Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005664.1 Hibiscus syriacus cultivar Beakdansim tig00013241_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: 71657
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:11326 original size:20 final size:18
Alignment explanation
Indices: 11291--11327 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
11281 CGTTGTAAAT
11291 TTTTTTTAATATATTATA
1 TTTTTTTAATATATTATA
11309 TTTTTTTATATATGATTAT
1 TTTTTTTA-ATAT-ATTAT
11328 TTGAAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 4 0.24
20 5 0.29
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (18 bp):
TTTTTTTAATATATTATA
Found at i:17764 original size:29 final size:29
Alignment explanation
Indices: 17732--17788 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
17722 TAAATGTTGG
17732 GAGACTGTATTGCAAGTTTTAAAAGTTAA
1 GAGACTGTATTGCAAGTTTTAAAAGTTAA
17761 GAGACTGTATTGCAAGTTTTAAAAGTTA
1 GAGACTGTATTGCAAGTTTTAAAAGTTA
17789 GGGGACCTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (29 bp):
GAGACTGTATTGCAAGTTTTAAAAGTTAA
Found at i:19982 original size:18 final size:18
Alignment explanation
Indices: 19953--19987 Score: 54
Period size: 17 Copynumber: 1.9 Consensus size: 18
19943 AGTCAGTTTG
19953 TAATTATTTTC-TACATA
1 TAATTATTTTCTTACATA
19970 TAATTATTTTTCTTACAT
1 TAATTA-TTTTCTTACAT
19988 TAAAATTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.31, C:0.11, G:0.00, T:0.57
Consensus pattern (18 bp):
TAATTATTTTCTTACATA
Found at i:23378 original size:31 final size:31
Alignment explanation
Indices: 23364--23422 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
23354 TACGTGTTTT
* *
23364 AAGTGGTGACATGACACAAATAACATGTTCA
1 AAGTGATGACATGACACATATAACATGTTCA
23395 AAGTGATGACATGACACATACT-ACATGT
1 AAGTGATGACATGACACATA-TAACATGT
23423 ACCGAGGCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
31 24 0.96
32 1 0.04
ACGTcount: A:0.41, C:0.17, G:0.19, T:0.24
Consensus pattern (31 bp):
AAGTGATGACATGACACATATAACATGTTCA
Found at i:24285 original size:18 final size:16
Alignment explanation
Indices: 24262--24309 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 16
24252 AAATTGTCCT
24262 TATTATATATTTATATAA
1 TATTATATATTTA-A-AA
*
24280 TATTATAAATTGTAAAA
1 TATTATATATT-TAAAA
24297 TATTTATATATTT
1 TA-TTATATATTT
24310 TCTTTAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
17 5 0.19
18 19 0.73
19 2 0.08
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (16 bp):
TATTATATATTTAAAA
Found at i:28414 original size:18 final size:17
Alignment explanation
Indices: 28389--28435 Score: 69
Period size: 18 Copynumber: 2.8 Consensus size: 17
28379 GGAAACAAAT
28389 AACATAATCATAAAAAC
1 AACATAATCATAAAAAC
*
28406 AACCATAATCATAAAAAG
1 AA-CATAATCATAAAAAC
28424 AA-ATAATCATAA
1 AACATAATCATAA
28436 TCATAAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 10 0.36
17 2 0.07
18 16 0.57
ACGTcount: A:0.64, C:0.15, G:0.02, T:0.19
Consensus pattern (17 bp):
AACATAATCATAAAAAC
Found at i:36122 original size:14 final size:14
Alignment explanation
Indices: 36103--36153 Score: 86
Period size: 14 Copynumber: 3.7 Consensus size: 14
36093 AATAATAAAA
36103 AATATTAATATAAT
1 AATATTAATATAAT
*
36117 AATATTAATA-AAA
1 AATATTAATATAAT
36130 AATATTAATATAAT
1 AATATTAATATAAT
36144 AATATTAATA
1 AATATTAATA
36154 AAAATGAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
13 12 0.35
14 22 0.65
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AATATTAATATAAT
Found at i:36125 original size:27 final size:27
Alignment explanation
Indices: 36095--36157 Score: 126
Period size: 27 Copynumber: 2.3 Consensus size: 27
36085 GAGAAAAGAA
36095 TAATAAAAAATATTAATATAATAATAT
1 TAATAAAAAATATTAATATAATAATAT
36122 TAATAAAAAATATTAATATAATAATAT
1 TAATAAAAAATATTAATATAATAATAT
36149 TAATAAAAA
1 TAATAAAAA
36158 TGAAAAAATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (27 bp):
TAATAAAAAATATTAATATAATAATAT
Found at i:36174 original size:26 final size:28
Alignment explanation
Indices: 36136--36191 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 28
36126 AAAAAATATT
36136 AATATAATAATAT-TAATAAAAATGAAAA
1 AATATAATAATATAT-ATAAAAATGAAAA
* *
36164 AATAT-AT-ATATATATAACAATGTAAA
1 AATATAATAATATATATAAAAATGAAAA
36190 AA
1 AA
36192 GAAATAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 17 0.68
27 3 0.12
28 5 0.20
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.30
Consensus pattern (28 bp):
AATATAATAATATATATAAAAATGAAAA
Found at i:36517 original size:34 final size:34
Alignment explanation
Indices: 36478--36564 Score: 124
Period size: 33 Copynumber: 2.6 Consensus size: 34
36468 AGTCCTACTT
**
36478 GGACTCAAAATGTTTTGGTTTTAGTGTTTTAATA
1 GGACTCAAAATACTTTGGTTTTAGTGTTTTAATA
*
36512 TGACTC-AAATACTTTGGTTTTAGTGTTTTAATA
1 GGACTCAAAATACTTTGGTTTTAGTGTTTTAATA
*
36545 GGACTC-AAATACGTTGGTTT
1 GGACTCAAAATACTTTGGTTT
36565 ATTTTTTGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 43 0.90
34 5 0.10
ACGTcount: A:0.26, C:0.09, G:0.20, T:0.45
Consensus pattern (34 bp):
GGACTCAAAATACTTTGGTTTTAGTGTTTTAATA
Found at i:36533 original size:33 final size:33
Alignment explanation
Indices: 36491--36564 Score: 130
Period size: 33 Copynumber: 2.2 Consensus size: 33
36481 CTCAAAATGT
*
36491 TTTGGTTTTAGTGTTTTAATATGACTCAAATAC
1 TTTGGTTTTAGTGTTTTAATAGGACTCAAATAC
36524 TTTGGTTTTAGTGTTTTAATAGGACTCAAATAC
1 TTTGGTTTTAGTGTTTTAATAGGACTCAAATAC
*
36557 GTTGGTTT
1 TTTGGTTT
36565 ATTTTTTGAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 39 1.00
ACGTcount: A:0.24, C:0.08, G:0.19, T:0.49
Consensus pattern (33 bp):
TTTGGTTTTAGTGTTTTAATAGGACTCAAATAC
Found at i:36625 original size:8 final size:8
Alignment explanation
Indices: 36612--36675 Score: 53
Period size: 8 Copynumber: 7.8 Consensus size: 8
36602 GGGGCCTGCA
36612 AAAATAAT
1 AAAATAAT
36620 AAAATAA-
1 AAAATAAT
36627 AATAATAAT
1 AA-AATAAT
36636 AATAATAA-
1 AA-AATAAT
36644 ATAAATAA-
1 A-AAATAAT
36652 ATAAATAAAT
1 A-AAAT-AAT
*
36662 AATATAAT
1 AAAATAAT
36670 AAAATA
1 AAAATA
36676 TTTTTGTAGA
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
7 2 0.04
8 32 0.65
9 14 0.29
10 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (8 bp):
AAAATAAT
Found at i:36635 original size:16 final size:15
Alignment explanation
Indices: 36614--36675 Score: 63
Period size: 16 Copynumber: 3.8 Consensus size: 15
36604 GGCCTGCAAA
36614 AATAATAAAATAAAAT
1 AATAATAAAAT-AAAT
36630 AATAATAATAATAAAT
1 AATAATAA-AATAAAT
36646 AAATAA-ATAAATAAAT
1 -AATAATA-AAATAAAT
36662 AATATAATAAAATA
1 -A-ATAATAAAATA
36676 TTTTTGTAGA
Statistics
Matches: 41, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
16 22 0.54
17 18 0.44
18 1 0.02
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AATAATAAAATAAAT
Found at i:36648 original size:4 final size:4
Alignment explanation
Indices: 36639--36672 Score: 52
Period size: 4 Copynumber: 8.5 Consensus size: 4
36629 TAATAATAAT
36639 AATA AATA AATA AATA AATA AAT- AATA TAATA AA
1 AATA AATA AATA AATA AATA AATA AATA -AATA AA
36673 ATATTTTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 3 0.11
4 21 0.75
5 4 0.14
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (4 bp):
AATA
Found at i:36654 original size:12 final size:11
Alignment explanation
Indices: 36613--36672 Score: 70
Period size: 12 Copynumber: 5.3 Consensus size: 11
36603 GGGCCTGCAA
36613 AAATAATAAAAT
1 AAATAAT-AAAT
36625 AAAATAAT-AAT
1 -AAATAATAAAT
36636 -AATAATAAAT
1 AAATAATAAAT
36646 AAATAAATAAAT
1 AAAT-AATAAAT
36658 AAATAATATAAT
1 AAATAATA-AAT
36670 AAA
1 AAA
36673 ATATTTTTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 9
0.83 0.00 0.17
Matches are distributed among these distances:
9 6 0.14
10 3 0.07
11 10 0.23
12 17 0.40
13 7 0.16
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAATAATAAAT
Found at i:36674 original size:29 final size:31
Alignment explanation
Indices: 36612--36675 Score: 84
Period size: 29 Copynumber: 2.2 Consensus size: 31
36602 GGGGCCTGCA
36612 AAAAT-AATAAAATAAAATAATAATAATAAT
1 AAAATAAATAAAATAAAATAATAATAATAAT
36642 -AAATAAAT-AAAT-AAATAAATAAT-ATAAT
1 AAAATAAATAAAATAAAAT-AATAATAATAAT
36670 AAAATA
1 AAAATA
36676 TTTTTGTAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
28 9 0.29
29 19 0.61
30 3 0.10
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (31 bp):
AAAATAAATAAAATAAAATAATAATAATAAT
Found at i:37174 original size:84 final size:84
Alignment explanation
Indices: 37017--37784 Score: 562
Period size: 84 Copynumber: 9.2 Consensus size: 84
37007 CTTAATGGAA
* * * * * * * *
37017 TCGAACTCGAAGGTCTTTG--G-CAGATAGCCCTTATTGCCTTGAGCTATGCTGCAAATGATATT
1 TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGAT-GT
* * * *
37079 GTCTTTG-AGCTGAGTGGAG
65 GCCCTCGAAGCTGAGTGTAG
* * * * * *
37098 TCGAACTTGAAGGTCTTTGTTGACATATAACCCTTCTAGCCTTGAGTTATG-TCATAAATGATGT
1 TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGACTTAAGTTATGCT-GTAAATGATGT
*
37162 GCCCTCGAAGCTGAGTGTAA
65 GCCCTCGAAGCTGAGTGTAG
* * * *
37182 TCGGACTAGAGGGTCTTTG--G-CAGATAACCCTTCTCGACTTAAGCTATGCTGTAAATGATGTG
1 TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTG
* * * *
37244 -CCTTGGAGTTGAGCGTAG
66 CCCTCGAAGCTGAGTGTAG
* * * * * * *
37262 TCAAACTCGAAGGTTTTTGGTTGGCATATAACCCTTCTCGACTTAAGTTATGCTGCAAATTATAT
1 TCGAACTCGAAGGTCTTT-GTTGACAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGT
* * *
37327 GCCTTAG-AGCTGAGTGCAG
65 GCCCTCGAAGCTGAGTGTAG
* * * * * *
37346 TCAAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
1 TCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGT
* * *
37411 TCCCTCGAATCTGAGTGTAA
65 GCCCTCGAAGCTGAGTGTAG
* * * * * * * *
37431 CCAAACTCG-AGG-GTTT-TTGGCAGATAGCTCTTCTCGACTTAAGCTATGCTGTAAATAATGTG
1 TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTG
* * *
37493 -CCTTGAAGTTGAGCGTAG
66 CCCTCGAAGCTGAGTGTAG
* * * *
37511 TCGAACTAGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTT-GTTGACAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGT
* * *
37576 GCCTTAG-AGCTGAGCGTAG
65 GCCCTCGAAGCTGAGTGTAG
* * * * * * *
37595 TCGAACTCGAAGGT-TTTTTTGGTCACATATAACCCTTCTAGCCTTGAGTTTTACTGTAAATGAT
1 TCGAACTCGAAGGTCTTTGTT-G--ACAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGAT
*
37659 GTGCCCTCGAAGCTGAGTGTAA
63 GTGCCCTCGAAGCTGAGTGTAG
* * * ** *
37681 TCGAACTCTAGGGTTTTTCGGTTGGTAGATAACCCTTCTTGACTTAAGTTATGCTGTAAATGATG
1 TCGAACTCGAAGGTCTTT--GTTGACAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATG
* * * *
37746 TG-TCTTGGAGCTGAGAGTAG
64 TGCCCTCGAAGCTGAGTGTAG
* * *
37766 CCGAACTTGAAGGCCTTTG
1 TCGAACTCGAAGGTCTTTG
37785 GTGGGCACAA
Statistics
Matches: 534, Mismatches: 128, Indels: 48
0.75 0.18 0.07
Matches are distributed among these distances:
80 45 0.08
81 91 0.17
82 10 0.02
83 13 0.02
84 223 0.42
85 89 0.17
86 57 0.11
87 3 0.01
88 1 0.00
89 2 0.00
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTCGACTTAAGTTATGCTGTAAATGATGTG
CCCTCGAAGCTGAGTGTAG
Found at i:37313 original size:165 final size:164
Alignment explanation
Indices: 36998--37765 Score: 643
Period size: 165 Copynumber: 4.6 Consensus size: 164
36988 CGGTTGATAC
* * * * * * * * * *
36998 GCCCTCG-AGCTTAATGGAATCGAACTCGAAGGTC-TTTGGCAGATAGCCCTTATTGCCTTGAGC
1 GCCCTCGAAGCTGAGTGTAATCGAACTAGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGT
* * * * * * * * * *
37061 TATGCTGCAAATGATATTGTCTTTGAGCTGAGTGGAGTCGAACTTGAAGGTCTTTGTTGACATAT
66 TATGCTGTAAATGAT-GTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGT-TTTTTTGGCATAT
* * *
37126 AACCCTTCTAGCCTTGAGTTATG-TCATAAATGATGT
129 AACCCTTCTAGACTTAAGTTATGCT-GTAAATGATGT
* * *
37162 GCCCTCGAAGCTGAGTGTAATCGGACTAGAGGGTC-TTTGGCAGATAACCCTTCTCGACTTAAGC
1 GCCCTCGAAGCTGAGTGTAATCGAACTAGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGT
*
37226 TATGCTGTAAATGATGTGCCTTGGAGTTGAGCGTAGTCAAACTCGAAGGTTTTTGGTTGGCATAT
66 TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTTTTT--TTGGCATAT
* * * *
37291 AACCCTTCTCGACTTAAGTTATGCTGCAAATTATAT
129 AACCCTTCTAGACTTAAGTTATGCTGTAAATGATGT
* * * * * * * * *
37327 GCCTTAG-AGCTGAGTGCAGTCAAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTG
1 GCCCTCGAAGCTGAGTGTAATCGAACTAGAAGGTCTTTTGG---CAGATAACCCTTCTCGACTTA
* * * * * ** * *
37391 AGTTATGCTGTAAATGATGTTCCCTCGAATCTGAGTGTAACCAAACTCG-AGG-GTTTTTGGCAG
63 AGTTATGCTGTAAATGATG-TGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTTTTTTTGGCAT
* * * * *
37454 ATAGCTCTTCTCGACTTAAGCTATGCTGTAAATAATGT
127 ATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATGT
* * * *
37492 G-CCTTGAAGTTGAGCGTAGTCGAACTAGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTA
1 GCCCTCGAAGCTGAGTGTAATCGAACTAGAAGGTC-TT--TTGGCAGATAACCCTTCTCGACTTA
* * * *
37556 AGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGTCGAACTCGAAGGTTTTTTTGGTCAC
63 AGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTTTTTTTGG---C
* * * *
37621 ATATAACCCTTCTAGCCTTGAGTTTTACTGTAAATGATGT
125 ATATAACCCTTCTAGACTTAAGTTATGCTGTAAATGATGT
** * * * *
37661 GCCCTCGAAGCTGAGTGTAATCGAACTCTAGGGTTTTTCGGTTGGTAGATAACCCTTCTTGACTT
1 GCCCTCGAAGCTGAGTGTAATCGAACTAGAAGG-TCTT---TTGGCAGATAACCCTTCTCGACTT
* *
37726 AAGTTATGCTGTAAATGATGTGTCTTGGAGCTGAGAGTAG
62 AAGTTATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAG
37766 CCGAACTTGA
Statistics
Matches: 479, Mismatches: 104, Indels: 35
0.78 0.17 0.06
Matches are distributed among these distances:
163 3 0.01
164 78 0.16
165 203 0.42
166 10 0.02
167 3 0.01
168 43 0.09
169 53 0.11
170 26 0.05
171 60 0.13
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (164 bp):
GCCCTCGAAGCTGAGTGTAATCGAACTAGAAGGTCTTTTGGCAGATAACCCTTCTCGACTTAAGT
TATGCTGTAAATGATGTGCCTTGGAGCTGAGCGTAGTCAAACTCGAAGGTTTTTTTGGCATATAA
CCCTTCTAGACTTAAGTTATGCTGTAAATGATGT
Found at i:37505 original size:249 final size:249
Alignment explanation
Indices: 37033--37791 Score: 991
Period size: 249 Copynumber: 3.0 Consensus size: 249
37023 TCGAAGGTCT
* * * * * * * * *
37033 TTGGCAGATAGCCCTTATTGCCTTGAGCTATGCTGCAAATGATATTGTCTTTGAGCTGAGTGGAG
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATA-TGCCTTAGAGCTGAGTGCAG
* * * *
37098 TCGAACTTGAAGGTC-TTTGTTGACATATAACCCTTCTAGCCTTGAGTTATG-TCATAAATGATG
65 TCGAACTCGAAGGTCTTTTGGTCACATATAACCCTTCTAGCCTTGAGTTATGCT-GTAAATGATG
* * *
37161 TGCCCTCGAAGCTGAGTGTAATCGGACTAGAGGGTCTTTGGCAGATAACCCTTCTCGACTTAAGC
129 TGCCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTTTTTGGCAGATAACCCTTCTCGACTTAAGC
* * *
37226 TATGCTGTAAATGATGTGCCTTGGAGTTGAGCGTAGTCAAACTCGAAGGTTTTTGG
194 TATGCTGTAAATGATGTGCCTTGAAGTTGAGCGTAGTCAAACTAGAAGGTCTTTGG
* *
37282 TTGGCATATAACCCTTCTCGACTTAAGTTATGCTGCAAATTATATGCCTTAGAGCTGAGTGCAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGTGCAGT
* * *
37347 CAAACTCGAAGGTCTTTTGGTCACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTT
66 CGAACTCGAAGGTCTTTTGGTCACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
* * * * *
37412 CCCTCGAATCTGAGTGTAACCAAACTCGAGGGTTTTTGGCAGATAGCTCTTCTCGACTTAAGCTA
131 CCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTTTTTGGCAGATAACCCTTCTCGACTTAAGCTA
* *
37477 TGCTGTAAATAATGTGCCTTGAAGTTGAGCGTAGTCGAACTAGAAGGTCTTTGG
196 TGCTGTAAATGATGTGCCTTGAAGTTGAGCGTAGTCAAACTAGAAGGTCTTTGG
* *
37531 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGCGTAGT
1 TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGTGCAGT
* * *
37596 CGAACTCGAAGGTTTTTTTGGTCACATATAACCCTTCTAGCCTTGAGTTTTACTGTAAATGATGT
66 CGAACTCGAAGG-TCTTTTGGTCACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGT
* * *
37661 GCCCTCGAAGCTGAGTGTAATCGAACTCTAGGGTTTTTCGGTTGGTAGATAACCCTTCTTGACTT
130 GCCCTCGAAGCTGAGTGTAATCGAACTCGAGGG--TTT---TTGGCAGATAACCCTTCTCGACTT
* * * * * * * * *
37726 AAGTTATGCTGTAAATGATGTGTCTTGGAGCTGAGAGTAGCCGAACTTGAAGGCCTTTGG
190 AAGCTATGCTGTAAATGATGTGCCTTGAAGTTGAGCGTAGTCAAACTAGAAGGTCTTTGG
*
37786 TGGGCA
1 TTGGCA
37792 CAATTCCCTT
Statistics
Matches: 443, Mismatches: 59, Indels: 10
0.87 0.12 0.02
Matches are distributed among these distances:
248 30 0.07
249 257 0.58
250 77 0.17
252 3 0.01
255 76 0.17
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (249 bp):
TTGGCAGATAACCCTTCTCGACTTAAGTTATGCTGCAAATGATATGCCTTAGAGCTGAGTGCAGT
CGAACTCGAAGGTCTTTTGGTCACATATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATGTG
CCCTCGAAGCTGAGTGTAATCGAACTCGAGGGTTTTTGGCAGATAACCCTTCTCGACTTAAGCTA
TGCTGTAAATGATGTGCCTTGAAGTTGAGCGTAGTCAAACTAGAAGGTCTTTGG
Found at i:38111 original size:110 final size:110
Alignment explanation
Indices: 37893--38438 Score: 805
Period size: 110 Copynumber: 5.0 Consensus size: 110
37883 ATCCAAATAT
* * * * * *
37893 TTGTGCTGTTTCGAGGCCAATATCCTTCGCCGTGAAGTTGAAATTGACTC----TGAAACTGGAA
1 TTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* * * *
37954 AGTTGTTTGTTGACAGCCAGCCGCCCCTTCGTTGTGAAGTTGGGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
* *
37999 TTGTGTTGTCTCGAGTCCAATATCATTCGCTGTAAAGTTGAAATTGAATCTGAATGAAACTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* *
38064 AGTTGTTTTTTGACAGTCAGTCGCCCATTCGCTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
* * * *
38109 TTGTGTTGTCTCGAGTCCGATATCCTTCGTTGTGAAATTGAAATTGACTCTGAATGAAACTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* *
38174 AGTTGTTTATTGACAGTCAGTCGCCCCTTCGCTGTAAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
38219 TTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACT-AAA
1 TTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
*
38283 ATGTTGTTTGTTAACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
66 A-GTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
* * *
38329 TTGTGTTGTCTCGAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGACTATGAATGAAACTGAAA
1 TTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
* * *
38394 AGTTGTTTGATGACCGTCAGTCGCCCCTTCGTTGTGAAGTTGAGC
66 AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
38439 AACCACCATC
Statistics
Matches: 397, Mismatches: 37, Indels: 8
0.90 0.08 0.02
Matches are distributed among these distances:
106 43 0.11
109 4 0.01
110 346 0.87
111 4 0.01
ACGTcount: A:0.24, C:0.18, G:0.24, T:0.34
Consensus pattern (110 bp):
TTGTGTTGTCTCGAGTCCAATATCATTCGCTGTGAAGTTGAAATTGACTCTGAATGAAACTGAAA
AGTTGTTTGTTGACAGTCAGTCGCCCCTTCGCTGTGAAGTTGAGC
Found at i:41130 original size:16 final size:17
Alignment explanation
Indices: 41101--41133 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
41091 TGAAAAATAA
*
41101 ATGTCTTACTCCACATG
1 ATGTCTTACCCCACATG
41118 ATGT-TTACCCCACATG
1 ATGTCTTACCCCACATG
41134 CTTTAATTCC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.24, C:0.30, G:0.12, T:0.33
Consensus pattern (17 bp):
ATGTCTTACCCCACATG
Found at i:41512 original size:65 final size:64
Alignment explanation
Indices: 41434--41592 Score: 282
Period size: 65 Copynumber: 2.4 Consensus size: 64
41424 ATTCCCTTAT
*
41434 GCCCATACGGAGAATAAATTCACACGAAGAAATAAGGTATATGAATCTCGAAGGTTACTTGCTAG
1 GCCCATAC-GAGAATAAATTCCCACGAAGAAATAAGGTATATGAATCTCGAAGGTTACTTGCTAG
41499 GCCCATACAGAGAATAAATTCCCACGAAGAAATAAGGTATATGAATCTCGAAGGTTACTTGCTAG
1 GCCCATAC-GAGAATAAATTCCCACGAAGAAATAAGGTATATGAATCTCGAAGGTTACTTGCTAG
41564 GCCCATACGAAGAATAAATTCCCACGAAG
1 GCCCATACG-AGAATAAATTCCCACGAAG
41593 GCATCACTTT
Statistics
Matches: 91, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
64 1 0.01
65 90 0.99
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.21
Consensus pattern (64 bp):
GCCCATACGAGAATAAATTCCCACGAAGAAATAAGGTATATGAATCTCGAAGGTTACTTGCTAG
Found at i:42226 original size:2 final size:2
Alignment explanation
Indices: 42221--42249 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
42211 TAAAAAATGA
42221 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
42250 ACAATGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42330 original size:16 final size:17
Alignment explanation
Indices: 42287--42331 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 17
42277 AAATTAGGAG
42287 AAAATGAAA-AAATATA
1 AAAATGAAATAAATATA
*
42303 TAAA-GTAAATAAATA-A
1 AAAATG-AAATAAATATA
42319 AAAATGAAATAAA
1 AAAATGAAATAAA
42332 AAGAATAAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
15 1 0.04
16 17 0.71
17 6 0.25
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (17 bp):
AAAATGAAATAAATATA
Found at i:42732 original size:3 final size:3
Alignment explanation
Indices: 42704--42779 Score: 72
Period size: 3 Copynumber: 26.0 Consensus size: 3
42694 TGCGGGGCCT
* *
42704 ATA AAA ATA ATA A-A ATA AAA AT- ATA ATA ATA ATA ATA ATA ATA ATAA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT-A
42751 ATAA ATA TATA AT- ATA ATA A-A ATA A-A ATA
1 AT-A ATA -ATA ATA ATA ATA ATA ATA ATA ATA
42780 TTTTTGTAGA
Statistics
Matches: 62, Mismatches: 4, Indels: 14
0.77 0.05 0.17
Matches are distributed among these distances:
2 10 0.16
3 42 0.68
4 10 0.16
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:45640 original size:33 final size:33
Alignment explanation
Indices: 45567--45688 Score: 124
Period size: 33 Copynumber: 3.7 Consensus size: 33
45557 CCTTTGAATC
* *
45567 ATAGATATATTT--TAATTTATTAAAATAACATA
1 ATAGATATATTTCATAATTT-TAAAAATAACATT
*
45599 ATAGATATATTTCATAATTTTAAAAATAATATT
1 ATAGATATATTTCATAATTTTAAAAATAACATT
* * * *
45632 ATATATATATATGCGT-ATTTTAAAAATAACAGT
1 ATAGATATAT-TTCATAATTTTAAAAATAACATT
* *
45665 ATAGATACATTTTATAATTTTAAA
1 ATAGATATATTTCATAATTTTAAA
45689 TATCATTGAA
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
32 14 0.19
33 50 0.68
34 9 0.12
ACGTcount: A:0.48, C:0.04, G:0.05, T:0.43
Consensus pattern (33 bp):
ATAGATATATTTCATAATTTTAAAAATAACATT
Found at i:45808 original size:17 final size:18
Alignment explanation
Indices: 45775--45808 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45765 ATCGTTTAAA
*
45775 ATAAAATCAATATATATT
1 ATAAAATCAATAAATATT
45793 ATAAAAT-AATAAATAT
1 ATAAAATCAATAAATAT
45809 AAAATTATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
ATAAAATCAATAAATATT
Found at i:46852 original size:90 final size:90
Alignment explanation
Indices: 46695--46868 Score: 258
Period size: 90 Copynumber: 1.9 Consensus size: 90
46685 GTAACTATCC
* * **
46695 CAATATGATGCTGGATTAAAGTATGGCTGAGAATTTACATCATAAATGCTGATAGTTTCATAACT
1 CAATATGATGCTGGATTAAAGTATGGCTGAGAATTTACATCATAAATGCTGACAATGCCATAACT
46760 CTGACTATGTTCAAATCCACTCCCA
66 CTGACTATGTTCAAATCCACTCCCA
* * * * *
46785 CAATATGTTGGTGGATTAAAGTATGGCTGAGAATTTACATCATAAATGTTGACAATGCCGTATCT
1 CAATATGATGCTGGATTAAAGTATGGCTGAGAATTTACATCATAAATGCTGACAATGCCATAACT
*
46850 CTGATTATGTTCAAATCCA
66 CTGACTATGTTCAAATCCA
46869 TCCGGCTCGG
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
90 74 1.00
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (90 bp):
CAATATGATGCTGGATTAAAGTATGGCTGAGAATTTACATCATAAATGCTGACAATGCCATAACT
CTGACTATGTTCAAATCCACTCCCA
Found at i:48605 original size:23 final size:22
Alignment explanation
Indices: 48578--48631 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 22
48568 TTGTGTTCGG
48578 TTCGTTTATCATTTGT-AAACATA
1 TTCGTTTAT-ATTTGTCAAA-ATA
*
48601 TTCGTTTAATGTTTGTCAAAATA
1 TTCGTTT-ATATTTGTCAAAATA
48624 TTCGTTTA
1 TTCGTTTA
48632 ACAGTTATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 1 0.04
23 22 0.79
24 5 0.18
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (22 bp):
TTCGTTTATATTTGTCAAAATA
Found at i:48632 original size:23 final size:23
Alignment explanation
Indices: 48589--48632 Score: 72
Period size: 23 Copynumber: 1.9 Consensus size: 23
48579 TCGTTTATCA
48589 TTTGTAAACATATTCGTTTAATG
1 TTTGTAAACATATTCGTTTAATG
48612 TTTGTCAAA-ATATTCGTTTAA
1 TTTGT-AAACATATTCGTTTAA
48633 CAGTTATGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
23 17 0.85
24 3 0.15
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (23 bp):
TTTGTAAACATATTCGTTTAATG
Found at i:57157 original size:16 final size:17
Alignment explanation
Indices: 57136--57173 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
57126 GAAGTCAAAC
57136 AATAAAACAAACAAGA-
1 AATAAAACAAACAAGAT
*
57152 AAT-AAATAAACAAGAT
1 AATAAAACAAACAAGAT
57168 AATAAA
1 AATAAA
57174 CGAATAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 11 0.58
16 6 0.32
17 2 0.11
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (17 bp):
AATAAAACAAACAAGAT
Found at i:57163 original size:39 final size:39
Alignment explanation
Indices: 57132--57211 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
57122 ACATGAAGTC
57132 AAAC-AATAAAACAAACAAGAAATAAATAAACAAGATAAT
1 AAACGAATAAAACAAA-AAGAAATAAATAAACAAGATAAT
* * * *
57171 AAACGAATAAAATAAAAATAAACAAATAAACAATA-AAT
1 AAACGAATAAAACAAAAAGAAATAAATAAACAAGATAAT
57209 AAA
1 AAA
57212 TAAATAAGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
38 6 0.17
39 20 0.56
40 10 0.28
ACGTcount: A:0.74, C:0.09, G:0.04, T:0.14
Consensus pattern (39 bp):
AAACGAATAAAACAAAAAGAAATAAATAAACAAGATAAT
Found at i:57208 original size:19 final size:19
Alignment explanation
Indices: 57140--57218 Score: 70
Period size: 19 Copynumber: 4.1 Consensus size: 19
57130 TCAAACAATA
* * *
57140 AAACAAACAAGAAATAAAT
1 AAACAAAAAATAAACAAAT
* *
57159 AAACAAGATAATAAACGAAT
1 AAACAA-AAAATAAACAAAT
57179 AAA-ATAAAAATAAACAAAT
1 AAACA-AAAAATAAACAAAT
* *
57198 AAACAATAAATAAATAAAT
1 AAACAAAAAATAAACAAAT
57217 AA
1 AA
57219 GTAAATTAGA
Statistics
Matches: 49, Mismatches: 8, Indels: 6
0.78 0.13 0.10
Matches are distributed among these distances:
19 35 0.71
20 14 0.29
ACGTcount: A:0.73, C:0.08, G:0.04, T:0.15
Consensus pattern (19 bp):
AAACAAAAAATAAACAAAT
Found at i:57729 original size:12 final size:12
Alignment explanation
Indices: 57693--57756 Score: 52
Period size: 10 Copynumber: 5.8 Consensus size: 12
57683 AAGGATTCAA
57693 AATATATAT-AT
1 AATATATATAAT
57704 -ATATAGTAATAAT
1 AATATA-T-ATAAT
57717 AATATATATAAT
1 AATATATATAAT
*
57729 AA-A-ATGTAAT
1 AATATATATAAT
57739 -ATATATA-AA-
1 AATATATATAAT
57748 AATATATAT
1 AATATATAT
57757 TTGATTGAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 16
0.70 0.03 0.26
Matches are distributed among these distances:
9 1 0.02
10 21 0.49
11 4 0.09
12 9 0.21
13 3 0.07
14 5 0.12
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (12 bp):
AATATATATAAT
Found at i:60433 original size:76 final size:74
Alignment explanation
Indices: 60291--60433 Score: 169
Period size: 76 Copynumber: 1.9 Consensus size: 74
60281 GTTCTTTCTC
* * * * *** **
60291 TTTTCTTTTTTTTTTTTTTCAATTTAGGGCGCCCTTTCGGGTTTTCACCCTAAACGTTTTTGTTT
1 TTTTCTTTTTTCTTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACGAAGTACTTT
60356 TTTGTTTTT
66 TTTGTTTTT
* *
60365 TTTTCCTTTTTCTCTTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCATCCTAAGCGAAGTACT
1 TTTT-CTTTTT-TCTTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACGAAGTACT
60430 TTTT
64 TTTT
60434 GACTGCATCC
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
74 4 0.07
75 6 0.11
76 46 0.82
ACGTcount: A:0.12, C:0.20, G:0.13, T:0.55
Consensus pattern (74 bp):
TTTTCTTTTTTCTTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACGAAGTACTTT
TTTGTTTTT
Found at i:70753 original size:16 final size:16
Alignment explanation
Indices: 70734--70772 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 16
70724 ATGAAGTCAA
70734 AAATAAAACAAACAAG
1 AAATAAAACAAACAAG
*
70750 AAAT-AAATAAACAAG
1 AAATAAAACAAACAAG
70765 ATAATAAA
1 A-AATAAA
70773 CAGATAAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 11 0.55
16 7 0.35
17 2 0.10
ACGTcount: A:0.74, C:0.08, G:0.05, T:0.13
Consensus pattern (16 bp):
AAATAAAACAAACAAG
Found at i:70807 original size:19 final size:19
Alignment explanation
Indices: 70734--70817 Score: 71
Period size: 19 Copynumber: 4.3 Consensus size: 19
70724 ATGAAGTCAA
* * *
70734 AAATAAAACAAACAAGAAAT
1 AAAT-AAACAAAAAATAAAC
*
70754 AAATAAACAAGATAATAAAC
1 AAATAAACAA-AAAATAAAC
*
70774 AGATAAA-ATAAAAATAAAC
1 AAATAAACA-AAAAATAAAC
* *
70793 AAATAAACAATAAATAAAT
1 AAATAAACAAAAAATAAAC
70812 AAATAA
1 AAATAA
70818 GTAAATTAGA
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
19 35 0.66
20 18 0.34
ACGTcount: A:0.74, C:0.07, G:0.04, T:0.15
Consensus pattern (19 bp):
AAATAAACAAAAAATAAAC
Found at i:70881 original size:23 final size:22
Alignment explanation
Indices: 70854--70918 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 22
70844 AAAAAAAATG
70854 AAATACAAATACAAAAATTAAT
1 AAATACAAATACAAAAATTAAT
* *
70876 AGAATAAAAATAGTAAAAA-TAAT
1 A-AATACAAATA-CAAAAATTAAT
*
70899 AAATACGAAAAACTAAAAAT
1 AAATAC-AAATAC-AAAAAT
70919 GATAATATAT
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
22 5 0.15
23 23 0.70
24 5 0.15
ACGTcount: A:0.69, C:0.06, G:0.05, T:0.20
Consensus pattern (22 bp):
AAATACAAATACAAAAATTAAT
Found at i:71033 original size:21 final size:20
Alignment explanation
Indices: 70993--71033 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
70983 CATCGAAAGT
*
70993 AAAAAAAAGGTACAGATTTG
1 AAAAAAAAGGTAAAGATTTG
*
71013 AAAAAAAAGGGTAAAGGTTTG
1 AAAAAAAA-GGTAAAGATTTG
71034 GTCAGCTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.54, C:0.02, G:0.24, T:0.20
Consensus pattern (20 bp):
AAAAAAAAGGTAAAGATTTG
Found at i:71322 original size:19 final size:18
Alignment explanation
Indices: 71300--71335 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
71290 TATATAGTAA
*
71300 TAATATATCTAATAAAATG
1 TAATATATATAA-AAAATG
71319 TAATATATATAAAAAAT
1 TAATATATATAAAAAAT
71336 ATATGATTGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (18 bp):
TAATATATATAAAAAATG
Done.