Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005658.1 Hibiscus syriacus cultivar Beakdansim tig00013230_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: 104511
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:4878 original size:20 final size:20
Alignment explanation
Indices: 4855--4903 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
4845 CATGGGGGGT
*
4855 ATCGATTCCCTCCAGGGGAA
1 ATCGATTCCCTACAGGGGAA
* **
4875 ATCGGTTCCCTACAGGGGGT
1 ATCGATTCCCTACAGGGGAA
4895 ATCGATTCC
1 ATCGATTCC
4904 TCATGCACTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.20, C:0.29, G:0.27, T:0.24
Consensus pattern (20 bp):
ATCGATTCCCTACAGGGGAA
Found at i:5308 original size:20 final size:22
Alignment explanation
Indices: 5258--5313 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
5248 TAGTGCAGGA
* *
5258 GGAATCGATACCCCCTTGTAGG
1 GGAATCGATTCCCCCTTGGAGG
*
5280 GGAACCGATTCCCCC-TGGA-G
1 GGAATCGATTCCCCCTTGGAGG
5300 GGAATCGATATCCC
1 GGAATCGAT-TCCC
5314 ATGGGTTCTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 9 0.31
21 7 0.24
22 13 0.45
ACGTcount: A:0.23, C:0.30, G:0.27, T:0.20
Consensus pattern (22 bp):
GGAATCGATTCCCCCTTGGAGG
Found at i:7195 original size:20 final size:21
Alignment explanation
Indices: 7146--7203 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
7136 TTTTGAATTC
* *
7146 TTTTGGATTGTTTTACTTTGGT
1 TTTTGGA-TGTTTGAATTTGGT
*
7168 TGTTGGATGTTTGAATTT-GT
1 TTTTGGATGTTTGAATTTGGT
7188 TTTTGGATGATTTGAA
1 TTTTGGATG-TTTGAA
7204 CTTATTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
20 10 0.32
21 15 0.48
22 6 0.19
ACGTcount: A:0.16, C:0.02, G:0.26, T:0.57
Consensus pattern (21 bp):
TTTTGGATGTTTGAATTTGGT
Found at i:10860 original size:84 final size:84
Alignment explanation
Indices: 10719--10886 Score: 311
Period size: 84 Copynumber: 2.0 Consensus size: 84
10709 AGCTGAAGCC
*
10719 TAATAGACAATATCACAGTATGTGAATCTATTAGAAAACCACACCAGCCTTTAAACAAACGGAAT
1 TAATAGACAATATCACAGTATATGAATCTATTAGAAAACCACACCAGCCTTTAAACAAACGGAAT
10784 ATTCAGCAAATCATTTGTG
66 ATTCAGCAAATCATTTGTG
10803 TAATAGACAATATCACAGTATATGAATCTATTAGAAAACCACACCAG-CTTGTAAACAAACGGAA
1 TAATAGACAATATCACAGTATATGAATCTATTAGAAAACCACACCAGCCTT-TAAACAAACGGAA
10867 TATTCAGCAAATCATTTGTG
65 TATTCAGCAAATCATTTGTG
10887 AACCGTTTGA
Statistics
Matches: 82, Mismatches: 1, Indels: 2
0.96 0.01 0.02
Matches are distributed among these distances:
83 3 0.04
84 79 0.96
ACGTcount: A:0.42, C:0.18, G:0.13, T:0.26
Consensus pattern (84 bp):
TAATAGACAATATCACAGTATATGAATCTATTAGAAAACCACACCAGCCTTTAAACAAACGGAAT
ATTCAGCAAATCATTTGTG
Found at i:11657 original size:6 final size:6
Alignment explanation
Indices: 11646--11684 Score: 78
Period size: 6 Copynumber: 6.5 Consensus size: 6
11636 GGAGACGAGC
11646 GGAAGA GGAAGA GGAAGA GGAAGA GGAAGA GGAAGA GGA
1 GGAAGA GGAAGA GGAAGA GGAAGA GGAAGA GGAAGA GGA
11685 GAAGGGGGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (6 bp):
GGAAGA
Found at i:12295 original size:20 final size:19
Alignment explanation
Indices: 12266--12303 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
12256 AGCAACTTTA
12266 TTAGTTTATTTTATAGATT
1 TTAGTTTATTTTATAGATT
*
12285 TTAGATTTATTTTGTAGAT
1 TTAG-TTTATTTTATAGAT
12304 ATGGGTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.61
Consensus pattern (19 bp):
TTAGTTTATTTTATAGATT
Found at i:14394 original size:16 final size:16
Alignment explanation
Indices: 14344--14394 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
14334 AAATTAACAA
14344 GAACTGAAAGCAA-TC
1 GAACTGAAAGCAACTC
** *
14359 TGAACTGAAAATAACCC
1 -GAACTGAAAGCAACTC
*
14376 GAACCGAAAGCAACTC
1 GAACTGAAAGCAACTC
14392 GAA
1 GAA
14395 TTTAATTTAT
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
16 26 0.96
17 1 0.04
ACGTcount: A:0.47, C:0.24, G:0.18, T:0.12
Consensus pattern (16 bp):
GAACTGAAAGCAACTC
Found at i:14953 original size:31 final size:31
Alignment explanation
Indices: 14918--14988 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
14908 AATCTAATGG
*
14918 TTGACCCGAACAGAAGCCAACCAATCCGATA
1 TTGACCCGAACAGAAGCCAACCAATACGATA
* * * * *
14949 TTGACTCGACCTGAAGCCAACCGATATGATA
1 TTGACCCGAACAGAAGCCAACCAATACGATA
*
14980 TTAACCCGA
1 TTGACCCGA
14989 TCCAAAAATC
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.30, G:0.17, T:0.18
Consensus pattern (31 bp):
TTGACCCGAACAGAAGCCAACCAATACGATA
Found at i:15267 original size:22 final size:20
Alignment explanation
Indices: 15240--15285 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 20
15230 GTGCACGTTT
*
15240 ATTTTTTATTTTTAATTAATTA
1 ATTTTTTATATTTAA--AATTA
15262 ATTTTTTATATTTAAAATTA
1 ATTTTTTATATTTAAAATTA
15282 ATTT
1 ATTT
15286 AAATATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 9 0.39
22 14 0.61
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATTTTTTATATTTAAAATTA
Found at i:16176 original size:20 final size:20
Alignment explanation
Indices: 16151--16190 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
16141 TTCTGGCCAG
16151 TCTTTAGATTTTCAGGTCAA
1 TCTTTAGATTTTCAGGTCAA
*
16171 TCTTTAGATTTTTAGGTCAA
1 TCTTTAGATTTTCAGGTCAA
16191 CTGTTGTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.25, C:0.12, G:0.15, T:0.47
Consensus pattern (20 bp):
TCTTTAGATTTTCAGGTCAA
Found at i:17680 original size:8 final size:8
Alignment explanation
Indices: 17669--17702 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
17659 TAACTTAATA
17669 TATTTTTT
1 TATTTTTT
17677 TATTTTTT
1 TATTTTTT
*
17685 TAATTTTT
1 TATTTTTT
*
17693 TATTTATT
1 TATTTTTT
17701 TA
1 TA
17703 CAAATTTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TATTTTTT
Found at i:17893 original size:52 final size:52
Alignment explanation
Indices: 17815--18028 Score: 220
Period size: 52 Copynumber: 4.1 Consensus size: 52
17805 GTGCTACGCA
* ** * *
17815 TTTTATTTTAATT-ACTTAAATTGGTGTAAGAATGTATTAAGTGTT-ATATATT
1 TTTTATTTT-ATTCACTTACACCGGTGTAAGTATGTATTAAGT-TTGATACATT
* * *
17867 TTTTATTTTATTCACTTATACCGGTGTAAGTATGTTTTAAGTTTGCTACATT
1 TTTTATTTTATTCACTTACACCGGTGTAAGTATGTATTAAGTTTGATACATT
* * * * *
17919 ATTTGTTTTATTCACTTACACCGATGTAAGTATGTTTTAAG--TGATATATTT
1 TTTTATTTTATTCACTTACACCGGTGTAAGTATGTATTAAGTTTGATACA-TT
* * * *
17970 TTTTATTTTTTTCACTTACACCTGTGTAAGTATGCATTAAGTTTGTTACATT
1 TTTTATTTTATTCACTTACACCGGTGTAAGTATGTATTAAGTTTGATACATT
18022 TTTTATT
1 TTTTATT
18029 GAGAAAATAA
Statistics
Matches: 135, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
50 5 0.04
51 41 0.30
52 84 0.62
53 5 0.04
ACGTcount: A:0.26, C:0.09, G:0.13, T:0.52
Consensus pattern (52 bp):
TTTTATTTTATTCACTTACACCGGTGTAAGTATGTATTAAGTTTGATACATT
Found at i:18024 original size:51 final size:50
Alignment explanation
Indices: 17866--18024 Score: 178
Period size: 51 Copynumber: 3.1 Consensus size: 50
17856 TGTTATATAT
* *
17866 TTTTTATTTTATTCACTTATACCGGTGTAAGTATGTTTTAAGTTTGCTACA
1 TTTTTATTTTATTCACTTACACC-GTGTAAGTATGTTTTAAGTTTGTTACA
* **
17917 TTATTTGTTTTATTCACTTACACCGATGTAAGTATGTTTTAAG--TGATATATT
1 TT-TTTATTTTATTCACTTACACCG-TGTAAGTATGTTTTAAGTTTG-T-TACA
* **
17969 TTTTTATTTTTTTCACTTACACCTGTGTAAGTATGCATTAAGTTTGTTACA
1 TTTTTATTTTATTCACTTACACC-GTGTAAGTATGTTTTAAGTTTGTTACA
18020 TTTTT
1 TTTTT
18025 TATTGAGAAA
Statistics
Matches: 90, Mismatches: 11, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
50 2 0.02
51 44 0.49
52 42 0.47
53 2 0.02
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.52
Consensus pattern (50 bp):
TTTTTATTTTATTCACTTACACCGTGTAAGTATGTTTTAAGTTTGTTACA
Found at i:18242 original size:20 final size:20
Alignment explanation
Indices: 18217--18265 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
18207 TTTTCCAAAT
18217 TCGCAATGCGAATATGTAAA
1 TCGCAATGCGAATATGTAAA
* * * *
18237 TCGCAACGGGAATTTGTAAT
1 TCGCAATGCGAATATGTAAA
18257 TCGCAATGC
1 TCGCAATGC
18266 AGAAGTCAAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (20 bp):
TCGCAATGCGAATATGTAAA
Found at i:18305 original size:17 final size:18
Alignment explanation
Indices: 18283--18317 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
18273 AAATTCGCAA
18283 AACGCG-TTTATTTTCGC
1 AACGCGATTTATTTTCGC
18300 AACGCGAATTTATTTTCG
1 AACGCG-ATTTATTTTCG
18318 AATTCGAAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.23, C:0.20, G:0.17, T:0.40
Consensus pattern (18 bp):
AACGCGATTTATTTTCGC
Found at i:18461 original size:22 final size:22
Alignment explanation
Indices: 18436--18508 Score: 85
Period size: 22 Copynumber: 3.3 Consensus size: 22
18426 CTACGGCGAC
18436 ATCCATCCCCATCTCCGACGAA
1 ATCCATCCCCATCTCCGACGAA
*
18458 ATCCGTCCCCATCTCC-AGCGAA
1 ATCCATCCCCATCTCCGA-CGAA
* * * *
18480 ATCCGTCCCCATCTCTGGCAAA
1 ATCCATCCCCATCTCCGACGAA
18502 ATCCATC
1 ATCCATC
18509 TATCTCCATC
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
21 1 0.02
22 43 0.98
ACGTcount: A:0.25, C:0.44, G:0.11, T:0.21
Consensus pattern (22 bp):
ATCCATCCCCATCTCCGACGAA
Found at i:18883 original size:20 final size:20
Alignment explanation
Indices: 18814--18876 Score: 101
Period size: 20 Copynumber: 3.2 Consensus size: 20
18804 TTCATTCAAG
18814 TTTT-ATTTTCGCGTTGCGA
1 TTTTCATTTTCGCGTTGCGA
*
18833 GTTTCATTTTCGCGTTGCGA
1 TTTTCATTTTCGCGTTGCGA
*
18853 TTTTCATTTTCGCATTGCGA
1 TTTTCATTTTCGCGTTGCGA
18873 TTTT
1 TTTT
18877 TAGTTTCAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
19 3 0.08
20 37 0.93
ACGTcount: A:0.11, C:0.17, G:0.19, T:0.52
Consensus pattern (20 bp):
TTTTCATTTTCGCGTTGCGA
Found at i:20642 original size:21 final size:21
Alignment explanation
Indices: 20618--20667 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
20608 TGGTGCATGG
*
20618 CGTGATGAGGTA-CGGTCTTTA
1 CGTGATGAGGTAGAGGT-TTTA
*
20639 CGTGGTGAGGTAGAGGTTTTA
1 CGTGATGAGGTAGAGGTTTTA
*
20660 CGCGATGA
1 CGTGATGA
20668 TAATGGTGCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
21 21 0.88
22 3 0.12
ACGTcount: A:0.20, C:0.12, G:0.38, T:0.30
Consensus pattern (21 bp):
CGTGATGAGGTAGAGGTTTTA
Found at i:21063 original size:21 final size:21
Alignment explanation
Indices: 21039--21107 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
21029 CCTATCGTTT
21039 AAGAGGCCCCTATCATCCTTC
1 AAGAGGCCCCTATCATCCTTC
**
21060 AAGAGGCCCCTCCCA-CCGTTC
1 AAGAGGCCCCTATCATCC-TTC
* *
21081 AAGAGGCCCCTGTCATCATTC
1 AAGAGGCCCCTATCATCCTTC
21102 AAGAGG
1 AAGAGG
21108 TCTCTCCCAC
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
20 2 0.05
21 38 0.93
22 1 0.02
ACGTcount: A:0.25, C:0.36, G:0.20, T:0.19
Consensus pattern (21 bp):
AAGAGGCCCCTATCATCCTTC
Found at i:21067 original size:42 final size:42
Alignment explanation
Indices: 21009--21127 Score: 157
Period size: 42 Copynumber: 2.8 Consensus size: 42
20999 AATTCACCTG
* * * *
21009 TCATCATTCACGAGGCCTCTCCTATCGTTTAAGAGGCCCCTA
1 TCATCATTCAAGAGGCCTCTCCCACCGTTCAAGAGGCCCCTA
* * *
21051 TCATCCTTCAAGAGGCCCCTCCCACCGTTCAAGAGGCCCCTG
1 TCATCATTCAAGAGGCCTCTCCCACCGTTCAAGAGGCCCCTA
* *
21093 TCATCATTCAAGAGGTCTCTCCCACCGTTCGAGAG
1 TCATCATTCAAGAGGCCTCTCCCACCGTTCAAGAG
21128 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 66 1.00
ACGTcount: A:0.21, C:0.36, G:0.18, T:0.24
Consensus pattern (42 bp):
TCATCATTCAAGAGGCCTCTCCCACCGTTCAAGAGGCCCCTA
Found at i:22548 original size:64 final size:64
Alignment explanation
Indices: 22470--22601 Score: 201
Period size: 64 Copynumber: 2.1 Consensus size: 64
22460 AAATTGATGT
*
22470 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTCTTTTTTGCTTGTATAATTG
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTATAATTG
* * *** *
22534 ATTTGTAAAAGTTGATTTGTTTAATTGATGTGTAAATAATTCTTATTTTTTGCTTGTTTAATTG
1 ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTATAATTG
22598 ATTT
1 ATTT
22602 ATTGTTTTAA
Statistics
Matches: 61, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.29, C:0.03, G:0.17, T:0.52
Consensus pattern (64 bp):
ATTTGTAAAAGTTGATTTGTTTAATTGATGAGGAAATAAGAATTATTTTTTGCTTGTATAATTG
Found at i:25327 original size:23 final size:23
Alignment explanation
Indices: 25259--25327 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
25249 CATTATTATA
*
25259 TGGCACTACGGTGCAATTCTAAG
1 TGGCACTACGGTGCAATTCTACG
* * *
25282 CGCCACTCCGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
25305 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTCTACG
25328 AGCTGTGGTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:32104 original size:23 final size:23
Alignment explanation
Indices: 32078--32130 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
32068 GGCACTACGA
32078 TGCAATTCTAAGCGCCACTCCGG
1 TGCAATTCTAAGCGCCACTCCGG
* * * *
32101 TGCAATTCTACGTGGCACTTCGG
1 TGCAATTCTAAGCGCCACTCCGG
32124 TGCAATT
1 TGCAATT
32131 ATACGAGCTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (23 bp):
TGCAATTCTAAGCGCCACTCCGG
Found at i:36705 original size:21 final size:21
Alignment explanation
Indices: 36680--36760 Score: 126
Period size: 21 Copynumber: 3.9 Consensus size: 21
36670 ATGAGAAGAG
* *
36680 CATTCACCAAGACGAGAATGT
1 CATTCATCAAGACGAGAATGC
* *
36701 AATTCATCAAGATGAGAATGC
1 CATTCATCAAGACGAGAATGC
36722 CATTCATCAAGACGAGAATGC
1 CATTCATCAAGACGAGAATGC
36743 CATTCATCAAGACGAGAA
1 CATTCATCAAGACGAGAA
36761 GACCCTTCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 54 1.00
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.20
Consensus pattern (21 bp):
CATTCATCAAGACGAGAATGC
Found at i:36769 original size:21 final size:21
Alignment explanation
Indices: 36724--36825 Score: 111
Period size: 21 Copynumber: 5.0 Consensus size: 21
36714 GAGAATGCCA
* *
36724 TTCATCAAGACGAGAATG-CCA
1 TTCATAAAGACGAGAA-GACCC
*
36745 TTCATCAAGACGAGAAGACCC
1 TTCATAAAGACGAGAAGACCC
*
36766 TTCATAAAGATGAGAAGA-CC
1 TTCATAAAGACGAGAAGACCC
* *
36786 TTCGTAAAGACGAGAA-AACC
1 TTCATAAAGACGAGAAGACCC
*
36806 TTCGTAAAGACGAGAAGACC
1 TTCATAAAGACGAGAAGACC
36826 ATATCACATG
Statistics
Matches: 72, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
19 1 0.01
20 35 0.49
21 36 0.50
ACGTcount: A:0.41, C:0.22, G:0.21, T:0.17
Consensus pattern (21 bp):
TTCATAAAGACGAGAAGACCC
Found at i:36770 original size:42 final size:42
Alignment explanation
Indices: 36672--36821 Score: 137
Period size: 42 Copynumber: 3.6 Consensus size: 42
36662 TACCAAGGAT
* ** ** *
36672 GAGAAGAGCATTCACCAAGACGAGAATGTAATTCATCAAGAT
1 GAGAAGACCATTCATAAAGACGAGAATGCCATTCATCAAGAC
*
36714 GAGAATG-CCATTCATCAAGACGAGAATGCCATTCATCAAGAC
1 GAGAA-GACCATTCATAAAGACGAGAATGCCATTCATCAAGAC
* * * *
36756 GAGAAGACCCTTCATAAAGATGAGAA-GACC-TTCGTAAAGAC
1 GAGAAGACCATTCATAAAGACGAGAATG-CCATTCATCAAGAC
* *
36797 GAGAAAACC-TTCGTAAAGACGAGAA
1 GAGAAGACCATTCATAAAGACGAGAA
36822 GACCATATCA
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 14 0.15
41 19 0.21
42 58 0.63
43 1 0.01
ACGTcount: A:0.42, C:0.19, G:0.21, T:0.17
Consensus pattern (42 bp):
GAGAAGACCATTCATAAAGACGAGAATGCCATTCATCAAGAC
Found at i:36793 original size:20 final size:20
Alignment explanation
Indices: 36751--36825 Score: 114
Period size: 20 Copynumber: 3.7 Consensus size: 20
36741 GCCATTCATC
*
36751 AAGACGAGAAGACCCTTCATA
1 AAGACGAGAAGA-CCTTCGTA
*
36772 AAGATGAGAAGACCTTCGTA
1 AAGACGAGAAGACCTTCGTA
*
36792 AAGACGAGAAAACCTTCGTA
1 AAGACGAGAAGACCTTCGTA
36812 AAGACGAGAAGACC
1 AAGACGAGAAGACC
36826 ATATCACATG
Statistics
Matches: 49, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
20 38 0.78
21 11 0.22
ACGTcount: A:0.44, C:0.20, G:0.23, T:0.13
Consensus pattern (20 bp):
AAGACGAGAAGACCTTCGTA
Found at i:37085 original size:13 final size:13
Alignment explanation
Indices: 37067--37091 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37057 TAGCACCTCG
37067 TGCATTTGCATTT
1 TGCATTTGCATTT
37080 TGCATTTGCATT
1 TGCATTTGCATT
37092 GCATGTATTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.16, G:0.16, T:0.52
Consensus pattern (13 bp):
TGCATTTGCATTT
Found at i:42329 original size:108 final size:108
Alignment explanation
Indices: 42184--42441 Score: 356
Period size: 108 Copynumber: 2.4 Consensus size: 108
42174 ATGAGATTGG
* *
42184 AGCAAAGTCAATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACCATCTGAATCCTTCACTGGA
1 AGCAAA-TC-ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACAATCTGAAGCCTTCACTGGA
* *
42249 GAATAGTGAAGCAAACCATCCTAAGCCTTCACCGGAGAATAGTGA
64 GAATAGTGAAGCAAACCATCATAAGCCTTCACCAGAGAATAGTGA
* * *
42294 AGCAAATCATCTGAAGCCTTCACCGGAGA-ATAGTGAAGCAATCAATCTGAAGCCTTCACTGGAG
1 AGCAAATCATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACAATCTGAAGCCTTCACTGGAG
* *
42358 AATAGTGAAGCAAACCATCATAAGTCTTCACCAGAGAGTAGTGA
65 AATAGTGAAGCAAACCATCATAAGCCTTCACCAGAGAATAGTGA
* * * * *
42402 AGCAAACCATCTTAAGTCTTCACCAAAAAGTAGTGAAGCA
1 AGCAAATCATCTTAAGCCTTCACCGAAGAGAAGTGAAGCA
42442 GATCCATTTT
Statistics
Matches: 130, Mismatches: 16, Indels: 6
0.86 0.11 0.04
Matches are distributed among these distances:
107 1 0.01
108 121 0.93
109 2 0.02
110 6 0.05
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (108 bp):
AGCAAATCATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACAATCTGAAGCCTTCACTGGAGA
ATAGTGAAGCAAACCATCATAAGCCTTCACCAGAGAATAGTGA
Found at i:42426 original size:36 final size:36
Alignment explanation
Indices: 42194--42459 Score: 311
Period size: 36 Copynumber: 7.4 Consensus size: 36
42184 AGCAAAGTCA
*
42194 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACC
1 ATCTTAAGCCTTCACCGGAGA-ATAGTGAAGCAAACC
* * *
42230 ATCTGAATCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
* *
42266 ATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAATC
1 ATCTTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
* * *
42302 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAATCA
1 ATCTTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
* *
42338 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
* * * *
42374 ATCATAAGTCTTCACCAGAGAGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
* * * *
42410 ATCTTAAGTCTTCACC-AAAAAGTAGTGAAGCAGATCC
1 ATCTTAAGCCTTCACCGGAGAA-TAGTGAAGCA-AACC
*
42447 ATTTTAAGCCTTC
1 ATCTTAAGCCTTC
42460 TCAGAAGAGT
Statistics
Matches: 197, Mismatches: 30, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
35 3 0.02
36 180 0.91
37 14 0.07
ACGTcount: A:0.36, C:0.23, G:0.19, T:0.21
Consensus pattern (36 bp):
ATCTTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
Found at i:42910 original size:51 final size:51
Alignment explanation
Indices: 42841--44004 Score: 1345
Period size: 51 Copynumber: 22.5 Consensus size: 51
42831 AAGATTATTT
* * * *
42841 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* * * * * * * *
42892 GAGTTCCATACTCACTAGAGAAAGAGGGAGCAAACCCGTGTGAAGATATCC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* * ** *
42943 GAGTTCCATACTCCTTAATCAAAGAAGGATCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
** * ** * *
42994 GAGTTCTATACTCTTTAAAGAGAGAAGGAGCGAACCCGTAAGAAGAAGATTTTT
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGT---TTGAAGATGTTC
* *
43048 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCAG-TTGAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCC-GTTTGAAGATGTTC
* * *
43099 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG--TGAAGAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTG-A-AGATGTTC
*
43150 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
43201 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* *
43252 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* *
43303 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTGC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTG-A-AGATGTTC
*
43356 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* *
43407 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATG-T-TC
* * * * * *
43459 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATCC
1 -GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* * *
43511 GAGTTCCATACTCCTTAATGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
** * * ** * *
43562 GAGTTCTATACTCTTTAAAGAGAGAAGGAACGAACCCGTAAGAAGAAGATTTTT
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGT---TTGAAGATGTTC
* * *
43616 GAGTTCTATACTCCCTGAAGAATGAGGGAGCGAACCCAG-TTGAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCC-GTTTGAAGATGTTC
* * *
43667 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCG--TGAAGAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTG-A-AGATGTTC
*
43718 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
43769 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
43820 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTG-A-AGATGTTC
* * ** *
43873 AAGTTCTATACTCCCTAGAGAAAGGGGGAGCGAACCCGTTTGAAGAATATGTC
1 GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-ATGT-TC
* * * * *
43926 TGAGTTCCATACTCCCTAGAGAAATAGGGAGCGAACCCATTTGTTGAAGATTGTTC
1 -GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCC--GT-TTGAAGA-TGTTC
* *
43982 GAG-TCTTATACTCTCTGAAGAAA
1 GAGTTC-TATACTCCCTAAAGAAA
44005 TAGGGGGCAG
Statistics
Matches: 978, Mismatches: 103, Indels: 60
0.86 0.09 0.05
Matches are distributed among these distances:
49 4 0.00
50 5 0.01
51 671 0.69
52 12 0.01
53 143 0.15
54 113 0.12
55 18 0.02
56 4 0.00
57 8 0.01
ACGTcount: A:0.33, C:0.19, G:0.25, T:0.23
Consensus pattern (51 bp):
GAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
Found at i:44048 original size:110 final size:108
Alignment explanation
Indices: 43934--44192 Score: 317
Period size: 110 Copynumber: 2.4 Consensus size: 108
43924 TCTGAGTTCC
*
43934 ATACTCCCT-AGAGAAATAGGGAGC-GA-ACCCATTTGTTGAAGATTGTTCGAGTCTTATACTCT
1 ATACTCCCTGA-AGAAATAGGGAGCAGACA-CCA-TCGTTGAAGATTGTTCGAGTCTTATACTCT
*
43996 CTGAAGAAATAGGGGGCAGACGCGATCGTTGAAGATTGTTTGAGTCTT
63 CTGAAGAAATAGGGGGCAGACGCGATCGATGAAGATTG--TGAGTCTT
* * * *
44044 ATACTCTCTGAAGATATAGGGGGCAGACACGATCGTTGAAGATTGTTCGAGTCTTATACTCTCTG
1 ATACTCCCTGAAGAAATAGGGAGCAGACACCATCGTTGAAGATTGTTCGAGTCTTATACTCTCTG
* * *
44109 AAGAAATAGGGGGCAGATGCGATTGATGAAGATTGTGGGTCTT
66 AAGAAATAGGGGGCAGACGCGATCGATGAAGATTGTGAGTCTT
** * * * *
44152 ATACTCTTTGAAGATATAGGGGGCAGACACGATCGTGGAAG
1 ATACTCCCTGAAGAAATAGGGAGCAGACACCATCGTTGAAG
44193 CAATAGGGAG
Statistics
Matches: 135, Mismatches: 11, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
108 46 0.34
110 83 0.61
111 5 0.04
112 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.29, T:0.28
Consensus pattern (108 bp):
ATACTCCCTGAAGAAATAGGGAGCAGACACCATCGTTGAAGATTGTTCGAGTCTTATACTCTCTG
AAGAAATAGGGGGCAGACGCGATCGATGAAGATTGTGAGTCTT
Found at i:44171 original size:53 final size:55
Alignment explanation
Indices: 43968--44192 Score: 337
Period size: 55 Copynumber: 4.1 Consensus size: 55
43958 GAACCCATTT
43968 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATC
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATC
* * *
44023 GTTGAAGATTGTTTGAGTCTTATACTCTCTGAAGATATAGGGGGCAGACACGATC
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATC
* *
44078 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGATGCGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATC
* * * * *
44133 GATGAAGATTG-T-GGGTCTTATACTCTTTGAAGATATAGGGGGCAGACACGATC
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATC
*
44186 GTGGAAG
1 GTTGAAG
44193 CAATAGGGAG
Statistics
Matches: 153, Mismatches: 17, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
53 40 0.26
54 1 0.01
55 112 0.73
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.29
Consensus pattern (55 bp):
GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATC
Found at i:49362 original size:24 final size:24
Alignment explanation
Indices: 49295--49354 Score: 93
Period size: 24 Copynumber: 2.5 Consensus size: 24
49285 CTGAAACATC
49295 ATCAAAATTCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
* *
49319 ATCAAAGTCCGAGTATTGACCAAG
1 ATCAAAATTCGAGTATTGACCAAG
*
49343 ATCAAATTTCGA
1 ATCAAAATTCGA
49355 ATACTGACTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.40, C:0.18, G:0.17, T:0.25
Consensus pattern (24 bp):
ATCAAAATTCGAGTATTGACCAAG
Found at i:50124 original size:16 final size:15
Alignment explanation
Indices: 50102--50140 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
50092 GAAATCATTG
50102 AAAAATTATATAGAAA
1 AAAAATTATATA-AAA
* *
50118 TAAAATTATGTAAAA
1 AAAAATTATATAAAA
50133 AAAAATTA
1 AAAAATTA
50141 GAGATGGGGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 10 0.50
16 10 0.50
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (15 bp):
AAAAATTATATAAAA
Found at i:50298 original size:20 final size:19
Alignment explanation
Indices: 50270--50324 Score: 67
Period size: 18 Copynumber: 2.8 Consensus size: 19
50260 ATATACCCAA
50270 AAAATTTGTGTTGCGAAACT
1 AAAA-TTGTGTTGCGAAACT
* *
50290 AAAACT-TGTTGCGAAATT
1 AAAATTGTGTTGCGAAACT
50308 AAAATTCGTGTTGCGAA
1 AAAATT-GTGTTGCGAA
50325 TTCGAAAATC
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 16 0.53
19 1 0.03
20 13 0.43
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.33
Consensus pattern (19 bp):
AAAATTGTGTTGCGAAACT
Found at i:50340 original size:20 final size:20
Alignment explanation
Indices: 50317--50425 Score: 71
Period size: 20 Copynumber: 5.4 Consensus size: 20
50307 TAAAATTCGT
50317 GTTGCGAATTCGAAAATCGA
1 GTTGCGAATTCGAAAATCGA
* ** *
50337 GTTGTGAAAAC-AAAATTCGT
1 GTTGCGAATTCGAAAA-TCGA
*
50357 GTTGCAAATTC-AGAAATCGA
1 GTTGCGAATTCGA-AAATCGA
* * *
50377 GTTGCGAATTTGAAATTCAGT
1 GTTGCGAATTCGAAAATC-GA
* *
50398 GTTGCGAATTTGGAAA-CTGA
1 GTTGCGAATTCGAAAATC-GA
50418 GTTGCGAA
1 GTTGCGAA
50426 ATTGGAGTTC
Statistics
Matches: 68, Mismatches: 17, Indels: 8
0.73 0.18 0.09
Matches are distributed among these distances:
19 4 0.06
20 45 0.66
21 19 0.28
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (20 bp):
GTTGCGAATTCGAAAATCGA
Found at i:50420 original size:41 final size:40
Alignment explanation
Indices: 50297--50428 Score: 142
Period size: 40 Copynumber: 3.3 Consensus size: 40
50287 ACTAAAACTT
*
50297 GTTGCGAAATTAAAATTCGTGTTGCGAA-TTCGAAAATCGA
1 GTTGCGAAATTAAAATTCGTGTTGCGAATTTAG-AAATCGA
* ** * *
50337 GTTGTGAAAACAAAATTCGTGTTGCAAATTCAGAAATCGA
1 GTTGCGAAATTAAAATTCGTGTTGCGAATTTAGAAATCGA
* * *
50377 GTTGCGAATTTGAAATTCAGTGTTGCGAATTTGGAAA-CTGA
1 GTTGCGAAATTAAAATTC-GTGTTGCGAATTTAGAAATC-GA
50418 GTTGCGAAATT
1 GTTGCGAAATT
50429 GGAGTTCGCG
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
40 45 0.61
41 29 0.39
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.31
Consensus pattern (40 bp):
GTTGCGAAATTAAAATTCGTGTTGCGAATTTAGAAATCGA
Found at i:50613 original size:26 final size:26
Alignment explanation
Indices: 50560--50613 Score: 81
Period size: 26 Copynumber: 2.1 Consensus size: 26
50550 TACACCGATG
* *
50560 TAAGTATGTGTTAAGTGCTATATGTA
1 TAAGTATGCGTTAAGTGCTACATGTA
*
50586 TAAGTATGCGTTAAGTGCTACATTTA
1 TAAGTATGCGTTAAGTGCTACATGTA
50612 TA
1 TA
50614 CGTTAAGTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.31, C:0.07, G:0.20, T:0.41
Consensus pattern (26 bp):
TAAGTATGCGTTAAGTGCTACATGTA
Found at i:50691 original size:51 final size:50
Alignment explanation
Indices: 50616--50729 Score: 158
Period size: 51 Copynumber: 2.3 Consensus size: 50
50606 CATTTATACG
* * * *
50616 TTAAGTGCTACATTTTTTATTTTATTCACTTACACTAGTGTAAGTATGTA
1 TTAAGTGATACATTATTTATTTTATTCACTTACACCAGTGTAAATATGTA
50666 TTAAGTGATACACTTATTTATTTTATTCACTTACACCAGTGTAAATATGT-
1 TTAAGTGATACA-TTATTTATTTTATTCACTTACACCAGTGTAAATATGTA
* *
50716 GTAAGTGCTACATT
1 TTAAGTGATACATT
50730 TTTTGTAGTA
Statistics
Matches: 57, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
49 2 0.04
50 21 0.37
51 34 0.60
ACGTcount: A:0.30, C:0.13, G:0.12, T:0.45
Consensus pattern (50 bp):
TTAAGTGATACATTATTTATTTTATTCACTTACACCAGTGTAAATATGTA
Found at i:53407 original size:25 final size:26
Alignment explanation
Indices: 53358--53407 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
53348 TTTAATACTT
*
53358 TCGAGTAAAAAATATTTATTAATTAG
1 TCGAGTAAAAAATATTTATAAATTAG
53384 TCGAGTAATAAAA-A-TTATAAATTA
1 TCGAGTAA-AAAATATTTATAAATTA
53408 TTCATATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 9 0.41
27 4 0.18
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.36
Consensus pattern (26 bp):
TCGAGTAAAAAATATTTATAAATTAG
Found at i:54691 original size:21 final size:20
Alignment explanation
Indices: 54665--54711 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
54655 ATTATAAAAA
54665 TATTTAAAAATATTAATTTATT
1 TATTTAAAAATATT--TTTATT
54687 T-TTTAAAAATATTTTTATT
1 TATTTAAAAATATTTTTATT
54706 TATTTA
1 TATTTA
54712 TTTGAAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 7 0.29
20 4 0.17
21 12 0.50
22 1 0.04
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
TATTTAAAAATATTTTTATT
Found at i:54735 original size:27 final size:25
Alignment explanation
Indices: 54665--54743 Score: 87
Period size: 26 Copynumber: 3.3 Consensus size: 25
54655 ATTATAAAAA
54665 TATTTAAAAATA---TTAATTTATT
1 TATTTAAAAATATTTTTAATTTATT
54687 T-TTTAAAAATATTTTT-ATTTATT
1 TATTTAAAAATATTTTTAATTTATT
* *
54710 TATTTGAAATAATATTTTTAAATTATC
1 TATTT-AAA-AATATTTTTAATTTATT
54737 TATTTAA
1 TATTTAA
54744 TTTTAAATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 10
0.80 0.03 0.17
Matches are distributed among these distances:
21 10 0.21
22 1 0.02
23 8 0.17
24 5 0.10
25 3 0.06
26 11 0.23
27 10 0.21
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (25 bp):
TATTTAAAAATATTTTTAATTTATT
Found at i:54908 original size:22 final size:24
Alignment explanation
Indices: 54883--54942 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
54873 ATTATAAAAA
54883 ATAA-ATAATTTTTTATAA-TATT
1 ATAATATAATTTTTTATAATTATT
*
54905 ATAAATATAACTTTTTATAATTATT
1 AT-AATATAATTTTTTATAATTATT
54930 -TAATATAATTTTT
1 ATAATATAATTTTT
54943 GTAAAAATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
22 2 0.06
23 13 0.39
24 14 0.42
25 4 0.12
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
ATAATATAATTTTTTATAATTATT
Found at i:59503 original size:40 final size:40
Alignment explanation
Indices: 59333--59576 Score: 138
Period size: 40 Copynumber: 6.1 Consensus size: 40
59323 TTCTTGCATG
* * * * * *
59333 TAATTGGGTGTGTATCCCATAAAATACATCATCATTT-TCA
1 TAATTAGGTGTGTACCCCGTACAATACATCA-CCTTTCTTA
* * * * **
59373 TATTTAGTTGTGTACCCCATGCAATACAAAACCTTTCTTA
1 TAATTAGGTGTGTACCCCGTACAATACATCACCTTTCTTA
* * * * *
59413 TAATTGGGAGTGTATCTCGTACAACACATCACCACTTTC--A
1 TAATTAGGTGTGTACCCCGTACAATACATCA-C-CTTTCTTA
* *
59453 TATTTAGGTGTGTACCCCGTACAATACATCACCTTTCTTG
1 TAATTAGGTGTGTACCCCGTACAATACATCACCTTTCTTA
* * ** * *
59493 TAATTGGGTGTGCATTCTGTA-AATACATCACCATTT-TCA
1 TAATTAGGTGTGTACCCCGTACAATACATCACC-TTTCTTA
* * * * * *
59532 TAGTTAGGTGTATACCCCGTACGATACATCATCTTGCTTG
1 TAATTAGGTGTGTACCCCGTACAATACATCACCTTTCTTA
59572 TAATT
1 TAATT
59577 TAAAAATCTG
Statistics
Matches: 147, Mismatches: 49, Indels: 16
0.69 0.23 0.08
Matches are distributed among these distances:
38 5 0.03
39 33 0.22
40 103 0.70
41 1 0.01
42 5 0.03
ACGTcount: A:0.28, C:0.21, G:0.14, T:0.36
Consensus pattern (40 bp):
TAATTAGGTGTGTACCCCGTACAATACATCACCTTTCTTA
Found at i:59550 original size:79 final size:79
Alignment explanation
Indices: 59331--59576 Score: 287
Period size: 80 Copynumber: 3.1 Consensus size: 79
59321 GATTCTTGCA
* ** * * * *
59331 TGTAATTGGGTGTGTATCCCATAAAATACATCATCATTTTCATATTTAGTTGTGTACCCCATGCA
1 TGTAATTGGGTGTGTATTCTGT-AAATACATCACCATTTTCATATTTAGGTGTGTACCCCGTACA
**
59396 ATACAAAACCTTTCT
65 ATACATCACCTTTCT
* * * *
59411 TATAATTGGGAGTGTA-TCTCGTACAACACATCACCACTTTCATATTTAGGTGTGTACCCCGTAC
1 TGTAATTGGGTGTGTATTCT-GTA-AATACATCACCATTTTCATATTTAGGTGTGTACCCCGTAC
59475 AATACATCACCTTTCT
64 AATACATCACCTTTCT
* * * *
59491 TGTAATTGGGTGTGCATTCTGTAAATACATCACCATTTTCATAGTTAGGTGTATACCCCGTACGA
1 TGTAATTGGGTGTGTATTCTGTAAATACATCACCATTTTCATATTTAGGTGTGTACCCCGTACAA
* *
59556 TACATCATCTTGCT
66 TACATCACCTTTCT
59570 TGTAATT
1 TGTAATT
59577 TAAAAATCTG
Statistics
Matches: 140, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
79 58 0.41
80 79 0.56
81 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.37
Consensus pattern (79 bp):
TGTAATTGGGTGTGTATTCTGTAAATACATCACCATTTTCATATTTAGGTGTGTACCCCGTACAA
TACATCACCTTTCT
Found at i:59618 original size:19 final size:19
Alignment explanation
Indices: 59579--59658 Score: 88
Period size: 19 Copynumber: 4.2 Consensus size: 19
59569 TTGTAATTTA
* * *
59579 AAAATCTGGTTTACAATCT
1 AAAATCTGGCTTGCAACCT
*
59598 AAAATTTGGCTTGCAACCT
1 AAAATCTGGCTTGCAACCT
*
59617 AAAATCTGGCTGGCAACCT
1 AAAATCTGGCTTGCAACCT
* * *
59636 AAAACCTGGTTTTCAACCT
1 AAAATCTGGCTTGCAACCT
59655 AAAA
1 AAAA
59659 ATTAGGTTCC
Statistics
Matches: 51, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 51 1.00
ACGTcount: A:0.36, C:0.21, G:0.14, T:0.29
Consensus pattern (19 bp):
AAAATCTGGCTTGCAACCT
Found at i:59671 original size:19 final size:19
Alignment explanation
Indices: 59649--59757 Score: 119
Period size: 19 Copynumber: 5.6 Consensus size: 19
59639 ACCTGGTTTT
*
59649 CAACCTAAAAATTAGGTTC
1 CAACTTAAAAATTAGGTTC
*
59668 CAACTTAAAAATCAGGTTTC
1 CAACTTAAAAATTAGG-TTC
*
59688 CCACTTAAAAATTAGGTTC
1 CAACTTAAAAATTAGGTTC
*
59707 CAACGTAAAAATTCAGGTTTC
1 CAACTTAAAAATT-AGG-TTC
* * *
59728 AAACTTAAAAATCACGTTC
1 CAACTTAAAAATTAGGTTC
*
59747 CAACCTAAAAA
1 CAACTTAAAAA
59758 AAAATCATGT
Statistics
Matches: 75, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
19 40 0.53
20 22 0.29
21 13 0.17
ACGTcount: A:0.43, C:0.21, G:0.09, T:0.27
Consensus pattern (19 bp):
CAACTTAAAAATTAGGTTC
Found at i:59734 original size:40 final size:38
Alignment explanation
Indices: 59646--59757 Score: 143
Period size: 40 Copynumber: 2.9 Consensus size: 38
59636 AAAACCTGGT
* *
59646 TTTCAACCTAAAAATTAGGTTCCAACTTAAAAATCAGG
1 TTTCAACTTAAAAATTAGGTTCCAACCTAAAAATCAGG
* *
59684 TTTCCCACTTAAAAATTAGGTTCCAACGTAAAAATTCAGG
1 TTT-CAACTTAAAAATTAGGTTCCAACCTAAAAA-TCAGG
* *
59724 TTTCAAACTTAAAAATCACGTTCCAACCTAAAAA
1 TTTC-AACTTAAAAATTAGGTTCCAACCTAAAAA
59758 AAAATCATGT
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
38 3 0.05
39 28 0.44
40 33 0.52
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.29
Consensus pattern (38 bp):
TTTCAACTTAAAAATTAGGTTCCAACCTAAAAATCAGG
Found at i:59761 original size:23 final size:21
Alignment explanation
Indices: 59734--59781 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 21
59724 TTTCAAACTT
59734 AAAAATCACGTTCCAACCTAAAA
1 AAAAATCACGTTCCAA-C-AAAA
*
59757 AAAAATCATGTTCCAACAAAA
1 AAAAATCACGTTCCAACAAAA
59778 AAAA
1 AAAA
59782 GCAGGTTCGT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 8 0.33
22 1 0.04
23 15 0.62
ACGTcount: A:0.58, C:0.21, G:0.04, T:0.17
Consensus pattern (21 bp):
AAAAATCACGTTCCAACAAAA
Found at i:59841 original size:20 final size:19
Alignment explanation
Indices: 59818--59861 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
59808 TCTGCCTAAA
*
59818 AAAATTCAAGTTTCCAACTT
1 AAAATTC-AGGTTCCAACTT
* *
59838 AAAAATCAGGTTCTAACTT
1 AAAATTCAGGTTCCAACTT
59857 AAAAT
1 AAAAT
59862 CATTATTGAG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (19 bp):
AAAATTCAGGTTCCAACTT
Found at i:59857 original size:19 final size:19
Alignment explanation
Indices: 59649--59860 Score: 127
Period size: 20 Copynumber: 10.5 Consensus size: 19
59639 ACCTGGTTTT
* *
59649 CAACCTAAAAATTAGGTTC
1 CAACTTAAAAATCAGGTTC
59668 CAACTTAAAAATCAGGTTTC
1 CAACTTAAAAATCAGG-TTC
* *
59688 CCACTTAAAAATTAGGTTC
1 CAACTTAAAAATCAGGTTC
*
59707 CAACGTAAAAATTCAGGTTTC
1 CAACTTAAAAA-TCAGG-TTC
* *
59728 AAACTTAAAAATCACGTTC
1 CAACTTAAAAATCAGGTTC
* *
59747 CAACCTAAAAAAAAATCATGTTC
1 CAA-CT---TAAAAATCAGGTTC
** *
59770 CAACAAAAAAAAGCAGGTTC
1 CAAC-TTAAAAATCAGGTTC
** *
59790 GTTACTTAAAAATTAGGTTC
1 -CAACTTAAAAATCAGGTTC
*** * *
59810 TGCCTAAAAAAATTCAAGTTTC
1 CAACT-TAAAAA-TC-AGGTTC
59832 CAACTTAAAAATCAGGTTC
1 CAACTTAAAAATCAGGTTC
*
59851 TAACTTAAAA
1 CAACTTAAAA
59861 TCATTATTGA
Statistics
Matches: 148, Mismatches: 33, Indels: 24
0.72 0.16 0.12
Matches are distributed among these distances:
19 48 0.32
20 57 0.39
21 20 0.14
22 8 0.05
23 15 0.10
ACGTcount: A:0.44, C:0.19, G:0.10, T:0.27
Consensus pattern (19 bp):
CAACTTAAAAATCAGGTTC
Found at i:66021 original size:40 final size:39
Alignment explanation
Indices: 65914--66144 Score: 132
Period size: 40 Copynumber: 5.8 Consensus size: 39
65904 TTCTTGCTTG
* *
65914 TAATTGGGTGTGTA-CCTCGTATAATACATCACCACTT-TCA
1 TAATTGGGTGTGTATCC-CGTACAATACATCA-CA-TTGTTA
* ** * * * * *
65954 TATTTAAGTGTATACCCCATACGATACATCACATTGATTG
1 TAATTGGGTGTGTATCCCGTACAATACATCACATTG-TTA
* * *
65994 TAATTGGGAGTGTATCCCGTATAATACATCATCACTT-TCA
1 TAATTGGGTGTGTATCCCGTACAATACATCA-CA-TTGTTA
* * * *
66034 TATTTAGGTGTGTACCCCGTACAATACATCACCTTGCTTA
1 TAATTGGGTGTGTATCCCGTACAATACATCACATTG-TTA
* *
66074 TAATTGGGTGTGTATCCAGAACAATACATCACCACTT-TTA
1 TAATTGGGTGTGTATCCCGTACAATACATCA-CA-TTGTTA
* * *
66114 TATTTAGGT-TGTA-CCACGTACGATACATCAC
1 TAATTGGGTGTGTATCC-CGTACAATACATCAC
66145 CTTGCTTGTA
Statistics
Matches: 143, Mismatches: 38, Indels: 22
0.70 0.19 0.11
Matches are distributed among these distances:
38 7 0.05
39 18 0.13
40 109 0.76
41 5 0.03
42 4 0.03
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.34
Consensus pattern (39 bp):
TAATTGGGTGTGTATCCCGTACAATACATCACATTGTTA
Found at i:66050 original size:80 final size:80
Alignment explanation
Indices: 65906--66157 Score: 355
Period size: 80 Copynumber: 3.2 Consensus size: 80
65896 ACCTCTGATT
* *
65906 CTTGCTTGTAATTGGGTGTGTA-CCTCGTATAATACATCACCACTTTCATATTTAAGTGTATACC
1 CTTGCTTGTAATTGGGTGTGTATCC-CGTATAATACATCACCACTTTCATATTTAGGTGTGTACC
*
65970 CCATACGATACATCAC
65 CCGTACGATACATCAC
* * * *
65986 ATTGATTGTAATTGGGAGTGTATCCCGTATAATACATCATCACTTTCATATTTAGGTGTGTACCC
1 CTTGCTTGTAATTGGGTGTGTATCCCGTATAATACATCACCACTTTCATATTTAGGTGTGTACCC
*
66051 CGTACAATACATCAC
66 CGTACGATACATCAC
* * * * * *
66066 CTTGCTTATAATTGGGTGTGTATCCAGAACAATACATCACCACTTTTATATTTAGGT-TGTACCA
1 CTTGCTTGTAATTGGGTGTGTATCCCGTATAATACATCACCACTTTCATATTTAGGTGTGTACCC
66130 CGTACGATACATCAC
66 CGTACGATACATCAC
66145 CTTGCTTGTAATT
1 CTTGCTTGTAATT
66158 TAAAAACCTG
Statistics
Matches: 151, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
79 32 0.21
80 117 0.77
81 2 0.01
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.36
Consensus pattern (80 bp):
CTTGCTTGTAATTGGGTGTGTATCCCGTATAATACATCACCACTTTCATATTTAGGTGTGTACCC
CGTACGATACATCAC
Found at i:66182 original size:20 final size:20
Alignment explanation
Indices: 66159--66196 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
66149 CTTGTAATTT
* *
66159 AAAAACCTGGTTTGCAACAA
1 AAAAAACTGGGTTGCAACAA
66179 AAAAAACTGGGTTGCAAC
1 AAAAAACTGGGTTGCAAC
66197 CTAAATTTTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.18
Consensus pattern (20 bp):
AAAAAACTGGGTTGCAACAA
Found at i:66234 original size:19 final size:19
Alignment explanation
Indices: 66190--66246 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 19
66180 AAAAACTGGG
*
66190 TTGCAACCTAAATTTTGGA
1 TTGCAACCTAAAATTTGGA
* * *
66209 TTACAACTTAAAATTTGGC
1 TTGCAACCTAAAATTTGGA
*
66228 TTGCAACCTAAAATCTGGA
1 TTGCAACCTAAAATTTGGA
66247 ATATGGTTTT
Statistics
Matches: 30, Mismatches: 8, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.33
Consensus pattern (19 bp):
TTGCAACCTAAAATTTGGA
Found at i:66281 original size:19 final size:19
Alignment explanation
Indices: 66257--66426 Score: 171
Period size: 19 Copynumber: 8.7 Consensus size: 19
66247 ATATGGTTTT
66257 CAACCTAAAAATTAGGTTC
1 CAACCTAAAAATTAGGTTC
*
66276 CAACCTAAAAATCAGGTTTC
1 CAACCTAAAAATTAGG-TTC
* * * *
66296 CAACTTAAAAGTCATGTTC
1 CAACCTAAAAATTAGGTTC
*
66315 CAACCTAAAAATTCATGTTTC
1 CAACCTAAAAATT-A-GGTTC
*
66336 CAACTTAAAAATTAGGTTC
1 CAACCTAAAAATTAGGTTC
* *
66355 TAACCTAAAAATTCATGTTC
1 CAACCTAAAAATT-AGGTTC
*
66375 CAACCTAAAAATCAGGTTCC
1 CAACCTAAAAATTAGGTT-C
* * *
66395 CAACTTAAAAATCAGATTC
1 CAACCTAAAAATTAGGTTC
66414 CAACC-AAAAATTA
1 CAACCTAAAAATTA
66427 ATATTGAGCT
Statistics
Matches: 125, Mismatches: 21, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
18 7 0.06
19 52 0.42
20 51 0.41
21 15 0.12
ACGTcount: A:0.42, C:0.22, G:0.08, T:0.28
Consensus pattern (19 bp):
CAACCTAAAAATTAGGTTC
Found at i:66286 original size:20 final size:19
Alignment explanation
Indices: 66257--66424 Score: 185
Period size: 20 Copynumber: 8.6 Consensus size: 19
66247 ATATGGTTTT
*
66257 CAACCTAAAAATTAGGTTC
1 CAACCTAAAAATCAGGTTC
66276 CAACCTAAAAATCAGGTTTC
1 CAACCTAAAAATCAGG-TTC
* * *
66296 CAACTTAAAAGTCATGTTC
1 CAACCTAAAAATCAGGTTC
*
66315 CAACCTAAAAATTCATGTTTC
1 CAACCTAAAAA-TCA-GGTTC
* *
66336 CAACTTAAAAATTAGGTTC
1 CAACCTAAAAATCAGGTTC
* *
66355 TAACCTAAAAATTCATGTTC
1 CAACCTAAAAA-TCAGGTTC
66375 CAACCTAAAAATCAGGTTCC
1 CAACCTAAAAATCAGGTT-C
* *
66395 CAACTTAAAAATCAGATTC
1 CAACCTAAAAATCAGGTTC
66414 CAACC-AAAAAT
1 CAACCTAAAAAT
66425 TAATATTGAG
Statistics
Matches: 124, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
18 6 0.05
19 51 0.41
20 54 0.44
21 13 0.10
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.27
Consensus pattern (19 bp):
CAACCTAAAAATCAGGTTC
Found at i:66305 original size:39 final size:40
Alignment explanation
Indices: 66251--66426 Score: 200
Period size: 39 Copynumber: 4.5 Consensus size: 40
66241 TCTGGAATAT
*
66251 GGTTTTCAACCTAAAAATTAGGTTCCAACCTAAAAA-TCA
1 GGTTTCCAACCTAAAAATTAGGTTCCAACCTAAAAATTCA
* * * *
66290 GGTTTCCAACTTAAAAGTCATGTTCCAACCTAAAAATTCA
1 GGTTTCCAACCTAAAAATTAGGTTCCAACCTAAAAATTCA
* * *
66330 TGTTTCCAACTTAAAAATTAGGTTCTAACCTAAAAATTCA
1 GGTTTCCAACCTAAAAATTAGGTTCCAACCTAAAAATTCA
* * *
66370 TG-TTCCAACCTAAAAATCAGGTTCCCAACTTAAAAA-TCA
1 GGTTTCCAACCTAAAAATTAGGTT-CCAACCTAAAAATTCA
*
66409 -GATTCCAACC-AAAAATTA
1 GGTTTCCAACCTAAAAATTA
66427 ATATTGAGCT
Statistics
Matches: 119, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 8 0.07
39 61 0.51
40 50 0.42
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.29
Consensus pattern (40 bp):
GGTTTCCAACCTAAAAATTAGGTTCCAACCTAAAAATTCA
Found at i:68116 original size:42 final size:42
Alignment explanation
Indices: 68052--68138 Score: 138
Period size: 42 Copynumber: 2.1 Consensus size: 42
68042 AAAGAATGGC
68052 ATTTCATTTATTATTTAGGCTACTCAATAAATTTAATTTGAT
1 ATTTCATTTATTATTTAGGCTACTCAATAAATTTAATTTGAT
* * * *
68094 ATTTCATTTATTATTTATGCTACTCAGTGAGTTTAATTTGAT
1 ATTTCATTTATTATTTAGGCTACTCAATAAATTTAATTTGAT
68136 ATT
1 ATT
68139 CAAACTTTTC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.30, C:0.09, G:0.09, T:0.52
Consensus pattern (42 bp):
ATTTCATTTATTATTTAGGCTACTCAATAAATTTAATTTGAT
Found at i:68881 original size:12 final size:13
Alignment explanation
Indices: 68840--68882 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
68830 TTAAAATAAT
68840 AATAATTTAATGTA
1 AATAATTTAAT-TA
68854 AATAATTATAAATTA
1 AATAATT-T-AATTA
68869 AAT-ATTTAATTA
1 AATAATTTAATTA
68881 AA
1 AA
68883 AATATAGTGT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
12 7 0.26
13 1 0.04
14 10 0.37
15 6 0.22
16 3 0.11
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (13 bp):
AATAATTTAATTA
Found at i:71035 original size:59 final size:59
Alignment explanation
Indices: 70967--71081 Score: 176
Period size: 59 Copynumber: 1.9 Consensus size: 59
70957 TCACCTCAAC
*
70967 ACTTCTGTTAAATATTAACAACATGCGGCTTAATTGAATATAATTAAATAATTAAGTGG
1 ACTTCTGTTAAATATTAACAACATGCGGCTTAATTGAATAAAATTAAATAATTAAGTGG
** * * *
71026 ACTTCTGTTAAATATTAACGGCATGTGGTTTAATTGAATAAAATTAAATAGTTAAG
1 ACTTCTGTTAAATATTAACAACATGCGGCTTAATTGAATAAAATTAAATAATTAAG
71082 GGCCTAATTG
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 50 1.00
ACGTcount: A:0.40, C:0.09, G:0.15, T:0.37
Consensus pattern (59 bp):
ACTTCTGTTAAATATTAACAACATGCGGCTTAATTGAATAAAATTAAATAATTAAGTGG
Found at i:78658 original size:20 final size:20
Alignment explanation
Indices: 78635--78683 Score: 55
Period size: 21 Copynumber: 2.5 Consensus size: 20
78625 TCAAAATCAA
* *
78635 TTTTCAAAATTTTATTTTATT
1 TTTTCAAAATCTAATTTTA-T
78656 TTTTCAAAATCTAATTTTA-
1 TTTTCAAAATCTAATTTTAT
*
78675 CTTTCAAAA
1 TTTTCAAAA
78684 GAAAATCATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 8 0.32
21 17 0.68
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (20 bp):
TTTTCAAAATCTAATTTTAT
Found at i:78661 original size:21 final size:21
Alignment explanation
Indices: 78635--78674 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
78625 TCAAAATCAA
* *
78635 TTTTCAAAATTTTATTTTATT
1 TTTTCAAAATCTAATTTTATT
78656 TTTTCAAAATCTAATTTTA
1 TTTTCAAAATCTAATTTTA
78675 CTTTCAAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTTCAAAATCTAATTTTATT
Found at i:79602 original size:11 final size:11
Alignment explanation
Indices: 79580--79612 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
79570 AATTTTGAAC
79580 ACACAG-AAAA
1 ACACAGAAAAA
79590 ACACAGAAAAA
1 ACACAGAAAAA
*
79601 ACAGAGAAAAA
1 ACACAGAAAAA
79612 A
1 A
79613 AGAGAAAAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
10 6 0.29
11 15 0.71
ACGTcount: A:0.73, C:0.15, G:0.12, T:0.00
Consensus pattern (11 bp):
ACACAGAAAAA
Found at i:79634 original size:21 final size:20
Alignment explanation
Indices: 79605--79660 Score: 76
Period size: 21 Copynumber: 2.8 Consensus size: 20
79595 GAAAAAACAG
* *
79605 AGAAAAAAAGAGAAAAGGGA
1 AGAAAAAAAAAGAAAAGAGA
*
79625 AGGAAGAAAAAAGAAAAGAGA
1 A-GAAAAAAAAAGAAAAGAGA
79646 AGAAAAAAAAAGAAA
1 AGAAAAAAAAAGAAA
79661 GAAAAGAGAG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 14 0.45
21 17 0.55
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (20 bp):
AGAAAAAAAAAGAAAAGAGA
Found at i:79636 original size:16 final size:17
Alignment explanation
Indices: 79627--79665 Score: 57
Period size: 15 Copynumber: 2.5 Consensus size: 17
79617 AAAAGGGAAG
79627 GAAGAAAAAAGAAAAGA
1 GAAGAAAAAAGAAAAGA
79644 GAAG-AAAAA-AAAAGA
1 GAAGAAAAAAGAAAAGA
79659 -AAGAAAA
1 GAAGAAAA
79666 GAGAGTCACT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 3 0.14
15 9 0.43
16 5 0.24
17 4 0.19
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (17 bp):
GAAGAAAAAAGAAAAGA
Found at i:80679 original size:23 final size:23
Alignment explanation
Indices: 80653--80720 Score: 118
Period size: 23 Copynumber: 3.0 Consensus size: 23
80643 CACCACAGCT
* *
80653 CGTATAATTGCACCGAAGTGCCG
1 CGTAGAATTGCACCGTAGTGCCG
80676 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAATTGCACCGTAGTGCCG
80699 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAATTGCACCGTAGTGCC
80721 ATATAATAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.24, C:0.26, G:0.28, T:0.22
Consensus pattern (23 bp):
CGTAGAATTGCACCGTAGTGCCG
Found at i:82086 original size:64 final size:62
Alignment explanation
Indices: 81949--82109 Score: 173
Period size: 64 Copynumber: 2.5 Consensus size: 62
81939 TAATGAAGGT
* * *
81949 ATGCATCGATGCACTACACCATGCATCGATGCATAAATCCTATTCGATGTTTGTATTTAATGGGG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAAT-GGC
* *
82014 ATGAATCGATGCACTCCTTATGCATCGATGCATAAAT-CTCATTCGATGTTTTCTATTTAAAT-T
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCCT-ATTCGATG-TTTCTATTT-AATGG
82077 C
62 C
* *
82078 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
82110 CCTTAAACAA
Statistics
Matches: 83, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
63 3 0.04
64 54 0.65
65 23 0.28
66 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (62 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCCTATTCGATGTTTCTATTTAATGGC
Found at i:85348 original size:23 final size:23
Alignment explanation
Indices: 85332--85389 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 23
85322 CGTATAATAT
*
85332 CACCGAAGTGTCGCGTAGAATTG
1 CACCGAAGTGCCGCGTAGAATTG
*
85355 CACCGTAGTGCCGCGTAGAATTG
1 CACCGAAGTGCCGCGTAGAATTG
*
85378 CACCGTAGTGCC
1 CACCGAAGTGCC
85390 ATATAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.22, C:0.28, G:0.29, T:0.21
Consensus pattern (23 bp):
CACCGAAGTGCCGCGTAGAATTG
Found at i:86721 original size:64 final size:63
Alignment explanation
Indices: 86622--86782 Score: 175
Period size: 64 Copynumber: 2.5 Consensus size: 63
86612 TAATGAAGGT
* * *
86622 ATGCATCGATGCACTACACCATGCATTGATGCATAAATC-CTATTCGATG-TTTGTATTT-AATG
1 ATGCATCGATGCACT-C-CTATGCATCGATGCATAAATCTC-ATTCGATGTTTTCTATTTAAAT-
*
86684 GGG
62 -GC
*
86687 ATGCATCGATGCACTCCTTATGCATCGATGCATAAATCTCATTCGATGTTTTCTATTTAAATTC
1 ATGCATCGATGCACTCC-TATGCATCGATGCATAAATCTCATTCGATGTTTTCTATTTAAATGC
* *
86751 ATGCATCGATGCACTGCATGTGCATCGATGCA
1 ATGCATCGATGCACT-CCTATGCATCGATGCA
86783 CCTTAAACAA
Statistics
Matches: 84, Mismatches: 7, Indels: 11
0.82 0.07 0.11
Matches are distributed among these distances:
63 1 0.01
64 55 0.65
65 25 0.30
66 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (63 bp):
ATGCATCGATGCACTCCTATGCATCGATGCATAAATCTCATTCGATGTTTTCTATTTAAATGC
Found at i:88176 original size:33 final size:33
Alignment explanation
Indices: 88138--88206 Score: 111
Period size: 33 Copynumber: 2.0 Consensus size: 33
88128 TACAGAGTAG
88138 ATATATTTTTTAAAATTCCTAATTTATTTAATTTT
1 ATATA-TTTTT-AAATTCCTAATTTATTTAATTTT
*
88173 ATATATTTTTTAATTCCTAATTTATTTAATTTT
1 ATATATTTTTAAATTCCTAATTTATTTAATTTT
88206 A
1 A
88207 CTTTGGTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
33 23 0.70
34 5 0.15
35 5 0.15
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (33 bp):
ATATATTTTTAAATTCCTAATTTATTTAATTTT
Found at i:88202 original size:16 final size:16
Alignment explanation
Indices: 88151--88203 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
88141 TATTTTTTAA
88151 AATTCCTAATTTATTT
1 AATTCCTAATTTATTT
* *
88167 AATT-TTATATATTTTTT
1 AATTCCTA-AT-TTATTT
88184 AATTCCTAATTTATTT
1 AATTCCTAATTTATTT
88200 AATT
1 AATT
88204 TTACTTTGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
15 2 0.07
16 15 0.50
17 11 0.37
18 2 0.07
ACGTcount: A:0.32, C:0.08, G:0.00, T:0.60
Consensus pattern (16 bp):
AATTCCTAATTTATTT
Found at i:88262 original size:13 final size:13
Alignment explanation
Indices: 88244--88269 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
88234 TTTGGATTGA
88244 TTATCTAATTTTT
1 TTATCTAATTTTT
88257 TTATCTAATTTTT
1 TTATCTAATTTTT
88270 ATTTTTGCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATCTAATTTTT
Found at i:91745 original size:21 final size:21
Alignment explanation
Indices: 91714--91768 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
91704 ATACTTATAG
*
91714 GGGTATTGATACTTGACCTCA
1 GGGTATCGATACTTGACCTCA
* *
91735 TGGTATCGATACTTGATCTCA
1 GGGTATCGATACTTGACCTCA
91756 GGGTATCGATACT
1 GGGTATCGATACT
91769 ACAAGTAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.35
Consensus pattern (21 bp):
GGGTATCGATACTTGACCTCA
Found at i:92778 original size:32 final size:32
Alignment explanation
Indices: 92737--92837 Score: 96
Period size: 32 Copynumber: 3.2 Consensus size: 32
92727 CCACACCATG
* *
92737 ATGCCCAACAAATTCAATGTTGCATTTAGATA
1 ATGCACAACAAATTCAATGTTGCATTCAGATA
* *
92769 ATGCACAACAGAGTT-AATGTTGTATTCAGATA
1 ATGCACAACA-AATTCAATGTTGCATTCAGATA
* ** * * *
92801 ATGCAGAGTATAGTCAATGTTGCATTCAAATA
1 ATGCACAACAAATTCAATGTTGCATTCAGATA
92833 ATGCA
1 ATGCA
92838 TAGGAGTGTT
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
31 1 0.02
32 51 0.93
33 3 0.05
ACGTcount: A:0.38, C:0.15, G:0.17, T:0.31
Consensus pattern (32 bp):
ATGCACAACAAATTCAATGTTGCATTCAGATA
Found at i:93063 original size:18 final size:18
Alignment explanation
Indices: 93040--93106 Score: 125
Period size: 18 Copynumber: 3.7 Consensus size: 18
93030 TTAATATCAT
93040 GTCCTTCGGGACATAGTG
1 GTCCTTCGGGACATAGTG
93058 GTCCTTCGGGACATAGTG
1 GTCCTTCGGGACATAGTG
*
93076 GTCTTTCGGGACATAGTG
1 GTCCTTCGGGACATAGTG
93094 GTCCTTCGGGACA
1 GTCCTTCGGGACA
93107 AATTCAGTGC
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.16, C:0.22, G:0.33, T:0.28
Consensus pattern (18 bp):
GTCCTTCGGGACATAGTG
Found at i:95262 original size:18 final size:18
Alignment explanation
Indices: 95229--95264 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
95219 AAGGGAAAGA
*
95229 ATGTCCCGAATAACCACT
1 ATGTCCCGAAGAACCACT
*
95247 ATGTCCCGAAGGACCACT
1 ATGTCCCGAAGAACCACT
95265 CCTTAAGAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.33, G:0.17, T:0.19
Consensus pattern (18 bp):
ATGTCCCGAAGAACCACT
Found at i:95593 original size:16 final size:15
Alignment explanation
Indices: 95563--95596 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
95553 TTATTTTTAT
*
95563 ATAACTCATTATCAC
1 ATAAATCATTATCAC
95578 ATAAATCATATATCAC
1 ATAAATCAT-TATCAC
95594 ATA
1 ATA
95597 TAAACACATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 8 0.47
16 9 0.53
ACGTcount: A:0.47, C:0.21, G:0.00, T:0.32
Consensus pattern (15 bp):
ATAAATCATTATCAC
Found at i:99186 original size:19 final size:19
Alignment explanation
Indices: 99162--99212 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
99152 ATAAGATTTA
*
99162 TGCATCGATGTATAAGGAG
1 TGCATCGATGCATAAGGAG
99181 TGCATCGATGCATAAGGAG
1 TGCATCGATGCATAAGGAG
*
99200 TGTATCGATGCAT
1 TGCATCGATGCAT
99213 CCCCATTAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.27
Consensus pattern (19 bp):
TGCATCGATGCATAAGGAG
Found at i:99190 original size:83 final size:83
Alignment explanation
Indices: 99097--99276 Score: 195
Period size: 83 Copynumber: 2.2 Consensus size: 83
99087 ATTGTTTAAG
* * *
99097 GTGCATCGATGCACATGCAGTGCATCGTTGCAT-TAATTTAAAAAGAAAACATCGAATAAGATTT
1 GTGCATCGATGCACAAGCAGTGCATCGATGCATCCAA-TTAAAAA-AAAACATCGAATAAGATTT
*
99161 ATGCATCGATGTATAAG-G-A
64 ATGCATCGATGCAT-AGTGTA
* * * * * * *
99180 GTGCATCGATGCATAAGGAGTGTATCGATGCATCCCCATTAAATACAAACATCGAATAGGATTTA
1 GTGCATCGATGCACAAGCAGTGCATCGATGCAT-CCAATTAAAAAAAAACATCGAATAAGATTTA
*
99245 TGCATCGATGCATGGTGTA
65 TGCATCGATGCATAGTGTA
99264 GTGCATCGATGCA
1 GTGCATCGATGCA
99277 TACCTCCATT
Statistics
Matches: 81, Mismatches: 12, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
82 1 0.01
83 59 0.73
84 20 0.25
85 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (83 bp):
GTGCATCGATGCACAAGCAGTGCATCGATGCATCCAATTAAAAAAAAACATCGAATAAGATTTAT
GCATCGATGCATAGTGTA
Found at i:99921 original size:103 final size:103
Alignment explanation
Indices: 99742--99963 Score: 374
Period size: 103 Copynumber: 2.2 Consensus size: 103
99732 AGGGTCTATG
*
99742 TGGTCCTTCGGGACATATATGCATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACTTGA
1 TGGTCCTTCAGGACATATATGCATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACTTGA
99807 TCATTGGCATATGTATATGATTCTTAAAGAATGATATA
66 TCATTGGCATATGTATATGATTCTTAAAGAATGATATA
* *
99845 TGGTCTTTCAGGACATATATGTATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACTTGA
1 TGGTCCTTCAGGACATATATGCATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACTTGA
* * *
99910 TCCTTGGCATATGTATATGATTCTTAAGGAATGATATG
66 TCATTGGCATATGTATATGATTCTTAAAGAATGATATA
99948 TGGTCCTT-ATGGACAT
1 TGGTCCTTCA-GGACAT
99964 TATTATATGG
Statistics
Matches: 111, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
102 1 0.01
103 110 0.99
ACGTcount: A:0.27, C:0.14, G:0.24, T:0.36
Consensus pattern (103 bp):
TGGTCCTTCAGGACATATATGCATTCTTTGGAACATGTGTGAGGTCTGGTGAGACACATACTTGA
TCATTGGCATATGTATATGATTCTTAAAGAATGATATA
Found at i:100021 original size:23 final size:23
Alignment explanation
Indices: 99971--100023 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
99961 CATTATTATA
*
99971 TGGCACTACGGTGTAATTCTAAC
1 TGGCACTACGGTGAAATTCTAAC
* *
99994 CGGCACTCCGGTGAAATTCT-AC
1 TGGCACTACGGTGAAATTCTAAC
100016 GTGGCACT
1 -TGGCACT
100024 TAGGTGCAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 2 0.08
23 23 0.92
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (23 bp):
TGGCACTACGGTGAAATTCTAAC
Done.