Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168481.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_8, 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: 25818110
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 67000 characters in sequence are not A, C, G, or T
File 111 of 127
Found at i:20731539 original size:18 final size:18
Alignment explanation
Indices: 20731497--20731539 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
20731487 GCACGAATAA
*
20731497 ATTAAATGTTAATTATGT
1 ATTAAATATTAATTATGT
20731515 A-TAAATATTATATT-TGT
1 ATTAAATATTA-ATTATGT
20731532 ATTAAATA
1 ATTAAATA
20731540 AAAAAGGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
17 12 0.55
18 10 0.45
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (18 bp):
ATTAAATATTAATTATGT
Found at i:20734899 original size:2 final size:2
Alignment explanation
Indices: 20734892--20734918 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20734882 GAAGTTCCCA
20734892 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
20734919 GCATCCCCTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:20741103 original size:2 final size:2
Alignment explanation
Indices: 20741096--20741128 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
20741086 ATATGGCACT
*
20741096 TC TC TC TC TC TC TC TC TC TC TT TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
20741129 TACACACACA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:20742319 original size:24 final size:23
Alignment explanation
Indices: 20742292--20742353 Score: 70
Period size: 24 Copynumber: 2.6 Consensus size: 23
20742282 AAAATTAAAA
*
20742292 ATAATAATAAAAGTAATTGTAATT
1 ATAATAA-AAAAATAATTGTAATT
*
20742316 ATAATTAAAAAAATTATTGTAATT
1 ATAA-TAAAAAAATAATTGTAATT
*
20742340 GTAATTAAAAAAAT
1 ATAA-TAAAAAAAT
20742354 TTTAATGAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 31 0.91
25 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.37
Consensus pattern (23 bp):
ATAATAAAAAAATAATTGTAATT
Found at i:20742354 original size:24 final size:24
Alignment explanation
Indices: 20742307--20742354 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
20742297 AATAAAAGTA
20742307 ATTGTAATTATAATTAAAAAAATT
1 ATTGTAATTATAATTAAAAAAATT
*
20742331 ATTGTAATTGTAATTAAAAAAATT
1 ATTGTAATTATAATTAAAAAAATT
20742355 TTAATGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (24 bp):
ATTGTAATTATAATTAAAAAAATT
Found at i:20744306 original size:21 final size:20
Alignment explanation
Indices: 20744282--20744329 Score: 55
Period size: 18 Copynumber: 2.5 Consensus size: 20
20744272 AACAACCATA
*
20744282 AATTTTTATTCATATGATTAT
1 AATTTTTATT-ATATAATTAT
20744303 AA-TTTT-TTATATAATTAT
1 AATTTTTATTATATAATTAT
*
20744321 AATATTTAT
1 AATTTTTAT
20744330 CAATAATAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
18 11 0.48
19 5 0.22
20 5 0.22
21 2 0.09
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (20 bp):
AATTTTTATTATATAATTAT
Found at i:20744365 original size:21 final size:21
Alignment explanation
Indices: 20744331--20744408 Score: 63
Period size: 21 Copynumber: 3.7 Consensus size: 21
20744321 AATATTTATC
*
20744331 AATAATAGTCTATTTATATTCA
1 AATAATAAT-TATTTATATTCA
*
20744353 AATAATTATTA-TTACT-TGTCA
1 AATAATAATTATTTA-TAT-TCA
* * *
20744374 TATAATAATTATTTTTATTTA
1 AATAATAATTATTTATATTCA
20744395 AAT-ATAATTATTTA
1 AATAATAATTATTTA
20744409 AAATATGAAT
Statistics
Matches: 44, Mismatches: 8, Indels: 10
0.71 0.13 0.16
Matches are distributed among these distances:
20 14 0.32
21 20 0.45
22 10 0.23
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (21 bp):
AATAATAATTATTTATATTCA
Found at i:20746763 original size:20 final size:20
Alignment explanation
Indices: 20746738--20746778 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
20746728 TTTAAATTGT
*
20746738 TAGAAAAAATAAATAAAAAA
1 TAGAAAAAATAAAAAAAAAA
*
20746758 TAGAAATAATAAAAAAAAAA
1 TAGAAAAAATAAAAAAAAAA
20746778 T
1 T
20746779 TTGACTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.05, T:0.17
Consensus pattern (20 bp):
TAGAAAAAATAAAAAAAAAA
Found at i:20767964 original size:16 final size:16
Alignment explanation
Indices: 20767943--20767975 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
20767933 ATGAAAGAGT
20767943 TATATTAATATATATA
1 TATATTAATATATATA
20767959 TATATTAATATATATA
1 TATATTAATATATATA
20767975 T
1 T
20767976 CTTATATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TATATTAATATATATA
Found at i:20770646 original size:17 final size:17
Alignment explanation
Indices: 20770624--20770659 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
20770614 GAAATAATTC
20770624 ATTATAA-TATTTTTTTA
1 ATTATAACT-TTTTTTTA
20770641 ATTATAACTTTTTTTTA
1 ATTATAACTTTTTTTTA
20770658 AT
1 AT
20770660 AAAGTAACAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.94
18 1 0.06
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTATAACTTTTTTTTA
Found at i:20771419 original size:2 final size:2
Alignment explanation
Indices: 20771412--20771438 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
20771402 ATGAAGGAGT
20771412 TA 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 TA T
20771439 GTGTGTGTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20772153 original size:2 final size:2
Alignment explanation
Indices: 20772146--20772176 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
20772136 CATATTCAAC
20772146 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20772177 TAAAGATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20785300 original size:67 final size:67
Alignment explanation
Indices: 20785229--20785360 Score: 165
Period size: 67 Copynumber: 2.0 Consensus size: 67
20785219 ATTTTAATCC
* * * * * *
20785229 AAATTCTAATATTATTCACTTAATTAACTTATATGATATATAACTAGTATAATTTTATTATATAT
1 AAATTCTAATATTATTAACTTAATTAACCTATATAAAATATAACTAATATAATTTTATTACATAT
20785294 TA
66 TA
* * * * *
20785296 AAATTCTAATATTGTTAATTTAATTTACCTATATAAAATCTAACTAATATAATTTTGTTACATAT
1 AAATTCTAATATTATTAACTTAATTAACCTATATAAAATATAACTAATATAATTTTATTACATAT
20785361 ATGTTATTTG
Statistics
Matches: 54, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
67 54 1.00
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (67 bp):
AAATTCTAATATTATTAACTTAATTAACCTATATAAAATATAACTAATATAATTTTATTACATAT
TA
Found at i:20789626 original size:22 final size:22
Alignment explanation
Indices: 20789598--20789641 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
20789588 CTAAATCTTC
*
20789598 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
20789620 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
20789642 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:20791244 original size:33 final size:33
Alignment explanation
Indices: 20791207--20791272 Score: 123
Period size: 33 Copynumber: 2.0 Consensus size: 33
20791197 TTACTTAGAC
20791207 AATTGTTTAATTTTAAGGAGATATTAGTATGTT
1 AATTGTTTAATTTTAAGGAGATATTAGTATGTT
*
20791240 AATTGTTTAATTTTAAGGAGATATTAGTGTGTT
1 AATTGTTTAATTTTAAGGAGATATTAGTATGTT
20791273 TGTATTCATG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (33 bp):
AATTGTTTAATTTTAAGGAGATATTAGTATGTT
Found at i:20791666 original size:12 final size:12
Alignment explanation
Indices: 20791649--20791673 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20791639 ATGAATTGTA
20791649 AGAGCATGGAAT
1 AGAGCATGGAAT
20791661 AGAGCATGGAAT
1 AGAGCATGGAAT
20791673 A
1 A
20791674 CGGCTGGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.32, T:0.16
Consensus pattern (12 bp):
AGAGCATGGAAT
Found at i:20793554 original size:32 final size:32
Alignment explanation
Indices: 20793470--20793583 Score: 101
Period size: 32 Copynumber: 3.6 Consensus size: 32
20793460 TATTTAAAAT
20793470 TTAAA-AA-ATTATATT-TAATATATAAGATTACAA
1 TTAAATAATATTATATTATAA-AT-TAA-ATTA-AA
* * * *
20793503 TAAAAAAATATAATATTATAAATTAAATTGAA
1 TTAAATAATATTATATTATAAATTAAATTAAA
* *
20793535 TTAAATAATATTATTTTATATATTAAATTAAA
1 TTAAATAATATTATATTATAAATTAAATTAAA
*
20793567 TTGAATAATATTA-ATTA
1 TTAAATAATATTATATTA
20793584 AATAATATTA
Statistics
Matches: 67, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
31 3 0.04
32 40 0.60
33 7 0.10
34 5 0.07
35 9 0.13
36 3 0.04
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.42
Consensus pattern (32 bp):
TTAAATAATATTATATTATAAATTAAATTAAA
Found at i:20793652 original size:17 final size:17
Alignment explanation
Indices: 20793632--20793688 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
20793622 TAAAAATAAA
*
20793632 ATAATTTATTTATTAAT
1 ATAAATTATTTATTAAT
20793649 ATAAATTATTT-TT--T
1 ATAAATTATTTATTAAT
*
20793663 A-AAAAT-TTTATATAAT
1 ATAAATTATTTAT-TAAT
20793679 ATAAATTATT
1 ATAAATTATT
20793689 AAAATAATTT
Statistics
Matches: 31, Mismatches: 3, Indels: 11
0.69 0.07 0.24
Matches are distributed among these distances:
12 3 0.10
13 5 0.16
14 3 0.10
16 4 0.13
17 14 0.45
18 2 0.06
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATAAATTATTTATTAAT
Found at i:20793663 original size:20 final size:20
Alignment explanation
Indices: 20793626--20793663 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
20793616 TAAAAATAAA
20793626 AATAAAATAATTTATTTATT
1 AATAAAATAATTTATTTATT
*
20793646 AATATAAATTATTT-TTTA
1 AATA-AAATAATTTATTTA
20793664 AAAATTTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATAAAATAATTTATTTATT
Found at i:20793837 original size:90 final size:92
Alignment explanation
Indices: 20793658--20793834 Score: 297
Period size: 90 Copynumber: 2.0 Consensus size: 92
20793648 TATAAATTAT
*
20793658 TTTTTAAAAATTTTATATAATATAAATTATTAAAATAATTTTAAATTTATATATTTTATTATATT
1 TTTTTAAAAATTTTATATAATATAAATTATTAAAATAATTTTAAATTTATATATCTTATTATATT
20793723 TTTAAAAATTAGATTAATAATTTATCA
66 TTTAAAAATTAGATTAATAATTTATCA
* *
20793750 TTTTT-AAAA-TTTATGTAATATAAATTATTAATATAATTTTAAATTTATATATCTTATTATATT
1 TTTTTAAAAATTTTATATAATATAAATTATTAAAATAATTTTAAATTTATATATCTTATTATATT
*
20793813 TTT-AAAATTATATTAATAATTT
66 TTTAAAAATTAGATTAATAATTT
20793835 TATATAAATT
Statistics
Matches: 81, Mismatches: 4, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
89 18 0.22
90 54 0.67
91 4 0.05
92 5 0.06
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (92 bp):
TTTTTAAAAATTTTATATAATATAAATTATTAAAATAATTTTAAATTTATATATCTTATTATATT
TTTAAAAATTAGATTAATAATTTATCA
Found at i:20795054 original size:312 final size:313
Alignment explanation
Indices: 20794509--20795127 Score: 722
Period size: 312 Copynumber: 2.0 Consensus size: 313
20794499 AAATAAGTTG
** * *
20794509 ATTTTACTATTTTAATTTTAGATAAAAAATAAAATCTTATAAAATCTTAATTAAATATTTTATCT
1 ATTTTACTATTTTAACCTTAGATAAAAAACAAAATCTTATAAAATCTTAATTAAATATTTTACCT
* *
20794574 TTTAATGTTACAAAAGATGATAAAAGTAACTATTATGTTTGAACAACATCTTAAAATTAAAACTT
66 TTTAATGTTACAAAAGATGATAAAAGGAACTATTAAGTTTGAACAACA-CTTAAAATTAAAACTT
20794639 TTAGAAATTATACAAGTAATATTACTGAATAAAATATAATTTTATCAAAATATAATATGCTAACT
130 TTAGAAATTATACAAGTAATATTACTGAATAAAATATAATTTTATCAAAATATAATATGCTAACT
* * * * *
20794704 AAATAAATTTACCGTGATAAGTAGATTGAAACACTTTTTC-AATAAGTTCAATTTAAATAGAGTT
195 AAATAAATCTACCATAATAAGTAGATTGAAACACTTTTTCAAAAAAGGTCAATTTAAATAGAGTT
20794768 ACTATAAAAATTTAATAATCAATACCAA-AAAATAATTATTTATTAAAACATATGA
260 ACTATAAAAATTTAATAATCAATACCAAGAAAA-AA-TATTTATTAAAACATATGA
*
20794823 ATTTTACTATTTTAACCTTAGA-AAAATAACAAAATCTTATAAAATCTTAATTAAA-A-TTTCCC
1 ATTTTACTATTTTAACCTTAGATAAAA-AACAAAATCTTATAAAATCTTAATTAAATATTTTACC
* * * * * * *
20794885 TTATTGATTTTA-TAAGGAATGAT-GAAGGAACTATTAAGTCTT-ATCAACA-TTAAAAGTTGAA
65 TT-TTAATGTTACAAAAG-ATGATAAAAGGAACTATTAAGT-TTGAACAACACTTAAAA-TTAAA
* * * * ** *
20794946 A-TTTTAGAAGTTGTACACA-TCATATTATTGAATATTATATAATTTTGTCAAAATATAATATAT
126 ACTTTTAGAAATTATACA-AGTAATATTACTGAATAAAATATAATTTTATCAAAATAT-A-ATAT
* * * *
20795009 GCTAATTAAATAAATCTATCATAATAAGTAGATT-AAGATACTTTTTCAAAAAAGGTCAGTTTAA
188 GCTAACTAAATAAATCTACCATAATAAGTAGATTGAA-ACACTTTTTCAAAAAAGGTCAATTTAA
* * * * **
20795073 TTAGGGTTATTATAAAATTTTAATAATTGATACCAAGAAAAAATATTTATTAAAA
252 ATAGAGTTACTATAAAAATTTAATAATCAATACCAAGAAAAAATATTTATTAAAA
20795128 AATAAAAATT
Statistics
Matches: 258, Mismatches: 36, Indels: 24
0.81 0.11 0.08
Matches are distributed among these distances:
310 52 0.20
311 9 0.03
312 82 0.32
313 64 0.25
314 51 0.20
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (313 bp):
ATTTTACTATTTTAACCTTAGATAAAAAACAAAATCTTATAAAATCTTAATTAAATATTTTACCT
TTTAATGTTACAAAAGATGATAAAAGGAACTATTAAGTTTGAACAACACTTAAAATTAAAACTTT
TAGAAATTATACAAGTAATATTACTGAATAAAATATAATTTTATCAAAATATAATATGCTAACTA
AATAAATCTACCATAATAAGTAGATTGAAACACTTTTTCAAAAAAGGTCAATTTAAATAGAGTTA
CTATAAAAATTTAATAATCAATACCAAGAAAAAATATTTATTAAAACATATGA
Found at i:20795366 original size:34 final size:34
Alignment explanation
Indices: 20795307--20795381 Score: 87
Period size: 34 Copynumber: 2.2 Consensus size: 34
20795297 CTGAAAATAG
* * *
20795307 ATTTATGAAAAGTTATGTAACTTTTTGAAAATCT
1 ATTTTTGAAAAGTTATATAACTTTTTAAAAATCT
* * * *
20795341 GTTTTTGAAAAGTTATATTATTTTTTAAAAATTT
1 ATTTTTGAAAAGTTATATAACTTTTTAAAAATCT
20795375 ATTTTTG
1 ATTTTTG
20795382 GTAAATAAAA
Statistics
Matches: 33, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.52
Consensus pattern (34 bp):
ATTTTTGAAAAGTTATATAACTTTTTAAAAATCT
Found at i:20795921 original size:14 final size:14
Alignment explanation
Indices: 20795902--20795928 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20795892 TAATATAAGA
20795902 TATTTTATTTTATT
1 TATTTTATTTTATT
20795916 TATTTTATTTTAT
1 TATTTTATTTTAT
20795929 GTATATAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (14 bp):
TATTTTATTTTATT
Found at i:20797297 original size:6 final size:6
Alignment explanation
Indices: 20797288--20797345 Score: 57
Period size: 6 Copynumber: 9.7 Consensus size: 6
20797278 TATATATATA
* * *
20797288 TTTTAT TTTTAT TTTTAT TATTAT TATTAT TATTAT TATTTAT TATTT-T
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT T-TTTAT
20797337 TTTT-T TTTT
1 TTTTAT TTTT
20797346 TTGCTTGTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 3
0.91 0.04 0.06
Matches are distributed among these distances:
5 8 0.16
6 32 0.65
7 9 0.18
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTTAT
Found at i:20797310 original size:3 final size:3
Alignment explanation
Indices: 20797286--20797334 Score: 64
Period size: 3 Copynumber: 16.3 Consensus size: 3
20797276 TATATATATA
* *
20797286 TAT T-T TAT TTT TAT TTT TAT TAT TAT TAT TAT TAT TAT TATT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT
20797331 TAT T
1 TAT T
20797335 TTTTTTTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
2 2 0.05
3 35 0.88
4 3 0.08
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (3 bp):
TAT
Found at i:20797846 original size:25 final size:25
Alignment explanation
Indices: 20797818--20797882 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
20797808 TTCTAAAAAA
*
20797818 AAAATAATATAAG-GATTAAATTTTT
1 AAAATAATATAAGAGACTAAA-TTTT
*
20797843 AAAATTAA-ATTAGGAGACTAAATTTT
1 AAAA-TAATA-TAAGAGACTAAATTTT
20797869 AAAA-AATATAAGAG
1 AAAATAATATAAGAG
20797883 TATAAAGACC
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
24 7 0.21
25 6 0.18
26 14 0.42
27 6 0.18
ACGTcount: A:0.55, C:0.02, G:0.11, T:0.32
Consensus pattern (25 bp):
AAAATAATATAAGAGACTAAATTTT
Found at i:20799161 original size:26 final size:27
Alignment explanation
Indices: 20799132--20799182 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
20799122 ATACGTGTAG
*
20799132 TTTGTTAA-TAAAATTTAAAT-TTTATT
1 TTTGATAATTAAAA-TTAAATCTTTATT
20799158 TTTGATAATTAAAATTAAATCTTTA
1 TTTGATAATTAAAATTAAATCTTTA
20799183 ATAATCTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.53
Consensus pattern (27 bp):
TTTGATAATTAAAATTAAATCTTTATT
Found at i:20799250 original size:2 final size:2
Alignment explanation
Indices: 20799243--20799268 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
20799233 GCTCGTCATT
20799243 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
20799269 AAGTTTATTG
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):
TA
Found at i:20799703 original size:20 final size:20
Alignment explanation
Indices: 20799665--20799703 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
20799655 AAAAAAACCC
*
20799665 AAATGCTAGCTTTTGCATTG
1 AAATGCTAGCTATTGCATTG
20799685 AAAT-CTAGCTATTGTCATT
1 AAATGCTAGCTATTG-CATT
20799704 TTTCATTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (20 bp):
AAATGCTAGCTATTGCATTG
Found at i:20801987 original size:27 final size:27
Alignment explanation
Indices: 20801957--20802009 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
20801947 TAATAATAAT
20801957 AATATTTTAAAAGATATAATAAATATG
1 AATATTTTAAAAGATATAATAAATATG
* * **
20801984 AATATTTTTAAATATATTTTAAATAT
1 AATATTTTAAAAGATATAATAAATAT
20802010 CTTATAAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (27 bp):
AATATTTTAAAAGATATAATAAATATG
Found at i:20802164 original size:13 final size:13
Alignment explanation
Indices: 20802146--20802171 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20802136 CATTTTATTT
20802146 TTAAATAAATAAA
1 TTAAATAAATAAA
20802159 TTAAATAAATAAA
1 TTAAATAAATAAA
20802172 AGTCGCTAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (13 bp):
TTAAATAAATAAA
Found at i:20812182 original size:24 final size:26
Alignment explanation
Indices: 20812155--20812206 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 26
20812145 ATAAGATTAT
20812155 AAGGAAAATTAATCAT-C-TTTGATC
1 AAGGAAAATTAATCATCCTTTTGATC
* *
20812179 AAGGAAGATTAATTATCCTTTTGATC
1 AAGGAAAATTAATCATCCTTTTGATC
20812205 AA
1 AA
20812207 AGATGATTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 14 0.58
25 1 0.04
26 9 0.38
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (26 bp):
AAGGAAAATTAATCATCCTTTTGATC
Found at i:20816278 original size:13 final size:13
Alignment explanation
Indices: 20816260--20816284 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20816250 GAAAATATTT
20816260 TTTTTATTTTTTA
1 TTTTTATTTTTTA
20816273 TTTTTATTTTTT
1 TTTTTATTTTTT
20816285 GAAAATAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:20816323 original size:33 final size:32
Alignment explanation
Indices: 20816260--20816329 Score: 81
Period size: 32 Copynumber: 2.2 Consensus size: 32
20816250 GAAAATATTT
* *
20816260 TTTTTATTTTTTATTTTTATTTTTTGAAAATAA
1 TTTTTATTTTTTATTTTTATATTTTAAAAAT-A
20816293 TTTTTA-TTTTTATTTTT-TGAATTTTAAAAATA
1 TTTTTATTTTTTATTTTTAT--ATTTTAAAAATA
20816325 TTTTT
1 TTTTT
20816330 GGTACACAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
31 1 0.03
32 17 0.52
33 15 0.45
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (32 bp):
TTTTTATTTTTTATTTTTATATTTTAAAAATA
Found at i:20819954 original size:28 final size:28
Alignment explanation
Indices: 20819913--20819968 Score: 94
Period size: 28 Copynumber: 2.0 Consensus size: 28
20819903 TTGATTTTAT
* *
20819913 TTTAAAATTTAATGGATCAATCTAAAAA
1 TTTAAAATTCAATGGAACAATCTAAAAA
20819941 TTTAAAATTCAATGGAACAATCTAAAAA
1 TTTAAAATTCAATGGAACAATCTAAAAA
20819969 AAAAACCTCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.52, C:0.09, G:0.07, T:0.32
Consensus pattern (28 bp):
TTTAAAATTCAATGGAACAATCTAAAAA
Found at i:20820641 original size:13 final size:12
Alignment explanation
Indices: 20820622--20820647 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
20820612 TATTTTAAAT
20820622 TTTAAAAATTAA
1 TTTAAAAATTAA
20820634 TTTAAAAATTAA
1 TTTAAAAATTAA
20820646 TT
1 TT
20820648 GTTTTATCCT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (12 bp):
TTTAAAAATTAA
Found at i:20826200 original size:76 final size:76
Alignment explanation
Indices: 20826115--20826255 Score: 237
Period size: 76 Copynumber: 1.9 Consensus size: 76
20826105 GTAGATTCAC
* * * *
20826115 TTTGCATAAATGGATGGCTTAGTGGGTAGGTTGTTTCTTTGTATTCACTTCACTTTTTCAGTTAT
1 TTTGCATAAATGGATGGCTTAGTGGGTAGGTTGTTTCTTGGTATGCACTTCACTTGTTCAATTAT
20826180 TGGTAGTTTAG
66 TGGTAGTTTAG
*
20826191 TTTGCATAAATGGATGGCTTAGTGGTTAGGTTGTTTCTTGGTATGCACTTCACTTGTTCAATTAT
1 TTTGCATAAATGGATGGCTTAGTGGGTAGGTTGTTTCTTGGTATGCACTTCACTTGTTCAATTAT
20826256 CCCTTTTAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
76 60 1.00
ACGTcount: A:0.19, C:0.11, G:0.23, T:0.46
Consensus pattern (76 bp):
TTTGCATAAATGGATGGCTTAGTGGGTAGGTTGTTTCTTGGTATGCACTTCACTTGTTCAATTAT
TGGTAGTTTAG
Found at i:20831139 original size:19 final size:18
Alignment explanation
Indices: 20831112--20831159 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 18
20831102 TTGTCAATAA
*
20831112 AATATAAAAAAACTAAAAC
1 AATAAAAAAAAAC-AAAAC
* *
20831131 AATAAAAAATAACAAAGC
1 AATAAAAAAAAACAAAAC
20831149 AA-AAAAAAAAA
1 AATAAAAAAAAA
20831160 TTATGTTGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 8 0.32
18 6 0.24
19 11 0.44
ACGTcount: A:0.79, C:0.08, G:0.02, T:0.10
Consensus pattern (18 bp):
AATAAAAAAAAACAAAAC
Found at i:20831153 original size:24 final size:24
Alignment explanation
Indices: 20831106--20831153 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
20831096 AAATTTTTGT
* *
20831106 CAATAAAATATAAAAAAACTAAAA
1 CAATAAAAAATAAAAAAACAAAAA
* *
20831130 CAATAAAAAATAACAAAGCAAAAA
1 CAATAAAAAATAAAAAAACAAAAA
20831154 AAAAAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.75, C:0.10, G:0.02, T:0.12
Consensus pattern (24 bp):
CAATAAAAAATAAAAAAACAAAAA
Found at i:20833116 original size:2 final size:2
Alignment explanation
Indices: 20833111--20833152 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
20833101 GTGTGTGTGT
20833111 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
20833153 AGGGGGGGTG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:20835524 original size:33 final size:33
Alignment explanation
Indices: 20835482--20835547 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
20835472 AAGTGCATGC
20835482 TCTCTGGTGCAGGATCTTCAGTGGTTCTGCAGT
1 TCTCTGGTGCAGGATCTTCAGTGGTTCTGCAGT
20835515 TCTCTGGTGCAGGATCTTCAGTGGTTCTGCAGT
1 TCTCTGGTGCAGGATCTTCAGTGGTTCTGCAGT
20835548 ACTTTTTATG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.12, C:0.21, G:0.30, T:0.36
Consensus pattern (33 bp):
TCTCTGGTGCAGGATCTTCAGTGGTTCTGCAGT
Found at i:20844959 original size:58 final size:58
Alignment explanation
Indices: 20844874--20844992 Score: 157
Period size: 58 Copynumber: 2.1 Consensus size: 58
20844864 GTTAAAATCT
* * **
20844874 TATCGTAACTTTTTGTCAAAACGTAGTTTGTTATAAATGGTAAATTTTTATTATAAAA
1 TATCGTAACTTTTTATCAAAACATAGTTTGTTATAAATAATAAATTTTTATTATAAAA
* * * * *
20844932 TATCGTAACTTTTTATTATAACATAGTTTGTTATAACTAATAATTTTTTATTATAAGA
1 TATCGTAACTTTTTATCAAAACATAGTTTGTTATAAATAATAAATTTTTATTATAAAA
20844990 TAT
1 TAT
20844993 TATTAAATTT
Statistics
Matches: 52, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
58 52 1.00
ACGTcount: A:0.36, C:0.07, G:0.09, T:0.48
Consensus pattern (58 bp):
TATCGTAACTTTTTATCAAAACATAGTTTGTTATAAATAATAAATTTTTATTATAAAA
Found at i:20845024 original size:41 final size:41
Alignment explanation
Indices: 20844972--20845079 Score: 111
Period size: 39 Copynumber: 2.7 Consensus size: 41
20844962 TTATAACTAA
*
20844972 TAATTTTTTATTATAAGATATTATTAA-AT-TTAAATTTGATCG
1 TAATTTTTTATTATAAAATATTATTAATATATT--A-TTGATCG
20845014 TAA-TTTTTATTA-AAACATA-TA-TAATATATTATTGATCG
1 TAATTTTTTATTATAAA-ATATTATTAATATATTATTGATCG
*
20845052 TAATTTTTTATTGTAAAATATTACTTAA
1 TAATTTTTTATTATAAAATATTA-TTAA
20845080 GTCCAAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
38 10 0.18
39 15 0.27
40 11 0.20
41 14 0.25
42 6 0.11
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.51
Consensus pattern (41 bp):
TAATTTTTTATTATAAAATATTATTAATATATTATTGATCG
Found at i:20845225 original size:81 final size:80
Alignment explanation
Indices: 20844960--20845503 Score: 303
Period size: 80 Copynumber: 6.9 Consensus size: 80
20844950 TAACATAGTT
* * * * * * *
20844960 TGTTATAACTAATAA-TTTTTTATTATAAGATATTATTAAATTTAAATTTGATCGTAA-TTTTTA
1 TGTTATAAATAGTAACTTTTTTATCACAAGATATTATTAAATTCAAAATTGATCATAACTTTTTA
* **
20845023 TTAAAACATATATAATA
66 -TCAAA-ATATATAGCA
* ** * *** * * * * *
20845040 TATTATTGATCGTAA-TTTTTTATTGTAAAATATTACTTAAGTCCAAATTTGGT-AGTAACTTTT
1 TGTTATAAATAGTAACTTTTTTATCACAAGATATTA-TTAAATTCAAAATTGATCA-TAACTTTT
**
20845103 TA-CTAAAATATA-A-TT
64 TATC-AAAATATATAGCA
* * * **
20845118 TATTATAAATAATAA-TTTTTTATCATAAGATATTATTAAATTCAAAATTGATGGTAAC-TTTTA
1 TGTTATAAATAGTAACTTTTTTATCACAAGATATTATTAAATTCAAAATTGATCATAACTTTTTA
20845181 TCAAAGTATATATAGCA
66 TCAAA--ATATATAGCA
* * * * * * * *
20845198 TGTTATCAATTGTAACTTTTTAATCATAAAATATTATT-AAGTCCAAATCTTATCATAACTTTTT
1 TGTTATAAATAGTAACTTTTTTATCACAAGATATTATTAAATTCAAAAT-TGATCATAACTTTTT
* **
20845262 ATC-AAA-ATGTAGTT
65 ATCAAAATATATAGCA
* * * * **
20845276 TGTTATAAATAGGAAATTTTTTATCACAATATATTATTAAATTCAAATTTGATTGTAA-TTTTTA
1 TGTTATAAATAGTAACTTTTTTATCACAAGATATTATTAAATTCAAAATTGATCATAACTTTTTA
20845340 TCAAAACATATATAGCA
66 TC-AAA-ATATATAGCA
* * * * * * *
20845357 TGTTATTAATCGTAAC-ATTTTATTACAAGATATTATTAAGTCCAAATTTGATCATAACTTTTTA
1 TGTTATAAATAGTAACTTTTTTATCACAAGATATTATTAAATTCAAAATTGATCATAACTTTTTA
* **
20845421 TC-AAA-ACATAGTT
66 TCAAAATATATAGCA
* * * * * * *
20845434 TGTTATAAACAATAATTTTTTTTGTCACAAGATATTACTAAATTCAAATTTGATCGTAA-TTTTT
1 TGTTATAAATAGTAA-CTTTTTTATCACAAGATATTATTAAATTCAAAATTGATCATAACTTTTT
20845498 ATCAAA
65 ATCAAA
20845504 GCATGCATAG
Statistics
Matches: 357, Mismatches: 85, Indels: 45
0.73 0.17 0.09
Matches are distributed among these distances:
76 8 0.02
77 42 0.12
78 85 0.24
79 50 0.14
80 86 0.24
81 73 0.20
82 13 0.04
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (80 bp):
TGTTATAAATAGTAACTTTTTTATCACAAGATATTATTAAATTCAAAATTGATCATAACTTTTTA
TCAAAATATATAGCA
Found at i:20845344 original size:159 final size:157
Alignment explanation
Indices: 20844937--20845503 Score: 701
Period size: 158 Copynumber: 3.6 Consensus size: 157
20844927 TAAAATATCG
* * * * *
20844937 TAACTTTTTATTATAACATAGTTTGTTATAACTAATAATTTTTTATTATAAGATATTATTAAATT
1 TAACTTTTTATCAAAACATAGTTTGTTATAAATAATAATTTTTTATCACAAGATATTATTAAATT
* * ** * * * *
20845002 TAAATTTGATCGTAATTTTTATTAAAACATATATAATATATTATTGATCGTAATTTTTTATTGTA
66 CAAATTTGATCGTAATTTTTATCAAAACATATATAGCATGTTATTAATCGTAACTTTTTATTATA
*
20845067 AAATATTACTTAAGTCCAAATTTGGT-A
131 AAATATTA-TTAAGTCCAAATTTGATCA
* * * *
20845094 GTAACTTTTTA-CTAAAATATAATTTATTATAAATAATAATTTTTTATCATAAGATATTATTAAA
1 -TAACTTTTTATC-AAAACATAGTTTGTTATAAATAATAATTTTTTATCACAAGATATTATTAAA
* * * ** * * *
20845158 TTCAAAATTGATGGTAACTTTTATCAAAGTATATATAGCATGTTATCAATTGTAACTTTTTAATC
64 TTCAAATTTGATCGTAATTTTTATCAAAACATATATAGCATGTTATTAATCGTAACTTTTT-ATT
20845223 ATAAAATATTATTAAGTCCAAATCTT-ATCA
128 ATAAAATATTATTAAGTCCAAAT-TTGATCA
** *
20845253 TAACTTTTTATCAAAATGTAGTTTGTTATAAATAGGA-AATTTTTTATCACAATATATTATTAAA
1 TAACTTTTTATCAAAACATAGTTTGTTATAAATA--ATAATTTTTTATCACAAGATATTATTAAA
* *
20845317 TTCAAATTTGATTGTAATTTTTATCAAAACATATATAGCATGTTATTAATCGTAACATTTTATTA
64 TTCAAATTTGATCGTAATTTTTATCAAAACATATATAGCATGTTATTAATCGTAACTTTTTATTA
* *
20845382 CAAGATATTATTAAGTCCAAATTTGATCA
129 TAAAATATTATTAAGTCCAAATTTGATCA
* * *
20845411 TAACTTTTTATCAAAACATAGTTTGTTATAAACAATAATTTTTTTTGTCACAAGATATTACTAAA
1 TAACTTTTTATCAAAACATAGTTTGTTATAAATAATAA--TTTTTTATCACAAGATATTATTAAA
20845476 TTCAAATTTGATCGTAATTTTTATCAAA
64 TTCAAATTTGATCGTAATTTTTATCAAA
20845504 GCATGCATAG
Statistics
Matches: 351, Mismatches: 47, Indels: 21
0.84 0.11 0.05
Matches are distributed among these distances:
156 1 0.00
157 4 0.01
158 202 0.58
159 143 0.41
160 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.45
Consensus pattern (157 bp):
TAACTTTTTATCAAAACATAGTTTGTTATAAATAATAATTTTTTATCACAAGATATTATTAAATT
CAAATTTGATCGTAATTTTTATCAAAACATATATAGCATGTTATTAATCGTAACTTTTTATTATA
AAATATTATTAAGTCCAAATTTGATCA
Found at i:20845673 original size:20 final size:23
Alignment explanation
Indices: 20845609--20845673 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 23
20845599 GCGAGTAATA
*
20845609 ATTAT-ATAT-ATAAAAAATTTA
1 ATTATAATATAATAAAAAATTTT
* * *
20845630 ATTATAATATAATTAATAACTTT
1 ATTATAATATAATAAAAAATTTT
20845653 A-TATAA-A-AATAAAAAATTTT
1 ATTATAATATAATAAAAAATTTT
20845673 A
1 A
20845674 AAATAAACAT
Statistics
Matches: 35, Mismatches: 7, Indels: 5
0.74 0.15 0.11
Matches are distributed among these distances:
20 11 0.31
21 6 0.17
22 9 0.26
23 9 0.26
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTATAATATAATAAAAAATTTT
Found at i:20846862 original size:126 final size:122
Alignment explanation
Indices: 20846704--20846938 Score: 287
Period size: 126 Copynumber: 1.9 Consensus size: 122
20846694 AAACGCATTG
*
20846704 AATAATCATTTCTAAAAAATTGAAGTGATTATTAAAGGCGATTTT-TAC-AGAAAATGCCTTGAA
1 AATAATCATTTCTAAAAAATAGAAGTGATTATTAAAGGC-ATTTTCTACAAG-AAATGCCTTGAA
*
20846767 TAATCCCCTCATAAAAAATAGATTAGA-GATAATTGAAGGCGTTTTTGGTAGATAATGCTTTA
64 TAAT-CCCTC-TAAAAAATAG--TAGATGATAATTAAAGGCGTTTTTGGTAGATAATGCTTTA
* * * * *
20846829 AATAATCCTTTCATAAAAAATAGAGGTGATTATTGAAGGCATTTTCTATAAGAAATGCCTTTAAT
1 AATAATCATTTC-TAAAAAATAGAAGTGATTATTAAAGGCATTTTCTACAAGAAATGCCTTGAAT
* * * *
20846894 AATTCTTCTAAAAAATTGTAGATGATTATTAAAGGCGTTTTTGGT
65 AATCCCTCTAAAAAATAGTAGATGATAATTAAAGGCGTTTTTGGT
20846939 TAAAAACGTC
Statistics
Matches: 95, Mismatches: 11, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
122 4 0.04
123 20 0.21
124 9 0.09
125 19 0.20
126 41 0.43
127 2 0.02
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.36
Consensus pattern (122 bp):
AATAATCATTTCTAAAAAATAGAAGTGATTATTAAAGGCATTTTCTACAAGAAATGCCTTGAATA
ATCCCTCTAAAAAATAGTAGATGATAATTAAAGGCGTTTTTGGTAGATAATGCTTTA
Found at i:20846896 original size:62 final size:59
Alignment explanation
Indices: 20846704--20846935 Score: 189
Period size: 64 Copynumber: 3.8 Consensus size: 59
20846694 AAACGCATTG
* * * *
20846704 AATAATCATTTCTAAAAAATTGAAGTGATTATTAAAGGCGATTTTTACAGAAAATGCCTTG
1 AATAATCCTTTCTAAAAAATAGAAGTGATTATTAAAGGC-ATTTTTATAG-AAATGCCTTT
** * * * * *
20846765 AATAATCCCCTCATAAAAAATAGATTAGAGATAATTGAAGGCGTTTTTGGTAGATAATG-CTTT
1 AATAATCCTTTC-TAAAAAATAGA--AGTGATTATTAAAGGCATTTTT-ATAGA-AATGCCTTT
* *
20846828 AAATAATCCTTTCATAAAAAATAGAGGTGATTATTGAAGGCATTTTCTATAAGAAATGCCTTT
1 -AATAATCCTTTC-TAAAAAATAGAAGTGATTATTAAAGGCATTTT-TAT-AGAAATGCCTTT
* * * *
20846891 AATAATTC-TTCTAAAAAATTGTAGATGATTATTAAAGGCGTTTTT
1 AATAATCCTTTCTAAAAAATAGAAG-TGATTATTAAAGGCATTTTT
20846936 GGTTAAAAAC
Statistics
Matches: 137, Mismatches: 24, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
60 11 0.08
61 29 0.21
62 39 0.28
63 17 0.12
64 41 0.30
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.36
Consensus pattern (59 bp):
AATAATCCTTTCTAAAAAATAGAAGTGATTATTAAAGGCATTTTTATAGAAATGCCTTT
Found at i:20847377 original size:63 final size:63
Alignment explanation
Indices: 20847231--20847377 Score: 190
Period size: 63 Copynumber: 2.3 Consensus size: 63
20847221 TTTTATGAAC
* * * *
20847231 AGATTATTCAAGGCGTTTTTTTACCTGAAAAGCCTTTAATAATCTCTCATAAAAATTTAGAAG
1 AGATTATTGAAGGCGTTTTTTTACCTGAAAAGCATTCAATAATCTCTCATAAAAATATAGAAG
* *
20847294 AGATTATTGAAGGCGCTTTTTTACCTGAAACGCATTCAATAATCCTCTCATAAAAA-ATAG-AG
1 AGATTATTGAAGGCGTTTTTTTACCTGAAAAGCATTCAATAAT-CTCTCATAAAAATATAGAAG
* *
20847356 AAGATTATTGAAAGTGTTTTTT
1 -AGATTATTGAAGGCGTTTTTT
20847378 GTAGAAATGC
Statistics
Matches: 73, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
62 2 0.03
63 59 0.81
64 12 0.16
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
Consensus pattern (63 bp):
AGATTATTGAAGGCGTTTTTTTACCTGAAAAGCATTCAATAATCTCTCATAAAAATATAGAAG
Found at i:20848712 original size:13 final size:13
Alignment explanation
Indices: 20848696--20848720 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
20848686 ATTTAAAATT
20848696 TTTATTTATTTTA
1 TTTATTTATTTTA
20848709 TTTATTTATTTT
1 TTTATTTATTTT
20848721 TTTGAAAGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (13 bp):
TTTATTTATTTTA
Found at i:20848901 original size:5 final size:5
Alignment explanation
Indices: 20848893--20848958 Score: 64
Period size: 5 Copynumber: 13.0 Consensus size: 5
20848883 AAAATAGGTT
* * *
20848893 TAAAA TAAAA TAAAA TAAAA TCAAA TCAAA T-CAA -AAAA TAAAAA TAAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA T-AAAA T-AAAA
20848943 TAAAAA TAAAA TAAAA
1 T-AAAA TAAAA TAAAA
20848959 AAGAGAAAAC
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
4 4 0.07
5 34 0.62
6 17 0.31
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (5 bp):
TAAAA
Found at i:20848937 original size:6 final size:6
Alignment explanation
Indices: 20848926--20848959 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
20848916 AATCAAATCA
20848926 AAAAAT AAAAAT AAAAAT AAAAAT -AAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
20848960 AGAGAAAACT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 5 0.19
6 22 0.81
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:20849809 original size:10 final size:9
Alignment explanation
Indices: 20849796--20849865 Score: 54
Period size: 10 Copynumber: 7.2 Consensus size: 9
20849786 AAAGGAAAAT
20849796 AAAAAATAGA
1 AAAAAATA-A
20849806 AAAAAATAA
1 AAAAAATAA
20849815 AAAATGAA-AA
1 AAAA--AATAA
*
20849825 TAAAAATAA
1 AAAAAATAA
20849834 AAATAAATAA
1 AAA-AAATAA
20849844 ATAAAAA-AA
1 A-AAAAATAA
20849853 TAAATAAATAA
1 -AAA-AAATAA
20849864 AA
1 AA
20849866 TAATAAATAT
Statistics
Matches: 50, Mismatches: 2, Indels: 16
0.74 0.03 0.24
Matches are distributed among these distances:
8 2 0.04
9 13 0.26
10 29 0.58
11 6 0.12
ACGTcount: A:0.81, C:0.00, G:0.03, T:0.16
Consensus pattern (9 bp):
AAAAAATAA
Found at i:20849813 original size:30 final size:28
Alignment explanation
Indices: 20849777--20849865 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 28
20849767 AGTAGAAAAG
20849777 AAAAATAATAAAGGAAAATAAAAAATAGAA
1 AAAAATAATAAA-GAAAATAAAAAATA-AA
*
20849807 AAAAATAAAAAATGAAAAT-AAAAATAAA
1 AAAAATAATAAA-GAAAATAAAAAATAAA
20849835 AATAAATAAATAAA-AAAATAAATAAATAAA
1 AA-AAAT-AATAAAGAAAATAAA-AAATAAA
20849865 A
1 A
20849866 TAATAAATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
28 9 0.17
29 13 0.25
30 30 0.58
ACGTcount: A:0.80, C:0.00, G:0.04, T:0.16
Consensus pattern (28 bp):
AAAAATAATAAAGAAAATAAAAAATAAA
Found at i:20849816 original size:16 final size:15
Alignment explanation
Indices: 20849791--20849884 Score: 59
Period size: 17 Copynumber: 5.9 Consensus size: 15
20849781 ATAATAAAGG
20849791 AAAATAAAAAATAGAAA
1 AAAAT-AAAAATA-AAA
20849808 AAAATAAAAAATGAAAATA
1 AAAAT-AAAAAT--AAA-A
20849827 AAAATAAAAATAAATA
1 AAAATAAAAATAAA-A
20849843 AATAA-AAAAAT-AAA
1 AA-AATAAAAATAAAA
* *
20849857 TAAAT-AAAATAATA
1 AAAATAAAAATAAAA
* *
20849871 AATATAATAATAAA
1 AAAATAAAAATAAA
20849885 CAAGCTGTCT
Statistics
Matches: 64, Mismatches: 6, Indels: 16
0.74 0.07 0.19
Matches are distributed among these distances:
13 7 0.11
14 7 0.11
15 8 0.12
16 13 0.20
17 14 0.22
18 8 0.12
19 7 0.11
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (15 bp):
AAAATAAAAATAAAA
Found at i:20849829 original size:12 final size:12
Alignment explanation
Indices: 20849772--20849884 Score: 63
Period size: 12 Copynumber: 9.2 Consensus size: 12
20849762 ATTGAAGTAG
*
20849772 AAAAGAAAAATA
1 AAAATAAAAATA
**
20849784 ATAAAGGAAAATA
1 A-AAATAAAAATA
*
20849797 AAAA-ATAGAA-A
1 AAAATA-AAAATA
*
20849808 AAAATAAAAAATG
1 AAAAT-AAAAATA
20849821 AAAATAAAAATA
1 AAAATAAAAATA
20849833 AAAATAAATAAATA
1 AAAAT-AA-AAATA
20849847 AAAA-AATAAATA
1 AAAATAA-AAATA
*
20849859 AATAA-AATAATA
1 AA-AATAAAAATA
* *
20849871 AATATAATAATA
1 AAAATAAAAATA
20849883 AA
1 AA
20849885 CAAGCTGTCT
Statistics
Matches: 84, Mismatches: 8, Indels: 18
0.76 0.07 0.16
Matches are distributed among these distances:
11 6 0.07
12 46 0.55
13 23 0.27
14 9 0.11
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.18
Consensus pattern (12 bp):
AAAATAAAAATA
Found at i:20849882 original size:20 final size:18
Alignment explanation
Indices: 20849791--20849884 Score: 73
Period size: 20 Copynumber: 4.8 Consensus size: 18
20849781 ATAATAAAGG
* *
20849791 AAAATAAAAAATAGAA-A
1 AAAATAAATAATAAAATA
*
20849808 AAAATAAAAAATGAAAATA
1 AAAATAAATAAT-AAAATA
*
20849827 AAAATAAAAATAAATAAATAAA
1 AAAAT--AAAT-AATAAA-ATA
20849849 AAAATAAATAAATAAAATA
1 AAAATAAAT-AATAAAATA
20849868 ATAAATATAATAATAAA
1 A-AAATA-AATAATAAA
20849885 CAAGCTGTCT
Statistics
Matches: 65, Mismatches: 4, Indels: 13
0.79 0.05 0.16
Matches are distributed among these distances:
17 12 0.18
18 3 0.05
19 9 0.14
20 22 0.34
21 9 0.14
22 10 0.15
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (18 bp):
AAAATAAATAATAAAATA
Found at i:20850460 original size:113 final size:114
Alignment explanation
Indices: 20850243--20850506 Score: 298
Period size: 113 Copynumber: 2.3 Consensus size: 114
20850233 GTTGTGAATG
* * * * * *
20850243 TAAAAATGATCTGACCTAAGTCGAGATTGGATGATTAGGATGATGCCATGAGTTTGGAGGTGACC
1 TAAAAATAATCTGACCTAAGTCGAGATTAGATGACTAAGATGATGCCATAAGTTTGAAGGTGACC
* * * *
20850308 AAGATCGAGTCGAGGTCGTAAATAAATGACTGGATTGGTATCACGAGTC
66 AAGATCAAGTCGAGGTCATAAATAAATGACTGAACTGGTATCACGAGTC
* * * * * *
20850357 TGAAGATAATCTGACCTAAGTCAAGATTAAATGACTAAGATGATG-CGTAAGTTTGAAGGTGATC
1 TAAAAATAATCTGACCTAAGTCGAGATTAGATGACTAAGATGATGCCATAAGTTTGAAGGTGACC
* ***
20850421 AAGATCAAGTCGAGGTCATAAATAGATGAAC-GAACTGGTATTGTGAGTC
66 AAGATCAAGTCGAGGTCATAAATAAATG-ACTGAACTGGTATCACGAGTC
* * *
20850470 TAAAAATGATTTGACCTAAGTCGAGATCAGATGACTA
1 TAAAAATAATCTGACCTAAGTCGAGATTAGATGACTA
20850507 GAACGATGTC
Statistics
Matches: 122, Mismatches: 27, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
113 83 0.68
114 39 0.32
ACGTcount: A:0.35, C:0.12, G:0.26, T:0.27
Consensus pattern (114 bp):
TAAAAATAATCTGACCTAAGTCGAGATTAGATGACTAAGATGATGCCATAAGTTTGAAGGTGACC
AAGATCAAGTCGAGGTCATAAATAAATGACTGAACTGGTATCACGAGTC
Found at i:20858228 original size:15 final size:16
Alignment explanation
Indices: 20858197--20858230 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
20858187 ATCTATAAAT
*
20858197 TATCATATAAAATTTA
1 TATCATATAAAAATTA
20858213 TATCAT-TAAAAATTA
1 TATCATATAAAAATTA
20858228 TAT
1 TAT
20858231 TTGATATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 11 0.65
16 6 0.35
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (16 bp):
TATCATATAAAAATTA
Found at i:20863758 original size:61 final size:58
Alignment explanation
Indices: 20863666--20863808 Score: 139
Period size: 59 Copynumber: 2.4 Consensus size: 58
20863656 GTATCTGACT
* * *
20863666 AAAAATACCTTTAATAATCCATTTTAATTTTTTGAGGGGATTA-TTGAAG-GTATTTTCTGTA
1 AAAAATGCCTTAAATAATCCATTTT-ATTTTTT-A--GGATTATTTAAAGTGTATTTTCT-TA
* *
20863727 AAAAATGCCTTCAATAATCCATAATTT-TTTTTTAGGATTATTTAAAGTGTTTTTTCTTA
1 AAAAATGCCTTAAATAATCCAT--TTTATTTTTTAGGATTATTTAAAGTGTATTTTCTTA
* *
20863786 GAAAATGCCTTAAATATTCCATT
1 AAAAATGCCTTAAATAATCCATT
20863809 AAAAAAATTG
Statistics
Matches: 71, Mismatches: 7, Indels: 12
0.79 0.08 0.13
Matches are distributed among these distances:
57 1 0.01
58 6 0.08
59 26 0.37
60 9 0.13
61 26 0.37
63 3 0.04
ACGTcount: A:0.34, C:0.10, G:0.11, T:0.45
Consensus pattern (58 bp):
AAAAATGCCTTAAATAATCCATTTTATTTTTTAGGATTATTTAAAGTGTATTTTCTTA
Found at i:20865949 original size:17 final size:16
Alignment explanation
Indices: 20865927--20865984 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 16
20865917 TATTCACTTA
20865927 ATATTTATATGTTTATT
1 ATATTTATAT-TTTATT
*
20865944 ATATTTATTGATTTTGTTTT
1 ATATTTA-T-A-TTT-TATT
20865964 AATATTTATATTTTATT
1 -ATATTTATATTTTATT
20865981 ATAT
1 ATAT
20865985 ATTGTAGCAG
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
16 4 0.12
17 10 0.29
18 4 0.12
19 4 0.12
20 5 0.15
21 7 0.21
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (16 bp):
ATATTTATATTTTATT
Found at i:20867610 original size:14 final size:14
Alignment explanation
Indices: 20867591--20867621 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
20867581 TTAAAATTAA
*
20867591 ATATTTATATGAAT
1 ATATTTATACGAAT
20867605 ATATTTATACGAAT
1 ATATTTATACGAAT
20867619 ATA
1 ATA
20867622 GAAAAATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (14 bp):
ATATTTATACGAAT
Found at i:20868008 original size:65 final size:62
Alignment explanation
Indices: 20867903--20868105 Score: 167
Period size: 62 Copynumber: 3.2 Consensus size: 62
20867893 AATAATTCGT
* * * * * *
20867903 GGATTATTCAAAGTGTTTTTGGCCAAAAACGCCTTCAATAATCCCCTCAACAAAATTTTTTGTAT
1 GGATTATTGAAGGCGTTTGTGGACAAAAACGCCTTCAATAATCCCCTC--C-AAATTTTTT-TAG
20867968 A
62 A
* * *
20867969 -GATTATTGAAGGCGTTTGTGGACAAAAATGCCTTTAATAATCCCTTCCAAATTTTTTTAGA
1 GGATTATTGAAGGCGTTTGTGGACAAAAACGCCTTCAATAATCCCCTCCAAATTTTTTTAGA
* * * ** * * * *
20868030 GGATTATTGAAGGTGTTT-TTGATCAAAAGCAACTTCTATAATCCCTTTCAAATTTTTTCAGA
1 GGATTATTGAAGGCGTTTGTGGA-CAAAAACGCCTTCAATAATCCCCTCCAAATTTTTTTAGA
* *
20868092 AGATTATTAAAGGC
1 GGATTATTGAAGGC
20868106 ATTTTTGGCT
Statistics
Matches: 113, Mismatches: 22, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
61 6 0.05
62 67 0.59
63 1 0.01
65 39 0.35
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.37
Consensus pattern (62 bp):
GGATTATTGAAGGCGTTTGTGGACAAAAACGCCTTCAATAATCCCCTCCAAATTTTTTTAGA
Found at i:20868334 original size:62 final size:63
Alignment explanation
Indices: 20868263--20868398 Score: 170
Period size: 62 Copynumber: 2.2 Consensus size: 63
20868253 GTCAAAAACA
*
20868263 CCTTCAATAATCTTTTTCAAAATTT-TTCAGAGGATTATTAAAGGTATTTTT-GACAAAAAATG
1 CCTTCAATAATCTTTTTC-AAATTTGTTCAGAGGATTATTAAAGGCATTTTTAGACAAAAAATG
* * * * * *
20868325 CCTTTAATAATCTTTTTCAAATTTGTTGAGGGGATTATTGAAGGCATTTTTAGATAAAAACT-
1 CCTTCAATAATCTTTTTCAAATTTGTTCAGAGGATTATTAAAGGCATTTTTAGACAAAAAATG
*
20868387 CTTTCAATAATC
1 CCTTCAATAATC
20868399 CCCTCAAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
61 6 0.10
62 49 0.78
63 8 0.13
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (63 bp):
CCTTCAATAATCTTTTTCAAATTTGTTCAGAGGATTATTAAAGGCATTTTTAGACAAAAAATG
Found at i:20868438 original size:63 final size:64
Alignment explanation
Indices: 20868294--20868525 Score: 197
Period size: 64 Copynumber: 3.7 Consensus size: 64
20868284 ATTTTTCAGA
* * * * * *** * **
20868294 GGATTATTAAAGGTATTTTTGACAAAAAATGCCTTTAATAATCTTTTTC--AAATTTGTTGAGG
1 GGATTATTGAATGTGTTTTTGACCAAAAATGCCTTCAATAATCTCCCTCAAAAATTTTTTGAAT
* ** * * *
20868356 GGATTATTGAAGGCATTTTTAGA-TAAAAACT-CTTTCAATAATC-CCCTCAAAAATTTTTTGTA
1 GGATTATTGAATGTGTTTTT-GACCAAAAA-TGCCTTCAATAATCTCCCTCAAAAATTTTTTGAA
20868418 T
64 T
* * * *
20868419 GGATTGTTGAATGTGTTTTTGACCAAAAATGCCTTCAATATTCTCTCTCCAAAATTTTTTGAAT
1 GGATTATTGAATGTGTTTTTGACCAAAAATGCCTTCAATAATCTCCCTCAAAAATTTTTTGAAT
*
20868483 GGATTATTGAATGCT-TTTTTGACCAAAAATACCTTCAATAATC
1 GGATTATTGAATG-TGTTTTTGACCAAAAATGCCTTCAATAATC
20868526 CCATTCAATT
Statistics
Matches: 137, Mismatches: 25, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
61 2 0.01
62 36 0.26
63 43 0.31
64 55 0.40
65 1 0.01
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (64 bp):
GGATTATTGAATGTGTTTTTGACCAAAAATGCCTTCAATAATCTCCCTCAAAAATTTTTTGAAT
Found at i:20878374 original size:2 final size:2
Alignment explanation
Indices: 20878367--20878396 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20878357 AAGCATACTA
20878367 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
20878397 GAGTTAGTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20878704 original size:20 final size:21
Alignment explanation
Indices: 20878671--20878713 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
20878661 ATATTACGCT
*
20878671 GCAAGATAAAAGTAGGAAATA
1 GCAAGATAAAAGTAAGAAATA
20878692 GCAAGAT-AAAGTAAGAAATA
1 GCAAGATAAAAGTAAGAAATA
20878712 GC
1 GC
20878714 CAACTCTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.56, C:0.07, G:0.23, T:0.14
Consensus pattern (21 bp):
GCAAGATAAAAGTAAGAAATA
Found at i:20880667 original size:22 final size:23
Alignment explanation
Indices: 20880635--20880694 Score: 95
Period size: 23 Copynumber: 2.7 Consensus size: 23
20880625 CATATCCAAT
*
20880635 CCATCAGACTAATCA-CCCAGTC
1 CCATCAGACTAACCACCCCAGTC
*
20880657 CCATCAAACTAACCACCCCAGTC
1 CCATCAGACTAACCACCCCAGTC
20880680 CCATCAGACTAACCA
1 CCATCAGACTAACCA
20880695 TGCTTGTGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 13 0.38
23 21 0.62
ACGTcount: A:0.35, C:0.43, G:0.07, T:0.15
Consensus pattern (23 bp):
CCATCAGACTAACCACCCCAGTC
Found at i:20880746 original size:22 final size:22
Alignment explanation
Indices: 20880720--20880762 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
20880710 TAGACCAACC
*
20880720 ACCCCTACAAATACCTACAGCA
1 ACCCCTACAAACACCTACAGCA
*
20880742 ACCCCTACAGACACCTACAGC
1 ACCCCTACAAACACCTACAGC
20880763 CCCTAAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.44, G:0.07, T:0.12
Consensus pattern (22 bp):
ACCCCTACAAACACCTACAGCA
Found at i:20881540 original size:36 final size:37
Alignment explanation
Indices: 20881466--20881547 Score: 112
Period size: 37 Copynumber: 2.2 Consensus size: 37
20881456 ACCCTGAACC
* *
20881466 GGCTCAGTCGAACCACTATTCAAACCGCCACTCAATT
1 GGCTCAATCGAACCACTAGTCAAACCGCCACTCAATT
* * *
20881503 GGCTTAATCGAACCACTAGTCGAA-CGTCACTCAATT
1 GGCTCAATCGAACCACTAGTCAAACCGCCACTCAATT
20881539 GGCTCAATC
1 GGCTCAATC
20881548 AAATCGCTTG
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
36 19 0.49
37 20 0.51
ACGTcount: A:0.29, C:0.32, G:0.16, T:0.23
Consensus pattern (37 bp):
GGCTCAATCGAACCACTAGTCAAACCGCCACTCAATT
Found at i:20881803 original size:20 final size:20
Alignment explanation
Indices: 20881778--20881816 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20881768 GAAATAATTA
* *
20881778 ACAATAATAATAATTAAATG
1 ACAATAACAATAATAAAATG
20881798 ACAATAACAATAATAAAAT
1 ACAATAACAATAATAAAAT
20881817 TCAAATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.64, C:0.08, G:0.03, T:0.26
Consensus pattern (20 bp):
ACAATAACAATAATAAAATG
Found at i:20881912 original size:3 final size:3
Alignment explanation
Indices: 20881904--20881936 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
20881894 ATATGTATAT
20881904 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20881937 ACTTTTTTTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20889087 original size:19 final size:18
Alignment explanation
Indices: 20889050--20889088 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
20889040 TATTCAAATG
* *
20889050 ATTATGACTTTCTGTATA
1 ATTATGACTTTATGAATA
20889068 ATTATGACCTTTATGAATA
1 ATTATGA-CTTTATGAATA
20889087 AT
1 AT
20889089 ACTTTATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.33, C:0.10, G:0.10, T:0.46
Consensus pattern (18 bp):
ATTATGACTTTATGAATA
Found at i:20889370 original size:3 final size:3
Alignment explanation
Indices: 20889364--20889392 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
20889354 TTTTTAAGAT
20889364 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
20889393 TTTAGGGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:20890837 original size:40 final size:40
Alignment explanation
Indices: 20890790--20890868 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
20890780 AGCAAAAATA
20890790 TATTATGTTTTCAATTCTACATCAAGTATCTTAAAATATC
1 TATTATGTTTTCAATTCTACATCAAGTATCTTAAAATATC
*
20890830 TATTATGTTTTCAATTCTACATTAAGTATCTTAAAATAT
1 TATTATGTTTTCAATTCTACATCAAGTATCTTAAAATAT
20890869 AAATAATTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.35, C:0.13, G:0.05, T:0.47
Consensus pattern (40 bp):
TATTATGTTTTCAATTCTACATCAAGTATCTTAAAATATC
Found at i:20895828 original size:31 final size:31
Alignment explanation
Indices: 20895759--20895830 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
20895749 ACAAATTTCC
*
20895759 ATGCACTATTCATATACTGTTAGTATAATAT
1 ATGCACTGTTCATATACTGTTAGTATAATAT
* * * *
20895790 CTGCACTGTTCATGTATTGTTAGTATAGTAAT
1 ATGCACTGTTCATATACTGTTAGTATAAT-AT
20895822 AT-CACTGTT
1 ATGCACTGTT
20895831 TGTCCATTTT
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
31 31 0.91
32 3 0.09
ACGTcount: A:0.29, C:0.14, G:0.14, T:0.43
Consensus pattern (31 bp):
ATGCACTGTTCATATACTGTTAGTATAATAT
Found at i:20897764 original size:40 final size:40
Alignment explanation
Indices: 20897709--20897787 Score: 131
Period size: 40 Copynumber: 2.0 Consensus size: 40
20897699 GATGGAATTA
* *
20897709 TATTATGTTTTCAATTCTACATCAAGTATCTTACAATATC
1 TATTACGTTTTCAATTCTACATCAAGTATCTTAAAATATC
*
20897749 TATTACGTTTTCAATTCTACATTAAGTATCTTAAAATAT
1 TATTACGTTTTCAATTCTACATCAAGTATCTTAAAATAT
20897788 AAATAATTGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.34, C:0.15, G:0.05, T:0.46
Consensus pattern (40 bp):
TATTACGTTTTCAATTCTACATCAAGTATCTTAAAATATC
Found at i:20901611 original size:2 final size:2
Alignment explanation
Indices: 20901604--20901643 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
20901594 AATATTATTT
20901604 AG AG AG AG AG 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 AG AG AG AG AG
20901644 TACTTGAGAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:20903506 original size:76 final size:76
Alignment explanation
Indices: 20903376--20903525 Score: 239
Period size: 76 Copynumber: 2.0 Consensus size: 76
20903366 AATTTGGATC
* *
20903376 TAAAATTTTAAAATTCTAAAATCTTTTTCTTACTACTAAATCAAAAACTCATTGGCCGCTTGTAA
1 TAAAATCTTAAAATTCTAAAATCTTTTCCTTACTACTAAATCAAAAACTCATTGGCCGCTTGTAA
20903441 ATATAATCTTA
66 ATATAATCTTA
* * *
20903452 TAAAATCTTAAAATTCTAAAA-CATTTTCCTTACTATTAAATCAAGAACTGATTGGCCGCTTGTA
1 TAAAATCTTAAAATTCTAAAATC-TTTTCCTTACTACTAAATCAAAAACTCATTGGCCGCTTGTA
20903516 AATATAATCT
65 AATATAATCT
20903526 GGTACTAGCC
Statistics
Matches: 68, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
75 1 0.01
76 67 0.99
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.38
Consensus pattern (76 bp):
TAAAATCTTAAAATTCTAAAATCTTTTCCTTACTACTAAATCAAAAACTCATTGGCCGCTTGTAA
ATATAATCTTA
Found at i:20905232 original size:20 final size:18
Alignment explanation
Indices: 20905207--20905244 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
20905197 TTTTGCATGA
20905207 ATTTGCATGACTAATATTAT
1 ATTTGCATGA-TAAT-TTAT
20905227 ATTTGCATGATAATTTAT
1 ATTTGCATGATAATTTAT
20905245 TTGCTTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (18 bp):
ATTTGCATGATAATTTAT
Found at i:20905247 original size:16 final size:16
Alignment explanation
Indices: 20905207--20905268 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
20905197 TTTTGCATGA
20905207 ATTTGCATGACTAATATTAT
1 ATTTGCATGA-T-A-ATT-T
20905227 ATTTGCATGATAATTT
1 ATTTGCATGATAATTT
* * *
20905243 ATTTGCTTAATATTTT
1 ATTTGCATGATAATTT
*
20905259 ATTTGTATGA
1 ATTTGCATGA
20905269 ATTGAATCTA
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
16 21 0.58
17 3 0.08
18 1 0.03
19 1 0.03
20 10 0.28
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (16 bp):
ATTTGCATGATAATTT
Found at i:20905451 original size:40 final size:40
Alignment explanation
Indices: 20905406--20905604 Score: 239
Period size: 40 Copynumber: 5.0 Consensus size: 40
20905396 TAGTAGCTTT
*
20905406 TTTTATATTGTTAATTGCATGATTATATATTTATTGCAAG
1 TTTTATATTGTTAATTGCATGATTATATATTTATTGCATG
*
20905446 TTTTATATTGTTAATTGCAATGA-TA-ATATAT-TTGCATG
1 TTTTATATTGTTAATTGC-ATGATTATATATTTATTGCATG
* *
20905484 ATTTATATTGTTAATTGCATGATTATATATAT-TTGCATG
1 TTTTATATTGTTAATTGCATGATTATATATTTATTGCATG
* * *
20905523 ATTTATATTGTTAATTGCATTATTATATATTTATTTG-GTG
1 TTTTATATTGTTAATTGCATGATTATATATTTA-TTGCATG
* *
20905563 ATTTT-TATTGTTAATTTCATGATTATACATTTAATTGCATG
1 -TTTTATATTGTTAATTGCATGATTATATATTT-ATTGCATG
20905604 T
1 T
20905605 CTATTTGCAT
Statistics
Matches: 140, Mismatches: 11, Indels: 16
0.84 0.07 0.10
Matches are distributed among these distances:
37 4 0.03
38 25 0.18
39 48 0.34
40 50 0.36
41 13 0.09
ACGTcount: A:0.30, C:0.05, G:0.12, T:0.53
Consensus pattern (40 bp):
TTTTATATTGTTAATTGCATGATTATATATTTATTGCATG
Found at i:20905521 original size:18 final size:18
Alignment explanation
Indices: 20905471--20905530 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 18
20905461 TGCAATGATA
20905471 ATATATTTGCATGATTTAT
1 ATATATTTGCATGA-TTAT
* *
20905490 ATTGTTAATTGCATGATTAT
1 A-T-ATATTTGCATGATTAT
20905510 ATATATTTGCATGATT-T
1 ATATATTTGCATGATTAT
20905527 ATAT
1 ATAT
20905531 TGTTAATTGC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
17 5 0.14
18 12 0.34
19 2 0.06
20 6 0.17
21 10 0.29
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.52
Consensus pattern (18 bp):
ATATATTTGCATGATTAT
Found at i:20905525 original size:39 final size:39
Alignment explanation
Indices: 20905407--20905589 Score: 246
Period size: 39 Copynumber: 4.7 Consensus size: 39
20905397 AGTAGCTTTT
* * *
20905407 TTTATATTGTTAATTGCATGATTATATATTTATTGCAAGT
1 TTTATATTGTTAATTGCATGATTATATATAT-TTGCATGA
20905447 TTTATATTGTTAATTGCAATGA-TA-ATATATTTGCATGA
1 TTTATATTGTTAATTGC-ATGATTATATATATTTGCATGA
20905485 TTTATATTGTTAATTGCATGATTATATATATTTGCATGA
1 TTTATATTGTTAATTGCATGATTATATATATTTGCATGA
* *
20905524 TTTATATTGTTAATTGCATTATTATATATTTATTTG-GTGA
1 TTTATATTGTTAATTGCATGATTATATA--TATTTGCATGA
* *
20905564 TTTTTATTGTTAATTTCATGATTATA
1 TTTATATTGTTAATTGCATGATTATA
20905590 CATTTAATTG
Statistics
Matches: 130, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
37 4 0.03
38 25 0.19
39 46 0.35
40 45 0.35
41 10 0.08
ACGTcount: A:0.30, C:0.04, G:0.12, T:0.54
Consensus pattern (39 bp):
TTTATATTGTTAATTGCATGATTATATATATTTGCATGA
Found at i:20905674 original size:32 final size:32
Alignment explanation
Indices: 20905613--20905674 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
20905603 GTCTATTTGC
* ***
20905613 ATGATTATTAATTTATTTATTTGTGTGATTGT
1 ATGATTATTAATATATTTATTTCCATGATTGT
20905645 ATGATTATTAATATATTTATTTCCATGATT
1 ATGATTATTAATATATTTATTTCCATGATT
20905675 ATTATTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.29, C:0.03, G:0.11, T:0.56
Consensus pattern (32 bp):
ATGATTATTAATATATTTATTTCCATGATTGT
Found at i:20905698 original size:19 final size:20
Alignment explanation
Indices: 20905651--20905709 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 20
20905641 TTGTATGATT
* *
20905651 ATTAATATATTTATTTCCATG
1 ATTATTATATTTA-TTGCATG
20905672 ATTATTAT-TATTATTGCATG
1 ATTATTATAT-TTATTGCATG
20905692 ATT-TTATATTTATTGCAT
1 ATTATTATATTTATTGCAT
20905710 AATATGATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
19 13 0.38
20 11 0.32
21 10 0.29
ACGTcount: A:0.31, C:0.07, G:0.07, T:0.56
Consensus pattern (20 bp):
ATTATTATATTTATTGCATG
Found at i:20905719 original size:19 final size:19
Alignment explanation
Indices: 20905682--20905725 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
20905672 ATTATTATTA
* * *
20905682 TTATTGCATGATTTTATAT
1 TTATTGCATAATATGATAT
20905701 TTATTGCATAATATGATAT
1 TTATTGCATAATATGATAT
20905720 TGTATT
1 T-TATT
20905726 AATTTTAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.55
Consensus pattern (19 bp):
TTATTGCATAATATGATAT
Found at i:20908426 original size:16 final size:16
Alignment explanation
Indices: 20908405--20908438 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
20908395 GAAATAGCAT
20908405 AATGATACATAAGGCA
1 AATGATACATAAGGCA
*
20908421 AATGATACATGAGGCA
1 AATGATACATAAGGCA
20908437 AA
1 AA
20908439 GGTCTGACCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.50, C:0.12, G:0.21, T:0.18
Consensus pattern (16 bp):
AATGATACATAAGGCA
Found at i:20917568 original size:3 final size:3
Alignment explanation
Indices: 20917560--20917593 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
20917550 ATAAATAAGC
20917560 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
20917594 TCTTGATGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:20918347 original size:10 final size:10
Alignment explanation
Indices: 20918322--20918357 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
20918312 ACGGCCAGAT
*
20918322 TTATTTTTTA
1 TTATTTTTAA
20918332 TT-TTTTTAA
1 TTATTTTTAA
20918341 TTATTTTTAA
1 TTATTTTTAA
20918351 TTATTTT
1 TTATTTT
20918358 GATCACTATC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (10 bp):
TTATTTTTAA
Found at i:20918445 original size:16 final size:16
Alignment explanation
Indices: 20918421--20918465 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
20918411 TGATAAATCC
*
20918421 TAAAAAAATAATAAAA
1 TAAATAAATAATAAAA
20918437 TAAATAAATAAT-AAA
1 TAAATAAATAATAAAA
*
20918452 CAAATAAATTAATA
1 TAAATAAA-TAATA
20918466 CATCAATGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 10 0.40
16 15 0.60
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAATAAATAATAAAA
Found at i:20918748 original size:43 final size:44
Alignment explanation
Indices: 20918700--20918964 Score: 319
Period size: 43 Copynumber: 6.1 Consensus size: 44
20918690 ATTTTTAGAG
* * * *
20918700 AATAAACAAA-CTCCTT-TAAATAAAGGCTTAACAACTTTTGGAA
1 AATAAACAAAGCTCCTTCTAAACAAAGGCTCAACGAC-TTTGAAA
* * *
20918743 AATAAACAAAG-TTCTTCTAAATAGAGGCTCAACGACCTTTGAAA
1 AATAAACAAAGCTCCTTCTAAACAAAGGCTCAACGA-CTTTGAAA
*
20918787 AATAAACAAAGC-CCTTCTAAACAGAGGCTCAACGACTTTGAAA
1 AATAAACAAAGCTCCTTCTAAACAAAGGCTCAACGACTTTGAAA
*
20918830 AATAAACAAAGC-CCTTCTAAACAGAGGCTCAACGACTTTGAAA
1 AATAAACAAAGCTCCTTCTAAACAAAGGCTCAACGACTTTGAAA
* * *
20918873 AATAAGCAAAGTTCCTT-TAAACAAAAGCTCAACGACTTTGAAA
1 AATAAACAAAGCTCCTTCTAAACAAAGGCTCAACGACTTTGAAA
* * * *
20918916 AATAAATAAAGCTCC-TCTAAATAAAGGCTTAACCACTTTGAAA
1 AATAAACAAAGCTCCTTCTAAACAAAGGCTCAACGACTTTGAAA
20918959 AATAAA
1 AATAAA
20918965 AGACTCTTTG
Statistics
Matches: 198, Mismatches: 18, Indels: 12
0.87 0.08 0.05
Matches are distributed among these distances:
42 1 0.01
43 139 0.70
44 57 0.29
45 1 0.01
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (44 bp):
AATAAACAAAGCTCCTTCTAAACAAAGGCTCAACGACTTTGAAA
Found at i:20926489 original size:14 final size:14
Alignment explanation
Indices: 20926453--20926492 Score: 53
Period size: 16 Copynumber: 2.7 Consensus size: 14
20926443 GGAGTCGGTG
20926453 AGGCTATTTTAAAA
1 AGGCTATTTTAAAA
*
20926467 AGTGGCTATTTTGAAA
1 A--GGCTATTTTAAAA
20926483 AGGCTATTTT
1 AGGCTATTTT
20926493 TTAATAGTAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 10 0.43
16 13 0.57
ACGTcount: A:0.33, C:0.07, G:0.20, T:0.40
Consensus pattern (14 bp):
AGGCTATTTTAAAA
Found at i:20929785 original size:3 final size:3
Alignment explanation
Indices: 20929777--20929805 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
20929767 AATAAGCAAA
20929777 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
20929806 ATGAAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:20934680 original size:55 final size:56
Alignment explanation
Indices: 20934585--20934696 Score: 181
Period size: 55 Copynumber: 2.0 Consensus size: 56
20934575 CTTTGTTTGC
** * *
20934585 ATCAAATTATTGTTATGCTTTTTCGTGCTGATATTACTTTCTTTTCTAAAAATAAG
1 ATCAAATTATTGACATGCTTTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
20934641 ATCAAATTATTGACATGC-TTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
1 ATCAAATTATTGACATGCTTTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
20934696 A
1 A
20934697 CGAGATTTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
55 36 0.69
56 16 0.31
ACGTcount: A:0.32, C:0.13, G:0.10, T:0.45
Consensus pattern (56 bp):
ATCAAATTATTGACATGCTTTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
Found at i:20941594 original size:20 final size:21
Alignment explanation
Indices: 20941571--20941625 Score: 53
Period size: 20 Copynumber: 2.7 Consensus size: 21
20941561 ATTTATGTAG
20941571 ATTTGATTAAATTTTT-ATTA
1 ATTTGATTAAATTTTTAATTA
* *
20941591 ATTTG-TATATATTTTTAATTT
1 ATTTGAT-TAAATTTTTAATTA
*
20941612 GTTT-ATTAAATTTT
1 ATTTGATTAAATTTT
20941626 CATACATGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
19 1 0.04
20 20 0.71
21 7 0.25
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (21 bp):
ATTTGATTAAATTTTTAATTA
Found at i:20943435 original size:19 final size:19
Alignment explanation
Indices: 20943398--20943439 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
20943388 AAGCCCTAAA
*
20943398 TTTTATTTATATTTATATT
1 TTTTATTTAAATTTATATT
20943417 TTTTAGTTTAAATTT-TATT
1 TTTTA-TTTAAATTTATATT
20943436 TTTT
1 TTTT
20943440 TGTCAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 13 0.62
20 8 0.38
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTATTTAAATTTATATT
Found at i:20947080 original size:55 final size:56
Alignment explanation
Indices: 20946986--20947097 Score: 181
Period size: 55 Copynumber: 2.0 Consensus size: 56
20946976 CTTTGTTTGC
* * * *
20946986 ATCAAATTGTTGTCATGCTTTTTCGTGCTGATATTACTTTCTTTTCTAAAAATAAG
1 ATCAAATTATTGACATGCTTTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
20947042 ATCAAATTATTGACATGC-TTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
1 ATCAAATTATTGACATGCTTTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
20947097 A
1 A
20947098 CGAGATTTAA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
55 36 0.69
56 16 0.31
ACGTcount: A:0.31, C:0.14, G:0.11, T:0.44
Consensus pattern (56 bp):
ATCAAATTATTGACATGCTTTTTCATGCTGATATAACTTTCTTTTCTAAAAATAAG
Found at i:20952787 original size:2 final size:2
Alignment explanation
Indices: 20952780--20952809 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
20952770 AATATTATTT
20952780 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
20952810 TACTTGAGGT
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:20955781 original size:20 final size:19
Alignment explanation
Indices: 20955739--20955780 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
20955729 AAGCCCTAAA
*
20955739 TTTTATTTATATTTTAATT
1 TTTTATTTAAATTTTAATT
20955758 TTTTAGTTTAAATTTT-ATT
1 TTTTA-TTTAAATTTTAATT
20955777 TTTT
1 TTTT
20955781 TGTCAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.57
20 9 0.43
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (19 bp):
TTTTATTTAAATTTTAATT
Found at i:20956433 original size:20 final size:20
Alignment explanation
Indices: 20956408--20956465 Score: 93
Period size: 20 Copynumber: 3.0 Consensus size: 20
20956398 TTTTGCATGA
20956408 ATTTGCATGACTAATATTAT
1 ATTTGCATGACTAATATTAT
*
20956428 ATTTGCATGACTAATATTAA
1 ATTTGCATGACTAATATTAT
20956448 ATTTGCATGA-TAAT-TTAT
1 ATTTGCATGACTAATATTAT
20956466 TTGCTTAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
18 3 0.08
19 4 0.11
20 29 0.81
ACGTcount: A:0.36, C:0.09, G:0.10, T:0.45
Consensus pattern (20 bp):
ATTTGCATGACTAATATTAT
Found at i:20956531 original size:20 final size:21
Alignment explanation
Indices: 20956489--20956580 Score: 66
Period size: 20 Copynumber: 4.6 Consensus size: 21
20956479 TATTTGTATG
*
20956489 ATTAATATA-TTGCGTGATTT
1 ATTAATATATTTGCGTGATCT
*
20956509 ATTAATATATTTGTGTGA-CT
1 ATTAATATATTTGCGTGATCT
* * *
20956529 ATTAATTTATTTACATGAT-T
1 ATTAATATATTTGCGTGATCT
* * *
20956549 ATCAATTTATTTGCATGAT-T
1 ATTAATATATTTGCGTGATCT
* *
20956569 ATCAATTTATTT
1 ATTAATATATTT
20956581 ATTTGTGTGA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
20 55 0.89
21 7 0.11
ACGTcount: A:0.32, C:0.07, G:0.10, T:0.52
Consensus pattern (21 bp):
ATTAATATATTTGCGTGATCT
Found at i:20956585 original size:24 final size:20
Alignment explanation
Indices: 20956532--20956580 Score: 89
Period size: 20 Copynumber: 2.5 Consensus size: 20
20956522 TGTGACTATT
*
20956532 AATTTATTTACATGATTATC
1 AATTTATTTGCATGATTATC
20956552 AATTTATTTGCATGATTATC
1 AATTTATTTGCATGATTATC
20956572 AATTTATTT
1 AATTTATTT
20956581 ATTTGTGTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.33, C:0.08, G:0.06, T:0.53
Consensus pattern (20 bp):
AATTTATTTGCATGATTATC
Found at i:20956625 original size:20 final size:21
Alignment explanation
Indices: 20956590--20956840 Score: 138
Period size: 20 Copynumber: 12.4 Consensus size: 21
20956580 TATTTGTGTG
*
20956590 ATTGCATGTTTTATATTGTTA
1 ATTGCATGTATTATATTGTTA
*
20956611 ATTGCTTG-ATTATATAT-TTA
1 ATTGCATGTATTATAT-TGTTA
* * *
20956631 GTAGCATGTTTTATATTGTTA
1 ATTGCATGTATTATATTGTTA
20956652 ATTGCATG-ATTATATAT-TTA
1 ATTGCATGTATTATAT-TGTTA
* *
20956672 ATTGCAAGTTTTATATTGTTA
1 ATTGCATGTATTATATTGTTA
** * * *
20956693 ATTGCATG-AAAAAAAT-ATA
1 ATTGCATGTATTATATTGTTA
* *
20956712 TTTGCATGTTTTATATTGTTA
1 ATTGCATGTATTATATTGTTA
*
20956733 ATTGCATG-ATTATA-T-ATA
1 ATTGCATGTATTATATTGTTA
* *
20956751 TTTGAATG-ATTTATATTGTTA
1 ATTGCATGTA-TTATATTGTTA
20956772 ATTGCAT-TATTATATAT-TTA
1 ATTGCATGTATTATAT-TGTTA
* * *
20956792 TTTG-GTG-ATTTTTATTGTTA
1 ATTGCATGTA-TTATATTGTTA
* *
20956812 ATTTCATG-ATTATACAT-TTA
1 ATTGCATGTATTATA-TTGTTA
20956832 ATTGCATGT
1 ATTGCATGT
20956841 CTATTTGCAT
Statistics
Matches: 169, Mismatches: 42, Indels: 38
0.68 0.17 0.15
Matches are distributed among these distances:
18 9 0.05
19 18 0.11
20 80 0.47
21 62 0.37
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (21 bp):
ATTGCATGTATTATATTGTTA
Found at i:20956643 original size:41 final size:41
Alignment explanation
Indices: 20956590--20956840 Score: 305
Period size: 41 Copynumber: 6.2 Consensus size: 41
20956580 TATTTGTGTG
*
20956590 ATTGCATGTTTTATATTGTTAATTGCTTGATTATATATTTA
1 ATTGCATGTTTTATATTGTTAATTGCATGATTATATATTTA
* *
20956631 GTAGCATGTTTTATATTGTTAATTGCATGATTATATATTTA
1 ATTGCATGTTTTATATTGTTAATTGCATGATTATATATTTA
* * * * *
20956672 ATTGCAAGTTTTATATTGTTAATTGCATGA-AAAAAATATA
1 ATTGCATGTTTTATATTGTTAATTGCATGATTATATATTTA
*
20956712 TTTGCATGTTTTATATTGTTAATTGCATGATTATATA--TA
1 ATTGCATGTTTTATATTGTTAATTGCATGATTATATATTTA
* * * *
20956751 TTTGAATGATTTATATTGTTAATTGCATTATTATATATTTA
1 ATTGCATGTTTTATATTGTTAATTGCATGATTATATATTTA
* * * *
20956792 TTTG-GTGATTTT-TATTGTTAATTTCATGATTATACATTTA
1 ATTGCATG-TTTTATATTGTTAATTGCATGATTATATATTTA
20956832 ATTGCATGT
1 ATTGCATGT
20956841 CTATTTGCAT
Statistics
Matches: 180, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
39 36 0.20
40 65 0.36
41 79 0.44
ACGTcount: A:0.30, C:0.05, G:0.13, T:0.52
Consensus pattern (41 bp):
ATTGCATGTTTTATATTGTTAATTGCATGATTATATATTTA
Found at i:20956808 original size:79 final size:81
Alignment explanation
Indices: 20956590--20956837 Score: 283
Period size: 79 Copynumber: 3.1 Consensus size: 81
20956580 TATTTGTGTG
* * * *
20956590 ATTGCATGTTTTATATTGTTAATTGC-TTGATTATATATTTAGTAGCATGTTTTATATTGTTAAT
1 ATTGCAAGATTTATATTGTTAATTGCATT-ATTATATATTTATTTGCATGTTTTATATTGTTAAT
20956654 TGCATGATTATATATTTA
65 TGCATGATTATATA-TTA
* * * * * *
20956672 ATTGCAAGTTTTATATTGTTAATTGCATGA-AAAAAATATATTTGCATGTTTTATATTGTTAATT
1 ATTGCAAGATTTATATTGTTAATTGCATTATTATATATTTATTTGCATGTTTTATATTGTTAATT
20956736 GCATGATTATATA-TA
66 GCATGATTATATATTA
* *
20956751 TTTG-AATGATTTATATTGTTAATTGCATTATTATATATTTATTTG-GTGATTTT-TATTGTTAA
1 ATTGCAA-GATTTATATTGTTAATTGCATTATTATATATTTATTTGCATG-TTTTATATTGTTAA
* *
20956813 TTTCATGATTATACATTTA
64 TTGCATGATTATATA-TTA
20956832 ATTGCA
1 ATTGCA
20956838 TGTCTATTTG
Statistics
Matches: 140, Mismatches: 19, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
78 2 0.01
79 50 0.36
80 14 0.10
81 46 0.33
82 27 0.19
83 1 0.01
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (81 bp):
ATTGCAAGATTTATATTGTTAATTGCATTATTATATATTTATTTGCATGTTTTATATTGTTAATT
GCATGATTATATATTA
Found at i:20956910 original size:32 final size:32
Alignment explanation
Indices: 20956849--20956910 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
20956839 GTCTATTTGC
* **
20956849 ATGATTATTAATTTACTTATTTGTGTGATTGT
1 ATGATTATTAATATACTTATTTGCATGATTGT
*
20956881 ATGATTATTAATATATTTATTTGCATGATT
1 ATGATTATTAATATACTTATTTGCATGATT
20956911 ATTATTATTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (32 bp):
ATGATTATTAATATACTTATTTGCATGATTGT
Found at i:20956913 original size:24 final size:20
Alignment explanation
Indices: 20956876--20956944 Score: 70
Period size: 24 Copynumber: 3.3 Consensus size: 20
20956866 TATTTGTGTG
*
20956876 ATTGTATGATTATTAATATATTT
1 ATTGCATGATTATT-AT-TA-TT
20956899 ATTTGCATGATTATTATTATT
1 A-TTGCATGATTATTATTATT
20956920 ATTGCATGATT-TTA-TATTT
1 ATTGCATGATTATTATTA-TT
20956939 ATTGCA
1 ATTGCA
20956945 CAATATGATA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
18 2 0.05
19 11 0.26
20 10 0.23
21 3 0.07
22 2 0.05
23 3 0.07
24 12 0.28
ACGTcount: A:0.30, C:0.04, G:0.10, T:0.55
Consensus pattern (20 bp):
ATTGCATGATTATTATTATT
Found at i:20956934 original size:19 final size:20
Alignment explanation
Indices: 20956887--20956944 Score: 75
Period size: 19 Copynumber: 2.9 Consensus size: 20
20956877 TTGTATGATT
*
20956887 ATTAATATATTTATTTGCATG
1 ATTATTATATTTA-TTGCATG
20956908 ATTATTAT-TATTATTGCATG
1 ATTATTATAT-TTATTGCATG
20956928 ATT-TTATATTTATTGCA
1 ATTATTATATTTATTGCA
20956945 CAATATGATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
19 12 0.35
20 12 0.35
21 10 0.29
ACGTcount: A:0.31, C:0.05, G:0.09, T:0.55
Consensus pattern (20 bp):
ATTATTATATTTATTGCATG
Found at i:20963624 original size:19 final size:20
Alignment explanation
Indices: 20963600--20963637 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20963590 AAAAATTTTT
20963600 AAAAAAAA-CCTAAAAATTA
1 AAAAAAAATCCTAAAAATTA
*
20963619 AAAAAAAATCTTAAAAATT
1 AAAAAAAATCCTAAAAATT
20963638 CTAGAACTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.71, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAAAAATCCTAAAAATTA
Found at i:20963899 original size:10 final size:10
Alignment explanation
Indices: 20963876--20963909 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
20963866 GGCCAGATTC
*
20963876 ATTTTTTATT
1 ATTTTTAATT
20963886 -TTTTTAATT
1 ATTTTTAATT
20963895 ATTTTTAATT
1 ATTTTTAATT
20963905 ATTTT
1 ATTTT
20963910 GATCACCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
ATTTTTAATT
Found at i:20963959 original size:4 final size:4
Alignment explanation
Indices: 20963936--20964026 Score: 57
Period size: 4 Copynumber: 23.0 Consensus size: 4
20963926 TCCTAACAAG
* * **
20963936 AATA AA-A AATA AACA AATA AAT- AATCA CAATA AATC TTTA AA-A AAT-
1 AATA AATA AATA AATA AATA AATA AAT-A -AATA AATA AATA AATA AATA
* *
20963982 AATAA AATA AATA ATATA AATA AAT- AATA AACA AATA AATC AATA
1 AAT-A AATA AATA A-ATA AATA AATA AATA AATA AATA AATA AATA
20964027 CATCAATGGG
Statistics
Matches: 66, Mismatches: 12, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
3 15 0.23
4 40 0.61
5 8 0.12
6 3 0.05
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (4 bp):
AATA
Found at i:20964004 original size:36 final size:36
Alignment explanation
Indices: 20963938--20964006 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
20963928 CTAACAAGAA
*
20963938 TAAAAAATAAACAAATAAATAATCACAATAAATCTT
1 TAAAAAATAAACAAATAAATAATCAAAATAAATCTT
20963974 TAAAAAATAATA-AAATAAATAAT-ATAAATAAAT
1 TAAAAAATAA-ACAAATAAATAATCA-AAATAAAT
20964007 AATAAACAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
35 1 0.03
36 28 0.93
37 1 0.03
ACGTcount: A:0.68, C:0.06, G:0.00, T:0.26
Consensus pattern (36 bp):
TAAAAAATAAACAAATAAATAATCAAAATAAATCTT
Found at i:20964018 original size:36 final size:36
Alignment explanation
Indices: 20963936--20964020 Score: 95
Period size: 36 Copynumber: 2.4 Consensus size: 36
20963926 TCCTAACAAG
*
20963936 AATAAAAAATAAACAAATAAATAATCACAATAAATC
1 AATAAAAAATAAACAAATAAATAATCAAAATAAATC
**
20963972 TTTAAAAAATAATA-AAATAAATAAT-ATAAATAAAT-
1 AATAAAAAATAA-ACAAATAAATAATCA-AAATAAATC
20964007 AATAAACAAATAAA
1 AATAAA-AAATAAA
20964021 TCAATACATC
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
35 6 0.15
36 34 0.83
37 1 0.02
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (36 bp):
AATAAAAAATAAACAAATAAATAATCAAAATAAATC
Found at i:20964278 original size:43 final size:42
Alignment explanation
Indices: 20964228--20964504 Score: 253
Period size: 44 Copynumber: 6.4 Consensus size: 42
20964218 CTGAAACTTT
* * * *
20964228 TCTAAATAGAGGTTCATAATTTTTAGAGAATAAACAAAGCTCC
1 TCTAAACAGAGGCTCATAACTTTT-GAAAATAAACAAAGCTCC
* * *
20964271 TTTAAATAGAAGCTCA-ACGACTTTTGGAAAATAAACAAAGCTCC
1 TCTAAACAGAGGCTCATA--ACTTTT-GAAAATAAACAAAGCTCC
*
20964315 TCTAAACAGAGGCTCAATGACTTTTGAAAAATAAACAAAGCTCC
1 TCTAAACAGAGGCTC-ATAACTTTTG-AAAATAAACAAAGCTCC
20964359 TCTAAACAGAGGCTCA-ACGACTTTTGAAAAATAAACAAAG-TCCC
1 TCTAAACAGAGGCTCATA--ACTTTTG-AAAATAAACAAAGCT-CC
*
20964403 TCTAAACAGAGGCTCA-ACGAC-TTTGAAAAATAAGCAAAGCTCC
1 TCTAAACAGAGGCTCATA--ACTTTTG-AAAATAAACAAAGCTCC
*
20964446 TCTAAACAGAGGCTCA-ACGAC-TTTGAAAAATAAATAAAGCTCC
1 TCTAAACAGAGGCTCATA--ACTTTTG-AAAATAAACAAAGCTCC
* *
20964489 TCTAAATAAAGGCTCA
1 TCTAAACAGAGGCTCA
20964505 ACGACTTTGA
Statistics
Matches: 209, Mismatches: 16, Indels: 18
0.86 0.07 0.07
Matches are distributed among these distances:
42 1 0.00
43 90 0.43
44 117 0.56
45 1 0.00
ACGTcount: A:0.43, C:0.20, G:0.14, T:0.23
Consensus pattern (42 bp):
TCTAAACAGAGGCTCATAACTTTTGAAAATAAACAAAGCTCC
Found at i:20964505 original size:43 final size:44
Alignment explanation
Indices: 20964256--20964522 Score: 416
Period size: 44 Copynumber: 6.1 Consensus size: 44
20964246 ATTTTTAGAG
* * * *
20964256 AATAAACAAAGCTCCTTTAAATAGAAGCTCAACGACTTTTGGAA
1 AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAA
*
20964300 AATAAACAAAGCTCCTCTAAACAGAGGCTCAATGACTTTTGAAA
1 AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAA
20964344 AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAA
1 AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAA
20964388 AATAAACAAAG-TCCCTCTAAACAGAGGCTCAACGAC-TTTGAAA
1 AATAAACAAAGCT-CCTCTAAACAGAGGCTCAACGACTTTTGAAA
*
20964431 AATAAGCAAAGCTCCTCTAAACAGAGGCTCAACGAC-TTTGAAA
1 AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAA
* * *
20964474 AATAAATAAAGCTCCTCTAAATAAAGGCTCAACGAC-TTTGAAA
1 AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAA
20964517 AATAAA
1 AATAAA
20964523 AGGCTCCTCG
Statistics
Matches: 210, Mismatches: 11, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
43 93 0.44
44 117 0.56
ACGTcount: A:0.45, C:0.21, G:0.13, T:0.21
Consensus pattern (44 bp):
AATAAACAAAGCTCCTCTAAACAGAGGCTCAACGACTTTTGAAA
Found at i:20965548 original size:10 final size:10
Alignment explanation
Indices: 20965526--20965578 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
20965516 ATCTTGAGTC
*
20965526 TTTTT-TTTA
1 TTTTTCTTTT
20965535 TTTTTCTTTT
1 TTTTTCTTTT
20965545 TTTTTCTTTAT
1 TTTTTCTTT-T
**
20965556 TTTCCCTTTT
1 TTTTTCTTTT
*
20965566 TTTTTATTTT
1 TTTTTCTTTT
20965576 TTT
1 TTT
20965579 AAGCATAGTA
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
9 5 0.14
10 23 0.64
11 8 0.22
ACGTcount: A:0.06, C:0.09, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:20965554 original size:20 final size:20
Alignment explanation
Indices: 20965526--20965570 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
20965516 ATCTTGAGTC
*
20965526 TTTTTTTTATTTT-TCTTTT
1 TTTTTTTTATTTTCCCTTTT
20965545 TTTTTCTTTATTTTCCCTTTT
1 TTTTT-TTTATTTTCCCTTTT
20965566 TTTTT
1 TTTTT
20965571 ATTTTTTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 5 0.22
20 8 0.35
21 10 0.43
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.84
Consensus pattern (20 bp):
TTTTTTTTATTTTCCCTTTT
Found at i:20972030 original size:16 final size:16
Alignment explanation
Indices: 20972009--20972048 Score: 66
Period size: 14 Copynumber: 2.6 Consensus size: 16
20971999 CTGGTGAGGT
20972009 TATTTTGAAAAATGGC
1 TATTTTGAAAAATGGC
20972025 TATTTTG--AAATGGC
1 TATTTTGAAAAATGGC
20972039 TATTTTGAAA
1 TATTTTGAAA
20972049 TAGTACATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 14 0.64
16 8 0.36
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.42
Consensus pattern (16 bp):
TATTTTGAAAAATGGC
Found at i:20972813 original size:15 final size:15
Alignment explanation
Indices: 20972766--20972802 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
20972756 TTATTTTATT
20972766 AAATGCAATGAAT-A
1 AAATGCAATGAATGA
20972780 AGAATGCAATGAATGA
1 A-AATGCAATGAATGA
20972796 AAATGCA
1 AAATGCA
20972803 TGCATGCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 1 0.05
15 18 0.86
16 2 0.10
ACGTcount: A:0.54, C:0.08, G:0.19, T:0.19
Consensus pattern (15 bp):
AAATGCAATGAATGA
Done.