Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167882.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_15, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22478863
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 61000 characters in sequence are not A, C, G, or T
File 90 of 106
Found at i:18539907 original size:22 final size:22
Alignment explanation
Indices: 18539866--18539907 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
18539856 TTTATTGAAA
**
18539866 TAAAATTAAAAAATTTAAAATT
1 TAAAATTAAAAAATCGAAAATT
*
18539888 TAAATTTAAAAAATCGAAAA
1 TAAAATTAAAAAATCGAAAA
18539908 ATCAATCAAA
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:0.64, C:0.02, G:0.02, T:0.31
Consensus pattern (22 bp):
TAAAATTAAAAAATCGAAAATT
Found at i:18547130 original size:103 final size:105
Alignment explanation
Indices: 18546943--18547147 Score: 315
Period size: 103 Copynumber: 2.0 Consensus size: 105
18546933 AAACACATAA
* ** *
18546943 GGCTTTTTGTTCACACGGTTGATGATTGCCGTTGAGCAGCAATCTGTATCTAGAATTGGCAGAAG
1 GGCTTTTTGTTCACACGGTT-ATGATTGCCATTGAGCAGCAATCTGTATAGAGAATTAGCAGAAG
18547008 ATGGGTAAATGGCCATGACAAAGAGGTAGAATTTGGAATAG
65 ATGGGTAAATGGCCATGACAAAGAGGTAGAATTTGGAATAG
* *
18547049 GGCTTTTTGTTCACACGG-T-TGATTGCCATTGTGCAGCAATCTGTGTAGAGAATTAGCAGAAGA
1 GGCTTTTTGTTCACACGGTTATGATTGCCATTGAGCAGCAATCTGTATAGAGAATTAGCAGAAGA
* *
18547112 TGGGTAAATGGCCGTGACAAAGGGGTAGAATTTGGA
66 TGGGTAAATGGCCATGACAAAGAGGTAGAATTTGGA
18547148 GGTGGATGTG
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
103 72 0.79
105 1 0.01
106 18 0.20
ACGTcount: A:0.28, C:0.13, G:0.30, T:0.28
Consensus pattern (105 bp):
GGCTTTTTGTTCACACGGTTATGATTGCCATTGAGCAGCAATCTGTATAGAGAATTAGCAGAAGA
TGGGTAAATGGCCATGACAAAGAGGTAGAATTTGGAATAG
Found at i:18550411 original size:17 final size:18
Alignment explanation
Indices: 18550378--18550416 Score: 62
Period size: 17 Copynumber: 2.2 Consensus size: 18
18550368 GATTATTATA
18550378 TTTATTATTATTATTTCT
1 TTTATTATTATTATTTCT
*
18550396 TTTATT-TTATTTTTTCT
1 TTTATTATTATTATTTCT
18550413 TTTA
1 TTTA
18550417 ATAATAAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (18 bp):
TTTATTATTATTATTTCT
Found at i:18551162 original size:34 final size:33
Alignment explanation
Indices: 18551119--18551189 Score: 79
Period size: 33 Copynumber: 2.1 Consensus size: 33
18551109 TATTTTCAAG
* *
18551119 AAATAAATTTTCGGTAGAGTTAAAAAAATTCTAA
1 AAATAAATTTTCAGTAGA-TGAAAAAAATTCTAA
* * * *
18551153 AAATGAATTTTTAGTATATGAAAAAAATTTTAA
1 AAATAAATTTTCAGTAGATGAAAAAAATTCTAA
18551186 AAAT
1 AAAT
18551190 TTATTTTTGA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
33 17 0.55
34 14 0.45
ACGTcount: A:0.52, C:0.03, G:0.10, T:0.35
Consensus pattern (33 bp):
AAATAAATTTTCAGTAGATGAAAAAAATTCTAA
Found at i:18552434 original size:2 final size:2
Alignment explanation
Indices: 18552427--18552455 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18552417 ATTTTACTCT
18552427 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
18552456 GAATTCAAGC
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:18553291 original size:2 final size:2
Alignment explanation
Indices: 18553284--18553315 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
18553274 TCTTTCATTG
18553284 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
18553316 GTCTGTGTCT
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:18553553 original size:3 final size:3
Alignment explanation
Indices: 18553535--18553593 Score: 91
Period size: 3 Copynumber: 19.7 Consensus size: 3
18553525 TTTGAGGACC
* * *
18553535 ATT ATT TTT GTT ATT ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
18553583 ATT ATT ATT AT
1 ATT ATT ATT AT
18553594 AGGAACGAGA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (3 bp):
ATT
Found at i:18554583 original size:21 final size:21
Alignment explanation
Indices: 18554540--18554584 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
18554530 ACTCATGTAG
* *
18554540 GTTAATCTTTGCAGAATGTGT
1 GTTAATCTTAGAAGAATGTGT
18554561 GTTAATCTTAGAAGAGATGGTGT
1 GTTAATCTTAGAAGA-AT-GTGT
18554584 G
1 G
18554585 GTTTTAGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 13 0.65
22 2 0.10
23 5 0.25
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.38
Consensus pattern (21 bp):
GTTAATCTTAGAAGAATGTGT
Found at i:18555880 original size:2 final size:2
Alignment explanation
Indices: 18555873--18555900 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18555863 GAGCAGGTCC
18555873 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
18555901 TTCACACACA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:18558225 original size:2 final size:2
Alignment explanation
Indices: 18558218--18558249 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
18558208 CCTTTTTCTC
18558218 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18558250 CATTCTAGCA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:18559471 original size:22 final size:22
Alignment explanation
Indices: 18559426--18559507 Score: 65
Period size: 22 Copynumber: 3.5 Consensus size: 22
18559416 ATTATAATTT
* * *
18559426 ATAATTTTAATAAAAATTATAA
1 ATAAATTTAATAAAAATAAAAA
*
18559448 ATAAATTTAATAAAACTAAAAA
1 ATAAATTTAATAAAAATAAAAA
* **
18559470 ATAAAATTTATTATTTAATAATAAA
1 AT-AAATTTAATA-AAAATAA-AAA
18559495 ATAAATTATAATA
1 ATAAATT-TAATA
18559508 TATAATTTTC
Statistics
Matches: 47, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
22 20 0.43
23 9 0.19
24 9 0.19
25 9 0.19
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAAATTTAATAAAAATAAAAA
Found at i:18559513 original size:25 final size:23
Alignment explanation
Indices: 18559446--18559513 Score: 68
Period size: 25 Copynumber: 2.9 Consensus size: 23
18559436 TAAAAATTAT
18559446 AAATAAATTTAATA-A-AACTAAA
1 AAATAAATTTAATATATAA-TAAA
* *
18559468 AAATAAAATTTATTATTTAATAATA
1 AAAT-AAATTTAATATATAATAA-A
18559493 AAATAAATTATAATATATAAT
1 AAATAAATT-TAATATATAAT
18559514 TTTCATATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
22 4 0.11
23 9 0.24
24 8 0.22
25 16 0.43
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (23 bp):
AAATAAATTTAATATATAATAAA
Found at i:18559648 original size:14 final size:14
Alignment explanation
Indices: 18559626--18559660 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
18559616 ATTTATAAAA
*
18559626 ATTAGATTTTAATT
1 ATTAAATTTTAATT
18559640 ATTAAATTTTAATT
1 ATTAAATTTTAATT
*
18559654 ATAAAAT
1 ATTAAAT
18559661 AATATAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (14 bp):
ATTAAATTTTAATT
Found at i:18560305 original size:22 final size:19
Alignment explanation
Indices: 18560277--18560321 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 19
18560267 TAAAAATTTT
18560277 AATTTTAATATATTTAATATAA
1 AATTTTAA-AT-TTT-ATATAA
*
18560299 AATTTTAAATTTTTTATAA
1 AATTTTAAATTTTATATAA
18560318 AATT
1 AATT
18560322 AAAATTTCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
19 9 0.41
20 3 0.14
21 2 0.09
22 8 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
AATTTTAAATTTTATATAA
Found at i:18560340 original size:17 final size:18
Alignment explanation
Indices: 18560295--18560340 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 18
18560285 TATATTTAAT
* *
18560295 ATAAAATTTTAAATTTTTT
1 ATAAAA-TTTAAATATTTC
18560314 ATAAAA-TTAAA-ATTTC
1 ATAAAATTTAAATATTTC
18560330 ATAAAATTTAA
1 ATAAAATTTAA
18560341 TGTCCAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 9 0.38
17 9 0.38
19 6 0.25
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (18 bp):
ATAAAATTTAAATATTTC
Found at i:18560388 original size:20 final size:21
Alignment explanation
Indices: 18560365--18560412 Score: 57
Period size: 20 Copynumber: 2.4 Consensus size: 21
18560355 AAAAATCATA
18560365 AAAAAAT-AATTTTAAACTA-T
1 AAAAAATGAATTTTAAA-TATT
*
18560385 -AAAAATGAATTTTAGATATT
1 AAAAAATGAATTTTAAATATT
18560405 AAAAAATG
1 AAAAAATG
18560413 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 8 0.33
20 9 0.38
21 7 0.29
ACGTcount: A:0.58, C:0.02, G:0.06, T:0.33
Consensus pattern (21 bp):
AAAAAATGAATTTTAAATATT
Found at i:18569910 original size:13 final size:14
Alignment explanation
Indices: 18569883--18569911 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18569873 AAAAAATTTA
18569883 TAAATATTGAAATT
1 TAAATATTGAAATT
18569897 TAAATATT-AAATT
1 TAAATATTGAAATT
18569910 TA
1 TA
18569912 CTGAATATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (14 bp):
TAAATATTGAAATT
Found at i:18572313 original size:6 final size:6
Alignment explanation
Indices: 18572277--18572310 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
18572267 ATAGCACTTA
* *
18572277 TTCTAG TTCTAG TTCTAG TTCTAG ATCTTG TTCT
1 TTCTAG TTCTAG TTCTAG TTCTAG TTCTAG TTCT
18572311 TGTACTAGCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.15, C:0.18, G:0.15, T:0.53
Consensus pattern (6 bp):
TTCTAG
Found at i:18583710 original size:22 final size:22
Alignment explanation
Indices: 18583670--18583716 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
18583660 GAATTAAAAT
*
18583670 TTTAATAAAAATAATATATAAA
1 TTTAATAAAAATAAAATATAAA
*
18583692 TTTAAT-AAAATAAAAATATATA
1 TTTAATAAAAAT-AAAATATAAA
18583714 TTT
1 TTT
18583717 TATGTTGTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAATAAAAATAAAATATAAA
Found at i:18583754 original size:13 final size:12
Alignment explanation
Indices: 18583732--18583771 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
18583722 TGTTAACATA
18583732 AATATAAATTAT
1 AATATAAATTAT
*
18583744 AATATATAATTTT
1 AATATA-AATTAT
18583757 AATATAAATATAT
1 AATATAAAT-TAT
18583770 AA
1 AA
18583772 ATTATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
AATATAAATTAT
Found at i:18583771 original size:8 final size:8
Alignment explanation
Indices: 18583758--18583805 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
18583748 TATAATTTTA
18583758 ATATAAAT
1 ATATAAAT
18583766 ATATAAAT
1 ATATAAAT
18583774 -TATAAAT
1 ATATAAAT
* *
18583781 ATTTTACAT
1 A-TATAAAT
18583790 AATATAAAT
1 -ATATAAAT
18583799 ATATAAA
1 ATATAAA
18583806 ATTTTAAATA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 7 0.21
8 15 0.45
9 10 0.30
10 1 0.03
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (8 bp):
ATATAAAT
Found at i:18583774 original size:33 final size:33
Alignment explanation
Indices: 18583680--18583818 Score: 100
Period size: 31 Copynumber: 4.3 Consensus size: 33
18583670 TTTAATAAAA
*
18583680 ATAATATATAAATTTAATA-AAATA-A-AAATAT
1 ATAATATATAATTTTAATATAAATATATAAAT-T
* * * *
18583711 ATATTTTAT-GTTGTTAACAT-AA-ATATAAATT
1 ATAATATATAATT-TTAATATAAATATATAAATT
18583742 ATAATATATAATTTTAATATAAATATATAAATT
1 ATAATATATAATTTTAATATAAATATATAAATT
18583775 ATAA-ATAT--TTTACATAATATAAATATATAAAATT
1 ATAATATATAATTT---TAATATAAATATAT-AAATT
*
18583809 TTAA-ATATAA
1 ATAATATATAA
18583819 CTAAAGTGAT
Statistics
Matches: 85, Mismatches: 10, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
30 5 0.06
31 29 0.34
32 12 0.14
33 27 0.32
34 12 0.14
ACGTcount: A:0.55, C:0.01, G:0.01, T:0.42
Consensus pattern (33 bp):
ATAATATATAATTTTAATATAAATATATAAATT
Found at i:18584388 original size:25 final size:27
Alignment explanation
Indices: 18584360--18584425 Score: 64
Period size: 27 Copynumber: 2.5 Consensus size: 27
18584350 CAGTTTGACC
*
18584360 TTTATAAC-T-AAAGAGCATTTTCAAT
1 TTTATAACTTGAAAGAGCATCTTCAAT
** *
18584385 TTTATTTCTTGAAAGAGTATCTTCAAT
1 TTTATAACTTGAAAGAGCATCTTCAAT
**
18584412 TTTATTTCTTGAAA
1 TTTATAACTTGAAA
18584426 CTATGGAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 6 0.17
26 1 0.03
27 28 0.80
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (27 bp):
TTTATAACTTGAAAGAGCATCTTCAAT
Found at i:18584400 original size:27 final size:27
Alignment explanation
Indices: 18584369--18584425 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
18584359 CTTTATAACT
*
18584369 AAAGAGCATTTTCAATTTTATTTCTTG
1 AAAGAGCATCTTCAATTTTATTTCTTG
*
18584396 AAAGAGTATCTTCAATTTTATTTCTTG
1 AAAGAGCATCTTCAATTTTATTTCTTG
18584423 AAA
1 AAA
18584426 CTATGGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (27 bp):
AAAGAGCATCTTCAATTTTATTTCTTG
Found at i:18592338 original size:21 final size:21
Alignment explanation
Indices: 18592314--18592355 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
18592304 AGAAAGTGGG
18592314 GGAGAGATGATATAAGAGGGT
1 GGAGAGATGATATAAGAGGGT
18592335 GGAGAGATGATATAAGAGGGT
1 GGAGAGATGATATAAGAGGGT
18592356 CACTGTTGCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.43, T:0.19
Consensus pattern (21 bp):
GGAGAGATGATATAAGAGGGT
Found at i:18595045 original size:19 final size:18
Alignment explanation
Indices: 18595021--18595056 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
18595011 AACATCTTAT
18595021 TAAAATAATATATAAAAAA
1 TAAAATAA-ATATAAAAAA
*
18595040 TAAAATAAATTTAAAAA
1 TAAAATAAATATAAAAA
18595057 TCGATGAATC
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (18 bp):
TAAAATAAATATAAAAAA
Found at i:18595381 original size:13 final size:12
Alignment explanation
Indices: 18595358--18595400 Score: 52
Period size: 13 Copynumber: 3.6 Consensus size: 12
18595348 TGATAATTTT
*
18595358 AAATATGATATA
1 AAATATAATATA
*
18595370 ATAATATCATATA
1 A-AATATAATATA
18595383 AAA-ATAATATA
1 AAATATAATATA
18595394 AAATATA
1 AAATATA
18595401 TCACAGTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 10 0.37
12 6 0.22
13 11 0.41
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (12 bp):
AAATATAATATA
Found at i:18601445 original size:34 final size:34
Alignment explanation
Indices: 18601402--18601528 Score: 112
Period size: 34 Copynumber: 3.7 Consensus size: 34
18601392 CGATTATTTG
**
18601402 ATTTTTCAAAAATAAATTTTAAAAAAGATTTATA
1 ATTTTTCAAAAATTTATTTTAAAAAAGATTTATA
* * *
18601436 ATTTTTCAAAAATTTATTTTCAGAAA-ATTATATG
1 ATTTTTCAAAAATTTATTTTAAAAAAGATT-TATA
* ** **
18601470 ATTTTTCAGAAATTTATTTTTGAAAAGATTTACG
1 ATTTTTCAAAAATTTATTTTAAAAAAGATTTATA
* ** *
18601504 TTTTTTTGAAAATTTTTTTTAAAAA
1 ATTTTTCAAAAATTTATTTTAAAAA
18601529 TTTGTGTGAA
Statistics
Matches: 74, Mismatches: 17, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
33 3 0.04
34 68 0.92
35 3 0.04
ACGTcount: A:0.42, C:0.04, G:0.06, T:0.48
Consensus pattern (34 bp):
ATTTTTCAAAAATTTATTTTAAAAAAGATTTATA
Found at i:18601509 original size:68 final size:66
Alignment explanation
Indices: 18601394--18601530 Score: 148
Period size: 68 Copynumber: 2.0 Consensus size: 66
18601384 AACATTTTCG
* *
18601394 ATTATTTGATTTTTCAAAAATAAATTTTAAAAAAGATTTATAATTTTTCAAAAATTTATTTTCAG
1 ATTATATGATTTTTCAAAAATAAATTTTAAAAAAGATTTACAATTTTTCAAAAATTT-TTTTCA-
18601459 AAA
64 AAA
* ** ** ** ** *
18601462 ATTATATGATTTTTCAGAAATTTATTTTTGAAAAGATTTACGTTTTTTTGAAAATTTTTTTTAAA
1 ATTATATGATTTTTCAAAAATAAATTTTAAAAAAGATTTACAATTTTTCAAAAATTTTTTTCAAA
18601527 A
66 A
18601528 ATT
1 ATT
18601531 TGTGTGAAAT
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
66 6 0.11
67 5 0.09
68 46 0.81
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.50
Consensus pattern (66 bp):
ATTATATGATTTTTCAAAAATAAATTTTAAAAAAGATTTACAATTTTTCAAAAATTTTTTTCAAA
A
Found at i:18609226 original size:21 final size:20
Alignment explanation
Indices: 18609202--18609241 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
18609192 TAGGGCCTGA
*
18609202 TCTTCATCTTCTTTCTTTTTT
1 TCTTCATCATC-TTCTTTTTT
*
18609223 TCTTCCTCATCTTCTTTTT
1 TCTTCATCATCTTCTTTTT
18609242 CATCCTTCTC
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:0.05, C:0.28, G:0.00, T:0.68
Consensus pattern (20 bp):
TCTTCATCATCTTCTTTTTT
Found at i:18613886 original size:1 final size:1
Alignment explanation
Indices: 18613880--18613905 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
18613870 ATCATGAATT
18613880 AAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAA
18613906 GTTCTCAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:18616170 original size:30 final size:30
Alignment explanation
Indices: 18616136--18616196 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
18616126 AAAAAAAAAA
* * * *
18616136 AAGCTTAGAAAATAGATGAACTTTGCTTAT
1 AAGCTAAGAAAACAGACGAACTTTACTTAT
18616166 AAGCTAAGAAAACAGACGAACTTTACTTAT
1 AAGCTAAGAAAACAGACGAACTTTACTTAT
18616196 A
1 A
18616197 TTTAAATACC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (30 bp):
AAGCTAAGAAAACAGACGAACTTTACTTAT
Found at i:18630013 original size:25 final size:24
Alignment explanation
Indices: 18629970--18630030 Score: 63
Period size: 24 Copynumber: 2.6 Consensus size: 24
18629960 TTAGTTTTTT
* * *
18629970 TATTTTTAT-ATTATATATTTATA
1 TATTTTTATAAATATATATTAAGA
*
18629993 TAATTTTTATAAATATTTATTAAGA
1 T-ATTTTTATAAATATATATTAAGA
18630018 TATTTTT-TAAATA
1 TATTTTTATAAATA
18630031 AAAATATTAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 7 0.22
24 14 0.44
25 11 0.34
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (24 bp):
TATTTTTATAAATATATATTAAGA
Found at i:18630050 original size:23 final size:24
Alignment explanation
Indices: 18630027--18630091 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
18630017 ATATTTTTTA
18630027 AATAAAAATATTAA-TTATA-ATT
1 AATAAAAATATTAATTTATATATT
*
18630049 AATATAAAATAATAATTTATATTATTT
1 AATA-AAAATATTAATTTATA-TA-TT
18630076 AATAAAAA-ATT-ATTTA
1 AATAAAAATATTAATTTA
18630092 CTAAATATAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
22 4 0.11
23 9 0.25
24 10 0.28
25 2 0.06
26 5 0.14
27 6 0.17
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AATAAAAATATTAATTTATATATT
Found at i:18630077 original size:50 final size:52
Alignment explanation
Indices: 18630017--18630120 Score: 126
Period size: 50 Copynumber: 2.0 Consensus size: 52
18630007 ATTTATTAAG
* *
18630017 ATATTTTTTAAATAAAAATATTAATTA-TAATTA-ATATAAA-ATA-ATAATTT
1 ATATTATTT-AATAAAAA-ATTAATTACTAAATATATATAAATATATATAATTT
* *
18630067 ATATTATTTAATAAAAAATTATTTACTAAATATATATAAATATATATAGTTT
1 ATATTATTTAATAAAAAATTAATTACTAAATATATATAAATATATATAATTT
18630119 AT
1 AT
18630121 GGATATGAGA
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
48 7 0.15
49 13 0.28
50 15 0.33
51 3 0.07
52 8 0.17
ACGTcount: A:0.52, C:0.01, G:0.01, T:0.46
Consensus pattern (52 bp):
ATATTATTTAATAAAAAATTAATTACTAAATATATATAAATATATATAATTT
Found at i:18630090 original size:24 final size:24
Alignment explanation
Indices: 18630017--18630091 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 24
18630007 ATTTATTAAG
* *
18630017 ATATTTTTTAAATAAAAATATTAATT
1 ATATTATTT-AATAAAAA-ATTATTT
* *
18630043 ATA--ATTAATATAAAATAATAATTT
1 ATATTATTTA-ATAAAA-AATTATTT
18630067 ATATTATTTAATAAAAAATTATTT
1 ATATTATTTAATAAAAAATTATTT
18630091 A
1 A
18630092 CTAAATATAT
Statistics
Matches: 39, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
23 1 0.03
24 24 0.62
25 7 0.18
26 7 0.18
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (24 bp):
ATATTATTTAATAAAAAATTATTT
Found at i:18630679 original size:13 final size:12
Alignment explanation
Indices: 18630652--18630709 Score: 73
Period size: 13 Copynumber: 4.8 Consensus size: 12
18630642 AATAAATTTG
*
18630652 ATAATTTAAAAT
1 ATAATATAAAAT
18630664 ATAATATAATAAT
1 ATAATATAA-AAT
18630677 ATAATATAAATAT
1 ATAATATAAA-AT
*
18630690 AAAATATAAAA-
1 ATAATATAAAAT
18630701 ATAATATAA
1 ATAATATAA
18630710 TTTAAAATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
11 8 0.20
12 10 0.24
13 23 0.56
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
ATAATATAAAAT
Found at i:18630687 original size:24 final size:23
Alignment explanation
Indices: 18630660--18630709 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 23
18630650 TGATAATTTA
18630660 AAATAT-AATATAATAATATAATAT
1 AAATATAAATATAA-AA-ATAATAT
18630684 AAATATAAAATATAAAAATAATAT
1 AAATAT-AAATATAAAAATAATAT
18630708 AA
1 AA
18630710 TTTAAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 15 0.62
25 2 0.08
26 7 0.29
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (23 bp):
AAATATAAATATAAAAATAATAT
Found at i:18630734 original size:10 final size:10
Alignment explanation
Indices: 18630721--18630762 Score: 52
Period size: 10 Copynumber: 4.2 Consensus size: 10
18630711 TTAAAATTTT
18630721 TAAAAAATTA
1 TAAAAAATTA
18630731 TAAATAAATT-
1 TAAA-AAATTA
18630741 TAATAAAATTA
1 TAA-AAAATTA
18630752 -AAAAAATTA
1 TAAAAAATTA
18630761 TA
1 TA
18630763 TTTTATATTT
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
9 7 0.25
10 15 0.54
11 6 0.21
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
TAAAAAATTA
Found at i:18633143 original size:2 final size:2
Alignment explanation
Indices: 18633136--18633178 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
18633126 TAACTTTGAC
18633136 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
18633178 T
1 T
18633179 TACAATATGT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18633944 original size:23 final size:26
Alignment explanation
Indices: 18633899--18633953 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 26
18633889 TTATTATTAA
18633899 AATTTTAAAATTTTATAACATTAAAT
1 AATTTTAAAATTTTATAACATTAAAT
18633925 ATATTTT-AAA-TTTA-AA-ATTAAAT
1 A-ATTTTAAAATTTTATAACATTAAAT
18633948 AATTTT
1 AATTTT
18633954 TTAATATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
22 5 0.18
23 8 0.29
24 2 0.07
25 4 0.14
26 4 0.14
27 5 0.18
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (26 bp):
AATTTTAAAATTTTATAACATTAAAT
Found at i:18635149 original size:17 final size:18
Alignment explanation
Indices: 18635110--18635152 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
18635100 TTTATAAGAA
*
18635110 TATATTAATGTAAAATAT
1 TATATTAATGCAAAATAT
*
18635128 T-TATTAAT-CAAAATTT
1 TATATTAATGCAAAATAT
18635144 TATATTAAT
1 TATATTAAT
18635153 TTTATTTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 7 0.32
17 14 0.64
18 1 0.05
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (18 bp):
TATATTAATGCAAAATAT
Found at i:18635679 original size:14 final size:14
Alignment explanation
Indices: 18635660--18635695 Score: 51
Period size: 12 Copynumber: 2.8 Consensus size: 14
18635650 TTATGATTAG
18635660 TTTAAAATTTATAA
1 TTTAAAATTTATAA
18635674 TTTAAAA-TT-TAA
1 TTTAAAATTTATAA
18635686 TTT-AAATTTA
1 TTTAAAATTTA
18635696 ATCGAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
11 3 0.15
12 8 0.40
13 2 0.10
14 7 0.35
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TTTAAAATTTATAA
Found at i:18638796 original size:25 final size:25
Alignment explanation
Indices: 18638752--18638799 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
18638742 ATGTGATATT
* * *
18638752 AAAAATATTTATAATTTTTTTTTTA
1 AAAAATATCTAGAATCTTTTTTTTA
18638777 AAAAATATCTAGAATCTTTTTTT
1 AAAAATATCTAGAATCTTTTTTT
18638800 GTTCAACAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (25 bp):
AAAAATATCTAGAATCTTTTTTTTA
Found at i:18639381 original size:11 final size:11
Alignment explanation
Indices: 18639365--18639406 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
18639355 TTAGTATAAA
18639365 ATTTAAATTTT
1 ATTTAAATTTT
18639376 ATTT-AATTATT
1 ATTTAAATT-TT
*
18639387 A-TTAAATTAT
1 ATTTAAATTTT
18639397 ATTTAAATTT
1 ATTTAAATTT
18639407 GAATAATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
ATTTAAATTTT
Found at i:18639475 original size:8 final size:8
Alignment explanation
Indices: 18639462--18639515 Score: 58
Period size: 8 Copynumber: 6.6 Consensus size: 8
18639452 TTGATTTGAA
18639462 TAATTTTT
1 TAATTTTT
*
18639470 TAATTTAAT
1 TAATTT-TT
18639479 TATATTTTT
1 TA-ATTTTT
18639488 TAA-TTTT
1 TAATTTTT
18639495 TAATTTTT
1 TAATTTTT
18639503 T-ATTATTT
1 TAATT-TTT
18639511 TAATT
1 TAATT
18639516 AAAAAATTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
7 10 0.26
8 16 0.41
9 9 0.23
10 4 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TAATTTTT
Found at i:18639494 original size:25 final size:23
Alignment explanation
Indices: 18639466--18639515 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 23
18639456 TTTGAATAAT
18639466 TTTTTAATTTAATTATATT-TTTTAA
1 TTTTTAATTT--TT-TATTATTTTAA
18639491 TTTTTAATTTTTTATTATTTTAA
1 TTTTTAATTTTTTATTATTTTAA
18639514 TT
1 TT
18639516 AAAAAATTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.17
23 10 0.42
25 10 0.42
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TTTTTAATTTTTTATTATTTTAA
Found at i:18639511 original size:16 final size:15
Alignment explanation
Indices: 18639462--18639515 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 15
18639452 TTGATTTGAA
18639462 TAATTTTTTAATTTAAT
1 TAATTTTTTAATTT--T
18639479 TATATTTTTTAATTTT
1 TA-ATTTTTTAATTTT
*
18639495 TAATTTTTTATTATTT
1 TAATTTTTTAAT-TTT
18639511 TAATT
1 TAATT
18639516 AAAAAATTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
15 9 0.26
16 11 0.32
17 2 0.06
18 12 0.35
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TAATTTTTTAATTTT
Found at i:18639717 original size:11 final size:11
Alignment explanation
Indices: 18639692--18639742 Score: 59
Period size: 12 Copynumber: 4.5 Consensus size: 11
18639682 TTAAAATTTA
18639692 AAATTT-AATC
1 AAATTTAAATC
*
18639702 GAATTTAAATC
1 AAATTTAAATC
*
18639713 AAATTTTAAATT
1 AAA-TTTAAATC
18639725 AAATTTAAACTC
1 AAATTTAAA-TC
18639737 AAATTT
1 AAATTT
18639743 TTTAATGTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
10 5 0.15
11 12 0.35
12 17 0.50
ACGTcount: A:0.49, C:0.08, G:0.02, T:0.41
Consensus pattern (11 bp):
AAATTTAAATC
Found at i:18641535 original size:21 final size:21
Alignment explanation
Indices: 18641508--18641550 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
18641498 ATTAATTTTG
*
18641508 TTATTTTAATAA-TTAAAAAT
1 TTATTTTTATAATTTAAAAAT
*
18641528 TTATTTTTATAATTTTAAAAT
1 TTATTTTTATAATTTAAAAAT
18641549 TT
1 TT
18641551 TTAAAAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
TTATTTTTATAATTTAAAAAT
Found at i:18643245 original size:19 final size:20
Alignment explanation
Indices: 18643199--18643245 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
18643189 ATGTTTATAA
*
18643199 TTTAAATTTGTACTCTTTAC
1 TTTAAATTTGTACTCATTAC
* * *
18643219 TTTTAATTTTTA-TCATTGC
1 TTTAAATTTGTACTCATTAC
18643238 TTTAAATT
1 TTTAAATT
18643246 ATGATCAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.26, C:0.11, G:0.04, T:0.60
Consensus pattern (20 bp):
TTTAAATTTGTACTCATTAC
Found at i:18645123 original size:2 final size:2
Alignment explanation
Indices: 18645116--18645141 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
18645106 GCCGTGCGAA
18645116 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
18645142 GCCAAAGGTA
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:18647856 original size:2 final size:2
Alignment explanation
Indices: 18647849--18647893 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
18647839 TAGTTGTGGT
18647849 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
18647891 TA T
1 TA T
18647894 GCAATGGAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18648839 original size:18 final size:19
Alignment explanation
Indices: 18648813--18648852 Score: 55
Period size: 18 Copynumber: 2.1 Consensus size: 19
18648803 TCAAATCTAC
*
18648813 AGTTTTTTATAA-TATAAA
1 AGTTCTTTATAACTATAAA
18648831 AGTTCTTTATAACTTATAAA
1 AGTTCTTTATAAC-TATAAA
18648851 AG
1 AG
18648853 AAAAGGAAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 11 0.58
20 8 0.42
ACGTcount: A:0.42, C:0.05, G:0.07, T:0.45
Consensus pattern (19 bp):
AGTTCTTTATAACTATAAA
Found at i:18654240 original size:28 final size:28
Alignment explanation
Indices: 18654200--18654253 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
18654190 GCAACTATTC
*
18654200 TAAGATAAAACAGTATTATGTCTTTACA
1 TAAGATAAAACAGTAATATGTCTTTACA
18654228 TAAGATAAAACAGTAATATGTCTTTA
1 TAAGATAAAACAGTAATATGTCTTTA
18654254 GGAGCTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.35
Consensus pattern (28 bp):
TAAGATAAAACAGTAATATGTCTTTACA
Found at i:18655081 original size:233 final size:234
Alignment explanation
Indices: 18654668--18655613 Score: 1039
Period size: 233 Copynumber: 4.0 Consensus size: 234
18654658 ATGAAATTTC
* * * * * *
18654668 TTTCTCTTATATATCA-CTTCATCTCGATTTAAAATCAATTTTAAAGTAATTTATCTTTTTCAAT
1 TTTCTCTTATATATAATCATCATCTCAATTTAAAATTAATTTTAAAATAATTTATTTTTTTCAAT
* *
18654732 TTATCTAAAATTAACATGAGTATTTAAATTTATCACAACTTTGAAAAATATTATTTAATATCTTT
66 TTATCTACAATTAACATGAGTATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTT
* * *
18654797 AATAATTTTTTATAAATAATCATTATATTATCTTTAGCTTTTAAATATATTTCACAAAGGAAATG
131 AAT-ATTTTTTATAAATAATCATTACATTATC-TTAACTTTTAAATATATTTCACAAAGGAAATA
18654862 TGAAAAAAA-A-ATATAAATA-CGAAAACAACTTCAGGAAAG
194 TGAAAAAAATATATATAAATATC-AAAACAACTTCAGGAAAG
*
18654901 TTTCTCTTATATATAATC-TCATCTTAATTTAAAATTAATTTTAAAATAATTTATTTTTTTTCAA
1 TTTCTCTTATATATAATCATCATCTCAATTTAAAATTAATTTTAAAATAATTTA-TTTTTTTCAA
* *
18654965 TTTATTTACAGTTAACATGAGTATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTT
65 TTTATCTACAATTAACATGAGTATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTT
* * * * *
18655030 TAATATTTTTGATAAATAATCATTGCATTATCTTCAACTTTTGAATATATTTTACAAATGAAATA
130 TAATATTTTTTATAAATAATCATTACATTATCTT-AACTTTTAAATATATTTCACAAAGGAAATA
18655095 TGAAAAAAAATATATTTATAAATATCAAAACAACTTCAGGAAAG
194 TG-AAAAAAATATA--TATAAATATCAAAACAACTTCAGGAAAG
* * * * * * *
18655139 TTTATCCTATGTATCA-CCTCATTTCAACTTAAAATTAATTTTAAAATAATTTATTTTTTTCAAT
1 TTTCTCTTATATATAATCATCATCTCAATTTAAAATTAATTTTAAAATAATTTATTTTTTTCAAT
** * * * *
18655203 TTATCTGTAGTTAACATGAGTATTTAAATTTATTATAATTTTTAAAAATATTATTTAATATCTTT
66 TTATCTACAATTAACATGAGTATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTT
* ** *
18655268 AATATTTTTTATAAATAATCCTTACA-T-T-TTGGCTTTTAAATATATTTCACAAAGGAAATGTG
131 AATATTTTTTATAAATAATCATTACATTATCTTAACTTTTAAATATATTTCACAAAGGAAATATG
* * * *
18655330 AAAAAATATATATATAAATACCAAAACAACTTCCGAAAAA
196 AAAAAA-ATATATATAAATATCAAAACAACTTCAGGAAAG
** * *
18655370 TTTCTCTTATACATCAAGCTTTTTTTGTATATCACATCATCTCAATTTAAAGCTAAGTTTAAACT
1 TTTCTCTTAT--AT--A----------TA-AT--CATCATCTCAATTTAAAATTAATTTTAAAAT
* *
18655435 AATTTTATCTTTTTT-AATTTATTTACAATTAACATGAGTATTTAAATTTATCACAAATTTTAAA
49 AA-TTTAT-TTTTTTCAATTTATCTACAATTAACATGAGTATTTAAATTTATCACAACTTTTAAA
* *
18655499 AAAATTATTTAATATCTTT-A-A-----TA-AAATAATCATTGCATTATCGTTAACTTTTAAATA
112 AATATTATTTAATATCTTTAATATTTTTTATAAATAATCATTACATTATC-TTAACTTTTAAATA
* * *
18655556 TATTTCATAAAGAAAATAT-AAAAAAATATATATAAATATCAAAACAACTTCAAGAAAG
176 TATTTCACAAAGGAAATATGAAAAAAATATATATAAATATCAAAACAACTTCAGGAAAG
18655614 CCATTATTGT
Statistics
Matches: 603, Mismatches: 75, Indels: 59
0.82 0.10 0.08
Matches are distributed among these distances:
231 32 0.05
232 8 0.01
233 130 0.22
234 84 0.14
235 3 0.00
236 2 0.00
237 94 0.16
238 70 0.12
239 1 0.00
242 12 0.02
243 3 0.00
244 29 0.05
245 7 0.01
246 29 0.05
248 1 0.00
249 27 0.04
250 65 0.11
251 6 0.01
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.43
Consensus pattern (234 bp):
TTTCTCTTATATATAATCATCATCTCAATTTAAAATTAATTTTAAAATAATTTATTTTTTTCAAT
TTATCTACAATTAACATGAGTATTTAAATTTATCACAACTTTTAAAAATATTATTTAATATCTTT
AATATTTTTTATAAATAATCATTACATTATCTTAACTTTTAAATATATTTCACAAAGGAAATATG
AAAAAAATATATATAAATATCAAAACAACTTCAGGAAAG
Found at i:18658353 original size:19 final size:18
Alignment explanation
Indices: 18658308--18658368 Score: 70
Period size: 17 Copynumber: 3.3 Consensus size: 18
18658298 TTTGTTAATT
*
18658308 TTTTAATTAAAATTT-TA
1 TTTTAATTATAATTTATA
*
18658325 TTTTTATTATAATTTGATA
1 TTTTAATTATAATTT-ATA
18658344 TTTTAATTATATTATTTATA
1 TTTTAATTATA--ATTTATA
18658364 TTTTA
1 TTTTA
18658369 GATATATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
17 13 0.35
19 12 0.32
20 8 0.22
21 4 0.11
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (18 bp):
TTTTAATTATAATTTATA
Found at i:18658374 original size:20 final size:21
Alignment explanation
Indices: 18658323--18658376 Score: 62
Period size: 20 Copynumber: 2.7 Consensus size: 21
18658313 ATTAAAATTT
*
18658323 TATTTTTATTATA--ATTTGA
1 TATTTTAATTATATTATTTGA
18658342 TATTTTAATTATATTATTT-A
1 TATTTTAATTATATTATTTGA
18658362 TATTTTAGA-TATATT
1 TATTTTA-ATTATATT
18658377 TTGAATATGT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
19 12 0.39
20 14 0.45
21 5 0.16
ACGTcount: A:0.33, C:0.00, G:0.04, T:0.63
Consensus pattern (21 bp):
TATTTTAATTATATTATTTGA
Found at i:18658380 original size:39 final size:36
Alignment explanation
Indices: 18658308--18658380 Score: 83
Period size: 36 Copynumber: 1.9 Consensus size: 36
18658298 TTTGTTAATT
*
18658308 TTTTAATTAAAATTTTATTTTTATTATAATTTGATA
1 TTTTAATTAAAATTTTATTTTTAATATAATTTGATA
* * *
18658344 TTTTAATTATATTATTTATATTTTAGATATATTTTGA
1 TTTTAATTAAAAT-TTTAT-TTTTA-ATATAATTTGA
18658381 ATATGTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
36 11 0.37
37 5 0.17
38 5 0.17
39 9 0.30
ACGTcount: A:0.34, C:0.00, G:0.04, T:0.62
Consensus pattern (36 bp):
TTTTAATTAAAATTTTATTTTTAATATAATTTGATA
Found at i:18658384 original size:20 final size:19
Alignment explanation
Indices: 18658323--18658380 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 19
18658313 ATTAAAATTT
* *
18658323 TATTTTTATTATAATTTGA
1 TATTTTAATTATATTTTGA
*
18658342 TATTTTAATTATATTATTTA
1 TATTTTAATTATATT-TTGA
18658362 TATTTTAGA-TATATTTTGA
1 TATTTTA-ATTATATTTTGA
18658381 ATATGTAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
19 16 0.48
20 16 0.48
21 1 0.03
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (19 bp):
TATTTTAATTATATTTTGA
Found at i:18664748 original size:15 final size:14
Alignment explanation
Indices: 18664725--18664772 Score: 51
Period size: 15 Copynumber: 3.3 Consensus size: 14
18664715 TCATAAACAA
*
18664725 TAAACAAATTATAAT
1 TAAATAAATT-TAAT
*
18664740 TAAATAAATTTAAA
1 TAAATAAATTTAAT
*
18664754 CAAATAAATCTTAAT
1 TAAATAAAT-TTAAT
18664769 TAAA
1 TAAA
18664773 CTTAAATGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 11 0.41
15 16 0.59
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.33
Consensus pattern (14 bp):
TAAATAAATTTAAT
Found at i:18669760 original size:18 final size:18
Alignment explanation
Indices: 18669737--18669781 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
18669727 TAATATTATA
18669737 AAATTTAAAATTTAATTT
1 AAATTTAAAATTTAATTT
18669755 AAATTTAAAATTTAATTT
1 AAATTTAAAATTTAATTT
18669773 AAATTTAAA
1 AAATTTAAA
18669782 TTAAATTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTTAAAATTTAATTT
Found at i:18669761 original size:6 final size:6
Alignment explanation
Indices: 18669737--18669789 Score: 67
Period size: 5 Copynumber: 9.0 Consensus size: 6
18669727 TAATATTATA
18669737 AAATTT AAAATTT -AATTT AAATTT AAAATTT -AATTT AAATTT AAA-TT
1 AAATTT -AAATTT AAATTT AAATTT -AAATTT AAATTT AAATTT AAATTT
18669784 AAATTT
1 AAATTT
18669790 TTATTTGATT
Statistics
Matches: 42, Mismatches: 0, Indels: 9
0.82 0.00 0.18
Matches are distributed among these distances:
5 15 0.36
6 15 0.36
7 12 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
AAATTT
Found at i:18669895 original size:13 final size:13
Alignment explanation
Indices: 18669879--18669917 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
18669869 TTAAAATTTT
18669879 ATTTTAATATAAA
1 ATTTTAATATAAA
18669892 ATTTTAATAT---
1 ATTTTAATATAAA
18669902 ATTTTAATATAAA
1 ATTTTAATATAAA
18669915 ATT
1 ATT
18669918 ATTATTTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
10 10 0.43
13 13 0.57
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (13 bp):
ATTTTAATATAAA
Found at i:18669938 original size:23 final size:23
Alignment explanation
Indices: 18669874--18669941 Score: 86
Period size: 23 Copynumber: 3.0 Consensus size: 23
18669864 AATTTTTAAA
18669874 ATTTTATTTTAATATAAAATTTT
1 ATTTTATTTTAATATAAAATTTT
* *
18669897 AATATATTTTAATATAAAATTATT
1 ATTTTATTTTAATATAAAATT-TT
18669921 ATTTTTATTTT-ATA-AAAATTT
1 A-TTTTATTTTAATATAAAATTT
18669942 AAAAATATAT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
22 1 0.03
23 25 0.64
24 6 0.15
25 7 0.18
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTTATTTTAATATAAAATTTT
Found at i:18669954 original size:18 final size:18
Alignment explanation
Indices: 18669931--18669971 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
18669921 ATTTTTATTT
*
18669931 TATAAAAATTTAAAAATA
1 TATAAAAATTAAAAAATA
18669949 TATAAAAATTAAAAAATA
1 TATAAAAATTAAAAAATA
18669967 TATAA
1 TATAA
18669972 TTCGGTTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
TATAAAAATTAAAAAATA
Found at i:18678544 original size:15 final size:15
Alignment explanation
Indices: 18678520--18678596 Score: 56
Period size: 14 Copynumber: 5.3 Consensus size: 15
18678510 ATGTGCATAA
18678520 ATAA-TAAATAAATT
1 ATAATTAAATAAATT
18678534 ATAATTAAATAAATT
1 ATAATTAAATAAATT
* *
18678549 A-AAATAAACAAATT
1 ATAATTAAATAAATT
* *
18678563 TTAAATTAACAGAAA-T
1 AT-AATTAA-ATAAATT
18678579 A-AATTTAAATAAA-T
1 ATAA-TTAAATAAATT
18678593 ATAA
1 ATAA
18678597 ACAAATTTTA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
14 23 0.46
15 17 0.34
16 6 0.12
17 4 0.08
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.32
Consensus pattern (15 bp):
ATAATTAAATAAATT
Found at i:18678567 original size:21 final size:21
Alignment explanation
Indices: 18678543--18678608 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
18678533 TATAATTAAA
18678543 TAAATTAAAATAAACAAATTT
1 TAAATTAAAATAAACAAATTT
* * *
18678564 TAAATTAACAGAAATAAA-TT
1 TAAATTAAAATAAACAAATTT
18678584 TAAA-TAAATATAAACAAATTT
1 TAAATTAAA-ATAAACAAATTT
18678605 TAAA
1 TAAA
18678609 ATATGATTAA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
19 3 0.08
20 13 0.35
21 21 0.57
ACGTcount: A:0.62, C:0.05, G:0.02, T:0.32
Consensus pattern (21 bp):
TAAATTAAAATAAACAAATTT
Found at i:18683075 original size:19 final size:19
Alignment explanation
Indices: 18683051--18683093 Score: 86
Period size: 19 Copynumber: 2.3 Consensus size: 19
18683041 AATTGAAATG
18683051 GGCAATGACAATGATGAAA
1 GGCAATGACAATGATGAAA
18683070 GGCAATGACAATGATGAAA
1 GGCAATGACAATGATGAAA
18683089 GGCAA
1 GGCAA
18683094 GGCATTGATA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.47, C:0.12, G:0.28, T:0.14
Consensus pattern (19 bp):
GGCAATGACAATGATGAAA
Found at i:18687575 original size:13 final size:13
Alignment explanation
Indices: 18687556--18687601 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
18687546 ATTTGATTCG
18687556 AATTTAATATATA
1 AATTTAATATATA
* *
18687569 TATTTAATATTTA
1 AATTTAATATATA
18687582 AATTTAAT-T-TA
1 AATTTAATATATA
*
18687593 AATTAAATA
1 AATTTAATA
18687602 AAAAAAATTC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
11 9 0.32
12 1 0.04
13 18 0.64
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
AATTTAATATATA
Found at i:18687636 original size:20 final size:20
Alignment explanation
Indices: 18687587--18687636 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
18687577 ATTTAAATTT
18687587 AATTT-AAATTAAATAAAAA
1 AATTTCAAATTAAATAAAAA
* * * *
18687606 AAATTCGAATTAAATCAAAC
1 AATTTCAAATTAAATAAAAA
18687626 AATTTCAAATT
1 AATTTCAAATT
18687637 GATTTTTAGA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.32
Consensus pattern (20 bp):
AATTTCAAATTAAATAAAAA
Found at i:18689863 original size:21 final size:21
Alignment explanation
Indices: 18689837--18689879 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
18689827 TTTACAAACT
18689837 TGGTATTATCACGTGTGATAA
1 TGGTATTATCACGTGTGATAA
18689858 TGGTATTATCACGTGTGATAA
1 TGGTATTATCACGTGTGATAA
18689879 T
1 T
18689880 AATGCCATTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (21 bp):
TGGTATTATCACGTGTGATAA
Found at i:18692486 original size:16 final size:16
Alignment explanation
Indices: 18692461--18692494 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
18692451 ACCAATAATA
18692461 ATGATAATTTATGATG
1 ATGATAATTTATGATG
* *
18692477 ATGATGATTTGTGATG
1 ATGATAATTTATGATG
18692493 AT
1 AT
18692495 TTTTAATGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.44
Consensus pattern (16 bp):
ATGATAATTTATGATG
Found at i:18694564 original size:16 final size:16
Alignment explanation
Indices: 18694543--18694597 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 16
18694533 TCATGTGTTT
18694543 TATTTATTTAAAAAAA
1 TATTTATTTAAAAAAA
*
18694559 TATTTA--TAATAAAA
1 TATTTATTTAAAAAAA
*
18694573 TATTCATATTTAAAAAAT
1 TATT--TATTTAAAAAAA
18694591 TATTTAT
1 TATTTAT
18694598 ATGATAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
14 11 0.34
16 11 0.34
18 10 0.31
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TATTTATTTAAAAAAA
Found at i:18696073 original size:19 final size:18
Alignment explanation
Indices: 18696049--18696090 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
18696039 CTTAGAAGTT
18696049 TAAATTTAAATTTAAGATA
1 TAAATTTAAATTTAA-ATA
* *
18696068 TAAATTTAGATTTCAATA
1 TAAATTTAAATTTAAATA
18696086 TAAAT
1 TAAAT
18696091 ACCCTCATCG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.38
19 13 0.62
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (18 bp):
TAAATTTAAATTTAAATA
Found at i:18708338 original size:33 final size:33
Alignment explanation
Indices: 18708301--18708370 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
18708291 ACCACGTACT
*
18708301 TAATCTAGTTAAACTGCATACTGCTAGTCTGTA
1 TAATCTAGTTAAACTGCATACTGCTAATCTGTA
18708334 TAATCTAGTTAAACTGCATACTGCTAATCTGTA
1 TAATCTAGTTAAACTGCATACTGCTAATCTGTA
18708367 TAAT
1 TAAT
18708371 GTTCCTATCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (33 bp):
TAATCTAGTTAAACTGCATACTGCTAATCTGTA
Found at i:18713586 original size:2 final size:2
Alignment explanation
Indices: 18713579--18713619 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
18713569 TCCTTTCTCT
18713579 TA TA TA TA 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 TA TA TA TA T
18713620 TTTTTTGTTG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18716088 original size:2 final size:2
Alignment explanation
Indices: 18716083--18716107 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
18716073 ACAAGGTGCT
18716083 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
18716108 GGATAGCTAA
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:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:18721078 original size:2 final size:2
Alignment explanation
Indices: 18721071--18721105 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
18721061 CCGATTTCTT
18721071 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18721106 ATTTTTAAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18721928 original size:24 final size:24
Alignment explanation
Indices: 18721877--18721930 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
18721867 CTGTATGTCG
* * * *
18721877 TAGATCTCCATTACCCATGTGCCG
1 TAGATCTCCATCACCCATGCGACA
*
18721901 TAGATCTCCATCACCCTTGCGACA
1 TAGATCTCCATCACCCATGCGACA
18721925 TAGATC
1 TAGATC
18721931 ACCTCATATG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.33, G:0.15, T:0.28
Consensus pattern (24 bp):
TAGATCTCCATCACCCATGCGACA
Found at i:18729371 original size:2 final size:2
Alignment explanation
Indices: 18729364--18729397 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
18729354 ATTATGTTTC
*
18729364 AT AT AT AT AA 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
18729398 TATTTTGGCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:18734650 original size:62 final size:62
Alignment explanation
Indices: 18734573--18734734 Score: 279
Period size: 62 Copynumber: 2.6 Consensus size: 62
18734563 TTAAGAGTGA
**
18734573 CAATGTCAAATTATCAAATTGACAAATTCTTATTTCCATATTAATTACTAAATAGGAATTTC
1 CAATGTCAAATTATCAAATTGACAAATTCCCATTTCCATATTAATTACTAAATAGGAATTTC
* * *
18734635 CAATGTCAAGTTATCAAATTGACAAATTCCCATTTCCATATTAATTACTAATTAGGAATTTT
1 CAATGTCAAATTATCAAATTGACAAATTCCCATTTCCATATTAATTACTAAATAGGAATTTC
18734697 CAATGTCAAATTATCAAATTGACAAATTCCCATTTCCA
1 CAATGTCAAATTATCAAATTGACAAATTCCCATTTCCA
18734735 AATCGAATTT
Statistics
Matches: 94, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
62 94 1.00
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (62 bp):
CAATGTCAAATTATCAAATTGACAAATTCCCATTTCCATATTAATTACTAAATAGGAATTTC
Found at i:18734751 original size:49 final size:49
Alignment explanation
Indices: 18734690--18734786 Score: 194
Period size: 49 Copynumber: 2.0 Consensus size: 49
18734680 TACTAATTAG
18734690 GAATTTTCAATGTCAAATTATCAAATTGACAAATTCCCATTTCCAAATC
1 GAATTTTCAATGTCAAATTATCAAATTGACAAATTCCCATTTCCAAATC
18734739 GAATTTTCAATGTCAAATTATCAAATTGACAAATTCCCATTTCCAAAT
1 GAATTTTCAATGTCAAATTATCAAATTGACAAATTCCCATTTCCAAAT
18734787 TAATTACTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.39, C:0.20, G:0.06, T:0.35
Consensus pattern (49 bp):
GAATTTTCAATGTCAAATTATCAAATTGACAAATTCCCATTTCCAAATC
Found at i:18735173 original size:2 final size:2
Alignment explanation
Indices: 18735166--18735200 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
18735156 TCTACAAGAT
*
18735166 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
18735201 CCAGACTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
TA
Found at i:18738629 original size:22 final size:22
Alignment explanation
Indices: 18738599--18738644 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
18738589 TAATCCGTCG
* *
18738599 AACATGCACTAACCTACAACCA
1 AACACGCACTAAACTACAACCA
18738621 AACACGCACTAAACTACAACCA
1 AACACGCACTAAACTACAACCA
18738643 AA
1 AA
18738645 TTTCCCTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.35, G:0.04, T:0.11
Consensus pattern (22 bp):
AACACGCACTAAACTACAACCA
Found at i:18743978 original size:22 final size:21
Alignment explanation
Indices: 18743944--18743989 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 21
18743934 TTTATTTGAT
18743944 AAAAAATTGATTGATCAATAA
1 AAAAAATTGATTGATCAATAA
*
18743965 AAAATAATTTATTGATCAATAA
1 AAAA-AATTGATTGATCAATAA
18743987 AAA
1 AAA
18743990 TAAGATTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 4 0.17
22 19 0.83
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (21 bp):
AAAAAATTGATTGATCAATAA
Found at i:18744161 original size:11 final size:13
Alignment explanation
Indices: 18744145--18744237 Score: 79
Period size: 13 Copynumber: 7.2 Consensus size: 13
18744135 TATGAACAAA
18744145 TAATAT-AT-TAT
1 TAATATAATATAT
18744156 TAATATAATATAT
1 TAATATAATATAT
18744169 TAATAAATAATATAT
1 TAAT--ATAATATAT
*
18744184 TAATATATTA-AT
1 TAATATAATATAT
*
18744196 AAATAGT-ATACTAT
1 TAATA-TAATA-TAT
*
18744210 TAATGTAATATAT
1 TAATATAATATAT
18744223 TAATA-AATAATAT
1 TAATATAAT-ATAT
18744236 TA
1 TA
18744238 TAAAGAATAA
Statistics
Matches: 67, Mismatches: 6, Indels: 16
0.75 0.07 0.18
Matches are distributed among these distances:
11 6 0.09
12 13 0.19
13 27 0.40
14 8 0.12
15 13 0.19
ACGTcount: A:0.53, C:0.01, G:0.02, T:0.44
Consensus pattern (13 bp):
TAATATAATATAT
Found at i:18744177 original size:31 final size:29
Alignment explanation
Indices: 18744133--18744235 Score: 101
Period size: 31 Copynumber: 3.6 Consensus size: 29
18744123 TAAATAATAT
* *
18744133 TATATGAACAAATAATATATTATTAATATAA
1 TATATTAATAAATAATATA-TATTAAT-TAA
18744164 TATATTAAT--A-AATA-ATA-T-ATTAA
1 TATATTAATAAATAATATATATTAATTAA
*
18744187 TATATTAATAAATAGTATACTATTAATGTAA
1 TATATTAATAAATAATATA-TATTAAT-TAA
18744218 TATATTAATAAATAATAT
1 TATATTAATAAATAATAT
18744236 TATAAAGAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 16
0.75 0.05 0.20
Matches are distributed among these distances:
23 12 0.20
24 2 0.03
25 2 0.03
26 5 0.08
27 2 0.03
28 6 0.10
29 2 0.03
30 2 0.03
31 27 0.45
ACGTcount: A:0.53, C:0.02, G:0.03, T:0.42
Consensus pattern (29 bp):
TATATTAATAAATAATATATATTAATTAA
Found at i:18744190 original size:23 final size:23
Alignment explanation
Indices: 18744161--18744205 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
18744151 ATTATTAATA
18744161 TAATATATTAATAAATAATATAT
1 TAATATATTAATAAATAATATAT
*
18744184 TAATATATTAATAAATAGTATA
1 TAATATATTAATAAATAATATA
18744206 CTATTAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (23 bp):
TAATATATTAATAAATAATATAT
Found at i:18744211 original size:54 final size:54
Alignment explanation
Indices: 18744111--18744240 Score: 181
Period size: 54 Copynumber: 2.4 Consensus size: 54
18744101 TAAATAATAT
* *
18744111 TATATTAATAAATAA-ATAATATTATATGAACAAATAATATATTATTAATATAA
1 TATATTAATAAATAATATAATAATATATGAACAAATAATATACTATTAATATAA
* * * * *
18744164 TATATTAATAAATAATATATTAATATATTAATAAATAGTATACTATTAATGTAA
1 TATATTAATAAATAATATAATAATATATGAACAAATAATATACTATTAATATAA
*
18744218 TATATTAATAAATAATATTATAA
1 TATATTAATAAATAATATAATAA
18744241 AGAATAATAA
Statistics
Matches: 67, Mismatches: 9, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
53 15 0.22
54 52 0.78
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (54 bp):
TATATTAATAAATAATATAATAATATATGAACAAATAATATACTATTAATATAA
Found at i:18744235 original size:15 final size:15
Alignment explanation
Indices: 18744121--18744188 Score: 82
Period size: 15 Copynumber: 4.3 Consensus size: 15
18744111 TATATTAATA
18744121 AATAAATAATATTATAT
1 AATAAATAATA-TAT-T
*
18744138 GAACAAATAATATATT
1 -AATAAATAATATATT
*
18744154 ATTAATATAATATATT
1 AATAA-ATAATATATT
18744170 AATAAATAATATATT
1 AATAAATAATATATT
18744185 AATA
1 AATA
18744189 TATTAATAAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
15 17 0.38
16 15 0.33
17 3 0.07
18 10 0.22
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (15 bp):
AATAAATAATATATT
Found at i:18744380 original size:26 final size:25
Alignment explanation
Indices: 18744351--18744399 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
18744341 TTTTGCTAAT
18744351 AAATAATTTCAATATATTTTAATAAG
1 AAATAATTTCAA-ATATTTTAATAAG
**
18744377 AAATAATTTTTAATATTTTAATA
1 AAATAATTTCAAATATTTTAATA
18744400 GTTATGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (25 bp):
AAATAATTTCAAATATTTTAATAAG
Found at i:18745399 original size:16 final size:17
Alignment explanation
Indices: 18745378--18745410 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
18745368 ATAAATTAAA
*
18745378 AATAAAA-ATTTAATTT
1 AATAAAATATATAATTT
18745394 AATAAAATATATAATTT
1 AATAAAATATATAATTT
18745411 TTGTTTTTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATAAAATATATAATTT
Found at i:18745858 original size:26 final size:25
Alignment explanation
Indices: 18745804--18745888 Score: 97
Period size: 26 Copynumber: 3.4 Consensus size: 25
18745794 TATTAAATAT
*
18745804 TATTATTAA-AATATAATTATTTT-AA
1 TATT-TTAATAATA-AATAATTTTCAA
18745829 -ATTTTAATAATAAATAA-TTTCTATA
1 TATTTTAATAATAAATAATTTTC-A-A
18745854 TATTTTAATAATAAATAATTTTCAA
1 TATTTTAATAATAAATAATTTTCAA
18745879 TATTTTAATA
1 TATTTTAATA
18745889 GTTATATTAA
Statistics
Matches: 53, Mismatches: 1, Indels: 12
0.80 0.02 0.18
Matches are distributed among these distances:
22 3 0.06
23 8 0.15
24 8 0.15
25 12 0.23
26 18 0.34
27 4 0.08
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (25 bp):
TATTTTAATAATAAATAATTTTCAA
Found at i:18747571 original size:62 final size:63
Alignment explanation
Indices: 18747477--18747596 Score: 154
Period size: 63 Copynumber: 1.9 Consensus size: 63
18747467 CAATCTATTT
* * * *
18747477 TATTTTTTTAAAAGTAATTATTTAATTCA-TTTTTATTTAAAAGCATCTTAAATAATCTTTAA
1 TATTTTTTTAAAAGTAATTATTTAAGTCATTTTTTATTCAAAAACACCTTAAATAATCTTTAA
* * *
18747539 TATTTTTTTAAAGGTGATTATTTAAAGT-ATTTTTTATTCAAAAATACCTTAAATAATC
1 TATTTTTTTAAAAGTAATTATTT-AAGTCATTTTTTATTCAAAAACACCTTAAATAATC
18747597 CTCTTTAAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
62 22 0.45
63 27 0.55
ACGTcount: A:0.38, C:0.07, G:0.05, T:0.50
Consensus pattern (63 bp):
TATTTTTTTAAAAGTAATTATTTAAGTCATTTTTTATTCAAAAACACCTTAAATAATCTTTAA
Found at i:18747745 original size:61 final size:61
Alignment explanation
Indices: 18747555--18747746 Score: 212
Period size: 62 Copynumber: 3.1 Consensus size: 61
18747545 TTTAAAGGTG
* *
18747555 ATTATTTAAAGTATTTTTTATTCAAAAATACCTTAAATAATCCTCTTTAAAATGTAGCA-GAA
1 ATTATTTAAGGTA-TTTTTATTCAAAAATACCTTAAATAATCCT-TTTAAAATGTATCATGAA
* * * * * *
18747617 GATTATTTAAGGTTTTTTTATTAAAAAATACGTTAAATAATACCTTTT-AAATAATATAAATG-C
1 -ATTATTTAAGGTATTTTTATTCAAAAATACCTTAAATAAT-CCTTTTAAAAT-GTAT-CATGAA
*
18747680 ATTATTTAAGGTATTTTT-TTCAAAAATACCTTAAATAGTCCATTTTAAAATGTATCATGAA
1 ATTATTTAAGGTATTTTTATTCAAAAATACCTTAAATAATCC-TTTTAAAATGTATCATGAA
18747741 ATTATT
1 ATTATT
18747747 CAAAAATACT
Statistics
Matches: 107, Mismatches: 15, Indels: 16
0.78 0.11 0.12
Matches are distributed among these distances:
60 5 0.05
61 35 0.33
62 51 0.48
63 15 0.14
64 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.07, T:0.43
Consensus pattern (61 bp):
ATTATTTAAGGTATTTTTATTCAAAAATACCTTAAATAATCCTTTTAAAATGTATCATGAA
Found at i:18748286 original size:142 final size:142
Alignment explanation
Indices: 18748037--18748299 Score: 366
Period size: 142 Copynumber: 1.8 Consensus size: 142
18748027 TTTAATGTAA
* * *
18748037 TTTTTATTAAAAACGTCTTAAATAATCAATTTCATTACTTATAAGATTTAAGAAATAAAATATAA
1 TTTTTATTAAAAAAGTCTTAAATAATCAATTTCATTAC-----A-ATTTAAAAAATAAAACATAA
* *
18748102 AAAAATAAAATAGTTCAATTTGTTAGAGCATATATCTATTAATTATAAAGTCGTAATTTTTTTAT
60 AAAAATAAAATAGTTCAATTTGTTAGAGCATATATCTATTAATCATAAAATCGTAATTTTTTTAT
18748167 CATATTATTTAACACATT
125 CATATTATTTAACACATT
*
18748185 TTTTTATTAAAAAAGTTTTAAATAATCAATTTCATTAC-ATTTAAAAAATAAAACATGAAAAAAA
1 TTTTTATTAAAAAAGTCTTAAATAATCAATTTCATTACAATTTAAAAAATAAAACAT-AAAAAAA
* * * *
18748249 TATAGTAGTTCAGTTTGTTAGAGCATATGTCTATTAATCATAAAATCGTAA
65 TAAAATAGTTCAATTTGTTAGAGCATATATCTATTAATCATAAAATCGTAA
18748300 GTTTAATCCC
Statistics
Matches: 104, Mismatches: 10, Indels: 8
0.85 0.08 0.07
Matches are distributed among these distances:
141 16 0.15
142 52 0.50
148 36 0.35
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (142 bp):
TTTTTATTAAAAAAGTCTTAAATAATCAATTTCATTACAATTTAAAAAATAAAACATAAAAAAAT
AAAATAGTTCAATTTGTTAGAGCATATATCTATTAATCATAAAATCGTAATTTTTTTATCATATT
ATTTAACACATT
Found at i:18748328 original size:142 final size:138
Alignment explanation
Indices: 18748037--18748330 Score: 295
Period size: 142 Copynumber: 2.0 Consensus size: 138
18748027 TTTAATGTAA
* * *
18748037 TTTTTATTAAAAACGTCTTAAATAATCAATTTCATTACTTATAAGATTTAAGAAATAAAATATAA
1 TTTTTATTAAAAAAGTCTTAAATAATCAATTTCATTAC-----A-ATTTAAAAAATAAAACATAA
* * * **
18748102 AAAAATAAAATAGTTCAATTTGTTAGAGCATATATCTATTAATTATAAAGTCGTAATTTTTTTAT
60 AAAAATAAAATAGTTCAATTTGTTAGAGCATATATCTATTAATCATAAAATCGTAATTTATCCAT
*
18748167 CATATTATTTAACACATT
125 CATAGTATTT---A-ATT
*
18748185 TTTTTATTAAAAAAGTTTTAAATAATCAATTTCATTAC-ATTTAAAAAATAAAACATGAAAAAAA
1 TTTTTATTAAAAAAGTCTTAAATAATCAATTTCATTACAATTTAAAAAATAAAACAT-AAAAAAA
* * * * *
18748249 TATAGTAGTTCAGTTTGTTAGAGCATATGTCTATTAATCATAAAATCGTAAGTTTAATCCCTCCA
65 TAAAATAGTTCAATTTGTTAGAGCATATATCTATTAATCATAAAATCGTAA-TTT-ATCCAT-C-
18748314 AATAGTATTT-ATT
126 -ATAGTATTTAATT
18748327 TTTT
1 TTTT
18748331 AAGATTATTT
Statistics
Matches: 125, Mismatches: 15, Indels: 18
0.79 0.09 0.11
Matches are distributed among these distances:
141 16 0.13
142 59 0.47
143 3 0.02
144 2 0.02
145 1 0.01
147 8 0.06
148 36 0.29
ACGTcount: A:0.43, C:0.09, G:0.07, T:0.41
Consensus pattern (138 bp):
TTTTTATTAAAAAAGTCTTAAATAATCAATTTCATTACAATTTAAAAAATAAAACATAAAAAAAT
AAAATAGTTCAATTTGTTAGAGCATATATCTATTAATCATAAAATCGTAATTTATCCATCATAGT
ATTTAATT
Found at i:18748457 original size:59 final size:59
Alignment explanation
Indices: 18748330--18748471 Score: 171
Period size: 60 Copynumber: 2.4 Consensus size: 59
18748320 ATTTATTTTT
* **
18748330 TAAGATTATTTAAAATATTTTTTTGACAAAAAACGTTTTAAATAATCTCAAAAAAATTGAA
1 TAAGATTATTTAAAGTA--TTTTTGACAAAAAACACTTTAAATAATCTCAAAAAAATTGAA
* *
18748391 TAAGATTATTTAAAGTATTTTTGACCATAAAACACTTTAAATAATCTTAAAAAAATT-AA
1 TAAGATTATTTAAAGTATTTTTGA-CAAAAAACACTTTAAATAATCTCAAAAAAATTGAA
* *
18748450 TAGGATTAATT-AAGTAATTTTT
1 TAAGATTATTTAAAGT-ATTTTT
18748472 TATACCAAAC
Statistics
Matches: 72, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
58 4 0.06
59 24 0.33
60 28 0.39
61 16 0.22
ACGTcount: A:0.47, C:0.06, G:0.07, T:0.39
Consensus pattern (59 bp):
TAAGATTATTTAAAGTATTTTTGACAAAAAACACTTTAAATAATCTCAAAAAAATTGAA
Found at i:18749511 original size:3 final size:3
Alignment explanation
Indices: 18749505--18749530 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
18749495 AAACGTAAAA
18749505 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
18749531 GACGATGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:18770546 original size:23 final size:21
Alignment explanation
Indices: 18770529--18770574 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
18770519 TAATTTTTTA
18770529 AAAATAATTATATGAATTAATT
1 AAAATAA-TATATGAATTAATT
*
18770551 AAATTAATATATGAATTCAATT
1 AAAATAATATATGAATT-AATT
18770573 AA
1 AA
18770575 TAAAATGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.39
Consensus pattern (21 bp):
AAAATAATATATGAATTAATT
Found at i:18771614 original size:29 final size:29
Alignment explanation
Indices: 18771574--18771634 Score: 95
Period size: 29 Copynumber: 2.1 Consensus size: 29
18771564 TATATTAAAA
* *
18771574 TATATAAGTTAATATTTAAATTCAAAATT
1 TATATAAATTAAGATTTAAATTCAAAATT
*
18771603 TATATAAATTAAGATTTAAATTTAAAATT
1 TATATAAATTAAGATTTAAATTCAAAATT
18771632 TAT
1 TAT
18771635 GCTTTTTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (29 bp):
TATATAAATTAAGATTTAAATTCAAAATT
Found at i:18772508 original size:14 final size:16
Alignment explanation
Indices: 18772487--18772540 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
18772477 AGATTATTTT
18772487 ATTATTT-TGAAAAAA
1 ATTATTTCTGAAAAAA
18772502 A-TATTTTCTGAAAAAA
1 ATTA-TTTCTGAAAAAA
* **
18772518 ATTATTTATGATTAAA
1 ATTATTTCTGAAAAAA
18772534 ATTATTT
1 ATTATTT
18772541 ATCAATATTT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
14 2 0.06
15 4 0.12
16 25 0.76
17 2 0.06
ACGTcount: A:0.46, C:0.02, G:0.06, T:0.46
Consensus pattern (16 bp):
ATTATTTCTGAAAAAA
Found at i:18777908 original size:2 final size:2
Alignment explanation
Indices: 18777901--18777937 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
18777891 ACAATGCTTT
18777901 TA TA 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 TA TA T
18777938 TCTACTTTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18781625 original size:2 final size:2
Alignment explanation
Indices: 18781618--18781645 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
18781608 GTAATACGTA
18781618 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
18781646 GTTAAAGTTG
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:18781941 original size:21 final size:20
Alignment explanation
Indices: 18781901--18781955 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 20
18781891 TAATTATTTT
*
18781901 ATATATAAAAATTTATTTAA
1 ATATATAAAAATATATTTAA
*
18781921 ATATACTAAAAATCATATTAAA
1 ATATA-TAAAAAT-ATATTTAA
18781943 ATAATATATAAAA
1 AT-ATATA-AAAA
18781956 ACATAAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
20 5 0.17
21 7 0.24
22 10 0.34
23 7 0.24
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATATAAAAATATATTTAA
Found at i:18781966 original size:21 final size:23
Alignment explanation
Indices: 18781920--18781985 Score: 75
Period size: 21 Copynumber: 2.9 Consensus size: 23
18781910 AATTTATTTA
18781920 AATATACTAAAAATCATATTAAAAT
1 AATATA-TAAAAATCATA-TAAAAT
18781945 AATATATAAAAA-CATA-AAAAT
1 AATATATAAAAATCATATAAAAT
* *
18781966 AAAATTTAAAAATCA-ATAAA
1 AATATATAAAAATCATATAAA
18781986 CAAAACCAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
21 16 0.43
22 5 0.14
23 4 0.11
24 6 0.16
25 6 0.16
ACGTcount: A:0.67, C:0.06, G:0.00, T:0.27
Consensus pattern (23 bp):
AATATATAAAAATCATATAAAAT
Found at i:18786845 original size:15 final size:14
Alignment explanation
Indices: 18786825--18786858 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
18786815 TTTGCTATGG
*
18786825 TTTTTTTCATTTCA
1 TTTTTTTCAGTTCA
*
18786839 TTTTTTTCAGTTCC
1 TTTTTTTCAGTTCA
18786853 TTTTTT
1 TTTTTT
18786859 GCTGCTTTTT
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:0.09, C:0.15, G:0.03, T:0.74
Consensus pattern (14 bp):
TTTTTTTCAGTTCA
Found at i:18796542 original size:12 final size:11
Alignment explanation
Indices: 18796513--18796560 Score: 62
Period size: 12 Copynumber: 4.3 Consensus size: 11
18796503 CGATATAATA
*
18796513 TTAAATTTAAAT
1 TTAAATTT-GAT
18796525 TTAAATTTGAT
1 TTAAATTTGAT
18796536 TTGAAATTTGAT
1 TT-AAATTTGAT
18796548 TT-AATTTGAT
1 TTAAATTTGAT
18796558 TTA
1 TTA
18796561 TTTTTATTTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
10 10 0.30
11 4 0.12
12 19 0.58
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (11 bp):
TTAAATTTGAT
Found at i:18805788 original size:3 final size:3
Alignment explanation
Indices: 18805782--18805806 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
18805772 AACGCCACAG
18805782 GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT G
18805807 CACATGACCT
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:0.32, C:0.00, G:0.36, T:0.32
Consensus pattern (3 bp):
GAT
Found at i:18809424 original size:30 final size:30
Alignment explanation
Indices: 18809390--18809450 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 30
18809380 AATTCTATTG
18809390 TTCCTATAGG-ACCGCTCGGTGCTGTTGTCA
1 TTCCTATAGGCA-CGCTCGGTGCTGTTGTCA
18809420 TTCCTATAGGCACGCTCGGTGCTGTTGTCA
1 TTCCTATAGGCACGCTCGGTGCTGTTGTCA
18809450 T
1 T
18809451 CATCCTAGGA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.13, C:0.26, G:0.26, T:0.34
Consensus pattern (30 bp):
TTCCTATAGGCACGCTCGGTGCTGTTGTCA
Found at i:18818840 original size:23 final size:24
Alignment explanation
Indices: 18818798--18818848 Score: 70
Period size: 23 Copynumber: 2.2 Consensus size: 24
18818788 TATTTTGGTA
*
18818798 TTAATTATATTAATTGATATAT-T
1 TTAATTATATTAAATGATATATAT
18818821 TTAATTATATTAAAAT-ATATATAT
1 TTAATTATATT-AAATGATATATAT
18818845 TTAA
1 TTAA
18818849 AGATTATTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 17 0.68
24 8 0.32
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TTAATTATATTAAATGATATATAT
Found at i:18819401 original size:21 final size:21
Alignment explanation
Indices: 18819377--18819418 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18819367 ATTTATGGTA
18819377 TTATTT-TTTATATCTTTAAAT
1 TTATTTATTTA-ATCTTTAAAT
*
18819398 TTATTTATTTAATTTTTAAAT
1 TTATTTATTTAATCTTTAAAT
18819419 ATTTTGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATTTATTTAATCTTTAAAT
Found at i:18819496 original size:22 final size:22
Alignment explanation
Indices: 18819385--18819496 Score: 54
Period size: 22 Copynumber: 5.0 Consensus size: 22
18819375 TATTATTTTT
* *
18819385 TATATCTT-TAAATTTATTTATT
1 TATAT-TTATAAATATATTTATA
* *
18819407 TA-ATTTTTAAATATTTTGTATA
1 TATATTTATAAATATATT-TATA
* *
18819429 TTTATTTTATAAAT-TATTAATA
1 TATA-TTTATAAATATATTTATA
* * *
18819451 -ATA-TTATAATACACAAGTTCATA
1 TATATTTATAA-ATA-TA-TTTATA
18819474 TATATTTATAAATATATTTATA
1 TATATTTATAAATATATTTATA
18819496 T
1 T
18819497 TAGATTAAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 20
0.66 0.14 0.20
Matches are distributed among these distances:
19 6 0.09
20 3 0.05
21 12 0.18
22 16 0.24
23 10 0.15
24 13 0.20
25 6 0.09
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (22 bp):
TATATTTATAAATATATTTATA
Found at i:18829579 original size:48 final size:48
Alignment explanation
Indices: 18829508--18829601 Score: 170
Period size: 48 Copynumber: 2.0 Consensus size: 48
18829498 TGAAGGGATC
*
18829508 CCATACATCTACAGAGAATGAATCAAAGTTATTGCCTTGTCGGTTGCT
1 CCATACATCTACAGAGAATGAATCAAAGTTATTGCCTCGTCGGTTGCT
*
18829556 CCATACATCTGCAGAGAATGAATCAAAGTTATTGCCTCGTCGGTTG
1 CCATACATCTACAGAGAATGAATCAAAGTTATTGCCTCGTCGGTTG
18829602 ACGAAGAAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 44 1.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (48 bp):
CCATACATCTACAGAGAATGAATCAAAGTTATTGCCTCGTCGGTTGCT
Found at i:18832606 original size:7 final size:7
Alignment explanation
Indices: 18832594--18832618 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18832584 TCCATGATGT
18832594 TGAAATA
1 TGAAATA
18832601 TGAAATA
1 TGAAATA
18832608 TGAAATA
1 TGAAATA
18832615 TGAA
1 TGAA
18832619 CAAATAAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.00, G:0.16, T:0.28
Consensus pattern (7 bp):
TGAAATA
Found at i:18839491 original size:21 final size:21
Alignment explanation
Indices: 18839467--18839508 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
18839457 ATTTATGATA
18839467 TTATTT-TTTATATCTTTAAAT
1 TTATTTATTTA-ATCTTTAAAT
*
18839488 TTATTTATTTAATTTTTAAAT
1 TTATTTATTTAATCTTTAAAT
18839509 ATTTTGTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATTTATTTAATCTTTAAAT
Found at i:18839586 original size:22 final size:22
Alignment explanation
Indices: 18839475--18839586 Score: 54
Period size: 22 Copynumber: 5.0 Consensus size: 22
18839465 TATTATTTTT
* *
18839475 TATATCTT-TAAATTTATTTATT
1 TATAT-TTATAAATATATTTATA
* *
18839497 TA-ATTTTTAAATATTTTGTATA
1 TATATTTATAAATATATT-TATA
* *
18839519 TTTATTTTATAAAT-TATTAATA
1 TATA-TTTATAAATATATTTATA
* * *
18839541 -ATA-TTATAATACACAAGTTCATA
1 TATATTTATAA-ATA-TA-TTTATA
18839564 TATATTTATAAATATATTTATA
1 TATATTTATAAATATATTTATA
18839586 T
1 T
18839587 TAAATTAAAA
Statistics
Matches: 66, Mismatches: 14, Indels: 20
0.66 0.14 0.20
Matches are distributed among these distances:
19 6 0.09
20 3 0.05
21 12 0.18
22 16 0.24
23 10 0.15
24 13 0.20
25 6 0.09
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (22 bp):
TATATTTATAAATATATTTATA
Found at i:18841936 original size:23 final size:22
Alignment explanation
Indices: 18841910--18841955 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
18841900 TAAAATTAAA
18841910 TATTATAATT-TGATTTTATTATT
1 TATTA-AATTATGATTTTA-TATT
*
18841933 TATTAATTTATGATTTTATATT
1 TATTAAATTATGATTTTATATT
18841955 T
1 T
18841956 GAAATTTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.65
Consensus pattern (22 bp):
TATTAAATTATGATTTTATATT
Found at i:18849612 original size:48 final size:48
Alignment explanation
Indices: 18849555--18849702 Score: 224
Period size: 54 Copynumber: 3.0 Consensus size: 48
18849545 TGAAGGGATC
*
18849555 CCATACATCTACAGAGAATGAATCAAAGTTATTGCCTTGTCGGTTGCT
1 CCATACATCTGCAGAGAATGAATCAAAGTTATTGCCTTGTCGGTTGCT
18849603 CCATACATCTGCAGAGAATGAATCAAAGTTATTGCCATTGCCTTGTCGGTTGCT
1 CCATACATCTGCAGAGAATGAATCAAAG---TT---ATTGCCTTGTCGGTTGCT
*
18849657 CCATACATCTGCAGAGAATGAATCAGAGTTATTGCCTTGTCGGTTG
1 CCATACATCTGCAGAGAATGAATCAAAGTTATTGCCTTGTCGGTTG
18849703 ACGAAGAAAA
Statistics
Matches: 92, Mismatches: 2, Indels: 12
0.87 0.02 0.11
Matches are distributed among these distances:
48 43 0.47
51 4 0.04
54 45 0.49
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (48 bp):
CCATACATCTGCAGAGAATGAATCAAAGTTATTGCCTTGTCGGTTGCT
Done.