Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002772.1 Hibiscus syriacus cultivar Beakdansim tig00005712_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: 622842
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 3
Found at i:428 original size:20 final size:20
Alignment explanation
Indices: 403--593 Score: 217
Period size: 20 Copynumber: 9.6 Consensus size: 20
393 CTTTAAATAT
403 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
423 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
445 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
464 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
484 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
504 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
524 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
544 CGCGTTGCGATTTA-TG-TT
1 CGCGTTGCGATTTACGGATA
* ** *
562 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
582 CGCGTTGCGATT
1 CGCGTTGCGATT
594 ATGGAAAATC
Statistics
Matches: 145, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
18 14 0.10
19 3 0.02
20 112 0.77
21 14 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:674 original size:20 final size:20
Alignment explanation
Indices: 649--700 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
639 AAGAATCGCG
*
649 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
669 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
689 TTGCGATTCTGG
1 TTGCGATTCTGG
701 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:1454 original size:18 final size:20
Alignment explanation
Indices: 1431--1469 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
1421 TTTTTATTTT
1431 TATTA-TTTTTAAT-AAAAA
1 TATTATTTTTTAATGAAAAA
1449 TATTATTTTTTAATGAAAAA
1 TATTATTTTTTAATGAAAAA
1469 T
1 T
1470 GAAAAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.26
19 8 0.42
20 6 0.32
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (20 bp):
TATTATTTTTTAATGAAAAA
Found at i:1650 original size:20 final size:20
Alignment explanation
Indices: 1625--1666 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
1615 TAAAATGTTT
1625 TTCAAGACAAAGTTCATACA
1 TTCAAGACAAAGTTCATACA
1645 TTCAAGACAAAGTTCATACA
1 TTCAAGACAAAGTTCATACA
1665 TT
1 TT
1667 TATTTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.19, G:0.10, T:0.29
Consensus pattern (20 bp):
TTCAAGACAAAGTTCATACA
Found at i:1963 original size:2 final size:2
Alignment explanation
Indices: 1956--1987 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
1946 AAATTTAAAA
*
1956 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1988 TAAAAAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2022 original size:18 final size:19
Alignment explanation
Indices: 1996--2031 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1986 ATTAAAAAGA
1996 AAACATAAAT-TTTGAAAT
1 AAACATAAATCTTTGAAAT
*
2014 AAACCTAAATCTTTGAAA
1 AAACATAAATCTTTGAAA
2032 ATCTTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.31
Consensus pattern (19 bp):
AAACATAAATCTTTGAAAT
Found at i:4100 original size:26 final size:27
Alignment explanation
Indices: 4044--4102 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
4034 TTATTTTTTT
* **
4044 AAAAAAAGAAGAAGAATAAAAAGGCTG
1 AAAAAAAGAAGAAAAATAAAAAGGCCC
4071 AAAAAAA-AAGAAAAATCAAAAA-GCCC
1 AAAAAAAGAAGAAAAAT-AAAAAGGCCC
4097 AAAAAA
1 AAAAAA
4103 GTCACAAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 16 0.57
27 12 0.43
ACGTcount: A:0.73, C:0.08, G:0.14, T:0.05
Consensus pattern (27 bp):
AAAAAAAGAAGAAAAATAAAAAGGCCC
Found at i:4120 original size:9 final size:9
Alignment explanation
Indices: 4108--4132 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
4098 AAAAAGTCAC
4108 AAAAATTGA
1 AAAAATTGA
4117 AAAAATTGA
1 AAAAATTGA
4126 AAAAATT
1 AAAAATT
4133 TCAAACGAAG
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:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (9 bp):
AAAAATTGA
Found at i:8592 original size:3 final size:3
Alignment explanation
Indices: 8584--8611 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
8574 TGATAAGTTA
8584 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG A
8612 GTAGGAGGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:10755 original size:23 final size:23
Alignment explanation
Indices: 10703--10758 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 23
10693 TACCCTCTAT
* *
10703 ATATTTTTT-TTCAATTAAATTA
1 ATATTTTTTATTCAATAAAAATA
* *
10725 TTA-TTTTTATTGAATAAAAATA
1 ATATTTTTTATTCAATAAAAATA
10747 ATATTTTTTATT
1 ATATTTTTTATT
10759 ATGGTCGGGT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
21 5 0.19
22 14 0.52
23 8 0.30
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (23 bp):
ATATTTTTTATTCAATAAAAATA
Found at i:11230 original size:44 final size:41
Alignment explanation
Indices: 11153--11234 Score: 119
Period size: 44 Copynumber: 1.9 Consensus size: 41
11143 GCAACGCAAT
* *
11153 TTTGAAAAATGTGTTGCGATAGTTAAAATGTGTTGCGAGAG
1 TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGAGAG
11194 TTTGAAAAACGTGTTGTTGCGATAGTGAAAAAGTGTTGCGA
1 TTTGAAAAA--TG-TGTTGCGATAGTGAAAAAGTGTTGCGA
11235 TAGTGAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
41 9 0.25
43 2 0.06
44 25 0.69
ACGTcount: A:0.32, C:0.06, G:0.29, T:0.33
Consensus pattern (41 bp):
TTTGAAAAATGTGTTGCGATAGTGAAAAAGTGTTGCGAGAG
Found at i:11244 original size:19 final size:20
Alignment explanation
Indices: 11155--11245 Score: 105
Period size: 19 Copynumber: 4.4 Consensus size: 20
11145 AACGCAATTT
11155 TGAAAAATGTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
* *
11175 T-TAAAATGTGTTGCGAGAG
1 TGAAAAATGTGTTGCGATAG
11194 TTTGAAAAACGTGTTGTTGCGATAG
1 --TGAAAAA--TG-TGTTGCGATAG
11219 TGAAAAA-GTGTTGCGATAG
1 TGAAAAATGTGTTGCGATAG
11238 TGAAAAAT
1 TGAAAAAT
11246 CCAAAATAAG
Statistics
Matches: 60, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
19 34 0.57
20 2 0.03
21 1 0.02
22 4 0.07
23 7 0.12
24 2 0.03
25 10 0.17
ACGTcount: A:0.35, C:0.05, G:0.29, T:0.31
Consensus pattern (20 bp):
TGAAAAATGTGTTGCGATAG
Found at i:11595 original size:19 final size:20
Alignment explanation
Indices: 11557--11597 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 20
11547 TTCTTAAGAA
11557 ATCGCAACGTGAACTTGGACT
1 ATCGCAACG-GAACTTGGACT
*
11578 ATCGCAAC-GAATTTGGACT
1 ATCGCAACGGAACTTGGACT
11597 A
1 A
11598 ACGTAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 11 0.58
21 8 0.42
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (20 bp):
ATCGCAACGGAACTTGGACT
Found at i:11637 original size:20 final size:20
Alignment explanation
Indices: 11612--11704 Score: 107
Period size: 20 Copynumber: 4.7 Consensus size: 20
11602 AAATTTGGAA
11612 AATCGCATTGCGATAGTCAG
1 AATCGCATTGCGATAGTCAG
* *
11632 AATCGCGTTGCAATAGTCAG
1 AATCGCATTGCGATAGTCAG
* * *
11652 AATCGCGTTGCGAT-TTACAT
1 AATCGCATTGCGATAGT-CAG
* *
11672 ATTCGCATTGCGATAGTCAA
1 AATCGCATTGCGATAGTCAG
11692 AATCGCATTGCGA
1 AATCGCATTGCGA
11705 ATCTGGAAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
19 1 0.02
20 59 0.97
21 1 0.02
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (20 bp):
AATCGCATTGCGATAGTCAG
Found at i:13231 original size:18 final size:18
Alignment explanation
Indices: 13187--13221 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
13177 CTTTGATTGT
13187 CCGTTGACTGTTGACCGA
1 CCGTTGACTGTTGACCGA
13205 CCGTTGACTGTTGACCG
1 CCGTTGACTGTTGACCG
13222 GGTGTTGACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.14, C:0.29, G:0.29, T:0.29
Consensus pattern (18 bp):
CCGTTGACTGTTGACCGA
Found at i:15980 original size:5 final size:5
Alignment explanation
Indices: 15970--15994 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
15960 CTATAGGACT
15970 AAATA AAATA AAATA AAATA AAATA
1 AAATA AAATA AAATA AAATA AAATA
15995 TTAAGGGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:16966 original size:27 final size:27
Alignment explanation
Indices: 16917--16968 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
16907 TAAAACTAAA
* *
16917 ATTTTATTTAAAATTTATGATAAAAAT
1 ATTTTATCTAAAATTTAAGATAAAAAT
16944 ATTTTATCTAAAA-TTAAGAATAAAA
1 ATTTTATCTAAAATTTAAG-ATAAAA
16969 TTTAAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (27 bp):
ATTTTATCTAAAATTTAAGATAAAAAT
Found at i:23927 original size:2 final size:2
Alignment explanation
Indices: 23920--23944 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23910 GATATTTTTA
23920 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
23945 ATGTAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:48674 original size:4 final size:4
Alignment explanation
Indices: 48665--48690 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
48655 AACCGGGAAT
48665 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
48691 ATCATAAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:50232 original size:55 final size:55
Alignment explanation
Indices: 50148--50257 Score: 220
Period size: 55 Copynumber: 2.0 Consensus size: 55
50138 AATGTATTCA
50148 ATGAATATTTACAGATGAAATGATAAAAAAATTATTATTATCTTTATTATATTTT
1 ATGAATATTTACAGATGAAATGATAAAAAAATTATTATTATCTTTATTATATTTT
50203 ATGAATATTTACAGATGAAATGATAAAAAAATTATTATTATCTTTATTATATTTT
1 ATGAATATTTACAGATGAAATGATAAAAAAATTATTATTATCTTTATTATATTTT
50258 TTGTTATTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.44, C:0.04, G:0.07, T:0.45
Consensus pattern (55 bp):
ATGAATATTTACAGATGAAATGATAAAAAAATTATTATTATCTTTATTATATTTT
Found at i:50831 original size:2 final size:2
Alignment explanation
Indices: 50819--50918 Score: 79
Period size: 2 Copynumber: 53.5 Consensus size: 2
50809 CCCCAGAAAT
* *
50819 TA TA AA TA TA TA TA TA TA TA T- TA TA TA TA TA TT TA TA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * *
50859 AA AA TA T- TA -A AA TA -A TA TA TA T- TA TA TA TT TA TA CA AA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
50897 TA TA -A TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA T
50919 TAAATTATTT
Statistics
Matches: 80, Mismatches: 11, Indels: 14
0.76 0.10 0.13
Matches are distributed among these distances:
1 7 0.09
2 73 0.91
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:55778 original size:12 final size:12
Alignment explanation
Indices: 55761--55793 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
55751 TCGTGCGATT
55761 TTTTGTTATAAA
1 TTTTGTTATAAA
55773 TTTTGTTAT-AA
1 TTTTGTTATAAA
*
55784 TTTTTTTATA
1 TTTTGTTATA
55794 CTTATTGTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (12 bp):
TTTTGTTATAAA
Found at i:59620 original size:18 final size:18
Alignment explanation
Indices: 59597--59631 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
59587 AAGGCAGCGG
*
59597 CATCATATATGGCTGCGA
1 CATCATAAATGGCTGCGA
59615 CATCATAAATGGCTGCG
1 CATCATAAATGGCTGCG
59632 GTGGCTGCTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.26
Consensus pattern (18 bp):
CATCATAAATGGCTGCGA
Found at i:61332 original size:17 final size:18
Alignment explanation
Indices: 61312--61352 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
61302 AAATTATATT
61312 AGTAAAAT-ATTAAATAA
1 AGTAAAATGATTAAATAA
*
61329 AGTAAAATGCTTAAATAA
1 AGTAAAATGATTAAATAA
*
61347 ATTAAA
1 AGTAAA
61353 TACATAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (18 bp):
AGTAAAATGATTAAATAA
Found at i:68013 original size:22 final size:23
Alignment explanation
Indices: 67983--68029 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
67973 AAAATATATT
67983 TATTAATATTTCTAATAATATAA
1 TATTAATATTTCTAATAATATAA
* *
68006 TATT-ATATTTTTAATATTATAA
1 TATTAATATTTCTAATAATATAA
68028 TA
1 TA
68030 AAATAATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 18 0.82
23 4 0.18
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAATATTTCTAATAATATAA
Found at i:68043 original size:32 final size:32
Alignment explanation
Indices: 67977--68056 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
67967 ATATTAAAAA
* *
67977 TATATTTATTAATATTTCTAATAATATAATAT
1 TATATTTATTAATATTTATAATAAAATAATAT
68009 TATATTT-TTAATA-TTATAATAAAATAATCAAT
1 TATATTTATTAATATTTATAATAAAATAAT--AT
*
68041 TATATTATAATAATAT
1 TATATT-TATTAATAT
68057 AAGATATTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
30 13 0.32
31 6 0.15
32 15 0.38
33 1 0.03
34 5 0.12
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (32 bp):
TATATTTATTAATATTTATAATAAAATAATAT
Found at i:68235 original size:23 final size:23
Alignment explanation
Indices: 68209--68253 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
68199 AATAATATTT
68209 TAATAAAGATATTTAAAATATAC
1 TAATAAAGATATTTAAAATATAC
* * *
68232 TAATTAATATTTTTAAAATATA
1 TAATAAAGATATTTAAAATATA
68254 ATATAACACT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATAAAGATATTTAAAATATAC
Found at i:73990 original size:14 final size:14
Alignment explanation
Indices: 73971--74015 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
73961 AGGAAATGAT
73971 GAAGTATGGTAATG
1 GAAGTATGGTAATG
73985 GAAGTA-GG--AT-
1 GAAGTATGGTAATG
73995 GAAGTATGGTAATG
1 GAAGTATGGTAATG
74009 GAAGTAT
1 GAAGTAT
74016 AATGAAGGTG
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
10 6 0.22
11 4 0.15
13 4 0.15
14 13 0.48
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.27
Consensus pattern (14 bp):
GAAGTATGGTAATG
Found at i:73995 original size:24 final size:24
Alignment explanation
Indices: 73968--74014 Score: 94
Period size: 24 Copynumber: 2.0 Consensus size: 24
73958 TAAAGGAAAT
73968 GATGAAGTATGGTAATGGAAGTAG
1 GATGAAGTATGGTAATGGAAGTAG
73992 GATGAAGTATGGTAATGGAAGTA
1 GATGAAGTATGGTAATGGAAGTA
74015 TAATGAAGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.00, G:0.36, T:0.26
Consensus pattern (24 bp):
GATGAAGTATGGTAATGGAAGTAG
Found at i:74020 original size:24 final size:24
Alignment explanation
Indices: 73969--74022 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
73959 AAAGGAAATG
*
73969 ATGAAGTATGGTAATGGAAGTAGG
1 ATGAAGTATGGTAATGGAAGTAGA
*
73993 ATGAAGTATGGTAATGGAAGTATA
1 ATGAAGTATGGTAATGGAAGTAGA
74017 ATGAAG
1 ATGAAG
74023 GTGATGGATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.33, T:0.26
Consensus pattern (24 bp):
ATGAAGTATGGTAATGGAAGTAGA
Found at i:88337 original size:17 final size:18
Alignment explanation
Indices: 88299--88334 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
88289 TTCATACTAA
88299 AAAAAAATCGTCATGTTTT
1 AAAAAAATCGTCATG-TTT
88318 AAAAAAATCGTCATGTT
1 AAAAAAATCGTCATGTT
88335 AAATAATATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 2 0.12
19 15 0.88
ACGTcount: A:0.44, C:0.11, G:0.11, T:0.33
Consensus pattern (18 bp):
AAAAAAATCGTCATGTTT
Found at i:91437 original size:18 final size:16
Alignment explanation
Indices: 91414--91462 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
91404 GTTTCTGAGA
91414 GAATTAAAATCTATGAAG
1 GAATTAAAATC--TGAAG
*
91432 GAATTAGAATCTGAAG
1 GAATTAAAATCTGAAG
**
91448 GAATTGGAATCTGAA
1 GAATTAAAATCTGAA
91463 TCTAAAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 19 0.66
18 10 0.34
ACGTcount: A:0.45, C:0.06, G:0.22, T:0.27
Consensus pattern (16 bp):
GAATTAAAATCTGAAG
Found at i:91448 original size:16 final size:16
Alignment explanation
Indices: 91427--91462 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
91417 TTAAAATCTA
91427 TGAAGGAATTAGAATC
1 TGAAGGAATTAGAATC
*
91443 TGAAGGAATTGGAATC
1 TGAAGGAATTAGAATC
91459 TGAA
1 TGAA
91463 TCTAAAACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.42, C:0.06, G:0.28, T:0.25
Consensus pattern (16 bp):
TGAAGGAATTAGAATC
Found at i:92135 original size:27 final size:28
Alignment explanation
Indices: 92097--92162 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 28
92087 TAAAAAAATG
*
92097 ACCCGACCCGAATAGCACACTT-AAAAA
1 ACCCGACCCGAATAGCAAACTTAAAAAA
*
92124 ACCCGACCCGAATATCAAACTTAAAAAA
1 ACCCGACCCGAATAGCAAACTTAAAAAA
*
92152 ACCTGACCCGA
1 ACCCGACCCGA
92163 CGCCGATTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
27 20 0.57
28 15 0.43
ACGTcount: A:0.44, C:0.33, G:0.11, T:0.12
Consensus pattern (28 bp):
ACCCGACCCGAATAGCAAACTTAAAAAA
Found at i:95739 original size:29 final size:28
Alignment explanation
Indices: 95695--95756 Score: 97
Period size: 29 Copynumber: 2.2 Consensus size: 28
95685 AAAAAAATTG
*
95695 AATATTTTAAGTACCTATTTTGACTAAA
1 AATATTTTAAGCACCTATTTTGACTAAA
*
95723 TAATATTTTAGGCACCTATTTTGACTAAA
1 -AATATTTTAAGCACCTATTTTGACTAAA
95752 AATAT
1 AATAT
95757 AACTTTTAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 5 0.16
29 26 0.84
ACGTcount: A:0.39, C:0.11, G:0.08, T:0.42
Consensus pattern (28 bp):
AATATTTTAAGCACCTATTTTGACTAAA
Found at i:95960 original size:14 final size:14
Alignment explanation
Indices: 95936--95980 Score: 63
Period size: 14 Copynumber: 3.1 Consensus size: 14
95926 TATAAAAGTA
*
95936 TATACTTTATTTTT
1 TATAATTTATTTTT
*
95950 TTTAATTTATTTTT
1 TATAATTTATTTTT
95964 ATATAATTTATTTTT
1 -TATAATTTATTTTT
95979 TA
1 TA
95981 AAATCATGAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 14 0.52
15 13 0.48
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (14 bp):
TATAATTTATTTTT
Found at i:95970 original size:15 final size:15
Alignment explanation
Indices: 95934--95978 Score: 65
Period size: 15 Copynumber: 3.1 Consensus size: 15
95924 TTTATAAAAG
*
95934 TATATACTTTATTTT
1 TATATAATTTATTTT
*
95949 T-TTTAATTTATTTT
1 TATATAATTTATTTT
95963 TATATAATTTATTTT
1 TATATAATTTATTTT
95978 T
1 T
95979 TAAAATCATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 12 0.46
15 14 0.54
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (15 bp):
TATATAATTTATTTT
Found at i:97328 original size:22 final size:23
Alignment explanation
Indices: 97277--97330 Score: 83
Period size: 22 Copynumber: 2.4 Consensus size: 23
97267 TTTTTTTTAA
97277 TTTTTTTAAAAATACTTTTAGGG
1 TTTTTTTAAAAATACTTTTAGGG
* *
97300 ATTTTTT-GAAATACTTTTAGGG
1 TTTTTTTAAAAATACTTTTAGGG
97322 TTTTTTTAA
1 TTTTTTTAA
97331 TATAAAAACA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.28, C:0.04, G:0.13, T:0.56
Consensus pattern (23 bp):
TTTTTTTAAAAATACTTTTAGGG
Found at i:100784 original size:18 final size:18
Alignment explanation
Indices: 100763--100799 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
100753 GGGATAGTTG
100763 GAGGCAACATGCCACCTA
1 GAGGCAACATGCCACCTA
100781 GAGGCAACATGCCACCTA
1 GAGGCAACATGCCACCTA
100799 G
1 G
100800 GCGACCTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.24, T:0.11
Consensus pattern (18 bp):
GAGGCAACATGCCACCTA
Found at i:101023 original size:15 final size:15
Alignment explanation
Indices: 101005--101054 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
100995 AAGGCTGCAA
101005 CATCACAAGCATCAT
1 CATCACAAGCATCAT
*
101020 CATCACAAGC-TGCAA
1 CATCACAAGCAT-CAT
*
101035 CATCACAAGCACCAT
1 CATCACAAGCATCAT
101050 CATCA
1 CATCA
101055 TCACAAGCTG
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 1 0.03
15 29 0.97
ACGTcount: A:0.40, C:0.36, G:0.08, T:0.16
Consensus pattern (15 bp):
CATCACAAGCATCAT
Found at i:101032 original size:30 final size:31
Alignment explanation
Indices: 100998--101064 Score: 109
Period size: 33 Copynumber: 2.1 Consensus size: 31
100988 ACTATCAAAG
100998 GCTGCAACATCACAAG-CATCATCATCACAA
1 GCTGCAACATCACAAGCCATCATCATCACAA
101028 GCTGCAACATCACAAGCACCATCATCATCACAA
1 GCTGCAACATCACAAG--CCATCATCATCACAA
101061 GCTG
1 GCTG
101065 AGCCTCCATT
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
30 16 0.47
33 18 0.53
ACGTcount: A:0.37, C:0.34, G:0.12, T:0.16
Consensus pattern (31 bp):
GCTGCAACATCACAAGCCATCATCATCACAA
Found at i:101056 original size:18 final size:18
Alignment explanation
Indices: 101014--101062 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 18
101004 ACATCACAAG
**
101014 CATCATCATCACAAGCTG
1 CATCATCATCACAAGCAC
101032 CA--A-CATCACAAGCAC
1 CATCATCATCACAAGCAC
101047 CATCATCATCACAAGC
1 CATCATCATCACAAGC
101063 TGAGCCTCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 12 0.46
16 1 0.04
17 1 0.04
18 12 0.46
ACGTcount: A:0.39, C:0.37, G:0.08, T:0.16
Consensus pattern (18 bp):
CATCATCATCACAAGCAC
Found at i:105147 original size:96 final size:96
Alignment explanation
Indices: 104980--105173 Score: 273
Period size: 96 Copynumber: 2.0 Consensus size: 96
104970 TCTGCCCAGG
* * *
104980 ATTACTCAAACCAGGAAATGAAACTCTTCCTACTTCAGACCCAAGTTGTCTTTCTTCAGCACCAA
1 ATTACTCAAACCAGGAAACGAAACTCTTCCTACTTCAGACCCAACTGGTCTTTCTTCAGCACCAA
* *
105045 GTGAAGGCAAATCATGTTCGAAA-GCAAATTT
66 GCGAAGGAAAATCATGTTC-AAATGCAAATTT
* * * * *
105076 ATTACTCAAGCCAGGAGACGAAATTCTTCCTATTTCAGACCCCACTGGTCTTTCTTCAGCACCAA
1 ATTACTCAAACCAGGAAACGAAACTCTTCCTACTTCAGACCCAACTGGTCTTTCTTCAGCACCAA
*
105141 GCGAAGGAAAATCATGTTCAAATGCAGATTT
66 GCGAAGGAAAATCATGTTCAAATGCAAATTT
105172 AT
1 AT
105174 CATGGATAGC
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
95 3 0.03
96 83 0.97
ACGTcount: A:0.33, C:0.24, G:0.15, T:0.27
Consensus pattern (96 bp):
ATTACTCAAACCAGGAAACGAAACTCTTCCTACTTCAGACCCAACTGGTCTTTCTTCAGCACCAA
GCGAAGGAAAATCATGTTCAAATGCAAATTT
Found at i:107804 original size:40 final size:40
Alignment explanation
Indices: 107746--107877 Score: 187
Period size: 40 Copynumber: 3.3 Consensus size: 40
107736 GTTTCCAGAT
*
107746 TCGCAATGTGA-TACGTAAATCGTAATGCGAATACGTAAA
1 TCGCAATGCGATTACGTAAATCGTAATGCGAATACGTAAA
*
107785 TCGCAATGCGATTACGTAAATCGTAATACGAATACGTAAA
1 TCGCAATGCGATTACGTAAATCGTAATGCGAATACGTAAA
* * * *
107825 TCGCAATGCGAATACGTAAATCGCAATGCGAATATG-ACTA
1 TCGCAATGCGATTACGTAAATCGTAATGCGAATACGTA-AA
107865 TCGCAATGCGATT
1 TCGCAATGCGATT
107878 TATATCGTCA
Statistics
Matches: 83, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
39 11 0.13
40 72 0.87
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (40 bp):
TCGCAATGCGATTACGTAAATCGTAATGCGAATACGTAAA
Found at i:107875 original size:20 final size:20
Alignment explanation
Indices: 107746--107858 Score: 174
Period size: 20 Copynumber: 5.7 Consensus size: 20
107736 GTTTCCAGAT
*
107746 TCGCAATGTG-ATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
107765 TCGTAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
*
107785 TCGCAATGCGATTACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
107805 TCGTAATACGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
107825 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
107845 TCGCAATGCGAATA
1 TCGCAATGCGAATA
107859 TGACTATCGC
Statistics
Matches: 84, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
19 8 0.10
20 76 0.90
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:108460 original size:19 final size:20
Alignment explanation
Indices: 108438--108485 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
108428 CAACGAGTGA
108438 ATCGCAACGC-AAAATGACT
1 ATCGCAACGCGAAAATGACT
* **
108457 ATCGCAATGCGAATTTGACT
1 ATCGCAACGCGAAAATGACT
108477 ATCGCAACG
1 ATCGCAACG
108486 AGAGAATCGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 9 0.38
20 15 0.62
ACGTcount: A:0.35, C:0.25, G:0.19, T:0.21
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:110409 original size:20 final size:20
Alignment explanation
Indices: 110384--110467 Score: 108
Period size: 20 Copynumber: 4.5 Consensus size: 20
110374 AGAATAGTTT
110384 ACTATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
110404 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
110424 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
110440 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
110458 ACTATCGCAA
1 ACTATCGCAA
110468 CGAAAGAATC
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
14 7 0.13
16 4 0.07
17 4 0.07
18 4 0.07
20 36 0.65
ACGTcount: A:0.40, C:0.23, G:0.20, T:0.17
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:110453 original size:34 final size:34
Alignment explanation
Indices: 110407--110486 Score: 133
Period size: 34 Copynumber: 2.4 Consensus size: 34
110397 GAAAATGACT
* *
110407 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
110441 ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
1 ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
*
110475 ATCGCATTGCGA
1 ATCGCAATGCGA
110487 TAGTCATTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.40, C:0.23, G:0.23, T:0.15
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGACTATCGCAACGAAAGA
Found at i:110530 original size:19 final size:20
Alignment explanation
Indices: 110476--110545 Score: 117
Period size: 20 Copynumber: 3.6 Consensus size: 20
110466 AACGAAAGAA
110476 TCGCATTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTT
110496 TCGCATTGCGATAGTCATTT
1 TCGCATTGCGATAGTCATTT
110516 TCGCATTGC-ATAGTCATTT
1 TCGCATTGCGATAGTCATTT
*
110535 T-GCGTTGCGAT
1 TCGCATTGCGAT
110546 TTTAAGTTTC
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
18 6 0.12
19 13 0.27
20 29 0.60
ACGTcount: A:0.19, C:0.20, G:0.21, T:0.40
Consensus pattern (20 bp):
TCGCATTGCGATAGTCATTT
Found at i:111103 original size:41 final size:41
Alignment explanation
Indices: 111033--111112 Score: 99
Period size: 41 Copynumber: 2.0 Consensus size: 41
111023 GCCTCCCTAT
*
111033 GTTCAAGAGGCCCCTATCATCCCTCAAGA-GTCCCCTCCCCC
1 GTTCAAGAGGCCACTATCATCCCTCAAGAGGT-CCCTCCCCC
* ** *
111074 GTTCAAGAGGCCACTGTCATCGTTGAAGAGGTCCCTCCC
1 GTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCC
111113 AACATTCTAG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
41 31 0.94
42 2 0.06
ACGTcount: A:0.20, C:0.39, G:0.20, T:0.21
Consensus pattern (41 bp):
GTTCAAGAGGCCACTATCATCCCTCAAGAGGTCCCTCCCCC
Found at i:112113 original size:291 final size:293
Alignment explanation
Indices: 111586--112172 Score: 1142
Period size: 291 Copynumber: 2.0 Consensus size: 293
111576 AAAAAAACGC
*
111586 GACATACAATTATGCGATGTCTTTTCACGTAGTTCACTTGAAGAATCAACGACAGGAATCATATG
1 GACATACAATTATGCGACGTCTTTTCACGTAGTTCACTTGAAGAATCAACGACAGGAA-CATATG
111651 TGTTGGCTAATGGACAAGCTAAACTTTATCCTGCATGGTGGAGGTCGATAAGGTTAGTATATTTG
65 TGTTGGCTAATGGACAAGCTAAACTTTATCCTGCATGGTGGAGGTCGATAAGGTTAGTATATTTG
111716 TTTAAATATTTTAAGGGTGTATAATAAGTGCGCAATTTGAATTATTACATTTCGATGCAGGTGTT
130 TTTAAATATTTTAAGGGTGTATAATAAGTGCGCAATTTGAATTATTACATTTCGATGCAGGTGTT
111781 TATCCTTGTTTTGGACCGTACTCATTGGCTTCTCGTCGAGCTTCAGCTCCCATCCCTAAAGACAA
195 TATCCTTGTTTTGGACCGTACTCATTGGCTTCTCGTCGAGCTTCAGCTCCCATCCCTAAAGACAA
111846 TAGTATATGCCATGATAAACTACATATCATGTCT
260 TAGTATATGCCATGATAAACTACATATCATGTCT
111880 GACATACAATTATGCGACGTCTTTTCACGTAGTTCACTTGAAGAATCAACGACAGG-A-ATATGT
1 GACATACAATTATGCGACGTCTTTTCACGTAGTTCACTTGAAGAATCAACGACAGGAACATATGT
111943 GTTGGCTAATGGACAAGCTAAACTTTATCCTGCATGGTGGAGGTCGATAAGGTTAGTATATTTGT
66 GTTGGCTAATGGACAAGCTAAACTTTATCCTGCATGGTGGAGGTCGATAAGGTTAGTATATTTGT
112008 TTAAATATTTTAAGGGTGTATAATAAGTGCGCAATTTGAATTATTACATTTCGATGCAGGTGTTT
131 TTAAATATTTTAAGGGTGTATAATAAGTGCGCAATTTGAATTATTACATTTCGATGCAGGTGTTT
112073 ATCCTTGTTTTGGACCGTACTCATTGGCTTCTCGTCGAGCTTCAGCTCCCATCCCTAAAGACAAT
196 ATCCTTGTTTTGGACCGTACTCATTGGCTTCTCGTCGAGCTTCAGCTCCCATCCCTAAAGACAAT
112138 AGTATATGCCATGATAAACTACATATCATGTCT
261 AGTATATGCCATGATAAACTACATATCATGTCT
112171 GA
1 GA
112173 TTTGAGAGAT
Statistics
Matches: 292, Mismatches: 1, Indels: 3
0.99 0.00 0.01
Matches are distributed among these distances:
291 236 0.81
293 1 0.00
294 55 0.19
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (293 bp):
GACATACAATTATGCGACGTCTTTTCACGTAGTTCACTTGAAGAATCAACGACAGGAACATATGT
GTTGGCTAATGGACAAGCTAAACTTTATCCTGCATGGTGGAGGTCGATAAGGTTAGTATATTTGT
TTAAATATTTTAAGGGTGTATAATAAGTGCGCAATTTGAATTATTACATTTCGATGCAGGTGTTT
ATCCTTGTTTTGGACCGTACTCATTGGCTTCTCGTCGAGCTTCAGCTCCCATCCCTAAAGACAAT
AGTATATGCCATGATAAACTACATATCATGTCT
Found at i:112916 original size:19 final size:18
Alignment explanation
Indices: 112889--112953 Score: 66
Period size: 19 Copynumber: 3.7 Consensus size: 18
112879 GAAATGACTA
*
112889 TCGCGTTGCGATTTCATTT
1 TCGCATTGCGATTTCA-TT
*
112908 TCGCATTGCGA-TTCA-C
1 TCGCATTGCGATTTCATT
112924 TCG--TTGCGATTTTCATT
1 TCGCATTGCGA-TTTCATT
112941 TCGCATTGCGATT
1 TCGCATTGCGATT
112954 CTCTCGTTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 11
0.73 0.06 0.21
Matches are distributed among these distances:
14 6 0.16
16 7 0.18
17 3 0.08
18 6 0.16
19 16 0.42
ACGTcount: A:0.14, C:0.23, G:0.20, T:0.43
Consensus pattern (18 bp):
TCGCATTGCGATTTCATT
Found at i:112985 original size:20 final size:20
Alignment explanation
Indices: 112958--113032 Score: 107
Period size: 20 Copynumber: 3.8 Consensus size: 20
112948 GCGATTCTCT
112958 CGTTGCGATAGTCAATTCCG
1 CGTTGCGATAGTCAATTCCG
* *
112978 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCAATTCCG
*
112998 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCA-ATTCCG
113018 CGTTGCGATAGTCAA
1 CGTTGCGATAGTCAA
113033 ATGAATGTCT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
19 1 0.02
20 45 0.94
21 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.33
Consensus pattern (20 bp):
CGTTGCGATAGTCAATTCCG
Found at i:112985 original size:34 final size:33
Alignment explanation
Indices: 112892--112986 Score: 129
Period size: 33 Copynumber: 2.8 Consensus size: 33
112882 ATGACTATCG
*
112892 CGTTGCGATTTCATTTTCGCATTGCGATTCACT
1 CGTTGCGATTTCAATTTCGCATTGCGATTCACT
*
112925 CGTTGCGATTTTC-ATTTCGCATTGCGATTCTCT
1 CGTTGCGA-TTTCAATTTCGCATTGCGATTCACT
* *
112958 CGTTGCGATAGTCAATTCCGCATTGCGAT
1 CGTTGCGAT-TTCAATTTCGCATTGCGAT
112987 AGTCATTTCC
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
32 1 0.02
33 36 0.65
34 18 0.33
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (33 bp):
CGTTGCGATTTCAATTTCGCATTGCGATTCACT
Found at i:115452 original size:24 final size:24
Alignment explanation
Indices: 115418--115471 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
115408 CTGAAAAATC
115418 ATCAAAATCCGAGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
* *
115442 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
115466 ATCAAA
1 ATCAAA
115472 TTCGAATACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.41, C:0.20, G:0.19, T:0.20
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:118286 original size:25 final size:25
Alignment explanation
Indices: 118236--118289 Score: 65
Period size: 25 Copynumber: 2.2 Consensus size: 25
118226 ACAACGATCT
** *
118236 AATTAATTTGATTTGTAATTATATA
1 AATTAATTTGATTTGTAAAAAAATA
118261 AATTCAATTTGATTT-TAAAAAAATA
1 AATT-AATTTGATTTGTAAAAAAATA
118286 AATT
1 AATT
118290 TGAGTTAAGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (25 bp):
AATTAATTTGATTTGTAAAAAAATA
Found at i:129212 original size:24 final size:24
Alignment explanation
Indices: 129180--129225 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
129170 CAATTGCTCC
129180 TGCTTCCTCGTCTCTCTTCTTCGA
1 TGCTTCCTCGTCTCTCTTCTTCGA
*
129204 TGCTTCCTCTTCTCTCTTCTTC
1 TGCTTCCTCGTCTCTCTTCTTC
129226 TTCTACCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.02, C:0.39, G:0.09, T:0.50
Consensus pattern (24 bp):
TGCTTCCTCGTCTCTCTTCTTCGA
Found at i:134329 original size:24 final size:24
Alignment explanation
Indices: 134297--134342 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
134287 CAATTGCTCC
134297 TGCTTCCTCGTCTCTCTTCTTCGA
1 TGCTTCCTCGTCTCTCTTCTTCGA
*
134321 TGCTTCCTCTTCTCTCTTCTTC
1 TGCTTCCTCGTCTCTCTTCTTC
134343 TTCTACCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.02, C:0.39, G:0.09, T:0.50
Consensus pattern (24 bp):
TGCTTCCTCGTCTCTCTTCTTCGA
Found at i:136290 original size:25 final size:25
Alignment explanation
Indices: 136245--136294 Score: 84
Period size: 24 Copynumber: 2.0 Consensus size: 25
136235 GACATTTAAT
136245 AGAAGAAAACGTACTATAAAAATAA
1 AGAAGAAAACGTACTATAAAAATAA
*
136270 AGAA-AAAACGTATTATAAAAATAA
1 AGAAGAAAACGTACTATAAAAATAA
136294 A
1 A
136295 ATTATTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.66, C:0.06, G:0.10, T:0.18
Consensus pattern (25 bp):
AGAAGAAAACGTACTATAAAAATAA
Found at i:136839 original size:15 final size:16
Alignment explanation
Indices: 136819--136859 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
136809 TATTACTTCA
*
136819 GAATGATT-AAGCGCT
1 GAATGATTCAAACGCT
*
136834 GAATGATTCAAATGCT
1 GAATGATTCAAACGCT
136850 GAATGATTCA
1 GAATGATTCA
136860 GAGACTCTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.12, G:0.22, T:0.29
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:142746 original size:22 final size:22
Alignment explanation
Indices: 142721--142765 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
142711 TTTTATGGGT
*
142721 AAATTAAATTAATCATCATTCA
1 AAATTAAATTAATCATCACTCA
142743 AAATTAAATTAATCATCACTCA
1 AAATTAAATTAATCATCACTCA
142765 A
1 A
142766 CTATCTTCTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.51, C:0.16, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATTAAATTAATCATCACTCA
Found at i:143544 original size:103 final size:103
Alignment explanation
Indices: 143365--143571 Score: 387
Period size: 103 Copynumber: 2.0 Consensus size: 103
143355 ACAGTTTTGA
143365 AGCACGATCGATAACACGAAGTCCATTACCGAGAAATACACAAGTTTTCAAACTAGAAAAGACTA
1 AGCACGATCGATAACACGAAGTCCATTACCGAGAAATACACAAGTTTTCAAACTAGAAAAGACTA
143430 CGAGAAGATCGAGTTAAACAAAATGATGAAATCTTTTT
66 CGAGAAGATCGAGTTAAACAAAATGATGAAATCTTTTT
*
143468 AGCACGATCGATAACACGAAGTCCATTACCGAGAAATACACTAGTTTTCAAACTAGAAAAGACTA
1 AGCACGATCGATAACACGAAGTCCATTACCGAGAAATACACAAGTTTTCAAACTAGAAAAGACTA
* *
143533 TGAGAAGATCGAGTTAAACAAAGTGATGAAATCTTTTT
66 CGAGAAGATCGAGTTAAACAAAATGATGAAATCTTTTT
143571 A
1 A
143572 AATGCAGAAG
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.43, C:0.17, G:0.17, T:0.23
Consensus pattern (103 bp):
AGCACGATCGATAACACGAAGTCCATTACCGAGAAATACACAAGTTTTCAAACTAGAAAAGACTA
CGAGAAGATCGAGTTAAACAAAATGATGAAATCTTTTT
Found at i:147586 original size:23 final size:23
Alignment explanation
Indices: 147552--147612 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
147542 CTCATATAAT
147552 TGCACC-TAAGTGCCACGTAGAAC
1 TGCACCGT-AGTGCCACGTAGAAC
* *
147575 TGCACCGTAGTGCCGCGTAGAAT
1 TGCACCGTAGTGCCACGTAGAAC
147598 TGCACCGTAGTGCCA
1 TGCACCGTAGTGCCA
147613 TATAATAATG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
23 33 0.97
24 1 0.03
ACGTcount: A:0.25, C:0.30, G:0.26, T:0.20
Consensus pattern (23 bp):
TGCACCGTAGTGCCACGTAGAAC
Found at i:147756 original size:103 final size:103
Alignment explanation
Indices: 147620--147845 Score: 400
Period size: 103 Copynumber: 2.2 Consensus size: 103
147610 CCATATAATA
*
147620 ATGT-CCATAAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGT
1 ATGTCCCA-AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGT
*
147684 GTCTCACCAGACTTCACACATGTTCCAAAGAATACATAT
65 GTCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
*
147723 ATGTCCCAAATGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
1 ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
147788 TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
66 TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
*
147826 ATGTCCCGAAGGACCACATA
1 ATGTCCCAAAGGACCACATA
147846 GACCCTCTAC
Statistics
Matches: 117, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
103 114 0.97
104 3 0.03
ACGTcount: A:0.37, C:0.25, G:0.12, T:0.26
Consensus pattern (103 bp):
ATGTCCCAAAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTG
TCTCACCAGACCTCACACATGTTCCAAAGAATACATAT
Found at i:148349 original size:20 final size:20
Alignment explanation
Indices: 148324--148364 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
148314 TTTTTTATTA
* *
148324 TGGGGGAATTGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
148344 TGGGGGTATCGATTCCCCCC
1 TGGGGGAATCGATTCCCCCC
148364 T
1 T
148365 AGCGTTCTGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.32, G:0.32, T:0.27
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:148413 original size:21 final size:21
Alignment explanation
Indices: 148389--148431 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
148379 TCATATTCGT
*
148389 TTGAGGGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
*
148410 TTGAATGGGTATCGATTCCCC
1 TTGAAGGGGTATCGATTCCCC
148431 T
1 T
148432 AGCCCAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.16, C:0.23, G:0.28, T:0.33
Consensus pattern (21 bp):
TTGAAGGGGTATCGATTCCCC
Found at i:154501 original size:23 final size:23
Alignment explanation
Indices: 154486--154538 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
154476 ATTGCACTTA
154486 AGTGCCACATAGAATTGCACCAG
1 AGTGCCACATAGAATTGCACCAG
* *
154509 AGTGCCGCGTAGAATTGCACC-G
1 AGTGCCACATAGAATTGCACCAG
154531 TAGTGCCA
1 -AGTGCCA
154539 TATAATAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
22 1 0.04
23 25 0.96
ACGTcount: A:0.28, C:0.26, G:0.26, T:0.19
Consensus pattern (23 bp):
AGTGCCACATAGAATTGCACCAG
Found at i:154680 original size:103 final size:103
Alignment explanation
Indices: 154554--154771 Score: 373
Period size: 103 Copynumber: 2.1 Consensus size: 103
154544 TAATGTCCAT
* *
154554 AAGGACAACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
* *
154619 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATATCCCG
* * *
154657 AAGGACCATATATCATTCTTTAAGAATCGTATACATATACCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
154722 GACCTCACACATGTTCCAAAGAATACATATATATCCCG
66 GACCTCACACATGTTCCAAAGAATACATATATATCCCG
154760 AAGGACCACATA
1 AAGGACCACATA
154772 GACCCTCTAC
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
103 107 1.00
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACCTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:155290 original size:19 final size:20
Alignment explanation
Indices: 155253--155293 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
155243 TTTTTTATTA
*
155253 TGGGGGAATCGGTTCCCCCC
1 TGGGGGAATCGATTCCCCCC
*
155273 TGGGGGTATCGATTCCCCCC
1 TGGGGGAATCGATTCCCCCC
155293 T
1 T
155294 AGCGTTCAGG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.10, C:0.34, G:0.32, T:0.24
Consensus pattern (20 bp):
TGGGGGAATCGATTCCCCCC
Found at i:165107 original size:19 final size:19
Alignment explanation
Indices: 165078--165130 Score: 97
Period size: 19 Copynumber: 2.7 Consensus size: 19
165068 TAATGAAAGT
165078 GTTTGAATTAACTACAATTA
1 GTTT-AATTAACTACAATTA
165098 GTTTAATTAACTACAATTA
1 GTTTAATTAACTACAATTA
165117 GTTTAATTAACTAC
1 GTTTAATTAACTAC
165131 TTACTTTTAT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 29 0.88
20 4 0.12
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.42
Consensus pattern (19 bp):
GTTTAATTAACTACAATTA
Found at i:170477 original size:22 final size:23
Alignment explanation
Indices: 170451--170498 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
170441 GGAATTGATA
*
170451 CCCCCCTTGAAGG-GTAACCGATT
1 CCCCACTTGAAGGTG-AACCGATT
*
170474 CCCCATTTGAAGGTGAACCGATT
1 CCCCACTTGAAGGTGAACCGATT
170497 CC
1 CC
170499 TCCTGTAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 21 0.95
24 1 0.05
ACGTcount: A:0.23, C:0.33, G:0.21, T:0.23
Consensus pattern (23 bp):
CCCCACTTGAAGGTGAACCGATT
Found at i:182141 original size:15 final size:17
Alignment explanation
Indices: 182109--182147 Score: 55
Period size: 15 Copynumber: 2.4 Consensus size: 17
182099 ATTTTTAAGA
182109 ATAATTTATATGAAAAT
1 ATAATTTATATGAAAAT
*
182126 ATAATTTAT-T-AGAAT
1 ATAATTTATATGAAAAT
182141 ATAATTT
1 ATAATTT
182148 GATGTGATTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 11 0.52
16 1 0.05
17 9 0.43
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (17 bp):
ATAATTTATATGAAAAT
Found at i:185058 original size:30 final size:30
Alignment explanation
Indices: 185017--185092 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
185007 AAGTTCTTAA
185017 TTTC-ATCACTGAACTTAATACATTGGGTT
1 TTTCTATCACTGAACTTAATACATTGGGTT
* *
185046 TTTCTGTCACTGAATTTAATACATTGGGTT
1 TTTCTATCACTGAACTTAATACATTGGGTT
185076 TTTCTATCACTGAACTT
1 TTTCTATCACTGAACTT
185093 TACTTTCTCC
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 4 0.10
30 38 0.90
ACGTcount: A:0.25, C:0.17, G:0.13, T:0.45
Consensus pattern (30 bp):
TTTCTATCACTGAACTTAATACATTGGGTT
Found at i:200680 original size:18 final size:18
Alignment explanation
Indices: 200657--200693 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
200647 ATCATTTGCC
200657 TTGTTTTCTCCACTCCAT
1 TTGTTTTCTCCACTCCAT
200675 TTGTTTTCTCCACTCCAT
1 TTGTTTTCTCCACTCCAT
200693 T
1 T
200694 GAAGACACCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.11, C:0.32, G:0.05, T:0.51
Consensus pattern (18 bp):
TTGTTTTCTCCACTCCAT
Found at i:201789 original size:18 final size:19
Alignment explanation
Indices: 201766--201802 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
201756 GGTTAGCTGA
*
201766 TTATTTTTAAT-TTTTATT
1 TTATTTTGAATATTTTATT
201784 TTATTTTGAATATTTTATT
1 TTATTTTGAATATTTTATT
201803 AATTTTATAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (19 bp):
TTATTTTGAATATTTTATT
Found at i:202478 original size:2 final size:2
Alignment explanation
Indices: 202471--202496 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
202461 ATTGATTCTA
202471 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
202497 TGTTCGTAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:209079 original size:16 final size:17
Alignment explanation
Indices: 209049--209081 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
209039 AAATCAATCT
209049 AAAAAATCGATAATCGA
1 AAAAAATCGATAATCGA
*
209066 AAAAAATTGA-AATCGA
1 AAAAAATCGATAATCGA
209082 TTTAGTGTGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.61, C:0.09, G:0.12, T:0.18
Consensus pattern (17 bp):
AAAAAATCGATAATCGA
Found at i:210978 original size:95 final size:96
Alignment explanation
Indices: 210821--210998 Score: 268
Period size: 95 Copynumber: 1.9 Consensus size: 96
210811 ATGCACTGGT
* * **
210821 ATGTAAAAATCTAGTGGTTTCCATATATAAAAGAAGATCCTGACGGCTATGAATGGTGAACTCAG
1 ATGTAAAAATCTAGTGGTCTCCATATATAAAAGAAGACCCTGAAAGCTATGAATGGTGAACTCAG
* *
210886 TTGGAGGATTTAATTGAGTTAATGCATTAGC
66 TTAGAGGATGTAATTGAGTTAATGCATTAGC
* * *
210917 ATGTAAAAATCTAGTGGTCTCCATGT-TAAAATAAGACCCTGAAAGCTATGAATGGTGAACTCGG
1 ATGTAAAAATCTAGTGGTCTCCATATATAAAAGAAGACCCTGAAAGCTATGAATGGTGAACTCAG
210981 TTAGAGGATGTAATTGAG
66 TTAGAGGATGTAATTGAG
210999 GCCATTGCTG
Statistics
Matches: 73, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
95 49 0.67
96 24 0.33
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (96 bp):
ATGTAAAAATCTAGTGGTCTCCATATATAAAAGAAGACCCTGAAAGCTATGAATGGTGAACTCAG
TTAGAGGATGTAATTGAGTTAATGCATTAGC
Found at i:212136 original size:516 final size:521
Alignment explanation
Indices: 211160--212197 Score: 1980
Period size: 516 Copynumber: 2.0 Consensus size: 521
211150 TCAGGGTTTG
211160 AATCTTAGAAGTTAAGTTTGCAGGATGAATGGATTGACTGGGGAAAAGATGCAAAGGATATTTAA
1 AATCTTAGAAGTTAAGTTTGCAGGATGAATGGATTGACTGGGGAAAAGATGCAAAGGATATTTAA
211225 AGCCCCTCCAAACACACGGACACAGGGGAGCACTCTTTTATTTTGCATTCAACAGTATGATCGGT
66 AGCCCCTCCAAACACACGGACACAGGGGAGCACTCTTTTATTTTGCATTCAACAGTATGATCGGT
211290 GAAATTATTTATTTTATTGGTAGTATTGAAGGGAAAGCTGGTGGGAGAAGAAGCCTTCACTCGGA
131 GAAATTATTTATTTTATTGGTAGTATTGAAGGGAAAGCTGGT-GGAGAAGAAGCCTTCACTCGGA
211355 TCGCCCCTGCAATTCCTGGTGTAGCTGATCACTCTACAGTGCATAACCTTTTCAAAGCTCTCGCT
195 TCGCCCCTGCAATTCCTGGTGTAGCTGATCACTCTACAGTGCATAACCTTTTCAAAGCTCTCGCT
*
211420 GGTGATGAAAAGGGCATCTCATTAAGACTGTGGCTAACTTATATTGATGAACTTCTCAAGTAATT
260 GGTGATGAAAAGGGCATCTCATTAAGACTGTGGCTAACTTATATTGATGAACTTCTCAAGTAAGT
211485 TCTGATTTCATACTTCTATTATACTAGTTCACGTTAAACTTCCATGATCAGATGTGAACCAACAG
325 TCTGATTTCATACTTCTATTATACTAGTTCACGTTAAACTTCCATGATCAGATGTGAACCAACAG
*
211550 TAGATACATAATCAGTAATAGCTCAATTCACCATGTTATTAGCATTACTGAAGAGAGTGAGAAAC
390 TAGATACATAATCAGTAATAGCTCAATTCACCATGTTATTAGCATTACTGAAGAGAGGGAGAAAC
211615 CCTATATGACTAGCATAAAAATAACTACA-TAATTGAGCTGGCGT-GCATTTTCATGCGTCCAGG
455 CCTATATGACTAGCATAAAAATAACTACATTAATTGAGCTGGCGTAGCATTTTCATGCGTCCAGG
211678 CC
520 CC
211680 AATCTTAGAAGTTAAGTTTGCAGGATGAATGGATTGACTGGGGAAAAGATGCAAAGGATATTTAA
1 AATCTTAGAAGTTAAGTTTGCAGGATGAATGGATTGACTGGGGAAAAGATGCAAAGGATATTTAA
211745 AGCCCCTCCAAACACACGGACACAGGGGAGCACTCTTTTATTTTGCATTCAACAGTATGATCGGT
66 AGCCCCTCCAAACACACGGACACAGGGGAGCACTCTTTTATTTTGCATTCAACAGTATGATCGGT
211810 GAAATTATTTATTTTTATTGGT-GTATTGAAGGGAAAGCTGGT-G-G-AGAAGCCTTCACTCGGA
131 GAAATTATTTA-TTTTATTGGTAGTATTGAAGGGAAAGCTGGTGGAGAAGAAGCCTTCACTCGGA
211871 TCGCCCCTGCAATTCCTGGTGTAGCTGATCACTCTACAGTGCATAACCTTTTCAAAGCTCTCGCT
195 TCGCCCCTGCAATTCCTGGTGTAGCTGATCACTCTACAGTGCATAACCTTTTCAAAGCTCTCGCT
*
211936 GGTGATGAAAAGGGCATCTCATTAAGAGTGTGGCTAACTTATATTGATGAACTTCTCAAGTAAGT
260 GGTGATGAAAAGGGCATCTCATTAAGACTGTGGCTAACTTATATTGATGAACTTCTCAAGTAAGT
*
212001 TCTGATTTCATACTTCTATTCTACTAGTTCACGTTAAACTTCCATGATCAGATGTGAACCAACAG
325 TCTGATTTCATACTTCTATTATACTAGTTCACGTTAAACTTCCATGATCAGATGTGAACCAACAG
212066 TAGATACATAATCAGTAATAGCTCAATTCACCATGTTATTAGCATTACTGAAGAGAGGGAGAAAC
390 TAGATACATAATCAGTAATAGCTCAATTCACCATGTTATTAGCATTACTGAAGAGAGGGAGAAAC
212131 CCTATATGACTAGCATAAAAATAACTACATTAATTGAGCTGGCGTAGCATTTTCATGCGTCCAGG
455 CCTATATGACTAGCATAAAAATAACTACATTAATTGAGCTGGCGTAGCATTTTCATGCGTCCAGG
212196 CC
520 CC
212198 TGCATTTTTT
Statistics
Matches: 511, Mismatches: 4, Indels: 8
0.98 0.01 0.02
Matches are distributed among these distances:
516 302 0.59
517 16 0.03
518 22 0.04
520 161 0.32
521 10 0.02
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.30
Consensus pattern (521 bp):
AATCTTAGAAGTTAAGTTTGCAGGATGAATGGATTGACTGGGGAAAAGATGCAAAGGATATTTAA
AGCCCCTCCAAACACACGGACACAGGGGAGCACTCTTTTATTTTGCATTCAACAGTATGATCGGT
GAAATTATTTATTTTATTGGTAGTATTGAAGGGAAAGCTGGTGGAGAAGAAGCCTTCACTCGGAT
CGCCCCTGCAATTCCTGGTGTAGCTGATCACTCTACAGTGCATAACCTTTTCAAAGCTCTCGCTG
GTGATGAAAAGGGCATCTCATTAAGACTGTGGCTAACTTATATTGATGAACTTCTCAAGTAAGTT
CTGATTTCATACTTCTATTATACTAGTTCACGTTAAACTTCCATGATCAGATGTGAACCAACAGT
AGATACATAATCAGTAATAGCTCAATTCACCATGTTATTAGCATTACTGAAGAGAGGGAGAAACC
CTATATGACTAGCATAAAAATAACTACATTAATTGAGCTGGCGTAGCATTTTCATGCGTCCAGGC
C
Found at i:217164 original size:21 final size:21
Alignment explanation
Indices: 217121--217164 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
217111 AATATGAAAC
* * *
217121 ATTAATTATATCATATTATTT
1 ATTAACTATATCATATCAATT
*
217142 ATTAACTATATTATATCAATT
1 ATTAACTATATCATATCAATT
217163 AT
1 AT
217165 ATCTCTCTGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.07, G:0.00, T:0.52
Consensus pattern (21 bp):
ATTAACTATATCATATCAATT
Found at i:217677 original size:21 final size:20
Alignment explanation
Indices: 217628--217682 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
217618 AATTCACACG
*
217628 TAAAATTTAAAAAATCAAAT
1 TAAAAATTAAAAAATCAAAT
*
217648 TACATAATTAAAAAAT-ATATAT
1 TA-AAAATTAAAAAATCA-A-AT
217670 TAAAAATTAAAAA
1 TAAAAATTAAAAA
217683 GAAAAATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
20 3 0.10
21 22 0.76
22 4 0.14
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (20 bp):
TAAAAATTAAAAAATCAAAT
Found at i:217783 original size:39 final size:38
Alignment explanation
Indices: 217740--217850 Score: 138
Period size: 39 Copynumber: 2.9 Consensus size: 38
217730 TTTAAAAAAT
217740 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAAG
1 AATTTAGAATGTTAATGTGAAATAATTTAAGAAATT-AG
217779 AATTTAGAATGTT-ATGGTGGAAA-AATTTAAGAAATTAG
1 AATTTAGAATGTTAAT-GT-GAAATAATTTAAGAAATTAG
* *
217817 AGATTTATAATGTTAGA-GTGAAATAATTTGAGAA
1 A-ATTTAGAATGTTA-ATGTGAAATAATTTAAGAA
217851 TTATAAATAA
Statistics
Matches: 64, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
38 9 0.14
39 50 0.78
40 4 0.06
41 1 0.02
ACGTcount: A:0.46, C:0.00, G:0.19, T:0.35
Consensus pattern (38 bp):
AATTTAGAATGTTAATGTGAAATAATTTAAGAAATTAG
Found at i:217876 original size:18 final size:16
Alignment explanation
Indices: 217855--217890 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 16
217845 TGAGAATTAT
217855 AAATAAAAATTTAATATA
1 AAATAAAAA--TAATATA
217873 AAATAAAAATAATATA
1 AAATAAAAATAATATA
217889 AA
1 AA
217891 TATATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 9 0.50
18 9 0.50
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (16 bp):
AAATAAAAATAATATA
Found at i:235039 original size:21 final size:22
Alignment explanation
Indices: 235013--235067 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
235003 AAAACTGTGT
*
235013 CATAAAGATAAAG-AAATGAGC
1 CATAAAGACAAAGAAAATGAGC
235034 CATAAAGACAAAGAAAATGAGC
1 CATAAAGACAAAGAAAATGAGC
*
235056 CATAAAGGCAAA
1 CATAAAGACAAA
235068 AATATTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.58, C:0.13, G:0.18, T:0.11
Consensus pattern (22 bp):
CATAAAGACAAAGAAAATGAGC
Found at i:238466 original size:21 final size:21
Alignment explanation
Indices: 238442--238485 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
238432 AAGACAATCA
238442 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
238463 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
238484 AG
1 AG
238486 GCGTAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:238556 original size:33 final size:33
Alignment explanation
Indices: 238519--238582 Score: 110
Period size: 33 Copynumber: 1.9 Consensus size: 33
238509 AAATAGATGG
*
238519 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTAA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTAA
*
238552 AGTGGTGAAAGAAGTTGAGGTGTTAAGGGGT
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGT
238583 GATCGTAAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.45, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTAA
Found at i:240849 original size:201 final size:198
Alignment explanation
Indices: 240621--241327 Score: 902
Period size: 201 Copynumber: 3.7 Consensus size: 198
240611 GTAAAATTTA
*
240621 TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACTGGTA
1 TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGGTA
* *
240686 TAAATATACCGTTTTTATGAAAGAATAGGTCTACAACATGTATCGACACTTTTTTAATTTTGTGT
66 TAAATATA-CG-TTTTATGAGAGAATAGGTCTACAACATGTATCGACACGTTTTTAATTTTGTGT
*
240751 CGATACTTTTGGTCCATAATGGATGCCAAAAAGGGTGAACGCATAAAATGTCGATATATTTTCAA
129 CGATACTTTTGGTCCATAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATA-ATTTTCAA
240816 AAAGTG
193 AAAGTG
* *
240822 TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTACATTTACAATGTAACCGGTA
1 TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGGTA
* **
240887 TAAATATATCAGTTTTATGAGAGAATAAGTCTACAACATGTATCGACATTTTTTTAATTTTGTGT
66 TAAATATA-C-GTTTTATGAGAGAATAGGTCTACAACATGTATCGACACGTTTTTAATTTTGTGT
240952 CGATACTTTTGGTCCATAATGGATGCCAAAAA-GGTGAA--C-------G-C----A---T---A
129 CGATACTTTTGGTCCATAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATAATTTTCAAA
240996 AAGTG
194 AAGTG
241001 TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTAT-AATGTAACCGGT
1 TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTT-TCAATGTAACCGGT
*
241065 ATAAATATACTGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACGATTTTAATTTTGTG
65 ATAAATATAC--GTTTTATGAGAGAATAGGTCTACAACATGTATCGACACGTTTTTAATTTTGTG
* * * *
241130 TCAATACTTTTGGTCCAGAATGGATACCAAAAAGGGTGAATGCATAAAGTGTCGATACATTTTCA
128 TCGATACTTTTGGTCCATAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATA-ATTTTCA
241195 AAAAGTG
192 AAAAGTG
* * * * * * *
241202 TCGATCCCAAAAACAT-CGAAACTCATAATTATAATGTAATAAGTAAATTTTTAATGTAACCGG-
1 TCGATCCCAGAAACATATGCATC-CATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGGT
*
241265 -----TATA---TTTATGAGAGAATAGGTCTACAACATGTATCGACTCGTTTTTAATTTTGTGTC
65 ATAAATATACGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACGTTTTTAATTTTGTGTC
241322 GATACT
130 GATACT
241328 AATTTAAATA
Statistics
Matches: 453, Mismatches: 26, Indels: 65
0.83 0.05 0.12
Matches are distributed among these distances:
178 1 0.00
179 155 0.34
180 6 0.01
182 2 0.00
185 1 0.00
189 1 0.00
190 58 0.13
191 1 0.00
195 5 0.01
198 2 0.00
200 10 0.02
201 210 0.46
202 1 0.00
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (198 bp):
TCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTTCAATGTAACCGGTA
TAAATATACGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACGTTTTTAATTTTGTGTCG
ATACTTTTGGTCCATAATGGATGCCAAAAAGGGTGAACGCATAAAGTGTCGATAATTTTCAAAAA
GTG
Found at i:241123 original size:179 final size:180
Alignment explanation
Indices: 240816--241185 Score: 618
Period size: 179 Copynumber: 2.1 Consensus size: 180
240806 ATATTTTCAA
*
240816 AAAGTGTCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTACATTTACAATGTAA
1 AAAGTGTCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAA
***
240881 CCGGTATAAATATATCAGTTTTATGAGAGAATAAGTCTACAACATGTATCGACATTTTTTTAATT
66 CCGGTATAAATATATCAGTTTTATGAGAGAATAAGTCTACAACATGTATCGACACGATTTTAATT
* * *
240946 TTGTGTCGATACTTTTGGTCCATAATGGATGCCAAAAA-GGTGAACGCAT
131 TTGTGTCAATACTTTTGGTCCAGAATGGATACCAAAAAGGGTGAACGCAT
*
240995 AAAGTGTCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTATAATGTAA
1 AAAGTGTCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAA
* *
241060 CCGGTATAAATATA-CTGGTTTTATGAGAGAATAGGTCTACAACATGTATCGACACGATTTTAAT
66 CCGGTATAAATATATC-AGTTTTATGAGAGAATAAGTCTACAACATGTATCGACACGATTTTAAT
*
241124 TTTGTGTCAATACTTTTGGTCCAGAATGGATACCAAAAAGGGTGAATGCAT
130 TTTGTGTCAATACTTTTGGTCCAGAATGGATACCAAAAAGGGTGAACGCAT
241175 AAAGTGTCGAT
1 AAAGTGTCGAT
241186 ACATTTTCAA
Statistics
Matches: 178, Mismatches: 11, Indels: 3
0.93 0.06 0.02
Matches are distributed among these distances:
178 1 0.01
179 156 0.88
180 21 0.12
ACGTcount: A:0.36, C:0.14, G:0.18, T:0.32
Consensus pattern (180 bp):
AAAGTGTCGATCCCAGAAACATATGCATCCATAAGTATAATGTAATAGGTAAATTTACAATGTAA
CCGGTATAAATATATCAGTTTTATGAGAGAATAAGTCTACAACATGTATCGACACGATTTTAATT
TTGTGTCAATACTTTTGGTCCAGAATGGATACCAAAAAGGGTGAACGCAT
Found at i:241671 original size:18 final size:18
Alignment explanation
Indices: 241632--241674 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
241622 CTCAACCCAG
* *
241632 TTCTTCTCAACCACAACC
1 TTCTTCTCAAACACAACA
241650 TTCTTCTCAAACA-AACGA
1 TTCTTCTCAAACACAAC-A
241668 TTCTTCT
1 TTCTTCT
241675 GAGGAAATCA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 3 0.14
18 19 0.86
ACGTcount: A:0.28, C:0.35, G:0.02, T:0.35
Consensus pattern (18 bp):
TTCTTCTCAAACACAACA
Found at i:244461 original size:251 final size:252
Alignment explanation
Indices: 244001--244493 Score: 654
Period size: 251 Copynumber: 2.0 Consensus size: 252
243991 TAAAGTTTCC
* *
244001 CATAAAGTGTCGATCCATATATAAAAAGTAACGACCCAAAAAACATCGAAAGCCATAATTATAAT
1 CATAAAGTGTCGATACATATATAAAAAGTAACGACCCAAAAAACATCGAAAACCATAATTATAAT
* * * * *
244066 GTAATGGGTAATTTTTCAATATAACCGATATAAATATATCGGTTTTATGAAAAATATGTCTACAA
66 GTAATAGGTAATTTTTCAATATAACCAATATAAATATACCGATTTTATGAAAAATAGGTCTACAA
* * *
244131 TATTTATCAACACTTATCAGTATTGTGTCGATACTTTGTGTCCAGAATGGATGCCAAAAAGGAGG
131 TATGTATCAACACTTATCAATATTGTGTCGATAATTTGTGTCCAGAATGGATGCCAAAAAGGAGG
* * *
244196 GAACCTACAAAGTGTCGATACATTTTCATAGAGTGTCGAT-CCAAAAGGGTTGCACG
196 GAACCTACAAAGTGTCGATACATTTTCAAAAAGTATCGATCCCAAAAGGGTTGCACG
* * * **
244252 CATACAGTGTCGATACATTTATTAAAAGTGTCGATCCC-AAAAACATCGAAAACCATAATTATAA
1 CATAAAGTGTCGATACATATATAAAAAGTAACGA-CCCAAAAAACATCGAAAACCATAATTATAA
* *
244316 TGTAATAGGTAATTTTGT-AATATAACCAATATACATATACCGATTTTATGAGAGAATAGGTCTA
65 TGTAATAGGTAATTTT-TCAATATAACCAATATAAATATACCGATTTTATGA-AAAATAGGTCTA
* * * * * **
244380 TAATATGTATCGACACTTATTAATATTGTGTCGATAATTTTTGTCCATAATTTATGCCAAAAAGG
128 CAATATGTATCAACACTTATCAATATTGTGTCGATAATTTGTGTCCAGAATGGATGCCAAAAAGG
* *
244445 -GTGAACGC-ATAAAGTGTCGATACATTTTCAAAAAGTATCGATCCCAAAA
193 AGGGAAC-CTACAAAGTGTCGATACATTTTCAAAAAGTATCGATCCCAAAA
244494 ACATCGAAAC
Statistics
Matches: 208, Mismatches: 29, Indels: 9
0.85 0.12 0.04
Matches are distributed among these distances:
251 132 0.63
252 76 0.37
ACGTcount: A:0.39, C:0.15, G:0.16, T:0.31
Consensus pattern (252 bp):
CATAAAGTGTCGATACATATATAAAAAGTAACGACCCAAAAAACATCGAAAACCATAATTATAAT
GTAATAGGTAATTTTTCAATATAACCAATATAAATATACCGATTTTATGAAAAATAGGTCTACAA
TATGTATCAACACTTATCAATATTGTGTCGATAATTTGTGTCCAGAATGGATGCCAAAAAGGAGG
GAACCTACAAAGTGTCGATACATTTTCAAAAAGTATCGATCCCAAAAGGGTTGCACG
Found at i:247808 original size:87 final size:87
Alignment explanation
Indices: 247707--247869 Score: 292
Period size: 87 Copynumber: 1.9 Consensus size: 87
247697 AAATAGGTCA
* *
247707 ATATAAGCGCTACCTATTACATTATATAAGA-GCTACCTAATATGTTATTGTACTTGATAATATT
1 ATATAAGCGCTACCTATTACATTATATAA-ACGCTACCTAATATGTTATTATACTTAATAATATT
247771 TCCGGTTAAATGCCTATTACATT
65 TCCGGTTAAATGCCTATTACATT
247794 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTATACTTAATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTATACTTAATAATATTT
247859 CCGGTTAAATG
66 CCGGTTAAATG
247870 ATATAACATT
Statistics
Matches: 73, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
86 1 0.01
87 72 0.99
ACGTcount: A:0.35, C:0.16, G:0.10, T:0.39
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAACGCTACCTAATATGTTATTATACTTAATAATATTT
CCGGTTAAATGCCTATTACATT
Found at i:247813 original size:23 final size:23
Alignment explanation
Indices: 247783--247832 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
247773 CGGTTAAATG
*
247783 CCTATTACATTATATAAGCGCTA
1 CCTATTACATTATATAAACGCTA
247806 CCTATTACATTATATAAACGCTA
1 CCTATTACATTATATAAACGCTA
247829 CCTA
1 CCTA
247833 ATATGTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.34
Consensus pattern (23 bp):
CCTATTACATTATATAAACGCTA
Found at i:250030 original size:2 final size:2
Alignment explanation
Indices: 250023--250058 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
250013 TGACTTTTGA
250023 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
250059 TGGTTAGTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:250701 original size:2 final size:2
Alignment explanation
Indices: 250694--250725 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
250684 CAGATTAATA
250694 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
250726 TGAATTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:254686 original size:2 final size:2
Alignment explanation
Indices: 254679--254735 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
254669 TGTTTATGGA
254679 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
254721 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
254736 GTTATAATCC
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:254904 original size:20 final size:21
Alignment explanation
Indices: 254862--254905 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
254852 TAAGGGGGAT
*
254862 GAACTAAAATTCCAGGAGGGC
1 GAACTAAAATTACAGGAGGGC
*
254883 GAACTAAAATTATAGG-GGGC
1 GAACTAAAATTACAGGAGGGC
254903 GAA
1 GAA
254906 GCATATTTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.41, C:0.14, G:0.30, T:0.16
Consensus pattern (21 bp):
GAACTAAAATTACAGGAGGGC
Found at i:255712 original size:20 final size:20
Alignment explanation
Indices: 255687--255727 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
255677 GTTGGGACGT
255687 TATGTTCATGACAAGTGGTA
1 TATGTTCATGACAAGTGGTA
255707 TATGTTCATGACAAGTGGTA
1 TATGTTCATGACAAGTGGTA
255727 T
1 T
255728 CACAATCACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.37
Consensus pattern (20 bp):
TATGTTCATGACAAGTGGTA
Found at i:262279 original size:3 final size:3
Alignment explanation
Indices: 262271--262308 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
262261 TTCCTGGAAT
262271 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TC
262309 ATCATCATCA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.00, C:0.66, G:0.00, T:0.34
Consensus pattern (3 bp):
TCC
Found at i:262313 original size:3 final size:3
Alignment explanation
Indices: 262307--262338 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
262297 CTCCTCCTCC
262307 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TC
262339 GTCGTCGTCG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.34, G:0.00, T:0.34
Consensus pattern (3 bp):
TCA
Found at i:262413 original size:11 final size:13
Alignment explanation
Indices: 262389--262417 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
262379 ATCATTAGTG
262389 TATAAACAATATA
1 TATAAACAATATA
262402 TATAAACAATATA
1 TATAAACAATATA
262415 TAT
1 TAT
262418 CATTAGATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (13 bp):
TATAAACAATATA
Found at i:263231 original size:30 final size:30
Alignment explanation
Indices: 263197--263293 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 30
263187 TTAGTCACTC
*
263197 AAGTTTCTATTTTTGCTATTTTTGTCCTTT
1 AAGTTTCTATTTTTGCTATTTTTATCCTTT
* * * * * **
263227 AAGTTTCTGTTTTCGTTGTTTTAGTTTTTTTT
1 AAGTTTCTATTTTTGCTATTTT--TATCCTTT
* * *
263259 AACTTTCTATTTATGCTATTTTAATCCTTT
1 AAGTTTCTATTTTTGCTATTTTTATCCTTT
263289 AAGTT
1 AAGTT
263294 CATGTTTTTA
Statistics
Matches: 47, Mismatches: 18, Indels: 4
0.68 0.26 0.06
Matches are distributed among these distances:
30 26 0.55
32 21 0.45
ACGTcount: A:0.16, C:0.11, G:0.10, T:0.62
Consensus pattern (30 bp):
AAGTTTCTATTTTTGCTATTTTTATCCTTT
Found at i:263382 original size:17 final size:18
Alignment explanation
Indices: 263350--263383 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
263340 AACAAATAAT
*
263350 TTTAATCAAATTAATCAC
1 TTTAATCAAATGAATCAC
263368 TTTAAT-AAATGAATCA
1 TTTAATCAAATGAATCA
263384 TATTTTAACT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.47, C:0.12, G:0.03, T:0.38
Consensus pattern (18 bp):
TTTAATCAAATGAATCAC
Found at i:274823 original size:23 final size:23
Alignment explanation
Indices: 274797--274874 Score: 102
Period size: 23 Copynumber: 3.3 Consensus size: 23
274787 CACTACAGCT
*
274797 CATATAATTGCACCGAAGTGCCA
1 CATATAATTGCACCGGAGTGCCA
*
274820 CATATAATTGCACCGGAGTGCCG
1 CATATAATTGCACCGGAGTGCCA
* *
274843 CATAGAATTGCACTGGAGTGCCA
1 CATATAATTGCACCGGAGTGCCA
*
274866 TATAATAAT
1 CAT-ATAAT
274875 GTCCATAAGG
Statistics
Matches: 47, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
23 43 0.91
24 4 0.09
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.24
Consensus pattern (23 bp):
CATATAATTGCACCGGAGTGCCA
Found at i:275052 original size:103 final size:103
Alignment explanation
Indices: 274881--275098 Score: 400
Period size: 103 Copynumber: 2.1 Consensus size: 103
274871 TAATGTCCAT
* *
274881 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
*
274946 GACTTCACATATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
274984 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
275049 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
275087 AAGGACCACATA
1 AAGGACCACATA
275099 GACCCTCGAC
Statistics
Matches: 111, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 111 1.00
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.26
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:275999 original size:21 final size:21
Alignment explanation
Indices: 275970--276014 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
275960 GATTTCTGGG
* *
275970 CAAGAGGAATCGGTACCCATT
1 CAAGAGGAACCGATACCCATT
* *
275991 CAAGGGGAACCGATACCCCTT
1 CAAGAGGAACCGATACCCATT
276012 CAA
1 CAA
276015 ACGAACAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.33, C:0.29, G:0.22, T:0.16
Consensus pattern (21 bp):
CAAGAGGAACCGATACCCATT
Found at i:277557 original size:32 final size:32
Alignment explanation
Indices: 277516--277611 Score: 108
Period size: 32 Copynumber: 3.0 Consensus size: 32
277506 GAGTCGAGGG
*
277516 TTTACCTATGTTCTACGGAACATATGAACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
* *
277548 TTTACCTATG-TCTTTC-GAGACATATGGACA-A
1 TTTACCTATGTTC-TACGGA-ACATATGGACAGT
* *
277579 TATACCTATGTTCTAAGGAACATATGGACAGT
1 TTTACCTATGTTCTACGGAACATATGGACAGT
277611 T
1 T
277612 ACCGAGGACC
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
31 25 0.48
32 27 0.52
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (32 bp):
TTTACCTATGTTCTACGGAACATATGGACAGT
Found at i:277602 original size:31 final size:32
Alignment explanation
Indices: 277518--277609 Score: 98
Period size: 31 Copynumber: 2.9 Consensus size: 32
277508 GTCGAGGGTT
* * * *
277518 TACCTATGTTCTACGGAACATATGAACAGTTT
1 TACCTATGTTCTAAGGAACATATGGACAGATA
***
277550 TACCTATG-TCTTTCGAGACATATGGACA-ATA
1 TACCTATGTTCTAAGGA-ACATATGGACAGATA
277581 TACCTATGTTCTAAGGAACATATGGACAG
1 TACCTATGTTCTAAGGAACATATGGACAG
277610 TTACCGAGGA
Statistics
Matches: 48, Mismatches: 9, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
31 25 0.52
32 23 0.48
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (32 bp):
TACCTATGTTCTAAGGAACATATGGACAGATA
Found at i:277644 original size:30 final size:30
Alignment explanation
Indices: 277603--277699 Score: 167
Period size: 30 Copynumber: 3.2 Consensus size: 30
277593 AAGGAACATA
* *
277603 TGGACAGTTACCGAGGACCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
277633 TGGATAGTTACCGAGGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
*
277663 TGGATAGTTACCGAAGATCTTTATGACCTC
1 TGGATAGTTACCGAGGATCTTTATGACCTC
277693 TGGATAG
1 TGGATAG
277700 GTCCTTCGGG
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.25, C:0.21, G:0.24, T:0.31
Consensus pattern (30 bp):
TGGATAGTTACCGAGGATCTTTATGACCTC
Found at i:278981 original size:2 final size:2
Alignment explanation
Indices: 278974--279020 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
278964 ACTGATAAAC
278974 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
279016 AT AT A
1 AT AT A
279021 CTTCTATTAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:281639 original size:61 final size:62
Alignment explanation
Indices: 281564--281683 Score: 197
Period size: 62 Copynumber: 2.0 Consensus size: 62
281554 CTCAAGTATC
*
281564 GATATTTTCGAATTAAAAAAA-ATGAAAAATAAGAATGATGCAAAGTATCGATACTTTTATT
1 GATATTTTCGAATTAAAAAAACATGAAAAATAAGAATGATGCAAAGTATCAATACTTTTATT
** *
281625 GATATTTTCGAATTAAAAAAACATGAAAAATGGGAATGTTGCAAAGTATCAATACTTTT
1 GATATTTTCGAATTAAAAAAACATGAAAAATAAGAATGATGCAAAGTATCAATACTTTT
281684 CCACAAATAT
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
61 21 0.39
62 33 0.61
ACGTcount: A:0.46, C:0.07, G:0.14, T:0.33
Consensus pattern (62 bp):
GATATTTTCGAATTAAAAAAACATGAAAAATAAGAATGATGCAAAGTATCAATACTTTTATT
Found at i:282264 original size:75 final size:77
Alignment explanation
Indices: 282138--282288 Score: 182
Period size: 76 Copynumber: 2.0 Consensus size: 77
282128 ACTCTAGTAA
* **
282138 CATTTTAGGTGCGGCCTAAAATATTAATAATATTCATAACATTCACTGTTTATAACTCA-TTTCT
1 CATTTTAGGAGCAACCTAAAATATTAATAATATTCATAACATTCACTGTTTATAACTCATTTTCT
282202 TACCGTTTATAT
66 TACCGTTTATAT
* * * * *
282214 CATTTTAGGAGCAACCTAACATGTTAA-AATATTCATAACATTTA-TCGTTTATGACTTATTTTC
1 CATTTTAGGAGCAACCTAAAATATTAATAATATTCATAACATTCACT-GTTTATAACTCATTTTC
**
282277 TTATTGTTTATA
65 TTACCGTTTATA
282289 ACTTTTTTAT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
74 1 0.02
75 26 0.41
76 36 0.57
ACGTcount: A:0.32, C:0.15, G:0.09, T:0.44
Consensus pattern (77 bp):
CATTTTAGGAGCAACCTAAAATATTAATAATATTCATAACATTCACTGTTTATAACTCATTTTCT
TACCGTTTATAT
Found at i:282285 original size:22 final size:21
Alignment explanation
Indices: 282255--282296 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
282245 TTCATAACAT
*
282255 TTATCGTTTATGACTTATTTTC
1 TTATCGTTTATAACTT-TTTTC
*
282277 TTATTGTTTATAACTTTTTT
1 TTATCGTTTATAACTTTTTT
282297 ATGTGCAACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.19, C:0.10, G:0.07, T:0.64
Consensus pattern (21 bp):
TTATCGTTTATAACTTTTTTC
Found at i:301923 original size:29 final size:29
Alignment explanation
Indices: 301886--301966 Score: 108
Period size: 29 Copynumber: 2.8 Consensus size: 29
301876 TATGTTCATT
* *
301886 TTCCAGTTCAGTGTCTAATGTTTTTTTTG
1 TTCCAGTTCAGTGTCTAACGTTTTTTTGG
*
301915 TTCCAGTTCAGTGCCTAACGTTTTTTTGG
1 TTCCAGTTCAGTGTCTAACGTTTTTTTGG
* **
301944 TTTCAGTTTGGTGTCTAACGTTT
1 TTCCAGTTCAGTGTCTAACGTTT
301967 CATTCCGTAA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.14, C:0.16, G:0.20, T:0.51
Consensus pattern (29 bp):
TTCCAGTTCAGTGTCTAACGTTTTTTTGG
Found at i:310041 original size:9 final size:9
Alignment explanation
Indices: 309995--310021 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
309985 CATTACTATA
309995 TATTTTAAT
1 TATTTTAAT
310004 TATTTTAAT
1 TATTTTAAT
310013 TATTTTAAT
1 TATTTTAAT
310022 ATATGTATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (9 bp):
TATTTTAAT
Found at i:312293 original size:12 final size:12
Alignment explanation
Indices: 312276--312326 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
312266 TTCAAAGAGG
312276 TTTTATATTTAA
1 TTTTATATTTAA
312288 TTTTATA-TTATA
1 TTTTATATTTA-A
*
312300 TTTGAT-TTTAA
1 TTTTATATTTAA
312311 TTTTA-ATATTAA
1 TTTTATAT-TTAA
312323 TTTT
1 TTTT
312327 TTAAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
11 9 0.27
12 24 0.73
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (12 bp):
TTTTATATTTAA
Found at i:312364 original size:26 final size:27
Alignment explanation
Indices: 312314--312386 Score: 93
Period size: 26 Copynumber: 2.9 Consensus size: 27
312304 ATTTTAATTT
*
312314 TAATATTAATTTTTTAA-A-TAAATTA
1 TAATATTAATTTTTTAATATTATATTA
312339 -AATATTAATTTTTTAATATTATATTA
1 TAATATTAATTTTTTAATATTATATTA
312365 TAGATATT-A-TTTTTAATATTAT
1 TA-ATATTAATTTTTTAATATTAT
312387 TTTTTAAATA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
24 16 0.37
25 1 0.02
26 19 0.44
27 2 0.05
28 5 0.12
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.56
Consensus pattern (27 bp):
TAATATTAATTTTTTAATATTATATTA
Found at i:312383 original size:12 final size:12
Alignment explanation
Indices: 312348--312390 Score: 59
Period size: 12 Copynumber: 3.4 Consensus size: 12
312338 AAATATTAAT
312348 TTTTTAATATTA
1 TTTTTAATATTA
*
312360 TATTATAGATATTA
1 T-TTTTA-ATATTA
312374 TTTTTAATATTA
1 TTTTTAATATTA
312386 TTTTT
1 TTTTT
312391 TAAATAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 12 0.44
13 8 0.30
14 7 0.26
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (12 bp):
TTTTTAATATTA
Found at i:312395 original size:63 final size:64
Alignment explanation
Indices: 312288--312443 Score: 248
Period size: 63 Copynumber: 2.5 Consensus size: 64
312278 TTATATTTAA
*
312288 TTTT-ATATTATATT-T-GATTTTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
1 TTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
*
312349 TTTTAATATTATATTATAGATATTATTTTTAATATT-ATTTTTTAAATAAATTAAATATTAATT
1 TTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
*
312412 TTTTAATATTATATTATAGAAATTTAATTTTA
1 TTTTAATATTATATTATAGATA-TTAATTTTA
312444 TATCATATAA
Statistics
Matches: 87, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
61 4 0.05
62 10 0.11
63 49 0.56
64 24 0.28
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (64 bp):
TTTTAATATTATATTATAGATATTAATTTTAATATTAATTTTTTAAATAAATTAAATATTAATT
Found at i:312422 original size:37 final size:39
Alignment explanation
Indices: 312339--312423 Score: 106
Period size: 37 Copynumber: 2.2 Consensus size: 39
312329 AAATAAATTA
*
312339 AATATTAATTTTTTAATATTATATTATAGATATTATTTTT
1 AATATT-ATTTTTTAATATTAAATTATAGATATTATTTTT
312379 AATATTATTTTTTAA-A-TAAATTA-A-ATATTAATTTTTT
1 AATATTATTTTTTAATATTAAATTATAGATATT-A-TTTTT
312416 AATATTAT
1 AATATTAT
312424 ATTATAGAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
35 5 0.12
36 2 0.05
37 19 0.45
38 1 0.02
39 9 0.21
40 6 0.14
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (39 bp):
AATATTATTTTTTAATATTAAATTATAGATATTATTTTT
Found at i:312437 original size:21 final size:21
Alignment explanation
Indices: 312413--312456 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
312403 ATATTAATTT
*
312413 TTTAATATTATATTATAGAAA
1 TTTAATATTATATCATAGAAA
* *
312434 TTTAATTTTATATCATATAAA
1 TTTAATATTATATCATAGAAA
312455 TT
1 TT
312457 ATTTTATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTAATATTATATCATAGAAA
Done.