Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007396.1 Hibiscus syriacus cultivar Beakdansim tig00019948_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: 148627
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:2223 original size:25 final size:25
Alignment explanation
Indices: 2194--2300 Score: 99
Period size: 25 Copynumber: 4.3 Consensus size: 25
2184 GATACTTATT
* *
2194 ATCCAACACCATAAATGGATACCAA
1 ATCCAACGCCAGAAATGGATACCAA
* * *
2219 ATCCAACGTCGGAAATGGTTACCAA
1 ATCCAACGCCAGAAATGGATACCAA
* *
2244 ATCTAGCGCC-GAAAATGGATACCAA
1 ATCCAACGCCAG-AAATGGATACCAA
* ** *
2269 ATCTAACGCTGGAAATGAATACCAA
1 ATCCAACGCCAGAAATGGATACCAA
2294 ATCCAAC
1 ATCCAAC
2301 ATTGAAAAAA
Statistics
Matches: 67, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
24 1 0.01
25 65 0.97
26 1 0.01
ACGTcount: A:0.42, C:0.25, G:0.15, T:0.18
Consensus pattern (25 bp):
ATCCAACGCCAGAAATGGATACCAA
Found at i:2308 original size:50 final size:50
Alignment explanation
Indices: 2194--2301 Score: 130
Period size: 50 Copynumber: 2.2 Consensus size: 50
2184 GATACTTATT
**
2194 ATCCAACACC-ATAAATGGATACCAAATCCAACGTCGGAAATGGTTACCAA
1 ATCCAACACCGA-AAATGGATACCAAATCCAACGTCGGAAATGAATACCAA
* * * *
2244 ATCTAGCGCCGAAAATGGATACCAAATCTAACG-CTGGAAATGAATACCAA
1 ATCCAACACCGAAAATGGATACCAAATCCAACGTC-GGAAATGAATACCAA
2294 ATCCAACA
1 ATCCAACA
2302 TTGAAAAAAT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
49 1 0.02
50 45 0.96
51 1 0.02
ACGTcount: A:0.43, C:0.25, G:0.15, T:0.18
Consensus pattern (50 bp):
ATCCAACACCGAAAATGGATACCAAATCCAACGTCGGAAATGAATACCAA
Found at i:5854 original size:12 final size:13
Alignment explanation
Indices: 5824--5853 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
5814 GTCCAGATTT
*
5824 TTTTTAAATACTA
1 TTTTTAAATAATA
5837 TTTTTAAATAATA
1 TTTTTAAATAATA
5850 TTTT
1 TTTT
5854 ATTTTTAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTTAAATAATA
Found at i:6505 original size:21 final size:21
Alignment explanation
Indices: 6475--6515 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
6465 ATTGTTAAAA
*
6475 AAATATTAATGTTTTAGGTAG
1 AAATAATAATGTTTTAGGTAG
6496 AAATAATAATGTTTTAGGTA
1 AAATAATAATGTTTTAGGTA
6516 ATTTTTTATC
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:0.41, C:0.00, G:0.17, T:0.41
Consensus pattern (21 bp):
AAATAATAATGTTTTAGGTAG
Found at i:12762 original size:9 final size:9
Alignment explanation
Indices: 12748--12772 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
12738 TCTCTTAAAT
12748 CCCAAAACC
1 CCCAAAACC
12757 CCCAAAACC
1 CCCAAAACC
12766 CCCAAAA
1 CCCAAAA
12773 TCTAAGCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.48, C:0.52, G:0.00, T:0.00
Consensus pattern (9 bp):
CCCAAAACC
Found at i:17332 original size:7 final size:7
Alignment explanation
Indices: 17320--17346 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
17310 CAGGTGTCGG
17320 ATTTCGA
1 ATTTCGA
17327 ATTTCGA
1 ATTTCGA
17334 ATTTCGA
1 ATTTCGA
17341 ATTTCG
1 ATTTCG
17347 GACCTTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.15, G:0.15, T:0.44
Consensus pattern (7 bp):
ATTTCGA
Found at i:19718 original size:17 final size:18
Alignment explanation
Indices: 19685--19718 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
19675 CTGCTATTAA
19685 TGAACCGGTCAGAACCGT
1 TGAACCGGTCAGAACCGT
*
19703 TGAACCGTTC-GAACCG
1 TGAACCGGTCAGAACCG
19719 GACCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.26, C:0.29, G:0.26, T:0.18
Consensus pattern (18 bp):
TGAACCGGTCAGAACCGT
Found at i:23167 original size:7 final size:7
Alignment explanation
Indices: 23150--23190 Score: 66
Period size: 7 Copynumber: 5.9 Consensus size: 7
23140 AATAAGTGTA
23150 TATATTTT
1 TATA-TTT
23158 TATATTT
1 TATATTT
23165 TATATTT
1 TATATTT
23172 TATATTT
1 TATATTT
23179 TATATTT
1 TATATTT
23186 T-TATT
1 TATATT
23191 GAGGCCTACT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 4 0.12
7 25 0.76
8 4 0.12
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (7 bp):
TATATTT
Found at i:24917 original size:20 final size:21
Alignment explanation
Indices: 24877--24927 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 21
24867 TACCGAAAAC
*
24877 ATTATTATTTCTACTGATTTT
1 ATTATTATTTCTACAGATTTT
*
24898 ATTATT-TTTCTACAGGTTTT
1 ATTATTATTTCTACAGATTTT
*
24918 GTTATTATTT
1 ATTATTATTT
24928 GGCACTTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
20 17 0.65
21 9 0.35
ACGTcount: A:0.22, C:0.08, G:0.08, T:0.63
Consensus pattern (21 bp):
ATTATTATTTCTACAGATTTT
Found at i:27741 original size:32 final size:31
Alignment explanation
Indices: 27691--27776 Score: 113
Period size: 32 Copynumber: 2.8 Consensus size: 31
27681 CCATAGGATC
*
27691 CAATTTTTTTTAATATTTATTATTAAAGGTT
1 CAATTTTTTTTAAGATTTATTATTAAAGGTT
**
27722 CAATTTTTTTCTAAGATTTATTATTATGGGTT
1 CAATTTTTTT-TAAGATTTATTATTAAAGGTT
*
27754 CAA--TTTTTTAATATTTATTATTA
1 CAATTTTTTTTAAGATTTATTATTA
27777 GAGGCCCCCT
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
29 14 0.28
30 5 0.10
31 10 0.20
32 21 0.42
ACGTcount: A:0.30, C:0.05, G:0.07, T:0.58
Consensus pattern (31 bp):
CAATTTTTTTTAAGATTTATTATTAAAGGTT
Found at i:27932 original size:28 final size:28
Alignment explanation
Indices: 27873--27940 Score: 68
Period size: 28 Copynumber: 2.5 Consensus size: 28
27863 ATGTTCACTT
* * *
27873 TTTTTGATATTTATTATGAGGGGCTATT
1 TTTTTAATATTTATTATGAGAGGCTATC
*
27901 TTTTTAATATTTATTATTAGAGG-TATAC
1 TTTTTAATATTTATTATGAGAGGCTAT-C
*
27929 -TTTTAAAATTTA
1 TTTTTAATATTTA
27941 ATTTCTTTTC
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
27 14 0.41
28 20 0.59
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.54
Consensus pattern (28 bp):
TTTTTAATATTTATTATGAGAGGCTATC
Found at i:27939 original size:143 final size:148
Alignment explanation
Indices: 27693--27958 Score: 328
Period size: 143 Copynumber: 1.8 Consensus size: 148
27683 ATAGGATCCA
* * * * *
27693 ATTTTTTTTAATATTTATTATTAAAGGTTCAATTTTTTTCTAAGATTTATTATTATGGGTTCAAT
1 ATTTTTTTTAAAATTTATTATTAAAGGTTCAACTTTTTTCTAAGATTTATTATGAGGGGCTCAAT
* * *
27758 TTTTTAATATTTATTATTAGAGGCCCCCTCTTATAATTT-A-T-TTTTCTAATATTTGTATAAGT
66 TTTTTAATATTTATTATTAGAGGCACACTCTTAAAATTTAATTCTTTTCTAATATTTGTATAAGT
27820 ATTTATTTTGTTTCCAAT
131 ATTTATTTTGTTTCCAAT
* * * * *
27838 ATTTTTTTCTAAAATTTGTTATTAAATGTTC-ACTTTTTT-TGATATTTATTATGAGGGGCT-AT
1 ATTTTTTT-TAAAATTTATTATTAAAGGTTCAACTTTTTTCTAAGATTTATTATGAGGGGCTCAA
* * *
27900 TTTTTTAATATTTATTATTAGAGGTATACTTTTAAAATTTAATTTCTTTTCTAATATTT
65 TTTTTTAATATTTATTATTAGAGGCACACTCTTAAAATTTAA-TTCTTTTCTAATATTT
27959 ATTTGTTATT
Statistics
Matches: 100, Mismatches: 16, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
143 35 0.35
144 17 0.17
145 15 0.15
146 20 0.20
147 13 0.13
ACGTcount: A:0.28, C:0.07, G:0.09, T:0.56
Consensus pattern (148 bp):
ATTTTTTTTAAAATTTATTATTAAAGGTTCAACTTTTTTCTAAGATTTATTATGAGGGGCTCAAT
TTTTTAATATTTATTATTAGAGGCACACTCTTAAAATTTAATTCTTTTCTAATATTTGTATAAGT
ATTTATTTTGTTTCCAAT
Found at i:34265 original size:23 final size:23
Alignment explanation
Indices: 34235--34281 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
34225 CATTGGCAGG
34235 ACAAATAGATATAACCGTCTAAT
1 ACAAATAGATATAACCGTCTAAT
34258 ACAAATAGATATAACCGTCTAAT
1 ACAAATAGATATAACCGTCTAAT
34281 A
1 A
34282 GGATATTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.49, C:0.17, G:0.09, T:0.26
Consensus pattern (23 bp):
ACAAATAGATATAACCGTCTAAT
Found at i:35407 original size:29 final size:28
Alignment explanation
Indices: 35369--35423 Score: 92
Period size: 29 Copynumber: 1.9 Consensus size: 28
35359 TTTTTTTCGC
*
35369 CCCCTAAAATTTTACAAGTTCAAGTTTT
1 CCCCTAAAATTTTAAAAGTTCAAGTTTT
35397 CCCCTAGAAATTTTAAAAGTTCAAGTT
1 CCCCTA-AAATTTTAAAAGTTCAAGTT
35424 CGCCCCCTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
28 6 0.24
29 19 0.76
ACGTcount: A:0.35, C:0.20, G:0.09, T:0.36
Consensus pattern (28 bp):
CCCCTAAAATTTTAAAAGTTCAAGTTTT
Found at i:35429 original size:29 final size:28
Alignment explanation
Indices: 35364--35429 Score: 87
Period size: 29 Copynumber: 2.3 Consensus size: 28
35354 GAAATTTTTT
*
35364 TTCGCCCCCTAAAATTTTACAAGTTCAAG
1 TTCG-CCCCTAAAATTTTAAAAGTTCAAG
**
35393 TTTTCCCCTAGAAATTTTAAAAGTTCAAG
1 TTCGCCCCTA-AAATTTTAAAAGTTCAAG
35422 TTCGCCCC
1 TTCGCCCC
35430 CTAACATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
28 6 0.19
29 25 0.81
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (28 bp):
TTCGCCCCTAAAATTTTAAAAGTTCAAG
Found at i:39101 original size:41 final size:41
Alignment explanation
Indices: 39056--39162 Score: 160
Period size: 41 Copynumber: 2.6 Consensus size: 41
39046 ATTCACGTTG
* * *
39056 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGTGTTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
39097 CATTTCGCGTTGCGATAGTTGGAGATCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
39138 CATTTCGCGTAGCGATAGTTGAAAA
1 CATTTCGCGTTGCGATAGTTGAAAA
39163 ACTCGAATTT
Statistics
Matches: 58, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 58 1.00
ACGTcount: A:0.21, C:0.18, G:0.25, T:0.36
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:39147 original size:20 final size:20
Alignment explanation
Indices: 39081--39153 Score: 65
Period size: 20 Copynumber: 3.6 Consensus size: 20
39071 TAGTTGAAAA
* *
39081 TCGCGTTGTGTTTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** **
39101 TCGCGTTGCGATAGTTGGAGA
1 TCGCGTTGCGAT-TTTCCATT
39122 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
*
39142 TCGCGTAGCGAT
1 TCGCGTTGCGAT
39154 AGTTGAAAAA
Statistics
Matches: 39, Mismatches: 13, Indels: 2
0.72 0.24 0.04
Matches are distributed among these distances:
20 24 0.62
21 15 0.38
ACGTcount: A:0.12, C:0.21, G:0.27, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:44268 original size:34 final size:34
Alignment explanation
Indices: 44230--44339 Score: 85
Period size: 40 Copynumber: 2.9 Consensus size: 34
44220 TGTTAAATTA
44230 AATTAGGTTAATATTTATTATTAATGTTTATATT
1 AATTAGGTTAATATTTATTATTAATGTTTATATT
* * * *
44264 AATTAAGATCAGATATTTTATATGTTACTATATTTAAATAATT
1 AATT-AGGTTA-ATA-TTTAT-TATTA--ATGTTT--AT-ATT
*
44307 ACATTAGGTTAATATTTATTATTAAAGTTTATA
1 A-ATTAGGTTAATATTTATTATTAATGTTTATA
44340 CTAAATTAAC
Statistics
Matches: 57, Mismatches: 9, Indels: 19
0.67 0.11 0.22
Matches are distributed among these distances:
34 4 0.07
35 5 0.09
36 5 0.09
37 5 0.09
38 8 0.14
40 9 0.16
41 5 0.09
42 5 0.09
43 8 0.14
44 3 0.05
ACGTcount: A:0.39, C:0.03, G:0.08, T:0.50
Consensus pattern (34 bp):
AATTAGGTTAATATTTATTATTAATGTTTATATT
Found at i:44592 original size:38 final size:38
Alignment explanation
Indices: 44541--44613 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
44531 ACTTTAAAAA
44541 TTAATTTAATATAAACCTTAATAATAAATATTTATAAG
1 TTAATTTAATATAAACCTTAATAATAAATATTTATAAG
44579 TTAATTTAATATAAACCTTAATAATAAATATTTAT
1 TTAATTTAATATAAACCTTAATAATAAATATTTAT
44614 TATTAAGGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.49, C:0.05, G:0.01, T:0.44
Consensus pattern (38 bp):
TTAATTTAATATAAACCTTAATAATAAATATTTATAAG
Found at i:50049 original size:7 final size:7
Alignment explanation
Indices: 50037--50075 Score: 78
Period size: 7 Copynumber: 5.6 Consensus size: 7
50027 GAAAATGAAC
50037 GTTTCGA
1 GTTTCGA
50044 GTTTCGA
1 GTTTCGA
50051 GTTTCGA
1 GTTTCGA
50058 GTTTCGA
1 GTTTCGA
50065 GTTTCGA
1 GTTTCGA
50072 GTTT
1 GTTT
50076 AGGGTTTAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 32 1.00
ACGTcount: A:0.13, C:0.13, G:0.28, T:0.46
Consensus pattern (7 bp):
GTTTCGA
Found at i:50082 original size:21 final size:21
Alignment explanation
Indices: 50037--50082 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
50027 GAAAATGAAC
*
50037 GTTTCGAGTTTCGAGTTTCGA
1 GTTTCGAGTTTCGAGTTTAGA
*
50058 GTTTCGAGTTTCGAGTTTAGG
1 GTTTCGAGTTTCGAGTTTAGA
50079 GTTT
1 GTTT
50083 AGGGTTTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.13, C:0.11, G:0.30, T:0.46
Consensus pattern (21 bp):
GTTTCGAGTTTCGAGTTTAGA
Found at i:50089 original size:21 final size:21
Alignment explanation
Indices: 50037--50089 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
50027 GAAAATGAAC
* *
50037 GTTTCGAGTTTCGAGTTTCGA
1 GTTTAGAGTTTCGAGTTTAGA
* *
50058 GTTTCGAGTTTCGAGTTTAGG
1 GTTTAGAGTTTCGAGTTTAGA
*
50079 GTTTAGGGTTT
1 GTTTAGAGTTT
50090 AATGTCATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.13, C:0.09, G:0.32, T:0.45
Consensus pattern (21 bp):
GTTTAGAGTTTCGAGTTTAGA
Found at i:52681 original size:20 final size:20
Alignment explanation
Indices: 52658--52721 Score: 53
Period size: 19 Copynumber: 3.2 Consensus size: 20
52648 TAGTATTTAG
52658 ATAAAT-TTATTAATAATTTT
1 ATAAATATT-TTAATAATTTT
* *
52678 AT-AATCTTTTAATAAATTTA
1 ATAAATATTTTAAT-AATTTT
*
52698 ATAAGTATTTT-ATAATTTT
1 ATAAATATTTTAATAATTTT
*
52717 TTAAA
1 ATAAA
52722 CTTTATTGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
19 16 0.46
20 13 0.37
21 6 0.17
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATAAATATTTTAATAATTTT
Found at i:52691 original size:19 final size:20
Alignment explanation
Indices: 52667--52716 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
52657 GATAAATTTA
*
52667 TTAATAATTTTATAA-TCTT
1 TTAATAATTTTATAAGTATT
*
52686 TTAATAAATTTAATAAGTATT
1 TTAAT-AATTTTATAAGTATT
52707 TT-ATAATTTT
1 TTAATAATTTT
52717 TTAAACTTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 10 0.38
20 11 0.42
21 5 0.19
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (20 bp):
TTAATAATTTTATAAGTATT
Found at i:52719 original size:31 final size:30
Alignment explanation
Indices: 52634--52720 Score: 95
Period size: 31 Copynumber: 2.8 Consensus size: 30
52624 TTCGATAATA
* *
52634 TAATAATTATTTTAT-AGTATTTAGATAAATT
1 TAATAA-TATTTTATAATTTTTTA-ATAAATT
* *
52665 TATTAATAATTTTATAATCTTTTAATAAATT
1 TAATAAT-ATTTTATAATTTTTTAATAAATT
52696 TAATAAGTATTTTATAATTTTTTAA
1 TAATAA-TATTTTATAATTTTTTAA
52721 ACTTTATTGA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.02
31 40 0.85
32 6 0.13
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.54
Consensus pattern (30 bp):
TAATAATATTTTATAATTTTTTAATAAATT
Found at i:55966 original size:34 final size:34
Alignment explanation
Indices: 55906--55987 Score: 123
Period size: 34 Copynumber: 2.5 Consensus size: 34
55896 CTATCGTAAA
* *
55906 TTCGCGTTGC-AT-TTCGCGTTGCGATTTTTCAT
1 TTCGCGTTGCGATAATCGCGTTGCGATTTTTCAG
*
55938 TTCGCGTTGCGATAATCGTGTTGCGATTTTTCAG
1 TTCGCGTTGCGATAATCGCGTTGCGATTTTTCAG
55972 TTCGCGTTGCGATAAT
1 TTCGCGTTGCGATAAT
55988 TGAAAATCAC
Statistics
Matches: 45, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
32 10 0.22
33 2 0.04
34 33 0.73
ACGTcount: A:0.13, C:0.20, G:0.24, T:0.43
Consensus pattern (34 bp):
TTCGCGTTGCGATAATCGCGTTGCGATTTTTCAG
Found at i:55982 original size:20 final size:19
Alignment explanation
Indices: 55918--55984 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 19
55908 CGCGTTGCAT
55918 TTCGCGTTGCGATTTTTCA
1 TTCGCGTTGCGATTTTTCA
55937 TTTCGCGTTGCGA----T-A
1 -TTCGCGTTGCGATTTTTCA
* *
55952 ATCGTGTTGCGATTTTTCA
1 TTCGCGTTGCGATTTTTCA
55971 GTTCGCGTTGCGAT
1 -TTCGCGTTGCGAT
55985 AATTGAAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 12
0.70 0.08 0.23
Matches are distributed among these distances:
14 10 0.27
15 1 0.03
16 1 0.03
18 1 0.03
19 1 0.03
20 23 0.62
ACGTcount: A:0.12, C:0.19, G:0.25, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTTCA
Found at i:56017 original size:41 final size:41
Alignment explanation
Indices: 55957--56066 Score: 150
Period size: 41 Copynumber: 2.7 Consensus size: 41
55947 CGATAATCGT
* *
55957 GTTGCGA-TTTTTCAGTTCGCGTTGCGATAATTGAAAATCAC
1 GTTGCGACTTTTT-ATTTCGCGTTGCGATAATTAAAAATCAC
* *
55998 GTTGCGGCTTTTTATTTCGCGTTGCGATAGTTAAAAATCAC
1 GTTGCGACTTTTTATTTCGCGTTGCGATAATTAAAAATCAC
* *
56039 GTTGCGATTTTTTATTTCGCGTTACGAT
1 GTTGCGACTTTTTATTTCGCGTTGCGAT
56067 TTTCTACAGT
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
41 56 0.92
42 5 0.08
ACGTcount: A:0.21, C:0.16, G:0.22, T:0.41
Consensus pattern (41 bp):
GTTGCGACTTTTTATTTCGCGTTGCGATAATTAAAAATCAC
Found at i:56800 original size:12 final size:12
Alignment explanation
Indices: 56783--56830 Score: 78
Period size: 12 Copynumber: 3.8 Consensus size: 12
56773 TTCAACTATC
56783 GCAACGCGAAAT
1 GCAACGCGAAAT
56795 GCAACGCGAATAT
1 GCAACGCGAA-AT
56808 CGCAACGCGAAAT
1 -GCAACGCGAAAT
56821 GCAACGCGAA
1 GCAACGCGAA
56831 TTTGCGATAG
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
12 20 0.59
13 4 0.12
14 10 0.29
ACGTcount: A:0.40, C:0.27, G:0.25, T:0.08
Consensus pattern (12 bp):
GCAACGCGAAAT
Found at i:56808 original size:26 final size:26
Alignment explanation
Indices: 56779--56831 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
56769 GATTTTCAAC
56779 TATCGCAACGCGAAATGCAACGCGAA
1 TATCGCAACGCGAAATGCAACGCGAA
56805 TATCGCAACGCGAAATGCAACGCGAA
1 TATCGCAACGCGAAATGCAACGCGAA
56831 T
1 T
56832 TTGCGATAGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.38, C:0.26, G:0.23, T:0.13
Consensus pattern (26 bp):
TATCGCAACGCGAAATGCAACGCGAA
Found at i:74325 original size:14 final size:15
Alignment explanation
Indices: 74306--74343 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
74296 TTTGGATCTC
74306 TCTTTCATCTT-TTT
1 TCTTTCATCTTGTTT
*
74320 TCTTTC-CCTTGTTT
1 TCTTTCATCTTGTTT
74334 TCTTTCATCT
1 TCTTTCATCT
74344 GCTCATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 3 0.15
14 15 0.75
15 2 0.10
ACGTcount: A:0.05, C:0.26, G:0.03, T:0.66
Consensus pattern (15 bp):
TCTTTCATCTTGTTT
Found at i:78407 original size:30 final size:30
Alignment explanation
Indices: 78371--78439 Score: 104
Period size: 30 Copynumber: 2.3 Consensus size: 30
78361 CTTTTTTATT
78371 TAAGTACTTAAAATATTTTTT-TGGTCAAAA
1 TAAGTACTTAAAATATTTTTTAT-GTCAAAA
*
78401 TAAGTACTTAAAGTATTTTTTATGTCAAAA
1 TAAGTACTTAAAATATTTTTTATGTCAAAA
*
78431 TAGGTACTT
1 TAAGTACTT
78440 TTCATCTAAG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 35 0.97
31 1 0.03
ACGTcount: A:0.38, C:0.07, G:0.12, T:0.43
Consensus pattern (30 bp):
TAAGTACTTAAAATATTTTTTATGTCAAAA
Found at i:78547 original size:29 final size:29
Alignment explanation
Indices: 78514--78587 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
78504 GAAAAAAATG
* *
78514 AATACTTTAGGTACCTATTTTGATCAAAA
1 AATACTTTAAGTACCTATTTTGACCAAAA
* *
78543 AATACCTTAAGTACTTATTTTGACCAAAA
1 AATACTTTAAGTACCTATTTTGACCAAAA
*
78572 AGATATCTTTATGTAC
1 A-ATA-CTTTAAGTAC
78588 TTAAATGAAA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
29 26 0.70
30 3 0.08
31 8 0.22
ACGTcount: A:0.38, C:0.15, G:0.09, T:0.38
Consensus pattern (29 bp):
AATACTTTAAGTACCTATTTTGACCAAAA
Found at i:79019 original size:8 final size:8
Alignment explanation
Indices: 79006--80937 Score: 2028
Period size: 8 Copynumber: 239.2 Consensus size: 8
78996 ATGCTAAAGT
79006 TACATACA
1 TACATACA
79014 TACATACA
1 TACATACA
79022 TACATACA
1 TACATACA
* *
79030 TACGTACG
1 TACATACA
* *
79038 TACGTACG
1 TACATACA
* *
79046 TACGTACG
1 TACATACA
* *
79054 TACGTACG
1 TACATACA
* *
79062 TACCTACG
1 TACATACA
*
79070 TACATACG
1 TACATACA
* *
79078 TACCTACG
1 TACATACA
* *
79086 TACCTACG
1 TACATACA
*
79094 TACATACG
1 TACATACA
*
79102 TACATACG
1 TACATACA
79110 TACATACA
1 TACATACA
*
79118 TACATACG
1 TACATACA
*
79126 TACATACCG
1 TACATA-CA
*
79135 TACATACG
1 TACATACA
*
79143 TACATACG
1 TACATACA
*
79151 TATATACGA
1 TACATAC-A
*
79160 TACATACG
1 TACATACA
*
79168 TACATACG
1 TACATACA
*
79176 TACATACG
1 TACATACA
*
79184 TACATACG
1 TACATACA
*
79192 TACATACG
1 TACATACA
*
79200 TACATACG
1 TACATACA
*
79208 TACATACG
1 TACATACA
*
79216 TACATACG
1 TACATACA
*
79224 TACATACG
1 TACATACA
* **
79232 TACCTATG
1 TACATACA
*
79240 TACATACG
1 TACATACA
*
79248 TACATACG
1 TACATACA
* *
79256 TACCTACG
1 TACATACA
*
79264 TACATACG
1 TACATACA
* *
79272 TACCTACG
1 TACATACA
*
79280 TACATACG
1 TACATACA
*
79288 TACATACG
1 TACATACA
*
79296 TACATACG
1 TACATACA
*
79304 TACATACG
1 TACATACA
*
79312 TACATACG
1 TACATACA
*
79320 TACATACG
1 TACATACA
*
79328 TACATACG
1 TACATACA
* *
79336 TACCTACG
1 TACATACA
*
79344 TACATACG
1 TACATACA
*
79352 TACATACG
1 TACATACA
*
79360 TACATACG
1 TACATACA
*
79368 TACATACG
1 TACATACA
*
79376 TACATACCG
1 TACATA-CA
*
79385 TACATACG
1 TACATACA
*
79393 TACATACCG
1 TACATA-CA
*
79402 TACATACG
1 TACATACA
79410 TACATACA
1 TACATACA
79418 TACATACA
1 TACATACA
79426 TACATACA
1 TACATACA
79434 TACATACA
1 TACATACA
*
79442 TACATACG
1 TACATACA
79450 TACATACA
1 TACATACA
79458 TACATACA
1 TACATACA
*
79466 TACATACG
1 TACATACA
*
79474 TACATACG
1 TACATACA
*
79482 TACATACG
1 TACATACA
*
79490 TACATACG
1 TACATACA
*
79498 TACATACG
1 TACATACA
*
79506 TACATACG
1 TACATACA
*
79514 TACATACG
1 TACATACA
*
79522 TACATACG
1 TACATACA
*
79530 TACATACG
1 TACATACA
**
79538 TACATATG
1 TACATACA
*
79546 TACATACG
1 TACATACA
* *
79554 TACGTACG
1 TACATACA
* *
79562 TACGTACG
1 TACATACA
* *
79570 TACGTACG
1 TACATACA
* *
79578 TACGTACG
1 TACATACA
* *
79586 TACGTACG
1 TACATACA
* *
79594 TACGTACG
1 TACATACA
79602 TACATACA
1 TACATACA
* *
79610 TACCATGCG
1 TA-CATACA
79619 TACATACA
1 TACATACA
* *
79627 TACCATGCG
1 TA-CATACA
79636 TACATACA
1 TACATACA
* *
79644 TACCATGCG
1 TA-CATACA
79653 TACATACA
1 TACATACA
*
79661 TACATACG
1 TACATACA
79669 TACATACA
1 TACATACA
79677 TACATACA
1 TACATACA
79685 TACATACA
1 TACATACA
79693 TA-ATACA
1 TACATACA
*
79700 TACATACG
1 TACATACA
79708 TACA-ACA
1 TACATACA
*
79715 TACGTACA
1 TACATACA
*
79723 TACGTACA
1 TACATACA
*
79731 TACGTACA
1 TACATACA
*
79739 TACGTACA
1 TACATACA
*
79747 TACGTACA
1 TACATACA
*
79755 TACGTACA
1 TACATACA
*
79763 TACGTACA
1 TACATACA
*
79771 TACGTACA
1 TACATACA
*
79779 TACGTACA
1 TACATACA
*
79787 TACGTACA
1 TACATACA
*
79795 TACGTACA
1 TACATACA
*
79803 TACGTACA
1 TACATACA
*
79811 TACGTACA
1 TACATACA
*
79819 TACGTACA
1 TACATACA
*
79827 TACGTACA
1 TACATACA
*
79835 TACGTACA
1 TACATACA
* *
79843 TACGTACG
1 TACATACA
*
79851 TACATACG
1 TACATACA
79859 TACATACA
1 TACATACA
*
79867 TACGTACA
1 TACATACA
79875 TACATACA
1 TACATACA
79883 TACATACA
1 TACATACA
*
79891 TACATACG
1 TACATACA
79899 TACATACA
1 TACATACA
79907 TACATACA
1 TACATACA
*
79915 TACGTACA
1 TACATACA
79923 TACATACA
1 TACATACA
*
79931 TACGTACA
1 TACATACA
79939 TACATACA
1 TACATACA
79947 TACATACA
1 TACATACA
79955 TACATACA
1 TACATACA
79963 TACATACA
1 TACATACA
79971 TACATACA
1 TACATACA
79979 TACATACA
1 TACATACA
79987 TACATACA
1 TACATACA
79995 TACATACA
1 TACATACA
80003 TACATACA
1 TACATACA
80011 TACATACA
1 TACATACA
*
80019 TACGTACA
1 TACATACA
*
80027 TACGTACA
1 TACATACA
*
80035 TACGTACA
1 TACATACA
*
80043 TACGTACA
1 TACATACA
*
80051 TACGTACA
1 TACATACA
*
80059 TACGTACA
1 TACATACA
*
80067 TACGTACA
1 TACATACA
*
80075 TACGTACA
1 TACATACA
*
80083 TACGTACA
1 TACATACA
*
80091 TACGTACA
1 TACATACA
*
80099 TACGTACA
1 TACATACA
*
80107 TACGTACA
1 TACATACA
*
80115 TACGTACA
1 TACATACA
*
80123 TACGTACA
1 TACATACA
*
80131 TACGTACA
1 TACATACA
*
80139 TACGTACA
1 TACATACA
**
80147 TACGCACA
1 TACATACA
*
80155 TACGTACA
1 TACATACA
80163 TACATACCA
1 TACATA-CA
*
80172 TACGTACA
1 TACATACA
80180 TACATACA
1 TACATACA
80188 TACATA-A
1 TACATACA
***
80195 TTGTTA-A
1 TACATACA
* ** *
80202 AATTTTC-
1 TACATACA
** * *
80209 TAGTGTTGCT
1 TA--CATACA
**
80219 TACATTGA
1 TACATACA
*** **
80227 TTTTGTATT
1 -TACATACA
* *
80236 TACTTTGACTGG
1 TAC-AT-AC--A
* *
80248 TCTCATCCA
1 T-ACATACA
*
80257 CTA-ATTATA
1 -TACA-TACA
80266 GTCACA-AGCAA
1 -T-ACATA-C-A
* * *
80277 AACAAATA
1 TACATACA
* *
80285 TTCCCTCACA
1 -TACAT-ACA
* *
80295 -AAATTTC-
1 TACA-TACA
* **
80302 TACCAAATT
1 TA-CATACA
**
80311 TGACATTTA
1 T-ACATACA
80320 TACATACA
1 TACATACA
80328 TACATACA
1 TACATACA
80336 TACATACA
1 TACATACA
80344 TACATACA
1 TACATACA
80352 TACATACA
1 TACATACA
80360 TACATACA
1 TACATACA
80368 TACATACA
1 TACATACA
80376 TACATACA
1 TACATACA
80384 TACATACA
1 TACATACA
80392 TACATACA
1 TACATACA
80400 TACATACA
1 TACATACA
80408 TACATACA
1 TACATACA
80416 TACATACA
1 TACATACA
80424 TACATACA
1 TACATACA
80432 TACATACA
1 TACATACA
80440 TACATACA
1 TACATACA
80448 TACATACA
1 TACATACA
80456 TACATACA
1 TACATACA
80464 TACATACA
1 TACATACA
80472 TACATACA
1 TACATACA
80480 TACATACA
1 TACATACA
80488 TACATACA
1 TACATACA
80496 TACATACA
1 TACATACA
80504 TACATACA
1 TACATACA
80512 TACATACA
1 TACATACA
80520 TACATACA
1 TACATACA
80528 TACATACA
1 TACATACA
80536 TACATACA
1 TACATACA
80544 TACATACA
1 TACATACA
80552 TACATACA
1 TACATACA
80560 TACATACA
1 TACATACA
80568 TACATACA
1 TACATACA
80576 TACATACA
1 TACATACA
80584 TACATACA
1 TACATACA
80592 TACATACA
1 TACATACA
80600 TACATACA
1 TACATACA
80608 TACATACA
1 TACATACA
80616 TACATACA
1 TACATACA
80624 TACATACA
1 TACATACA
80632 TACATACA
1 TACATACA
80640 TACATACA
1 TACATACA
80648 TACATACA
1 TACATACA
80656 TACATACA
1 TACATACA
80664 TACATACA
1 TACATACA
80672 TACATACA
1 TACATACA
80680 TACATACA
1 TACATACA
80688 TACATACA
1 TACATACA
80696 TACATACA
1 TACATACA
80704 TACATACA
1 TACATACA
80712 TACATACA
1 TACATACA
80720 TACATACA
1 TACATACA
80728 TACATACA
1 TACATACA
80736 TACATACA
1 TACATACA
80744 TACATACA
1 TACATACA
80752 TACATACA
1 TACATACA
80760 TACATACA
1 TACATACA
80768 TACATACA
1 TACATACA
80776 TACATACA
1 TACATACA
80784 TACATACA
1 TACATACA
80792 TACATACA
1 TACATACA
80800 TACATACA
1 TACATACA
80808 TACATACA
1 TACATACA
80816 TACATACA
1 TACATACA
80824 TACATACA
1 TACATACA
80832 TACATACA
1 TACATACA
80840 TACATACA
1 TACATACA
80848 TACATACA
1 TACATACA
80856 TACATACA
1 TACATACA
80864 TACATACA
1 TACATACA
80872 TACATACA
1 TACATACA
80880 TACATACA
1 TACATACA
80888 TACATACA
1 TACATACA
80896 TACATACA
1 TACATACA
80904 TACATACA
1 TACATACA
*
80912 TATATACA
1 TACATACA
80920 TACATACA
1 TACATACA
80928 TACATACA
1 TACATACA
80936 TA
1 TA
80938 ATTGTTAAAA
Statistics
Matches: 1768, Mismatches: 122, Indels: 68
0.90 0.06 0.03
Matches are distributed among these distances:
7 20 0.01
8 1657 0.94
9 76 0.04
10 9 0.01
11 3 0.00
12 2 0.00
13 1 0.00
ACGTcount: A:0.42, C:0.25, G:0.07, T:0.26
Consensus pattern (8 bp):
TACATACA
Found at i:82808 original size:80 final size:80
Alignment explanation
Indices: 82675--82838 Score: 292
Period size: 80 Copynumber: 2.0 Consensus size: 80
82665 ATATAATATA
* *
82675 TTTATAAGGCAAAAGGGTAAATTTTGCCCCTTTATTAGACCTAATTTATCACTTTCGTCTCTATC
1 TTTATAAGGCAAAAGGGTAAATTTTGCCCCTTTATTAGACCCAATTTATCACTTTCGCCTCTATC
82740 GCATTTTCGCATCAG
66 GCATTTTCGCATCAG
* *
82755 TTTATAAGGCAAAAGGGTGACTTTTGCCCCTTTATTAGACCCAATTTATCACTTTCGCCTCTATC
1 TTTATAAGGCAAAAGGGTAAATTTTGCCCCTTTATTAGACCCAATTTATCACTTTCGCCTCTATC
82820 GCATTTTCGCATCAG
66 GCATTTTCGCATCAG
82835 TTTA
1 TTTA
82839 GCCCTCGAAG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 80 1.00
ACGTcount: A:0.25, C:0.23, G:0.14, T:0.38
Consensus pattern (80 bp):
TTTATAAGGCAAAAGGGTAAATTTTGCCCCTTTATTAGACCCAATTTATCACTTTCGCCTCTATC
GCATTTTCGCATCAG
Found at i:83375 original size:24 final size:24
Alignment explanation
Indices: 83298--83363 Score: 132
Period size: 24 Copynumber: 2.8 Consensus size: 24
83288 GAGACGATAT
83298 ATCAATATTTTTGTATGGTCGTTG
1 ATCAATATTTTTGTATGGTCGTTG
83322 ATCAATATTTTTGTATGGTCGTTG
1 ATCAATATTTTTGTATGGTCGTTG
83346 ATCAATATTTTTGTATGG
1 ATCAATATTTTTGTATGG
83364 AAGAGAGTCA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 42 1.00
ACGTcount: A:0.23, C:0.08, G:0.20, T:0.50
Consensus pattern (24 bp):
ATCAATATTTTTGTATGGTCGTTG
Found at i:84801 original size:60 final size:61
Alignment explanation
Indices: 84728--84853 Score: 159
Period size: 60 Copynumber: 2.1 Consensus size: 61
84718 CTTTAAGGGT
* * *
84728 AAAG-TATACAAATGGTCCT-CAAATAATAGAGATTTGTTTTATTGAGTCACTCGGCTATTA
1 AAAGTTATACAAATGGTCCTCCAAAT-ATAGAGAGTTGCTTTATTGAGTCACTCGACTATTA
* * * *
84788 AAAGTTATA-AAATGGTCCTCCAACTATAGGGAGTTGCTTTATTGAGTCCCTTGACTATTA
1 AAAGTTATACAAATGGTCCTCCAAATATAGAGAGTTGCTTTATTGAGTCACTCGACTATTA
84848 AAAGTT
1 AAAGTT
84854 TAGAAATAGT
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
60 49 0.86
61 8 0.14
ACGTcount: A:0.33, C:0.14, G:0.17, T:0.35
Consensus pattern (61 bp):
AAAGTTATACAAATGGTCCTCCAAATATAGAGAGTTGCTTTATTGAGTCACTCGACTATTA
Found at i:85627 original size:20 final size:21
Alignment explanation
Indices: 85596--85641 Score: 69
Period size: 20 Copynumber: 2.2 Consensus size: 21
85586 ACTATAAACA
85596 TTATTATTTTTA-CAGGTTTTG
1 TTATTATTTTTATC-GGTTTTG
85617 TTATT-TTTTTATCGGTTTTG
1 TTATTATTTTTATCGGTTTTG
85637 TTATT
1 TTATT
85642 GTTGGACACT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 18 0.75
21 6 0.25
ACGTcount: A:0.15, C:0.04, G:0.13, T:0.67
Consensus pattern (21 bp):
TTATTATTTTTATCGGTTTTG
Found at i:86760 original size:21 final size:20
Alignment explanation
Indices: 86731--86776 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
86721 ACGTTACAAT
86731 TCGCATTGCGATAGTTGAAAA
1 TCGCATTGCGATAGTTG-AAA
*
86752 TCGCGTTGCGATAGTTGAAA
1 TCGCATTGCGATAGTTGAAA
86772 TCGCA
1 TCGCA
86777 ACGCGATCTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.28
Consensus pattern (20 bp):
TCGCATTGCGATAGTTGAAA
Found at i:86859 original size:41 final size:41
Alignment explanation
Indices: 86798--86962 Score: 235
Period size: 41 Copynumber: 4.0 Consensus size: 41
86788 ACTATCGCAA
* * *
86798 ATTT-GCGTTACGATAGTTGAAAATAGCGTTGCGATTTTCC
1 ATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCC
86838 ATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCC
1 ATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCC
*
86879 ATTTCGCGTTGCGATAGTTGAAATTCGCATTGCGATTTTCC
1 ATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCC
* * *
86920 ATTTCGCATTGCGATAGTCTGCAGTT-GTCGTTGCGATTTTCC
1 ATTTCGCGTTGCGATAGT-TGAAATTCG-CGTTGCGATTTTCC
86962 A
1 A
86963 AATTCGTTGA
Statistics
Matches: 114, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
40 4 0.04
41 91 0.80
42 19 0.17
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.39
Consensus pattern (41 bp):
ATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTCC
Found at i:86866 original size:21 final size:21
Alignment explanation
Indices: 86796--86914 Score: 107
Period size: 21 Copynumber: 5.8 Consensus size: 21
86786 CCACTATCGC
* *
86796 AAATTTGCGTTACGATAGTTG
1 AAATTCGCGTTGCGATAGTTG
* * * *
86817 AAAATAGCGTTGCGAT-TTTC
1 AAATTCGCGTTGCGATAGTTG
* *
86837 CATTTCGCGTTGCGATAGTTG
1 AAATTCGCGTTGCGATAGTTG
* *
86858 AAATTCGCGTTGCGAT-TTTC
1 AAATTCGCGTTGCGATAGTTG
* *
86878 CATTTCGCGTTGCGATAGTTG
1 AAATTCGCGTTGCGATAGTTG
*
86899 AAATTCGCATTGCGAT
1 AAATTCGCGTTGCGAT
86915 TTTCCATTTC
Statistics
Matches: 74, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
20 30 0.41
21 44 0.59
ACGTcount: A:0.23, C:0.17, G:0.24, T:0.37
Consensus pattern (21 bp):
AAATTCGCGTTGCGATAGTTG
Found at i:86927 original size:20 final size:20
Alignment explanation
Indices: 86823--86934 Score: 116
Period size: 20 Copynumber: 5.5 Consensus size: 20
86813 GTTGAAAATA
86823 GCGTTGCGATTTTCCATTTC
1 GCGTTGCGATTTTCCATTTC
* ** *
86843 GCGTTGCGATAGTTGAAATTC
1 GCGTTGCGAT-TTTCCATTTC
86864 GCGTTGCGATTTTCCATTTC
1 GCGTTGCGATTTTCCATTTC
* ** *
86884 GCGTTGCGATAGTTGAAATTC
1 GCGTTGCGAT-TTTCCATTTC
*
86905 GCATTGCGATTTTCCATTTC
1 GCGTTGCGATTTTCCATTTC
*
86925 GCATTGCGAT
1 GCGTTGCGAT
86935 AGTCTGCAGT
Statistics
Matches: 73, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
20 42 0.58
21 31 0.42
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (20 bp):
GCGTTGCGATTTTCCATTTC
Found at i:87058 original size:6 final size:6
Alignment explanation
Indices: 87047--87073 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
87037 GACACATATT
87047 ACCACG ACCACG ACCACG ACCACG ACC
1 ACCACG ACCACG ACCACG ACCACG ACC
87074 CGAGACGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.52, G:0.15, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:92852 original size:2 final size:2
Alignment explanation
Indices: 92845--92902 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
92835 AAATTCAGTA
92845 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
92887 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
92903 TGAAGTCCCC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93713 original size:15 final size:15
Alignment explanation
Indices: 93693--93722 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
93683 CAAATTATAT
93693 CTCTAAATTAGGAAA
1 CTCTAAATTAGGAAA
*
93708 CTCTAAGTTAGGAAA
1 CTCTAAATTAGGAAA
93723 GATACTAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.43, C:0.13, G:0.17, T:0.27
Consensus pattern (15 bp):
CTCTAAATTAGGAAA
Found at i:96502 original size:2 final size:2
Alignment explanation
Indices: 96495--96524 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
96485 TTGGCTGGTC
96495 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
96525 GAATGATACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:98191 original size:491 final size:492
Alignment explanation
Indices: 97205--98281 Score: 1910
Period size: 490 Copynumber: 2.2 Consensus size: 492
97195 CAATATAACA
*
97205 TAAATATAGATGGCAACGGATTAACTAAAATATGTATTTTGAAGTCCACTAGGATCAAAGAATCA
1 TAAATATAGATGGCAACGGATTAACTAAAATA--TATATTGAAGTCCACTAGGATCAAAGAATCA
* *
97270 TATTACTTGATTTCCAAATTTAAATGTCGGCTGATTTCCAAATTTAGTAGCATAGTTTTCAGGTT
64 TATTACCTGATTTCCAAATTTAAATGTCGGCTGATTTCCAAATTCAGTAGCATAGTTTTCAGGTT
97335 CAACTGAGACAATGGCAAATGAATCAGACTGAACATCCAGTAAGTTTGTTTCAGCACTGGTTGAA
129 CAACTGAGACAATGGCAAATGAATCAGACTGAACATCCAGTAAGTTTGTTTCAGCACTGGTTGAA
* *
97400 GCAGAGGGAACAGCAGTAGTTGGAGCAACTGTAATTGATGAGAAATAGAAAGATTAGTTCCAGTT
194 GCAGAGGGAACAACAGTAGTTGGAGCAACAGTAATTGATGAGAAATAGAAAGATTAGTTCCAGTT
*
97465 ATAGTGGATAAATACAACAGGGTTCAACAGGATTCCAATCTAAGTTCCTCAAAACTGAAATGTCA
259 ATAGGGGATAAATACAACAGGGTTCAACAGGATTCCAATCTAAGTTCCTCAAAACTGAAATGTCA
*
97530 CCAAAATAGCCTTTTATGTTTTAATTTAAAACTTTCACTAGTATGAAACTAACAGCAAAAGGTTT
324 CCAAAATAGCCTTTTATGTTTTAATTTAAAACTTTCACTAGTACGAAACTAACAGCAAAAGGTTT
* *
97595 AGCTCCCCAAAAAGTAATATCCCCATTTAAATGACTAACTATTTGGCAAGACTTTCTACCGTAAT
389 AGCTCCCCAAAAAGTAATATCCCCATTTAAATGACTAACTATTTGGCAAGACTTTCTACCATAAC
*
97660 CACCATCTTACAAACTTCTTTTTTCAGGTTGGAACATGC
454 CACCATCTTACAAACTTCTTTTCTCAGGTTGGAACATGC
* *
97699 T-AA-ATAGATGGCAGCAGATTAACTAAAATATATATTGAAGTCCACTAGGATCAAAGAATCATA
1 TAAATATAGATGGCAACGGATTAACTAAAATATATATTGAAGTCCACTAGGATCAAAGAATCATA
*
97762 TTACCTGATTTCCAAATTTAAATGTCGGCTGATTTCCAAATTCAGTAGCATGGTTTTCAGGTGT-
66 TTACCTGATTTCCAAATTTAAATGTCGGCTGATTTCCAAATTCAGTAGCATAGTTTTCAGGT-TC
*
97826 AACTGGGACAATGGCAAATGAATCAGACTGAACATCCAGTAAGTTTGTTTCAGCACTGGTTGAAG
130 AACTGAGACAATGGCAAATGAATCAGACTGAACATCCAGTAAGTTTGTTTCAGCACTGGTTGAAG
97891 CAGAGGGAACAACAGTAG-TGGAGCAACAGTAATTGATGAGAAATAGAAAGATTAGTTCCAGTTA
195 CAGAGGGAACAACAGTAGTTGGAGCAACAGTAATTGATGAGAAATAGAAAGATTAGTTCCAGTTA
* *
97955 TAGGGGATAAATGCAATAGGGTTCAACAGGATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTC
260 TAGGGGATAAATACAACAGGGTTCAACAGGATTCCAATCTAAGTTCCTCAAAACTGAAAT--GTC
98020 ACCAAAATAGCCTTTTATGTTTTAATTTAAAACTTTCACTAGTACGAAACTAACAGCAAAAGGTT
323 ACCAAAATAGCCTTTTATGTTTTAATTTAAAACTTTCACTAGTACGAAACTAACAGCAAAAGGTT
98085 TAGCTCCCCAAAAAGTAATATCCCCATTTAAATGACTAACTATTTGGCAAGACTTTCTACCATAA
388 TAGCTCCCCAAAAAGTAATATCCCCATTTAAATGACTAACTATTTGGCAAGACTTTCTACCATAA
*
98150 CCATCATCTTACAAACTTCTTTTCTCAGGTTGGAACATGC
453 CCACCATCTTACAAACTTCTTTTCTCAGGTTGGAACATGC
98190 TAAATATAGATGGCAACGGATTAACTAAAATATATATATTGAAGTCCACTAGGATCAAAGAATCA
1 TAAATATAGATGGCAACGGATTAACT-AAA-ATATATATTGAAGTCCACTAGGATCAAAGAATCA
98255 TATTACCTGATTTCCAAATTTAAATGT
64 TATTACCTGATTTCCAAATTTAAATGT
98282 TGATTGATTT
Statistics
Matches: 557, Mismatches: 19, Indels: 13
0.95 0.03 0.02
Matches are distributed among these distances:
489 102 0.18
490 172 0.31
491 170 0.31
492 27 0.05
493 21 0.04
494 4 0.01
495 61 0.11
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.30
Consensus pattern (492 bp):
TAAATATAGATGGCAACGGATTAACTAAAATATATATTGAAGTCCACTAGGATCAAAGAATCATA
TTACCTGATTTCCAAATTTAAATGTCGGCTGATTTCCAAATTCAGTAGCATAGTTTTCAGGTTCA
ACTGAGACAATGGCAAATGAATCAGACTGAACATCCAGTAAGTTTGTTTCAGCACTGGTTGAAGC
AGAGGGAACAACAGTAGTTGGAGCAACAGTAATTGATGAGAAATAGAAAGATTAGTTCCAGTTAT
AGGGGATAAATACAACAGGGTTCAACAGGATTCCAATCTAAGTTCCTCAAAACTGAAATGTCACC
AAAATAGCCTTTTATGTTTTAATTTAAAACTTTCACTAGTACGAAACTAACAGCAAAAGGTTTAG
CTCCCCAAAAAGTAATATCCCCATTTAAATGACTAACTATTTGGCAAGACTTTCTACCATAACCA
CCATCTTACAAACTTCTTTTCTCAGGTTGGAACATGC
Found at i:100870 original size:496 final size:496
Alignment explanation
Indices: 99931--103304 Score: 5871
Period size: 496 Copynumber: 6.8 Consensus size: 496
99921 AAATGTTGAT
* * * *
99931 TGATTTTCAAATTCAGTAGCATGTTTTTCAGGTGTAACTGGGACAATGGAAAATGAATCAGACTG
1 TGATTTCCAAATTCAGTAGCATGGTTTTCAGGTGTAACTGGGACAATGGCAAATGAATCAGACCG
*
99996 AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAAAGGGAATAGCAGTAGTTGGAGCAACTG
66 AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAAAGGGAACAGCAGTAGTTGGAGCAACTG
*
100061 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTAT-GAGGATAAATGCAACAGGGTTCAACAGG
131 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
* *
100125 ATTCAAATTTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
196 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
100190 AACTTTCACTAGTACGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
261 AACTTTCACTAGTACGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
* *
100255 AATGACTAACTATTTGGCAAGAATTTCTACCATAACCAACATCTTACAAACTTCTTTTTTCAGGT
326 AATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
*
100320 TGGAACATGCTAAATATAGATGGCAACGGATTAACTAAAATATATATATTGAAGTCCACTAGTAT
391 TGGAACATGCTAAATATAGATGGCAACGGATTAACTAAAATATATATATTGAAGTCCACTAGGAT
* *
100385 CAAAGAATCATATGACCTGATTTCCATATTTAAATGTCGGC
456 CAAAGAATCATATTACCTGATTTCCAAATTTAAATGTCGGC
* * *
100426 TGATTTCCAAATTCAGTAGCATGGTTTTCATGTGTAACTGGGACAATGGAAAATGAATCAGACCA
1 TGATTTCCAAATTCAGTAGCATGGTTTTCAGGTGTAACTGGGACAATGGCAAATGAATCAGACCG
100491 AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAAAGGGAACAGCAGTAGTTGGAGCAACTG
66 AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAAAGGGAACAGCAGTAGTTGGAGCAACTG
100556 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
131 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
* *
100621 ATTCAAATTTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
196 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
100686 AACTTTCACTAGTACGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
261 AACTTTCACTAGTACGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
* *
100751 AATGACTAACTATTTGGCAAGAATTTCTACCATAACCAACATCTTACAAACTTCTTTTTTCAGGT
326 AATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
*
100816 TGGAACATGCTAAATATAGATGGCAACGGATTAACTAAAATATATATATTGAAGTCCACTAGTAT
391 TGGAACATGCTAAATATAGATGGCAACGGATTAACTAAAATATATATATTGAAGTCCACTAGGAT
* *
100881 CAAAGAATCATATGACCTGATTTCCATATTTAAATGTCGGC
456 CAAAGAATCATATTACCTGATTTCCAAATTTAAATGTCGGC
* * *
100922 TGATTTCCAAATTCAGTAGCATGGTTTTCATGTGTAACTGGGACAATGGAAAATGAATCAGACCA
1 TGATTTCCAAATTCAGTAGCATGGTTTTCAGGTGTAACTGGGACAATGGCAAATGAATCAGACCG
100987 AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAAAGGGAACAGCAGTAGTTGGAGCAACTG
66 AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAAAGGGAACAGCAGTAGTTGGAGCAACTG
101052 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
131 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
*
101117 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTATTTTAA
196 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
* *
101182 AACTTTCACTAGTATGAAACTAACAGAAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
261 AACTTTCACTAGTACGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
*
101247 AATGACTAACTATTTGGCAAGTCTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
326 AATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
*
101312 TGGAACATGCTAAATATAGATGGC-ACTGATTAACTAAAATATATAATATTGAAGTCCACTAGGA
391 TGGAACATGCTAAATATAGATGGCAACGGATTAACTAAAATATAT-ATATTGAAGTCCACTAGGA
* * *
101376 TCAAAGAACCATATTACCTGATTTCAAAATTTAAATGTCGAC
455 TCAAAGAATCATATTACCTGATTTCCAAATTTAAATGTCGGC
* *
101418 TGATTTTCAAATTTAGTAGCATGGTTTTCAGGTGTAACTGGGACAATGGCAAATGAATCAGACCG
1 TGATTTCCAAATTCAGTAGCATGGTTTTCAGGTGTAACTGGGACAATGGCAAATGAATCAGACCG
* * * * *
101483 AACATCAAGTAAGTTTGTTTCAGCACTAGTTTAAGCAGAGGGAACAGCAGTAGTTGGAGCAACTG
66 AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAAAGGGAACAGCAGTAGTTGGAGCAACTG
101548 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
131 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
*
101613 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTATTTTAA
196 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
* *
101678 AACTTTCACTAGTATGAAACTAACAGAAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
261 AACTTTCACTAGTACGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
*
101743 AATGACTAACTATTTGGCAAGTCTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
326 AATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
*
101808 TGGAACATGCTAAATATAGATGGC-ACTGATTAACTAAAATATATAATATTGAAGTCCACTAGGA
391 TGGAACATGCTAAATATAGATGGCAACGGATTAACTAAAATATAT-ATATTGAAGTCCACTAGGA
* * *
101872 TCAAAGAACCATATTACCTGATTTCAAAATTTAAATGTCGAC
455 TCAAAGAATCATATTACCTGATTTCCAAATTTAAATGTCGGC
* *
101914 TGATTTTCAAATTTAGTAGCATGGTTTTCAGGTGTAACTGGGACAATGGCAAATGAATCAGACCG
1 TGATTTCCAAATTCAGTAGCATGGTTTTCAGGTGTAACTGGGACAATGGCAAATGAATCAGACCG
* * * * *
101979 AACATCAAGTAAGTTTGTTTCAGCACTAGTTTAAGCAGAGGGAACAGCAGTAGTTGGAGCAACTG
66 AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAAAGGGAACAGCAGTAGTTGGAGCAACTG
102044 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
131 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
102109 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
196 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
*
102174 AAC--TCACTGGTACGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
261 AACTTTCACTAGTACGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
102237 AATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
326 AATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
102302 TGGAACATGCTAAATATAGATGGCAACGGATTAACTAAAATATATATATTGAAGTCCACTAGGAT
391 TGGAACATGCTAAATATAGATGGCAACGGATTAACTAAAATATATATATTGAAGTCCACTAGGAT
*
102367 CAAAGAATCATATTACCTGATTTCCAAATTTACATGTCGGC
456 CAAAGAATCATATTACCTGATTTCCAAATTTAAATGTCGGC
* * *** *
102408 TGATTTCCAAATTTAGTAGTATGGTTTTCAGGTGTAACTGGGACAATGGCATCGGAATCAAACCG
1 TGATTTCCAAATTCAGTAGCATGGTTTTCAGGTGTAACTGGGACAATGGCAAATGAATCAGACCG
* * *
102473 AACATCCAATAA----G--T-AGCATTGGTTGAAGCAGAGGGAACAGCAGTAGTTGGAACAACTG
66 AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAAAGGGAACAGCAGTAGTTGGAGCAACTG
*
102531 TAACTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
131 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
102596 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
196 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
*
102661 AAC--TCACTGGTACGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTT-
261 AACTTTCACTAGTACGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
102723 AATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
326 AATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
*
102788 TGGAACATGCTAAATATAGATGGCAACGAATTAACTAAAATATATATATTGAAGTCCACTAGGAT
391 TGGAACATGCTAAATATAGATGGCAACGGATTAACTAAAATATATATATTGAAGTCCACTAGGAT
102853 CAAAGAATCATATTACCTGATTTCCAAATTTAAATGTCGGC
456 CAAAGAATCATATTACCTGATTTCCAAATTTAAATGTCGGC
* *
102894 TGATTTCCAAATTCAGTAGCATGGTTTTCAGGTGTACCTGGGACAATGGCAAATGAATCAGACCA
1 TGATTTCCAAATTCAGTAGCATGGTTTTCAGGTGTAACTGGGACAATGGCAAATGAATCAGACCG
* *
102959 AACATCCAGTAGGTTTGTTTCAGCATTGGTTGAAGCAAAGGGAATAGCAGTAGTTGGAGCAACTG
66 AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAAAGGGAACAGCAGTAGTTGGAGCAACTG
*
103024 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAATAGGGTTCAACAGG
131 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
* *
103089 ATTCAAATTTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
196 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
* * *
103154 AACTTTCACTAGTATGAAACTAACAACAAAAGGTTTAGCTCCCCAAAAAGTAATACCCCCATTTA
261 AACTTTCACTAGTACGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
103219 AATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTGTT-AGG
326 AATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTT-TTCAGG
*
103283 TTGGAACATGCTATAACATAGA
390 TTGGAACATGCTA-AATATAGA
103305 AATGAACAGC
Statistics
Matches: 2785, Mismatches: 79, Indels: 28
0.96 0.03 0.01
Matches are distributed among these distances:
486 236 0.08
487 231 0.08
488 1 0.00
490 2 0.00
492 1 0.00
493 170 0.06
494 271 0.10
495 253 0.09
496 1611 0.58
497 9 0.00
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (496 bp):
TGATTTCCAAATTCAGTAGCATGGTTTTCAGGTGTAACTGGGACAATGGCAAATGAATCAGACCG
AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAAAGGGAACAGCAGTAGTTGGAGCAACTG
TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
AACTTTCACTAGTACGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
AATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
TGGAACATGCTAAATATAGATGGCAACGGATTAACTAAAATATATATATTGAAGTCCACTAGGAT
CAAAGAATCATATTACCTGATTTCCAAATTTAAATGTCGGC
Found at i:105370 original size:20 final size:20
Alignment explanation
Indices: 105347--105409 Score: 72
Period size: 23 Copynumber: 3.0 Consensus size: 20
105337 ATCTAAATTC
105347 TAAACAGATTACCTAACAAT
1 TAAACAGATTACCTAACAAT
**
105367 TAAACAGATTATAGATAAACAAT
1 TAAACAGA-T-TACCT-AACAAT
105390 TAAACAGATTACCTTAACAA
1 TAAACAGATTACC-TAACAA
105410 AATAACAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
20 8 0.23
21 8 0.23
22 5 0.14
23 14 0.40
ACGTcount: A:0.52, C:0.16, G:0.06, T:0.25
Consensus pattern (20 bp):
TAAACAGATTACCTAACAAT
Found at i:105565 original size:24 final size:27
Alignment explanation
Indices: 105504--105557 Score: 81
Period size: 29 Copynumber: 1.9 Consensus size: 27
105494 CCAATATATA
*
105504 AACAATTAAACAAATTACATTGAAGAT
1 AACAATTAAACAAATTACAGTGAAGAT
105531 GAAGCAATTAAACAAATTACAGTGAAG
1 -AA-CAATTAAACAAATTACAGTGAAG
105558 TAAATTAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.54, C:0.11, G:0.13, T:0.22
Consensus pattern (27 bp):
AACAATTAAACAAATTACAGTGAAGAT
Found at i:105938 original size:24 final size:24
Alignment explanation
Indices: 105909--105956 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
105899 TAATTGGAAT
105909 TTAAAAGGTCTGACTGTTGGAAGA
1 TTAAAAGGTCTGACTGTTGGAAGA
105933 TTAAAAGGTCTGACTGTTGGAAGA
1 TTAAAAGGTCTGACTGTTGGAAGA
105957 AAATCCCCAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (24 bp):
TTAAAAGGTCTGACTGTTGGAAGA
Found at i:106294 original size:41 final size:41
Alignment explanation
Indices: 106237--106314 Score: 138
Period size: 41 Copynumber: 1.9 Consensus size: 41
106227 CATAAAATAT
106237 TTGCAAATTGTCTTTATTATCACAAGCAAGAGCATTTTCTA
1 TTGCAAATTGTCTTTATTATCACAAGCAAGAGCATTTTCTA
**
106278 TTGCAAATTGTCTTTATTATCACAATTAAGAGCATTT
1 TTGCAAATTGTCTTTATTATCACAAGCAAGAGCATTT
106315 CCTAACTCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (41 bp):
TTGCAAATTGTCTTTATTATCACAAGCAAGAGCATTTTCTA
Found at i:107877 original size:333 final size:335
Alignment explanation
Indices: 107258--107928 Score: 1143
Period size: 333 Copynumber: 2.0 Consensus size: 335
107248 GGCACTGGAT
* *
107258 CATAATATTCGCTTCTGTTATCAATTTTAAGAGCGGATATGTCACAAAGTCCAATATCATCTGCC
1 CATAATATTCACTTCTGTTATCAATTTTAAGAGCGGATATGTCACAAAGTCCAATATCATCTGCA
107323 GAACGATGCAATTCTTTTTCGTCTCTCATGGAATTAGGATTTTGGTTTTTTAGATCAAGAAACAC
66 GAACGATGCAATTCTTTTTCGTCTCTCATGGAATTAGGATTTTGGTTTTTTAGATCAAGAAACAC
107388 ACCACCCTATATAACAACAGAAGGCATGATTAGCTTGTAAAAAAAGAGGAAAATTGCTCAAAAGT
131 ACCACCCTATATAACAACAGAAGGCATGATTAGCTTGTAAAAAAAGAGGAAAATTGCTCAAAAGT
* * *
107453 AAACCAGTGAGGGGAACGGCACAAATTCCCTTGATCAGGAAAATAGAAGCAGCAAATGTATCCGA
196 AAACCAGTGAGGGGAACGGCACAAATTACCTTGATCAGAAAAATAGAAGCAGCAAATGTATCAGA
* *
107518 AAGGGTTAGGTTAGCTGACATGTAGTTATTTTCTTTATGTTCTTGGTCAGGGAAAGCTCAAGTAT
261 AAGGGTTAGGTTAGCTGACATGTAGTTATTTTCTTCATGTGCTTGGTCAGGGAAAGCTCAAGTAT
107583 GCAGGTCAAC
326 GCAGGTCAAC
* * * *
107593 CATAATCTTCACTTCTGTTATCAATTTTAAGAGCGTATATGTCACGAATTCCAATATCATCTGCA
1 CATAATATTCACTTCTGTTATCAATTTTAAGAGCGGATATGTCACAAAGTCCAATATCATCTGCA
*
107658 GAA-GAATGCAATT-TTTTTCGTCTCTCATGGAATTAGGATTTTGGTTTTTTAGATCGAGAAACA
66 GAACG-ATGCAATTCTTTTTCGTCTCTCATGGAATTAGGATTTTGGTTTTTTAGATCAAGAAACA
*
107721 CACCACCCTATATAACAACAGAAGGCATGATTAGCTTGT-AACAAAGAGGAAAATTGCTCAAAAG
130 CACCACCCTATATAACAACAGAAGGCATGATTAGCTTGTAAAAAAAGAGGAAAATTGCTCAAAAG
* *
107785 TGAACCAGTGAGGGGGAA-GGCACTAATTACCTTGATCAGAAAAATAGAAGCAGCAAATGTATCA
195 TAAACCAGTGA-GGGGAACGGCACAAATTACCTTGATCAGAAAAATAGAAGCAGCAAATGTATCA
*
107849 GAAAGGGTTAGGTTAGCTGACATGTAGTTATTTTCTTCATGTGCTTGGTCAGGGGAAGCTCAAGT
259 GAAAGGGTTAGGTTAGCTGACATGTAGTTATTTTCTTCATGTGCTTGGTCAGGGAAAGCTCAAGT
*
107914 ATGCAGGTTAAC
324 ATGCAGGTCAAC
107926 CAT
1 CAT
107929 TCCAGTGAAG
Statistics
Matches: 317, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
333 152 0.48
334 95 0.30
335 70 0.22
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (335 bp):
CATAATATTCACTTCTGTTATCAATTTTAAGAGCGGATATGTCACAAAGTCCAATATCATCTGCA
GAACGATGCAATTCTTTTTCGTCTCTCATGGAATTAGGATTTTGGTTTTTTAGATCAAGAAACAC
ACCACCCTATATAACAACAGAAGGCATGATTAGCTTGTAAAAAAAGAGGAAAATTGCTCAAAAGT
AAACCAGTGAGGGGAACGGCACAAATTACCTTGATCAGAAAAATAGAAGCAGCAAATGTATCAGA
AAGGGTTAGGTTAGCTGACATGTAGTTATTTTCTTCATGTGCTTGGTCAGGGAAAGCTCAAGTAT
GCAGGTCAAC
Found at i:113592 original size:26 final size:26
Alignment explanation
Indices: 113563--113723 Score: 92
Period size: 26 Copynumber: 6.3 Consensus size: 26
113553 ATTTTAAATA
113563 ATATTAAATTAATTTAATTTAAGAAT
1 ATATTAAATTAATTTAATTTAAGAAT
*
113589 ATATT-AATATAATTTAAATTTCTAACTTAA-
1 ATATTAAAT-TAATTT-AA-TT-TAA--GAAT
* *
113619 ATATTAATATT-A-TTATTTTAA-ATT
1 ATATTAA-ATTAATTTAATTTAAGAAT
*
113643 ATA-TAGA-TAATTTAATTTAAGAAT
1 ATATTAAATTAATTTAATTTAAGAAT
* ** *
113667 A-AGTTATA-TAAAAT-ATTTTA-AAT
1 ATA-TTAAATTAATTTAATTTAAGAAT
113690 AATATTAAATTAATTTAATTTAAGAAT
1 -ATATTAAATTAATTTAATTTAAGAAT
113717 ATATTAA
1 ATATTAA
113724 TCTATTCTTA
Statistics
Matches: 102, Mismatches: 14, Indels: 38
0.66 0.09 0.25
Matches are distributed among these distances:
21 1 0.01
22 2 0.02
23 15 0.15
24 16 0.16
25 15 0.15
26 26 0.25
27 7 0.07
28 3 0.03
29 5 0.05
30 6 0.06
31 4 0.04
32 2 0.02
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.47
Consensus pattern (26 bp):
ATATTAAATTAATTTAATTTAAGAAT
Found at i:117286 original size:5 final size:5
Alignment explanation
Indices: 117276--117317 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
117266 AATTAATAAA
*
117276 AAAAT AAAAT -AAAT AAAAT AAAAT AAAGT CAAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT -AAAAT AAAAT AAA
117318 TAATAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
4 8 0.25
5 20 0.62
6 4 0.12
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:117311 original size:11 final size:10
Alignment explanation
Indices: 117276--117317 Score: 52
Period size: 9 Copynumber: 4.3 Consensus size: 10
117266 AATTAATAAA
117276 AAAATAAAAT
1 AAAATAAAAT
117286 -AAATAAAAT
1 AAAATAAAAT
*
117295 AAAATAAAGT
1 AAAATAAAAT
117305 CAAAAT-AAAT
1 -AAAATAAAAT
117315 AAA
1 AAA
117318 TAATAAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
9 12 0.43
10 11 0.39
11 5 0.18
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.19
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:117431 original size:33 final size:33
Alignment explanation
Indices: 117340--117454 Score: 119
Period size: 34 Copynumber: 3.5 Consensus size: 33
117330 ATTTAAAACC
* * ***
117340 ATATATTATATATAATTTT-AAAAAGTTTTCAAA
1 ATATATAATATAT-ATTTTCAAAATGTTTTTTTA
*
117373 ATTATATATTATATAGTTTTCAAAATGTTTTTTTA
1 A-TATATAATATATA-TTTTCAAAATGTTTTTTTA
117408 ATATATAATATATATTTTCAAAATGTTTTTTTA
1 ATATATAATATATATTTTCAAAATGTTTTTTTA
*
117441 A-ATA-ACTATATATT
1 ATATATAATATATATT
117455 ATATAAGTTT
Statistics
Matches: 71, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
31 9 0.13
32 3 0.04
33 22 0.31
34 26 0.37
35 11 0.15
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.51
Consensus pattern (33 bp):
ATATATAATATATATTTTCAAAATGTTTTTTTA
Found at i:117486 original size:37 final size:36
Alignment explanation
Indices: 117334--117802 Score: 350
Period size: 37 Copynumber: 12.8 Consensus size: 36
117324 AAAAAGATTT
* *
117334 AAAACCATATATTATATATAATTTT-AAAA-AGTTTTC
1 AAAACTATATATTATATAT-ATTTTCAAAATA-TTTTA
* * * *
117370 AAAATTATATATTATATA-GTTTTCAAAATGTTTTT
1 AAAACTATATATTATATATATTTTCAAAATATTTTA
** *
117405 TTAA-TATATA--ATATATATTTTCAAAATGTTTTTTTA
1 AAAACTATATATTATATATATTTTCAAAA---TATTTTA
117441 AATAACTATATATTATATA-AGTTTTCAAAATATTTTAA
1 AA-AACTATATATTATATATA-TTTTCAAAATATTTT-A
117479 AAAACTATATATTATATATATTTTCAAAATATTTTA
1 AAAACTATATATTATATATATTTTCAAAATATTTTA
* * *
117515 AAAACTATATATTATATATATGTTTTAAAAAATGTTTT
1 AAAACTATATATTATATATAT-TTTCAAAATAT-TTTA
* * * * *
117553 AAAACTATATAATATATTTGTTTTCAAAAATGTTTTC
1 AAAACTATATATTATATATATTTTC-AAAATATTTTA
* *
117590 AAAACTATATAATATATATGTTTTCAAAAATATTTTCA
1 AAAACTATATATTATATATATTTTC-AAAATATTTT-A
* * * *
117628 AAAGCTATATATTATATATATATT-AAAAT-GTTGA
1 AAAACTATATATTATATATATTTTCAAAATATTTTA
* * * * *
117662 GGAGAGTATATATTATATAT-TTTTGAAAAATGTTTTCA
1 -AAAACTATATATTATATATATTTT-CAAAATATTTT-A
* * * *
117700 AAAACTATATACTATATATATTTTCAAAATGTATTC
1 AAAACTATATATTATATATATTTTCAAAATATTTTA
** *
117736 AAAACTATATAACATATATATTTTCGAAAACCATTTTCTA
1 AAAACTATATATTATATATATTTTC-AAAA-TA-TTT-TA
*
117776 AAAATTATATATTATAT-T-TTTTCAAAA
1 AAAACTATATATTATATATATTTTCAAAA
117803 AACATTTTTA
Statistics
Matches: 351, Mismatches: 55, Indels: 53
0.76 0.12 0.12
Matches are distributed among these distances:
32 5 0.01
33 9 0.03
34 14 0.04
35 27 0.08
36 76 0.22
37 121 0.34
38 66 0.19
39 4 0.01
40 29 0.08
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.45
Consensus pattern (36 bp):
AAAACTATATATTATATATATTTTCAAAATATTTTA
Found at i:117716 original size:72 final size:74
Alignment explanation
Indices: 117447--117731 Score: 240
Period size: 73 Copynumber: 3.9 Consensus size: 74
117437 TTTAAATAAC
* * * * * *
117447 TATATATTATATAAGTTTTC-AAAATATTTTAAAAAACTATATATTATATATATTTTCAAAATAT
1 TATATAATATATATGTTTTCAAAAATATTTTCAAAAACTATATACTATATATATATTCAAAAT-G
* * * *
117511 TTTA-AAAAC
65 TTGAGGAGAG
* * * * * *
117520 TATATATTATATATATGTTTTAAAAAATGTTTT--AAAACTATATAATATATTTGTTTTCAAAAA
1 TATATA--ATATATATGTTTTCAAAAATATTTTCAAAAACTATATACTATATATATATTC-AAAA
**** * *
117583 TGTTTTCAAAAC
63 TGTTGAGGAGAG
* *
117595 TATATAATATATATGTTTTCAAAAATATTTTCAAAAGCTATATATTATATATATATT-AAAATGT
1 TATATAATATATATGTTTTCAAAAATATTTTCAAAAACTATATACTATATATATATTCAAAATGT
117659 TGAGGAGAG
66 TGAGGAGAG
* * * *
117668 TATATATTATATAT-TTTTGAAAAATGTTTTCAAAAACTATATACTATATATATTTTCAAAATGT
1 TATATAATATATATGTTTTCAAAAATATTTTCAAAAACTATATACTATATATATATTCAAAATGT
117732 ATTCAAAACT
Statistics
Matches: 176, Mismatches: 28, Indels: 16
0.80 0.13 0.07
Matches are distributed among these distances:
72 37 0.21
73 59 0.34
74 25 0.14
75 46 0.26
76 9 0.05
ACGTcount: A:0.44, C:0.05, G:0.06, T:0.45
Consensus pattern (74 bp):
TATATAATATATATGTTTTCAAAAATATTTTCAAAAACTATATACTATATATATATTCAAAATGT
TGAGGAGAG
Found at i:117798 original size:38 final size:35
Alignment explanation
Indices: 117750--117828 Score: 95
Period size: 38 Copynumber: 2.2 Consensus size: 35
117740 CTATATAACA
* * * *
117750 TATATATTTTCGAAAACCATTTTCTAAAAATTATATAT
1 TATATTTTTTCAAAAAACATTTT-TAAAAA--ATATAC
117788 TATATTTTTTCAAAAAACATTTTTAAAAAATATAC
1 TATATTTTTTCAAAAAACATTTTTAAAAAATATAC
117823 TATATT
1 TATATT
117829 ACTATAATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
35 11 0.30
37 6 0.16
38 20 0.54
ACGTcount: A:0.44, C:0.09, G:0.01, T:0.46
Consensus pattern (35 bp):
TATATTTTTTCAAAAAACATTTTTAAAAAATATAC
Found at i:118258 original size:26 final size:25
Alignment explanation
Indices: 118211--118265 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
118201 TCAGTATGAT
118211 TTTTAAAAAAAGAAATAGTTAGGTTA
1 TTTTAAAAAAAGAAATAGTTA-GTTA
118237 TTTT-AAAAAAGTAAACTA-TTAGTTA
1 TTTTAAAAAAAG-AAA-TAGTTAGTTA
118262 TTTT
1 TTTT
118266 CGTTTTAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 15 0.56
26 10 0.37
27 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.11, T:0.42
Consensus pattern (25 bp):
TTTTAAAAAAAGAAATAGTTAGTTA
Found at i:118600 original size:32 final size:30
Alignment explanation
Indices: 118564--118635 Score: 90
Period size: 32 Copynumber: 2.3 Consensus size: 30
118554 TAATTAAAAA
* *
118564 TAAATTAAATTAAATTCAAAAGTTAAGGTGAT
1 TAAATTAAAGT-AATTCAAAAGTTAA-GTAAT
*
118596 TAAATTAGAAGTAATTTAAAAGTTAAGTAAT
1 TAAATTA-AAGTAATTCAAAAGTTAAGTAAT
118627 TAAATTAAA
1 TAAATTAAA
118636 AAAAACTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 2 0.06
31 11 0.31
32 20 0.56
33 3 0.08
ACGTcount: A:0.53, C:0.01, G:0.11, T:0.35
Consensus pattern (30 bp):
TAAATTAAAGTAATTCAAAAGTTAAGTAAT
Found at i:128685 original size:492 final size:493
Alignment explanation
Indices: 127363--129218 Score: 2966
Period size: 492 Copynumber: 3.8 Consensus size: 493
127353 TCATATTACT
* *
127363 TGATTTCCAAATTCAGTAGCATGGTTTTCAGATGTAACTGAGACAATGGCAAATGAATCAGACCG
1 TGATTTCCAAATTCAGTAGCATGGTTTTCAGGTGTAACTGGGACAATGGCAAATGAATCAGACCG
* *
127428 AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAGAGGGAACATCAGTAGTTGGAGTAACTG
66 AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAGAGGGAACAGCAGTAGTTGGAGCAACTG
* *
127493 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGTGGATAAATGCAACAGGGTTCAATAGG
131 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
*
127558 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGCCACCAAAATAGCCTTTTATGTTTTAATTTAA
196 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
127623 AACTTTCACTAGTATGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
261 AACTTTCACTAGTATGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
127688 AATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
326 AATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
*
127753 TGGAACATGCTAAATATAGATGGCAACGGATTAAATAAAATATATATATTGAAGTCCACTAGGAT
391 TGGAACATGCTAAATATAGATGGCAACGGATTAACTAAAATATATATATTGAAGTCCACTAGGAT
127818 CAAAGAATCATATTACCTGATTTCCAAATTTACATGTCGG
456 CAAAGAATCATATTACC-GATTTCCAAATTTA-ATGTCGG
* * ** *
127858 CTGATTTCCAAATTTAGTAGTATGGTTTTCAGGTGTAACTGGGACAATGGCAACGGAATCAAACC
1 -TGATTTCCAAATTCAGTAGCATGGTTTTCAGGTGTAACTGGGACAATGGCAAATGAATCAGACC
* *
127923 GAACATCCAATAA----G--T-AGCATTGGTTGAAGCAGAGGGAACAGCAGTAGTTGGAACAACT
65 GAACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAGAGGGAACAGCAGTAGTTGGAGCAACT
*
127981 GTAACTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAG
130 GTAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAG
** * *
128046 GATT-CAATCTAAGTTAGTCAAAACTTAAATAAGTCACCAAAATATCCTTTTATGTTTTAATTTA
195 GATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTA
*
128110 AAACTTTCACTAGTATGAAACTAACAGCAAAAGGTTTGGC-CCCCTAAAAAGTAATATCCCCATT
260 AAACTTTCACTAGTATGAAACTAACAGCAAAAGGTTTAGCTCCCC-AAAAAGTAATATCCCCATT
* *
128174 TAAATGACTAACTATTTGGCAAGACTTTCTACCATGACCATCATCTTACAAACTTCATTTTTCAG
324 TAAATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAG
* *
128239 GTTTGAACATGCTAAATATAGATGGCAACGGATTAACT-AAA-ATACATATTGAAGTCCACTAGG
389 GTTGGAACATGCTAAATATAGATGGCAACGGATTAACTAAAATATATATATTGAAGTCCACTAGG
128302 ATCAAAGAATCATATTACCGGATTTCCAAATTTAAATGTCGGG
454 ATCAAAGAATCATATTACC-GATTTCCAAATTT-AATGTC-GG
*
128345 TGATTTCCAAATTCAGTAGCAAGGTTTTCAGGTGTAACTGGGACAATGGCAAATGAATCAGACCG
1 TGATTTCCAAATTCAGTAGCATGGTTTTCAGGTGTAACTGGGACAATGGCAAATGAATCAGACCG
128410 AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAGAGGGAACAGCAGTAGTTGGAGCAACTG
66 AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAGAGGGAACAGCAGTAGTTGGAGCAACTG
** *
128475 TAATAAATGAGAAATAGAAAGATTAGTTCCAGTTATA-GGGTTAAATGCAACAGGGTTCAACAGG
131 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
128539 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAG-CACCAAAATAGCCTTTTATGTTTTAATTTAA
196 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
*
128603 AACTTTCACTAGTATGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTAA
261 AACTTTCACTAGTATGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
*
128668 AATGATTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
326 AATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
* * **
128733 TGGAACATGCTAAATATAGATGGTAATGGATTAACTAAAATATATATATTGAAGTATACTAGGAT
391 TGGAACATGCTAAATATAGATGGCAACGGATTAACTAAAATATATATATTGAAGTCCACTAGGAT
128798 CAAAGAATCATATT----A----C-----------C--
456 CAAAGAATCATATTACCGATTTCCAAATTTAATGTCGG
*
128815 TGATTTCCAAATTCAGTAGCATGGTTTTCAGGTGTAACTGGGGCAATGGCAAATGAATCAGACCG
1 TGATTTCCAAATTCAGTAGCATGGTTTTCAGGTGTAACTGGGACAATGGCAAATGAATCAGACCG
* *
128880 AACATCCAGTAAGTTTGTTTCAGCATTGATTGAAG-A-A--G-A-A-CAGTATTTGGAGCAACTG
66 AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAGAGGGAACAGCAGTAGTTGGAGCAACTG
*
128938 TAATTGATGAGATATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
131 TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
129003 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
196 ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
*
129068 AACTTTCACTAGTATGAAACTAACAACAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
261 AACTTTCACTAGTATGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
* *
129133 AATGACTAACTATTTGGCAACACTTTCTACCATAACCGTCATCTTACAAACTTCTTTTTTCAGGT
326 AATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
*
129198 TGGAACATGCTATAACATAGA
391 TGGAACATGCTA-AATATAGA
129219 AATGAACAGC
Statistics
Matches: 1276, Mismatches: 67, Indels: 64
0.91 0.05 0.05
Matches are distributed among these distances:
463 51 0.04
464 60 0.05
465 169 0.13
466 8 0.01
468 1 0.00
469 1 0.00
470 97 0.08
473 1 0.00
485 1 0.00
486 128 0.10
487 10 0.01
488 212 0.17
489 107 0.08
490 2 0.00
492 214 0.17
493 110 0.09
494 35 0.03
496 69 0.05
ACGTcount: A:0.37, C:0.17, G:0.17, T:0.29
Consensus pattern (493 bp):
TGATTTCCAAATTCAGTAGCATGGTTTTCAGGTGTAACTGGGACAATGGCAAATGAATCAGACCG
AACATCCAGTAAGTTTGTTTCAGCATTGGTTGAAGCAGAGGGAACAGCAGTAGTTGGAGCAACTG
TAATTGATGAGAAATAGAAAGATTAGTTCCAGTTATAGGGGATAAATGCAACAGGGTTCAACAGG
ATTCCAATCTAAGTTCCTCAAAACTGAAATAAGTCACCAAAATAGCCTTTTATGTTTTAATTTAA
AACTTTCACTAGTATGAAACTAACAGCAAAAGGTTTAGCTCCCCAAAAAGTAATATCCCCATTTA
AATGACTAACTATTTGGCAAGACTTTCTACCATAACCATCATCTTACAAACTTCTTTTTTCAGGT
TGGAACATGCTAAATATAGATGGCAACGGATTAACTAAAATATATATATTGAAGTCCACTAGGAT
CAAAGAATCATATTACCGATTTCCAAATTTAATGTCGG
Found at i:130640 original size:41 final size:41
Alignment explanation
Indices: 130579--130660 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
130569 CATAAAATAT
130579 TTGCAAATTGTCTTTATTATCACAAGC-AAGAGCATTTTCTA
1 TTGCAAATTGTCTTTATTATCACAA-CTAAGAGCATTTTCTA
130620 TTGCAAATTGTC-TTAGTTATCACAACTAAGAGCATTTTCTA
1 TTGCAAATTGTCTTTA-TTATCACAACTAAGAGCATTTTCTA
130661 ACTCGATTTC
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
40 4 0.10
41 35 0.90
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.39
Consensus pattern (41 bp):
TTGCAAATTGTCTTTATTATCACAACTAAGAGCATTTTCTA
Found at i:132238 original size:332 final size:322
Alignment explanation
Indices: 131607--132261 Score: 1033
Period size: 332 Copynumber: 2.0 Consensus size: 322
131597 GGCACTGGAT
*
131607 CATAATCTTCGCTTCCGTTATCAATTTTAAGAGCAGATATGTCACAAATTCCAATATCATCTGCA
1 CATAATCTTCGCTTCCGTTATCAATTTAAAGAGCAGATATGTCACAAATTCCAATATCATCTGCA
131672 AAAGGATGCAACTCTTTTTCATCTCTCATGGAATTAGGATTTTGGTTTTTTAGATCAAGAAACAC
66 AAAGGATGCAACTCTTTTTCATCTCTCATGGAATTAGGATTTTGGTTTTTTAGATCAAGAAACAC
131737 ACCACCATATAGGCATGATTAGCTTGTAACAAAGAGGAAAATTGCTCAAAAATGAACCAGTGAGG
131 ACCACCATATAGGCATGATTAGCTTGTAACAAAGAGGAAAATTGCTCAAAAATGAACCAGTGAGG
* * * *
131802 GGGACGGCACAAATTCCCTTGATCAGGAAAATAGAAGTAGCAAATGTATCAGAAAGGGTCAGATT
196 GGGAAGGCACAAATTACCTTGATCAGAAAAATAGAAGCAGCAAATGTATCAGAAAGGGTCAGATT
*
131867 AGCTGACATGTAGTTATTTTCTTCATGTTCTTGGTCAGGGAAAGCTCAAGTATGCAGGTTAA
261 AGCTGACATGTAGTTATTTTCTTCATGTGCTTGGTCAGGGAAAGCTCAAGTATGCAGGTTAA
* * *
131929 CATAATCTTCGCTTCTGTTATCAATTTAAAGAGCGGATATGTCACAAATTCTAATATCATCTGCA
1 CATAATCTTCGCTTCCGTTATCAATTTAAAGAGCAGATATGTCACAAATTCCAATATCATCTGCA
* * * * *
131994 GAAGTATGCAATTCTTTTTCGTCTCTCATGGAATTAGGCTTTTGGTTTTTTAGATCAAGAAACAC
66 AAAGGATGCAACTCTTTTTCATCTCTCATGGAATTAGGATTTTGGTTTTTTAGATCAAGAAACAC
*
132059 ACCACCCCATATAGCAACAGAAGGCATGATTAGCTTGTAACAAAGAGG-AAATTGCTCAAAAGTG
131 ACCA--CCATAT---------AGGCATGATTAGCTTGTAACAAAGAGGAAAATTGCTCAAAAATG
*
132123 AACCAGTGAGGGGGAAGGCACTAATTACCTTGATCAGAAAAATAGAAGCAGCAAATGTATCAGAA
185 AACCAGTGAGGGGGAAGGCACAAATTACCTTGATCAGAAAAATAGAAGCAGCAAATGTATCAGAA
* * *
132188 AGGGTTAGGTTAGCTGACATGTAGTTATTTTCTTCATGTGCTTGGTCAGGGGAAGCTCAAGTATG
250 AGGGTCAGATTAGCTGACATGTAGTTATTTTCTTCATGTGCTTGGTCAGGGAAAGCTCAAGTATG
132253 CAGGTTAA
315 CAGGTTAA
132261 C
1 C
132262 CATTCCAGTG
Statistics
Matches: 303, Mismatches: 19, Indels: 12
0.91 0.06 0.04
Matches are distributed among these distances:
322 125 0.41
324 6 0.02
332 145 0.48
333 27 0.09
ACGTcount: A:0.33, C:0.17, G:0.21, T:0.29
Consensus pattern (322 bp):
CATAATCTTCGCTTCCGTTATCAATTTAAAGAGCAGATATGTCACAAATTCCAATATCATCTGCA
AAAGGATGCAACTCTTTTTCATCTCTCATGGAATTAGGATTTTGGTTTTTTAGATCAAGAAACAC
ACCACCATATAGGCATGATTAGCTTGTAACAAAGAGGAAAATTGCTCAAAAATGAACCAGTGAGG
GGGAAGGCACAAATTACCTTGATCAGAAAAATAGAAGCAGCAAATGTATCAGAAAGGGTCAGATT
AGCTGACATGTAGTTATTTTCTTCATGTGCTTGGTCAGGGAAAGCTCAAGTATGCAGGTTAA
Found at i:135302 original size:2 final size:2
Alignment explanation
Indices: 135295--135322 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
135285 TTGGCTGGTC
135295 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
135323 GAATGATACT
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:137761 original size:21 final size:22
Alignment explanation
Indices: 137714--137769 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
137704 ATAGAATAAT
*
137714 TTAA-ATTAATTTAATTTAAGA
1 TTAATATTAATATAATTTAAGA
*
137735 AT-ATATTAATATAATTTAA-A
1 TTAATATTAATATAATTTAAGA
137755 TTAATATTGAATATA
1 TTAATATT-AATATA
137770 TTACATACCA
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 3 0.10
21 20 0.69
22 6 0.21
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (22 bp):
TTAATATTAATATAATTTAAGA
Found at i:139759 original size:32 final size:30
Alignment explanation
Indices: 139723--139796 Score: 85
Period size: 32 Copynumber: 2.4 Consensus size: 30
139713 TATAATTAAA
* *
139723 ATTAAATTAAATTAAATTCAAAAGTTAAAGTG
1 ATTAAATTAAAGT-AATTCAAAAGTT-AAGTC
* *
139755 ATTAAATTAGAAGTAATTTAAAAGTTAATTC
1 ATTAAATTA-AAGTAATTCAAAAGTTAAGTC
139786 ATTAAATTAAA
1 ATTAAATTAAA
139797 AGAACTTTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 2 0.05
31 12 0.32
32 20 0.54
33 3 0.08
ACGTcount: A:0.53, C:0.03, G:0.08, T:0.36
Consensus pattern (30 bp):
ATTAAATTAAAGTAATTCAAAAGTTAAGTC
Found at i:142661 original size:11 final size:12
Alignment explanation
Indices: 142645--142673 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
142635 GACCTAAGTG
142645 AAATTTTGA-TT
1 AAATTTTGATTT
142656 AAATTTTGATTT
1 AAATTTTGATTT
142668 AAATTT
1 AAATTT
142674 AGAAAGTAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 9 0.53
12 8 0.47
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (12 bp):
AAATTTTGATTT
Found at i:144014 original size:39 final size:38
Alignment explanation
Indices: 143971--144127 Score: 152
Period size: 39 Copynumber: 4.0 Consensus size: 38
143961 ACCGCTTTCC
* *
143971 GCAGGCTCCTCGGCTTTGTGCTCACGGTAAGTCCTTACT
1 GCAGGCTCCTCGGCTTTATGCACA-GGTAAGTCCTTACT
* * * * *
144010 GCAGGCTCATCTGCTTTATGCACAGGATAAGACCTCAGT
1 GCAGGCTCCTCGGCTTTATGCACAGG-TAAGTCCTTACT
* * **
144049 GCAGGCTCCTCGACTTTGTGCTTAGGGTAAGTCCTTACT
1 GCAGGCTCCTCGGCTTTATGCACA-GGTAAGTCCTTACT
* * *
144088 ACAGGCTCCTCTGCTTTATGCACAAGGAAAGTCCTTACT
1 GCAGGCTCCTCGGCTTTATGCAC-AGGTAAGTCCTTACT
144127 G
1 G
144128 GTGTACATGT
Statistics
Matches: 91, Mismatches: 24, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
38 2 0.02
39 86 0.95
40 3 0.03
ACGTcount: A:0.20, C:0.27, G:0.24, T:0.29
Consensus pattern (38 bp):
GCAGGCTCCTCGGCTTTATGCACAGGTAAGTCCTTACT
Found at i:144425 original size:25 final size:26
Alignment explanation
Indices: 144392--144442 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
144382 TTTTATACGG
144392 TTTTTGCAGTATTT-A-ATATGTATA
1 TTTTTGCAGTATTTGATATATGTATA
*
144416 TTTTATGCAGTTTTTGATATATGTATA
1 TTTT-TGCAGTATTTGATATATGTATA
144443 CATATATGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
24 4 0.17
25 9 0.39
26 1 0.04
27 9 0.39
ACGTcount: A:0.27, C:0.04, G:0.14, T:0.55
Consensus pattern (26 bp):
TTTTTGCAGTATTTGATATATGTATA
Done.