Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold324
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: 2336777
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 2 of 16
Found at i:163821 original size:23 final size:23
Alignment explanation
Indices: 163776--163821 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
163766 GGAAGGGGGG
* **
163776 GTGGGGGCGGCGGGGGGTGTGGA
1 GTGGGGGAGGCGGGGGGACTGGA
*
163799 GTGGGGGAGGGGGGGGGACTGGA
1 GTGGGGGAGGCGGGGGGACTGGA
163822 CCGTTGATTG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.09, C:0.07, G:0.74, T:0.11
Consensus pattern (23 bp):
GTGGGGGAGGCGGGGGGACTGGA
Found at i:170548 original size:11 final size:11
Alignment explanation
Indices: 170526--170576 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
170516 TGCTTCGAAT
170526 TAATTT-AATA
1 TAATTTAAATA
170536 TAATTTAAATA
1 TAATTTAAATA
* *
170547 TAA-ATAATTA
1 TAATTTAAATA
* *
170557 TTATTTAAATT
1 TAATTTAAATA
170568 TAATTTAAA
1 TAATTTAAA
170577 ATTTATAAAT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
10 13 0.41
11 19 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TAATTTAAATA
Found at i:170590 original size:31 final size:31
Alignment explanation
Indices: 170528--170590 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 31
170518 CTTCGAATTA
*
170528 ATTTAATATAATTTAAATATAAATAATTATT
1 ATTTAATATAATTTAAATATAAATAAATATT
* **
170559 ATTTAAATTTAATTTAAA-ATTTATAAATATT
1 ATTT-AATATAATTTAAATATAAATAAATATT
170590 A
1 A
170591 ATATAAAAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 15 0.56
32 12 0.44
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (31 bp):
ATTTAATATAATTTAAATATAAATAAATATT
Found at i:170630 original size:21 final size:20
Alignment explanation
Indices: 170601--170640 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
170591 ATATAAAAGT
* *
170601 AATATTTTAATATTTTTAAAA
1 AATAATTTAA-ATTATTAAAA
170622 AATAATTTAAATTATTAAA
1 AATAATTTAAATTATTAAA
170641 TTAAATTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
AATAATTTAAATTATTAAAA
Found at i:170976 original size:2 final size:2
Alignment explanation
Indices: 170971--170996 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
170961 ACACACACAC
170971 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
170997 TGATCCTTCT
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:171703 original size:16 final size:17
Alignment explanation
Indices: 171682--171723 Score: 52
Period size: 16 Copynumber: 2.5 Consensus size: 17
171672 ATCTTATTAA
171682 TTATTATT-TTT-TCATT
1 TTATTATTATTTAT-ATT
171698 TTATTATTATTTATATT
1 TTATTATTATTTATATT
171715 TGTATTATT
1 T-TATTATT
171724 CATTCATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
16 8 0.35
17 7 0.30
18 8 0.35
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
TTATTATTATTTATATT
Found at i:172188 original size:23 final size:24
Alignment explanation
Indices: 172149--172195 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
172139 TTTAATTTAT
*
172149 TATTATTTTATCAAATAA-ATTAA
1 TATTATTTAATCAAATAACATTAA
172172 TATTATTTAATTC-AATAACATTAA
1 TATTATTTAA-TCAAATAACATTAA
172196 ATTTAATCAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (24 bp):
TATTATTTAATCAAATAACATTAA
Found at i:178678 original size:3 final size:3
Alignment explanation
Indices: 178670--178699 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
178660 GACCATATTG
178670 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
178700 ATCTCCTGCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:178881 original size:19 final size:20
Alignment explanation
Indices: 178853--178896 Score: 56
Period size: 19 Copynumber: 2.2 Consensus size: 20
178843 TTACTTAAGA
*
178853 ATTAATTTTAAA-AAT-TTAT
1 ATTAAATTTAAATAATATT-T
178872 ATTAAATTTAAATAATATTT
1 ATTAAATTTAAATAATATTT
178892 ATTAA
1 ATTAA
178897 TTATATATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 11 0.50
20 9 0.41
21 2 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTAAATTTAAATAATATTT
Found at i:178995 original size:20 final size:21
Alignment explanation
Indices: 178970--179059 Score: 85
Period size: 20 Copynumber: 4.1 Consensus size: 21
178960 TATGAATTAA
*
178970 AAAATAATTTAAATTATA-TT
1 AAAATAATTTAAATTAAATTT
*
178990 AAAATATTTTAAATTAAATTT
1 AAAATAATTTAAATTAAATTT
*
179011 AAAATAAATTTTATTAATTAAATAAT
1 AAAAT-AA-TTTA--AATTAAAT-TT
179037 AAAAT-ATCTTAAATTAAATTT
1 AAAATAAT-TTAAATTAAATTT
179058 AA
1 AA
179060 TTAAATTCGT
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
20 16 0.28
21 10 0.17
22 9 0.16
23 5 0.09
24 4 0.07
25 8 0.14
26 6 0.10
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAATAATTTAAATTAAATTT
Found at i:179322 original size:19 final size:18
Alignment explanation
Indices: 179285--179330 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
179275 CACCATACGG
* *
179285 TAATAATATATAAATATA
1 TAATAAAATATAAAAATA
179303 TAATAAAATAATAAAAATA
1 TAATAAAAT-ATAAAAATA
*
179322 TATTAAAAT
1 TAATAAAAT
179331 TTACTTAATA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TAATAAAATATAAAAATA
Found at i:179718 original size:26 final size:27
Alignment explanation
Indices: 179680--179737 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 27
179670 TAAATAAATT
*
179680 TATATTATATTAAAATTTATATA-ACA
1 TATATTATATTAAAATATATATATACA
* * *
179706 TATATTATTTTAATATATATATATATA
1 TATATTATATTAAAATATATATATACA
179733 TATAT
1 TATAT
179738 AAAATTTCGA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (27 bp):
TATATTATATTAAAATATATATATACA
Found at i:179798 original size:2 final size:2
Alignment explanation
Indices: 179791--179839 Score: 73
Period size: 2 Copynumber: 25.0 Consensus size: 2
179781 CAGATACAAC
* *
179791 TA TA TA TA CA TA TA CA 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 TA TA TA TA TA TA TA TA
179833 T- TA TA TA
1 TA TA TA TA
179840 CACATTTGCA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 41 0.98
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:180771 original size:21 final size:22
Alignment explanation
Indices: 180718--180771 Score: 60
Period size: 21 Copynumber: 2.5 Consensus size: 22
180708 AAATTTATCA
180718 ATTATTACATTACAATATAATAT
1 ATTATTA-ATTACAATATAATAT
*
180741 AATATT-ATTACAATA-AATA-
1 ATTATTAATTACAATATAATAT
180760 ACTTATTAATTA
1 A-TTATTAATTA
180772 ATTTTAAAGT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 1 0.04
20 8 0.30
21 13 0.48
23 5 0.19
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (22 bp):
ATTATTAATTACAATATAATAT
Found at i:181883 original size:3 final size:3
Alignment explanation
Indices: 181875--181903 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
181865 TTGGACTTTA
181875 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
181904 ATGAAGTATG
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:187656 original size:39 final size:39
Alignment explanation
Indices: 187602--187681 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
187592 TGACATGGTC
*
187602 ATTGCAACAAGCAATCAAGCACAAAGAATTATAAAGCAA
1 ATTGCAACAAGCAATCAAGCACAAAGAATTATAAACCAA
*
187641 ATTGCAACAAGCAATCAAGCATAAAGAATTATAAACCAA
1 ATTGCAACAAGCAATCAAGCACAAAGAATTATAAACCAA
187680 AT
1 AT
187682 AGAGGAAACT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.54, C:0.17, G:0.11, T:0.17
Consensus pattern (39 bp):
ATTGCAACAAGCAATCAAGCACAAAGAATTATAAACCAA
Found at i:189193 original size:21 final size:21
Alignment explanation
Indices: 189167--189206 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
189157 AGATTTATTC
189167 TTATTTTT-ATAATTTATTTAA
1 TTATTTTTGA-AATTTATTTAA
189188 TTATTTTTGAAATTTATTT
1 TTATTTTTGAAATTTATTT
189207 TTACTAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (21 bp):
TTATTTTTGAAATTTATTTAA
Found at i:192165 original size:5 final size:5
Alignment explanation
Indices: 192151--192199 Score: 53
Period size: 5 Copynumber: 9.8 Consensus size: 5
192141 GCTTCTGCAA
* * * * *
192151 AAAAG GAAAG AAAAG AAAGG AAAGG AAAGG AAATG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
192200 ACGCTTTTCT
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.71, C:0.00, G:0.27, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:193568 original size:18 final size:18
Alignment explanation
Indices: 193532--193591 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
193522 TATAATACCA
*
193532 AAATTATAAATATCA-AAT
1 AAATTAAAAATAT-ATAAT
193550 AAATTAAAAATATATAAT
1 AAATTAAAAATATATAAT
*
193568 AATATTAGAAAA-A-ATAGT
1 AA-ATTA-AAAATATATAAT
193586 AAATTA
1 AAATTA
193592 TTGTTAATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
17 5 0.14
18 23 0.62
19 5 0.14
20 4 0.11
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (18 bp):
AAATTAAAAATATATAAT
Found at i:203377 original size:5 final size:5
Alignment explanation
Indices: 203367--203392 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
203357 GTCAATTTGG
203367 TCCCA TCCCA TCCCA TCCCA TCCCA T
1 TCCCA TCCCA TCCCA TCCCA TCCCA T
203393 GTTCACCTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.58, G:0.00, T:0.23
Consensus pattern (5 bp):
TCCCA
Found at i:203578 original size:12 final size:12
Alignment explanation
Indices: 203561--203591 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
203551 TAGACATACA
203561 ACCATTGAATCC
1 ACCATTGAATCC
203573 ACCATTGAATCC
1 ACCATTGAATCC
203585 ACCATTG
1 ACCATTG
203592 CATCATACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.32, C:0.32, G:0.10, T:0.26
Consensus pattern (12 bp):
ACCATTGAATCC
Found at i:204516 original size:26 final size:25
Alignment explanation
Indices: 204473--204567 Score: 81
Period size: 27 Copynumber: 3.8 Consensus size: 25
204463 AGAAAAAAAA
*
204473 ATAT-ATTATATCATATTTAAAGTATT
1 ATATAATTATAT-AAATTTAAA-TATT
204499 ATATAATTATATAAATTTTAATATATT
1 ATATAATTATATAAA-TTTAA-ATATT
* *
204526 A-ATAATTATAT-TATTTAAATTTT
1 ATATAATTATATAAATTTAAATATT
*
204549 AATATAATT-TATAATTTTA
1 -ATATAATTATATAAATTTA
204568 TCTTATCCAT
Statistics
Matches: 58, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
23 4 0.07
24 9 0.16
25 11 0.19
26 16 0.28
27 17 0.29
28 1 0.02
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (25 bp):
ATATAATTATATAAATTTAAATATT
Found at i:204545 original size:31 final size:32
Alignment explanation
Indices: 204504--204564 Score: 97
Period size: 31 Copynumber: 1.9 Consensus size: 32
204494 GTATTATATA
204504 ATTATATAAATTTTAATAT-ATTAATAATTAT
1 ATTATATAAATTTTAATATAATTAATAATTAT
* *
204535 ATTATTTAAATTTTAATATAATTTATAATT
1 ATTATATAAATTTTAATATAATTAATAATT
204565 TTATCTTATC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
31 18 0.67
32 9 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (32 bp):
ATTATATAAATTTTAATATAATTAATAATTAT
Found at i:204558 original size:17 final size:18
Alignment explanation
Indices: 204499--204567 Score: 67
Period size: 17 Copynumber: 4.0 Consensus size: 18
204489 TTAAAGTATT
204499 ATATAATTATATAAATTTTA
1 ATATAATT-TAT-AATTTTA
*
204519 ATAT-ATTAATAA--TT-
1 ATATAATTTATAATTTTA
*
204533 ATATTATTTA-AATTTTA
1 ATATAATTTATAATTTTA
204550 ATATAATTTATAATTTTA
1 ATATAATTTATAATTTTA
204568 TCTTATCCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
14 6 0.15
15 6 0.15
16 2 0.05
17 11 0.27
18 9 0.22
19 3 0.07
20 4 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
ATATAATTTATAATTTTA
Found at i:206021 original size:2 final size:2
Alignment explanation
Indices: 206016--206044 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
206006 TCTCTCTCTC
206016 TA 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 TA T
206045 GCATACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:206259 original size:2 final size:2
Alignment explanation
Indices: 206252--206276 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
206242 TAATATCATA
206252 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
206277 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:206281 original size:2 final size:2
Alignment explanation
Indices: 206276--206304 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
206266 ATATATATAT
206276 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
206305 TAACTACTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:206433 original size:2 final size:2
Alignment explanation
Indices: 206426--206458 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
206416 CAGTTATTTG
*
206426 AT AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
206459 ATTTTTATTT
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:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:207825 original size:23 final size:23
Alignment explanation
Indices: 207798--207845 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
207788 AGATATTATT
*
207798 TTGAATT-TAAAATATTACTTTTA
1 TTGAATTAAAAAATATTA-TTTTA
207821 TTGAATTAAAAAATATTATTTTA
1 TTGAATTAAAAAATATTATTTTA
207844 TT
1 TT
207846 TTTCTACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
TTGAATTAAAAAATATTATTTTA
Found at i:209226 original size:2 final size:2
Alignment explanation
Indices: 209219--209251 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
209209 TGGGAAGAGC
209219 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
209252 CACACACTTT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:210512 original size:21 final size:21
Alignment explanation
Indices: 210458--210544 Score: 115
Period size: 21 Copynumber: 4.2 Consensus size: 21
210448 AACTACCTTG
*
210458 TATA-AAAAAATTATTAAAAT
1 TATATAAAAAATTATCAAAAT
* **
210478 TATATTAAGTATTATCAAAAT
1 TATATAAAAAATTATCAAAAT
210499 TATATAAAAAATTATCAAAAT
1 TATATAAAAAATTATCAAAAT
*
210520 AATATAAAAAATTATC-AAAT
1 TATATAAAAAATTATCAAAAT
210540 TATAT
1 TATAT
210545 TTTAAAGGTC
Statistics
Matches: 57, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
20 12 0.21
21 45 0.79
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.37
Consensus pattern (21 bp):
TATATAAAAAATTATCAAAAT
Found at i:211284 original size:25 final size:26
Alignment explanation
Indices: 211256--211345 Score: 82
Period size: 25 Copynumber: 3.5 Consensus size: 26
211246 AATTATTAAA
211256 AATAAATATAAATAATTTTATTT-TT
1 AATAAATATAAATAATTTTATTTATT
* * *
211281 AATAAA-ATGATATTATTTAATTTATT
1 AATAAATAT-AAATAATTTTATTTATT
211307 AAT-AATATATAA-AATTTTATATTATT
1 AATAAATATA-AATAATTTTAT-TTATT
*
211333 AATACAT-TAAATA
1 AATAAATATAAATA
211346 TAAATTTTGT
Statistics
Matches: 51, Mismatches: 7, Indels: 13
0.72 0.10 0.18
Matches are distributed among these distances:
24 2 0.04
25 28 0.55
26 19 0.37
27 2 0.04
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.48
Consensus pattern (26 bp):
AATAAATATAAATAATTTTATTTATT
Found at i:216896 original size:20 final size:20
Alignment explanation
Indices: 216869--216908 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
216859 TGTTTAATTT
*
216869 TTAAAAAAAAT-TTTATTTA
1 TTAAAAAAAATATTTTTTTA
216888 TTAAAAAAAATATTTTTTTA
1 TTAAAAAAAATATTTTTTTA
216908 T
1 T
216909 ATCTCTATCT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.58
20 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TTAAAAAAAATATTTTTTTA
Found at i:219294 original size:2 final size:2
Alignment explanation
Indices: 219287--219314 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
219277 CTTTACAAAC
219287 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
219315 GTTACAAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:220139 original size:3 final size:3
Alignment explanation
Indices: 220131--220164 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
220121 TTCTCAAAAG
220131 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -AA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
220165 CTCATACAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 28 0.93
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:220900 original size:2 final size:2
Alignment explanation
Indices: 220893--220946 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
220883 AGGTAAGCCT
220893 TA TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA TA
220935 TA TA TA TA TA TA
1 TA TA TA TA TA TA
220947 ACTGACCAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:221721 original size:1 final size:1
Alignment explanation
Indices: 221715--221741 Score: 54
Period size: 1 Copynumber: 27.0 Consensus size: 1
221705 ACAAACTCTG
221715 TTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTT
221742 CCGATTATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:222267 original size:16 final size:18
Alignment explanation
Indices: 222239--222273 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
222229 TTTTATTTAT
222239 AAAAATATAT-AAATTAA
1 AAAAATATATAAAATTAA
222256 AAAAATAT-TAAAATTAA
1 AAAAATATATAAAATTAA
222273 A
1 A
222274 TATAATTCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 16 0.94
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AAAAATATATAAAATTAA
Found at i:222698 original size:3 final size:3
Alignment explanation
Indices: 222692--222716 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
222682 TTTTAATTTT
222692 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
222717 AATTTAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:223751 original size:2 final size:2
Alignment explanation
Indices: 223744--223781 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
223734 CTTTAGCTGG
223744 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
223782 GTGGCATTAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:223886 original size:16 final size:16
Alignment explanation
Indices: 223867--223921 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
223857 CATGATATTT
223867 ATTTGAATTT-ATTTAA
1 ATTT-AATTTAATTTAA
223883 ATTTAATTTAATTT-A
1 ATTTAATTTAATTTAA
* *
223898 ATTTAAATT-ATTATTA
1 ATTTAATTTAATT-TAA
223914 ATTTAATT
1 ATTTAATT
223922 AAATATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
14 3 0.09
15 15 0.44
16 16 0.47
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (16 bp):
ATTTAATTTAATTTAA
Found at i:223892 original size:5 final size:5
Alignment explanation
Indices: 223863--223921 Score: 59
Period size: 5 Copynumber: 11.6 Consensus size: 5
223853 AAATCATGAT
* *
223863 ATTT- ATTTGA ATTT- ATTTAA ATTTA ATTTA ATTTA ATTTA AATTA TTATTA
1 ATTTA ATTT-A ATTTA ATTT-A ATTTA ATTTA ATTTA ATTTA ATTTA AT-TTA
223914 ATTTA ATT
1 ATTTA ATT
223922 AAATATTTTT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
4 8 0.17
5 26 0.57
6 12 0.26
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (5 bp):
ATTTA
Found at i:223901 original size:21 final size:21
Alignment explanation
Indices: 223863--223925 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 21
223853 AAATCATGAT
223863 ATTT-ATTTGAATTT-ATTTAA
1 ATTTAATTT-AATTTAATTTAA
223883 ATTTAATTTAATTTAATTTAA
1 ATTTAATTTAATTTAATTTAA
*
223904 A-TTATTATTAATTTAA-TTAA
1 ATTTAAT-TTAATTTAATTTAA
223924 AT
1 AT
223926 ATTTTTATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
20 18 0.47
21 20 0.53
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (21 bp):
ATTTAATTTAATTTAATTTAA
Found at i:223969 original size:18 final size:17
Alignment explanation
Indices: 223935--223983 Score: 62
Period size: 18 Copynumber: 2.8 Consensus size: 17
223925 TATTTTTATT
*
223935 TATTTTTTAATTATAAAA
1 TATTTATTAA-TATAAAA
223953 TATATTATTAATATAAAA
1 TAT-TTATTAATATAAAA
*
223971 TATTTTTTAATAT
1 TATTTATTAATAT
223984 TTTATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 9 0.32
18 13 0.46
19 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTATTAATATAAAA
Found at i:225110 original size:23 final size:24
Alignment explanation
Indices: 225083--225129 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
225073 TATCTTTTTT
225083 ATAAA-AATAATTAT-AATTTTAAA
1 ATAAATAAT-ATTATAAATTTTAAA
225106 ATAAATAATATTATAAATTTTAAA
1 ATAAATAATATTATAAATTTTAAA
225130 TTTTAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATAAATAATATTATAAATTTTAAA
Found at i:226526 original size:22 final size:21
Alignment explanation
Indices: 226497--226538 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
226487 TAAAGTTTTT
226497 AATTTTATAAATAATTTAAAA
1 AATTTTATAAATAATTTAAAA
* *
226518 AATTATTATATATATTTTAAA
1 AATT-TTATAAATAATTTAAA
226539 TATGTCTTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
AATTTTATAAATAATTTAAAA
Found at i:227315 original size:21 final size:22
Alignment explanation
Indices: 227286--227327 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
227276 TTCCTCTTAA
227286 ATAATAATAAAAATGTTGAATC
1 ATAATAATAAAAATGTTGAATC
* *
227308 ATAA-AATAAAAGTTTTGAAT
1 ATAATAATAAAAATGTTGAAT
227328 TTACCAAGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.55, C:0.02, G:0.10, T:0.33
Consensus pattern (22 bp):
ATAATAATAAAAATGTTGAATC
Found at i:242825 original size:21 final size:20
Alignment explanation
Indices: 242787--242838 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 20
242777 AGTTTTAAAA
242787 TATATAATTTA-ACATAAT-T
1 TATAT-ATTTATACATAATAT
*
242806 TTTAATATTTATACGATAATAT
1 TAT-ATATTTATAC-ATAATAT
242828 TATATATTTAT
1 TATATATTTAT
242839 TTTTATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 7 0.26
20 4 0.15
21 13 0.48
22 3 0.11
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (20 bp):
TATATATTTATACATAATAT
Found at i:242929 original size:22 final size:22
Alignment explanation
Indices: 242903--242952 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
242893 TTTTAAAAAA
242903 ATATAATTTAAT-ATTAATATTT
1 ATATAATTTAATAATTAA-ATTT
* *
242925 ATATATTTTTATAATTAAATTT
1 ATATAATTTAATAATTAAATTT
*
242947 AAATAA
1 ATATAA
242953 ATTTTATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
ATATAATTTAATAATTAAATTT
Found at i:244021 original size:14 final size:15
Alignment explanation
Indices: 244004--244035 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
243994 ATTATTTAAG
244004 TTTA-ATTTAAAAAT
1 TTTATATTTAAAAAT
244018 TTTATATTTAAAAAT
1 TTTATATTTAAAAAT
244033 TTT
1 TTT
244036 CACATGAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TTTATATTTAAAAAT
Found at i:244117 original size:12 final size:12
Alignment explanation
Indices: 244089--244151 Score: 56
Period size: 11 Copynumber: 4.8 Consensus size: 12
244079 TATAATTAAT
*
244089 AATTTTCTATT-
1 AATTTTATATTA
244100 AATTTTATATTA
1 AATTTTATATTA
244112 AATTTTATAATATA
1 AATTTTAT-AT-TA
244126 AATTATTAATACATTA
1 AATT-TT-AT--ATTA
244142 AATTTTATAT
1 AATTTTATAT
244152 ATTATATATA
Statistics
Matches: 44, Mismatches: 2, Indels: 11
0.77 0.04 0.19
Matches are distributed among these distances:
11 10 0.23
12 10 0.23
13 2 0.05
14 8 0.18
15 4 0.09
16 8 0.18
17 2 0.05
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (12 bp):
AATTTTATATTA
Found at i:244182 original size:20 final size:21
Alignment explanation
Indices: 244143--244184 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
244133 AATACATTAA
* *
244143 ATTTTATATATTATATATAAT
1 ATTTTAAATATTAAATATAAT
244164 ATTTTAAATA-TAAATATAAT
1 ATTTTAAATATTAAATATAAT
244184 A
1 A
244185 CATAAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATTTTAAATATTAAATATAAT
Found at i:244829 original size:7 final size:8
Alignment explanation
Indices: 244806--244890 Score: 50
Period size: 8 Copynumber: 10.4 Consensus size: 8
244796 TTATGACATA
244806 TTAATATT
1 TTAATATT
244814 TTAATATT
1 TTAATATT
244822 TT-ATATT
1 TTAATATT
* *
244829 TAAATTTT
1 TTAATATT
244837 TATCAATAAAATT
1 T-T-AAT---ATT
* * *
244850 ATGATATA
1 TTAATATT
244858 TTAATATT
1 TTAATATT
244866 TTAATATT
1 TTAATATT
244874 TT-ATATT
1 TTAATATT
*
244881 TAAAT-TT
1 TTAATATT
244888 TTA
1 TTA
244891 TCAATAAAAT
Statistics
Matches: 58, Mismatches: 12, Indels: 15
0.68 0.14 0.18
Matches are distributed among these distances:
7 16 0.28
8 34 0.59
10 3 0.05
11 2 0.03
12 1 0.02
13 2 0.03
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (8 bp):
TTAATATT
Found at i:244835 original size:52 final size:52
Alignment explanation
Indices: 244778--244931 Score: 265
Period size: 52 Copynumber: 3.0 Consensus size: 52
244768 AATTTGTGTC
* *
244778 AAATTTTTATTAATAAATTTATGACATATTAATATTTTAATATTTTATATTT
1 AAATTTTTATCAATAAAATTATGACATATTAATATTTTAATATTTTATATTT
*
244830 AAATTTTTATCAATAAAATTATGATATATTAATATTTTAATATTTTATATTT
1 AAATTTTTATCAATAAAATTATGACATATTAATATTTTAATATTTTATATTT
*
244882 AAATTTTTATCAATAAAATTATGACATATTAATATTTTAA-ATTTTTTATT
1 AAATTTTTATCAATAAAATTATGACATATTAATATTTTAATATTTTATATT
244932 AACTATTAAA
Statistics
Matches: 97, Mismatches: 5, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
51 9 0.09
52 88 0.91
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.54
Consensus pattern (52 bp):
AAATTTTTATCAATAAAATTATGACATATTAATATTTTAATATTTTATATTT
Found at i:244858 original size:31 final size:30
Alignment explanation
Indices: 244823--244919 Score: 93
Period size: 23 Copynumber: 3.4 Consensus size: 30
244813 TTTAATATTT
244823 TATATTTAAATTTTTATCAATAAAATTATGA
1 TATA-TTAAATTTTTATCAATAAAATTATGA
* *
244854 TATATT-AATATTT-T-AAT---ATT-TTA
1 TATATTAAATTTTTATCAATAAAATTATGA
244877 TAT-TTAAATTTTTATCAATAAAATTATGA
1 TATATTAAATTTTTATCAATAAAATTATGA
*
244906 CATATTAATATTTT
1 TATATTAA-ATTTT
244920 AAATTTTTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 18
0.69 0.07 0.24
Matches are distributed among these distances:
22 2 0.04
23 11 0.21
24 4 0.08
25 3 0.06
27 3 0.06
28 4 0.08
29 10 0.19
30 6 0.12
31 9 0.17
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (30 bp):
TATATTAAATTTTTATCAATAAAATTATGA
Found at i:246184 original size:22 final size:21
Alignment explanation
Indices: 246139--246184 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
246129 TTTATTTAAG
* * *
246139 TATAAATTAAATATTAAAGGT
1 TATAAAATAAAAATTAAAGCT
246160 TATAAAATAAAAATTAAGAGCT
1 TATAAAATAAAAATTAA-AGCT
246182 TAT
1 TAT
246185 TTGAATGTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 15 0.71
22 6 0.29
ACGTcount: A:0.54, C:0.02, G:0.09, T:0.35
Consensus pattern (21 bp):
TATAAAATAAAAATTAAAGCT
Found at i:248185 original size:23 final size:25
Alignment explanation
Indices: 248148--248196 Score: 66
Period size: 23 Copynumber: 2.0 Consensus size: 25
248138 TCTCTCGTTA
* *
248148 ACTTTGTATTTTTAATTTACT-TTT
1 ACTTTGTATTATTAATATACTCTTT
248172 ACTTT-TATTATTAATATACTCTTT
1 ACTTTGTATTATTAATATACTCTTT
248196 A
1 A
248197 TTAATTATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 13 0.59
24 9 0.41
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (25 bp):
ACTTTGTATTATTAATATACTCTTT
Found at i:248453 original size:8 final size:8
Alignment explanation
Indices: 248440--248481 Score: 50
Period size: 8 Copynumber: 5.2 Consensus size: 8
248430 TGAAATTGAT
248440 TAAAAAAA
1 TAAAAAAA
248448 T-AAAAAA
1 TAAAAAAA
* *
248455 TGAAAATAT
1 T-AAAAAAA
248464 TAAAAAAA
1 TAAAAAAA
248472 TAAAAAAA
1 TAAAAAAA
248480 TA
1 TA
248482 TATTTTATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
7 7 0.25
8 16 0.57
9 5 0.18
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (8 bp):
TAAAAAAA
Found at i:248480 original size:25 final size:25
Alignment explanation
Indices: 248428--248478 Score: 86
Period size: 24 Copynumber: 2.1 Consensus size: 25
248418 TTTTAGTGGT
*
248428 AATGAAATTGATTAAAAAAATAAAA
1 AATGAAAATGATTAAAAAAATAAAA
248453 AATGAAAAT-ATTAAAAAAATAAAA
1 AATGAAAATGATTAAAAAAATAAAA
248477 AA
1 AA
248479 ATATATTTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
24 17 0.68
25 8 0.32
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.22
Consensus pattern (25 bp):
AATGAAAATGATTAAAAAAATAAAA
Found at i:248900 original size:25 final size:26
Alignment explanation
Indices: 248871--248928 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 26
248861 ATTTTGCATC
*
248871 AAATTAAAAAATTTAAAATA-ATAAA
1 AAATTAAAAAATCTAAAATATATAAA
** *
248896 AAATTTTAAAATCTAAAATATATATA
1 AAATTAAAAAATCTAAAATATATAAA
248922 AAATTAA
1 AAATTAA
248929 CTACACTAAC
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
25 17 0.65
26 9 0.35
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (26 bp):
AAATTAAAAAATCTAAAATATATAAA
Found at i:248912 original size:17 final size:15
Alignment explanation
Indices: 248871--248928 Score: 53
Period size: 18 Copynumber: 3.5 Consensus size: 15
248861 ATTTTGCATC
248871 AAATTAAAAAATTTA
1 AAATTAAAAAATTTA
248886 AAATAATAAAAAATTTTA
1 AAAT--TAAAAAA-TTTA
*
248904 AAATCTAAAATATATATA
1 AAAT-TAAAA-A-ATTTA
248922 AAATTAA
1 AAATTAA
248929 CTACACTAAC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
15 4 0.11
17 15 0.42
18 16 0.44
19 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTAAAAAATTTA
Found at i:249033 original size:30 final size:29
Alignment explanation
Indices: 248999--249056 Score: 84
Period size: 27 Copynumber: 2.1 Consensus size: 29
248989 CAGGCTGAGG
* *
248999 AAGAAGGAAAAAAG-A-AAAAAGAACGAA
1 AAGAAGAAAAAAAGAAGAAAAAGAAAGAA
249026 AAGAAGAAAAAAAGAAGAAAAAGAAAGAA
1 AAGAAGAAAAAAAGAAGAAAAAGAAAGAA
249055 AA
1 AA
249057 CAAATATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 13 0.48
28 1 0.04
29 13 0.48
ACGTcount: A:0.78, C:0.02, G:0.21, T:0.00
Consensus pattern (29 bp):
AAGAAGAAAAAAAGAAGAAAAAGAAAGAA
Found at i:249038 original size:20 final size:19
Alignment explanation
Indices: 248999--249056 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 19
248989 CAGGCTGAGG
248999 AAGAAGGAAAA-AAG-AAAA
1 AAGAA-GAAAAGAAGAAAAA
249017 AAGAACGAAAAGAAGAAAAA
1 AAGAA-GAAAAGAAGAAAAA
249037 AAGAAGAAAAAGAAAGAAAA
1 AAGAAG-AAAAG-AAGAAAA
249057 CAAATATGTA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 10 0.29
19 4 0.11
20 14 0.40
21 7 0.20
ACGTcount: A:0.78, C:0.02, G:0.21, T:0.00
Consensus pattern (19 bp):
AAGAAGAAAAGAAGAAAAA
Found at i:249100 original size:22 final size:23
Alignment explanation
Indices: 249072--249134 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 23
249062 ATGTATTTGT
249072 ATTTATATTTTTTTAT-TTAA-A
1 ATTTATATTTTTTTATGTTAATA
*
249093 ATATTATATTTTTATATGTTAATA
1 AT-TTATATTTTTTTATGTTAATA
249117 ATTTAT-TTTATTTTATGT
1 ATTTATATTT-TTTTATGT
249135 ATATTTTTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
21 2 0.06
22 16 0.44
23 15 0.42
24 3 0.08
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (23 bp):
ATTTATATTTTTTTATGTTAATA
Found at i:249127 original size:28 final size:34
Alignment explanation
Indices: 249096--249162 Score: 76
Period size: 33 Copynumber: 2.2 Consensus size: 34
249086 ATTTAAAATA
249096 TTATATTT-T-TATA-TGTTA-ATA-A-TTTATT
1 TTATATTTATGTATATTGTTATATATATTTTATT
*
249124 TTAT-TTTATGTATATTTTTATATATATTTTATT
1 TTATATTTATGTATATTGTTATATATATTTTATT
249157 TTATAT
1 TTATAT
249163 AAGAGAGAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 8
0.77 0.03 0.20
Matches are distributed among these distances:
27 3 0.10
28 5 0.16
29 4 0.13
30 4 0.13
31 3 0.10
32 1 0.03
33 10 0.32
34 1 0.03
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (34 bp):
TTATATTTATGTATATTGTTATATATATTTTATT
Found at i:249141 original size:16 final size:16
Alignment explanation
Indices: 249120--249163 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
249110 GTTAATAATT
*
249120 TATTTTATTTTATGTA
1 TATTTTATTTTATATA
249136 TA---T-TTTTATATA
1 TATTTTATTTTATATA
249148 TATTTTATTTTATATA
1 TATTTTATTTTATATA
249164 AGAGAGAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 8
0.72 0.03 0.25
Matches are distributed among these distances:
12 10 0.43
13 1 0.04
15 1 0.04
16 11 0.48
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.68
Consensus pattern (16 bp):
TATTTTATTTTATATA
Found at i:250325 original size:18 final size:17
Alignment explanation
Indices: 250302--250335 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
250292 AAATTTTTCG
*
250302 ATATAATAAGATTATAAA
1 ATATAAAAAG-TTATAAA
250320 ATATAAAAAGTTATAA
1 ATATAAAAAGTTATAA
250336 CATAATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (17 bp):
ATATAAAAAGTTATAAA
Found at i:250423 original size:20 final size:20
Alignment explanation
Indices: 250382--250422 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
250372 TAAATATAAA
*
250382 TATACAAATATATTAACTTT
1 TATACAAATATATAAACTTT
*
250402 TATATAAATATATAATACTTT
1 TATACAAATATATAA-ACTTT
250423 AAATATGATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (20 bp):
TATACAAATATATAAACTTT
Found at i:250428 original size:22 final size:23
Alignment explanation
Indices: 250378--250428 Score: 54
Period size: 22 Copynumber: 2.3 Consensus size: 23
250368 AATGTAAATA
*
250378 TAAATATACAAATATATTAACTT
1 TAAATATACAAATATAATAACTT
*
250401 T-TATATA-AATATATAAT-ACTT
1 TAAATATACAA-ATATAATAACTT
250422 TAAATAT
1 TAAATAT
250429 GATTAATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 5
0.74 0.10 0.16
Matches are distributed among these distances:
21 7 0.30
22 15 0.65
23 1 0.04
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (23 bp):
TAAATATACAAATATAATAACTT
Found at i:250580 original size:42 final size:42
Alignment explanation
Indices: 250475--250561 Score: 165
Period size: 42 Copynumber: 2.1 Consensus size: 42
250465 TAACATTATA
*
250475 AATATCATTAATATATATAAATCTTTATTGTCTCTCAATTTT
1 AATATCATTAATATATATAAATCTTTATTATCTCTCAATTTT
250517 AATATCATTAATATATATAAATCTTTATTATCTCTCAATTTT
1 AATATCATTAATATATATAAATCTTTATTATCTCTCAATTTT
250559 AAT
1 AAT
250562 GACTTTTTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.38, C:0.11, G:0.01, T:0.49
Consensus pattern (42 bp):
AATATCATTAATATATATAAATCTTTATTATCTCTCAATTTT
Found at i:254747 original size:2 final size:2
Alignment explanation
Indices: 254740--254787 Score: 78
Period size: 2 Copynumber: 24.0 Consensus size: 2
254730 TTGTATTTTA
* *
254740 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
254782 AT AT AT
1 AT AT AT
254788 TTTAAATTAG
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:266353 original size:25 final size:25
Alignment explanation
Indices: 266320--266367 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
266310 AGAAAGTAAC
266320 AAAAATATCATCCATAAATAATTTA
1 AAAAATATCATCCATAAATAATTTA
*
266345 AAAAATATCATCTATAAATAATT
1 AAAAATATCATCCATAAATAATT
266368 ATCTTATTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (25 bp):
AAAAATATCATCCATAAATAATTTA
Found at i:274964 original size:23 final size:23
Alignment explanation
Indices: 274938--275006 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
274928 TAATTTATTT
274938 AATATATTAAAATTTTAAATATA
1 AATATATTAAAATTTTAAATATA
* * * *
274961 AATATAAT-ATATATTAAATGT-
1 AATATATTAAAATTTTAAATATA
274982 AATATATTAAATATATTTAAATATA
1 AATATATTAAA-AT-TTTAAATATA
275007 TTGCATTTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
21 7 0.21
22 11 0.32
23 9 0.26
24 7 0.21
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (23 bp):
AATATATTAAAATTTTAAATATA
Found at i:275813 original size:19 final size:19
Alignment explanation
Indices: 275773--275844 Score: 58
Period size: 19 Copynumber: 3.8 Consensus size: 19
275763 TAGATTTACA
* * *
275773 TATTTAATTTTAT-ATATA
1 TATTTAATTTTTTAAAATT
275791 TATTTAATTTTTTAAAATT
1 TATTTAATTTTTTAAAATT
*
275810 TATTT-ATGTATTTAAAGATT
1 TATTTAAT-TTTTTAAA-ATT
* *
275830 TATTTTATATTTTAA
1 TATTTAATTTTTTAA
275845 TTTTGAATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
18 14 0.32
19 15 0.34
20 13 0.30
21 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (19 bp):
TATTTAATTTTTTAAAATT
Found at i:277746 original size:16 final size:17
Alignment explanation
Indices: 277727--277759 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
277717 AATGAGATAA
277727 TATG-TTAAAATAATTT
1 TATGATTAAAATAATTT
*
277743 TATGATTAAAATTATTT
1 TATGATTAAAATAATTT
277760 AATAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.42, C:0.00, G:0.06, T:0.52
Consensus pattern (17 bp):
TATGATTAAAATAATTT
Found at i:277797 original size:29 final size:29
Alignment explanation
Indices: 277763--277818 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
277753 ATTATTTAAT
*
277763 AAAATTAATATAGGTAATTTAATTTATAC
1 AAAATTAATATAAGTAATTTAATTTATAC
*
277792 AAAATTAATATAATTAATTTAATTTAT
1 AAAATTAATATAAGTAATTTAATTTAT
277819 CAATAATAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.50, C:0.02, G:0.04, T:0.45
Consensus pattern (29 bp):
AAAATTAATATAAGTAATTTAATTTATAC
Found at i:277847 original size:33 final size:29
Alignment explanation
Indices: 277763--277847 Score: 82
Period size: 29 Copynumber: 2.8 Consensus size: 29
277753 ATTATTTAAT
* **
277763 AAAATTAATATAGGTAATTTAATTTATAC
1 AAAATAAATATAATTAATTTAATTTATAC
*
277792 AAAATTAATATAATTAATTTAATTTAT-C
1 AAAATAAATATAATTAATTTAATTTATAC
277820 AATAATAAAAATATAATGATAATTTAAT
1 AA-AAT--AAATATAAT--TAATTTAAT
277848 AAAATTAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
28 3 0.06
29 28 0.58
31 8 0.17
33 9 0.19
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (29 bp):
AAAATAAATATAATTAATTTAATTTATAC
Found at i:284208 original size:2 final size:2
Alignment explanation
Indices: 284201--284233 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
284191 TGAGATGATC
284201 TA TA TA 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 TA TA TA T
284234 GAAAAATTAT
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:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:286823 original size:15 final size:15
Alignment explanation
Indices: 286805--286835 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
286795 AAATTCGGCC
286805 GTTTCCAGAACCAGA
1 GTTTCCAGAACCAGA
286820 GTTTCCAGAACCAGA
1 GTTTCCAGAACCAGA
286835 G
1 G
286836 AGAGAAGGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (15 bp):
GTTTCCAGAACCAGA
Found at i:288433 original size:34 final size:34
Alignment explanation
Indices: 288389--288465 Score: 102
Period size: 34 Copynumber: 2.2 Consensus size: 34
288379 AATGTAAAAG
*
288389 TTATTATTTATAA-TAATATTAAAATATAAATATT
1 TTATTATTTATAATTAA-ATTAAAATAAAAATATT
* *
288423 TTATTTTTTATAATTAAATTTAAATAAAAATATTT
1 TTATTATTTATAATTAAATTAAAATAAAAATA-TT
288458 TTATTATT
1 TTATTATT
288466 AAAATAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
34 25 0.68
35 12 0.32
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (34 bp):
TTATTATTTATAATTAAATTAAAATAAAAATATT
Found at i:288786 original size:12 final size:12
Alignment explanation
Indices: 288763--288793 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
288753 TTTATATATG
288763 ATAATA-AAAAT
1 ATAATATAAAAT
288774 ATAATATAAAAT
1 ATAATATAAAAT
288786 ATAATATA
1 ATAATATA
288794 TTTAATAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 6 0.32
12 13 0.68
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:293569 original size:2 final size:2
Alignment explanation
Indices: 293562--293607 Score: 51
Period size: 2 Copynumber: 24.0 Consensus size: 2
293552 CATTCCTATG
* * *
293562 AT AT AT AT AT AT AT AT AT TT AT AC AT AT -T AA AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
293603 A- AT AT
1 AT AT AT
293608 TTTATAATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
1 2 0.06
2 34 0.94
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:295439 original size:3 final size:3
Alignment explanation
Indices: 295428--295465 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
295418 ATAAATTTTG
*
295428 ATT ACT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
295466 GACGTAATGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (3 bp):
ATT
Found at i:299228 original size:17 final size:16
Alignment explanation
Indices: 299197--299241 Score: 58
Period size: 14 Copynumber: 2.9 Consensus size: 16
299187 TGTAAAATTT
*
299197 ATAATTTTAAATAAT-
1 ATAATTTTACATAATA
299212 A-AATTTTACATAATA
1 ATAATTTTACATAATA
*
299227 ATAATTTTACGTAAT
1 ATAATTTTACATAAT
299242 TTTATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 12 0.46
15 2 0.08
16 12 0.46
ACGTcount: A:0.49, C:0.04, G:0.02, T:0.44
Consensus pattern (16 bp):
ATAATTTTACATAATA
Found at i:299558 original size:20 final size:21
Alignment explanation
Indices: 299533--299572 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
299523 CTCCTTACAT
299533 AAAATTCT-ATAAATTTTTAA
1 AAAATTCTAATAAATTTTTAA
* *
299553 AAAATTTTAATAATTTTTTA
1 AAAATTCTAATAAATTTTTA
299573 GATAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (21 bp):
AAAATTCTAATAAATTTTTAA
Found at i:300168 original size:24 final size:27
Alignment explanation
Indices: 300126--300178 Score: 69
Period size: 24 Copynumber: 2.1 Consensus size: 27
300116 GCACCGTATA
300126 AATTTGAGAGAATTATTAAA-AATAAAT
1 AATTTGAGAGAATTATTAAATAA-AAAT
300153 AATTTGA-A-AATT-TTAAATAAAAAT
1 AATTTGAGAGAATTATTAAATAAAAAT
300177 AA
1 AA
300179 AAGATCAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 11 0.44
25 6 0.24
26 1 0.04
27 7 0.28
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (27 bp):
AATTTGAGAGAATTATTAAATAAAAAT
Found at i:301430 original size:34 final size:34
Alignment explanation
Indices: 301372--301556 Score: 246
Period size: 34 Copynumber: 5.5 Consensus size: 34
301362 AACTGTCCCT
* *
301372 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
301405 ATTATTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
301439 ATTGTTGATTAAATGGGAGATTTGATAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
301473 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
301507 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
301541 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
301557 TGGTTTTTAC
Statistics
Matches: 130, Mismatches: 21, Indels: 1
0.86 0.14 0.01
Matches are distributed among these distances:
33 12 0.09
34 118 0.91
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:301919 original size:19 final size:19
Alignment explanation
Indices: 301863--301925 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
301853 TGGTTGTCGA
**
301863 GGTACTATTCACGTATATA
1 GGTACTATTCACGTATACG
301882 GGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
301901 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
301920 GTTACT
1 GGTACT
301926 GTACACGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:306057 original size:34 final size:34
Alignment explanation
Indices: 305991--306175 Score: 264
Period size: 34 Copynumber: 5.5 Consensus size: 34
305981 AAGTGGGAGA
* *
305991 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
306024 ATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
306058 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
306092 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
306126 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
306160 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
306176 TGGTTTTTAC
Statistics
Matches: 134, Mismatches: 17, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
33 13 0.10
34 121 0.90
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.40
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:306743 original size:3 final size:3
Alignment explanation
Indices: 306735--306771 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
306725 TGTTGATGCT
306735 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
306772 ATCGGTGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:306916 original size:2 final size:2
Alignment explanation
Indices: 306909--306941 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
306899 TGTTTTATTT
*
306909 TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
306942 TTCAATAGAA
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:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:311830 original size:20 final size:20
Alignment explanation
Indices: 311798--311836 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
311788 ATTCGATTTG
311798 ATTTATTAATTTTA-AAAAT
1 ATTTATTAATTTTATAAAAT
*
311817 ATTTAATTATTTTTATAAAA
1 ATTT-ATTAATTTTATAAAA
311837 AATAATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 4 0.24
20 9 0.53
21 4 0.24
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (20 bp):
ATTTATTAATTTTATAAAAT
Found at i:312590 original size:23 final size:23
Alignment explanation
Indices: 312544--312593 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
312534 TTGATTCATA
* *
312544 TAATTATTTTAAAAAATAATATT
1 TAATAATTTTAAAAAATAAAATT
**
312567 TAATAATTTTAAAATTTAAAATT
1 TAATAATTTTAAAAAATAAAATT
312590 TAAT
1 TAAT
312594 TTTTACATTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (23 bp):
TAATAATTTTAAAAAATAAAATT
Found at i:315211 original size:2 final size:2
Alignment explanation
Indices: 315206--315230 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
315196 ATATATATAT
315206 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
315231 AACCAAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:317326 original size:22 final size:23
Alignment explanation
Indices: 317278--317326 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
317268 AACGTATATT
* *
317278 TTTATTTTTATATTATATTTTAA
1 TTTATTTTTAAATTATATTATAA
*
317301 -TTATTTTTAAATTTTA-TATAA
1 TTTATTTTTAAATTATATTATAA
317322 TTTAT
1 TTTAT
317327 CATTATAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (23 bp):
TTTATTTTTAAATTATATTATAA
Found at i:317418 original size:13 final size:13
Alignment explanation
Indices: 317384--317421 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
317374 TCATTAAATT
317384 TATCAAATATTAA
1 TATCAAATATTAA
317397 TAT-AAATATT-A
1 TATCAAATATTAA
317408 TATTCAAATATTAA
1 TA-TCAAATATTAA
317422 ATTTAATTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
11 3 0.14
12 8 0.36
13 10 0.45
14 1 0.05
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (13 bp):
TATCAAATATTAA
Found at i:318600 original size:18 final size:18
Alignment explanation
Indices: 318572--318608 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
318562 TTTTAATAAT
318572 AATTTAATAATTTT-TTA
1 AATTTAATAATTTTATTA
318589 AATTTGAATAATTTTATTA
1 AATTT-AATAATTTTATTA
318608 A
1 A
318609 TATAAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 5 0.28
18 9 0.50
19 4 0.22
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
AATTTAATAATTTTATTA
Found at i:318864 original size:12 final size:12
Alignment explanation
Indices: 318849--318873 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
318839 TTTTAATCTA
318849 TATTTTATTTTT
1 TATTTTATTTTT
318861 TATTTTATTTTT
1 TATTTTATTTTT
318873 T
1 T
318874 TACTCACGAA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (12 bp):
TATTTTATTTTT
Found at i:319327 original size:24 final size:24
Alignment explanation
Indices: 319300--319349 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
319290 ATTATATTTC
319300 ATAAGAGATTTTATAATA-ATAAAA
1 ATAAGAGATTTT-TAATATATAAAA
* * *
319324 ATAATATATTTTTAATATATTAAA
1 ATAAGAGATTTTTAATATATAAAA
319348 AT
1 AT
319350 TAATAAATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (24 bp):
ATAAGAGATTTTTAATATATAAAA
Found at i:319347 original size:25 final size:24
Alignment explanation
Indices: 319307--319354 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
319297 TTCATAAGAG
319307 ATTTTATAATAATAAAAATAATAT
1 ATTTTATAATAATAAAAATAATAT
*
319331 ATTTT-TAATATATTAAAATTAATA
1 ATTTTATAATA-A-TAAAAATAATA
319355 AATAAAATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 5 0.24
24 6 0.29
25 10 0.48
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (24 bp):
ATTTTATAATAATAAAAATAATAT
Found at i:319403 original size:11 final size:11
Alignment explanation
Indices: 319389--319413 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
319379 ATATAAACTA
319389 ATTTTAAAAAT
1 ATTTTAAAAAT
319400 ATTTTAAAAAT
1 ATTTTAAAAAT
319411 ATT
1 ATT
319414 CGTTATTAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
ATTTTAAAAAT
Found at i:319750 original size:5 final size:5
Alignment explanation
Indices: 319740--319781 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
319730 GAGGGTGAAT
* *
319740 GAAAG GAAAG GAAAG GAAA- GAGAG G-GAG GAAAG GAAAG GAAA
1 GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAAG GAAA
319782 CTTTCGGAGC
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
4 7 0.21
5 26 0.79
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (5 bp):
GAAAG
Found at i:319827 original size:2 final size:2
Alignment explanation
Indices: 319822--319847 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
319812 GTAGGAGAGA
319822 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
319848 GAAAAGAAAA
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:328399 original size:20 final size:19
Alignment explanation
Indices: 328355--328400 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
328345 GATCAATTAA
328355 ATTTAAAATATTATTTTTT
1 ATTTAAAATATTATTTTTT
*
328374 AATTAAAATAATT-TTATTTT
1 ATTTAAAAT-ATTATT-TTTT
328394 ATTTAAA
1 ATTTAAA
328401 TTTAATTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTAAAATATTATTTTTT
Found at i:333649 original size:15 final size:16
Alignment explanation
Indices: 333618--333648 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
333608 ATTTTTTTAA
*
333618 AAAAATTATATATTTT
1 AAAAATAATATATTTT
333634 AAAAATAATATATTT
1 AAAAATAATATATTT
333649 ATTCTTATAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAAATAATATATTTT
Found at i:340169 original size:8 final size:8
Alignment explanation
Indices: 340125--340224 Score: 55
Period size: 8 Copynumber: 12.2 Consensus size: 8
340115 ATAATTATGT
*
340125 TTAAAATA
1 TTAATATA
340133 TT-ATATA
1 TTAATATA
* *
340140 TTTATTTA
1 TTAATATA
*
340148 TATAAAAT-
1 T-TAATATA
340156 TTAATATA
1 TTAATATA
340164 TTAATA-A
1 TTAATATA
*
340171 TTTATATTA
1 TTAATA-TA
340180 TATAA-ATA
1 T-TAATATA
*
340188 TTTATATA
1 TTAATATA
*
340196 TTTATATA
1 TTAATATA
340204 TTAATATCATA
1 TT-A-AT-ATA
340215 TTAATATA
1 TTAATATA
340223 TT
1 TT
340225 TTTTTGTCCC
Statistics
Matches: 72, Mismatches: 10, Indels: 20
0.71 0.10 0.20
Matches are distributed among these distances:
7 19 0.26
8 35 0.49
9 8 0.11
10 5 0.07
11 5 0.07
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (8 bp):
TTAATATA
Found at i:340178 original size:44 final size:38
Alignment explanation
Indices: 340130--340225 Score: 102
Period size: 44 Copynumber: 2.3 Consensus size: 38
340120 TATGTTTAAA
*
340130 ATATTATATATTTATTTATATAAAATTTAATATATTAATAATTT
1 ATATTATATATTTATTTATAT---ATTT-ATATATTAAT-A-TC
**
340174 ATATTATATAAATATTTATATATTTATATATTAATATC
1 ATATTATATATTTATTTATATATTTATATATTAATATC
340212 ATATTAATATATTT
1 ATATT-ATATATTT
340226 TTTTGTCCCA
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
38 6 0.13
39 7 0.15
40 10 0.22
41 4 0.09
44 19 0.41
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.54
Consensus pattern (38 bp):
ATATTATATATTTATTTATATATTTATATATTAATATC
Found at i:340310 original size:5 final size:5
Alignment explanation
Indices: 340300--340328 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
340290 ATTAAGAGGT
340300 AATAA AATAA AATAA AATAA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATA
340329 GCCCGGTGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:340774 original size:22 final size:22
Alignment explanation
Indices: 340749--340812 Score: 65
Period size: 23 Copynumber: 2.8 Consensus size: 22
340739 CTATTAACCC
340749 AAAATTATAATCTAAAAATAAA
1 AAAATTATAATCTAAAAATAAA
* * *
340771 AAAATCACAATTTAAAAAATAAA
1 AAAATTATAATCT-AAAAATAAA
*
340794 AAACTTATTAATACTAAAA
1 AAAATTA-TAAT-CTAAAA
340813 TTTTTCATTG
Statistics
Matches: 32, Mismatches: 7, Indels: 4
0.74 0.16 0.09
Matches are distributed among these distances:
22 10 0.31
23 14 0.44
24 7 0.22
25 1 0.03
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.27
Consensus pattern (22 bp):
AAAATTATAATCTAAAAATAAA
Found at i:341826 original size:18 final size:20
Alignment explanation
Indices: 341803--341839 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
341793 AAAAAAATCT
341803 ATAATT-TAAATA-TAAAAA
1 ATAATTATAAATATTAAAAA
341821 ATAATTATAAATATTAAAA
1 ATAATTATAAATATTAAAA
341840 TTTAAAATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 6 0.35
20 5 0.29
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAATTATAAATATTAAAAA
Found at i:345554 original size:10 final size:10
Alignment explanation
Indices: 345539--345570 Score: 50
Period size: 9 Copynumber: 3.4 Consensus size: 10
345529 GACGAGTATG
345539 ATTATATAAA
1 ATTATATAAA
345549 ATTATA-AAA
1 ATTATATAAA
345558 A-TATATAAA
1 ATTATATAAA
345567 ATTA
1 ATTA
345571 ATTAATTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
8 4 0.20
9 8 0.40
10 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (10 bp):
ATTATATAAA
Found at i:346959 original size:22 final size:22
Alignment explanation
Indices: 346917--346960 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
346907 GGCTCACACT
**
346917 ACAAAATAAAAAATTTTTAAAA
1 ACAAAATAAAAAATTGATAAAA
346939 ACAAAATAAAAAGA-TGATAAAA
1 ACAAAATAAAAA-ATTGATAAAA
346961 GAAGTTATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 18 0.95
23 1 0.05
ACGTcount: A:0.70, C:0.05, G:0.05, T:0.20
Consensus pattern (22 bp):
ACAAAATAAAAAATTGATAAAA
Found at i:347190 original size:22 final size:21
Alignment explanation
Indices: 347162--347204 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
347152 TTGAATTTGA
*
347162 ATTTTTATATCTATAATTTTTT
1 ATTTTTAAAT-TATAATTTTTT
*
347184 ATTTTTAAATTGTAATTTTTT
1 ATTTTTAAATTATAATTTTTT
347205 TATAAAAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 10 0.53
22 9 0.47
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTTTTAAATTATAATTTTTT
Found at i:348785 original size:21 final size:20
Alignment explanation
Indices: 348761--348812 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 20
348751 AAATATTTTA
348761 ATAATTTAAATTAATATTGAT
1 ATAATTTAAATTAATATT-AT
** *
348782 ATAATAAAAATTATTATTAT
1 ATAATTTAAATTAATATTAT
* *
348802 TTAAATTAAAT
1 ATAATTTAAAT
348813 ATTTTTAATA
Statistics
Matches: 24, Mismatches: 7, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
20 9 0.38
21 15 0.62
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
ATAATTTAAATTAATATTAT
Found at i:354848 original size:21 final size:23
Alignment explanation
Indices: 354824--354888 Score: 64
Period size: 23 Copynumber: 2.9 Consensus size: 23
354814 TAAAAATATT
354824 TTTATA-TA-ATATAATATATCA
1 TTTATATTATATATAATATATCA
*
354845 TTTATATTATATTTAATATAT-A
1 TTTATATTATATATAATATATCA
* *
354867 ATTATTTTTATATGATAATATA
1 TTTA-TATTATAT-ATAATATA
354889 AATAATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 6 0.17
22 6 0.17
23 17 0.47
24 7 0.19
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (23 bp):
TTTATATTATATATAATATATCA
Found at i:354849 original size:49 final size:49
Alignment explanation
Indices: 354790--354901 Score: 127
Period size: 49 Copynumber: 2.3 Consensus size: 49
354780 TTTAATATTG
354790 AATAATTTTATATTATAATAAAAATAAAAATATTTTTATATAAT-ATAATA
1 AATAA-TTTATATTATAATAAAAATAAAAATATTTTTATATAATAAT-ATA
* * * * * * * *
354840 TATCATTTATATTATATTTAATATATAATTATTTTTATATGATAATATA
1 AATAATTTATATTATAATAAAAATAAAAATATTTTTATATAATAATATA
354889 AATAATTTATATT
1 AATAATTTATATT
354902 TTTAAAATCT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
49 46 0.90
50 5 0.10
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (49 bp):
AATAATTTATATTATAATAAAAATAAAAATATTTTTATATAATAATATA
Found at i:354903 original size:28 final size:26
Alignment explanation
Indices: 354794--354903 Score: 86
Period size: 27 Copynumber: 4.2 Consensus size: 26
354784 ATATTGAATA
* **
354794 ATTTTATATTATAATAAAAATAAAAAT
1 ATTTTATA-TATAATATAAATAATTAT
354821 ATTTT-TATATAATATAATATATCATT-T
1 ATTTTATATATAATATAA-ATA--ATTAT
* *
354848 ATATTATATTTAATAT--ATAATTAT
1 ATTTTATATATAATATAAATAATTAT
354872 -TTTTATATGATAATATAAATAATTTAT
1 ATTTTATAT-ATAATATAAATAA-TTAT
354899 ATTTT
1 ATTTT
354904 TAAAATCTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 19
0.72 0.08 0.21
Matches are distributed among these distances:
23 10 0.15
24 7 0.11
25 12 0.18
26 9 0.14
27 14 0.21
28 14 0.21
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.52
Consensus pattern (26 bp):
ATTTTATATATAATATAAATAATTAT
Found at i:354978 original size:16 final size:16
Alignment explanation
Indices: 354957--354987 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
354947 CATTCGATTT
354957 AATTATTTTAATTTTA
1 AATTATTTTAATTTTA
354973 AATTATTTTAATTTT
1 AATTATTTTAATTTT
354988 TTTATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
AATTATTTTAATTTTA
Found at i:355018 original size:61 final size:64
Alignment explanation
Indices: 354953--355074 Score: 180
Period size: 61 Copynumber: 1.9 Consensus size: 64
354943 TTTGCATTCG
354953 ATTTAATTATTTTAATTTT-AAAT-TATTTTAAT-TTTTTTATAAATTTA-TTAACTTAAAGTCA
1 ATTTAATTATTTTAATTTTAAAATATATTTTAATATTTTTT-TAAATTTATTTAACTTAAAGTCA
* *
355014 ATTTAATTATTTTAATTTTAAAATATTTTTTAATAATTTTTTTAAATTTATTTAATTTAAA
1 ATTTAATTATTTTAATTTTAAAATATATTTTAAT-ATTTTTTTAAATTTATTTAACTTAAA
355075 TACTCTTAAA
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
61 19 0.35
62 4 0.07
63 8 0.15
64 8 0.15
65 15 0.28
ACGTcount: A:0.39, C:0.02, G:0.01, T:0.59
Consensus pattern (64 bp):
ATTTAATTATTTTAATTTTAAAATATATTTTAATATTTTTTTAAATTTATTTAACTTAAAGTCA
Found at i:355482 original size:2 final size:2
Alignment explanation
Indices: 355475--355507 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
355465 GCGGATCATA
355475 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
355508 AATAAATTAC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.