Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 118 of 129
Found at i:21171752 original size:18 final size:19
Alignment explanation
Indices: 21171730--21171777 Score: 64
Period size: 17 Copynumber: 2.6 Consensus size: 19
21171720 TAAGCAAATT
21171730 AAAAAATAAAAACAAAAAC
1 AAAAAATAAAAACAAAAAC
*
21171749 -AAAAAT-AAAACTAAAAC
1 AAAAAATAAAAACAAAAAC
21171766 TAAAAAATAAAA
1 -AAAAAATAAAA
21171778 TGAAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 10 0.40
18 6 0.24
19 6 0.24
20 3 0.12
ACGTcount: A:0.81, C:0.08, G:0.00, T:0.10
Consensus pattern (19 bp):
AAAAAATAAAAACAAAAAC
Found at i:21172495 original size:20 final size:20
Alignment explanation
Indices: 21172458--21172495 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
21172448 CTTTTTAATT
*
21172458 TTTAATATTTTATATTTAAA
1 TTTAACATTTTATATTTAAA
21172478 TTTAACATTATTAT-TTTA
1 TTTAACATT-TTATATTTA
21172496 TTTTATGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.61
Consensus pattern (20 bp):
TTTAACATTTTATATTTAAA
Found at i:21173083 original size:6 final size:6
Alignment explanation
Indices: 21173039--21173065 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
21173029 TTATAGAATA
21173039 TTTTAT TTTTAT TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTT
21173066 ACCAACCTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:21173430 original size:6 final size:6
Alignment explanation
Indices: 21173419--21173482 Score: 51
Period size: 6 Copynumber: 10.5 Consensus size: 6
21173409 GCAAGTAAAT
* * * *
21173419 AAATAA AAATAA AAACAA AACTAA AACTAA AAA-ATA AAA-CA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATA-A AAATAA AAATAA
21173466 AAATACCA AAATAA AAA
1 AAATA--A AAATAA AAA
21173483 AAATTGATTG
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
5 5 0.10
6 37 0.77
8 6 0.12
ACGTcount: A:0.78, C:0.09, G:0.00, T:0.12
Consensus pattern (6 bp):
AAATAA
Found at i:21173449 original size:18 final size:17
Alignment explanation
Indices: 21173424--21173468 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 17
21173414 TAAATAAATA
21173424 AAAATAAAAACAAAACT
1 AAAATAAAAACAAAACT
*
21173441 AAAACTAAAAAATAAAAC-
1 AAAA-T-AAAAACAAAACT
21173459 AAAATAAAAA
1 AAAATAAAAA
21173469 TACCAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 5 0.20
17 5 0.20
18 5 0.20
19 10 0.40
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAATAAAAACAAAACT
Found at i:21173457 original size:19 final size:17
Alignment explanation
Indices: 21173424--21173468 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
21173414 TAAATAAATA
21173424 AAAAT-AAAAACAAAAC
1 AAAATAAAAAACAAAAC
*
21173440 TAAAACTAAAAAATAAAAC
1 -AAAA-TAAAAAACAAAAC
21173459 AAAATAAAAA
1 AAAATAAAAA
21173469 TACCAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 10 0.40
18 5 0.20
19 10 0.40
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (17 bp):
AAAATAAAAAACAAAAC
Found at i:21173457 original size:25 final size:25
Alignment explanation
Indices: 21173423--21173482 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 25
21173413 GTAAATAAAT
*
21173423 AAAAATAAAAACAAAACTAAAACTA-
1 AAAAATAAAAACAAAA-TAAAAATAC
21173448 AAAAAT-AAAACAAAATAAAAATAC
1 AAAAATAAAAACAAAATAAAAATAC
*
21173472 CAAAATAAAAA
1 AAAAATAAAAA
21173483 AAATTGATTG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
23 7 0.23
24 14 0.45
25 10 0.32
ACGTcount: A:0.78, C:0.10, G:0.00, T:0.12
Consensus pattern (25 bp):
AAAAATAAAAACAAAATAAAAATAC
Found at i:21173954 original size:23 final size:21
Alignment explanation
Indices: 21173903--21173954 Score: 52
Period size: 23 Copynumber: 2.3 Consensus size: 21
21173893 TAATTATTTT
21173903 AATATAAAAATAATAAATAAA
1 AATATAAAAATAATAAATAAA
21173924 ATATTATAAAAAT-ATCAAAATTAAA
1 A-A-TATAAAAATAAT--AAA-TAAA
21173949 AATATA
1 AATATA
21173955 TATTGTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
21 1 0.04
22 3 0.12
23 13 0.50
24 4 0.15
25 5 0.19
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
AATATAAAAATAATAAATAAA
Found at i:21174155 original size:21 final size:20
Alignment explanation
Indices: 21174131--21174180 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
21174121 TTATTTTTAT
*
21174131 TTTTTATTTTTAACTTTTAAC
1 TTTTTATTTTTAA-ATTTAAC
*
21174152 TTTTTATATTTAAATTTAAC
1 TTTTTATTTTTAAATTTAAC
21174172 TTTATTATT
1 TTT-TTATT
21174181 GTATTTTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.36
21 16 0.64
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (20 bp):
TTTTTATTTTTAAATTTAAC
Found at i:21175098 original size:7 final size:6
Alignment explanation
Indices: 21175078--21175144 Score: 64
Period size: 6 Copynumber: 10.8 Consensus size: 6
21175068 AATTGTATAT
* *
21175078 AAATAA AAATAA AAATAA AAA-AGT AAATCAA TAAATAA AAATAA AAACAA
1 AAATAA AAATAA AAATAA AAATA-A AAAT-AA -AAATAA AAATAA AAATAA
* *
21175128 AAGTAA AACTAA AAATA
1 AAATAA AAATAA AAATA
21175145 TAATATAATA
Statistics
Matches: 50, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
5 1 0.02
6 42 0.84
7 2 0.04
8 5 0.10
ACGTcount: A:0.76, C:0.04, G:0.03, T:0.16
Consensus pattern (6 bp):
AAATAA
Found at i:21175120 original size:26 final size:24
Alignment explanation
Indices: 21175077--21175124 Score: 78
Period size: 26 Copynumber: 1.9 Consensus size: 24
21175067 AAATTGTATA
21175077 TAAATAAAAATAAAAATAAAAAAG
1 TAAATAAAAATAAAAATAAAAAAG
21175101 TAAATCAATAAATAAAAATAAAAA
1 TAAAT-AA-AAATAAAAATAAAAA
21175125 CAAAAGTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 5 0.23
25 2 0.09
26 15 0.68
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.19
Consensus pattern (24 bp):
TAAATAAAAATAAAAATAAAAAAG
Found at i:21176223 original size:22 final size:22
Alignment explanation
Indices: 21176195--21176238 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
21176185 GTTGCATTCC
21176195 AATCTTTT-TTTTATATATATCT
1 AATCTTTTCTTTT-TATATATCT
*
21176217 AATCTTTTCTTTTTATTTATCT
1 AATCTTTTCTTTTTATATATCT
21176239 TTTTTGATGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.23, C:0.11, G:0.00, T:0.66
Consensus pattern (22 bp):
AATCTTTTCTTTTTATATATCT
Found at i:21181079 original size:21 final size:21
Alignment explanation
Indices: 21181044--21181097 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
21181034 GTTGTGAGTT
* *
21181044 ATTGCTACTGATCATTCAAG-C
1 ATTGCTATTGCTCA-TCAAGTC
*
21181065 ATTGCTCTTGCTCATCAAGTC
1 ATTGCTATTGCTCATCAAGTC
*
21181086 TTTGCTATTGCT
1 ATTGCTATTGCT
21181098 GTTAAATGAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 5 0.19
21 22 0.81
ACGTcount: A:0.20, C:0.24, G:0.15, T:0.41
Consensus pattern (21 bp):
ATTGCTATTGCTCATCAAGTC
Found at i:21184755 original size:22 final size:22
Alignment explanation
Indices: 21184729--21184772 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
21184719 GGATTATGCA
*
21184729 TTTTAATTA-AATATTAATTAAT
1 TTTTAATTACAA-AATAATTAAT
21184751 TTTTAATTACAAAATAATTAAT
1 TTTTAATTACAAAATAATTAAT
21184773 ATTTGATGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 18 0.90
23 2 0.10
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTAATTACAAAATAATTAAT
Found at i:21191899 original size:2 final size:2
Alignment explanation
Indices: 21191892--21191921 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21191882 CAAACTTCAC
21191892 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
21191922 GGGGGGGGGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:21198628 original size:12 final size:12
Alignment explanation
Indices: 21198611--21198673 Score: 69
Period size: 12 Copynumber: 5.3 Consensus size: 12
21198601 GGCTTTTTCT
21198611 TTTTAGATTTAA
1 TTTTAGATTTAA
21198623 TTTTAG-TTTAA
1 TTTTAGATTTAA
*
21198634 GTTTA-AGTTTAA
1 TTTTAGA-TTTAA
*
21198646 GTTTAGATTTAA
1 TTTTAGATTTAA
21198658 TTTTAG-TTTAA
1 TTTTAGATTTAA
21198669 GTTTT
1 -TTTT
21198674 TAACTTTGAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
11 14 0.31
12 30 0.67
13 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.59
Consensus pattern (12 bp):
TTTTAGATTTAA
Found at i:21198662 original size:6 final size:6
Alignment explanation
Indices: 21198618--21198672 Score: 62
Period size: 6 Copynumber: 9.5 Consensus size: 6
21198608 TCTTTTTAGA
* *
21198618 TTTAA- TTTTAG TTTAAG TTTAAG TTTAAG TTT-AG ATTTAA- TTTTAG
1 TTTAAG TTTAAG TTTAAG TTTAAG TTTAAG TTTAAG -TTTAAG TTTAAG
21198664 TTTAAG TTT
1 TTTAAG TTT
21198673 TTAACTTTGA
Statistics
Matches: 42, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
5 10 0.24
6 31 0.74
7 1 0.02
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (6 bp):
TTTAAG
Found at i:21198724 original size:21 final size:22
Alignment explanation
Indices: 21198682--21198729 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
21198672 TTTAACTTTG
*
21198682 AATTATTAGAATAAATTTAAAA
1 AATTATTAAAATAAATTTAAAA
21198704 AATTATTAAAATAAA-TTAAAA
1 AATTATTAAAATAAATTTAAAA
21198725 AATTA
1 AATTA
21198730 AAACTTAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.35
Consensus pattern (22 bp):
AATTATTAAAATAAATTTAAAA
Found at i:21209314 original size:26 final size:26
Alignment explanation
Indices: 21209278--21209329 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
21209268 GTTTTCAGGA
*
21209278 GCACAATTAATAATTGGGAGAACAAT
1 GCACAATTAATAATCGGGAGAACAAT
21209304 GCACAATTAATAATCGGGAGAACAAT
1 GCACAATTAATAATCGGGAGAACAAT
21209330 CTTTAGTCAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.21
Consensus pattern (26 bp):
GCACAATTAATAATCGGGAGAACAAT
Found at i:21212327 original size:14 final size:13
Alignment explanation
Indices: 21212310--21212342 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
21212300 ATCGAATTAT
21212310 TTAAATTTATTTAA
1 TTAAATTTATTT-A
21212324 TTAAATTTATTTA
1 TTAAATTTATTTA
21212337 TTAAAT
1 TTAAAT
21212343 AAAATTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 7 0.37
14 12 0.63
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
TTAAATTTATTTA
Found at i:21212335 original size:18 final size:18
Alignment explanation
Indices: 21212314--21212349 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21212304 AATTATTTAA
* *
21212314 ATTTATTTAATTAAATTT
1 ATTTATTAAATAAAATTT
21212332 ATTTATTAAATAAAATTT
1 ATTTATTAAATAAAATTT
21212350 TTTTTTATTT
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:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTATTAAATAAAATTT
Found at i:21215926 original size:14 final size:15
Alignment explanation
Indices: 21215900--21215932 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
21215890 TTTTTTAATT
21215900 ATTTTAGAAAAATAA
1 ATTTTAGAAAAATAA
*
21215915 ATTTTA-AAAAATAT
1 ATTTTAGAAAAATAA
21215929 ATTT
1 ATTT
21215933 GTATTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (15 bp):
ATTTTAGAAAAATAA
Found at i:21216934 original size:2 final size:2
Alignment explanation
Indices: 21216927--21216961 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
21216917 CCTGTAATCC
*
21216927 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21216962 GATAACATGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (2 bp):
AT
Found at i:21227250 original size:30 final size:28
Alignment explanation
Indices: 21227216--21227284 Score: 75
Period size: 30 Copynumber: 2.3 Consensus size: 28
21227206 TTTTACTTTA
21227216 TATAAAAATAATAATTTAATAATAAAAAGT
1 TATAAAAATAA-AATTTAA-AATAAAAAGT
* * *
21227246 TATAAATATTAAAATTTAAAATATAAATT
1 TATAAA-AATAAAATTTAAAATAAAAAGT
21227275 TATTAAAAAT
1 TA-TAAAAAT
21227285 TATTTTTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
29 12 0.36
30 17 0.52
31 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (28 bp):
TATAAAAATAAAATTTAAAATAAAAAGT
Found at i:21227272 original size:14 final size:14
Alignment explanation
Indices: 21227218--21227276 Score: 52
Period size: 14 Copynumber: 4.1 Consensus size: 14
21227208 TTACTTTATA
21227218 TAAAA-ATAATAATT
1 TAAAATATAA-AATT
*
21227232 TAATAATA-AAAAGT
1 TAA-AATATAAAATT
21227246 TATAAATATTAAAATT
1 TA-AAATA-TAAAATT
21227262 TAAAATAT-AAATT
1 TAAAATATAAAATT
21227275 TA
1 TA
21227277 TTAAAAATTA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
13 7 0.18
14 13 0.34
15 10 0.26
16 8 0.21
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
TAAAATATAAAATT
Found at i:21227300 original size:12 final size:14
Alignment explanation
Indices: 21227272--21227308 Score: 51
Period size: 13 Copynumber: 2.7 Consensus size: 14
21227262 TAAAATATAA
21227272 ATTTATTAAAAATT
1 ATTTATTAAAAATT
21227286 ATTT-TTAAAAA-T
1 ATTTATTAAAAATT
21227298 ATTTATATAAA
1 ATTTAT-TAAA
21227309 TCAAATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 5 0.24
13 8 0.38
14 8 0.38
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
ATTTATTAAAAATT
Found at i:21227415 original size:27 final size:28
Alignment explanation
Indices: 21227370--21227424 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 28
21227360 ATCACGACTT
21227370 AAAATAAATAAATAATTTTTTTATTTAA
1 AAAATAAATAAATAATTTTTTTATTTAA
* *
21227398 AAAATAATTAAA-ATTTTTTTTATTTAA
1 AAAATAAATAAATAATTTTTTTATTTAA
21227425 TTATTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (28 bp):
AAAATAAATAAATAATTTTTTTATTTAA
Found at i:21232369 original size:2 final size:2
Alignment explanation
Indices: 21232362--21232386 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21232352 CTCAGTAATT
21232362 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
21232387 CTGTGTGTGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21237425 original size:2 final size:2
Alignment explanation
Indices: 21237414--21237442 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
21237404 TCAAGTTTGA
21237414 AT AT -T 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
21237443 TAAGTTAGGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:21238821 original size:59 final size:59
Alignment explanation
Indices: 21238693--21239160 Score: 430
Period size: 59 Copynumber: 7.9 Consensus size: 59
21238683 TTATGTAAAA
* * * *
21238693 AAAAATTGATACGTTT-AACTTTTTCT-TAAAATTTTTTTTTTGAAATCTTT-TTTTCAAG
1 AAAAATTGATAC-TTTCAACTTTTCCTCAAAAATATTTTTTTTAAAAT-TTTATTTTCAAG
* * * *
21238751 GAAAACTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTAAATTTTATTTTTAAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAAAATTTTATTTTCAAG
* * *
21238810 AAAAATTGATACTTTTAACTTTTCCTTAAAAATATATTTTTTAAAATTTTATTTTCAA-
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAAAATTTTATTTTCAAG
* * * * * ** * * *
21238868 AGAATATCGATACTTTTAACTTTTCCTAAAAAATGTTTCTTTTGGAGATTGTATTTTTAAG
1 A-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTT-TTTTTAAAATTTTATTTTCAAG
* * * * * *
21238929 AAAAATTGATACTTTCAACTTTTCATCCAAAATACTTTTTTGAAATTTTTGTTTTCAA-
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAAAATTTTATTTTCAAG
* * * * * *
21238987 AGAAAATTGATACTTTTAATTTTTCTTCAAAAATATTTCTTTTGAAAATTGTACTTTCAAG
1 A-AAAATTGATACTTTCAACTTTTCCTCAAAAATATTT-TTTTTAAAATTTTATTTTCAAG
* ** * * *
21239048 AAAAATTGATAATTTCAACTTTTCCTCCCAAATA-CTTTTTAAAAATTTTTATTTTCGAG
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAAAA-TTTTATTTTCAAG
* * *
21239107 AAAAATTGATACTTTCAACCTTTCCTTAAAAATA--ATTTTTAAAATTCTTATTTT
1 AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAAAATT-TTATTTT
21239161 AAAAAGGTTA
Statistics
Matches: 334, Mismatches: 65, Indels: 22
0.79 0.15 0.05
Matches are distributed among these distances:
57 5 0.01
58 47 0.14
59 192 0.57
60 88 0.26
61 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.06, T:0.48
Consensus pattern (59 bp):
AAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTAAAATTTTATTTTCAAG
Found at i:21238961 original size:119 final size:117
Alignment explanation
Indices: 21238693--21239140 Score: 456
Period size: 119 Copynumber: 3.8 Consensus size: 117
21238683 TTATGTAAAA
* * * * *
21238693 AAAAATTGATACGTTT-AACTTTTTCT-TAAAATTTTTTTTTTGAAATCTTT-TTTTCAAGGAAA
1 AAAAATTGATAC-TTTCAACTTTTCCTCCAAAA-TATTTTTTTAAAAT-TTTATTTTCAAAGAAA
* ** *
21238755 ACTGATACTTTCAACTTTTCCTCAAAAATATTT-TTTTTTAAATTTTATTTTTAAG
63 TC-GATACTTTCAACTTTTCCTCAAAAATATTTCTTTTGAAAATTGTATTTTTAAG
* **
21238810 AAAAATTGATACTTTTAACTTTTCCTTAAAAATATATTTTTTAAAATTTTATTTTCAAAGAATAT
1 AAAAATTGATACTTTCAACTTTTCCTCCAAAATAT-TTTTTTAAAATTTTATTTTCAAAGAA-AT
* * * * *
21238875 CGATACTTTTAACTTTTCCTAAAAAATGTTTCTTTTGGAGATTGTATTTTTAAG
64 CGATACTTTCAACTTTTCCTCAAAAATATTTCTTTTGAAAATTGTATTTTTAAG
* * * *
21238929 AAAAATTGATACTTTCAACTTTTCATCCAAAATACTTTTTTGAAATTTTTGTTTTCAAAGAAAAT
1 AAAAATTGATACTTTCAACTTTTCCTCCAAAATA-TTTTTTTAAAATTTTATTTTCAAAG-AAAT
* * * * * *
21238994 TGATACTTTTAATTTTTCTTCAAAAATATTTCTTTTGAAAATTGTACTTTCAAG
64 CGATACTTTCAACTTTTCCTCAAAAATATTTCTTTTGAAAATTGTATTTTTAAG
* * * *
21239048 AAAAATTGATAATTTCAACTTTTCCTCCCAAATACTTTTTAAAAATTTTTATTTTCGAGAA-AAA
1 AAAAATTGATACTTTCAACTTTTCCTCCAAAATATTTTTTTAAAA-TTTTATTTTC-A-AAGAAA
* * *
21239112 TTGATACTTTCAACCTTTCCTTAAAAATA
63 TCGATACTTTCAACTTTTCCTCAAAAATA
21239141 ATTTTTAAAA
Statistics
Matches: 279, Mismatches: 41, Indels: 20
0.82 0.12 0.06
Matches are distributed among these distances:
116 3 0.01
117 26 0.09
118 59 0.21
119 185 0.66
120 4 0.01
121 2 0.01
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (117 bp):
AAAAATTGATACTTTCAACTTTTCCTCCAAAATATTTTTTTAAAATTTTATTTTCAAAGAAATCG
ATACTTTCAACTTTTCCTCAAAAATATTTCTTTTGAAAATTGTATTTTTAAG
Found at i:21239111 original size:178 final size:179
Alignment explanation
Indices: 21238735--21239140 Score: 427
Period size: 178 Copynumber: 2.3 Consensus size: 179
21238725 TTTTTTTTTG
* * * * * *
21238735 AAATCTTT-TTTTCAAGGAAAACTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTTTAAATT
1 AAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCATCAAAAATATCTTTTTTGAAATT
* *
21238799 TTATTTTTAAGAAAAATTGATACTTTTAACTTTTCCTTAAAAATATATTTTTTAAAATTTTATTT
66 TTATTTTTAAGAAAAATTGATACTTTTAACTTTTCCTTAAAAATATATTTTTTAAAATTGTACTT
* * * ** **
21238864 TCAAAGAATATCGATACTTTTAACTTTTCCTAAAAAATGTTTCTTTTGG
131 TCAAAGAAAATCGATAATTTCAACTTTTCCTAAAAAATGACTCTTTTAA
* * * *
21238913 AGA-TTGTATTTTTAAGAAAAATTGATACTTTCAACTTTTCATCCAAAATA-CTTTTTTGAAATT
1 AAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCATCAAAAATATCTTTTTTGAAATT
*
21238976 TT-TGTTTTCAA-AGAAAATTGATACTTTTAA-TTTTTCTTCAAAAATAT-TTCTTTTGAAAATT
66 TTAT-TTTT-AAGA-AAAATTGATACTTTTAACTTTTCCTT-AAAAATATATT-TTTT-AAAATT
* ***
21239037 GTACTTTC-AAGAAAAATTGATAATTTCAACTTTTCCTCCCAAAT-ACT-TTTTAA
125 GTACTTTCAAAG-AAAATCGATAATTTCAACTTTTCCTAAAAAATGACTCTTTTAA
* * * *
21239090 AAATTTTTATTTTCGAGAAAAATTGATACTTTCAACCTTTCCTTAAAAATA
1 AAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCATCAAAAATA
21239141 ATTTTTAAAA
Statistics
Matches: 187, Mismatches: 32, Indels: 18
0.79 0.14 0.08
Matches are distributed among these distances:
176 1 0.01
177 35 0.19
178 114 0.61
179 37 0.20
ACGTcount: A:0.36, C:0.12, G:0.06, T:0.46
Consensus pattern (179 bp):
AAATTTTTATTTTCAAGAAAAATTGATACTTTCAACTTTTCATCAAAAATATCTTTTTTGAAATT
TTATTTTTAAGAAAAATTGATACTTTTAACTTTTCCTTAAAAATATATTTTTTAAAATTGTACTT
TCAAAGAAAATCGATAATTTCAACTTTTCCTAAAAAATGACTCTTTTAA
Found at i:21239690 original size:20 final size:20
Alignment explanation
Indices: 21239652--21239690 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
21239642 TCATCGATTT
*
21239652 CTAGGTTTTATCATTAAAAA
1 CTAGGTTTTATCATGAAAAA
21239672 CTAGGTTTT-TCATCGAAAA
1 CTAGGTTTTATCAT-GAAAA
21239691 TTCATCGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.36, C:0.13, G:0.13, T:0.38
Consensus pattern (20 bp):
CTAGGTTTTATCATGAAAAA
Found at i:21239702 original size:31 final size:32
Alignment explanation
Indices: 21239667--21239728 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 32
21239657 TTTTATCATT
**
21239667 AAAAACTAGGTTTTTCATCG-AAAATTCATCG
1 AAAAACTAGAATTTTCATCGAAAAATTCATCG
* *
21239698 AAAAACTTGAATTTTCGTCGAAAAATTCATC
1 AAAAACTAGAATTTTCATCGAAAAATTCATC
21239729 ATATTTTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 16 0.62
32 10 0.38
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.32
Consensus pattern (32 bp):
AAAAACTAGAATTTTCATCGAAAAATTCATCG
Found at i:21240676 original size:34 final size:34
Alignment explanation
Indices: 21240630--21240704 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
21240620 CAGGATTCAA
**
21240630 AAATTC-AAAAAAATTTCATATTCACAAGAATTGG
1 AAATTCAAAAAAAATTT-ATATTCACAAGAATTAC
* * *
21240664 AAATTCACAAAAAATTTTTATTCGCAAGAATTAC
1 AAATTCAAAAAAAATTTATATTCACAAGAATTAC
21240698 AAATTCA
1 AAATTCA
21240705 TAAGTTTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 26 0.74
35 9 0.26
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (34 bp):
AAATTCAAAAAAAATTTATATTCACAAGAATTAC
Found at i:21240752 original size:17 final size:16
Alignment explanation
Indices: 21240712--21240781 Score: 50
Period size: 17 Copynumber: 4.1 Consensus size: 16
21240702 TCATAAGTTT
21240712 TTTAGATTCGCAAGAA
1 TTTAGATTCGCAAGAA
**
21240728 TCGGAGATTCGCAAGACA
1 T-TTAGATTCGCAAGA-A
* * *
21240746 TTTAGATTTGTAAAAA
1 TTTAGATTCGCAAGAA
*
21240762 CTTTTAGATTCGTAAGAA
1 --TTTAGATTCGCAAGAA
21240780 TT
1 TT
21240782 AGAGATTCAC
Statistics
Matches: 41, Mismatches: 9, Indels: 8
0.71 0.16 0.14
Matches are distributed among these distances:
16 4 0.10
17 21 0.51
18 16 0.39
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (16 bp):
TTTAGATTCGCAAGAA
Found at i:21240808 original size:34 final size:34
Alignment explanation
Indices: 21240769--21241033 Score: 214
Period size: 34 Copynumber: 7.8 Consensus size: 34
21240759 AAACTTTTAG
* *
21240769 ATTCGTAAGAATTAGAGATTCACAAGGCTTTCAA
1 ATTCGCAAGAATTAGAGATTCACAAAGCTTTCAA
* * *
21240803 ATTCGTAAGAAAT-GAAGATTCGTA-AAAACTTTCAA
1 ATTCGCAAGAATTAG-AGATTC--ACAAAGCTTTCAA
* * *
21240838 ATTCGTAAAAATT-GAATATTCACAAAGCTTTCAA
1 ATTCGCAAGAATTAG-AGATTCACAAAGCTTTCAA
* *
21240872 ATTCGCAAGAATT-GAAGATTCACAAAGTTTTCAT
1 ATTCGCAAGAATTAG-AGATTCACAAAGCTTTCAA
* * * ** * * *
21240906 ATTCACAAAAATTAAAGATTCGTAATGTTTTCAG
1 ATTCGCAAGAATTAGAGATTCACAAAGCTTTCAA
* * *
21240940 ATTCACAAGAATTAAAGATTCACAAAGTTTTCAA
1 ATTCGCAAGAATTAGAGATTCACAAAGCTTTCAA
* * * * * *
21240974 ATTCACAAAAATTAAAAATTCACAAGGCTTTCAG
1 ATTCGCAAGAATTAGAGATTCACAAAGCTTTCAA
21241008 ATTCGCAAGAATTAGAGATTCACAAA
1 ATTCGCAAGAATTAGAGATTCACAAA
21241034 TTCGTAAAGT
Statistics
Matches: 192, Mismatches: 34, Indels: 10
0.81 0.14 0.04
Matches are distributed among these distances:
33 2 0.01
34 162 0.84
35 27 0.14
36 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.30
Consensus pattern (34 bp):
ATTCGCAAGAATTAGAGATTCACAAAGCTTTCAA
Found at i:21240828 original size:69 final size:69
Alignment explanation
Indices: 21240734--21241018 Score: 211
Period size: 68 Copynumber: 4.2 Consensus size: 69
21240724 AGAATCGGAG
* ** * * * * *
21240734 ATTCGCAAGACATTTAGATTTGTAAAAACTTTTAGATTCGTAAGAATT-AGAGATTCACAAGGCT
1 ATTCGCAAGAAATGAAGATTCGTAAAAACTTTCAAATTCGTAAAAATTGA-AGATTCACAAAGCT
21240798 TTCAA
65 TTCAA
* *
21240803 ATTCGTAAGAAATGAAGATTCGTAAAAACTTTCAAATTCGTAAAAATTGAATATTCACAAAGCTT
1 ATTCGCAAGAAATGAAGATTCGTAAAAACTTTCAAATTCGTAAAAATTGAAGATTCACAAAGCTT
21240868 TCAA
66 TCAA
* ** * ** * ** * *
21240872 ATTCGCAAGAATTGAAGATTC--ACAAAGTTTTCATATTCACAAAAATTAAAGATTCGTAATGTT
1 ATTCGCAAGAAATGAAGATTCGTA-AAAACTTTCAAATTCGTAAAAATTGAAGATTCACAAAGCT
*
21240935 TTCAG
65 TTCAA
* * * ** ** * * *
21240940 ATTCACAAGAATTAAAGATTC--ACAAAGTTTTCAAATTCACAAAAATTAAAAATTCACAAGGCT
1 ATTCGCAAGAAATGAAGATTCGTA-AAAACTTTCAAATTCGTAAAAATTGAAGATTCACAAAGCT
*
21241003 TTCAG
65 TTCAA
21241008 ATTCGCAAGAA
1 ATTCGCAAGAA
21241019 TTAGAGATTC
Statistics
Matches: 181, Mismatches: 33, Indels: 5
0.83 0.15 0.02
Matches are distributed among these distances:
67 1 0.01
68 103 0.57
69 76 0.42
70 1 0.01
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (69 bp):
ATTCGCAAGAAATGAAGATTCGTAAAAACTTTCAAATTCGTAAAAATTGAAGATTCACAAAGCTT
TCAA
Found at i:21240858 original size:17 final size:16
Alignment explanation
Indices: 21240801--21240858 Score: 55
Period size: 17 Copynumber: 3.4 Consensus size: 16
21240791 CAAGGCTTTC
21240801 AAATTCGTAAGAAA-TG
1 AAATTCGTAA-AAATTG
*
21240817 AAGATTCGTAAAAACTTTC
1 AA-ATTCGTAAAAA--TTG
21240836 AAATTCGTAAAAATTG
1 AAATTCGTAAAAATTG
21240852 AATATTC
1 AA-ATTC
21240859 ACAAAGCTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
16 9 0.26
17 12 0.34
18 11 0.31
19 3 0.09
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (16 bp):
AAATTCGTAAAAATTG
Found at i:21240875 original size:17 final size:17
Alignment explanation
Indices: 21240855--21240998 Score: 69
Period size: 17 Copynumber: 8.5 Consensus size: 17
21240845 AAAATTGAAT
*
21240855 ATTCACAAAGCTTTCAA
1 ATTCACAAAGATTTCAA
* * *
21240872 ATTCGC-AAGAATTGAA
1 ATTCACAAAGATTTCAA
* *
21240888 GATTCACAAAGTTTTCAT
1 -ATTCACAAAGATTTCAA
* *
21240906 ATTCACAAA-AATTAAA
1 ATTCACAAAGATTTCAA
** * * *
21240922 GATTCGTAATGTTTTCAG
1 -ATTCACAAAGATTTCAA
* *
21240940 ATTCAC-AAGAATTAAA
1 ATTCACAAAGATTTCAA
*
21240956 GATTCACAAAGTTTTCAA
1 -ATTCACAAAGATTTCAA
* **
21240974 ATTCACAAAAATTAAAA
1 ATTCACAAAGATTTCAA
21240991 ATTCACAA
1 ATTCACAA
21240999 GGCTTTCAGA
Statistics
Matches: 87, Mismatches: 34, Indels: 12
0.65 0.26 0.09
Matches are distributed among these distances:
16 15 0.17
17 56 0.64
18 16 0.18
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (17 bp):
ATTCACAAAGATTTCAA
Found at i:21240949 original size:68 final size:67
Alignment explanation
Indices: 21240786--21241033 Score: 273
Period size: 68 Copynumber: 3.6 Consensus size: 67
21240776 AGAATTAGAG
* * * ** **
21240786 ATTCACAAGGCTTTCAAATTCGTAAGAAATGAAGATTCGTA-AAAACTTTCAAATTCGTAAAAAT
1 ATTCACAAGGCTTTCAGATTCGCAAG-AATTAAGATTC--ACAAAGTTTTCAAATTCACAAAAAT
* *
21240850 TGAAT
63 TAAAA
* * *
21240855 ATTCACAAAGCTTTCAAATTCGCAAGAATTGAAGATTCACAAAGTTTTCATATTCACAAAAATTA
1 ATTCACAAGGCTTTCAGATTCGCAAGAATT-AAGATTCACAAAGTTTTCAAATTCACAAAAATTA
*
21240920 AAG
65 AAA
** * * *
21240923 ATTCGTAATGTTTTCAGATTCACAAGAATTAAAGATTCACAAAGTTTTCAAATTCACAAAAATTA
1 ATTCACAAGGCTTTCAGATTCGCAAGAATT-AAGATTCACAAAGTTTTCAAATTCACAAAAATTA
21240988 AAA
65 AAA
21240991 ATTCACAAGGCTTTCAGATTCGCAAGAATTAGAGATTCACAAA
1 ATTCACAAGGCTTTCAGATTCGCAAGAATTA-AGATTCACAAA
21241034 TTCGTAAAGT
Statistics
Matches: 152, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
67 2 0.01
68 119 0.78
69 31 0.20
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.30
Consensus pattern (67 bp):
ATTCACAAGGCTTTCAGATTCGCAAGAATTAAGATTCACAAAGTTTTCAAATTCACAAAAATTAA
AA
Found at i:21241101 original size:25 final size:25
Alignment explanation
Indices: 21241067--21241116 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
21241057 AAAATTAAAG
*
21241067 ATTCACAAGGCTTTCAGATTTGCAA
1 ATTCACAAGGCTTCCAGATTTGCAA
21241092 ATTCACAAGGCTTCCAGATTTGCAA
1 ATTCACAAGGCTTCCAGATTTGCAA
21241117 GAATTGGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (25 bp):
ATTCACAAGGCTTCCAGATTTGCAA
Found at i:21241200 original size:17 final size:17
Alignment explanation
Indices: 21241149--21241212 Score: 58
Period size: 17 Copynumber: 3.8 Consensus size: 17
21241139 TCAGACTCAC
21241149 AAGAATTGAAGATTCGT
1 AAGAATTGAAGATTCGT
* *** *
21241166 AAG-GTTTTTGATTTGT
1 AAGAATTGAAGATTCGT
21241182 AAGAATTGAAGATTCGT
1 AAGAATTGAAGATTCGT
* *
21241199 AAGACTTTAAGATT
1 AAGAATTGAAGATT
21241213 GGAGATTGAT
Statistics
Matches: 34, Mismatches: 12, Indels: 2
0.71 0.25 0.04
Matches are distributed among these distances:
16 11 0.32
17 23 0.68
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (17 bp):
AAGAATTGAAGATTCGT
Found at i:21242935 original size:23 final size:23
Alignment explanation
Indices: 21242904--21242953 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
21242894 GTGGCATTCA
*
21242904 TTTTTCTTTTCCCTCTTTTTTTG
1 TTTTGCTTTTCCCTCTTTTTTTG
** *
21242927 TTTTGCTTTTCTTTCTTTTTTTT
1 TTTTGCTTTTCCCTCTTTTTTTG
21242950 TTTT
1 TTTT
21242954 CTATTTGATA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (23 bp):
TTTTGCTTTTCCCTCTTTTTTTG
Found at i:21246688 original size:59 final size:58
Alignment explanation
Indices: 21246488--21246779 Score: 300
Period size: 59 Copynumber: 4.9 Consensus size: 58
21246478 CTTAAAGTAT
* * *
21246488 TTTTATTTTCAAGAAAATTTGATACTTTCAACTTTTTTTAAAAAATAATTTTTTTTGAAAA
1 TTTTATTTTCAAGAAAA-TTGATACTTTCAACTTTTTCTCAAAAAT-A-TTTTTTTGGAAA
* * * * * *
21246549 TTTTATTTTTAAGGAAGATTGATACTTTTAAC-TTTTCTTAAAAAATGTTTCTTTTGGAGA
1 TTTTATTTTCAA-GAAAATTGATACTTTCAACTTTTTC-TCAAAAATATTT-TTTTGGAAA
* * * * *
21246609 TTGTATTTTCAAATAAAATTGATATTTTCAACTTTTTCTCCAAAATACTTTTTT-GAAA
1 TTTTATTTTC-AAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGGAAA
* *
21246667 TTTTTGTTTTCAAGGAAAATTGATACTTTCAATTTTTTCTCAAAAATATTTCTTTTGGAAA
1 -TTTTATTTTCAA-GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTT-TTTTGGAAA
* * * *
21246728 TTATATTTTCAAGAAAATTGATACTTTCAACATTTCCTCAAAAATAATTTTT
1 TTTTATTTTCAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTT
21246780 AAAATTCTTA
Statistics
Matches: 191, Mismatches: 31, Indels: 21
0.79 0.13 0.09
Matches are distributed among these distances:
58 8 0.04
59 80 0.42
60 56 0.29
61 43 0.23
62 4 0.02
ACGTcount: A:0.34, C:0.10, G:0.08, T:0.49
Consensus pattern (58 bp):
TTTTATTTTCAAGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTTTGGAAA
Found at i:21246719 original size:119 final size:118
Alignment explanation
Indices: 21246491--21246793 Score: 360
Period size: 119 Copynumber: 2.5 Consensus size: 118
21246481 AAAGTATTTT
* * *
21246491 TATTTTCAAGAAAATTTGATACTTTCAACTTTTTTTAAAAAATAATTTTTTTTGAAAATTTTATT
1 TATTTTCAA-AAAAATTGATACTTTCAACTTTTTCTCAAAAATAA--TTTTTTGAAAATTTTATT
* * * * * *
21246556 TTTAAGGAAGATTGATACTTTTAACTTTTCTTAAAAAATGTTTCTTTTGGAGATTG
63 TTCAAGGAAAATTGATACTTTCAACTTTTCTTAAAAAATATTTCTTTTGGAAATTA
* * * * *
21246612 TATTTTCAAATAAAATTGATATTTTCAACTTTTTCTCCAAAATACTTTTTTGAAATTTTTGTTTT
1 TATTTTCAAA-AAAATTGATACTTTCAACTTTTTCTCAAAAATAATTTTTTGAAAATTTTATTTT
* *
21246677 CAAGGAAAATTGATACTTTCAA-TTTTTTCTCAAAAATATTTCTTTTGGAAATTA
65 CAAGGAAAATTGATACTTTCAACTTTTCT-TAAAAAATATTTCTTTTGGAAATTA
* * *
21246731 TATTTTCAAGAAAATTGATACTTTCAACATTTCCTCAAAAATAA-TTTTT-AAAATTCTTATTTT
1 TATTTTCAAAAAAATTGATACTTTCAACTTTTTCTCAAAAATAATTTTTTGAAAATT-TTATTTT
21246794 AAGAAGATCA
Statistics
Matches: 155, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
116 5 0.03
117 11 0.07
118 34 0.22
119 67 0.43
120 1 0.01
121 37 0.24
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.49
Consensus pattern (118 bp):
TATTTTCAAAAAAATTGATACTTTCAACTTTTTCTCAAAAATAATTTTTTGAAAATTTTATTTTC
AAGGAAAATTGATACTTTCAACTTTTCTTAAAAAATATTTCTTTTGGAAATTA
Found at i:21247320 original size:20 final size:20
Alignment explanation
Indices: 21247282--21247320 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
21247272 TCATCGATTT
*
21247282 CTAGGTTTTATCGTCAAAAA
1 CTAGGTTTTATCATCAAAAA
*
21247302 CTAGGTTTT-TCATCGAAAA
1 CTAGGTTTTATCATCAAAAA
21247321 GTCGTTAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.36
Consensus pattern (20 bp):
CTAGGTTTTATCATCAAAAA
Found at i:21264830 original size:24 final size:22
Alignment explanation
Indices: 21264793--21264837 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
21264783 AATTATATTT
*
21264793 TTTATTTATGTTAATTAAATTAAA
1 TTTATTAATGTTAA--AAATTAAA
*
21264817 TTTATTAATTTTAAAAATTAA
1 TTTATTAATGTTAAAAATTAA
21264838 TGGATTAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
24 12 0.63
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (22 bp):
TTTATTAATGTTAAAAATTAAA
Found at i:21265879 original size:17 final size:18
Alignment explanation
Indices: 21265845--21265880 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
21265835 TAAATATGAC
21265845 AATTCATATATTCGTTAAT
1 AATTCATATATTC-TTAAT
21265864 AATTCATATATT-TTAAT
1 AATTCATATATTCTTAAT
21265881 CATACTTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
19 12 0.71
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (18 bp):
AATTCATATATTCTTAAT
Found at i:21265948 original size:11 final size:11
Alignment explanation
Indices: 21265932--21265982 Score: 59
Period size: 11 Copynumber: 4.6 Consensus size: 11
21265922 ATAAAAATAT
21265932 AAATTTTTTTA
1 AAATTTTTTTA
*
21265943 AAATTTTGTT-
1 AAATTTTTTTA
*
21265953 AAATTTATTTA
1 AAATTTTTTTA
*
21265964 TAATTTTTATTA
1 AAATTTTT-TTA
21265976 AAATTTT
1 AAATTTT
21265983 AAATAGAATC
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
10 8 0.25
11 15 0.47
12 9 0.28
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
AAATTTTTTTA
Found at i:21265956 original size:21 final size:21
Alignment explanation
Indices: 21265931--21265970 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
21265921 CATAAAAATA
*
21265931 TAAATTTTTTTAAAATTTTGT
1 TAAATTTATTTAAAATTTTGT
*
21265952 TAAATTTATTTATAATTTT
1 TAAATTTATTTAAAATTTT
21265971 TATTAAAATT
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:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (21 bp):
TAAATTTATTTAAAATTTTGT
Found at i:21269945 original size:65 final size:65
Alignment explanation
Indices: 21269864--21269996 Score: 257
Period size: 65 Copynumber: 2.0 Consensus size: 65
21269854 GCGCCTCACG
*
21269864 AGGCAGAGATGGTGTGAACCCTTTTATATCTCAGGGACCCTCCTATTATGTTCGATGTAGGATTC
1 AGGCAGAGATGGTGTGAACCCTTTTATATCCCAGGGACCCTCCTATTATGTTCGATGTAGGATTC
21269929 AGGCAGAGATGGTGTGAACCCTTTTATATCCCAGGGACCCTCCTATTATGTTCGATGTAGGATTC
1 AGGCAGAGATGGTGTGAACCCTTTTATATCCCAGGGACCCTCCTATTATGTTCGATGTAGGATTC
21269994 AGG
1 AGG
21269997 ACTCCCCCTT
Statistics
Matches: 67, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
65 67 1.00
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (65 bp):
AGGCAGAGATGGTGTGAACCCTTTTATATCCCAGGGACCCTCCTATTATGTTCGATGTAGGATTC
Found at i:21274722 original size:7 final size:7
Alignment explanation
Indices: 21274710--21274735 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21274700 TGGTGATTAA
21274710 AGAATTG
1 AGAATTG
21274717 AGAATTG
1 AGAATTG
21274724 AGAATTG
1 AGAATTG
21274731 AGAAT
1 AGAAT
21274736 GGAGTGCTCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.27, T:0.27
Consensus pattern (7 bp):
AGAATTG
Found at i:21281846 original size:18 final size:18
Alignment explanation
Indices: 21281823--21281876 Score: 90
Period size: 18 Copynumber: 3.0 Consensus size: 18
21281813 ACAAAAAGAG
*
21281823 AAAACTAGTATTTCTCAT
1 AAAACTAATATTTCTCAT
*
21281841 AAAACTAATATTTCTTAT
1 AAAACTAATATTTCTCAT
21281859 AAAACTAATATTTCTCAT
1 AAAACTAATATTTCTCAT
21281877 GTTAGATCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 33 1.00
ACGTcount: A:0.43, C:0.15, G:0.02, T:0.41
Consensus pattern (18 bp):
AAAACTAATATTTCTCAT
Found at i:21284927 original size:28 final size:27
Alignment explanation
Indices: 21284875--21284927 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
21284865 AAATTATATT
*
21284875 TTTTTTACCTTTTTAAATCAAATTTTA
1 TTTTTTACCTTTTTAAATAAAATTTTA
*
21284902 TTTTTTACTTCTTTTAAA-AAAGATTT
1 TTTTTTACCT-TTTTAAATAAA-ATTT
21284928 CAATGTTTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.58
Consensus pattern (27 bp):
TTTTTTACCTTTTTAAATAAAATTTTA
Found at i:21285609 original size:15 final size:16
Alignment explanation
Indices: 21285581--21285610 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21285571 AAAAAATACA
21285581 AAATTTTCAAAAAATG
1 AAATTTTCAAAAAATG
21285597 AAATTTT-AAAAAAT
1 AAATTTTCAAAAAAT
21285611 AAACAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (16 bp):
AAATTTTCAAAAAATG
Found at i:21285617 original size:26 final size:25
Alignment explanation
Indices: 21285588--21285684 Score: 71
Period size: 27 Copynumber: 4.0 Consensus size: 25
21285578 ACAAAATTTT
21285588 CAAAAAATGAAATTTTAAAAAATAAA
1 CAAAAAATGAAATTTTAAAAAAT-AA
* * *
21285614 CAAAATATTGAAATTTTTAAATATAA
1 CAAAA-AATGAAATTTTAAAAAATAA
*
21285640 C-AAAAAT----TTTATAAAAAAT-T
1 CAAAAAATGAAATTT-TAAAAAATAA
* *
21285660 CAAAAATTGAATTTTTAAAAAATAA
1 CAAAAAATGAAATTTTAAAAAATAA
21285685 AATCAGATTA
Statistics
Matches: 54, Mismatches: 9, Indels: 17
0.68 0.11 0.21
Matches are distributed among these distances:
20 4 0.07
21 11 0.20
24 10 0.19
25 6 0.11
26 8 0.15
27 15 0.28
ACGTcount: A:0.61, C:0.04, G:0.03, T:0.32
Consensus pattern (25 bp):
CAAAAAATGAAATTTTAAAAAATAA
Found at i:21285696 original size:44 final size:44
Alignment explanation
Indices: 21285648--21285731 Score: 107
Period size: 44 Copynumber: 1.9 Consensus size: 44
21285638 AACAAAAATT
* * *
21285648 TTATAAAAAATTCAAAAAT-TGAATTTTTAAAAAATAAAATCAGA
1 TTATAAAAAATTAAAAAATGTG-ATGTTAAAAAAATAAAATCAGA
**
21285692 TTATATCAAATTAAAAAATGTGATGTTAAAAAAATAAAAT
1 TTATAAAAAATTAAAAAATGTGATGTTAAAAAAATAAAAT
21285732 ATTTTTAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 32 0.94
45 2 0.06
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.32
Consensus pattern (44 bp):
TTATAAAAAATTAAAAAATGTGATGTTAAAAAAATAAAATCAGA
Found at i:21291639 original size:2 final size:2
Alignment explanation
Indices: 21291632--21291656 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21291622 GTTACTCTTT
21291632 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
21291657 GTAGCTTGAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21295051 original size:25 final size:24
Alignment explanation
Indices: 21295023--21295082 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
21295013 ATTAATTAAA
*
21295023 ATTAAAATAT-TTTGTTAAAAAATAT
1 ATTAAAATATATTT-ATAAAAAAT-T
*
21295048 ATTAATATATATTTATAAAAAATT
1 ATTAAAATATATTTATAAAAAATT
*
21295072 ATTTAAATATA
1 ATTAAAATATA
21295083 CAAGATAAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 10 0.33
25 17 0.57
26 3 0.10
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (24 bp):
ATTAAAATATATTTATAAAAAATT
Found at i:21296829 original size:13 final size:14
Alignment explanation
Indices: 21296804--21296834 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
21296794 AAAAAATAAA
21296804 ATAATTATTAAAAT
1 ATAATTATTAAAAT
21296818 ATAATT-TTAAAAT
1 ATAATTATTAAAAT
21296831 ATAA
1 ATAA
21296835 AAAATAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAATTATTAAAAT
Found at i:21310994 original size:30 final size:30
Alignment explanation
Indices: 21310941--21311044 Score: 91
Period size: 30 Copynumber: 3.4 Consensus size: 30
21310931 ATGAGCAGGT
* * * *
21310941 GGAGGTGGTGGGGGTGGTGCTCCACGTGGG
1 GGAGGAGGTGGAGGTGGCGCTCCACATGGG
*
21310971 GGAGGAGGTGGAGGTGGCACTCCATGCAATGGG
1 GGAGGAGGTGGAGGTGGCGCTCCA--C-ATGGG
* * * * *
21311004 GGAGGGGGTGGAGGAGGGGCTCCAAATGTG
1 GGAGGAGGTGGAGGTGGCGCTCCACATGGG
21311034 GGAGGAGGTGG
1 GGAGGAGGTGG
21311045 GGCACCAGAC
Statistics
Matches: 59, Mismatches: 12, Indels: 6
0.77 0.16 0.08
Matches are distributed among these distances:
30 34 0.58
32 1 0.02
33 24 0.41
ACGTcount: A:0.16, C:0.12, G:0.57, T:0.15
Consensus pattern (30 bp):
GGAGGAGGTGGAGGTGGCGCTCCACATGGG
Found at i:21311080 original size:42 final size:42
Alignment explanation
Indices: 21311034--21311117 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
21311024 TCCAAATGTG
* *
21311034 GGAGGAGGTGGGGCACCAGACGTCAATGGGGGTGGTGGAGGT
1 GGAGGAGGTGGGGCACCAGACATCAATGGGGGTGCTGGAGGT
* *
21311076 GGAGGAGGTGGGGCACCAGTCATCGATGGGGGTGCTGGAGGT
1 GGAGGAGGTGGGGCACCAGACATCAATGGGGGTGCTGGAGGT
21311118 ACTCGCAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.18, C:0.13, G:0.54, T:0.15
Consensus pattern (42 bp):
GGAGGAGGTGGGGCACCAGACATCAATGGGGGTGCTGGAGGT
Found at i:21311228 original size:6 final size:6
Alignment explanation
Indices: 21311217--21311292 Score: 93
Period size: 6 Copynumber: 12.7 Consensus size: 6
21311207 TCCATAGTGA
21311217 GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GG-GGAT
1 GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGGT GGAGG-T
* * *
21311265 GGGGGT GGTGGA GGAGGT GTG-GGT GGAG
1 GGAGGT GGAGGT GGAGGT G-GAGGT GGAG
21311293 CTCTTTGCAA
Statistics
Matches: 62, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
5 3 0.05
6 56 0.90
7 3 0.05
ACGTcount: A:0.14, C:0.00, G:0.68, T:0.17
Consensus pattern (6 bp):
GGAGGT
Found at i:21314400 original size:2 final size:2
Alignment explanation
Indices: 21314393--21314425 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
21314383 GCATCAATAT
21314393 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
21314426 CATATCAGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21316720 original size:14 final size:15
Alignment explanation
Indices: 21316694--21316722 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
21316684 ATAGTCACTC
21316694 AAATTGAATTTTAAA
1 AAATTGAATTTTAAA
21316709 AAATTG-ATTTTAAA
1 AAATTGAATTTTAAA
21316723 TTTTATTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (15 bp):
AAATTGAATTTTAAA
Found at i:21317318 original size:30 final size:31
Alignment explanation
Indices: 21317283--21317345 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
21317273 TAAAATATTA
21317283 AATTTA-AAATTATACTTTTTA-TTGTAATAT
1 AATTTATAAATTATA-TTTTTATTTGTAATAT
* * *
21317313 AATTTATTAGTTATATTTTTATTTTTAATAT
1 AATTTATAAATTATATTTTTATTTGTAATAT
21317344 AA
1 AA
21317346 AATAATTTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
30 12 0.43
31 16 0.57
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (31 bp):
AATTTATAAATTATATTTTTATTTGTAATAT
Found at i:21317365 original size:19 final size:18
Alignment explanation
Indices: 21317334--21317369 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
21317324 TATATTTTTA
21317334 TTTTTAATATAAAATAAT
1 TTTTTAATATAAAATAAT
*
21317352 TTTTTAAATTTAAAATAA
1 TTTTT-AATATAAAATAA
21317370 GTTAAAAATA
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TTTTTAATATAAAATAAT
Found at i:21319490 original size:19 final size:20
Alignment explanation
Indices: 21319458--21319495 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
21319448 TTAATTTTCA
*
21319458 TTTAAAATAATTATTAAATT
1 TTTAAAATAATTATCAAATT
21319478 TTTAAAA-AATTATCAAAT
1 TTTAAAATAATTATCAAAT
21319496 ATATTGTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTAAAATAATTATCAAATT
Found at i:21329333 original size:31 final size:31
Alignment explanation
Indices: 21329296--21329361 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
21329286 AATATTTTAT
* * *
21329296 ATTTTTATATTAATATA-AATTATAATACATA
1 ATTTTTAT-TTAAAATATAATAAAAATACATA
*
21329327 ATTTTTATTTAAAATATAATAAAAATATATA
1 ATTTTTATTTAAAATATAATAAAAATACATA
21329358 ATTT
1 ATTT
21329362 ATAAATATTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (31 bp):
ATTTTTATTTAAAATATAATAAAAATACATA
Found at i:21330196 original size:36 final size:35
Alignment explanation
Indices: 21330148--21330220 Score: 85
Period size: 36 Copynumber: 2.1 Consensus size: 35
21330138 ATGATGAGAT
*
21330148 TAAAAATAATAATAATTATAAT-TAAAAAAAATTAA
1 TAAAAATAATAATAAATA-AATATAAAAAAAATTAA
* **
21330183 TAAAAATTTATAATAAATAAATATAATTAAAATTAA
1 TAAAAA-TAATAATAAATAAATATAAAAAAAATTAA
21330219 TA
1 TA
21330221 TTTAATTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
35 9 0.28
36 23 0.72
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (35 bp):
TAAAAATAATAATAAATAAATATAAAAAAAATTAA
Found at i:21330199 original size:26 final size:26
Alignment explanation
Indices: 21330149--21330225 Score: 70
Period size: 26 Copynumber: 3.0 Consensus size: 26
21330139 TGATGAGATT
*
21330149 AAAAA-TAATAATAA-TTATAATTAAA
1 AAAAATTAATAAAAATTTATAATT-AA
21330174 AAAAATTAATAAAAATTTATAA-TAA
1 AAAAATTAATAAAAATTTATAATTAA
* * * *
21330199 ATAAATATAATTAAAATTAATATTTAA
1 AAAAAT-TAATAAAAATTTATAATTAA
21330226 TTTTAACCGA
Statistics
Matches: 43, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
25 12 0.28
26 22 0.51
27 9 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (26 bp):
AAAAATTAATAAAAATTTATAATTAA
Found at i:21330834 original size:26 final size:27
Alignment explanation
Indices: 21330796--21330851 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 27
21330786 GTTTAATAAA
21330796 TTTATAAAAAAATT-T-ATTTTCCACAT
1 TTTATAAAAAAATTCTAATTTTCC-CAT
*
21330822 TTTATAAATAAATTCTAATTTTCCCAT
1 TTTATAAAAAAATTCTAATTTTCCCAT
21330849 TTT
1 TTT
21330852 TTTCTCATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 13 0.48
27 7 0.26
28 7 0.26
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (27 bp):
TTTATAAAAAAATTCTAATTTTCCCAT
Found at i:21332044 original size:13 final size:13
Alignment explanation
Indices: 21331999--21332046 Score: 62
Period size: 13 Copynumber: 3.8 Consensus size: 13
21331989 AAAAAAATTT
21331999 TAATTAAAAAATA
1 TAATTAAAAAATA
* *
21332012 CATTTAAAAAATA
1 TAATTAAAAAATA
*
21332025 TGA-TAAAAAATA
1 TAATTAAAAAATA
21332037 TAATTAAAAA
1 TAATTAAAAA
21332047 TTTTACGAGT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
12 11 0.39
13 17 0.61
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (13 bp):
TAATTAAAAAATA
Found at i:21334482 original size:22 final size:23
Alignment explanation
Indices: 21334425--21334482 Score: 55
Period size: 22 Copynumber: 2.6 Consensus size: 23
21334415 ATATATAGAG
* * *
21334425 ATTTTAATTTATATTTATGAAAA
1 ATTTTAAATTAAAATTATGAAAA
* * *
21334448 TTTTTTAACTAAAATTAT-AAAA
1 ATTTTAAATTAAAATTATGAAAA
21334470 ATTTTAAATTAAA
1 ATTTTAAATTAAA
21334483 GTGAATAATA
Statistics
Matches: 26, Mismatches: 9, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTTTAAATTAAAATTATGAAAA
Found at i:21336588 original size:11 final size:11
Alignment explanation
Indices: 21336572--21336614 Score: 68
Period size: 11 Copynumber: 3.9 Consensus size: 11
21336562 AATTTCATAA
21336572 GAGATTTGTTT
1 GAGATTTGTTT
*
21336583 GAGATTTGTTA
1 GAGATTTGTTT
21336594 GAGATTTGTTT
1 GAGATTTGTTT
*
21336605 GAGTTTTGTT
1 GAGATTTGTT
21336615 AGATATTGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:21336596 original size:22 final size:22
Alignment explanation
Indices: 21336571--21336617 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
21336561 AAATTTCATA
21336571 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
*
21336593 AGAGATTTGTTTGAGTTTTGTT
1 AGAGATTTGTTTGAGATTTGTT
21336615 AGA
1 AGA
21336618 TATTGCTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:21336731 original size:52 final size:52
Alignment explanation
Indices: 21336650--21336775 Score: 137
Period size: 52 Copynumber: 2.4 Consensus size: 52
21336640 CTTATAAAAA
* * * * *
21336650 AAGAATTCTAAGATA-AATGAGATTTTTAATAAGTAAGTTTAACTTGCAAGAG
1 AAGAATTCTAA-AAAGAAAGAGATTCTTAATAAGCAAGTTTAACTTACAAGAG
* * * *
21336702 AAGAATTTTAAAAAGAAAGAGATTCTTAATAGGCAAGTTTGACTTATAAGAG
1 AAGAATTCTAAAAAGAAAGAGATTCTTAATAAGCAAGTTTAACTTACAAGAG
* *
21336754 AAGAATTCTAAGAGGAAAGAGA
1 AAGAATTCTAAAAAGAAAGAGA
21336776 AGAATTCTAA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
51 2 0.03
52 59 0.97
ACGTcount: A:0.47, C:0.06, G:0.20, T:0.28
Consensus pattern (52 bp):
AAGAATTCTAAAAAGAAAGAGATTCTTAATAAGCAAGTTTAACTTACAAGAG
Found at i:21336775 original size:21 final size:21
Alignment explanation
Indices: 21336749--21336796 Score: 78
Period size: 21 Copynumber: 2.3 Consensus size: 21
21336739 TTTGACTTAT
**
21336749 AAGAGAAGAATTCTAAGAGGA
1 AAGAGAAGAATTCTAAGAAAA
21336770 AAGAGAAGAATTCTAAGAAAA
1 AAGAGAAGAATTCTAAGAAAA
21336791 AAGAGA
1 AAGAGA
21336797 TTCTTAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.58, C:0.04, G:0.25, T:0.12
Consensus pattern (21 bp):
AAGAGAAGAATTCTAAGAAAA
Found at i:21338746 original size:3 final size:3
Alignment explanation
Indices: 21338729--21338763 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
21338719 AATTTATTTG
*
21338729 TTA TTA CTA -TA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
21338764 ATTACAAACT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:21339255 original size:36 final size:37
Alignment explanation
Indices: 21339198--21339278 Score: 89
Period size: 36 Copynumber: 2.2 Consensus size: 37
21339188 ATAATTACAG
21339198 AAAAAATAAAAATATATATTTT-TATTTATAC-AAAAT
1 AAAAAATAAAAATATATATTTTAT-TTTATACAAAAAT
*
21339234 AAAAAATAAAAA-ACT-TGATTTTATTTTATCCAAAAAT
1 AAAAAATAAAAATA-TAT-ATTTTATTTTATACAAAAAT
21339271 AAATAAAT
1 AAA-AAAT
21339279 TATTCAATCC
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
35 2 0.05
36 24 0.62
37 9 0.23
38 4 0.10
ACGTcount: A:0.58, C:0.05, G:0.01, T:0.36
Consensus pattern (37 bp):
AAAAAATAAAAATATATATTTTATTTTATACAAAAAT
Found at i:21343069 original size:15 final size:15
Alignment explanation
Indices: 21343049--21343082 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21343039 CAATTCAAAA
21343049 TTAATAAAAAAATTT
1 TTAATAAAAAAATTT
* *
21343064 TTAATATAAATATTT
1 TTAATAAAAAAATTT
21343079 TTAA
1 TTAA
21343083 AAATTTATCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTAATAAAAAAATTT
Found at i:21343983 original size:14 final size:15
Alignment explanation
Indices: 21343964--21343996 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
21343954 ATATGTTATT
*
21343964 AAAATTA-GTATTTA
1 AAAATTATGAATTTA
21343978 AAAATTATGAATTTA
1 AAAATTATGAATTTA
21343993 AAAA
1 AAAA
21343997 AATTTATGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (15 bp):
AAAATTATGAATTTA
Found at i:21344068 original size:20 final size:21
Alignment explanation
Indices: 21344030--21344068 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
21344020 TCAATCAAAC
*
21344030 AAATATAAAAATTACAAAATT
1 AAATATAAAAATTAAAAAATT
21344051 AAAT-TAAAAATTAAAAAA
1 AAATATAAAAATTAAAAAA
21344069 AGAATTTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.26
Consensus pattern (21 bp):
AAATATAAAAATTAAAAAATT
Found at i:21344114 original size:18 final size:18
Alignment explanation
Indices: 21344093--21344132 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
21344083 CTAAAATTAT
21344093 ATTAAAAAAGAAAAAAAA
1 ATTAAAAAAGAAAAAAAA
** *
21344111 ATTAAAAACTAAAAAGAA
1 ATTAAAAAAGAAAAAAAA
21344129 ATTA
1 ATTA
21344133 GAGATAACAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.75, C:0.03, G:0.05, T:0.17
Consensus pattern (18 bp):
ATTAAAAAAGAAAAAAAA
Found at i:21345671 original size:45 final size:47
Alignment explanation
Indices: 21345560--21345671 Score: 117
Period size: 45 Copynumber: 2.4 Consensus size: 47
21345550 CTTCTCCTTT
* * *
21345560 ATTTATTTATTTT-TTTAAGATTATTTTGAATATTTTATATTTTATCT
1 ATTTATTT-TTTTATATAATATTATTTTGAATATTTTATATTTTATCG
* * *
21345607 ATTAAATTTTTTA-AAAATATTATTTT-AGATA-TTTATATTTTAT-G
1 ATTTATTTTTTTATATAATATTATTTTGA-ATATTTTATATTTTATCG
21345651 ATTTATTTTTTTATATAATAT
1 ATTTATTTTTTTATATAATAT
21345672 CAAATGCAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
44 11 0.21
45 19 0.36
46 17 0.32
47 6 0.11
ACGTcount: A:0.33, C:0.01, G:0.04, T:0.62
Consensus pattern (47 bp):
ATTTATTTTTTTATATAATATTATTTTGAATATTTTATATTTTATCG
Found at i:21346460 original size:2 final size:2
Alignment explanation
Indices: 21346453--21346483 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21346443 TTGGTTTATT
21346453 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
21346484 ATATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:21349714 original size:4 final size:4
Alignment explanation
Indices: 21349707--21349742 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
21349697 TTTATTTGGT
* *
21349707 TTAA TTAA CTGA TTAA TTAA TTAA TTAA TTAA TTAA
1 TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA TTAA
21349743 AGATGGCTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (4 bp):
TTAA
Found at i:21361434 original size:20 final size:20
Alignment explanation
Indices: 21361409--21361449 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
21361399 TGTAATTGGC
*
21361409 TAAAGAAAAGTATGATTATA
1 TAAAGAAAAATATGATTATA
21361429 TAAAGAAAAATATGATTATA
1 TAAAGAAAAATATGATTATA
21361449 T
1 T
21361450 GTACATATCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (20 bp):
TAAAGAAAAATATGATTATA
Found at i:21361819 original size:12 final size:12
Alignment explanation
Indices: 21361802--21361827 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21361792 GTACATATGT
21361802 TAGCGTGGTGAC
1 TAGCGTGGTGAC
21361814 TAGCGTGGTGAC
1 TAGCGTGGTGAC
21361826 TA
1 TA
21361828 AAAAACAATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.19, C:0.15, G:0.38, T:0.27
Consensus pattern (12 bp):
TAGCGTGGTGAC
Found at i:21366151 original size:30 final size:30
Alignment explanation
Indices: 21366116--21366179 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 30
21366106 TTTATTTTAT
21366116 AAAAATT-TTTT-AAGTACAAATTAAAAATTA
1 AAAAATTATTTTGAAGT--AAATTAAAAATTA
*
21366146 AAAAATTATTTTGATGTAAATTAAAAATTA
1 AAAAATTATTTTGAAGTAAATTAAAAATTA
21366176 AAAA
1 AAAA
21366180 TTTACTTAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
30 24 0.77
31 4 0.13
32 3 0.10
ACGTcount: A:0.58, C:0.02, G:0.05, T:0.36
Consensus pattern (30 bp):
AAAAATTATTTTGAAGTAAATTAAAAATTA
Found at i:21366876 original size:21 final size:21
Alignment explanation
Indices: 21366834--21366876 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
21366824 ATTTTTATTT
** * *
21366834 TATAAAAATTTAATATATATA
1 TATAAAAAACTAATAAAAATA
21366855 TATAAAAAACTAATAAAAATA
1 TATAAAAAACTAATAAAAATA
21366876 T
1 T
21366877 GTAATTTGGT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (21 bp):
TATAAAAAACTAATAAAAATA
Found at i:21366981 original size:23 final size:22
Alignment explanation
Indices: 21366955--21367015 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
21366945 ATATATATAT
*
21366955 TTAATATTAAAAATTAATTTAAA
1 TTAA-ATTAAAAATTAATTCAAA
* * *
21366978 TTAAATAAAAAAATCAATTCGAA
1 TTAAAT-TAAAAATTAATTCAAA
*
21367001 TTAAATTAAACATTA
1 TTAAATTAAAAATTA
21367016 TAATTTTCAA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
22 8 0.27
23 22 0.73
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (22 bp):
TTAAATTAAAAATTAATTCAAA
Found at i:21367485 original size:15 final size:14
Alignment explanation
Indices: 21367462--21367499 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
21367452 TCAACAAATT
21367462 ATTAATAATAAAAA
1 ATTAATAATAAAAA
*
21367476 ATTAATTAATAAAAT
1 ATTAA-TAATAAAAA
21367491 ATTAA-AATA
1 ATTAATAATA
21367500 TTGATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 5 0.23
15 13 0.59
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (14 bp):
ATTAATAATAAAAA
Found at i:21368145 original size:5 final size:6
Alignment explanation
Indices: 21368130--21368155 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
21368120 TTCTGTGTGA
21368130 TTTTTC TTTTTC TTTTTC TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TT
21368156 AGCCTTTTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Found at i:21374550 original size:4 final size:4
Alignment explanation
Indices: 21374543--21374573 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
21374533 TATATATATA
21374543 TATG TATG TATG TATG TATG TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TAT
21374574 AAAATGTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.52
Consensus pattern (4 bp):
TATG
Found at i:21375264 original size:3 final size:3
Alignment explanation
Indices: 21375256--21375300 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
21375246 TCCAAAGCAA
* *
21375256 AAT AAT AAT AAT AAT AAT AAT AAT AAT CA- AAT AAT CA- AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
21375301 AGGAGTCCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:21381619 original size:12 final size:12
Alignment explanation
Indices: 21381596--21381639 Score: 54
Period size: 12 Copynumber: 3.5 Consensus size: 12
21381586 GTCGTTTTTT
21381596 TTTTTGTATTTA-
1 TTTTT-TATTTAG
21381608 TTTATTTATTTAG
1 TTT-TTTATTTAG
21381621 TTTTTTATTTAG
1 TTTTTTATTTAG
21381633 TATTTTT
1 T-TTTTT
21381640 TTCTTTTATG
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
12 19 0.66
13 10 0.34
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (12 bp):
TTTTTTATTTAG
Found at i:21381757 original size:32 final size:34
Alignment explanation
Indices: 21381715--21381779 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 34
21381705 GAAAGTATCA
*
21381715 ATTTTTCTTGAAAATAAAA-TTTAAAA-AAAAAT
1 ATTTTCCTTGAAAATAAAATTTTAAAATAAAAAT
21381747 ATTTTCCTTGAAAATAAAATTTTAAAATAAAAA
1 ATTTTCCTTGAAAATAAAATTTTAAAATAAAAA
21381780 AAAGAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 18 0.60
33 7 0.23
34 5 0.17
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (34 bp):
ATTTTCCTTGAAAATAAAATTTTAAAATAAAAAT
Found at i:21381934 original size:60 final size:58
Alignment explanation
Indices: 21381781--21381993 Score: 231
Period size: 59 Copynumber: 3.7 Consensus size: 58
21381771 AAATAAAAAA
* * *
21381781 AAGAAAAATATTTTAAGAAAAAGTTGAAAGTATCAATTTTTATTAAAATTAAAATTTC
1 AAGAAAAACATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAAATTTC
* * *
21381839 -AGAAAAAAGCCTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTTAAAAATAAAAATTATC
1 AAG-AAAAA-CATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTT-AAAATAAAAATT-TC
* * *
21381900 AAGAAAAACATTTTAAGGAAAAGTTGAAAATATCAATCTTTCTTAAAATAAAAATTTTC
1 AAGAAAAACATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAAA-TTTC
** *
21381959 --G-AATGC--TTTAAGAAAAAGTTAAAAGTATCAATTTT
1 AAGAAAAACATTTTAAGAAAAAGTTGAAAGTATCAATTTT
21381994 CCTCATACCA
Statistics
Matches: 131, Mismatches: 18, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
54 25 0.19
56 3 0.02
57 3 0.02
58 5 0.04
59 43 0.33
60 43 0.33
61 7 0.05
62 2 0.02
ACGTcount: A:0.50, C:0.07, G:0.10, T:0.33
Consensus pattern (58 bp):
AAGAAAAACATTTTAAGAAAAAGTTGAAAGTATCAATTTTTCTTAAAATAAAAATTTC
Found at i:21382575 original size:16 final size:16
Alignment explanation
Indices: 21382554--21382589 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21382544 AAACGATTCC
* *
21382554 ATTTAAAATTATTTAT
1 ATTTAAAATAATTTAA
21382570 ATTTAAAATAATTTAA
1 ATTTAAAATAATTTAA
21382586 ATTT
1 ATTT
21382590 GAATTCAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTAAAATAATTTAA
Found at i:21382743 original size:16 final size:16
Alignment explanation
Indices: 21382718--21382779 Score: 79
Period size: 16 Copynumber: 3.9 Consensus size: 16
21382708 TTTATACCAA
21382718 AAAATAATTTAAATTT
1 AAAATAATTTAAATTT
* * *
21382734 AAACTAATTTCAACTT
1 AAAATAATTTAAATTT
* *
21382750 AAAATGATTCAAATTT
1 AAAATAATTTAAATTT
21382766 AAAATAATTTAAAT
1 AAAATAATTTAAAT
21382780 ATGAATTAAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 36 1.00
ACGTcount: A:0.53, C:0.06, G:0.02, T:0.39
Consensus pattern (16 bp):
AAAATAATTTAAATTT
Found at i:21382905 original size:29 final size:30
Alignment explanation
Indices: 21382883--21382954 Score: 92
Period size: 30 Copynumber: 2.4 Consensus size: 30
21382873 ATTTAGTTTC
*
21382883 TATAATATTATTT-AAAGAAATTTAGTCAT
1 TATAATATTATTTCAAAAAAATTTAGTCAT
* *
21382912 TGTAATATTATTTCAAAAAAATTTAGTCCT
1 TATAATATTATTTCAAAAAAATTTAGTCAT
**
21382942 TATGGTATTATTT
1 TATAATATTATTT
21382955 TTTAAGGAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
29 12 0.33
30 24 0.67
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (30 bp):
TATAATATTATTTCAAAAAAATTTAGTCAT
Found at i:21383030 original size:30 final size:29
Alignment explanation
Indices: 21382996--21383070 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
21382986 CGATTGAATA
* *
21382996 TAAATTTTTCAAAAATAATACTATAAAGAT
1 TAAATTTTT-AAAAATAATACTAGAAAGAC
** *
21383026 TAAATTTTTTTTAAATAATACTAGAGAGAC
1 TAAA-TTTTTAAAAATAATACTAGAAAGAC
21383056 TAAATTTTTAAAAAT
1 TAAATTTTTAAAAAT
21383071 CAAATAATAT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
29 9 0.24
30 23 0.62
31 5 0.14
ACGTcount: A:0.49, C:0.05, G:0.05, T:0.40
Consensus pattern (29 bp):
TAAATTTTTAAAAATAATACTAGAAAGAC
Found at i:21387318 original size:27 final size:27
Alignment explanation
Indices: 21387287--21387345 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
21387277 TGTAATTGTG
*
21387287 TTTTGGGTTAAATTTTGAG-AAAAGAGT
1 TTTTGCGTTAAATTTTGAGTAAAA-AGT
*
21387314 TTTTGCGTTAAGTTTTGAGTAAAAAGT
1 TTTTGCGTTAAATTTTGAGTAAAAAGT
21387341 TTTTG
1 TTTTG
21387346 TTGACTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
27 25 0.86
28 4 0.14
ACGTcount: A:0.29, C:0.02, G:0.24, T:0.46
Consensus pattern (27 bp):
TTTTGCGTTAAATTTTGAGTAAAAAGT
Found at i:21388162 original size:28 final size:29
Alignment explanation
Indices: 21388121--21388176 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
21388111 TTTGGATGAT
*
21388121 GTGACTGTCTTATTACATGATAA-CGAAA
1 GTGACTGTCCTATTACATGATAATCGAAA
* * *
21388149 GTGATTGTCCTATTGCGTGATAATCGAA
1 GTGACTGTCCTATTACATGATAATCGAA
21388177 GGTTTATGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 19 0.83
29 4 0.17
ACGTcount: A:0.30, C:0.14, G:0.21, T:0.34
Consensus pattern (29 bp):
GTGACTGTCCTATTACATGATAATCGAAA
Found at i:21389358 original size:32 final size:31
Alignment explanation
Indices: 21389288--21389358 Score: 81
Period size: 32 Copynumber: 2.3 Consensus size: 31
21389278 ATGTAAGGTA
* *
21389288 TTTA-GTGAGATGTAGTTACAATTTGATTGC
1 TTTAGGTGAGATGTAGCTACAATTTGATTAC
* *
21389318 TTTAGGTGAGATTGTAGCTACAATTTGGTTAT
1 TTTAGGTGAGA-TGTAGCTACAATTTGATTAC
*
21389350 TTTTGGTGA
1 TTTAGGTGA
21389359 ATTAACTTCT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
30 4 0.12
31 6 0.18
32 24 0.71
ACGTcount: A:0.24, C:0.06, G:0.25, T:0.45
Consensus pattern (31 bp):
TTTAGGTGAGATGTAGCTACAATTTGATTAC
Found at i:21391503 original size:31 final size:31
Alignment explanation
Indices: 21391446--21391513 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
21391436 ATATTTTATG
* *
21391446 TTTTTATATCAATATAAATTATAATATGTAA
1 TTTTTATATAAATATAAATTATAATATATAA
21391477 TTTTTATATAAA-ATATAA-TATAAATATATAA
1 TTTTTATATAAATATA-AATTAT-AATATATAA
*
21391508 ATTTTA
1 TTTTTA
21391514 ATATTTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 6 0.19
31 26 0.81
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (31 bp):
TTTTTATATAAATATAAATTATAATATATAA
Found at i:21391511 original size:32 final size:30
Alignment explanation
Indices: 21391446--21391536 Score: 76
Period size: 32 Copynumber: 2.9 Consensus size: 30
21391436 ATATTTTATG
* *
21391446 TTTTTATATCAATATAA-ATTATAATATGTAA
1 TTTTTATATAAATATAATA-TA-AATATATAA
21391477 TTTTTATATAAAATATAATATAAATATATAAA
1 TTTTTATAT-AAATATAATATAAATATAT-AA
* ** *
21391509 TTTTAATATTTTATATAATAAAAATATA
1 TTTTTATA-TAAATATAATATAAATATA
21391537 CGAATTGCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
31 15 0.30
32 33 0.66
33 2 0.04
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (30 bp):
TTTTTATATAAATATAATATAAATATATAA
Found at i:21396819 original size:8 final size:8
Alignment explanation
Indices: 21396806--21396835 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
21396796 TCCATGGTAT
21396806 ATATATAC
1 ATATATAC
21396814 ATATATAC
1 ATATATAC
*
21396822 ATATATAT
1 ATATATAC
21396830 ATATAT
1 ATATAT
21396836 GTATGTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (8 bp):
ATATATAC
Found at i:21399424 original size:11 final size:11
Alignment explanation
Indices: 21399410--21399435 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
21399400 TTCTCTTTTT
21399410 TTTTCTTTTCA
1 TTTTCTTTTCA
21399421 TTTTCTTTTCA
1 TTTTCTTTTCA
21399432 TTTT
1 TTTT
21399436 ATAATTCTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.15, G:0.00, T:0.77
Consensus pattern (11 bp):
TTTTCTTTTCA
Found at i:21414453 original size:2 final size:2
Alignment explanation
Indices: 21414446--21414471 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
21414436 TTAAAAACTA
21414446 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
21414472 CAAAACAATT
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:21425548 original size:10 final size:9
Alignment explanation
Indices: 21425525--21425550 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
21425515 AATTATTATA
21425525 TAAAAATTT
1 TAAAAATTT
21425534 TAAAAATTT
1 TAAAAATTT
21425543 TAAAAATT
1 TAAAAATT
21425551 ATATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
TAAAAATTT
Found at i:21438719 original size:14 final size:15
Alignment explanation
Indices: 21438695--21438736 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
21438685 ACTTGAATTT
*
21438695 TAATGTTTTAAATAA
1 TAATTTTTTAAATAA
* *
21438710 -AGTTTTTTAAAAAA
1 TAATTTTTTAAATAA
21438724 TAATTTTTTAAAT
1 TAATTTTTTAAAT
21438737 TAAAATAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 2
0.75 0.18 0.07
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (15 bp):
TAATTTTTTAAATAA
Found at i:21454775 original size:28 final size:30
Alignment explanation
Indices: 21454718--21454795 Score: 115
Period size: 28 Copynumber: 2.6 Consensus size: 30
21454708 TGAGTTAACG
*
21454718 ATGATTTTTAAATTATAATAAAATATTTAAT
1 ATGATATTTAAATTATAA-AAAATATTTAAT
*
21454749 ATGATATTTGAATT-TAAAAAAT-TTTAAT
1 ATGATATTTAAATTATAAAAAATATTTAAT
21454777 ATGATATTTAAATTATAAA
1 ATGATATTTAAATTATAAA
21454796 TTTATTAATT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
28 19 0.44
29 9 0.21
30 3 0.07
31 12 0.28
ACGTcount: A:0.49, C:0.00, G:0.05, T:0.46
Consensus pattern (30 bp):
ATGATATTTAAATTATAAAAAATATTTAAT
Found at i:21455503 original size:16 final size:17
Alignment explanation
Indices: 21455463--21455503 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
21455453 AAAATTAATA
*
21455463 AAATATTTATATTAAAT
1 AAATATTTATATAAAAT
21455480 AAAT-TTTAT-TAAAAT
1 AAATATTTATATAAAAT
*
21455495 TAATATTTA
1 AAATATTTA
21455504 AATTTAATAG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
15 8 0.38
16 9 0.43
17 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
AAATATTTATATAAAAT
Found at i:21455652 original size:22 final size:22
Alignment explanation
Indices: 21455621--21455664 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
21455611 AAAAAAGACC
* *
21455621 TAAAGAAAAACAAAGAAAAAGT
1 TAAAGAAAAAAAAAAAAAAAGT
21455643 TAAAGGAAAAAAAAAAAAAAAG
1 TAAA-GAAAAAAAAAAAAAAAG
21455665 AAATTCCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.77, C:0.02, G:0.14, T:0.07
Consensus pattern (22 bp):
TAAAGAAAAAAAAAAAAAAAGT
Found at i:21460156 original size:18 final size:19
Alignment explanation
Indices: 21460133--21460174 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
21460123 TCGAATTGAA
*
21460133 TTATAT-TTTTTAAAATTT
1 TTATATATTTTAAAAATTT
21460151 TTATATATTTTAAAAATTT
1 TTATATATTTTAAAAATTT
21460170 TTATA
1 TTATA
21460175 AAATAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTATATATTTTAAAAATTT
Found at i:21461140 original size:18 final size:18
Alignment explanation
Indices: 21461116--21461168 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
21461106 ACAATATAAA
21461116 ATATTATATTTATATTAT
1 ATATTATATTTATATTAT
* ** *
21461134 ATTTTATATAAAAATTAT
1 ATATTATATTTATATTAT
21461152 ATATTATAATTTATATT
1 ATATTAT-ATTTATATT
21461169 GATAATAAAA
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
ATATTATATTTATATTAT
Found at i:21461155 original size:31 final size:30
Alignment explanation
Indices: 21461109--21461207 Score: 78
Period size: 31 Copynumber: 3.2 Consensus size: 30
21461099 GATTCGTACA
*
21461109 ATAT-AAAATATTATATTTATATTATATTTT
1 ATATAAAAATAATATATTTATATT-TATTTT
* *
21461139 ATATAAAAATTATATA-TTATAATTTATATTG
1 ATATAAAAATAATATATTTAT-ATTTAT-TTT
* * *
21461170 ATAATAAAAATAAAATATATATTTTTTATTTT
1 AT-ATAAAAATAATATATTTA-TATTTATTTT
21461202 AT-TAAA
1 ATATAAA
21461208 TTTATTTATA
Statistics
Matches: 55, Mismatches: 8, Indels: 12
0.73 0.11 0.16
Matches are distributed among these distances:
30 15 0.27
31 16 0.29
32 16 0.29
33 7 0.13
34 1 0.02
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (30 bp):
ATATAAAAATAATATATTTATATTTATTTT
Done.