-AGTT
*
81720 TCGTGTTGCGA
1 TCGCGTTGCGA
81731 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 7, Indels: 27
0.74 0.05 0.21
Matches are distributed among these distances:
14 19 0.20
16 6 0.06
17 6 0.06
18 1 0.01
19 50 0.53
20 13 0.14
ACGTcount: A:0.10, C:0.19, G:0.26, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTAGTT
Found at i:83673 original size:14 final size:14
Alignment explanation
Indices: 83654--83689 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
83644 ATTGTTTAAT
83654 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
83668 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
83682 TGATTTGT
1 TGATTTGT
83690 GTAATTGATG
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:83808 original size:19 final size:19
Alignment explanation
Indices: 83792--83889 Score: 143
Period size: 19 Copynumber: 5.4 Consensus size: 19
83782 AAAAATGACT
83792 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
83811 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
83830 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
83844 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
83863 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
83883 ATCGCAA
1 ATCGCAA
83890 CGAGAGAATC
Statistics
Matches: 71, Mismatches: 2, Indels: 11
0.85 0.02 0.13
Matches are distributed among these distances:
14 10 0.14
15 1 0.01
16 2 0.03
17 2 0.03
18 1 0.01
19 39 0.55
20 16 0.23
ACGTcount: A:0.46, C:0.17, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:83921 original size:53 final size:53
Alignment explanation
Indices: 83792--83908 Score: 227
Period size: 53 Copynumber: 2.2 Consensus size: 53
83782 AAAAATGACT
83792 ATCGCAATGCGAAATGAAAATCGCAATGC-GAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
83844 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
83897 ATCGCAATGCGA
1 ATCGCAATGCGA
83909 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 29 0.45
53 35 0.55
ACGTcount: A:0.44, C:0.18, G:0.24, T:0.14
Consensus pattern (53 bp):
ATCGCAATGCGAAATGAAAATCGCAATGCGGAAATGAAAATCGCAACGAGAGA
Found at i:83926 original size:19 final size:19
Alignment explanation
Indices: 83898--84119 Score: 241
Period size: 19 Copynumber: 12.7 Consensus size: 19
83888 AACGAGAGAA
*
83898 TCGCAATGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
83917 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
* *
83936 TCTCATTGCGA--TT-ATC
1 TCGCATTGCGATTTTCATT
83952 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
83969 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
*
83988 TCGCATTGCGA--TTC-TC
1 TCGCATTGCGATTTTCATT
84004 TCG--TTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
84021 TCGCATTGCGATTTTCATT
1 TCGCATTGCGATTTTCATT
84040 TCGCATTGCGATTTTC---
1 TCGCATTGCGATTTTCATT
*
84056 TCG--TTGCGATTTTTATT
1 TCGCATTGCGATTTTCATT
84073 TCCGCATTGCGATTTTCA--
1 T-CGCATTGCGATTTTCATT
*
84091 T-G--TTGGGATTTTCATT
1 TCGCATTGCGATTTTCATT
84107 TCGCATTGCGATT
1 TCGCATTGCGATT
84120 CTCTCGTTGC
Statistics
Matches: 171, Mismatches: 11, Indels: 42
0.76 0.05 0.19
Matches are distributed among these distances:
14 33 0.19
16 18 0.11
17 16 0.09
18 3 0.02
19 90 0.53
20 11 0.06
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TCGCATTGCGATTTTCATT
Found at i:83966 original size:52 final size:52
Alignment explanation
Indices: 83904--84091 Score: 331
Period size: 52 Copynumber: 3.6 Consensus size: 52
83894 AGAATCGCAA
*
83904 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCTCATTGCGATTATCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
*
83956 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
*
84008 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
*
84060 TGCGATTTTTATTTCCGCATTGCGATTTTCAT
1 TGCGATTTTCATTT-CGCATTGCGATTTTCAT
84092 GTTGGGATTT
Statistics
Matches: 131, Mismatches: 4, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
52 114 0.87
53 17 0.13
ACGTcount: A:0.14, C:0.21, G:0.16, T:0.48
Consensus pattern (52 bp):
TGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTATCTCGT
Found at i:84141 original size:33 final size:33
Alignment explanation
Indices: 83922--84133 Score: 198
Period size: 33 Copynumber: 6.2 Consensus size: 33
83912 TCATTTCGCA
* *
83922 TTGCGATTTTCATTTCTCATTGCGATTATCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
*
83955 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCG
1 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG
* * * * *
83991 CATTGCGATTCTCTCGTTGCG-ATTTTC-ATT-TCGCA
1 --TTGCGATT-T-TCATTTCGCA-TTGCGATTCTCTCG
*
84026 TTGCGATTTTCATTTCGCATTGCGATTTTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
* *
84059 TTGCGATTTTTATTTCCGCATTGCGATTTTCAT-G
1 TTGCGATTTTCATTT-CGCATTGCGATTCTC-TCG
*
84093 TTGGGATTTTCATTTCGCATTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
84126 TTGCGATT
1 TTGCGATT
84134 GTAATTTCCG
Statistics
Matches: 146, Mismatches: 19, Indels: 28
0.76 0.10 0.15
Matches are distributed among these distances:
31 9 0.06
32 6 0.04
33 71 0.49
34 29 0.20
35 5 0.03
36 4 0.03
37 2 0.01
38 8 0.05
39 3 0.02
40 9 0.06
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.48
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTCTCTCG
Found at i:86670 original size:24 final size:24
Alignment explanation
Indices: 86636--86682 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
86626 CTGAAACATC
86636 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
86660 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
86683 GACCAAATTT
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:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:87421 original size:20 final size:20
Alignment explanation
Indices: 87396--87607 Score: 183
Period size: 20 Copynumber: 10.2 Consensus size: 20
87386 TGCCCTACCG
* *
87396 GATTTACAGATTCTCGTTGC
1 GATTTACGGATTCGCGTTGC
**
87416 GATTTACGGATTATCGTTGC
1 GATTTACGGATTCGCGTTGC
87436 GATTTACGGATTATCGTTGCGATTGC
1 GATTTACGGA-T-TC---GCG-TTGC
**
87462 GATTTACGGATTATCGTTGC
1 GATTTACGGATTCGCGTTGC
*
87482 GATTTACGGATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
* * *
87502 GATATACGGATACGCATTGC
1 GATTTACGGATTCGCGTTGC
** *
87522 GATTTACCCATACGCGTTGC
1 GATTTACGGATTCGCGTTGC
*
87542 GATTTACGGATACGCGATTGC
1 GATTTACGGATTCGCG-TTGC
*
87563 GATTTATGTG-TTCGCGTTGC
1 GATTTACG-GATTCGCGTTGC
* **
87583 GATTTTCATATTCGCGTTGC
1 GATTTACGGATTCGCGTTGC
87603 GATTT
1 GATTT
87608 TGGAAAATCG
Statistics
Matches: 160, Mismatches: 23, Indels: 18
0.80 0.11 0.09
Matches are distributed among these distances:
20 121 0.76
21 19 0.12
22 2 0.01
24 1 0.01
25 3 0.02
26 14 0.09
ACGTcount: A:0.20, C:0.18, G:0.25, T:0.37
Consensus pattern (20 bp):
GATTTACGGATTCGCGTTGC
Found at i:87461 original size:26 final size:26
Alignment explanation
Indices: 87432--87485 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
87422 CGGATTATCG
87432 TTGCGATTTACGGATTATCGTTGCGA
1 TTGCGATTTACGGATTATCGTTGCGA
87458 TTGCGATTTACGGATTATCGTTGCGA
1 TTGCGATTTACGGATTATCGTTGCGA
87484 TT
1 TT
87486 TACGGATACG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.19, C:0.15, G:0.26, T:0.41
Consensus pattern (26 bp):
TTGCGATTTACGGATTATCGTTGCGA
Found at i:87495 original size:26 final size:25
Alignment explanation
Indices: 87419--87485 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 25
87409 TCGTTGCGAT
87419 TTACGGATTATCGTTGCGA-T----
1 TTACGGATTATCGTTGCGATTACGA
*
87439 TTACGGATTATCGTTGCGATTGCGA
1 TTACGGATTATCGTTGCGATTACGA
87464 TTTACGGATTATCGTTGCGATT
1 -TTACGGATTATCGTTGCGATT
87486 TACGGATACG
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
20 19 0.46
21 1 0.02
26 21 0.51
ACGTcount: A:0.19, C:0.15, G:0.25, T:0.40
Consensus pattern (25 bp):
TTACGGATTATCGTTGCGATTACGA
Found at i:87500 original size:46 final size:46
Alignment explanation
Indices: 87412--87504 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
87402 CAGATTCTCG
*
87412 TTGCGATTTACGGATTATCGTTGCGATTTACGGATTATCGTTGCGA
1 TTGCGATTTACGGATTATCGTTGCGATTTACGGATTAGCGTTGCGA
87458 TTGCGATTTACGGATTATCGTTGCGATTTACGGA-TACGCGTTGCGA
1 TTGCGATTTACGGATTATCGTTGCGATTTACGGATTA-GCGTTGCGA
87504 T
1 T
87505 ATACGGATAC
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
45 2 0.04
46 43 0.96
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.38
Consensus pattern (46 bp):
TTGCGATTTACGGATTATCGTTGCGATTTACGGATTAGCGTTGCGA
Found at i:87624 original size:21 final size:21
Alignment explanation
Indices: 87594--87676 Score: 78
Period size: 21 Copynumber: 4.0 Consensus size: 21
87584 ATTTTCATAT
*
87594 TCGCGTTGCGATTTTGGAAAA
1 TCGCATTGCGATTTTGGAAAA
* * * **
87615 TCGCAATGCGAATTTGTACTA
1 TCGCATTGCGATTTTGGAAAA
*
87636 TCGCATTGCGATTTT-CAAGAA
1 TCGCATTGCGATTTTGGAA-AA
*
87657 TCGCGTTGCGATTTTGGAAA
1 TCGCATTGCGATTTTGGAAA
87677 CTGATTTGCG
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
20 1 0.02
21 44 0.94
22 2 0.04
ACGTcount: A:0.25, C:0.17, G:0.24, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTGGAAAA
Found at i:87667 original size:42 final size:43
Alignment explanation
Indices: 87574--87672 Score: 100
Period size: 42 Copynumber: 2.4 Consensus size: 43
87564 ATTTATGTGT
* *
87574 TCGCGTTGCG-ATTT-TCATATTCGCGTTGCGATTTTGGAAAA
1 TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
**
87615 TCGCAATGCGAATTTGT-ACTA-TCGCATTGCGATTTT-CAAGAA
1 TCGCGTTGCGAATTTGTCA-TATTCGCATTGCGATTTTGCAA-AA
*
87657 TCGCGTTGCGATTTTG
1 TCGCGTTGCGAATTTG
87673 GAAACTGATT
Statistics
Matches: 47, Mismatches: 7, Indels: 7
0.77 0.11 0.11
Matches are distributed among these distances:
41 10 0.21
42 34 0.72
43 3 0.06
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.37
Consensus pattern (43 bp):
TCGCGTTGCGAATTTGTCATATTCGCATTGCGATTTTGCAAAA
Found at i:93535 original size:22 final size:23
Alignment explanation
Indices: 93483--93537 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
93473 GATAAAAAAC
93483 GTGTCATAAAAATAGAAAACACAT
1 GTGT-ATAAAAATAGAAAACACAT
* * *
93507 GT-CATAAAGATAGAAAA-ATAT
1 GTGTATAAAAATAGAAAACACAT
93528 GTGTATAAAA
1 GTGTATAAAA
93538 GCATAAATAT
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 5 0.20
22 18 0.72
24 2 0.08
ACGTcount: A:0.55, C:0.07, G:0.15, T:0.24
Consensus pattern (23 bp):
GTGTATAAAAATAGAAAACACAT
Found at i:94441 original size:59 final size:58
Alignment explanation
Indices: 94329--94442 Score: 149
Period size: 59 Copynumber: 1.9 Consensus size: 58
94319 TCATTTTTTT
** * * *
94329 AACTTTTAATAATCGAGGACTCACAAAGCAATGCCTTATAGTCAATGGGTCATTTCAA
1 AACTTTTAATAATCGAGGACTCACAAAGCAACACCCTACAGTCAATGGATCATTTCAA
*
94387 AACTTTTAATAATAGGAGGACTCAACAAAGCAACACCCTACAGTC-ATGGATCATTT
1 AACTTTTAATAAT-CGAGGACTC-ACAAAGCAACACCCTACAGTCAATGGATCATTT
94443 GTGTACTTCA
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
58 13 0.27
59 18 0.38
60 17 0.35
ACGTcount: A:0.38, C:0.20, G:0.15, T:0.27
Consensus pattern (58 bp):
AACTTTTAATAATCGAGGACTCACAAAGCAACACCCTACAGTCAATGGATCATTTCAA
Found at i:94549 original size:305 final size:305
Alignment explanation
Indices: 93994--94604 Score: 1064
Period size: 305 Copynumber: 2.0 Consensus size: 305
93984 TGCATTTAGA
* * *
93994 ACATATGAATAATCATGTGATCATTTTTTTAAACTTTTAATAGTCGAGGACTCACAAAGCAATGT
1 ACATATGAATAATCACGTGATCATTTTTTTAAACTTTTAATAATCGAGGACTCACAAAGCAATGC
* *
94059 CTTATAGTTAATGGGTCATTTCATAACTTTTAATAATAGGAGGACTCAACAAAGCAACACCCTAC
66 CTTATAGTCAATGGGTCATTTCAAAACTTTTAATAATAGGAGGACTCAACAAAGCAACACCCTAC
*
94124 AGTCAGAGATCATTTGTGTACTTCACCCTTTTTTCTTATTCGAAATTCACTCAATGCTTATATAA
131 AGTCAGAGATCATTTGTGTACTTCACCCTTTTTTCTTATTCGAAATCCACTCAATGCTTATATAA
*
94189 ATAGCAGCTTTACCAAGGTTTTAAGTTTGACTCATTGTGAAATCTTTGCTGGGAGACTCACCCAC
196 ACAGCAGCTTTACCAAGGTTTTAAGTTTGACTCATTGTGAAATCTTTGCTGGGAGACTCACCCAC
* *
94254 CAAAATCAGGTGTGTGACACATGTCGGTCGAAATTAGTCAATACG
261 CAAAATCAGGTGTGTAACACAGGTCGGTCGAAATTAGTCAATACG
94299 ACATATGAATAATCACGTGATCATTTTTTT-AACTTTTAATAATCGAGGACTCACAAAGCAATGC
1 ACATATGAATAATCACGTGATCATTTTTTTAAACTTTTAATAATCGAGGACTCACAAAGCAATGC
94363 CTTATAGTCAATGGGTCATTTCAAAACTTTTAATAATAGGAGGACTCAACAAAGCAACACCCTAC
66 CTTATAGTCAATGGGTCATTTCAAAACTTTTAATAATAGGAGGACTCAACAAAGCAACACCCTAC
94428 AGTCATG-GATCATTTGTGTACTTCACCCTTTTTTTCTTATTCGAAATCCACTCAATGCTTATAT
131 AGTCA-GAGATCATTTGTGTACTTCACCC-TTTTTTCTTATTCGAAATCCACTCAATGCTTATAT
* * *
94492 AAACAGCAGCTTTATCAAGGTTTTAAGTTTGACTTATTGTGAAATCTTTGTTGGGAGACTCACCC
194 AAACAGCAGCTTTACCAAGGTTTTAAGTTTGACTCATTGTGAAATCTTTGCTGGGAGACTCACCC
**
94557 ACCAAAATCAGGTGTGTAACGTAGGTCGGTCGAAATTAGTCAATACG
259 ACCAAAATCAGGTGTGTAACACAGGTCGGTCGAAATTAGTCAATACG
94604 A
1 A
94605 AGTCTTGGAA
Statistics
Matches: 290, Mismatches: 14, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
304 121 0.42
305 169 0.58
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (305 bp):
ACATATGAATAATCACGTGATCATTTTTTTAAACTTTTAATAATCGAGGACTCACAAAGCAATGC
CTTATAGTCAATGGGTCATTTCAAAACTTTTAATAATAGGAGGACTCAACAAAGCAACACCCTAC
AGTCAGAGATCATTTGTGTACTTCACCCTTTTTTCTTATTCGAAATCCACTCAATGCTTATATAA
ACAGCAGCTTTACCAAGGTTTTAAGTTTGACTCATTGTGAAATCTTTGCTGGGAGACTCACCCAC
CAAAATCAGGTGTGTAACACAGGTCGGTCGAAATTAGTCAATACG
Found at i:95032 original size:92 final size:92
Alignment explanation
Indices: 94922--95107 Score: 327
Period size: 92 Copynumber: 2.0 Consensus size: 92
94912 AACTAAATGT
* *
94922 TAGGTATGATTTTGAAAAAATTGAAAGTTTAGATACTAAAACAAACCAAAATTAATAGCTTAGAT
1 TAGGTATGATTTTAAAAAAATTGAAAGTTTAAATACTAAAACAAACCAAAATTAATAGCTTAGAT
94987 ACTAAATAAGTAGTTTACCCTAAATAA
66 ACTAAATAAGTAGTTTACCCTAAATAA
95014 TAGGTATGATTTTAAAAAAATTGAAAGTTTAAATACTAAAACAAACCAAAATTAATAGCTTAGAT
1 TAGGTATGATTTTAAAAAAATTGAAAGTTTAAATACTAAAACAAACCAAAATTAATAGCTTAGAT
* **
95079 ATTAAATGCGTAGTTTACCCTAAATAA
66 ACTAAATAAGTAGTTTACCCTAAATAA
95106 TA
1 TA
95108 AAGTCAACTA
Statistics
Matches: 89, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
92 89 1.00
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.31
Consensus pattern (92 bp):
TAGGTATGATTTTAAAAAAATTGAAAGTTTAAATACTAAAACAAACCAAAATTAATAGCTTAGAT
ACTAAATAAGTAGTTTACCCTAAATAA
Found at i:95381 original size:20 final size:20
Alignment explanation
Indices: 95358--95415 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
95348 TTTTGCTTGA
95358 AAATGTCTTATTATTCAATT
1 AAATGTCTTATTATTCAATT
*
95378 AAAT-T-TT-TTATT-AATAA
1 AAATGTCTTATTATTCAAT-T
*
95395 AAAAGTCTTATTATTCAATT
1 AAATGTCTTATTATTCAATT
95415 A
1 A
95416 TATTTTTAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 10
0.70 0.07 0.23
Matches are distributed among these distances:
16 3 0.10
17 8 0.27
18 3 0.10
19 3 0.10
20 10 0.33
21 3 0.10
ACGTcount: A:0.41, C:0.07, G:0.03, T:0.48
Consensus pattern (20 bp):
AAATGTCTTATTATTCAATT
Found at i:95965 original size:6 final size:6
Alignment explanation
Indices: 95954--95978 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
95944 TGAATAATTA
95954 TAGGGT TAGGGT TAGGGT TAGGGT T
1 TAGGGT TAGGGT TAGGGT TAGGGT T
95979 GAGTGGCGAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.48, T:0.36
Consensus pattern (6 bp):
TAGGGT
Found at i:99520 original size:4 final size:4
Alignment explanation
Indices: 99511--99553 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
99501 AGTAAAGCAT
* * *
99511 ATAC ATAC ATGC ATGC ATGC ATAC ATAC ATAC ATAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
99554 TTATTGGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 37 1.00
ACGTcount: A:0.44, C:0.23, G:0.07, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:99675 original size:4 final size:4
Alignment explanation
Indices: 99666--99690 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
99656 TAAAGCATAG
99666 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
99691 ACAAGTATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:109357 original size:60 final size:59
Alignment explanation
Indices: 109240--109357 Score: 132
Period size: 60 Copynumber: 2.0 Consensus size: 59
109230 TTTGGATGAA
** * *
109240 TTTGGGGATGAAATTGAAAGATCTAAAAGCTTAGGACCAATTTAGGATGAGATTCATAG
1 TTTGGGGATGAAATTGAAAGATCTAAAAGCTTAGGACCAATTTAAAACGAGAGTCATAG
* * *
109299 TTTGGGGATGAAATTTGAATG-T-TAAAAAGTTTTAGGACTAATTTAAAACGAGAGTCATA
1 TTTGGGGATGAAA-TTGAAAGATCT-AAAAG-CTTAGGACCAATTTAAAACGAGAGTCATA
109358 TTTTAAGGAC
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
58 1 0.02
59 19 0.39
60 29 0.59
ACGTcount: A:0.38, C:0.07, G:0.24, T:0.31
Consensus pattern (59 bp):
TTTGGGGATGAAATTGAAAGATCTAAAAGCTTAGGACCAATTTAAAACGAGAGTCATAG
Found at i:110220 original size:25 final size:25
Alignment explanation
Indices: 110155--110229 Score: 71
Period size: 25 Copynumber: 2.9 Consensus size: 25
110145 GGGAATATTT
* **
110155 TTTTAATTTAATTATAATTTTGATT
1 TTTTAATTTAATTATAATTTTAAAA
**
110180 TTTTTGTTTCAA-TATAATTTTAAAA
1 TTTTAATTT-AATTATAATTTTAAAA
110205 TTTTAATTTAATTATATTATTTTAA
1 TTTTAATTTAATTATA--ATTTTAA
110230 TCATATATTA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
24 2 0.05
25 28 0.72
26 2 0.05
27 7 0.18
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (25 bp):
TTTTAATTTAATTATAATTTTAAAA
Found at i:111188 original size:24 final size:24
Alignment explanation
Indices: 111142--111188 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
111132 ACATCAGCAT
**
111142 ATTATTTAAATTAATTTTTATTAA
1 ATTATTTAAATTAATTTAGATTAA
111166 ATTATTTATAATTAA-TTAGATTA
1 ATTATTTA-AATTAATTTAGATTA
111189 TGACACATTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
ATTATTTAAATTAATTTAGATTAA
Found at i:118438 original size:11 final size:10
Alignment explanation
Indices: 118416--118445 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
118406 TATTTAAATA
118416 TATATTACTT
1 TATATTACTT
118426 TATATTGACTT
1 TATATT-ACTT
118437 TATATTACT
1 TATATTACT
118446 AAAAAATATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (10 bp):
TATATTACTT
Found at i:121693 original size:14 final size:14
Alignment explanation
Indices: 121674--121725 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 14
121664 AAACCTTAAG
121674 TTAGGGTTTGAGGT
1 TTAGGGTTTGAGGT
121688 TTAGGGTTTAGAGG-
1 TTAGGGTTT-GAGGT
*
121702 TTATGGGGTT-ATGGT
1 TTA-GGGTTTGA-GGT
121717 TTAGGGTTT
1 TTAGGGTTT
121726 AATTTTATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
13 1 0.03
14 19 0.59
15 12 0.38
ACGTcount: A:0.15, C:0.00, G:0.40, T:0.44
Consensus pattern (14 bp):
TTAGGGTTTGAGGT
Found at i:124238 original size:34 final size:36
Alignment explanation
Indices: 124204--124271 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 36
124194 ATCCAATTAT
124204 TTTTAAA-AAATTATAAA-AAA-TAATAATATTTTA
1 TTTTAAATAAATTATAAATAAATTAATAATATTTTA
*
124237 TTTTAAATAATTTATAAATTAAATTAATAATATTT
1 TTTTAAATAAATTATAAA-TAAATTAATAATATTT
124272 AACGGTAATA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
33 7 0.23
34 9 0.30
36 3 0.10
37 11 0.37
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (36 bp):
TTTTAAATAAATTATAAATAAATTAATAATATTTTA
Found at i:129368 original size:8 final size:8
Alignment explanation
Indices: 129355--129379 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
129345 GTGGTAACAA
129355 AGGGAGTG
1 AGGGAGTG
129363 AGGGAGTG
1 AGGGAGTG
129371 AGGGAGTG
1 AGGGAGTG
129379 A
1 A
129380 CTACAGTGTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.28, C:0.00, G:0.60, T:0.12
Consensus pattern (8 bp):
AGGGAGTG
Done.