Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold484
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: 1030986
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 2 of 6
Found at i:236625 original size:18 final size:18
Alignment explanation
Indices: 236574--236635 Score: 53
Period size: 19 Copynumber: 3.6 Consensus size: 18
236564 AATTTAATTA
*
236574 ATTAAAATTTATAT-AAT
1 ATTAAAATTTATTTAAAT
236591 A-T-AAA-TTA-TTAATAT
1 ATTAAAATTTATTTAA-AT
236606 ATTAAAATTTATTTAAAT
1 ATTAAAATTTATTTAAAT
*
236624 ATATAATATTTA
1 AT-TAAAATTTA
236636 AGATATGATT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 1 0.03
14 4 0.11
15 6 0.17
16 2 0.06
17 4 0.11
18 7 0.19
19 12 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
ATTAAAATTTATTTAAAT
Found at i:238138 original size:2 final size:2
Alignment explanation
Indices: 238131--238155 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
238121 AGCACCAAAC
238131 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
238156 TCAAAAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:238761 original size:15 final size:15
Alignment explanation
Indices: 238721--238762 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
238711 TAATCATTAC
*
238721 TTTTTAAAAAAAAAA
1 TTTTTAAAAATAAAA
**
238736 AATTTAAAAATAAAA
1 TTTTTAAAAATAAAA
238751 TTTTTAAAAATA
1 TTTTTAAAAATA
238763 TGTTTAAAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
TTTTTAAAAATAAAA
Found at i:239720 original size:6 final size:6
Alignment explanation
Indices: 239709--239734 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
239699 ACTTAGATAT
239709 CTCAGA CTCAGA CTCAGA CTCAGA CT
1 CTCAGA CTCAGA CTCAGA CTCAGA CT
239735 AGCTAGATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.35, G:0.15, T:0.19
Consensus pattern (6 bp):
CTCAGA
Found at i:240630 original size:25 final size:24
Alignment explanation
Indices: 240574--240620 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
240564 AAAATATGTC
*
240574 AAATCTAATTAAAAAATTTTATTT
1 AAATTTAATTAAAAAATTTTATTT
*
240598 AAATTTAATTTAAAAA-TTTATTT
1 AAATTTAATTAAAAAATTTTATTT
240621 TATTATTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
AAATTTAATTAAAAAATTTTATTT
Found at i:240684 original size:5 final size:5
Alignment explanation
Indices: 240674--240709 Score: 63
Period size: 5 Copynumber: 7.2 Consensus size: 5
240664 ATTTAAATAA
*
240674 TAAAT TAAAT TAAAT TAAAT TAAAT TAATT TAAAT T
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT T
240710 TATATTTAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TAAAT
Found at i:240718 original size:12 final size:11
Alignment explanation
Indices: 240674--240724 Score: 54
Period size: 10 Copynumber: 4.8 Consensus size: 11
240664 ATTTAAATAA
*
240674 TAAA-TTAAAT
1 TAAATTTAATT
*
240684 TAAA-TTAAAT
1 TAAATTTAATT
240694 TAAA-TTAATT
1 TAAATTTAATT
240704 TAAATTTATATT
1 TAAATTTA-ATT
240716 TAAATTTAA
1 TAAATTTAA
240725 CTCAAATAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
10 23 0.61
11 4 0.11
12 11 0.29
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TAAATTTAATT
Found at i:241292 original size:3 final size:3
Alignment explanation
Indices: 241249--241280 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
241239 AAATGTTTCT
241249 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
241281 TTTAAATAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:241306 original size:4 final size:4
Alignment explanation
Indices: 241283--241321 Score: 53
Period size: 4 Copynumber: 9.5 Consensus size: 4
241273 ATAATAATTT
241283 TAAA T-AA TAAA CTCAAA TAAA TAAA TAAA TAAA TAAA TA
1 TAAA TAAA TAAA -T-AAA TAAA TAAA TAAA TAAA TAAA TA
241322 CTAACATTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
3 3 0.09
4 24 0.75
5 2 0.06
6 3 0.09
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (4 bp):
TAAA
Found at i:241855 original size:39 final size:39
Alignment explanation
Indices: 241812--241927 Score: 109
Period size: 38 Copynumber: 3.0 Consensus size: 39
241802 ATTTATATTG
*
241812 ATTTAATTTAATTTAAATAATAAAATATAATTTTTTAAT
1 ATTTAATTTAATTTAAATAATAAAATATAATTTTTAAAT
*
241851 ATTTAATTAAAAATATT-AAT-ATAAAA-ATAATTTTTAAAT
1 ATTTAATT--TAAT-TTAAATAATAAAATATAATTTTTAAAT
* *
241890 -TTTAATATT-ATTTCATATAATAAAATA-AAATTTTAAAT
1 ATTTAAT-TTAATTT-AAATAATAAAATATAATTTTTAAAT
241928 TAAAATTAAA
Statistics
Matches: 64, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
35 2 0.03
36 2 0.03
37 2 0.03
38 22 0.34
39 22 0.34
40 6 0.09
41 6 0.09
42 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (39 bp):
ATTTAATTTAATTTAAATAATAAAATATAATTTTTAAAT
Found at i:241869 original size:13 final size:15
Alignment explanation
Indices: 241848--241879 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
241838 ATAATTTTTT
241848 AATATTTAAT-TAAA
1 AATATTTAATATAAA
241862 AATA-TTAATATAAA
1 AATATTTAATATAAA
241876 AATA
1 AATA
241880 ATTTTTAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATATTTAATATAAA
Found at i:242487 original size:22 final size:23
Alignment explanation
Indices: 242453--242497 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
242443 TATTTCAAGA
242453 TATTAATTAAAAAAT-ATTTTAT
1 TATTAATTAAAAAATAATTTTAT
* *
242475 TATTATTTTAAAAATAATTTTAT
1 TATTAATTAAAAAATAATTTTAT
242498 ATTTAATATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 13 0.65
23 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TATTAATTAAAAAATAATTTTAT
Found at i:242508 original size:17 final size:17
Alignment explanation
Indices: 242475--242521 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
242465 AATATTTTAT
*
242475 TATTAT-TTTAAAAATAA
1 TATTATATTT-AATATAA
*
242492 TTTTATATTTAATATAA
1 TATTATATTTAATATAA
*
242509 TATTATTTTTAAT
1 TATTATATTTAAT
242522 TGATATAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
17 22 0.88
18 3 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTATATTTAATATAA
Found at i:244164 original size:88 final size:88
Alignment explanation
Indices: 243999--244166 Score: 232
Period size: 88 Copynumber: 1.9 Consensus size: 88
243989 TTCTCCATTT
* * *
243999 TATAAACTTTCCGGTTCAGTTATGAAGATAATTTTTAGAGAGAGAGAAGTTAGAGAAGAGAGAGA
1 TATAAACTTTCCGGTTCAGTTATAAAGATAAATTTTAGAGAGAGAGAAGTTAGAGAAGAGAGAAA
* *
244064 TGATATATATATATATATACACA
66 TGAGATACATATATATATACACA
* * *
244087 TATAAACTTTCCGGTTGAGTTATAAAGATAAATTTTAGAGAG-G-GAGGTTAGAGACGAGAGAAA
1 TATAAACTTTCCGGTTCAGTTATAAAGATAAATTTTAGAGAGAGAGAAGTTAGAGAAGAGAGAAA
244150 TGAGACTTACATATATA
66 TGAGA--TACATATATA
244167 CATATATATA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
86 21 0.30
87 1 0.01
88 48 0.69
ACGTcount: A:0.41, C:0.07, G:0.22, T:0.30
Consensus pattern (88 bp):
TATAAACTTTCCGGTTCAGTTATAAAGATAAATTTTAGAGAGAGAGAAGTTAGAGAAGAGAGAAA
TGAGATACATATATATATACACA
Found at i:249285 original size:40 final size:40
Alignment explanation
Indices: 249208--249331 Score: 230
Period size: 40 Copynumber: 3.1 Consensus size: 40
249198 TACTGCAAGG
*
249208 CTTCTATGTAAAGACAAATCACCAACATCAATAATGCATAA
1 CTTCTATGCAAAGACAAATCA-CAACATCAATAATGCATAA
249249 CTTCTATGCAAAGACAAATCACAACATCAATAATGCATAA
1 CTTCTATGCAAAGACAAATCACAACATCAATAATGCATAA
249289 CTTCTATGCAAAGACAAATCACAACATCAATAATGCATAA
1 CTTCTATGCAAAGACAAATCACAACATCAATAATGCATAA
249329 CTT
1 CTT
249332 GTTTTATTTT
Statistics
Matches: 82, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
40 62 0.76
41 20 0.24
ACGTcount: A:0.46, C:0.23, G:0.07, T:0.24
Consensus pattern (40 bp):
CTTCTATGCAAAGACAAATCACAACATCAATAATGCATAA
Found at i:249763 original size:2 final size:2
Alignment explanation
Indices: 249758--249816 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
249748 TGCTAGATAG
*
249758 GA GA GA GA GA GA GG 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
249800 GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA G
249817 GAGGTTTCCA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.47, C:0.00, G:0.53, T:0.00
Consensus pattern (2 bp):
GA
Found at i:256524 original size:20 final size:19
Alignment explanation
Indices: 256498--256548 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
256488 AATTAATAAA
* *
256498 ATATTAAAAAATTATTTTT
1 ATATTAAAAAATAATTTAT
*
256517 ATTATTAAATAATAATTTAT
1 A-TATTAAAAAATAATTTAT
*
256537 AAATTAAAAAAT
1 ATATTAAAAAAT
256549 CATATTAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
19 10 0.38
20 16 0.62
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATATTAAAAAATAATTTAT
Found at i:256800 original size:19 final size:20
Alignment explanation
Indices: 256751--256789 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
256741 AATTATATAA
256751 AATAAAAAATAATTTTAAAT
1 AATAAAAAATAATTTTAAAT
256771 AATAAAAAATAATTTTAAA
1 AATAAAAAATAATTTTAAA
256790 AATGTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (20 bp):
AATAAAAAATAATTTTAAAT
Found at i:256905 original size:18 final size:18
Alignment explanation
Indices: 256883--256921 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
256873 AAAAATATAC
256883 AAAAATATAAAAATAAAAT
1 AAAAA-ATAAAAATAAAAT
* *
256902 AAAAAATAATACTAAAAT
1 AAAAAATAAAAATAAAAT
256920 AA
1 AA
256922 CCAAAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.21
Consensus pattern (18 bp):
AAAAAATAAAAATAAAAT
Found at i:257384 original size:14 final size:14
Alignment explanation
Indices: 257365--257416 Score: 86
Period size: 14 Copynumber: 3.6 Consensus size: 14
257355 ATTTTTAAAA
257365 AAATTTAATTTTAT
1 AAATTTAATTTTAT
257379 AAATTTAATTTTAT
1 AAATTTAATTTTAT
*
257393 AAATTTAATTTTTT
1 AAATTTAATTTTAT
257407 ATAATTTAAT
1 A-AATTTAAT
257417 ATTTTTTATT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
14 28 0.78
15 8 0.22
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AAATTTAATTTTAT
Found at i:257412 original size:15 final size:15
Alignment explanation
Indices: 257331--257422 Score: 82
Period size: 14 Copynumber: 6.0 Consensus size: 15
257321 TTATTAATAG
257331 ATAATATTAATTTATTT
1 ATAAT-TTAATTT-TTT
*
257348 ATAATTT-ATTTTTAAA
1 ATAATTTAATTTTT--T
* *
257364 AAAATTTAATTTTAT
1 ATAATTTAATTTTTT
*
257379 A-AATTTAATTTTAT
1 ATAATTTAATTTTTT
257393 A-AATTTAATTTTTT
1 ATAATTTAATTTTTT
257407 ATAATTTAATATTTTT
1 ATAATTTAAT-TTTTT
257423 TATTAAGTAA
Statistics
Matches: 65, Mismatches: 5, Indels: 11
0.80 0.06 0.14
Matches are distributed among these distances:
14 29 0.45
15 13 0.20
16 13 0.20
17 10 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATAATTTAATTTTTT
Found at i:257481 original size:15 final size:14
Alignment explanation
Indices: 257454--257487 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
257444 TTTTTAATGT
257454 TTAAATATAAAAAA
1 TTAAATATAAAAAA
*
257468 TTAAATATTAAAAA
1 TTAAATATAAAAAA
*
257482 TAAAAT
1 TTAAAT
257488 TTGATCTATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TTAAATATAAAAAA
Found at i:257547 original size:19 final size:20
Alignment explanation
Indices: 257520--257562 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
257510 TTTATTTTTT
* *
257520 ATTTAAATATATATTTTTAA
1 ATTTAAATATATATATATAA
*
257540 ATTT-AATATTTATATATAA
1 ATTTAAATATATATATATAA
257559 ATTT
1 ATTT
257563 TGTAAATATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
ATTTAAATATATATATATAA
Found at i:257550 original size:15 final size:14
Alignment explanation
Indices: 257521--257571 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
257511 TTATTTTTTA
257521 TTTAAATATATATT
1 TTTAAATATATATT
* *
257535 TTTAAATTTA-ATA
1 TTTAAATATATATT
* *
257548 TTTATATATAAATT
1 TTTAAATATATATT
257562 TTGTAAATAT
1 TT-TAAATAT
257572 TCAACATATT
Statistics
Matches: 29, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
13 10 0.34
14 13 0.45
15 6 0.21
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (14 bp):
TTTAAATATATATT
Found at i:257988 original size:2 final size:2
Alignment explanation
Indices: 257981--258012 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
257971 CCTTCTACTC
257981 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
258013 ACCTACCACG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:264105 original size:22 final size:22
Alignment explanation
Indices: 264077--264118 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
264067 TATTAAATAT
264077 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
264099 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
264119 AATAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:266374 original size:11 final size:11
Alignment explanation
Indices: 266358--266400 Score: 50
Period size: 11 Copynumber: 3.5 Consensus size: 11
266348 ATTTTAAATT
266358 GAAAATGTAAG
1 GAAAATGTAAG
266369 GAAAATTCGGGTAAG
1 GAAAA-T---GTAAG
266384 GAAAATGTAAG
1 GAAAATGTAAG
266395 GAAAAT
1 GAAAAT
266401 AAAAGGCCAC
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
11 16 0.57
12 1 0.04
14 1 0.04
15 10 0.36
ACGTcount: A:0.51, C:0.02, G:0.28, T:0.19
Consensus pattern (11 bp):
GAAAATGTAAG
Found at i:271191 original size:53 final size:53
Alignment explanation
Indices: 271111--271219 Score: 191
Period size: 53 Copynumber: 2.1 Consensus size: 53
271101 GATTATGGAA
* *
271111 AAAAATCATACTTATTTGATTATGCATTTCAAATCCTCTACTCAGCATCATTC
1 AAAAATCATACTTATTTGATTAGGCATTACAAATCCTCTACTCAGCATCATTC
*
271164 AAAAATCATACTTCTTTGATTAGGCATTACAAATCCTCTACTCAGCATCATTC
1 AAAAATCATACTTATTTGATTAGGCATTACAAATCCTCTACTCAGCATCATTC
271217 AAA
1 AAA
271220 CCAAGTTCTG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.35
Consensus pattern (53 bp):
AAAAATCATACTTATTTGATTAGGCATTACAAATCCTCTACTCAGCATCATTC
Found at i:276462 original size:23 final size:22
Alignment explanation
Indices: 276418--276462 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
276408 TTTCTCAATT
*
276418 TTATTAATTTTTAAACATATAA
1 TTATTAATTTTTAAACAAATAA
* *
276440 TTATTTATTTTATAAATAAATAA
1 TTATTAATTTT-TAAACAAATAA
276463 ATAAAACTAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 10 0.53
23 9 0.47
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TTATTAATTTTTAAACAAATAA
Found at i:277106 original size:26 final size:25
Alignment explanation
Indices: 277077--277178 Score: 91
Period size: 26 Copynumber: 4.0 Consensus size: 25
277067 TAATTTTATT
*
277077 AAATATATTTATTTAATAATAAATAA
1 AAATATATTAATTTAATAA-AAATAA
*
277103 AAATAT-TTAAATTTAATAAAAATTA
1 AAATATATT-AATTTAATAAAAATAA
* *
277128 AAA-ATATTAAATAAATAAAAATAA
1 AAATATATTAATTTAATAAAAATAA
* *
277152 ATAATAAATATAATATAATAATAAATA
1 A-AATATAT-TAATTTAATAA-AAATA
277179 TCAATAAAAA
Statistics
Matches: 61, Mismatches: 9, Indels: 10
0.76 0.11 0.12
Matches are distributed among these distances:
24 16 0.26
25 14 0.23
26 18 0.30
27 8 0.13
28 5 0.08
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (25 bp):
AAATATATTAATTTAATAAAAATAA
Found at i:277139 original size:7 final size:7
Alignment explanation
Indices: 277117--277194 Score: 53
Period size: 6 Copynumber: 11.6 Consensus size: 7
277107 ATTTAAATTT
277117 AATAA-A
1 AATAATA
277123 AATTAA-A
1 AA-TAATA
*
277130 AATATTA
1 AATAATA
277137 AATAAATA
1 AAT-AATA
277145 AA-AATA
1 AATAATA
277151 AATAATA
1 AATAATA
277158 AAT-ATA
1 AATAATA
277164 ATATAAT-
1 A-ATAATA
277171 AATAA-A
1 AATAATA
*
277177 TATCAATA
1 AAT-AATA
277185 AA-AATA
1 AATAATA
277191 AATA
1 AATA
277195 TTTAACAAAT
Statistics
Matches: 58, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
6 26 0.45
7 23 0.40
8 9 0.16
ACGTcount: A:0.71, C:0.01, G:0.00, T:0.28
Consensus pattern (7 bp):
AATAATA
Found at i:277151 original size:10 final size:10
Alignment explanation
Indices: 277136--277194 Score: 59
Period size: 10 Copynumber: 5.9 Consensus size: 10
277126 TAAAAATATT
277136 AAATAAATAA
1 AAATAAATAA
277146 AAATAAATAA
1 AAATAAATAA
277156 TAAATATAAT-A
1 -AAATA-AATAA
*
277167 TAAT-AATAA
1 AAATAAATAA
* *
277176 ATATCAATAA
1 AAATAAATAA
277186 AAATAAATA
1 AAATAAATA
277195 TTTAACAAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
8 3 0.08
9 3 0.08
10 25 0.62
11 6 0.15
12 3 0.08
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (10 bp):
AAATAAATAA
Found at i:277151 original size:30 final size:33
Alignment explanation
Indices: 277117--277195 Score: 92
Period size: 33 Copynumber: 2.5 Consensus size: 33
277107 ATTTAAATTT
* *
277117 AATAAAAATTAA-A-AATATTA-AATAAATAAA
1 AATAAAAATAAATATAATATAATAATAAATAAA
**
277147 AATAAATAATAAATATAATATAATAATAAATATC
1 AATAAA-AATAAATATAATATAATAATAAATAAA
277181 AATAAAAATAAATAT
1 AATAAAAATAAATAT
277196 TTAACAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 6 0.15
31 5 0.12
32 1 0.02
33 15 0.37
34 14 0.34
ACGTcount: A:0.70, C:0.01, G:0.00, T:0.29
Consensus pattern (33 bp):
AATAAAAATAAATATAATATAATAATAAATAAA
Found at i:277157 original size:17 final size:17
Alignment explanation
Indices: 277137--277194 Score: 66
Period size: 17 Copynumber: 3.5 Consensus size: 17
277127 AAAAATATTA
277137 AATAAATAAAAATAAAT
1 AATAAATAAAAATAAAT
*
277154 AATAAAT-ATAATATAAT
1 AATAAATAAAAATA-AAT
**
277171 AATAAATATCAATAAA-
1 AATAAATAAAAATAAAT
277187 AATAAATA
1 AATAAATA
277195 TTTAACAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
16 13 0.36
17 19 0.53
18 4 0.11
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.28
Consensus pattern (17 bp):
AATAAATAAAAATAAAT
Found at i:277157 original size:24 final size:23
Alignment explanation
Indices: 277091--277157 Score: 80
Period size: 24 Copynumber: 2.7 Consensus size: 23
277081 ATATTTATTT
*
277091 AATAATAAATAAAAATATTTAAATTT
1 AATAA-AAATAAAAATA-TTAAA-TA
277117 AATAAAAATTAAAAATATTAAATA
1 AATAAAAA-TAAAAATATTAAATA
277141 AATAAAAATAAATAATA
1 AATAAAAATAAA-AATA
277158 AATATAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
23 4 0.11
24 13 0.34
25 8 0.21
26 13 0.34
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
AATAAAAATAAAAATATTAAATA
Found at i:288316 original size:22 final size:23
Alignment explanation
Indices: 288271--288332 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 23
288261 AGCTCAAATT
*
288271 TATTGTTTATATATTAAAATTTTATA
1 TATT-TTTATA-ATT-AAATTTTAAA
288297 TATTTTTATAATTAAA-TTTAAA
1 TATTTTTATAATTAAATTTTAAA
288319 TAATTTTT-TAATTA
1 T-ATTTTTATAATTA
288333 TTAAATAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 6
0.83 0.02 0.15
Matches are distributed among these distances:
22 12 0.35
23 9 0.26
24 3 0.09
25 6 0.18
26 4 0.12
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
TATTTTTATAATTAAATTTTAAA
Found at i:288847 original size:45 final size:45
Alignment explanation
Indices: 288798--288885 Score: 131
Period size: 45 Copynumber: 2.0 Consensus size: 45
288788 GTTCTGTCCG
288798 AAAATGAAGTGAAGTAAAAATGATTTGATAAAATTGTTAAATTCA
1 AAAATGAAGTGAAGTAAAAATGATTTGATAAAATTGTTAAATTCA
* * * * *
288843 AAAATGAATTGGATTTAAAATGATTTGGTAAAATTGTTAAATT
1 AAAATGAAGTGAAGTAAAAATGATTTGATAAAATTGTTAAATT
288886 TGAAAATGCT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.48, C:0.01, G:0.16, T:0.35
Consensus pattern (45 bp):
AAAATGAAGTGAAGTAAAAATGATTTGATAAAATTGTTAAATTCA
Found at i:289456 original size:5 final size:5
Alignment explanation
Indices: 289449--289480 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
289439 GCGCTAACAT
*
289449 TCCAT TCCAA TCCAA TCCAA TCCAA TCCAA TC
1 TCCAA TCCAA TCCAA TCCAA TCCAA TCCAA TC
289481 ATCCTCGTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.34, C:0.41, G:0.00, T:0.25
Consensus pattern (5 bp):
TCCAA
Found at i:291731 original size:2 final size:2
Alignment explanation
Indices: 291724--291750 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
291714 ATATTCTTTT
291724 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
291751 AGGGAGGGGG
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:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:292033 original size:56 final size:56
Alignment explanation
Indices: 291959--292071 Score: 226
Period size: 56 Copynumber: 2.0 Consensus size: 56
291949 TCCCAATTAC
291959 ATGCCCTCCTCTTAAATACACTTTCTTTCTACGACTAGCCTCTCATTTCTGATCTT
1 ATGCCCTCCTCTTAAATACACTTTCTTTCTACGACTAGCCTCTCATTTCTGATCTT
292015 ATGCCCTCCTCTTAAATACACTTTCTTTCTACGACTAGCCTCTCATTTCTGATCTT
1 ATGCCCTCCTCTTAAATACACTTTCTTTCTACGACTAGCCTCTCATTTCTGATCTT
292071 A
1 A
292072 GTGTGTATAT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 57 1.00
ACGTcount: A:0.20, C:0.32, G:0.07, T:0.41
Consensus pattern (56 bp):
ATGCCCTCCTCTTAAATACACTTTCTTTCTACGACTAGCCTCTCATTTCTGATCTT
Found at i:293348 original size:17 final size:17
Alignment explanation
Indices: 293326--293359 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
293316 AAAATTTAAC
293326 ATATTTATATTAAATAT
1 ATATTTATATTAAATAT
*
293343 ATATTTATATTTAATAT
1 ATATTTATATTAAATAT
293360 CAAGTATTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATATTTATATTAAATAT
Found at i:293694 original size:2 final size:2
Alignment explanation
Indices: 293687--293716 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
293677 CTTCGTTTTC
293687 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
293717 CATACGTATA
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):
TA
Found at i:295714 original size:43 final size:43
Alignment explanation
Indices: 295653--295743 Score: 155
Period size: 43 Copynumber: 2.1 Consensus size: 43
295643 TACACCATCA
* *
295653 TGTTTGAATCAGACAATATATGGGATCTAATGTGCTTATATAG
1 TGTTTGAATCAGACAATATATGGGATCGAATGTACTTATATAG
*
295696 TGTTTGAATCAGACAATATATGGGATCGAGTGTACTTATATAG
1 TGTTTGAATCAGACAATATATGGGATCGAATGTACTTATATAG
295739 TGTTT
1 TGTTT
295744 TTTGTTTTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.31, C:0.09, G:0.22, T:0.38
Consensus pattern (43 bp):
TGTTTGAATCAGACAATATATGGGATCGAATGTACTTATATAG
Found at i:306452 original size:26 final size:27
Alignment explanation
Indices: 306393--306452 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 27
306383 CATATGTAAA
*
306393 AAATATATATTAAAAAAATTATTATTT
1 AAATATTTATTAAAAAAATTATTATTT
*
306420 AATTATTTA-TAAAATAAA-TATT-TTT
1 AAATATTTATTAAAA-AAATTATTATTT
306445 CAAATATT
1 -AAATATT
306453 ATTCTATGAG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
25 3 0.11
26 15 0.54
27 10 0.36
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (27 bp):
AAATATTTATTAAAAAAATTATTATTT
Found at i:306728 original size:23 final size:24
Alignment explanation
Indices: 306688--306733 Score: 67
Period size: 23 Copynumber: 1.9 Consensus size: 24
306678 TTGTTTCCAA
306688 AATAATATTTTAAATTTAATATATC
1 AATAATA-TTTAAATTTAATATATC
*
306713 AATAATA-TTAATTTTAATATA
1 AATAATATTTAAATTTAATATA
306734 AATTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 13 0.65
25 7 0.35
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
AATAATATTTAAATTTAATATATC
Found at i:309387 original size:14 final size:14
Alignment explanation
Indices: 309353--309392 Score: 50
Period size: 13 Copynumber: 3.0 Consensus size: 14
309343 AGTTTAATAA
309353 TATT-AATTTAAAT
1 TATTAAATTTAAAT
309366 TATTAAATTT-AAT
1 TATTAAATTTAAAT
309379 TATTCAAA-TTAAAT
1 TATT-AAATTTAAAT
309393 AAAAATAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 13 0.54
14 11 0.46
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (14 bp):
TATTAAATTTAAAT
Found at i:310495 original size:15 final size:16
Alignment explanation
Indices: 310470--310504 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
310460 AAAGTGTTGG
310470 TAAATTTAATTAAATT
1 TAAATTTAATTAAATT
*
310486 TAAA-TTAATTTAATT
1 TAAATTTAATTAAATT
310501 TAAA
1 TAAA
310505 ATATGAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (16 bp):
TAAATTTAATTAAATT
Found at i:310901 original size:21 final size:21
Alignment explanation
Indices: 310867--310911 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 21
310857 AAATTTTATT
310867 TAAATATTTTAAATT-ATCAAA
1 TAAATATTTTAAATTAAT-AAA
310888 TAAAT-TTTTAAAATTAATAAA
1 TAAATATTTT-AAATTAATAAA
310909 TAA
1 TAA
310912 TCGATCTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
20 4 0.18
21 16 0.73
22 2 0.09
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATATTTTAAATTAATAAA
Found at i:311240 original size:33 final size:32
Alignment explanation
Indices: 311203--311264 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 32
311193 CAAAATTGAT
*
311203 TTTTAT-TTAAAAATTTTACAATAAAAAAACCTA
1 TTTTATATT-AAAAGTTTAC-ATAAAAAAACCTA
*
311236 TTTTATATTAAAAGTTTACCTAAAAAAAC
1 TTTTATATTAAAAGTTTACATAAAAAAAC
311265 TTTCCTAACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
32 9 0.35
33 15 0.58
34 2 0.08
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.39
Consensus pattern (32 bp):
TTTTATATTAAAAGTTTACATAAAAAAACCTA
Found at i:311589 original size:14 final size:15
Alignment explanation
Indices: 311570--311598 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
311560 AAACTACTTT
311570 AATTTA-ATTTTTAA
1 AATTTATATTTTTAA
311584 AATTTATATTTTTAA
1 AATTTATATTTTTAA
311599 TAAAATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTATATTTTTAA
Found at i:317902 original size:2 final size:2
Alignment explanation
Indices: 317895--317921 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
317885 TCTCCTTGTA
317895 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
317922 ATAAGAATAC
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:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:348488 original size:22 final size:22
Alignment explanation
Indices: 348463--348504 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
348453 TGAAAGCAAT
*
348463 AATAATAAAAAAATTAAATTAA
1 AATAATAAAAAAAGTAAATTAA
**
348485 AATAATTCAAAAAGTAAATT
1 AATAATAAAAAAAGTAAATT
348505 CACAGTTAAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (22 bp):
AATAATAAAAAAAGTAAATTAA
Found at i:348958 original size:2 final size:2
Alignment explanation
Indices: 348953--348989 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
348943 ATATTTTTTC
*
348953 AT AT AT AT AT AT AT AT AT AC 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 AT AT A
348990 AGTTTTGACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:356814 original size:67 final size:67
Alignment explanation
Indices: 356706--356841 Score: 263
Period size: 67 Copynumber: 2.0 Consensus size: 67
356696 ACTAAACCGC
*
356706 TTATGATCTGCAAATCACAACCTTCAAGTTACACCTATGGTCCTCATTGGATACAGAACTATAAT
1 TTATGATCCGCAAATCACAACCTTCAAGTTACACCTATGGTCCTCATTGGATACAGAACTATAAT
356771 CA
66 CA
356773 TTATGATCCGCAAATCACAACCTTCAAGTTACACCTATGGTCCTCATTGGATACAGAACTATAAT
1 TTATGATCCGCAAATCACAACCTTCAAGTTACACCTATGGTCCTCATTGGATACAGAACTATAAT
356838 CA
66 CA
356840 TT
1 TT
356842 CGACAGTGGA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 68 1.00
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (67 bp):
TTATGATCCGCAAATCACAACCTTCAAGTTACACCTATGGTCCTCATTGGATACAGAACTATAAT
CA
Found at i:360660 original size:99 final size:97
Alignment explanation
Indices: 360487--360679 Score: 314
Period size: 99 Copynumber: 2.0 Consensus size: 97
360477 ACAGAGCAGC
*
360487 AGCCACAATTTCAAAGAAAAAAAAGCTAAATCAATTTCAATTAAAATTAATTTACATATCCAAAT
1 AGCCACAATTTCAAAAAAAAAAAAGCTAAATCAATTTCAATTAAAATTAATTTACATATCCAAAT
*
360552 GTAAGTAAGCTCCAAAAGATGATAAACAAAGT
66 GTAAATAAGCTCCAAAAGATGATAAACAAAGT
* * *
360584 AGCCACAATTTCAAAAAAAAAAAAAAGCTACATTAATTTCAATTAAAATTAATTTACATATCCAC
1 AGCCACAATTTC--AAAAAAAAAAAAGCTAAATCAATTTCAATTAAAATTAATTTACATATCCAA
*
360649 ATGTAAATAAGCTCCAAAAGATTATAAACAA
64 ATGTAAATAAGCTCCAAAAGATGATAAACAA
360680 TATCTTATAT
Statistics
Matches: 88, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
97 12 0.14
99 76 0.86
ACGTcount: A:0.52, C:0.15, G:0.07, T:0.25
Consensus pattern (97 bp):
AGCCACAATTTCAAAAAAAAAAAAGCTAAATCAATTTCAATTAAAATTAATTTACATATCCAAAT
GTAAATAAGCTCCAAAAGATGATAAACAAAGT
Found at i:362638 original size:2 final size:2
Alignment explanation
Indices: 362631--362666 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
362621 AATTAAAAAT
362631 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
362667 AGACTGTGCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:362902 original size:33 final size:33
Alignment explanation
Indices: 362860--362931 Score: 101
Period size: 33 Copynumber: 2.2 Consensus size: 33
362850 AGCAAGAAAA
*
362860 ATTGGTGACA-TTCTGAATACCTAGTAACAGGGC
1 ATTGGTGACACTT-TGAAGACCTAGTAACAGGGC
* *
362893 ATTGGTGACACTTTGAAGATCTAGTAAGAGGGC
1 ATTGGTGACACTTTGAAGACCTAGTAACAGGGC
362926 ATTGGT
1 ATTGGT
362932 AAAGAGCATG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
33 33 0.94
34 2 0.06
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (33 bp):
ATTGGTGACACTTTGAAGACCTAGTAACAGGGC
Found at i:366678 original size:6 final size:7
Alignment explanation
Indices: 366654--366685 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
366644 AATAATTTAA
366654 TAAATAT
1 TAAATAT
366661 TAAATAT
1 TAAATAT
366668 TAAAT-T
1 TAAATAT
366674 TAAAT-T
1 TAAATAT
366680 TAAATA
1 TAAATA
366686 ATAATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (7 bp):
TAAATAT
Found at i:366683 original size:26 final size:27
Alignment explanation
Indices: 366654--366704 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
366644 AATAATTTAA
*
366654 TAAATATTAAATATTAAA-TTTAAATT
1 TAAATAATAAATATTAAAGTTTAAATT
* *
366680 TAAATAATAATTTTTAAAGTTTAAA
1 TAAATAATAAATATTAAAGTTTAAA
366705 AATAATATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 15 0.71
27 6 0.29
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (27 bp):
TAAATAATAAATATTAAAGTTTAAATT
Found at i:366695 original size:20 final size:20
Alignment explanation
Indices: 366644--366710 Score: 66
Period size: 20 Copynumber: 3.3 Consensus size: 20
366634 TTATAAATAA
*
366644 AATAATTTAATAAATATTAAAT
1 AATAATTT-TTAAAT-TTAAAT
* *
366666 ATTAA-ATTTAAATTTAAAT
1 AATAATTTTTAAATTTAAAT
366685 AATAATTTTTAAAGTTTAAA-
1 AATAATTTTTAAA-TTTAAAT
366705 AATAAT
1 AATAAT
366711 ATAAAATACG
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 10 0.26
20 17 0.45
21 7 0.18
22 4 0.11
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (20 bp):
AATAATTTTTAAATTTAAAT
Found at i:372042 original size:19 final size:19
Alignment explanation
Indices: 372010--372049 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
372000 CTAATTTGGA
372010 AAAAAAATAAAATAA-AAT
1 AAAAAAATAAAATAATAAT
*
372028 AAAAAAATATGAATAATAAT
1 AAAAAAATA-AAATAATAAT
372048 AA
1 AA
372050 TAATCTATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 9 0.47
19 5 0.26
20 5 0.26
ACGTcount: A:0.78, C:0.00, G:0.03, T:0.20
Consensus pattern (19 bp):
AAAAAAATAAAATAATAAT
Found at i:372797 original size:37 final size:38
Alignment explanation
Indices: 372756--372827 Score: 103
Period size: 38 Copynumber: 1.9 Consensus size: 38
372746 TTTTTCCTGT
*
372756 ATTTTCCCTCAAA-T-TTTGCTTTCGTTTTTAATTGTGA
1 ATTTTCCCTCAAACTCTTT-CTTTCGTTGTTAATTGTGA
*
372793 ATTTTTCCTCAAACTCTTTCTTTCGTTGTTAATTG
1 ATTTTCCCTCAAACTCTTTCTTTCGTTGTTAATTG
372828 AAATTTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
37 12 0.39
38 16 0.52
39 3 0.10
ACGTcount: A:0.18, C:0.18, G:0.10, T:0.54
Consensus pattern (38 bp):
ATTTTCCCTCAAACTCTTTCTTTCGTTGTTAATTGTGA
Found at i:372836 original size:38 final size:37
Alignment explanation
Indices: 372756--372835 Score: 101
Period size: 37 Copynumber: 2.2 Consensus size: 37
372746 TTTTTCCTGT
* * *
372756 ATTTTCCCTCAAATTTTGCTTTCGTTTTTAATTGTGA
1 ATTTTTCCTCAAATTTTGCTTTCGTTGTTAATTGTAA
372793 ATTTTTCCTCAAACTCTTT-CTTTCGTTGTTAATTG-AA
1 ATTTTTCCTCAAA-T-TTTGCTTTCGTTGTTAATTGTAA
372830 ATTTTT
1 ATTTTT
372836 TTTTGCCTCT
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 19 0.50
38 16 0.42
39 3 0.08
ACGTcount: A:0.20, C:0.16, G:0.09, T:0.55
Consensus pattern (37 bp):
ATTTTTCCTCAAATTTTGCTTTCGTTGTTAATTGTAA
Found at i:376693 original size:14 final size:14
Alignment explanation
Indices: 376674--376702 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
376664 CTCTTTTCGT
376674 TGCACTTTAACCTC
1 TGCACTTTAACCTC
376688 TGCACTTTAACCTC
1 TGCACTTTAACCTC
376702 T
1 T
376703 ACATCTTATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.34, G:0.07, T:0.38
Consensus pattern (14 bp):
TGCACTTTAACCTC
Found at i:387973 original size:21 final size:21
Alignment explanation
Indices: 387912--387969 Score: 64
Period size: 21 Copynumber: 2.7 Consensus size: 21
387902 TAAATAACAT
*
387912 AATAAATAATAAAATAAAATTTTA
1 AATAAATAAT--AATTAAA-TTTA
*
387936 AATAAATTATAATTAAATTTA
1 AATAAATAATAATTAAATTTA
387957 AATAAA-AATAATT
1 AATAAATAATAATT
387970 TAAAAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 6 0.19
21 10 0.32
22 6 0.19
24 9 0.29
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AATAAATAATAATTAAATTTA
Found at i:388236 original size:27 final size:26
Alignment explanation
Indices: 388206--388279 Score: 73
Period size: 29 Copynumber: 2.8 Consensus size: 26
388196 ATTATAATTT
388206 TATTTAAAATATTTTATATTTTAAAA
1 TATTTAAAATATTTTATATTTTAAAA
*
388232 -ATATTAAATATATTATATAAATTTTAAAA
1 TAT-TTAAA-ATATT-T-TATATTTTAAAA
*
388261 TATTT-ATATA-TTTATATTT
1 TATTTAAAATATTTTATATTT
388280 ATATTATTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 12
0.73 0.05 0.22
Matches are distributed among these distances:
24 6 0.15
25 3 0.08
26 6 0.15
27 8 0.20
28 2 0.05
29 13 0.32
30 2 0.05
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
TATTTAAAATATTTTATATTTTAAAA
Found at i:388245 original size:20 final size:20
Alignment explanation
Indices: 388220--388265 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
388210 TAAAATATTT
388220 TATATTTTAAAAATATTAAA
1 TATATTTTAAAAATATTAAA
* * *
388240 TATATTATATAAATTTTAAA
1 TATATTTTAAAAATATTAAA
388260 -ATATTT
1 TATATTT
388266 ATATATTTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TATATTTTAAAAATATTAAA
Found at i:388275 original size:28 final size:29
Alignment explanation
Indices: 388223--388277 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
388213 AATATTTTAT
388223 ATTTTAAAAATATTAAATATATTATATAA
1 ATTTTAAAAATATTAAATATATTATATAA
*
388252 ATTTT-AAAATATT-TATATATTTATAT
1 ATTTTAAAAATATTAAATATA-TTATAT
388278 TTATATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 5 0.21
28 14 0.58
29 5 0.21
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTTTAAAAATATTAAATATATTATATAA
Found at i:388277 original size:14 final size:15
Alignment explanation
Indices: 388260--388288 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
388250 AAATTTTAAA
388260 ATATTTATA-TATTT
1 ATATTTATATTATTT
388274 ATATTTATATTATTT
1 ATATTTATATTATTT
388289 TAATTCGCGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
ATATTTATATTATTT
Found at i:393228 original size:2 final size:2
Alignment explanation
Indices: 393221--393245 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
393211 ATCATTATTT
393221 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
393246 TCTTTTCATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:393666 original size:4 final size:4
Alignment explanation
Indices: 393657--393742 Score: 109
Period size: 4 Copynumber: 21.5 Consensus size: 4
393647 TTCATCCAGT
* * * *
393657 TATA TATA TATA TATA TATA CATA CATA TGTA TATA TATA TATA TGTA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
* * *
393705 TATA TGTA TATA TATA TATG TATA TATA TATA TGTA TA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TA
393743 GTGTTCAACC
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 70 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (4 bp):
TATA
Found at i:393676 original size:14 final size:14
Alignment explanation
Indices: 393657--393742 Score: 109
Period size: 14 Copynumber: 6.1 Consensus size: 14
393647 TTCATCCAGT
393657 TATATATATATATA
1 TATATATATATATA
* *
393671 TATATACATACATA
1 TATATATATATATA
*
393685 TGTATATATATATA
1 TATATATATATATA
* *
393699 TATGTATATATGTA
1 TATATATATATATA
*
393713 TATATATATATGTA
1 TATATATATATATA
*
393727 TATATATATATGTA
1 TATATATATATATA
393741 TA
1 TA
393743 GTGTTCAACC
Statistics
Matches: 63, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 63 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (14 bp):
TATATATATATATA
Found at i:393907 original size:21 final size:21
Alignment explanation
Indices: 393869--393908 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
393859 TATTTCTCTT
* * *
393869 TTTTTTTTTTTTTGTTTATCA
1 TTTTTTCTTATTTATTTATCA
393890 TTTTTTCTTATTTATTTAT
1 TTTTTTCTTATTTATTTAT
393909 TTATTTATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.12, C:0.05, G:0.03, T:0.80
Consensus pattern (21 bp):
TTTTTTCTTATTTATTTATCA
Found at i:395437 original size:2 final size:2
Alignment explanation
Indices: 395430--395468 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
395420 TTTCCATGGC
395430 AT AT AT 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 AT AT AT A
395469 CACACACACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:395473 original size:2 final size:2
Alignment explanation
Indices: 395468--395494 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
395458 ATATATATAT
395468 AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC A
395495 TGCAGGTTCT
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:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:396286 original size:16 final size:15
Alignment explanation
Indices: 396247--396300 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
396237 AAGTTTTACA
396247 AAATTTAAATTAATTTT
1 AAATTTAAATT-A-TTT
*
396264 AGA-TTAAATTATTT
1 AAATTTAAATTATTT
396278 CAAATTTAAATTA-TT
1 -AAATTTAAATTATTT
396293 AAATTTAA
1 AAATTTAA
396301 CACTTAAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
14 11 0.33
15 5 0.15
16 15 0.45
17 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (15 bp):
AAATTTAAATTATTT
Found at i:396298 original size:21 final size:23
Alignment explanation
Indices: 396274--396321 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
396264 AGATTAAATT
*
396274 ATTTCAA-ATTTAAATTA-TTAA
1 ATTTCAACACTTAAATTATTTAA
396295 ATTT-AACACTTAAATTATTTAA
1 ATTTCAACACTTAAATTATTTAA
396317 ATTTC
1 ATTTC
396322 GTACTCAAGT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 2 0.09
21 13 0.57
22 8 0.35
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTCAACACTTAAATTATTTAA
Found at i:396348 original size:20 final size:22
Alignment explanation
Indices: 396309--396348 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
396299 AACACTTAAA
396309 TTATTTAAATTTCGTACTCAAG
1 TTATTTAAATTTCGTACTCAAG
396331 TTATTTAAA-TTC-TACTCA
1 TTATTTAAATTTCGTACTCA
396349 TTTTAAATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.33
21 3 0.17
22 9 0.50
ACGTcount: A:0.33, C:0.15, G:0.05, T:0.47
Consensus pattern (22 bp):
TTATTTAAATTTCGTACTCAAG
Found at i:396404 original size:14 final size:15
Alignment explanation
Indices: 396376--396404 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
396366 TAATTTTTAC
396376 AATTAAATCAGATTA
1 AATTAAATCAGATTA
396391 AATTAAAT-AGATTA
1 AATTAAATCAGATTA
396405 TTTGATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.55, C:0.03, G:0.07, T:0.34
Consensus pattern (15 bp):
AATTAAATCAGATTA
Found at i:397489 original size:13 final size:13
Alignment explanation
Indices: 397439--397482 Score: 54
Period size: 13 Copynumber: 3.2 Consensus size: 13
397429 AACACGGCTC
397439 AAAAAAATAAT-T
1 AAAAAAATAATAT
397451 AAAATATAACTAATAT
1 AAAA-A-AA-TAATAT
397467 AAAAAAATAATAT
1 AAAAAAATAATAT
397480 AAA
1 AAA
397483 TACATAAATA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
12 4 0.14
13 10 0.36
14 4 0.14
15 5 0.18
16 5 0.18
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAAAAATAATAT
Found at i:400420 original size:19 final size:18
Alignment explanation
Indices: 400370--400420 Score: 68
Period size: 17 Copynumber: 2.8 Consensus size: 18
400360 TTTCTCTCCG
*
400370 TATATTTAAAATAAAAATA
1 TATATTTATAAT-AAAATA
400389 TATATTTAT-ATAAAATA
1 TATATTTATAATAAAATA
400406 TATATTTATTAATAA
1 TATATTTA-TAATAA
400421 TTTATATTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
17 14 0.48
18 3 0.10
19 12 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
TATATTTATAATAAAATA
Found at i:400426 original size:19 final size:17
Alignment explanation
Indices: 400383--400428 Score: 67
Period size: 17 Copynumber: 2.7 Consensus size: 17
400373 ATTTAAAATA
400383 AAAATATATATTTATAT
1 AAAATATATATTTATAT
400400 AAAATATATATTTAT-T
1 AAAATATATATTTATAT
*
400416 AATAATTTATATT
1 AA-AATATATATT
400429 ATAAAATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 3 0.11
17 24 0.89
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
AAAATATATATTTATAT
Found at i:400476 original size:16 final size:16
Alignment explanation
Indices: 400434--400476 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 16
400424 ATATTATAAA
*
400434 ATTTTAATATGTATTAT
1 ATTTTAAT-TATATTAT
400451 -TTTTATATTATATTAT
1 ATTTTA-ATTATATTAT
400467 ATTTTAATTA
1 ATTTTAATTA
400477 ATTTTTTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
16 16 0.70
17 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (16 bp):
ATTTTAATTATATTAT
Found at i:401054 original size:2 final size:2
Alignment explanation
Indices: 401047--401090 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
401037 TTATATGTAC
401047 AT AT 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 AT AT
401089 AT
1 AT
401091 GTATGATCAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:403917 original size:16 final size:16
Alignment explanation
Indices: 403890--403991 Score: 73
Period size: 16 Copynumber: 6.4 Consensus size: 16
403880 AATTTAATAA
403890 ATTAAATATAATTATT
1 ATTAAATATAATTATT
* * *
403906 AGTAAATTTAATTAAT
1 ATTAAATATAATTATT
* *
403922 ATTAAATAAAATTA-C
1 ATTAAATATAATTATT
* * * *
403937 ACATAAATTTAATAAAT
1 A-TTAAATATAATTATT
403954 ATTAAATATAATTATT
1 ATTAAATATAATTATT
* *
403970 -TATAAATTTAATAATT
1 AT-TAAATATAATTATT
403986 ATTAAA
1 ATTAAA
403992 AAAATTTAAT
Statistics
Matches: 64, Mismatches: 18, Indels: 8
0.71 0.20 0.09
Matches are distributed among these distances:
15 2 0.03
16 60 0.94
17 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (16 bp):
ATTAAATATAATTATT
Found at i:403935 original size:32 final size:30
Alignment explanation
Indices: 403877--403997 Score: 138
Period size: 32 Copynumber: 3.9 Consensus size: 30
403867 AATATTGATC
*
403877 ATAAATTTAATAA-ATTAAATATAATTATT
1 ATAAATTTAATAATATTAAATAAAATTATT
**
403906 AGTAAATTTAATTAATATTAAATAAAATTACAC
1 A-TAAATTTAA-TAATATTAAATAAAATTA-TT
*
403939 ATAAATTTAATAAATATTAAATATAATTATTT
1 ATAAATTTAAT-AATATTAAATAAAATTA-TT
403971 ATAAATTTAATAATTATTAAA-AAAATT
1 ATAAATTTAATAA-TATTAAATAAAATT
403998 TAATTTTATT
Statistics
Matches: 78, Mismatches: 8, Indels: 10
0.81 0.08 0.10
Matches are distributed among these distances:
29 1 0.01
30 9 0.12
31 11 0.14
32 56 0.72
33 1 0.01
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (30 bp):
ATAAATTTAATAATATTAAATAAAATTATT
Found at i:403969 original size:64 final size:61
Alignment explanation
Indices: 403876--403997 Score: 185
Period size: 64 Copynumber: 2.0 Consensus size: 61
403866 TAATATTGAT
403876 CATAAATTTAATAAATTAAATATAATTA-TTAGTAAATTTAATTAA-TATTAAATAAAATTACA
1 CATAAATTTAATAAATTAAATATAATTATTTA-TAAATTTAA-TAATTATTAAA-AAAATTACA
403938 CATAAATTTAATAAATATTAAATATAATTATTTATAAATTTAATAATTATTAAAAAAATT
1 CATAAATTTAAT-AA-ATTAAATATAATTATTTATAAATTTAATAATTATTAAAAAAATT
403998 TAATTTTATT
Statistics
Matches: 56, Mismatches: 0, Indels: 7
0.89 0.00 0.11
Matches are distributed among these distances:
62 12 0.21
63 11 0.20
64 30 0.54
65 3 0.05
ACGTcount: A:0.55, C:0.02, G:0.01, T:0.42
Consensus pattern (61 bp):
CATAAATTTAATAAATTAAATATAATTATTTATAAATTTAATAATTATTAAAAAAATTACA
Found at i:404006 original size:19 final size:20
Alignment explanation
Indices: 403973--404011 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
403963 AATTATTTAT
403973 AAATTTAATAATTATTAAAA
1 AAATTTAATAATTATTAAAA
*
403993 AAATTTAAT-TTTATTAAAA
1 AAATTTAATAATTATTAAAA
404012 CTGATATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (20 bp):
AAATTTAATAATTATTAAAA
Found at i:405375 original size:28 final size:28
Alignment explanation
Indices: 405343--405399 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
405333 TCAAACTCAA
*
405343 ATCTAAATATGTGTAATACACTAACGTC
1 ATCTAAAAATGTGTAATACACTAACGTC
*
405371 ATCTAAAAATGTGTAATACACTAATGTC
1 ATCTAAAAATGTGTAATACACTAACGTC
405399 A
1 A
405400 GACACGAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (28 bp):
ATCTAAAAATGTGTAATACACTAACGTC
Found at i:406948 original size:2 final size:2
Alignment explanation
Indices: 406943--406969 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
406933 TATATATATA
406943 TG TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG T
406970 ATGTATGCAT
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:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:407991 original size:16 final size:15
Alignment explanation
Indices: 407960--407988 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
407950 TGTTGTTCCG
407960 ACAATTCATTTTTTA
1 ACAATTCATTTTTTA
407975 ACAATTCATTTTTT
1 ACAATTCATTTTTT
407989 TAAAATATTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.31, C:0.14, G:0.00, T:0.55
Consensus pattern (15 bp):
ACAATTCATTTTTTA
Found at i:411327 original size:19 final size:18
Alignment explanation
Indices: 411303--411338 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
411293 ATAATAATTA
411303 ATATATTTATATTATATTC
1 ATATATTT-TATTATATTC
*
411322 ATATATTTTATTTTATT
1 ATATATTTTATTATATT
411339 ATAATCGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
ATATATTTTATTATATTC
Found at i:413665 original size:3 final size:3
Alignment explanation
Indices: 413657--413685 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
413647 TGCAGGGGGA
413657 GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
1 GGT GGT GGT GGT GGT GGT GGT GGT GGT GG
413686 AATTTGAGTA
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:0.00, C:0.00, G:0.69, T:0.31
Consensus pattern (3 bp):
GGT
Found at i:416973 original size:27 final size:26
Alignment explanation
Indices: 416932--416985 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 26
416922 ATTTTATTCA
416932 AATTTAATATGTAAA-AATTAAATAAAT
1 AATTTAATATGTAAATAA--AAATAAAT
* *
416959 AATTTAATTTTTAAATAAAAATAAAT
1 AATTTAATATGTAAATAAAAATAAAT
416985 A
1 A
416986 TTATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 9 0.38
27 13 0.54
28 2 0.08
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (26 bp):
AATTTAATATGTAAATAAAAATAAAT
Found at i:417112 original size:2 final size:2
Alignment explanation
Indices: 417105--417129 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
417095 TTTATCCATT
417105 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 T
417130 ATATATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:417134 original size:2 final size:2
Alignment explanation
Indices: 417129--417164 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
417119 TCTCTCTCTC
*
417129 TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
417165 CATAGTAGCT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:417943 original size:14 final size:14
Alignment explanation
Indices: 417926--417955 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
417916 ATTTAAAATA
417926 TTATTTTTATTATT
1 TTATTTTTATTATT
417940 TTATTTTTATTATT
1 TTATTTTTATTATT
417954 TT
1 TT
417956 TATTATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (14 bp):
TTATTTTTATTATT
Found at i:418067 original size:21 final size:19
Alignment explanation
Indices: 418043--418092 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
418033 AATTTTATAC
418043 TTAAATCTATTTTAATATGAA
1 TTAAAT-TATTTTAA-ATGAA
*
418064 TTAAATT-TTTTAAATTAA
1 TTAAATTATTTTAAATGAA
*
418082 ATAAATTATTT
1 TTAAATTATTT
418093 AATCTTTGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 10 0.38
19 9 0.35
20 1 0.04
21 6 0.23
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (19 bp):
TTAAATTATTTTAAATGAA
Found at i:418486 original size:24 final size:25
Alignment explanation
Indices: 418432--418486 Score: 67
Period size: 24 Copynumber: 2.2 Consensus size: 25
418422 AGCCATCCCC
** *
418432 AAATTAAATTATCTTGTATTAAAAA
1 AAATTAAATTATCTTCCAATAAAAA
*
418457 ATATTAAATTAT-TTCCAATAAAAA
1 AAATTAAATTATCTTCCAATAAAAA
418481 AAATTA
1 AAATTA
418487 TGGAGATAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.55, C:0.05, G:0.02, T:0.38
Consensus pattern (25 bp):
AAATTAAATTATCTTCCAATAAAAA
Found at i:419635 original size:18 final size:18
Alignment explanation
Indices: 419605--419639 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
419595 AATTATAAAT
419605 AAATAGTTTAATAAATAA
1 AAATAGTTTAATAAATAA
419623 AAATA-TTTAAATAAATA
1 AAATAGTTT-AATAAATA
419640 TATAAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AAATAGTTTAATAAATAA
Found at i:419636 original size:30 final size:30
Alignment explanation
Indices: 419600--419664 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 30
419590 TATACAATTA
* *
419600 TAAATAAATAGTTTAATAAATAA-AAATATT
1 TAAATAAATA-TATAAAAAATAACAAATATT
419630 TAAATAAATATATAAAAAATAACAAATATT
1 TAAATAAATATATAAAAAATAACAAATATT
*
419660 GAAAT
1 TAAAT
419665 TTAAGTTAAC
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 10 0.32
30 21 0.68
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.32
Consensus pattern (30 bp):
TAAATAAATATATAAAAAATAACAAATATT
Found at i:419839 original size:20 final size:21
Alignment explanation
Indices: 419797--419840 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
419787 CAAACTATTT
* *
419797 AAAATTAAAATTGAATGATAA
1 AAAATTAAAATTGAATAACAA
419818 AAAATTAAAATT-AATAACAA
1 AAAATTAAAATTGAATAACAA
419838 AAA
1 AAA
419841 TTTATCAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.68, C:0.02, G:0.05, T:0.25
Consensus pattern (21 bp):
AAAATTAAAATTGAATAACAA
Found at i:419900 original size:18 final size:18
Alignment explanation
Indices: 419866--419916 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
419856 TAAAGTGATT
* *
419866 AAATTTAATATTTAATTA
1 AAATTTAATAATAAATTA
*
419884 AAATTTAATAATAAATTT
1 AAATTTAATAATAAATTA
* *
419902 AATTTTAATTATAAA
1 AAATTTAATAATAAA
419917 ATATAATAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTTAATAATAAATTA
Found at i:419911 original size:23 final size:23
Alignment explanation
Indices: 419875--419919 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
419865 TAAATTTAAT
419875 ATTTAATTAAAATT-TAATAATAA
1 ATTTAATTAAAATTATAA-AATAA
**
419898 ATTTAATTTTAATTATAAAATA
1 ATTTAATTAAAATTATAAAATA
419920 TAATAAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
ATTTAATTAAAATTATAAAATAA
Found at i:419960 original size:18 final size:18
Alignment explanation
Indices: 419908--419962 Score: 62
Period size: 16 Copynumber: 3.2 Consensus size: 18
419898 ATTTAATTTT
*
419908 AATTATAAAAT-ATAATA
1 AATTATAATATAATAATA
*
419925 AAATAT-AT-TAATAATA
1 AATTATAATATAATAATA
*
419941 AATTATAATATAACAATA
1 AATTATAATATAATAATA
419959 AATT
1 AATT
419963 TACTTTTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
15 1 0.03
16 12 0.39
17 7 0.23
18 11 0.35
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (18 bp):
AATTATAATATAATAATA
Found at i:420455 original size:22 final size:25
Alignment explanation
Indices: 420407--420456 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
420397 ATAATTTAAA
*
420407 ATTTTTTATAAATTATAAAAATAAT
1 ATTTTTAATAAATTATAAAAATAAT
420432 ATTTTTAAT-AATTA-AAAAAT-AT
1 ATTTTTAATAAATTATAAAAATAAT
420454 ATT
1 ATT
420457 AATATTATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
23 6 0.25
24 5 0.21
25 8 0.33
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (25 bp):
ATTTTTAATAAATTATAAAAATAAT
Found at i:420479 original size:13 final size:13
Alignment explanation
Indices: 420436--420487 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
420426 AATAATATTT
*
420436 TTAATAATTAAAA
1 TTAATATTTAAAA
*
420449 --AATATATTAATA
1 TTAATAT-TTAAAA
420461 TT-ATATTTAAAA
1 TTAATATTTAAAA
420473 TTAATATTTAAAA
1 TTAATATTTAAAA
420486 TT
1 TT
420488 TATTTTATTT
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
11 4 0.12
12 12 0.38
13 16 0.50
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TTAATATTTAAAA
Found at i:420494 original size:12 final size:13
Alignment explanation
Indices: 420461--420494 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
420451 TATATTAATA
420461 TTATATTTAAAAT
1 TTATATTTAAAAT
*
420474 TAATATTTAAAAT
1 TTATATTTAAAAT
420487 TTAT-TTTA
1 TTATATTTA
420495 TTTACAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATATTTAAAAT
Found at i:421209 original size:6 final size:6
Alignment explanation
Indices: 421198--421228 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
421188 TTCTTCATCC
421198 CTCTTT CTCTTT CTCTTT CTCTTT CTTCTTT
1 CTCTTT CTCTTT CTCTTT CTCTTT C-TCTTT
421229 TCAATTCTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.79
7 5 0.21
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
CTCTTT
Found at i:422055 original size:3 final size:3
Alignment explanation
Indices: 422047--422078 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
422037 ACATAAATTG
422047 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TG
1 TGT TGT TGT TGT TGT TGT TGT TGT TGT TGT TG
422079 CAGCTTTAAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.00, G:0.34, T:0.66
Consensus pattern (3 bp):
TGT
Found at i:431330 original size:6 final size:6
Alignment explanation
Indices: 431319--431343 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
431309 TGAAAAAAAA
431319 TTAAAT TTAAAT TTAAAT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT T
431344 ATTATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAAAT
Found at i:431642 original size:12 final size:12
Alignment explanation
Indices: 431625--431649 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
431615 TAATATTATT
431625 TAATTTAAAAAA
1 TAATTTAAAAAA
431637 TAATTTAAAAAA
1 TAATTTAAAAAA
431649 T
1 T
431650 TTTATAATAA
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (12 bp):
TAATTTAAAAAA
Found at i:432362 original size:31 final size:32
Alignment explanation
Indices: 432286--432368 Score: 80
Period size: 31 Copynumber: 2.6 Consensus size: 32
432276 ACCGTCAATA
432286 TTTTTAATATTATATAATATTAATAATTTTGAT
1 TTTTTAATA-TATATAATATTAATAATTTTGAT
* * * * * *
432319 ATATAAAT-TATATTATATT-ATATTTTTTAT
1 TTTTTAATATATATAATATTAATAATTTTGAT
432349 TTTTTAATATATATACATAT
1 TTTTTAATATATATA-ATAT
432369 GAGGTTAGAT
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
30 14 0.37
31 15 0.39
32 4 0.11
33 5 0.13
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (32 bp):
TTTTTAATATATATAATATTAATAATTTTGAT
Found at i:434386 original size:16 final size:14
Alignment explanation
Indices: 434338--434384 Score: 69
Period size: 14 Copynumber: 3.4 Consensus size: 14
434328 ATACACATAA
434338 AATTTTAAATAT-T
1 AATTTTAAATATAT
* *
434351 AATATAAAATATAT
1 AATTTTAAATATAT
434365 AATTTTAAATATAT
1 AATTTTAAATATAT
434379 AATTTT
1 AATTTT
434385 TTTTAAAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
13 10 0.34
14 19 0.66
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
AATTTTAAATATAT
Found at i:438331 original size:2 final size:2
Alignment explanation
Indices: 438324--438355 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
438314 TGGATTAAGT
438324 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
438356 GTTTGAAAAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:438807 original size:30 final size:30
Alignment explanation
Indices: 438763--438829 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 30
438753 TTAAATGAAA
*
438763 AAAAATTAATAATTTTTTATTTATAA-AAT-TT
1 AAAATTTAATAA--TTTTATTTA-AATAATATT
438794 AAAATTTAA-AATTTTATTTAAATAATATT
1 AAAATTTAATAATTTTATTTAAATAATATT
438823 AAAATTT
1 AAAATTT
438830 TTTATCATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
27 2 0.06
28 12 0.36
29 9 0.27
30 2 0.06
31 8 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (30 bp):
AAAATTTAATAATTTTATTTAAATAATATT
Found at i:438912 original size:2 final size:2
Alignment explanation
Indices: 438905--438950 Score: 67
Period size: 2 Copynumber: 23.5 Consensus size: 2
438895 TGATGTGGAG
* *
438905 GA GA GA GA GA GA GC TA -A 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
438946 GA GA G
1 GA GA G
438951 TGTTGGGTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.48, C:0.02, G:0.48, T:0.02
Consensus pattern (2 bp):
GA
Found at i:442301 original size:10 final size:10
Alignment explanation
Indices: 442286--442384 Score: 58
Period size: 10 Copynumber: 10.8 Consensus size: 10
442276 ATAAATAAAT
442286 AAATATATTA
1 AAATATATTA
442296 AAATATA-TA
1 AAATATATTA
442305 AAAT-TA-T-
1 AAATATATTA
442312 AAAT-TATT-
1 AAATATATTA
442320 -AATATATTA
1 AAATATATTA
*
442329 AAATTTA-TA
1 AAATATATTA
442338 TAAA-ATA-TA
1 -AAATATATTA
*
442347 AAATATTTTA
1 AAATATATTA
442357 AAA-ATAATTA
1 AAATAT-ATTA
* * *
442367 TAATGTAATA
1 AAATATATTA
442377 AAATATAT
1 AAATATAT
442385 AAACATGATA
Statistics
Matches: 70, Mismatches: 10, Indels: 18
0.71 0.10 0.18
Matches are distributed among these distances:
7 9 0.13
8 11 0.16
9 16 0.23
10 33 0.47
11 1 0.01
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (10 bp):
AAATATATTA
Found at i:442329 original size:33 final size:33
Alignment explanation
Indices: 442287--442353 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
442277 TAAATAAATA
*
442287 AATATATTAAAA-TATATAAAATTATAAATTATT
1 AATATATTAAAATTATATAAAA-TATAAAATATT
442320 AATATATTAAAATTTATATAAAATATAAAATATT
1 AATATATTAAAA-TTATATAAAATATAAAATATT
442354 TTAAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
33 12 0.39
34 10 0.32
35 9 0.29
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (33 bp):
AATATATTAAAATTATATAAAATATAAAATATT
Found at i:443034 original size:22 final size:24
Alignment explanation
Indices: 443007--443056 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 24
442997 TATTTTATTA
*
443007 AATAA-TT-AAATAAATTAATAAT
1 AATAATTTAAAATAAAATAATAAT
443029 AATAATTTTAAAATAAAATAATAAT
1 AATAA-TTTAAAATAAAATAATAAT
443054 AAT
1 AAT
443057 GATTCCATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 5 0.21
24 2 0.08
25 17 0.71
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (24 bp):
AATAATTTAAAATAAAATAATAAT
Done.