Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002339.1 Hibiscus syriacus cultivar Beakdansim tig00004776_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: 195769
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Found at i:503 original size:22 final size:22
Alignment explanation
Indices: 473--539 Score: 80
Period size: 22 Copynumber: 3.0 Consensus size: 22
463 TAATTTTAAG
*
473 AGGTTTAATTATTCATATGAAT
1 AGGTGTAATTATTCATATGAAT
* *
495 AGGTGTAATTGTTCATATAAAT
1 AGGTGTAATTATTCATATGAAT
** *
517 AAATGTAATTATTCACATGAAT
1 AGGTGTAATTATTCATATGAAT
539 A
1 A
540 TATATATATA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 37 1.00
ACGTcount: A:0.40, C:0.06, G:0.13, T:0.40
Consensus pattern (22 bp):
AGGTGTAATTATTCATATGAAT
Found at i:1071 original size:15 final size:16
Alignment explanation
Indices: 1042--1074 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
1032 ATAAATGACT
1042 TAAAAAGTTACGTGAA
1 TAAAAAGTTACGTGAA
*
1058 TAAAAA-TTATGTGAA
1 TAAAAAGTTACGTGAA
1073 TA
1 TA
1075 CATTTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.52, C:0.03, G:0.15, T:0.30
Consensus pattern (16 bp):
TAAAAAGTTACGTGAA
Found at i:1440 original size:24 final size:23
Alignment explanation
Indices: 1389--1442 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
1379 TTTTTTTTTT
* *
1389 TGAAAAATAATATTAGAAAATAA
1 TGAAATATAATATTAAAAAATAA
1412 T-AAATATAATATTACTAAAAAT-A
1 TGAAATATAATATTA--AAAAATAA
1435 TGAAATAT
1 TGAAATAT
1443 TAAAAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
22 12 0.46
23 3 0.12
24 11 0.42
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (23 bp):
TGAAATATAATATTAAAAAATAA
Found at i:4917 original size:14 final size:15
Alignment explanation
Indices: 4880--4919 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
4870 ATAATCGATT
4880 ATTTT-TTT-ATAAA
1 ATTTTATTTAATAAA
4893 ATTTTATTTAATAAA
1 ATTTTATTTAATAAA
4908 ATTTTA-TTAATA
1 ATTTTATTTAATA
4920 GAAAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.20
14 9 0.36
15 11 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTTATTTAATAAA
Found at i:9442 original size:22 final size:22
Alignment explanation
Indices: 9412--9484 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
9402 ATACCAAATA
* *
9412 AACATTATCGTGAACAATAATG
1 AACAATATCGTGAACAGTAATG
*
9434 AACAATATCATGAACAGTAAT-
1 AACAATATCGTGAACAGTAATG
9455 ATACCAA-AT-GTGAACAGTAATTG
1 A-A-CAATATCGTGAACAGTAA-TG
9478 AACAATA
1 AACAATA
9485 CTTCCGTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
21 14 0.33
22 24 0.57
23 4 0.10
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.25
Consensus pattern (22 bp):
AACAATATCGTGAACAGTAATG
Found at i:11890 original size:44 final size:43
Alignment explanation
Indices: 11738--12070 Score: 290
Period size: 44 Copynumber: 7.7 Consensus size: 43
11728 ATTTTATGAA
* * *
11738 ATTGTAAAAAATTAGAGGTCCT-AATTATAAAGGTAGAAATTGAG
1 ATTG-AAAAAATTA-AGGGCCTCAATTATAAAGTTAGAAAGTGAG
* * * *
11782 ATTGAAAAAA-TAGGGGTCTCAATTAGAAAGTTAGAAAGTGAC
1 ATTGAAAAAATTAAGGGCCTCAATTATAAAGTTAGAAAGTGAG
*
11824 ATT-AAAAAACTTAAGGGCCTCAATTAGAAAGTTAGAAAGTGAG
1 ATTGAAAAAA-TTAAGGGCCTCAATTATAAAGTTAGAAAGTGAG
* *
11867 ATTAAAAAAATTTAAGGGCCTCAATTATAAAGTTAAAAAAGTGAG
1 ATTGAAAAAA-TTAAGGGCCTCAATTATAAAGTT-AGAAAGTGAG
* * * *
11912 -TTTAAAAAATT-AGGTGTCTCAATTATAAA-TGTAGAAATTGAT
1 ATTGAAAAAATTAAGG-GCCTCAATTATAAAGT-TAGAAAGTGAG
*
11954 ATTGAAAAAACTT-AGAGGCCTCAATTGA-AAAGGTAGAAAGTGAG
1 ATTGAAAAAA-TTAAG-GGCCTCAATT-ATAAAGTTAGAAAGTGAG
* ** *
11998 ATTGAAACAACTTAAAAGCCTCAATTATAAAGTTA-TAAGTGAG
1 ATTGAAA-AAATTAAGGGCCTCAATTATAAAGTTAGAAAGTGAG
* * * *
12041 ATT-ATAACATTAGGGGCCTAAATTATAAAG
1 ATTGAAAAAATTAAGGGCCTCAATTATAAAG
12071 GTAAAAAACG
Statistics
Matches: 239, Mismatches: 35, Indels: 33
0.78 0.11 0.11
Matches are distributed among these distances:
41 28 0.12
42 36 0.15
43 73 0.31
44 88 0.37
45 14 0.06
ACGTcount: A:0.46, C:0.08, G:0.19, T:0.27
Consensus pattern (43 bp):
ATTGAAAAAATTAAGGGCCTCAATTATAAAGTTAGAAAGTGAG
Found at i:11933 original size:87 final size:84
Alignment explanation
Indices: 11742--12077 Score: 272
Period size: 87 Copynumber: 3.9 Consensus size: 84
11732 TATGAAATTG
* * * *
11742 TAAAAAATTAGAGGTCCT-AATTATAAAGGTAGAAATTGAGATTGAAAAAA-TAGGGGTCTCAAT
1 TAAAAAATTAG-GG-CCTCAATTATAAAGTTAGAAAGTGAGATTGAAAAAATTAAGGGCCTCAAT
* * * **
11805 TAGAAAGTTAGAAAGTGACAT
64 TATAAAGGTAAAAAGTGAGTT
* *
11826 TAAAAAACTTAAGGGCCTCAATTAGAAAGTTAGAAAGTGAGATTAAAAAAATTTAAGGGCCTCAA
1 TAAAAAA-TT-AGGGCCTCAATTATAAAGTTAGAAAGTGAGATTGAAAAAA-TTAAGGGCCTCAA
*
11891 TTATAAAGTTAAAAAAGTGAGTT
63 TTATAAAGGT-AAAAAGTGAGTT
* * *
11914 TAAAAAATTAGGTGTCTCAATTATAAA-TGTAGAAATTGATATTGAAAAAACTT-AGAGGCCTCA
1 TAAAAAATTAGG-GCCTCAATTATAAAGT-TAGAAAGTGAGATTGAAAAAA-TTAAG-GGCCTCA
*
11977 ATTGA-AAAGGTAGAAAGTGAGATT
62 ATT-ATAAAGGTAAAAAGTGAG-TT
* * ** * * * * *
12001 GAAACAACTTAAAAGCCTCAATTATAAAGTTA-TAAGTGAGATT-ATAACATTAGGGGCCTAAAT
1 TAAA-AAATT-AGGGCCTCAATTATAAAGTTAGAAAGTGAGATTGAAAAAATTAAGGGCCTCAAT
12064 TATAAAGGTAAAAA
64 TATAAAGGTAAAAA
12078 ACGGATTGGA
Statistics
Matches: 205, Mismatches: 31, Indels: 31
0.77 0.12 0.12
Matches are distributed among these distances:
84 11 0.05
85 53 0.26
86 22 0.11
87 81 0.40
88 36 0.18
89 2 0.01
ACGTcount: A:0.47, C:0.08, G:0.19, T:0.27
Consensus pattern (84 bp):
TAAAAAATTAGGGCCTCAATTATAAAGTTAGAAAGTGAGATTGAAAAAATTAAGGGCCTCAATTA
TAAAGGTAAAAAGTGAGTT
Found at i:12093 original size:131 final size:130
Alignment explanation
Indices: 11760--12132 Score: 319
Period size: 129 Copynumber: 2.9 Consensus size: 130
11750 TAGAGGTCCT
* * * * * * * *
11760 AATTATAAAGGTAGAAATTGAGATTGAAAAAA-TAGGGGTCTCAATTAGAAAGTTAGAAA-GTGA
1 AATTATAAAGTTAAAAAGTGAGATT-AAAAAATTAGGGGCCTAAATTATAAAGGTAAAAACG-GA
* * * * * **
11823 CAT-TAAAAAACTTA-AGGGCCTCAATTAGAAAGTTAGAAAGTGAGATTAAAAAAATTTAAGGGC
64 TATGGAAAAAACTTAGA-GGCCTCAATTAGAAAGATAGAAAGTGAGATTGAAAAAACTTAAAAGC
11886 CTC
128 CTC
* * * * * * **
11889 AATTATAAAGTTAAAAAAGTGAGTTTAAAAAATTAGGTGTCTCAATTATAAATGTAGAAATTGAT
1 AATTATAAAGTT-AAAAAGTGAGATTAAAAAATTAGGGGCCTAAATTATAAAGGTAAAAACGGAT
* * *
11954 ATTGAAAAAACTTAGAGGCCTCAATT-GAAAAGGTAGAAAGTGAGATTGAAACAACTTAAAAGCC
65 ATGGAAAAAACTTAGAGGCCTCAATTAG-AAAGATAGAAAGTGAGATTGAAAAAACTTAAAAGCC
12018 TC
129 TC
* * *
12020 AATTATAAAGTT-ATAAGTGAGATTATAACATTAGGGGCCTAAATTATAAAGGTAAAAAACGGAT
1 AATTATAAAGTTAAAAAGTGAGATTAAAAAATTAGGGGCCTAAATTATAAAGGT-AAAAACGGAT
** * * * * *
12084 -TGGAAAAAAAATAGAGACTTCAATTATAAAGATAAAAAGTTAGATTGAA
65 ATGGAAAAAACTTAGAGGCCTCAATTAGAAAGATAGAAAGTGAGATTGAA
12133 TAATATTAGG
Statistics
Matches: 199, Mismatches: 37, Indels: 16
0.79 0.15 0.06
Matches are distributed among these distances:
129 89 0.45
130 45 0.23
131 64 0.32
132 1 0.01
ACGTcount: A:0.48, C:0.07, G:0.19, T:0.26
Consensus pattern (130 bp):
AATTATAAAGTTAAAAAGTGAGATTAAAAAATTAGGGGCCTAAATTATAAAGGTAAAAACGGATA
TGGAAAAAACTTAGAGGCCTCAATTAGAAAGATAGAAAGTGAGATTGAAAAAACTTAAAAGCCTC
Found at i:12306 original size:51 final size:50
Alignment explanation
Indices: 12246--12375 Score: 154
Period size: 51 Copynumber: 2.6 Consensus size: 50
12236 GTAGCAGTAA
* ** *
12246 AGCGCGCCCCCTGAACCGCGCTATATGCTGATTTGGCG-CCACGTGAGGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACGCTGACATGG-GTACACGTG-GGTAT
* *
12297 AGCGCGCCCCCTGTACCGCGCTATACGCTGACATGGGTTACACGTGTGTAT
1 AGCGCGCCCCCTGAACCGCGCTATACGCTGACATGGG-TACACGTGGGTAT
* *
12348 AGCGTGCCCCCTGATCCGCGCTATACGC
1 AGCGCGCCCCCTGAACCGCGCTATACGC
12376 CATGAAGGGG
Statistics
Matches: 68, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
50 1 0.01
51 61 0.90
52 6 0.09
ACGTcount: A:0.17, C:0.34, G:0.28, T:0.22
Consensus pattern (50 bp):
AGCGCGCCCCCTGAACCGCGCTATACGCTGACATGGGTACACGTGGGTAT
Found at i:16535 original size:18 final size:18
Alignment explanation
Indices: 16512--16564 Score: 88
Period size: 18 Copynumber: 2.9 Consensus size: 18
16502 GCGATAGCGG
16512 CATCATAAATGGCTGCGA
1 CATCATAAATGGCTGCGA
* *
16530 CATCATAAATGGTTGTGA
1 CATCATAAATGGCTGCGA
16548 CATCATAAATGGCTGCG
1 CATCATAAATGGCTGCG
16565 GTGGCTGCTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (18 bp):
CATCATAAATGGCTGCGA
Found at i:18263 original size:17 final size:18
Alignment explanation
Indices: 18243--18281 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
18233 ATTATAATAG
18243 TAAAATA-TTAAATAAAA
1 TAAAATATTTAAATAAAA
*
18260 TAAAATATTTAAATAAAT
1 TAAAATATTTAAATAAAA
18278 TAAA
1 TAAA
18282 TACATAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (18 bp):
TAAAATATTTAAATAAAA
Found at i:23411 original size:6 final size:6
Alignment explanation
Indices: 23402--23427 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
23392 GTTCCAAGGG
23402 GAAAAC GAAAAC GAAAAC GAAAAC GA
1 GAAAAC GAAAAC GAAAAC GAAAAC GA
23428 TGGTGACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.65, C:0.15, G:0.19, T:0.00
Consensus pattern (6 bp):
GAAAAC
Found at i:24422 original size:14 final size:15
Alignment explanation
Indices: 24398--24432 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
24388 GAGTTTTAAC
24398 TCTAAAATAAAATAT
1 TCTAAAATAAAATAT
*
24413 T-TAAATTAAAATAT
1 TCTAAAATAAAATAT
24427 TCTAAA
1 TCTAAA
24433 CAAATAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (15 bp):
TCTAAAATAAAATAT
Found at i:28296 original size:20 final size:20
Alignment explanation
Indices: 28271--28348 Score: 129
Period size: 20 Copynumber: 3.9 Consensus size: 20
28261 CATATGTTAA
*
28271 AGAATGCATTGATGCACTGT
1 AGAATGCATCGATGCACTGT
28291 AGAATGCATCGATGCACTGT
1 AGAATGCATCGATGCACTGT
* *
28311 AGAATGCATCGATTCACTAT
1 AGAATGCATCGATGCACTGT
28331 AGAATGCATCGATGCACT
1 AGAATGCATCGATGCACT
28349 TCAAGGGGAA
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 54 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (20 bp):
AGAATGCATCGATGCACTGT
Found at i:29182 original size:30 final size:29
Alignment explanation
Indices: 29143--29201 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
29133 AAGAATTTAC
* *
29143 ATGAACTACGTGATTAAATGTATATGTGA
1 ATGAACTACGAGATTAAATGAATATGTGA
* *
29172 ATGAAGCTACGAGTTTATATGAATATGTGA
1 ATGAA-CTACGAGATTAAATGAATATGTGA
29202 TATATTTACA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (29 bp):
ATGAACTACGAGATTAAATGAATATGTGA
Found at i:33889 original size:19 final size:19
Alignment explanation
Indices: 33865--33905 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
33855 TTTCATCCTC
*
33865 AAACTATGACTCTCATTCT
1 AAACTATAACTCTCATTCT
*
33884 AAACTATAACTCTCATTTT
1 AAACTATAACTCTCATTCT
33903 AAA
1 AAA
33906 TTGATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.39, C:0.22, G:0.02, T:0.37
Consensus pattern (19 bp):
AAACTATAACTCTCATTCT
Found at i:33962 original size:79 final size:78
Alignment explanation
Indices: 33806--34042 Score: 379
Period size: 79 Copynumber: 3.0 Consensus size: 78
33796 ATATGTCTCC
* * * *
33806 AAACTATGACTCTCATTTTAATTTGATCTTTAGA-TTTTAAATATTGCAATTTCATCCTCAAACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
33870 ATGACTCTCATTCT
66 ATGACT-TCATTCT
* *
33884 AAACTATAACTCTCATTTTAAATTGATTTTTAGACTTTAAAATATTCCAATTTCATCCTCACACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
33949 ATGACTTTCATTCT
66 ATGAC-TTCATTCT
*
33963 AAACTATAACTCTCACTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
1 AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
34028 ATGAC-TCATTCT
66 ATGACTTCATTCT
34040 AAA
1 AAA
34043 TTAGTCCTTA
Statistics
Matches: 148, Mismatches: 9, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
77 10 0.07
78 31 0.21
79 106 0.72
80 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.05, T:0.41
Consensus pattern (78 bp):
AAACTATAACTCTCATTTTAAATTGATCTTTAGACTTTAAAATATTCCAATTTCATCCTCAAACT
ATGACTTCATTCT
Found at i:34134 original size:60 final size:58
Alignment explanation
Indices: 34006--34140 Score: 153
Period size: 60 Copynumber: 2.3 Consensus size: 58
33996 ACTTTAAAAT
* * * *
34006 ATTCCAATTTCATCCTCAAACTATGACTCATTCTAAATTAGTCCTTAAAATTTTGAAC
1 ATTCCAATTTCATCCCCAAACTATGACTCAATCTAAATCAGTCCCTAAAATTTTGAAC
* * * * **
34064 ATTCTAATTTCATCCCCATACTATGACTATCAATCTAAATCGGTCCCTAAATTTTTGATT
1 ATTCCAATTTCATCCCCAAACTATGAC--TCAATCTAAATCAGTCCCTAAAATTTTGAAC
*
34124 GTTCCAATTTCATCCCC
1 ATTCCAATTTCATCCCC
34141 GAATTCATCC
Statistics
Matches: 63, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
58 24 0.38
60 39 0.62
ACGTcount: A:0.30, C:0.25, G:0.06, T:0.39
Consensus pattern (58 bp):
ATTCCAATTTCATCCCCAAACTATGACTCAATCTAAATCAGTCCCTAAAATTTTGAAC
Found at i:34366 original size:57 final size:57
Alignment explanation
Indices: 34266--34378 Score: 151
Period size: 57 Copynumber: 2.0 Consensus size: 57
34256 TTATATACGT
**
34266 ATAATTTGGGATGAAATTAGAATGTTCAAAAAGTTTGGGGACTAA-TGTAGAATGGTC
1 ATAATTTGGGATGAAATTAGAATGTTCAAAAAGTTTGAAGACTAATTG-AGAATGGTC
*
34323 ATAATTTGGGGATGAAATT-GAAATGTTC-ATAAGTTTGAAGACTAATTGAGAATGGT
1 ATAATTT-GGGATGAAATTAG-AATGTTCAAAAAGTTTGAAGACTAATTGAGAATGGT
34379 AACCATAGTT
Statistics
Matches: 50, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
57 30 0.60
58 20 0.40
ACGTcount: A:0.37, C:0.04, G:0.26, T:0.33
Consensus pattern (57 bp):
ATAATTTGGGATGAAATTAGAATGTTCAAAAAGTTTGAAGACTAATTGAGAATGGTC
Found at i:35149 original size:60 final size:61
Alignment explanation
Indices: 35050--35182 Score: 182
Period size: 60 Copynumber: 2.2 Consensus size: 61
35040 AAAAATATAC
*
35050 AATTAAAAAATTATATCTTGAGTCTATAGGACATTACTTTATTGAGT-CTATTGA-TTATTAAA
1 AATTACAAAATTATATCTTGAG-CTATAGGACATTACTTTATTGAGTCCT-TTGACTT-TTAAA
* **
35112 AGTTACAAAATTATATCTTGA-CTATAGGGTATTACTTTATTGAGTCCTTTGACTTTTAAA
1 AATTACAAAATTATATCTTGAGCTATAGGACATTACTTTATTGAGTCCTTTGACTTTTAAA
35172 AATTACAAAAT
1 AATTACAAAAT
35183 GGTCACTCAA
Statistics
Matches: 64, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
60 41 0.64
61 4 0.06
62 19 0.30
ACGTcount: A:0.38, C:0.10, G:0.11, T:0.41
Consensus pattern (61 bp):
AATTACAAAATTATATCTTGAGCTATAGGACATTACTTTATTGAGTCCTTTGACTTTTAAA
Found at i:35196 original size:60 final size:60
Alignment explanation
Indices: 35073--35196 Score: 137
Period size: 60 Copynumber: 2.1 Consensus size: 60
35063 TATCTTGAGT
* * **
35073 CTATAGGACATTACTTTATTGAGTCTATTGATTATTAAAAGTTACAAAATTATATCTTGA
1 CTATAGGACATTACTTTATTGAGTCTATTGATTATTAAAAATTACAAAATGATATCTCAA
** *
35133 CTATAGGGTATTACTTTATTGAGTCCT-TTGACTT-TTAAAAATTACAAAATGGTCA-CTCAA
1 CTATAGGACATTACTTTATTGAGT-CTATTGA-TTATTAAAAATTACAAAATGAT-ATCTCAA
35193 CTAT
1 CTAT
35197 TCATATGTTT
Statistics
Matches: 54, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
60 49 0.91
61 5 0.09
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (60 bp):
CTATAGGACATTACTTTATTGAGTCTATTGATTATTAAAAATTACAAAATGATATCTCAA
Found at i:37514 original size:24 final size:24
Alignment explanation
Indices: 37481--37540 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
37471 GGGTTTTATG
* * * *
37481 TTAAGGGAATAGATTTATAAAATT
1 TTAAGAGAATAAACTTATAAAATA
37505 TTAAGAGAATAAACTTATAAAATA
1 TTAAGAGAATAAACTTATAAAATA
*
37529 TTAA-AGCATAAA
1 TTAAGAGAATAAA
37541 AACAAATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
23 7 0.23
24 24 0.77
ACGTcount: A:0.53, C:0.03, G:0.12, T:0.32
Consensus pattern (24 bp):
TTAAGAGAATAAACTTATAAAATA
Found at i:45603 original size:2 final size:2
Alignment explanation
Indices: 45596--45629 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
45586 GCATAAATAA
45596 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
45630 CTTGTAACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46549 original size:65 final size:65
Alignment explanation
Indices: 46389--46549 Score: 195
Period size: 64 Copynumber: 2.5 Consensus size: 65
46379 TTGTTTAAGG
* * * ** *
46389 TGCATCGATGCACATGCAGTGCATCGATGCAT--GAATTTAAATAGAAAACATCGAATATGATTT
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCA-TTAAATAGAAAACATCGAATAGGATTT
46452 A
65 A
*
46453 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATA-CAAACATCGAATAGGATTTA
1 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
*
46517 TGCATCGATGCAT-GGTGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAG-G-AGTGCATCGATGCAT
46550 ACCTTCATTA
Statistics
Matches: 85, Mismatches: 8, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
63 1 0.01
64 61 0.72
65 22 0.26
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.27
Consensus pattern (65 bp):
TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAGAAAACATCGAATAGGATTTA
Found at i:47064 original size:18 final size:18
Alignment explanation
Indices: 47041--47075 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47031 CTAGGAGATT
47041 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
47059 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
47076 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:47414 original size:2 final size:2
Alignment explanation
Indices: 47407--47434 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47397 GAACATGTGA
47407 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
47435 GTCTAAGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48156 original size:149 final size:149
Alignment explanation
Indices: 47982--48296 Score: 499
Period size: 149 Copynumber: 2.1 Consensus size: 149
47972 GAGTCGAGGG
* * * **
47982 TCTACGCGGTCCTTTGGGATATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTATGTGGAACATGTGTGAAGTCTGGAAAGACACAT
*
48047 A-TATGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATCATT
66 ACT-TGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTAGGGACATCATT
*
48111 ATATGGCACTACGGTGTAAT
130 ATATGGCACTACGGTGCAAT
*
48131 TCTACGCGGTCCTTCGGGATATATATATATTATGTGGAACATGTGTGAAGTCTTGAAAGACACAT
1 TCTACGCGGTCCTTCGGGATATATATATATTATGTGGAACATGTGTGAAGTCTGGAAAGACACAT
* * *
48196 ACTTGATCCCTAGCATATGTATATGATTCTTAAGGAATTCTATGTGGTCCTTCGGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTAGGGACATCATTA
48261 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
48280 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
48297 TGCAATTATA
Statistics
Matches: 153, Mismatches: 11, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
148 1 0.01
149 151 0.99
150 1 0.01
ACGTcount: A:0.27, C:0.17, G:0.22, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTCCTTCGGGATATATATATATTATGTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTAGGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:48297 original size:23 final size:23
Alignment explanation
Indices: 48264--48308 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
48254 ATTATTATAT
*
48264 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
48287 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
48309 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:51531 original size:64 final size:63
Alignment explanation
Indices: 51446--51606 Score: 207
Period size: 64 Copynumber: 2.5 Consensus size: 63
51436 TTGTTTAAGG
* * *
51446 TGCATCGATGCACATGCAGTGCATCGATGCAT-GAATTTAAATAGAAAACATCGAATATGATTTA
1 TGCATCGATGCATATGCAGTGCATCGATGCATCCAA-TTAAATA-AAAACATCGAATAGGATTTA
* * * *
51510 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 TGCATCGATGCATATGCAGTGCATCGATGCAT-CCAATTAAATAAAAACATCGAATAGGATTTA
*
51574 TGCATCGATGCATGATGTAGTGCATCGATGCAT
1 TGCATCGATGCAT-ATGCAGTGCATCGATGCAT
51607 ACCTTCATTA
Statistics
Matches: 85, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
64 60 0.71
65 24 0.28
66 1 0.01
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (63 bp):
TGCATCGATGCATATGCAGTGCATCGATGCATCCAATTAAATAAAAACATCGAATAGGATTTA
Found at i:52121 original size:18 final size:18
Alignment explanation
Indices: 52098--52132 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
52088 CTAGGAGATT
52098 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
52116 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
52133 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:53233 original size:149 final size:151
Alignment explanation
Indices: 53032--53348 Score: 516
Period size: 149 Copynumber: 2.1 Consensus size: 151
53022 GAGTCGAGGG
* **
53032 TCTACGCGGTCCTTCGGGATATATATATATATTCTTTGGAACATGTGTGAAGTCTGGTGAGACAC
1 TCTACGCGGTCCTTCGGGATATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACAC
* *
53097 ATA-TATGATCCCTAGCATATATATATGATTCTTAAGGAATTCTATGTGGTCCTTATGGACATCA
66 ATACT-TGATCCCTAGCATATATATATAATTCTTAAGGAATTCTATGTGGTCCTTAGGGACATCA
53161 TTATATGGCACTACGGTGCAAT
130 TTATATGGCACTACGGTGCAAT
*
53183 TCTACGCGGTCCTTCGGGATATATATATAT-TT-TGTGGAACATGTGTGAAGTCTTGAAAGACAC
1 TCTACGCGGTCCTTCGGGATATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACAC
* *
53246 ATACTTGATCCCTAGCATATGTATATAATTCTTAAGGAATTCTATGTGGTCCTTAGGGACATTAT
66 ATACTTGATCCCTAGCATATATATATAATTCTTAAGGAATTCTATGTGGTCCTTAGGGACATCAT
53311 TATATGGCACTACGGTGCAAT
131 TATATGGCACTACGGTGCAAT
53332 TCTACGCGG-CACTTCGG
1 TCTACGCGGTC-CTTCGG
53349 TGCAATTATA
Statistics
Matches: 156, Mismatches: 8, Indels: 6
0.92 0.05 0.04
Matches are distributed among these distances:
148 1 0.01
149 122 0.78
150 3 0.02
151 30 0.19
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (151 bp):
TCTACGCGGTCCTTCGGGATATATATATATATTCTGTGGAACATGTGTGAAGTCTGGAAAGACAC
ATACTTGATCCCTAGCATATATATATAATTCTTAAGGAATTCTATGTGGTCCTTAGGGACATCAT
TATATGGCACTACGGTGCAAT
Found at i:53349 original size:23 final size:23
Alignment explanation
Indices: 53316--53360 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
53306 ATTATTATAT
*
53316 GGCACTACGGTGCAATTCTACGC
1 GGCACTACGGTGCAATTATACGC
*
53339 GGCACTTCGGTGCAATTATACG
1 GGCACTACGGTGCAATTATACG
53361 AGCTGTGGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.27, G:0.27, T:0.24
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGC
Found at i:58843 original size:2 final size:2
Alignment explanation
Indices: 58836--58864 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
58826 TTTCTGATAA
58836 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
58865 ATAACATAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:59442 original size:2 final size:2
Alignment explanation
Indices: 59431--59466 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
59421 CTCAACATTC
59431 TA TA -A 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
59467 TCCTGGTTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:76602 original size:20 final size:21
Alignment explanation
Indices: 76564--76604 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
76554 AAAGCATAAG
*
76564 GATCCTTTTGTATTTTTTTTA
1 GATCCTTATGTATTTTTTTTA
76585 GATCCTTATGTATTTTTTTT
1 GATCCTTATGTATTTTTTTT
76605 TTCAAAACCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.15, C:0.10, G:0.10, T:0.66
Consensus pattern (21 bp):
GATCCTTATGTATTTTTTTTA
Found at i:82309 original size:13 final size:13
Alignment explanation
Indices: 82291--82320 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
82281 ATAAAATGGC
82291 AGCAACTTTTGGA
1 AGCAACTTTTGGA
82304 AGCAACTTTTGGA
1 AGCAACTTTTGGA
82317 AGCA
1 AGCA
82321 TGCTAATGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (13 bp):
AGCAACTTTTGGA
Found at i:82487 original size:2 final size:2
Alignment explanation
Indices: 82480--82538 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
82470 TCGGTTTTAC
82480 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
82522 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
82539 AGCAAGCATG
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:89992 original size:59 final size:57
Alignment explanation
Indices: 89897--90012 Score: 155
Period size: 59 Copynumber: 2.0 Consensus size: 57
89887 AAACGTATCA
*
89897 TTTGGGATGAAATTGGAAGTTCAAAAAGTTTGGGACTAATTTAGAATGA-AGGTCATAG
1 TTTGGGATGAAATTGAAAGTT-AAAAAGTTTGGGACTAATTTAGAATGATA-GTCATAG
*
89955 TTTGGAGATGAAATTGAAATGTT-AAAATTTTGAGGACTAATTTAGAATGATAGTCATA
1 TTTGG-GATGAAATTGAAA-GTTAAAAAGTTTG-GGACTAATTTAGAATGATAGTCATA
90013 ATTTTTTTAA
Statistics
Matches: 52, Mismatches: 2, Indels: 7
0.85 0.03 0.11
Matches are distributed among these distances:
58 13 0.25
59 35 0.67
60 4 0.08
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (57 bp):
TTTGGGATGAAATTGAAAGTTAAAAAGTTTGGGACTAATTTAGAATGATAGTCATAG
Found at i:90189 original size:61 final size:60
Alignment explanation
Indices: 90089--90239 Score: 180
Period size: 61 Copynumber: 2.5 Consensus size: 60
90079 TAAACGTATC
* * *
90089 ATTTGG-GATGAAATTGGAATGTTCAAAAAGTTTGGGGACTAATTTAGAATGA-AGGTCATA
1 ATTTGGAGATGAAATTGAAATGTT-TAAAAGTTTGAGGACTAATTTAGAATGATA-GTCATA
* *
90149 GTTTGGAGATGAAATTGAAAATGTTTAAAATTTTGAGGACTAATTTAGAATGATAGTCATA
1 ATTTGGAGATGAAATTG-AAATGTTTAAAAGTTTGAGGACTAATTTAGAATGATAGTCATA
* ** *
90210 ATTTAGAGATGGGATTGAAATATTTAAAAG
1 ATTTGGAGATGAAATTGAAATGTTTAAAAG
90240 GTTAGAGATT
Statistics
Matches: 77, Mismatches: 11, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
60 16 0.21
61 54 0.70
62 7 0.09
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (60 bp):
ATTTGGAGATGAAATTGAAATGTTTAAAAGTTTGAGGACTAATTTAGAATGATAGTCATA
Found at i:97248 original size:31 final size:33
Alignment explanation
Indices: 97183--97248 Score: 82
Period size: 31 Copynumber: 2.1 Consensus size: 33
97173 AGGAAAAAAG
* *
97183 AAAAAAATTACAATTTTTGCATACCTATTATTA
1 AAAAAAATTACAAATTTTGCATACCCATTATTA
* *
97216 AAAAAAATTA-AAATTTTGGAT-CCCATTCTTA
1 AAAAAAATTACAAATTTTGCATACCCATTATTA
97247 AA
1 AA
97249 TTTCTGAATC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 10 0.34
32 9 0.31
33 10 0.34
ACGTcount: A:0.47, C:0.12, G:0.05, T:0.36
Consensus pattern (33 bp):
AAAAAAATTACAAATTTTGCATACCCATTATTA
Found at i:100650 original size:15 final size:15
Alignment explanation
Indices: 100625--100696 Score: 101
Period size: 15 Copynumber: 4.9 Consensus size: 15
100615 TGGTTTTCTA
100625 GAAAATGAATTACTG
1 GAAAATGAATTACTG
**
100640 GAATTTGAATTACTG
1 GAAAATGAATTACTG
100655 GAAAATGAATTACTG
1 GAAAATGAATTACTG
**
100670 GAATTTGAATT-CTG
1 GAAAATGAATTACTG
100684 GAAAATGAATTAC
1 GAAAATGAATTAC
100697 ATTTCTGTAA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
14 12 0.25
15 36 0.75
ACGTcount: A:0.42, C:0.07, G:0.19, T:0.32
Consensus pattern (15 bp):
GAAAATGAATTACTG
Found at i:100694 original size:29 final size:29
Alignment explanation
Indices: 100620--100696 Score: 136
Period size: 30 Copynumber: 2.6 Consensus size: 29
100610 GTAATTGGTT
*
100620 TTCTAGAAAATGAATTACTGGAATTTGAA
1 TTCTGGAAAATGAATTACTGGAATTTGAA
100649 TTACTGGAAAATGAATTACTGGAATTTGAA
1 TT-CTGGAAAATGAATTACTGGAATTTGAA
100679 TTCTGGAAAATGAATTAC
1 TTCTGGAAAATGAATTAC
100697 ATTTCTGTAA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
29 18 0.39
30 28 0.61
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (29 bp):
TTCTGGAAAATGAATTACTGGAATTTGAA
Found at i:100702 original size:20 final size:20
Alignment explanation
Indices: 100679--100748 Score: 131
Period size: 20 Copynumber: 3.5 Consensus size: 20
100669 GGAATTTGAA
100679 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
*
100699 TTCTGTAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
100719 TTCTGGAAAATGAATTACAT
1 TTCTGGAAAATGAATTACAT
100739 TTCTGGAAAA
1 TTCTGGAAAA
100749 CATCTGGAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.40, C:0.10, G:0.14, T:0.36
Consensus pattern (20 bp):
TTCTGGAAAATGAATTACAT
Found at i:100956 original size:28 final size:27
Alignment explanation
Indices: 100915--100979 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 27
100905 TTTACTAAAA
* *
100915 TATTATTGAAATATATAAATAATATTAT
1 TATTATT-AAATATATAAAAAAAATTAT
100943 TCATTATTAAATATATAAAAAAAATTAT
1 T-ATTATTAAATATATAAAAAAAATTAT
100971 TATATATTA
1 TAT-TATTA
100980 TTAAAATAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
27 2 0.06
28 25 0.76
29 6 0.18
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
TATTATTAAATATATAAAAAAAATTAT
Found at i:100980 original size:31 final size:30
Alignment explanation
Indices: 100914--101018 Score: 105
Period size: 29 Copynumber: 3.5 Consensus size: 30
100904 CTTTACTAAA
100914 ATATTATTGAAATATAT--AAATAATATTAT
1 ATATTATT-AAATATATAAAAATAATATTAT
*
100943 -TCATTATTAAATATATAAAAAAAATTATTAT
1 AT-ATTATTAAATATATAAAAATAA-TATTAT
100974 ATATTATTAAA-ATA-AAAATATAATATCT-T
1 ATATTATTAAATATATAAAA-ATAATAT-TAT
101003 ATATTATTATAATATA
1 ATATTATTA-AATATA
101019 ATTGATTATT
Statistics
Matches: 65, Mismatches: 2, Indels: 16
0.78 0.02 0.19
Matches are distributed among these distances:
28 9 0.14
29 23 0.35
30 14 0.22
31 18 0.28
32 1 0.02
ACGTcount: A:0.53, C:0.02, G:0.01, T:0.44
Consensus pattern (30 bp):
ATATTATTAAATATATAAAAATAATATTAT
Found at i:100990 original size:24 final size:23
Alignment explanation
Indices: 100945--101004 Score: 61
Period size: 24 Copynumber: 2.7 Consensus size: 23
100935 AATATTATTC
*
100945 ATTATTAAATA-TA-TAAAAAAA
1 ATTATTATATATTATTAAAAAAA
100966 ATTATTATATATTATTAAAATAAA
1 ATTATTATATATTATTAAAA-AAA
* * *
100990 AATATAATATCTTAT
1 ATTATTATATATTAT
101005 ATTATTATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 10 0.31
22 2 0.06
23 5 0.16
24 15 0.47
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTATTATATATTATTAAAAAAA
Found at i:101057 original size:22 final size:23
Alignment explanation
Indices: 101032--101075 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
101022 GATTATTTTA
101032 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
101054 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
101076 AATATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:101080 original size:22 final size:22
Alignment explanation
Indices: 101036--101092 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
101026 ATTTTATATA
* *
101036 ATATTAAAAATA-TAATATTAT
1 ATATTATAAATATTAATATAAT
101057 ATTATTATAAATATTAATA-AAT
1 A-TATTATAAATATTAATATAAT
*
101079 ATATTTTAAATATT
1 ATATTATAAATATT
101093 TTAATAATTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 13 0.42
22 13 0.42
23 5 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
ATATTATAAATATTAATATAAT
Found at i:101091 original size:52 final size:51
Alignment explanation
Indices: 100972--101092 Score: 133
Period size: 54 Copynumber: 2.3 Consensus size: 51
100962 AAAAATTATT
**
100972 ATATATTATTAAA-A-TAAAAATATAATATCTTATATTATTATAATATAATTG
1 ATATATT-TTAAATATTAAAAATATAATA-CTTATATTATTATAATATAATAA
101023 AT-TATTTTATATAATATTAAAAATATAATA-TTATATTATTATAAATATTAATAA
1 ATATA-TTT-TA-AATATTAAAAATATAATACTTATATTATTAT-AATA-TAATAA
101077 ATATATTTTAAATATT
1 ATATATTTTAAATATT
101093 TTAATAATTA
Statistics
Matches: 60, Mismatches: 2, Indels: 15
0.78 0.03 0.19
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 20 0.33
53 7 0.12
54 22 0.37
55 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (51 bp):
ATATATTTTAAATATTAAAAATATAATACTTATATTATTATAATATAATAA
Found at i:101333 original size:42 final size:42
Alignment explanation
Indices: 101281--101400 Score: 204
Period size: 42 Copynumber: 2.9 Consensus size: 42
101271 ATGAATTACA
* *
101281 TTCCGAAAAACGAATTACGTGAAACAAACACGGGAAAACGTT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
101323 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAATATT
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
*
101365 TTCCAGAAAACGAATTACGTGAAACAAACACGGGAA
1 TTCCGGAAAACGAATTACGTGAAACAAACACGGGAA
101401 TTCGGAGAAA
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 74 1.00
ACGTcount: A:0.46, C:0.18, G:0.19, T:0.17
Consensus pattern (42 bp):
TTCCGGAAAACGAATTACGTGAAACAAACACGGGAAAACATT
Found at i:101580 original size:22 final size:23
Alignment explanation
Indices: 101552--101613 Score: 94
Period size: 22 Copynumber: 2.8 Consensus size: 23
101542 AAAAAATTAT
101552 TTTTTATTAAATATTTTTTG-TA
1 TTTTTATTAAATATTTTTTGATA
101574 TTTTTATTAAATA-TTTTTGATA
1 TTTTTATTAAATATTTTTTGATA
*
101596 TTTTTATTTAAT-TTTTTT
1 TTTTTATTAAATATTTTTT
101614 AAATAATTAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
21 6 0.16
22 31 0.84
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (23 bp):
TTTTTATTAAATATTTTTTGATA
Found at i:102024 original size:36 final size:38
Alignment explanation
Indices: 101979--102067 Score: 114
Period size: 36 Copynumber: 2.4 Consensus size: 38
101969 TTTGTATAAT
101979 ATTACAAATTATAAAATATTTATAT-ATTTTTTTAAAAA
1 ATTA-AAATTATAAAATATTTATATAATTTTTTTAAAAA
*
102017 ATT-AAATTCAT--AATATTTATATAATTTTTTTACAAA
1 ATTAAAATT-ATAAAATATTTATATAATTTTTTTAAAAA
*
102053 ATTAAAAATATAAAA
1 ATTAAAATTATAAAA
102068 AAGGTTTAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
35 11 0.25
36 22 0.50
37 6 0.14
38 5 0.11
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (38 bp):
ATTAAAATTATAAAATATTTATATAATTTTTTTAAAAA
Found at i:106027 original size:89 final size:89
Alignment explanation
Indices: 105876--106054 Score: 358
Period size: 89 Copynumber: 2.0 Consensus size: 89
105866 CTAAACTGAT
105876 TTCTTGAACTCATGTTATATGAACTCGCGTGTGATGGTCGGATATGAATACGTCTCTGTTCAACT
1 TTCTTGAACTCATGTTATATGAACTCGCGTGTGATGGTCGGATATGAATACGTCTCTGTTCAACT
105941 TTTCAAAGTGTTTTCATGTATGTA
66 TTTCAAAGTGTTTTCATGTATGTA
105965 TTCTTGAACTCATGTTATATGAACTCGCGTGTGATGGTCGGATATGAATACGTCTCTGTTCAACT
1 TTCTTGAACTCATGTTATATGAACTCGCGTGTGATGGTCGGATATGAATACGTCTCTGTTCAACT
106030 TTTCAAAGTGTTTTCATGTATGTA
66 TTTCAAAGTGTTTTCATGTATGTA
106054 T
1 T
106055 GAGGTCGTTG
Statistics
Matches: 90, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
89 90 1.00
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (89 bp):
TTCTTGAACTCATGTTATATGAACTCGCGTGTGATGGTCGGATATGAATACGTCTCTGTTCAACT
TTTCAAAGTGTTTTCATGTATGTA
Found at i:107850 original size:24 final size:23
Alignment explanation
Indices: 107817--107863 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
107807 GTGGCACTAA
107817 AATAATATTAGAACAATATTAAT
1 AATAATATTAGAACAATATTAAT
* *
107840 AATAAGTATTATAAGAATATTAAT
1 AATAA-TATTAGAACAATATTAAT
107864 TTAAATTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.24
24 16 0.76
ACGTcount: A:0.55, C:0.02, G:0.06, T:0.36
Consensus pattern (23 bp):
AATAATATTAGAACAATATTAAT
Found at i:108070 original size:3 final size:3
Alignment explanation
Indices: 108062--108094 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
108052 CTAGGTTTGC
108062 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
108095 TCTATAATAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:108184 original size:19 final size:20
Alignment explanation
Indices: 108145--108184 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
108135 AGATTAGTAT
108145 ATTAAATAAAAAAATATTAG
1 ATTAAATAAAAAAATATTAG
* *
108165 ATTAAATTATAAAA-ATTAG
1 ATTAAATAAAAAAATATTAG
108184 A
1 A
108185 AATAAATAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
ATTAAATAAAAAAATATTAG
Found at i:114350 original size:31 final size:31
Alignment explanation
Indices: 114297--114359 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
114287 AATTTACTTG
* *
114297 AATTTAGGAATAAAACTAATATTTTATCTAA
1 AATTTAGAAATAAAACTAATATTTCATCTAA
*
114328 AATTTAGAAATTAAAA-TGATATTTCATCTAA
1 AATTTAGAAA-TAAAACTAATATTTCATCTAA
114359 A
1 A
114360 GTTAGTAGTC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
31 23 0.82
32 5 0.18
ACGTcount: A:0.49, C:0.06, G:0.06, T:0.38
Consensus pattern (31 bp):
AATTTAGAAATAAAACTAATATTTCATCTAA
Found at i:118428 original size:16 final size:17
Alignment explanation
Indices: 118407--118439 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
118397 CATTTTTAAA
118407 ATAAAAT-ATTATTTTT
1 ATAAAATAATTATTTTT
118423 ATAAAATGAATTATTTT
1 ATAAAAT-AATTATTTT
118440 AATTTTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
18 8 0.53
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
ATAAAATAATTATTTTT
Found at i:122824 original size:19 final size:21
Alignment explanation
Indices: 122780--122824 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
122770 TTAAATTAAT
122780 CTTTAAACTATGTGTATCTCA
1 CTTTAAACTATGTGTATCTCA
* *
122801 CTTTAAAC-AT-TGTGTCTTA
1 CTTTAAACTATGTGTATCTCA
122820 CTTTA
1 CTTTA
122825 TATCATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 12 0.55
20 2 0.09
21 8 0.36
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.47
Consensus pattern (21 bp):
CTTTAAACTATGTGTATCTCA
Found at i:123371 original size:19 final size:20
Alignment explanation
Indices: 123328--123372 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 20
123318 TTAACTGCCC
123328 ATTTAGATGTTTTGAATGTCA
1 ATTT-GATGTTTTGAATGTCA
123349 ATTTGATG-TTTG-ATGTCA
1 ATTTGATGTTTTGAATGTCA
123367 GATTTG
1 -ATTTG
123373 CATCGGCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.26
19 9 0.39
20 4 0.17
21 4 0.17
ACGTcount: A:0.24, C:0.04, G:0.22, T:0.49
Consensus pattern (20 bp):
ATTTGATGTTTTGAATGTCA
Found at i:133697 original size:33 final size:33
Alignment explanation
Indices: 133655--133722 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
133645 GCACGTGAAA
133655 ATTGCATAAATTGGGTTGATTAGCCTCTAAAAC
1 ATTGCATAAATTGGGTTGATTAGCCTCTAAAAC
133688 ATTGCATAAATTGGGTTGATTAGCCTCTAAAAC
1 ATTGCATAAATTGGGTTGATTAGCCTCTAAAAC
133721 AT
1 AT
133723 CGACCTTTCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.34, C:0.15, G:0.18, T:0.34
Consensus pattern (33 bp):
ATTGCATAAATTGGGTTGATTAGCCTCTAAAAC
Found at i:136707 original size:17 final size:17
Alignment explanation
Indices: 136685--136720 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
136675 AAGGTTAGGG
136685 TTAGAGATTTAGGATTT
1 TTAGAGATTTAGGATTT
*
136702 TTAGAGATTTAGGGTTT
1 TTAGAGATTTAGGATTT
136719 TT
1 TT
136721 TATAATTAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (17 bp):
TTAGAGATTTAGGATTT
Found at i:137461 original size:59 final size:59
Alignment explanation
Indices: 137352--137465 Score: 176
Period size: 59 Copynumber: 1.9 Consensus size: 59
137342 ATAGTCAATT
* *
137352 GATCATTTTATAACTTTTAATAGTCGAAGGATTTAACAAAGTAATTTCCTATAGTCGAA
1 GATCATTTTATAACTTTTAATAGTCGAAGGATTCAACAAAATAATTTCCTATAGTCGAA
* *
137411 GATCATTTTGTAACTTTTAATAGTCGAAGGATTCAACAAAAT-TTTATCCTATAGT
1 GATCATTTTATAACTTTTAATAGTCGAAGGATTCAACAAAATAATT-TCCTATAGT
137466 TGGGGGATCA
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
58 2 0.04
59 48 0.96
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.39
Consensus pattern (59 bp):
GATCATTTTATAACTTTTAATAGTCGAAGGATTCAACAAAATAATTTCCTATAGTCGAA
Found at i:142525 original size:21 final size:21
Alignment explanation
Indices: 142496--142537 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
142486 GATGGACTGA
*
142496 CTCCCCTTGGAGTTGCAGTGG
1 CTCCCCTTGGAGGTGCAGTGG
* *
142517 CTCCTCTTGGAGGTGGAGTGG
1 CTCCCCTTGGAGGTGCAGTGG
142538 AAGGTCTTTC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.10, C:0.24, G:0.38, T:0.29
Consensus pattern (21 bp):
CTCCCCTTGGAGGTGCAGTGG
Found at i:152784 original size:21 final size:21
Alignment explanation
Indices: 152758--152802 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
152748 GATTTCTGGG
* *
152758 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
152779 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
152800 CAA
1 CAA
152803 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:154555 original size:23 final size:22
Alignment explanation
Indices: 154496--154562 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
154486 TATGGACATC
*
154496 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
154518 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
154540 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
154563 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:157724 original size:21 final size:21
Alignment explanation
Indices: 157698--157742 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
157688 GATTTCTGGG
* *
157698 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
157719 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
157740 CAA
1 CAA
157743 ACGAACAAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:157791 original size:20 final size:21
Alignment explanation
Indices: 157766--157808 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
157756 TCCAGTATGT
157766 CATA-GGGGAACCGATACCCC
1 CATAGGGGGAACCGATACCCC
*
157786 CATAGGGGGGAACCGATTCCCC
1 CATA-GGGGGAACCGATACCCC
157808 C
1 C
157809 TAAAGGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
22 16 0.80
ACGTcount: A:0.26, C:0.35, G:0.28, T:0.12
Consensus pattern (21 bp):
CATAGGGGGAACCGATACCCC
Found at i:159493 original size:23 final size:22
Alignment explanation
Indices: 159434--159500 Score: 116
Period size: 22 Copynumber: 3.0 Consensus size: 22
159424 TATGGACATC
*
159434 ATTCTACGGGCACTACGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
159456 ATTCTACGGGCACTTCGGTGCA
1 ATTCTACGGGCACTTCGGTGCA
159478 ATTCTACGGGGCACTTCGGTGCA
1 ATTCTAC-GGGCACTTCGGTGCA
159501 TTTATACGAG
Statistics
Matches: 43, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
22 28 0.65
23 15 0.35
ACGTcount: A:0.19, C:0.27, G:0.28, T:0.25
Consensus pattern (22 bp):
ATTCTACGGGCACTTCGGTGCA
Found at i:164391 original size:3 final size:3
Alignment explanation
Indices: 164383--164408 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
164373 GGGCCTTGCT
164383 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
164409 CCAATTTCCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:171028 original size:7 final size:7
Alignment explanation
Indices: 171016--171051 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
171006 TTCTTTTTTT
171016 TCATCTC
1 TCATCTC
171023 TCATCTC
1 TCATCTC
171030 TCATCTC
1 TCATCTC
171037 TCATCTC
1 TCATCTC
171044 TCATCTC
1 TCATCTC
171051 T
1 T
171052 TTAACTCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.14, C:0.42, G:0.00, T:0.44
Consensus pattern (7 bp):
TCATCTC
Found at i:172939 original size:113 final size:114
Alignment explanation
Indices: 172794--173016 Score: 421
Period size: 113 Copynumber: 2.0 Consensus size: 114
172784 TAAAAAATAT
*
172794 ATATATATTTTGTTTGGGGGGGGGGGTTTAAGCCAACATGTAAGAGATTTATTTTTAATTTTGAC
1 ATATATATTTTGTTTGGGGGGAGGGGTTTAAGCCAACATGTAAGAGATTTATTTTTAATTTTGAC
*
172859 AATATTAGGTTGAAATTGGAGAATTAGTCTCTTTTCACTGTCATAAAAA
66 AATATTAGGTTGAAATTGGAGAATTAGTCTCTCTTCACTGTCATAAAAA
172908 ATATATATTTTG-TTGGGGGGAGGGGTTTAAGCCAACATGTAAGAGATTTATTTTTAATTTTGAC
1 ATATATATTTTGTTTGGGGGGAGGGGTTTAAGCCAACATGTAAGAGATTTATTTTTAATTTTGAC
172972 AATATTAGGTTGAAATTGGAGAATTAGTCTCTCTTCACTGTCATA
66 AATATTAGGTTGAAATTGGAGAATTAGTCTCTCTTCACTGTCATA
173017 CATGGATGTT
Statistics
Matches: 107, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
113 95 0.89
114 12 0.11
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (114 bp):
ATATATATTTTGTTTGGGGGGAGGGGTTTAAGCCAACATGTAAGAGATTTATTTTTAATTTTGAC
AATATTAGGTTGAAATTGGAGAATTAGTCTCTCTTCACTGTCATAAAAA
Found at i:182740 original size:11 final size:12
Alignment explanation
Indices: 182700--182744 Score: 65
Period size: 12 Copynumber: 3.8 Consensus size: 12
182690 TATTTAAACG
*
182700 GGTATTGGGCCA
1 GGTATTGGGTCA
*
182712 GGTATTGGGTCG
1 GGTATTGGGTCA
182724 GGTATTGGGTC-
1 GGTATTGGGTCA
182735 GGTATTGGGT
1 GGTATTGGGT
182745 TGGGAATCGG
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
11 10 0.32
12 21 0.68
ACGTcount: A:0.11, C:0.09, G:0.47, T:0.33
Consensus pattern (12 bp):
GGTATTGGGTCA
Found at i:182742 original size:23 final size:24
Alignment explanation
Indices: 182698--182763 Score: 80
Period size: 23 Copynumber: 2.8 Consensus size: 24
182688 ATTATTTAAA
182698 CGGGTATTGGGCCAGGTATTGGGT
1 CGGGTATTGGGCCAGGTATTGGGT
*
182722 CGGGTATTGGGTC-GGTATTGGGT
1 CGGGTATTGGGCCAGGTATTGGGT
* * * *
182745 TGGGAATCGGGCCGGGTAT
1 CGGGTATTGGGCCAGGTAT
182764 ATATATATAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
23 19 0.53
24 17 0.47
ACGTcount: A:0.12, C:0.12, G:0.47, T:0.29
Consensus pattern (24 bp):
CGGGTATTGGGCCAGGTATTGGGT
Found at i:182883 original size:13 final size:12
Alignment explanation
Indices: 182852--182888 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
182842 TTTTAATATT
*
182852 TATCGGGTCGGG
1 TATCGGGGCGGG
182864 TATCGGGGCGGG
1 TATCGGGGCGGG
182876 TAATCGGGGCGGG
1 T-ATCGGGGCGGG
182889 GATTACCAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.11, C:0.16, G:0.54, T:0.19
Consensus pattern (12 bp):
TATCGGGGCGGG
Found at i:183489 original size:16 final size:16
Alignment explanation
Indices: 183455--183495 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
183445 AGTTAACAAC
183455 AATAAAT-TA-ATTAA
1 AATAAATATATATTAA
*
183469 CATAAATATATATTAA
1 AATAAATATATATTAA
*
183485 AATAAAAATAT
1 AATAAATATAT
183496 TTCTATAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
14 6 0.27
15 2 0.09
16 14 0.64
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (16 bp):
AATAAATATATATTAA
Found at i:185063 original size:31 final size:32
Alignment explanation
Indices: 185027--185102 Score: 111
Period size: 32 Copynumber: 2.4 Consensus size: 32
185017 TCAAACTCAA
185027 AAGGGACAAAATATAATTAACCATAGAAAATG
1 AAGGGACAAAATATAATTAACCATAGAAAATG
185059 -AGGGAGGC-AAATATAATTAACCATAGAAAATG
1 AAGGGA--CAAAATATAATTAACCATAGAAAATG
*
185091 AAGAGACAAAAT
1 AAGGGACAAAAT
185103 CAAAATAAAC
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
31 6 0.15
32 28 0.72
33 5 0.13
ACGTcount: A:0.55, C:0.09, G:0.18, T:0.17
Consensus pattern (32 bp):
AAGGGACAAAATATAATTAACCATAGAAAATG
Found at i:187356 original size:30 final size:29
Alignment explanation
Indices: 187320--187416 Score: 110
Period size: 30 Copynumber: 3.3 Consensus size: 29
187310 CGTTGAACTC
*
187320 CCTCCAGTTGTAAAACCTCCAATTACACTT
1 CCTCCAGTTGT-AAACCACCAATTACACTT
* * *
187350 CCTCCAG-TG-AAGCCACCAGTTGA-ACTC
1 CCTCCAGTTGTAAACCACCAATT-ACACTT
187377 CCTCCAGTTGTTAAACCACCAATTACACTT
1 CCTCCAGTTG-TAAACCACCAATTACACTT
187407 CCTCCAGTTG
1 CCTCCAGTTG
187417 AACTTCCTCC
Statistics
Matches: 55, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
27 19 0.35
28 3 0.05
29 3 0.05
30 30 0.55
ACGTcount: A:0.27, C:0.35, G:0.11, T:0.27
Consensus pattern (29 bp):
CCTCCAGTTGTAAACCACCAATTACACTT
Found at i:187372 original size:57 final size:57
Alignment explanation
Indices: 187299--187531 Score: 215
Period size: 57 Copynumber: 4.0 Consensus size: 57
187289 TCCTCCGGTG
* *
187299 GTGAAGCCACCCGTTGAACTCCCTCCAGTTGTAAAACCTCCAATTACACTTCCTCCA
1 GTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
*
187356 GTGAAGCCACCAGTTGAACTCCCTCCAGTTGTTAAACCACCAATTACACTTCCTCCA
1 GTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
* * * * ** * ** * ***
187413 GTTGAACTTCCTCCAGCAGTGAAAC-CAC-CC--TT-TACACTTCCTCCGGTGAGTGTTCCTCCA
1 G-TGAA--GCCACCAG--TTG-AACTCCCTCCAGTTGTA-A-AACCACCAATTACACTTCCTCCA
187473 GTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
1 GTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
187530 GT
1 GT
187532 TGAACTACCT
Statistics
Matches: 133, Mismatches: 30, Indels: 26
0.70 0.16 0.14
Matches are distributed among these distances:
54 3 0.02
55 4 0.03
56 2 0.02
57 77 0.58
58 8 0.06
59 9 0.07
60 21 0.16
61 2 0.02
62 4 0.03
63 3 0.02
ACGTcount: A:0.26, C:0.35, G:0.14, T:0.25
Consensus pattern (57 bp):
GTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
Found at i:187384 original size:27 final size:27
Alignment explanation
Indices: 187299--187384 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
187289 TCCTCCGGTG
*
187299 GTGAAGCCACCCGTTGAACTCCCTCCA
1 GTGAAGCCACCAGTTGAACTCCCTCCA
* * * *
187326 GTTGTAAAACCTCCAATT-ACACTTCCTCCA
1 G-TG--AAGCCACCAGTTGA-ACTCCCTCCA
187356 GTGAAGCCACCAGTTGAACTCCCTCCA
1 GTGAAGCCACCAGTTGAACTCCCTCCA
187383 GT
1 GT
187385 TGTTAAACCA
Statistics
Matches: 45, Mismatches: 9, Indels: 10
0.70 0.14 0.16
Matches are distributed among these distances:
27 21 0.47
28 3 0.07
29 3 0.07
30 18 0.40
ACGTcount: A:0.26, C:0.36, G:0.15, T:0.23
Consensus pattern (27 bp):
GTGAAGCCACCAGTTGAACTCCCTCCA
Found at i:187415 original size:45 final size:45
Alignment explanation
Indices: 187365--187456 Score: 130
Period size: 45 Copynumber: 2.0 Consensus size: 45
187355 AGTGAAGCCA
** *
187365 CCAGTTGAACTCCCTCCAGTTGTTAAACCACCAATTACACTTCCT
1 CCAGTTGAACTCCCTCCAGCAGTGAAACCACCAATTACACTTCCT
* **
187410 CCAGTTGAACTTCCTCCAGCAGTGAAACCACCCTTTACACTTCCT
1 CCAGTTGAACTCCCTCCAGCAGTGAAACCACCAATTACACTTCCT
187455 CC
1 CC
187457 GGTGAGTGTT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.25, C:0.38, G:0.10, T:0.27
Consensus pattern (45 bp):
CCAGTTGAACTCCCTCCAGCAGTGAAACCACCAATTACACTTCCT
Found at i:187471 original size:132 final size:131
Alignment explanation
Indices: 187330--187792 Score: 657
Period size: 132 Copynumber: 3.6 Consensus size: 131
187320 CCTCCAGTTG
* *
187330 TAAAACCTCCAATTACACTTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTTAAACCA
1 TAAAACCACCAATTACACTTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCA
* **
187395 CCAATTACACTTCCTCCAGTTGAACTTCCTCCAGCAGTGAAACCACCCTTTACACTTCCTCCGG-
66 CCAATTACACTTCCTCCAGTTGAACTTCCTCCAGCAGTAAAACCACCAATTACACTTCCTCCGGT
187459 -
131 C
* * *
187459 T---------GAGT---GTTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCA
1 TAAAACCACCAATTACACTTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCA
* *
187512 CCAATTACACTTCCTCCAGTTGAACTACCTCCAGCAGTAAAACCACCAATTACACTTCCTCCAGC
66 CCAATTACACTTCCTCCAGTTGAACTTCCTCCAGCAGTAAAACCACCAATTACACTTCCTCC-GG
187577 TC
130 TC
* * *
187579 TAAAACCACCAATTACACTCCCCCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTTTAAAACCA
1 TAAAACCACCAATTACACTTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCA
**
187644 CCAATTACACTTCCTCCAGTTGAACTTCCTCCAGCTCTAAAACCACCAATTACACTTCCTCCGGC
66 CCAATTACACTTCCTCCAGTTGAACTTCCTCCAGCAGTAAAACCACCAATTACACTTCCTCCGG-
187709 TC
130 TC
* *
187711 TAAAACCACCAATTACACTTCCTCCAGTGAAGTCACCAGTTGAACTTCCTCCAGTTGTAAAACCA
1 TAAAACCACCAATTACACTTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCA
187776 CCAATTACACTTCCTCC
66 CCAATTACACTTCCTCC
187793 GGTTACTGTT
Statistics
Matches: 294, Mismatches: 24, Indels: 29
0.85 0.07 0.08
Matches are distributed among these distances:
117 104 0.35
118 1 0.00
120 3 0.01
129 3 0.01
131 1 0.00
132 182 0.62
ACGTcount: A:0.29, C:0.36, G:0.10, T:0.25
Consensus pattern (131 bp):
TAAAACCACCAATTACACTTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCA
CCAATTACACTTCCTCCAGTTGAACTTCCTCCAGCAGTAAAACCACCAATTACACTTCCTCCGGT
C
Found at i:187499 original size:117 final size:117
Alignment explanation
Indices: 187348--187573 Score: 407
Period size: 117 Copynumber: 1.9 Consensus size: 117
187338 CCAATTACAC
*
187348 TTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTTAAACCACCAATTACACTTCCTCCA
1 TTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
* * **
187413 GTTGAACTTCCTCCAGCAGTGAAACCACCCTTTACACTTCCTCCGGTGAGTG
66 GTTGAACTACCTCCAGCAGTAAAACCACCAATTACACTTCCTCCGGTGAGTG
187465 TTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
1 TTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
187530 GTTGAACTACCTCCAGCAGTAAAACCACCAATTACACTTCCTCC
66 GTTGAACTACCTCCAGCAGTAAAACCACCAATTACACTTCCTCC
187574 AGCTCTAAAA
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
117 104 1.00
ACGTcount: A:0.27, C:0.36, G:0.12, T:0.25
Consensus pattern (117 bp):
TTCCTCCAGTGAAGCCACCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCA
GTTGAACTACCTCCAGCAGTAAAACCACCAATTACACTTCCTCCGGTGAGTG
Found at i:187533 original size:45 final size:45
Alignment explanation
Indices: 187482--187705 Score: 206
Period size: 45 Copynumber: 5.0 Consensus size: 45
187472 AGTGAAGCCA
*
187482 CCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCT
1 CCAGTTGAACTACCTCCAGTTGTAAAACCACCAATTACACTTCCT
**
187527 CCAGTTGAACTACCTCCAGCAGTAAAACCACCAATTACACTTCCT
1 CCAGTTGAACTACCTCCAGTTGTAAAACCACCAATTACACTTCCT
* * * ** *** * * * * *
187572 CCAGCTCT-AA-AACCACCAATTACACTCCCCCCAGTGA-A--GCCA
1 CCAG-T-TGAACTACCTCCAGTTGTAAAACCACCAATTACACTTCCT
* *
187614 CCAGTTGAACTCCCTCCAGTTTTAAAACCACCAATTACACTTCCT
1 CCAGTTGAACTACCTCCAGTTGTAAAACCACCAATTACACTTCCT
* * *
187659 CCAGTTGAACTTCCTCCAGCTCTAAAACCACCAATTACACTTCCT
1 CCAGTTGAACTACCTCCAGTTGTAAAACCACCAATTACACTTCCT
187704 CC
1 CC
187706 GGCTCTAAAA
Statistics
Matches: 137, Mismatches: 35, Indels: 14
0.74 0.19 0.08
Matches are distributed among these distances:
40 1 0.01
41 3 0.02
42 21 0.15
43 1 0.01
44 1 0.01
45 106 0.77
46 3 0.02
47 1 0.01
ACGTcount: A:0.30, C:0.38, G:0.08, T:0.24
Consensus pattern (45 bp):
CCAGTTGAACTACCTCCAGTTGTAAAACCACCAATTACACTTCCT
Found at i:187543 original size:72 final size:75
Alignment explanation
Indices: 187410--187606 Score: 197
Period size: 75 Copynumber: 2.7 Consensus size: 75
187400 TACACTTCCT
* * ** * ** *
187410 CCAGTTGAACTTCCTCCAGCAGTGAAACCACCCTTTACACTTCCTCC-GGTGAGTGTTCCT-C-C
1 CCAGTTGAACTTCCTCCAGCTGTAAAACCACCAATTACACTTCCTCCAGTTGAGACTACCTCCAC
* *
187472 AGTGAAGCCA
66 AGTAAAACCA
* *
187482 CCAGTTGAACTCCCTCCAGTTGTAAAACCACCAATTACACTTCCTCCAGTTGA-ACTACCTCCAG
1 CCAGTTGAACTTCCTCCAGCTGTAAAACCACCAATTACACTTCCTCCAGTTGAGACTACCTCCA-
187546 CAGTAAAACCA
65 CAGTAAAACCA
* * * *
187557 CCAATT-ACACTTCCTCCAGCTCTAAAACCACCAATTACACTCCCCCCAGT
1 CCAGTTGA-ACTTCCTCCAGCTGTAAAACCACCAATTACACTTCCTCCAGT
187607 GAAGCCACCA
Statistics
Matches: 102, Mismatches: 18, Indels: 7
0.80 0.14 0.06
Matches are distributed among these distances:
72 45 0.44
73 5 0.05
74 1 0.01
75 51 0.50
ACGTcount: A:0.28, C:0.37, G:0.12, T:0.23
Consensus pattern (75 bp):
CCAGTTGAACTTCCTCCAGCTGTAAAACCACCAATTACACTTCCTCCAGTTGAGACTACCTCCAC
AGTAAAACCA
Found at i:187544 original size:15 final size:15
Alignment explanation
Indices: 187482--187545 Score: 51
Period size: 15 Copynumber: 4.3 Consensus size: 15
187472 AGTGAAGCCA
*
187482 CCAGTTGAACTCCCT
1 CCAGTTGAACTACCT
* *
187497 CCAGTTGTAA-AACCA
1 CCAGTTG-AACTACCT
* *
187512 CCAATT-ACACTTCCT
1 CCAGTTGA-ACTACCT
187527 CCAGTTGAACTACCT
1 CCAGTTGAACTACCT
187542 CCAG
1 CCAG
187546 CAGTAAAACC
Statistics
Matches: 36, Mismatches: 9, Indels: 8
0.68 0.17 0.15
Matches are distributed among these distances:
13 1 0.03
14 1 0.03
15 31 0.86
16 3 0.08
ACGTcount: A:0.28, C:0.36, G:0.11, T:0.25
Consensus pattern (15 bp):
CCAGTTGAACTACCT
Found at i:187663 original size:30 final size:29
Alignment explanation
Indices: 187549--187664 Score: 121
Period size: 30 Copynumber: 4.0 Consensus size: 29
187539 CCTCCAGCAG
* *
187549 TAAAACCACCAATTACACTTCCTCCAGCTC
1 TAAAACCACCAATTACACTCCCTCCAG-TT
*
187579 TAAAACCACCAATTACACTCCCCCCAG--
1 TAAAACCACCAATTACACTCCCTCCAGTT
* * *
187606 TGAAGCCACCAGTTGA-ACTCCCTCCAGTTT
1 TAAAACCACCAATT-ACACTCCCTCCAG-TT
*
187636 TAAAACCACCAATTACACTTCCTCCAGTT
1 TAAAACCACCAATTACACTCCCTCCAGTT
187665 GAACTTCCTC
Statistics
Matches: 71, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
27 21 0.30
28 1 0.01
29 3 0.04
30 46 0.65
ACGTcount: A:0.32, C:0.38, G:0.07, T:0.23
Consensus pattern (29 bp):
TAAAACCACCAATTACACTCCCTCCAGTT
Found at i:187703 original size:30 final size:30
Alignment explanation
Indices: 187667--187792 Score: 152
Period size: 30 Copynumber: 4.3 Consensus size: 30
187657 CTCCAGTTGA
187667 ACTTCCTCCAGCTCTAAAACCACCAATTAC
1 ACTTCCTCCAGCTCTAAAACCACCAATTAC
*
187697 ACTTCCTCCGGCTCTAAAACCACCAATTAC
1 ACTTCCTCCAGCTCTAAAACCACCAATTAC
* ** *
187727 ACTTCCTCCAG---TGAAGTCACCAGTTGA-
1 ACTTCCTCCAGCTCTAAAACCACCAATT-AC
* *
187754 ACTTCCTCCAGTTGTAAAACCACCAATTAC
1 ACTTCCTCCAGCTCTAAAACCACCAATTAC
187784 ACTTCCTCC
1 ACTTCCTCC
187793 GGTTACTGTT
Statistics
Matches: 81, Mismatches: 10, Indels: 10
0.80 0.10 0.10
Matches are distributed among these distances:
27 21 0.26
28 1 0.01
29 1 0.01
30 58 0.72
ACGTcount: A:0.29, C:0.37, G:0.08, T:0.25
Consensus pattern (30 bp):
ACTTCCTCCAGCTCTAAAACCACCAATTAC
Found at i:187748 original size:102 final size:100
Alignment explanation
Indices: 187565--187767 Score: 223
Period size: 102 Copynumber: 2.0 Consensus size: 100
187555 CACCAATTAC
* * * *
187565 ACTTCCTCCAGCTCTAAAACCACCAATTACACTCCCCCCAGTGAAGCCACCAGTTGAACTCCCTC
1 ACTTCCTCCAGCTCTAAAACCACCAATTACACTCCCCCCACTAAAACCACCAATTGAACTCCCTC
187630 CAGTTTTAAAACCACCAATT-ACACTTCCTCCAGTTGA
66 CAG--TTAAAACCACCAATTGA-ACTTCCTCCAGTTGA
* * *
187667 ACTTCCTCCAGCTCTAAAACCACCAATTACACTTCCTCCGGCTCTAAAACCACCAATT-ACACTT
1 ACTTCCTCCAGCTCTAAAACCACCAATTACAC-TCC-CC-CCACTAAAACCACCAATTGA-ACTC
* ** *
187731 CCTCCAG-TGAAGTCACCAGTTGAACTTCCTCCAGTTG
62 CCTCCAGTTAAAACCACCAATTGAACTTCCTCCAGTTG
187768 TAAAACCACC
Statistics
Matches: 85, Mismatches: 11, Indels: 10
0.80 0.10 0.09
Matches are distributed among these distances:
102 56 0.66
103 4 0.05
104 3 0.04
105 22 0.26
ACGTcount: A:0.29, C:0.37, G:0.09, T:0.25
Consensus pattern (100 bp):
ACTTCCTCCAGCTCTAAAACCACCAATTACACTCCCCCCACTAAAACCACCAATTGAACTCCCTC
CAGTTAAAACCACCAATTGAACTTCCTCCAGTTGA
Found at i:187804 original size:15 final size:15
Alignment explanation
Indices: 187786--187867 Score: 74
Period size: 15 Copynumber: 5.5 Consensus size: 15
187776 CCAATTACAC
* *
187786 TTCCTCCGGTTACTG
1 TTCCTCCGGTCACCG
* *
187801 TTCCTCCAGTCACGG
1 TTCCTCCGGTCACCG
* *
187816 TCCCTCCGGTGACCG
1 TTCCTCCGGTCACCG
* *
187831 TTCCTCCAGTCACGG
1 TTCCTCCGGTCACCG
* *
187846 TCCCTCCGGTGACCG
1 TTCCTCCGGTCACCG
187861 TTCCTCC
1 TTCCTCC
187868 TGTACTGAAG
Statistics
Matches: 51, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 51 1.00
ACGTcount: A:0.09, C:0.43, G:0.21, T:0.28
Consensus pattern (15 bp):
TTCCTCCGGTCACCG
Found at i:187824 original size:30 final size:30
Alignment explanation
Indices: 187788--187867 Score: 142
Period size: 30 Copynumber: 2.7 Consensus size: 30
187778 AATTACACTT
* *
187788 CCTCCGGTTACTGTTCCTCCAGTCACGGTC
1 CCTCCGGTGACCGTTCCTCCAGTCACGGTC
187818 CCTCCGGTGACCGTTCCTCCAGTCACGGTC
1 CCTCCGGTGACCGTTCCTCCAGTCACGGTC
187848 CCTCCGGTGACCGTTCCTCC
1 CCTCCGGTGACCGTTCCTCC
187868 TGTACTGAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 48 1.00
ACGTcount: A:0.09, C:0.44, G:0.21, T:0.26
Consensus pattern (30 bp):
CCTCCGGTGACCGTTCCTCCAGTCACGGTC
Found at i:193428 original size:22 final size:22
Alignment explanation
Indices: 193350--193428 Score: 97
Period size: 22 Copynumber: 3.6 Consensus size: 22
193340 TATGGGCTAA
* *
193350 GGGAATCGATACTCATTC-AAT
1 GGGAATCGATACCCATTCAAAG
* * *
193371 GGGAATCGATACCTATTTAAGG
1 GGGAATCGATACCCATTCAAAG
*
193393 GGGAATCGGTACCCATTCAAAG
1 GGGAATCGATACCCATTCAAAG
193415 GGGAATCGATACCC
1 GGGAATCGATACCC
193429 CCTCAACCGA
Statistics
Matches: 47, Mismatches: 10, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
21 15 0.32
22 32 0.68
ACGTcount: A:0.32, C:0.20, G:0.25, T:0.23
Consensus pattern (22 bp):
GGGAATCGATACCCATTCAAAG
Done.