Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167860.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_13, 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: 22724830
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 82000 characters in sequence are not A, C, G, or T
File 53 of 109
Found at i:10245304 original size:33 final size:32
Alignment explanation
Indices: 10245240--10245323 Score: 89
Period size: 33 Copynumber: 2.6 Consensus size: 32
10245230 TATTGTCGAT
* *
10245240 TTAATTAAATTTAGATTAAATTATTTATATTAAA
1 TTAATCAAA-TTATATTAAATTATTTATATT-AA
* *
10245274 TTAATCAAATTATATTATATTATTTTTATTAA
1 TTAATCAAATTATATTAAATTATTTATATTAA
*
10245306 TCAAATCAAATT-TATTAA
1 T-TAATCAAATTATATTAA
10245324 TTTTAAAAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
32 8 0.19
33 27 0.63
34 8 0.19
ACGTcount: A:0.45, C:0.04, G:0.01, T:0.50
Consensus pattern (32 bp):
TTAATCAAATTATATTAAATTATTTATATTAA
Found at i:10245415 original size:17 final size:18
Alignment explanation
Indices: 10245381--10245422 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
10245371 TTTATTAATC
10245381 AAAT-AATAAGTATATTT
1 AAATAAATAAGTATATTT
10245398 AAATTAAATAA-TAT-TTT
1 AAA-TAAATAAGTATATTT
10245415 AAATAAAT
1 AAATAAAT
10245423 TAAATAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
16 5 0.22
17 9 0.39
18 4 0.17
19 5 0.22
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.40
Consensus pattern (18 bp):
AAATAAATAAGTATATTT
Found at i:10245423 original size:21 final size:22
Alignment explanation
Indices: 10245397--10245443 Score: 69
Period size: 21 Copynumber: 2.2 Consensus size: 22
10245387 TAAGTATATT
* *
10245397 TAAATTAAATAATATTTTA-AA
1 TAAATTAAATAAAATTATATAA
10245418 TAAATTAAATAAAATTATATAA
1 TAAATTAAATAAAATTATATAA
10245440 TAAA
1 TAAA
10245444 ATATTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.74
22 6 0.26
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATTAAATAAAATTATATAA
Found at i:10245454 original size:13 final size:12
Alignment explanation
Indices: 10245401--10245454 Score: 51
Period size: 13 Copynumber: 4.6 Consensus size: 12
10245391 TATATTTAAA
*
10245401 TTAAATAATATT
1 TTAAATAAAATT
10245413 TTAAAT-AAA--
1 TTAAATAAAATT
10245422 TTAAATAAAATT
1 TTAAATAAAATT
*
10245434 ATATAATAAAATAT
1 TTA-AATAAAAT-T
10245448 TTAAATA
1 TTAAATA
10245455 CAAGAATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 9
0.74 0.07 0.20
Matches are distributed among these distances:
9 6 0.18
10 3 0.09
11 2 0.06
12 8 0.24
13 12 0.35
14 3 0.09
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
TTAAATAAAATT
Found at i:10245569 original size:18 final size:16
Alignment explanation
Indices: 10245531--10245569 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 16
10245521 TTATATTTTG
*
10245531 ATTAAAATTTTGATTA
1 ATTAAAATTTTGATGA
10245547 ATTAAAATTTTGAATCGA
1 ATTAAAATTTTG-AT-GA
10245565 ATTAA
1 ATTAA
10245570 TCAAAAATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 12 0.60
17 2 0.10
18 6 0.30
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.44
Consensus pattern (16 bp):
ATTAAAATTTTGATGA
Found at i:10245636 original size:22 final size:21
Alignment explanation
Indices: 10245584--10245653 Score: 65
Period size: 22 Copynumber: 3.4 Consensus size: 21
10245574 AAATTTATTT
10245584 TTTAATTAATT-A-AAATTAA
1 TTTAATTAATTAATAAATTAA
* *
10245603 TTTGA-TCATTAATAAATTAA
1 TTTAATTAATTAATAAATTAA
**
10245623 TTTAATTAATTTAATTGATTAA
1 TTTAATTAA-TTAATAAATTAA
*
10245645 TTTGATTAA
1 TTTAATTAA
10245654 AATAAACTTA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
18 4 0.10
19 5 0.12
20 11 0.28
21 2 0.05
22 18 0.45
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.50
Consensus pattern (21 bp):
TTTAATTAATTAATAAATTAA
Found at i:10245646 original size:26 final size:29
Alignment explanation
Indices: 10245585--10245656 Score: 69
Period size: 29 Copynumber: 2.5 Consensus size: 29
10245575 AATTTATTTT
10245585 TTAATTAATTAAAATTAATTTGATCATTAA
1 TTAATTAATTAAAATTAATTTGA-CATTAA
* * *
10245615 TAAATTAATT-TAATTAATTT-A-ATTGA
1 TTAATTAATTAAAATTAATTTGACATTAA
*
10245641 TTAATTTGATTAAAAT
1 TTAA-TTAATTAAAAT
10245657 AAACTTATGA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
26 7 0.21
27 5 0.15
28 4 0.12
29 9 0.26
30 9 0.26
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (29 bp):
TTAATTAATTAAAATTAATTTGACATTAA
Found at i:10246600 original size:16 final size:16
Alignment explanation
Indices: 10246579--10246616 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10246569 TTATTTTTTA
*
10246579 TAAAAAAAT-CAAATT
1 TAAAAAAATAAAAATT
10246594 CTAAAAAAATAAAAATT
1 -TAAAAAAATAAAAATT
10246611 TAAAAA
1 TAAAAA
10246617 TCAAACCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (16 bp):
TAAAAAAATAAAAATT
Found at i:10246777 original size:28 final size:28
Alignment explanation
Indices: 10246728--10246814 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 28
10246718 AACTGACACA
* **
10246728 AATATAATATAAAAATAAAATAAAAAAT
1 AATATAATTTAAAAATTTAATAAAAAAT
* *
10246756 AATATAATTTAAAAATTTAATAATAATT
1 AATATAATTTAAAAATTTAATAAAAAAT
* *
10246784 ATATATGAA-TTAATAAAATTAAAAAAAAAT
1 A-ATAT-AATTTAA-AAATTTAATAAAAAAT
10246814 A
1 A
10246815 TTTCATAATT
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
28 24 0.51
29 8 0.17
30 15 0.32
ACGTcount: A:0.67, C:0.00, G:0.01, T:0.32
Consensus pattern (28 bp):
AATATAATTTAAAAATTTAATAAAAAAT
Found at i:10258901 original size:16 final size:16
Alignment explanation
Indices: 10258880--10258915 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
10258870 GCTAAGTAGA
10258880 TGAAGCTGTTTGCTAT
1 TGAAGCTGTTTGCTAT
10258896 TGAAGCTGTTTGCTAT
1 TGAAGCTGTTTGCTAT
10258912 TGAA
1 TGAA
10258916 TTGAGTTGGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.22, C:0.11, G:0.25, T:0.42
Consensus pattern (16 bp):
TGAAGCTGTTTGCTAT
Found at i:10267032 original size:2 final size:2
Alignment explanation
Indices: 10267025--10267055 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10267015 AACGATAAAA
10267025 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10267056 AATCTATTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10301529 original size:17 final size:18
Alignment explanation
Indices: 10301507--10301540 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10301497 AAATGTGTTA
10301507 AATTTAA-ATAATTTTTT
1 AATTTAATATAATTTTTT
*
10301524 AATTTAATTTAATTTTT
1 AATTTAATATAATTTTT
10301541 ATATATTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AATTTAATATAATTTTTT
Found at i:10301749 original size:22 final size:23
Alignment explanation
Indices: 10301722--10301776 Score: 78
Period size: 21 Copynumber: 2.5 Consensus size: 23
10301712 AATTGAGATT
*
10301722 AAATTTAAATTAAAATTTAA-TC
1 AAATTTAAATTAAAATCTAACTC
*
10301744 ATATTT-AATTAAAATCTAACTC
1 AAATTTAAATTAAAATCTAACTC
10301766 AAATTTAAATT
1 AAATTTAAATT
10301777 TTTTACCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 12 0.43
22 12 0.43
23 4 0.14
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (23 bp):
AAATTTAAATTAAAATCTAACTC
Found at i:10301753 original size:21 final size:22
Alignment explanation
Indices: 10301722--10301773 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
10301712 AATTGAGATT
*
10301722 AAATTTAAATTAAAATTTAA-TC
1 AAATTT-AATTAAAATCTAACTC
*
10301744 ATATTTAATTAAAATCTAACTC
1 AAATTTAATTAAAATCTAACTC
10301766 AAATTTAA
1 AAATTTAA
10301774 ATTTTTTACC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 12 0.46
22 14 0.54
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.40
Consensus pattern (22 bp):
AAATTTAATTAAAATCTAACTC
Found at i:10318059 original size:3 final size:3
Alignment explanation
Indices: 10318051--10318083 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
10318041 ATAAGAAAGC
*
10318051 AAT AAT AAT AAT AAT AAC AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10318084 GCCTGATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:10319067 original size:21 final size:20
Alignment explanation
Indices: 10319038--10319078 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
10319028 TCCATTAATA
*
10319038 AATTGTTAAATTTTTAATTTT
1 AATTATTAAATTTTT-ATTTT
10319059 AATTATTAAATTTTTATTTT
1 AATTATTAAATTTTTATTTT
10319079 GATATAATAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
AATTATTAAATTTTTATTTT
Found at i:10319090 original size:3 final size:3
Alignment explanation
Indices: 10319082--10319109 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10319072 TTATTTTGAT
10319082 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10319110 CACGTTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10319369 original size:19 final size:19
Alignment explanation
Indices: 10319334--10319370 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
10319324 ATACTACATG
*
10319334 ATATGATTAATACGATTAT
1 ATATGATTAACACGATTAT
*
10319353 ATATGATTAACATGATTA
1 ATATGATTAACACGATTA
10319371 AACACAATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.43, C:0.05, G:0.11, T:0.41
Consensus pattern (19 bp):
ATATGATTAACACGATTAT
Found at i:10319650 original size:21 final size:21
Alignment explanation
Indices: 10319624--10319665 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
10319614 TATTATCATG
*
10319624 TCATATTTAAAATTATCAAAC
1 TCATATCTAAAATTATCAAAC
10319645 TCATATCTAAAATTATCAAAC
1 TCATATCTAAAATTATCAAAC
10319666 CAAAATTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.48, C:0.17, G:0.00, T:0.36
Consensus pattern (21 bp):
TCATATCTAAAATTATCAAAC
Found at i:10319922 original size:29 final size:29
Alignment explanation
Indices: 10319874--10319948 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
10319864 CACATTAGAC
* **
10319874 AATGAAATTTTATATATGACTCCCCAGAT
1 AATGAAATTTTAGAGGTGACTCCCCAGAT
*
10319903 AATGAAATTTTAGAGGTGACTCCCTAGAT
1 AATGAAATTTTAGAGGTGACTCCCCAGAT
* *
10319932 GATGAGATTTTAGAGGT
1 AATGAAATTTTAGAGGT
10319949 ATTCCTCACC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 40 1.00
ACGTcount: A:0.35, C:0.12, G:0.20, T:0.33
Consensus pattern (29 bp):
AATGAAATTTTAGAGGTGACTCCCCAGAT
Found at i:10328665 original size:28 final size:28
Alignment explanation
Indices: 10328625--10328713 Score: 160
Period size: 28 Copynumber: 3.2 Consensus size: 28
10328615 TCAAATCCAA
10328625 CATCCCATCCTGCATGATAGCAGAAGAT
1 CATCCCATCCTGCATGATAGCAGAAGAT
10328653 CATCCCATCCTGCATGATAGCAGAAGAT
1 CATCCCATCCTGCATGATAGCAGAAGAT
* *
10328681 CATCCCATCCTGCAAGATCGCAGAAGAT
1 CATCCCATCCTGCATGATAGCAGAAGAT
10328709 CATCC
1 CATCC
10328714 TCATATTCCA
Statistics
Matches: 59, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.20
Consensus pattern (28 bp):
CATCCCATCCTGCATGATAGCAGAAGAT
Found at i:10329355 original size:15 final size:15
Alignment explanation
Indices: 10329335--10329364 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10329325 TTTCACTTCT
*
10329335 AGCAATAGCTAATTC
1 AGCAATAGCCAATTC
10329350 AGCAATAGCCAATTC
1 AGCAATAGCCAATTC
10329365 GAAAGTCGGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.23
Consensus pattern (15 bp):
AGCAATAGCCAATTC
Found at i:10336781 original size:20 final size:19
Alignment explanation
Indices: 10336756--10336801 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
10336746 AAATCTCATA
10336756 TAATTTATTAATAAAATAT
1 TAATTTATTAATAAAATAT
* * *
10336775 TATATTTGTTAATACAATCT
1 TA-ATTTATTAATAAAATAT
10336795 TAATTTA
1 TAATTTA
10336802 ATGATTAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.50
Consensus pattern (19 bp):
TAATTTATTAATAAAATAT
Found at i:10337695 original size:11 final size:11
Alignment explanation
Indices: 10337663--10337710 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
10337653 TTATATCACT
*
10337663 TTTATA-TATT
1 TTTATATTATA
*
10337673 TTTATATCATA
1 TTTATATTATA
10337684 TTTATATTATA
1 TTTATATTATA
10337695 TCATTATATTATA
1 T--TTATATTATA
10337708 TTT
1 TTT
10337711 TAAATTATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
10 6 0.19
11 15 0.47
13 11 0.34
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTATATTATA
Found at i:10338190 original size:21 final size:22
Alignment explanation
Indices: 10338144--10338191 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
10338134 TGATCCGATT
10338144 CAAATTTAAATCATTAAAATAA
1 CAAATTTAAATCATTAAAATAA
* * *
10338166 -AAATTTTAAT-ATTTAATTAA
1 CAAATTTAAATCATTAAAATAA
10338186 CAAATT
1 CAAATT
10338192 ACGTAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 8 0.36
21 14 0.64
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (22 bp):
CAAATTTAAATCATTAAAATAA
Found at i:10339078 original size:16 final size:17
Alignment explanation
Indices: 10339046--10339080 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10339036 TTAAAATTTA
10339046 AAATTTAATGATAAAAT
1 AAATTTAATGATAAAAT
*
10339063 AAATTTAAT-TTAAAAT
1 AAATTTAATGATAAAAT
10339079 AA
1 AA
10339081 CTTTTTTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
AAATTTAATGATAAAAT
Found at i:10339622 original size:30 final size:31
Alignment explanation
Indices: 10339571--10339629 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
10339561 TTTTATGCAT
* *
10339571 TTTTAATTTTAAAACAAATCAATATGCTTTC
1 TTTTAAGTATAAAACAAATCAATATGCTTTC
10339602 TTTTAAGTATAAAA-AAATCAATATGCTT
1 TTTTAAGTATAAAACAAATCAATATGCTT
10339630 AATTTAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.42, C:0.10, G:0.05, T:0.42
Consensus pattern (31 bp):
TTTTAAGTATAAAACAAATCAATATGCTTTC
Found at i:10349286 original size:12 final size:12
Alignment explanation
Indices: 10349247--10349294 Score: 53
Period size: 12 Copynumber: 4.0 Consensus size: 12
10349237 TAGATATTTG
*
10349247 ATTTTTTTAAAT
1 ATTTATTTAAAT
* *
10349259 ATTTGAATTAGA-
1 ATTT-ATTTAAAT
10349271 ATTTATTTAAAT
1 ATTTATTTAAAT
10349283 ATTTATTTAAAT
1 ATTTATTTAAAT
10349295 TTAATATCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
11 5 0.17
12 20 0.69
13 4 0.14
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (12 bp):
ATTTATTTAAAT
Found at i:10361164 original size:21 final size:22
Alignment explanation
Indices: 10361121--10361169 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 22
10361111 TCTTTTTTCC
* *
10361121 AATTTTGGGGGTGTCTAGAG-A
1 AATTTTGAGGATGTCTAGAGAA
* *
10361142 AATTTTGAGGATGTTTAGTGAA
1 AATTTTGAGGATGTCTAGAGAA
10361164 AATTTT
1 AATTTT
10361170 TTTTAATCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.29, C:0.02, G:0.29, T:0.41
Consensus pattern (22 bp):
AATTTTGAGGATGTCTAGAGAA
Found at i:10372167 original size:3 final size:3
Alignment explanation
Indices: 10372159--10372183 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
10372149 GCCATGCAAA
10372159 ACC ACC ACC ACC ACC ACC ACC ACC A
1 ACC ACC ACC ACC ACC ACC ACC ACC A
10372184 TCCATTTTCC
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:0.36, C:0.64, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:10373845 original size:19 final size:19
Alignment explanation
Indices: 10373805--10373863 Score: 59
Period size: 19 Copynumber: 3.2 Consensus size: 19
10373795 ATTTAGTTAT
*
10373805 TTAGTTATATATTAATTTA
1 TTAGTTATATATTAATTAA
*
10373824 TTAGTTA-ATTATTCATTAA
1 TTAGTTATA-TATTAATTAA
* *
10373843 TTA-TAATATAATAATTAA
1 TTAGTTATATATTAATTAA
10373861 TTA
1 TTA
10373864 TTTAATTGAC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
18 14 0.42
19 19 0.58
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (19 bp):
TTAGTTATATATTAATTAA
Found at i:10379643 original size:17 final size:18
Alignment explanation
Indices: 10379611--10379645 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10379601 TTTCAGGAGG
10379611 GGTGTTTGCTTTTTAACT
1 GGTGTTTGCTTTTTAACT
10379629 GGTGTTTGC-TTTTAACT
1 GGTGTTTGCTTTTTAACT
10379646 AGCATCTTAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.11, C:0.11, G:0.23, T:0.54
Consensus pattern (18 bp):
GGTGTTTGCTTTTTAACT
Found at i:10380857 original size:6 final size:6
Alignment explanation
Indices: 10380846--10380882 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
10380836 GTACATGAAG
* *
10380846 GAGGAT GAGGAT GAGGAA GAGGAA GAGGAA GAGGAA G
1 GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA GAGGAA G
10380883 GTGAGCCTGC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.43, C:0.00, G:0.51, T:0.05
Consensus pattern (6 bp):
GAGGAA
Found at i:10381037 original size:2 final size:2
Alignment explanation
Indices: 10381030--10381061 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10381020 GAATAGAAAT
10381030 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
10381062 GATCCTTGAA
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:10381047 original size:39 final size:34
Alignment explanation
Indices: 10380975--10381041 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
10380965 CTAGTCGAGG
10380975 AGAAAAGAAGAGAATAGAAAATTATATATATATA
1 AGAAAAGAAGAGAATAGAAAATTATATATATATA
10381009 AGAAAAGAAGAGAATAG-AAATTATATATATATA
1 AGAAAAGAAGAGAATAGAAAATTATATATATATA
10381042 TATATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
33 16 0.48
34 17 0.52
ACGTcount: A:0.61, C:0.00, G:0.15, T:0.24
Consensus pattern (34 bp):
AGAAAAGAAGAGAATAGAAAATTATATATATATA
Found at i:10385355 original size:25 final size:25
Alignment explanation
Indices: 10385321--10385370 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10385311 CATACTTAGT
10385321 TGCTTCAACCACTAACACACTAACA
1 TGCTTCAACCACTAACACACTAACA
10385346 TGCTTCAACCACTAACACACTAACA
1 TGCTTCAACCACTAACACACTAACA
10385371 CTCCTCCTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.36, G:0.04, T:0.20
Consensus pattern (25 bp):
TGCTTCAACCACTAACACACTAACA
Found at i:10389646 original size:25 final size:25
Alignment explanation
Indices: 10389618--10389667 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
10389608 CATACTTAGT
10389618 TGCTTCAACCACTAACACACTAACA
1 TGCTTCAACCACTAACACACTAACA
10389643 TGCTTCAACCACTAACACACTAACA
1 TGCTTCAACCACTAACACACTAACA
10389668 AAAACAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.36, G:0.04, T:0.20
Consensus pattern (25 bp):
TGCTTCAACCACTAACACACTAACA
Found at i:10399656 original size:117 final size:117
Alignment explanation
Indices: 10399450--10399689 Score: 462
Period size: 117 Copynumber: 2.1 Consensus size: 117
10399440 ACAAAGCCTT
*
10399450 TGAAGAGAAAGGAAATGGCAAGGGGAATAAGATAATTGTTTTCTTTCTAGTTAATGATAAATAAT
1 TGAAGAGAAAGGAAATGGCAAGGGGAATAAGATAATTGTTTTCTTTCTAGTTAATGATAAAAAAT
10399515 ATCAACTAGATGATATGAGAAAGGAAATAGCAATCATCACTCTCGCAAAAGG
66 ATCAACTAGATGATATGAGAAAGGAAATAGCAATCATCACTCTCGCAAAAGG
*
10399567 TGAAGAGAAAGGAAATGGCAAGTGGAATAAGATAATTGTTTTCTTTCTAGTTAATGATAAAAAAT
1 TGAAGAGAAAGGAAATGGCAAGGGGAATAAGATAATTGTTTTCTTTCTAGTTAATGATAAAAAAT
10399632 ATCAACTAGATGATATGAGAAAGGAAATAGCAATCATCACTCTCGCAAAAGG
66 ATCAACTAGATGATATGAGAAAGGAAATAGCAATCATCACTCTCGCAAAAGG
10399684 TGAAGA
1 TGAAGA
10399690 CAGAAAAGAT
Statistics
Matches: 121, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
117 121 1.00
ACGTcount: A:0.43, C:0.10, G:0.21, T:0.25
Consensus pattern (117 bp):
TGAAGAGAAAGGAAATGGCAAGGGGAATAAGATAATTGTTTTCTTTCTAGTTAATGATAAAAAAT
ATCAACTAGATGATATGAGAAAGGAAATAGCAATCATCACTCTCGCAAAAGG
Found at i:10405328 original size:15 final size:16
Alignment explanation
Indices: 10405308--10405337 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
10405298 ATTTATTTGA
10405308 TTAAAA-AAATAAAAT
1 TTAAAACAAATAAAAT
10405323 TTAAAACAAATAAAA
1 TTAAAACAAATAAAA
10405338 AATGAAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
TTAAAACAAATAAAAT
Found at i:10406554 original size:15 final size:14
Alignment explanation
Indices: 10406534--10406589 Score: 55
Period size: 15 Copynumber: 4.0 Consensus size: 14
10406524 AAATACCTTT
10406534 TATATTATTTATTAA
1 TATATTATTTA-TAA
10406549 TATATTA-TTATAA
1 TATATTATTTATAA
*
10406562 TAT-TTATTAGTATAT
1 TATATTATT--TATAA
10406577 TAT-TTATTTATAA
1 TATATTATTTATAA
10406590 ATAAAATTAT
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
12 3 0.08
13 11 0.31
14 3 0.08
15 19 0.53
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (14 bp):
TATATTATTTATAA
Found at i:10406559 original size:23 final size:23
Alignment explanation
Indices: 10406533--10406584 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
10406523 AAAATACCTT
10406533 TTATATTATTTATTAATATATTA
1 TTATATTATTTATTAATATATTA
* *
10406556 TTATAATATTTATTAGTATATTA
1 TTATATTATTTATTAATATATTA
10406579 TT-TATT
1 TTATATT
10406585 TATAAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
22 3 0.12
23 23 0.88
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (23 bp):
TTATATTATTTATTAATATATTA
Found at i:10410759 original size:18 final size:17
Alignment explanation
Indices: 10410736--10410769 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
10410726 TATTTAATAG
10410736 ATATATAAAATAAATAAT
1 ATATATAAAA-AAATAAT
10410754 ATATATAAAAAAATAA
1 ATATATAAAAAAATAA
10410770 AATTTGAGGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
ATATATAAAAAAATAAT
Found at i:10410759 original size:20 final size:21
Alignment explanation
Indices: 10410730--10410770 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
10410720 ATTATATATT
*
10410730 TAATAGATAT-ATAAAATAAA
1 TAATAGATATAAAAAAATAAA
*
10410750 TAATATATATAAAAAAATAAA
1 TAATAGATATAAAAAAATAAA
10410771 ATTTGAGGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
TAATAGATATAAAAAAATAAA
Found at i:10413826 original size:13 final size:13
Alignment explanation
Indices: 10413798--10413853 Score: 51
Period size: 13 Copynumber: 4.4 Consensus size: 13
10413788 CTTGTATCTT
*
10413798 ATTTTATATAAAA
1 ATTTTATATTAAA
*
10413811 ATTTTATATTACA
1 ATTTTATATTAAA
* *
10413824 ATTCT-TATGAAA
1 ATTTTATATTAAA
* *
10413836 ATTTCATATTACA
1 ATTTTATATTAAA
10413849 ATTTT
1 ATTTT
10413854 TATAGACAAA
Statistics
Matches: 32, Mismatches: 10, Indels: 2
0.73 0.23 0.05
Matches are distributed among these distances:
12 8 0.25
13 24 0.75
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (13 bp):
ATTTTATATTAAA
Found at i:10413837 original size:25 final size:25
Alignment explanation
Indices: 10413808--10413856 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
10413798 ATTTTATATA
*
10413808 AAAATTTTATATTACAATTCTTATG
1 AAAATTTCATATTACAATTCTTATG
*
10413833 AAAATTTCATATTACAATTTTTAT
1 AAAATTTCATATTACAATTCTTAT
10413857 AGACAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.49
Consensus pattern (25 bp):
AAAATTTCATATTACAATTCTTATG
Found at i:10422301 original size:2 final size:2
Alignment explanation
Indices: 10422290--10422323 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
10422280 TGTCATGACT
10422290 TA TA -A 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 T
10422324 GTATCTTTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10442330 original size:18 final size:18
Alignment explanation
Indices: 10442303--10442337 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
10442293 TGTAAAATGT
10442303 TGAGGAGTACTTGGGTAC
1 TGAGGAGTACTTGGGTAC
*
10442321 TGAGGGGTACTTGGGTA
1 TGAGGAGTACTTGGGTA
10442338 AAATCTCTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.09, G:0.43, T:0.29
Consensus pattern (18 bp):
TGAGGAGTACTTGGGTAC
Found at i:10442874 original size:19 final size:19
Alignment explanation
Indices: 10442852--10442896 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
10442842 ATATTAAAAT
*
10442852 AAATAAATAAAAATTGATA
1 AAATAAATAAAAATTGAAA
* * *
10442871 AAATATATATAAATTTAAA
1 AAATAAATAAAAATTGAAA
10442890 AAATAAA
1 AAATAAA
10442897 AAATATGTTT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
AAATAAATAAAAATTGAAA
Found at i:10443180 original size:38 final size:36
Alignment explanation
Indices: 10443125--10443205 Score: 108
Period size: 38 Copynumber: 2.2 Consensus size: 36
10443115 TTTATGTTTC
*
10443125 AAAATTTTTTTAAATTTAAATTAAAAAATAAAATTT
1 AAAATTTTTTTAAATTTAAATTAAAAAATAAAAATT
* * *
10443161 AAAATTATTTATTAAATTTAATTTATATAATAAAAATT
1 AAAATT-TTT-TTAAATTTAAATTAAAAAATAAAAATT
10443199 AAAATTT
1 AAAATTT
10443206 AATTAAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
36 6 0.15
37 4 0.10
38 29 0.74
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (36 bp):
AAAATTTTTTTAAATTTAAATTAAAAAATAAAAATT
Found at i:10443205 original size:26 final size:25
Alignment explanation
Indices: 10443174--10443229 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
10443164 ATTATTTATT
* * *
10443174 AAATTTAATTTATATAATAAAAATTA
1 AAATTTAATTAAAAT-ATAAAAATAA
10443200 AAATTTAATTAAAATATAAAAATAA
1 AAATTTAATTAAAATATAAAAATAA
10443225 AAATT
1 AAATT
10443230 CACACATATA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 14 0.52
26 13 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (25 bp):
AAATTTAATTAAAATATAAAAATAA
Found at i:10447698 original size:29 final size:29
Alignment explanation
Indices: 10447665--10447722 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
10447655 AATTGTATTC
** *
10447665 ACTTAAAGAGTTGCAATTAATTTTTTTTT
1 ACTTAAAGAGTCACAACTAATTTTTTTTT
*
10447694 ACTTAAGGAGTCACAACTAATTTTTTTTT
1 ACTTAAAGAGTCACAACTAATTTTTTTTT
10447723 GTTTAAATAC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.48
Consensus pattern (29 bp):
ACTTAAAGAGTCACAACTAATTTTTTTTT
Found at i:10448027 original size:2 final size:2
Alignment explanation
Indices: 10448020--10448044 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10448010 TTTATTTCTA
10448020 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10448045 CGTAAATTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10448072 original size:20 final size:20
Alignment explanation
Indices: 10448047--10448087 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
10448037 TATATATACG
*
10448047 TAAATTAAATATAATCTTAT
1 TAAATTAAATATAATCATAT
* *
10448067 TAAATTTAATTTAATCATAT
1 TAAATTAAATATAATCATAT
10448087 T
1 T
10448088 TTATAAAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAATTAAATATAATCATAT
Found at i:10458237 original size:11 final size:11
Alignment explanation
Indices: 10458207--10458249 Score: 59
Period size: 11 Copynumber: 3.7 Consensus size: 11
10458197 AATTAATTTA
10458207 AAATATAATAT
1 AAATATAATAT
10458218 GATAATATAATAT
1 -A-AATATAATAT
10458231 AAATATAATAT
1 AAATATAATAT
*
10458242 AAAAATAA
1 AAATATAA
10458250 AATATAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
11 17 0.59
12 2 0.07
13 10 0.34
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (11 bp):
AAATATAATAT
Found at i:10458239 original size:24 final size:24
Alignment explanation
Indices: 10458207--10458267 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
10458197 AATTAATTTA
* * *
10458207 AAATATAATATGATAATATAATAT
1 AAATATAATATAAAAATAAAATAT
10458231 AAATATAATATAAAAATAAAATAT
1 AAATATAATATAAAAATAAAATAT
* *
10458255 AAAAATGATATAA
1 AAATATAATATAA
10458268 TTTAAAATAT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (24 bp):
AAATATAATATAAAAATAAAATAT
Found at i:10458253 original size:13 final size:13
Alignment explanation
Indices: 10458231--10458260 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10458221 AATATAATAT
*
10458231 AAATATAATATAA
1 AAATAAAATATAA
10458244 AAATAAAATATAA
1 AAATAAAATATAA
10458257 AAAT
1 AAAT
10458261 GATATAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (13 bp):
AAATAAAATATAA
Found at i:10458265 original size:11 final size:11
Alignment explanation
Indices: 10458200--10458267 Score: 55
Period size: 11 Copynumber: 5.7 Consensus size: 11
10458190 TTTGATCAAT
*
10458200 TAATTTAAAATA
1 TAATATAAAA-A
*
10458212 TAATATGATAATA
1 TAATAT-A-AAAA
*
10458225 TAATATAAATA
1 TAATATAAAAA
10458236 TAATATAAAAA
1 TAATATAAAAA
10458247 TAAAATATAAAAA
1 T--AATATAAAAA
*
10458260 TGATATAA
1 TAATATAA
10458268 TTTAAAATAT
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
11 21 0.44
12 6 0.12
13 19 0.40
14 2 0.04
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (11 bp):
TAATATAAAAA
Found at i:10464434 original size:25 final size:26
Alignment explanation
Indices: 10464389--10464444 Score: 78
Period size: 25 Copynumber: 2.2 Consensus size: 26
10464379 AATTTCTTAT
* *
10464389 TAATTTTTTTTCAATTATAATTATAG
1 TAATTTTTTTTCAATCATAATTATAA
*
10464415 TAATTTTTTTT-AATCGTAATTATAA
1 TAATTTTTTTTCAATCATAATTATAA
10464440 TAATT
1 TAATT
10464445 ATTATTATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.57
Consensus pattern (26 bp):
TAATTTTTTTTCAATCATAATTATAA
Found at i:10468596 original size:14 final size:14
Alignment explanation
Indices: 10468577--10468606 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
10468567 TTTTTTTTCT
10468577 GGTCAAATATGATA
1 GGTCAAATATGATA
10468591 GGTCAAATATGATA
1 GGTCAAATATGATA
10468605 GG
1 GG
10468607 CCTATTATGT
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:0.40, C:0.07, G:0.27, T:0.27
Consensus pattern (14 bp):
GGTCAAATATGATA
Found at i:10471912 original size:20 final size:20
Alignment explanation
Indices: 10471887--10471926 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
10471877 AAGACCCATC
10471887 ATGCTTACATTAAAATAGAA
1 ATGCTTACATTAAAATAGAA
*
10471907 ATGCTTGCATTAAAATAGAA
1 ATGCTTACATTAAAATAGAA
10471927 TCGGAGTACC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.30
Consensus pattern (20 bp):
ATGCTTACATTAAAATAGAA
Found at i:10472915 original size:27 final size:26
Alignment explanation
Indices: 10472885--10472947 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
10472875 CTTATCTGAA
*
10472885 CGATCTCGATCTTCATCTTTGGATTGT
1 CGATCTCGATCTTCAT-TTTGGATTAT
*
10472912 CGATCAT-GGTCTTCATTTTGGATTAT
1 CGATC-TCGATCTTCATTTTGGATTAT
*
10472938 CGTTCTCGAT
1 CGATCTCGAT
10472948 TTTTCTTACC
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
25 1 0.03
26 15 0.50
27 13 0.43
28 1 0.03
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (26 bp):
CGATCTCGATCTTCATTTTGGATTAT
Found at i:10474207 original size:25 final size:26
Alignment explanation
Indices: 10474173--10474223 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
10474163 TGTTATAGAT
10474173 ATTTTT-AAAATCAA-GAGATTACATA
1 ATTTTTAAAAAT-AATGAGATTACATA
10474198 ATTTTTAAAAATAATGAGATTACATA
1 ATTTTTAAAAATAATGAGATTACATA
10474224 GTAATACATA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 8 0.33
26 16 0.67
ACGTcount: A:0.49, C:0.06, G:0.08, T:0.37
Consensus pattern (26 bp):
ATTTTTAAAAATAATGAGATTACATA
Found at i:10474319 original size:21 final size:21
Alignment explanation
Indices: 10474278--10474319 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
10474268 TCTAAGGGTT
*
10474278 AACTAGATCTCATGCTATATA
1 AACTAGATCTCATACTATATA
*
10474299 AACTAGATCTCATACTGTATA
1 AACTAGATCTCATACTATATA
10474320 CTACTAATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.10, T:0.33
Consensus pattern (21 bp):
AACTAGATCTCATACTATATA
Found at i:10476364 original size:16 final size:16
Alignment explanation
Indices: 10476343--10476373 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
10476333 TGACTCATCA
10476343 GATCTAGTCTTGATCC
1 GATCTAGTCTTGATCC
10476359 GATCTAGTCTTGATC
1 GATCTAGTCTTGATC
10476374 TTATATACCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (16 bp):
GATCTAGTCTTGATCC
Found at i:10479382 original size:32 final size:33
Alignment explanation
Indices: 10479338--10479399 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 33
10479328 AATTAATATT
* *
10479338 TAAATCAATATCAAATTAATATATAATATTCTC
1 TAAATCAATATCAAATCAATATAGAATATTCTC
*
10479371 TAAAT-AATATCAAATCAATCTAGAATATT
1 TAAATCAATATCAAATCAATATAGAATATT
10479400 ACTGAAATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 21 0.81
33 5 0.19
ACGTcount: A:0.50, C:0.11, G:0.02, T:0.37
Consensus pattern (33 bp):
TAAATCAATATCAAATCAATATAGAATATTCTC
Found at i:10479408 original size:32 final size:32
Alignment explanation
Indices: 10479339--10479408 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
10479329 ATTAATATTT
* * *
10479339 AAATCAATATCAAATTAATATATAATATTCTCT
1 AAAT-AATATCAAATCAATATAGAATATTCTCG
*
10479372 AAATAATATCAAATCAATCTAGAATATTACT-G
1 AAATAATATCAAATCAATATAGAATATT-CTCG
10479404 AAATA
1 AAATA
10479409 TTAATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
32 26 0.81
33 6 0.19
ACGTcount: A:0.51, C:0.11, G:0.03, T:0.34
Consensus pattern (32 bp):
AAATAATATCAAATCAATATAGAATATTCTCG
Found at i:10495901 original size:20 final size:20
Alignment explanation
Indices: 10495864--10495902 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10495854 TATCACATTA
* *
10495864 AGTAACATATTCATAATTTC
1 AGTAACATATTAAAAATTTC
*
10495884 AGTATCATATTAAAAATTT
1 AGTAACATATTAAAAATTT
10495903 TTTAAACCTC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (20 bp):
AGTAACATATTAAAAATTTC
Found at i:10496452 original size:40 final size:40
Alignment explanation
Indices: 10496397--10496477 Score: 144
Period size: 40 Copynumber: 2.0 Consensus size: 40
10496387 TTTCCAACAG
*
10496397 AAGTTTCCTTCCAAACCTTAGCAAATTCATATTTGCATGC
1 AAGTTTCCTTCCAAACCTTAGCAAAGTCATATTTGCATGC
*
10496437 AAGTTTCCTTCCAAACCTTAGCAAAGTCATATTTGTATGC
1 AAGTTTCCTTCCAAACCTTAGCAAAGTCATATTTGCATGC
10496477 A
1 A
10496478 GTATTTCTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (40 bp):
AAGTTTCCTTCCAAACCTTAGCAAAGTCATATTTGCATGC
Found at i:10505542 original size:20 final size:18
Alignment explanation
Indices: 10505490--10505542 Score: 52
Period size: 20 Copynumber: 2.8 Consensus size: 18
10505480 GTATTCATAT
10505490 ATATAATTTTTATATAAA
1 ATATAATTTTTATATAAA
**
10505508 ATATAATATAAATATATAAA
1 ATATAAT-T-TTTATATAAA
* *
10505528 TTTTAATTTTTATAT
1 ATATAATTTTTATAT
10505543 GATATAAATA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
18 12 0.44
19 2 0.07
20 13 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
ATATAATTTTTATATAAA
Found at i:10505570 original size:31 final size:31
Alignment explanation
Indices: 10505508--10505569 Score: 79
Period size: 31 Copynumber: 2.0 Consensus size: 31
10505498 TTTATATAAA
* * *
10505508 ATATAATATAAATATATAAATTTTAATTTTT
1 ATATAATATAAATATACAAATATCAATTTTT
*
10505539 ATATGATATAAATATACAAATCATCAATTTT
1 ATATAATATAAATATACAAAT-ATCAATTTT
10505570 AAATTAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (31 bp):
ATATAATATAAATATACAAATATCAATTTTT
Found at i:10507589 original size:21 final size:20
Alignment explanation
Indices: 10507560--10507599 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
10507550 TGTAATTTTA
*
10507560 ATATTCTTTTGATAACTTATG
1 ATATACTTTTGATAA-TTATG
10507581 ATATACTTTTGATAATTAT
1 ATATACTTTTGATAATTAT
10507600 TGTCAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.33, C:0.07, G:0.07, T:0.53
Consensus pattern (20 bp):
ATATACTTTTGATAATTATG
Found at i:10507890 original size:22 final size:22
Alignment explanation
Indices: 10507865--10507928 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
10507855 ATAATTGATA
*
10507865 ATTAAGTTATTATTAATATACT
1 ATTAAGTTATTAATAATATACT
* *
10507887 ATTATA-TTATTAATGATTTACT
1 ATTA-AGTTATTAATAATATACT
* * *
10507909 ATTAAGATATCAATGATATA
1 ATTAAGTTATTAATAATATA
10507929 TTGCTAAATT
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.42, C:0.05, G:0.06, T:0.47
Consensus pattern (22 bp):
ATTAAGTTATTAATAATATACT
Found at i:10508012 original size:22 final size:22
Alignment explanation
Indices: 10507986--10508039 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
10507976 TTATTTATAA
* * *
10507986 ATAATTTATTACTAAGTTA-TG
1 ATAATTCACTACTAAATTATTG
10508007 ATTAATTCACTACTAAATTATTG
1 A-TAATTCACTACTAAATTATTG
10508030 ATAATT-ACTA
1 ATAATTCACTA
10508040 ATTTGCTACT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
21 5 0.18
22 20 0.71
23 3 0.11
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (22 bp):
ATAATTCACTACTAAATTATTG
Found at i:10508382 original size:22 final size:22
Alignment explanation
Indices: 10508038--10508500 Score: 110
Period size: 22 Copynumber: 21.0 Consensus size: 22
10508028 TGATAATTAC
* *
10508038 TAATTTGCTACTAAATTATCACT
1 TAATTTACTATTAAATTATCA-T
* * * *
10508061 T-ATTTACAATTAAACTATTAG
1 TAATTTACTATTAAATTATCAT
* * * * *
10508082 TGATTTAATACTAAGTTATCAA
1 TAATTTACTATTAAATTATCAT
* *
10508104 TAATTTAC-ATTTAAATTATTAA
1 TAATTTACTA-TTAAATTATCAT
* * ** *
10508126 TGATTTACTGTTATGTTATTAT
1 TAATTTACTATTAAATTATCAT
* *
10508148 GT-ATTTACTACTATATTATCAT
1 -TAATTTACTATTAAATTATCAT
* *
10508170 TAATTTACTACTT-AGTTCTCGAT
1 TAATTTACTA-TTAAATTATC-AT
* ** *
10508193 T-ATTTATTAAAAAATCATCA-
1 TAATTTACTATTAAATTATCAT
* * * *
10508213 TAGATTTATTGTAAAATTAAC-T
1 TA-ATTTACTATTAAATTATCAT
* * * *
10508235 ATGATTCATTATTAAGTTATCAT
1 -TAATTTACTATTAAATTATCAT
*
10508258 TAATTTA-TATTAAATTATCCT
1 TAATTTACTATTAAATTATCAT
* * *
10508279 TGATTAACTATTAAGTTATTGATGAT
1 TAATTTACTATTAA---ATT-ATCAT
* *
10508305 TAA-CTACTATTAAGTTAT-AT
1 TAATTTACTATTAAATTATCAT
* *
10508325 TAATTTACT-TTAAAGTTTTCAA
1 TAATTTACTATTAAA-TTATCAT
* * *
10508347 TGA-TAAATCATTAAATTATCAT
1 TAATTTACT-ATTAAATTATCAT
* * *
10508369 TAATTTATTATTAAGTTAT-TT
1 TAATTTACTATTAAATTATCAT
* * *
10508390 ATAATTTACTACTCAATTTATTAAT
1 -TAATTTACTA-TTAAATTA-TCAT
* *
10508415 TAA-TTACTATTAAATT-TAAAC
1 TAATTTACTATTAAATTAT-CAT
* * *
10508436 TGATTTACTATTAAGTTATCAC
1 TAATTTACTATTAAATTATCAT
* * *
10508458 TAATTTATTATTAACTTATCAC
1 TAATTTACTATTAAATTATCAT
* * *
10508480 TGATTTATTATTAAGTTATCA
1 TAATTTACTATTAAATTATCA
10508501 ATTATTAACA
Statistics
Matches: 321, Mismatches: 88, Indels: 63
0.68 0.19 0.13
Matches are distributed among these distances:
20 11 0.03
21 38 0.12
22 222 0.69
23 29 0.09
24 4 0.01
25 12 0.04
26 5 0.02
ACGTcount: A:0.37, C:0.09, G:0.06, T:0.48
Consensus pattern (22 bp):
TAATTTACTATTAAATTATCAT
Found at i:10508419 original size:90 final size:89
Alignment explanation
Indices: 10508265--10508476 Score: 209
Period size: 90 Copynumber: 2.4 Consensus size: 89
10508255 CATTAATTTA
* * * * *
10508265 TATTAAATTATCCTTGATTAACTATTAAGTTATTGATGATTAACTACTATTAAGTTATATTAATT
1 TATTAAATTATCATTAATTTATTATTAAGTTATTGATAATTAACTACTATTAAGTTATATTAA-T
*
10508330 TACT-TTAAAGTTTTCAA-TGATAAA-
65 TACTATTAAA--TTTAAACTGATAAAC
* * *
10508354 TCATTAAATTATCATTAATTTATTATTAAGTTATTTATAATTTACTACTCAATTTA-TTA-ATTA
1 T-ATTAAATTATCATTAATTTATTATTAAGTTATTGATAATTAACTACT--ATTAAGTTATATTA
**
10508417 ATTACTATTAAATTTAAACTGATTTAC
63 ATTACTATTAAATTTAAACTGATAAAC
* * *
10508444 TATTAAGTTATCACTAATTTATTATTAACTTAT
1 TATTAAATTATCATTAATTTATTATTAAGTTAT
10508477 CACTGATTTA
Statistics
Matches: 103, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
88 5 0.05
89 40 0.39
90 51 0.50
91 3 0.03
92 4 0.04
ACGTcount: A:0.38, C:0.08, G:0.05, T:0.49
Consensus pattern (89 bp):
TATTAAATTATCATTAATTTATTATTAAGTTATTGATAATTAACTACTATTAAGTTATATTAATT
ACTATTAAATTTAAACTGATAAAC
Found at i:10508523 original size:44 final size:44
Alignment explanation
Indices: 10508434--10508537 Score: 109
Period size: 44 Copynumber: 2.4 Consensus size: 44
10508424 TTAAATTTAA
* * * ** * * *
10508434 ACTGATTTACTATTAAGTTATCACTAATTTATTATTAACTTATC
1 ACTGATTTATTATTAAGTTATCAATAATTAACAACTAAATCATC
*
10508478 ACTGATTTATTATTAAGTTATCAATTATTAACAACTAAATCATC
1 ACTGATTTATTATTAAGTTATCAATAATTAACAACTAAATCATC
* *
10508522 ACTTATTTTTTATTAA
1 ACTGATTTATTATTAA
10508538 CGTGTTATTA
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.37, C:0.12, G:0.04, T:0.47
Consensus pattern (44 bp):
ACTGATTTATTATTAAGTTATCAATAATTAACAACTAAATCATC
Found at i:10511487 original size:22 final size:21
Alignment explanation
Indices: 10511462--10511551 Score: 65
Period size: 22 Copynumber: 4.1 Consensus size: 21
10511452 CATTTTATAA
10511462 TAAATTATGCATGATTTACTAT
1 TAAATTAT-CATGATTTACTAT
* * *
10511484 TAAATCATTAATGATTAACTAT
1 TAAATTA-TCATGATTTACTAT
* * *
10511506 TATATTATCAATAATTTACTAC
1 TAAATTATC-ATGATTTACTAT
* *
10511528 TAAGTTAT-ATTGATTTACTTT
1 TAAATTATCA-TGATTTACTAT
10511549 TAA
1 TAA
10511552 GTTTTCAATA
Statistics
Matches: 51, Mismatches: 14, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
20 1 0.02
21 12 0.24
22 37 0.73
23 1 0.02
ACGTcount: A:0.39, C:0.09, G:0.06, T:0.47
Consensus pattern (21 bp):
TAAATTATCATGATTTACTAT
Found at i:10511714 original size:22 final size:22
Alignment explanation
Indices: 10511667--10511751 Score: 75
Period size: 22 Copynumber: 3.9 Consensus size: 22
10511657 ACTAAAAATG
* * *
10511667 ATTTACAATTACA-TTATCATTC
1 ATTTACTATTA-AGTTATCAATA
* *
10511689 ATTTACTATTAAGTTCT-AATTG
1 ATTTACTATTAAGTTATCAA-TA
*
10511711 ATTTATTATTAAGTTATCAATA
1 ATTTACTATTAAGTTATCAATA
*
10511733 ATTAACTATTAAGTTATCA
1 ATTTACTATTAAGTTATCA
10511752 CTTATTTTTT
Statistics
Matches: 51, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
21 2 0.04
22 47 0.92
23 2 0.04
ACGTcount: A:0.38, C:0.11, G:0.05, T:0.47
Consensus pattern (22 bp):
ATTTACTATTAAGTTATCAATA
Found at i:10511916 original size:21 final size:21
Alignment explanation
Indices: 10511867--10511959 Score: 73
Period size: 21 Copynumber: 4.3 Consensus size: 21
10511857 ATTTACAAAA
* *
10511867 AAGTTATCAACTATTGATTATT
1 AAGTTATC-ATTATTTATTATT
*
10511889 AAATTATCATTCATTTATT-TT
1 AAGTTATCATT-ATTTATTATT
* * * *
10511910 AAGTTATTACTAATTTGTTACT
1 AAGTTATCA-TTATTTATTATT
10511932 AAGTTATCAATTA-TTATTATT
1 AAGTTATC-ATTATTTATTATT
10511953 AAGTTAT
1 AAGTTAT
10511960 ACTGTTTATG
Statistics
Matches: 55, Mismatches: 12, Indels: 9
0.72 0.16 0.12
Matches are distributed among these distances:
21 30 0.55
22 24 0.44
23 1 0.02
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (21 bp):
AAGTTATCATTATTTATTATT
Found at i:10513468 original size:12 final size:12
Alignment explanation
Indices: 10513453--10513477 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10513443 ATTAGTTAAT
10513453 TAATTTTTAAAA
1 TAATTTTTAAAA
10513465 TAATTTTTAAAA
1 TAATTTTTAAAA
10513477 T
1 T
10513478 GAAATTGCAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATTTTTAAAA
Found at i:10514246 original size:17 final size:17
Alignment explanation
Indices: 10514196--10514246 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 17
10514186 GCTTAATTTT
*
10514196 TTTCT-TTATTTAAAAA
1 TTTCTATTATATAAAAA
* *
10514212 ATTCTATTATATATAAA
1 TTTCTATTATATAAAAA
*
10514229 TTTTTATTATATAAAAA
1 TTTCTATTATATAAAAA
10514246 T
1 T
10514247 ATTAAATACA
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
16 4 0.14
17 24 0.86
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (17 bp):
TTTCTATTATATAAAAA
Found at i:10515621 original size:16 final size:16
Alignment explanation
Indices: 10515597--10515632 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
10515587 TCTCATAAAC
10515597 TTTATTTTAAATTCTAA
1 TTTATTTTAAATT-TAA
10515614 TTTA-TTTAAATTTAA
1 TTTATTTTAAATTTAA
10515629 TTTA
1 TTTA
10515633 AATAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.37
16 8 0.42
17 4 0.21
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTATTTTAAATTTAA
Found at i:10523597 original size:24 final size:27
Alignment explanation
Indices: 10523529--10523598 Score: 78
Period size: 26 Copynumber: 2.7 Consensus size: 27
10523519 TTTAATTCAC
*
10523529 ATATATAT-AAATTAAAAATAAAAATT
1 ATATATATAAAAATAAAAATAAAAATT
*
10523555 ATATATGTAAAAATTAAAAAT--AAATT
1 ATATATATAAAAA-TAAAAATAAAAATT
10523581 -T-TATATAAAAATAAAAAT
1 ATATATATAAAAATAAAAAT
10523599 TAAGTTTAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
23 7 0.18
24 9 0.23
25 1 0.03
26 12 0.31
27 3 0.08
28 7 0.18
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (27 bp):
ATATATATAAAAATAAAAATAAAAATT
Found at i:10525762 original size:23 final size:21
Alignment explanation
Indices: 10525731--10525812 Score: 74
Period size: 23 Copynumber: 3.6 Consensus size: 21
10525721 AATAGATAAT
10525731 TCTATTTAAAATAGATAGTTTTTA
1 TCTA-TTAAAATAGAT--TTTTTA
* *
10525755 ACTATTAAAATCAGATTTTTTG
1 TCTATTAAAAT-AGATTTTTTA
*
10525777 TCTATTCAAAATAAATTTTTTTA
1 TCTATT-AAAATAGA-TTTTTTA
10525800 TCTATTTAAAATA
1 TCTA-TTAAAATA
10525813 TACCATTATG
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
22 12 0.24
23 28 0.57
24 9 0.18
ACGTcount: A:0.39, C:0.07, G:0.05, T:0.49
Consensus pattern (21 bp):
TCTATTAAAATAGATTTTTTA
Found at i:10528849 original size:24 final size:24
Alignment explanation
Indices: 10528803--10528849 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
10528793 TATTGATTTT
* * *
10528803 TTTCTTTTTTGTCTCATTATTGAA
1 TTTCTTTGTTATCTAATTATTGAA
*
10528827 TTTCTTTGTTATCTAATTCTTGA
1 TTTCTTTGTTATCTAATTATTGA
10528850 CTTAAATTCC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.13, G:0.09, T:0.62
Consensus pattern (24 bp):
TTTCTTTGTTATCTAATTATTGAA
Found at i:10531572 original size:11 final size:11
Alignment explanation
Indices: 10531556--10531589 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
10531546 AACTGAAAAC
*
10531556 AATATAATGAT
1 AATATAATAAT
10531567 AATATAATAAT
1 AATATAATAAT
10531578 AATAATAATAAT
1 AAT-ATAATAAT
10531590 CTCTTAAGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (11 bp):
AATATAATAAT
Found at i:10532338 original size:25 final size:26
Alignment explanation
Indices: 10532273--10532341 Score: 74
Period size: 26 Copynumber: 2.8 Consensus size: 26
10532263 AACAAATATA
*
10532273 ATTATATAATTAC-AT-AATAATTTT
1 ATTATATTATTACAATAAATAATTTT
*
10532297 ATTATTTTATTACAATAAATAATTTT
1 ATTATATTATTACAATAAATAATTTT
*
10532323 CATT-TATTA-TATAATAAAT
1 -ATTATATTATTACAATAAAT
10532342 TAATAAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
24 11 0.29
25 11 0.29
26 13 0.34
27 3 0.08
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTATATTATTACAATAAATAATTTT
Found at i:10532713 original size:21 final size:20
Alignment explanation
Indices: 10532661--10532722 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
10532651 ACATATCACG
*
10532661 AAAAATATAGACATAAATAA-T
1 AAAAA-ATAGATATAAA-AATT
10532682 AAAAAAT-GATATAAAAATT
1 AAAAAATAGATATAAAAATT
10532701 AAGAAAATAGATA-AAAAGATT
1 AA-AAAATAGATATAAAA-ATT
10532722 A
1 A
10532723 TTGCAAATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
18 2 0.06
19 10 0.28
20 11 0.31
21 13 0.36
ACGTcount: A:0.68, C:0.02, G:0.08, T:0.23
Consensus pattern (20 bp):
AAAAAATAGATATAAAAATT
Found at i:10537890 original size:2 final size:2
Alignment explanation
Indices: 10537883--10537914 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
10537873 AATGGGATAC
10537883 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
10537915 GAGACTTAGG
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):
AT
Found at i:10540346 original size:12 final size:12
Alignment explanation
Indices: 10540329--10540353 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10540319 TTATCATTTT
10540329 AAATTTTAAATA
1 AAATTTTAAATA
10540341 AAATTTTAAATA
1 AAATTTTAAATA
10540353 A
1 A
10540354 TTTTAGTTAA
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
AAATTTTAAATA
Found at i:10541327 original size:14 final size:15
Alignment explanation
Indices: 10541304--10541332 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
10541294 CTTACGTCAG
10541304 AAAACTAAAAAAAAA
1 AAAACTAAAAAAAAA
10541319 AAAAC-AAAAAAAAA
1 AAAACTAAAAAAAAA
10541333 CTTTAACTTT
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:0.90, C:0.07, G:0.00, T:0.03
Consensus pattern (15 bp):
AAAACTAAAAAAAAA
Found at i:10543756 original size:5 final size:5
Alignment explanation
Indices: 10543733--10543785 Score: 52
Period size: 5 Copynumber: 10.6 Consensus size: 5
10543723 AAATATTTAT
* * * * * *
10543733 AAAGG AAATG AAGGG AAAGG AAAGG AAAGG AAGGG AAAGA AAAAG AAAAG
1 AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG AAAGG
10543783 AAA
1 AAA
10543786 ATTTTTTAAA
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
5 39 1.00
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (5 bp):
AAAGG
Found at i:10543780 original size:20 final size:20
Alignment explanation
Indices: 10543737--10543780 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
10543727 ATTTATAAAG
* * *
10543737 GAAATGAAGGGAAAGGAAAG
1 GAAAGGAAGGGAAAGAAAAA
10543757 GAAAGGAAGGGAAAGAAAAA
1 GAAAGGAAGGGAAAGAAAAA
10543777 GAAA
1 GAAA
10543781 AGAAAATTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.36, T:0.02
Consensus pattern (20 bp):
GAAAGGAAGGGAAAGAAAAA
Found at i:10544926 original size:11 final size:11
Alignment explanation
Indices: 10544910--10544951 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
10544900 AATCCCATAA
10544910 GAGATTTGTTT
1 GAGATTTGTTT
*
10544921 GAGATTTGTTA
1 GAGATTTGTTT
10544932 GAGATTTGTTT
1 GAGATTTGTTT
10544943 GAGATTTGT
1 GAGATTTGT
10544952 CAGATATTGC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.21, C:0.00, G:0.29, T:0.50
Consensus pattern (11 bp):
GAGATTTGTTT
Found at i:10544937 original size:22 final size:22
Alignment explanation
Indices: 10544909--10544951 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
10544899 AAATCCCATA
10544909 AGAGATTTGTTTGAGATTTGTT
1 AGAGATTTGTTTGAGATTTGTT
10544931 AGAGATTTGTTTGAGATTTGT
1 AGAGATTTGTTTGAGATTTGT
10544952 CAGATATTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.49
Consensus pattern (22 bp):
AGAGATTTGTTTGAGATTTGTT
Found at i:10545062 original size:52 final size:52
Alignment explanation
Indices: 10544976--10545132 Score: 192
Period size: 52 Copynumber: 3.0 Consensus size: 52
10544966 TGGACAAGAA
* * *
10544976 GACTTGCAAAAGAAGAATT-T-CAAGAGAAAGAGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAG-GAAA-AGGATTCTTAATAGGCAAGTTT
10545028 GACTTGCAAGAGAAGAATTCTAAAAGGAAAAGGATTCTTAATAGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAGGAAAAGGATTCTTAATAGGCAAGTTT
** * * * * *
10545080 GACTTATAGGAGAAGAATTCTAAGAGGAGAGGGATTCTTAATGGGCAAGTTT
1 GACTTGCAAGAGAAGAATTCTAAAAGGAAAAGGATTCTTAATAGGCAAGTTT
10545132 G
1 G
10545133 TATGGTTATA
Statistics
Matches: 93, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
52 85 0.91
53 5 0.05
54 3 0.03
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.26
Consensus pattern (52 bp):
GACTTGCAAGAGAAGAATTCTAAAAGGAAAAGGATTCTTAATAGGCAAGTTT
Found at i:10549768 original size:23 final size:23
Alignment explanation
Indices: 10549725--10549769 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
10549715 TAATTTAATT
*
10549725 ATTTTATTAAATTTATATATTAA
1 ATTTTATTAAATTGATATATTAA
*
10549748 ATTTT-TTAAATATGATTTATTA
1 ATTTTATTAAAT-TGATATATTA
10549770 CGTAGCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 6 0.32
23 13 0.68
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (23 bp):
ATTTTATTAAATTGATATATTAA
Found at i:10550815 original size:12 final size:12
Alignment explanation
Indices: 10550798--10550827 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
10550788 ATATTTGAGC
10550798 TTATAAATTATA
1 TTATAAATTATA
10550810 TTATAAATTATA
1 TTATAAATTATA
10550822 TATATA
1 T-TATA
10550828 TATATTTACA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTATAAATTATA
Found at i:10552136 original size:41 final size:41
Alignment explanation
Indices: 10552079--10552172 Score: 111
Period size: 41 Copynumber: 2.2 Consensus size: 41
10552069 TTTTTAAAAA
*
10552079 TTTTTTATTTATTTTTTTT-AGAAAAGACAAAATTA-TTTTTTC
1 TTTTTT-TTT-TTTTTTTTGA-AAAAGACAAAATAATTTTTTTC
* *
10552121 TTTTTTCTTTTTTTTTTTGAAAAAGATAGAATAATTTTTTTC
1 TTTTTT-TTTTTTTTTTTGAAAAAGACAAAATAATTTTTTTC
10552163 TTTTTTTTTT
1 TTTTTTTTTT
10552173 CTAAAAAATC
Statistics
Matches: 46, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
41 23 0.50
42 23 0.50
ACGTcount: A:0.26, C:0.04, G:0.05, T:0.65
Consensus pattern (41 bp):
TTTTTTTTTTTTTTTTTGAAAAAGACAAAATAATTTTTTTC
Found at i:10552239 original size:20 final size:20
Alignment explanation
Indices: 10552202--10552239 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
10552192 AATATGGTTA
*
10552202 AAAATAAATAAATTAAAATT
1 AAAATAAATAAATAAAAATT
10552222 AAAATCAAA-AAATAAAAA
1 AAAAT-AAATAAATAAAAA
10552240 AAAATGATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 13 0.81
21 3 0.19
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAATAAATAAATAAAAATT
Found at i:10560018 original size:42 final size:40
Alignment explanation
Indices: 10559962--10560051 Score: 128
Period size: 42 Copynumber: 2.2 Consensus size: 40
10559952 TTTTTTAAAA
10559962 TTTTTTTTTATTTTTTTT-AGAAAAGATAAAATATTTTTTTC
1 TTTTTTTTTATTTTTTTTGA-AAAAGATAAAATA-TTTTTTC
* *
10560003 TTTTTTCTTTTTTTTTTTTGAAAAAGATAGAATATTTTTTC
1 TTTTTT-TTTATTTTTTTTGAAAAAGATAAAATATTTTTTC
10560044 TTTTTTTT
1 TTTTTTTT
10560052 CTAAAAAATC
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
40 2 0.04
41 19 0.42
42 23 0.51
43 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (40 bp):
TTTTTTTTTATTTTTTTTGAAAAAGATAAAATATTTTTTC
Found at i:10560019 original size:41 final size:41
Alignment explanation
Indices: 10559962--10560051 Score: 130
Period size: 41 Copynumber: 2.2 Consensus size: 41
10559952 TTTTTTAAAA
10559962 TTTTTTTTTATTTTTTTTAG-AAAAGATAAAATATTTTTTTC
1 TTTTTTTTTATTTTTTTTAGAAAAAGATAAAATA-TTTTTTC
* *
10560003 TTTTTTCTTT-TTTTTTTTTGAAAAAGATAGAATATTTTTTC
1 TTTTTT-TTTATTTTTTTTAGAAAAAGATAAAATATTTTTTC
10560044 TTTTTTTT
1 TTTTTTTT
10560052 CTAAAAAATC
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
40 2 0.04
41 28 0.62
42 15 0.33
ACGTcount: A:0.24, C:0.03, G:0.06, T:0.67
Consensus pattern (41 bp):
TTTTTTTTTATTTTTTTTAGAAAAAGATAAAATATTTTTTC
Found at i:10560512 original size:12 final size:10
Alignment explanation
Indices: 10560470--10560507 Score: 60
Period size: 10 Copynumber: 3.8 Consensus size: 10
10560460 TCAACCAAAC
10560470 CCAAAAAA-T
1 CCAAAAAATT
10560479 CCAGAAAAATT
1 CCA-AAAAATT
10560490 CCAAAAAATT
1 CCAAAAAATT
10560500 CCAAAAAA
1 CCAAAAAA
10560508 AATTCTCAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
9 3 0.11
10 20 0.74
11 4 0.15
ACGTcount: A:0.63, C:0.21, G:0.03, T:0.13
Consensus pattern (10 bp):
CCAAAAAATT
Found at i:10560947 original size:3 final size:3
Alignment explanation
Indices: 10560919--10560977 Score: 84
Period size: 3 Copynumber: 19.7 Consensus size: 3
10560909 AAATAGAAAA
* *
10560919 AAT AAA AAT AAA AAT AA- AAGT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
10560964 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
10560978 CAACAATAAC
Statistics
Matches: 50, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
2 2 0.04
3 46 0.92
4 2 0.04
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:10561992 original size:24 final size:24
Alignment explanation
Indices: 10561963--10562009 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
10561953 TAATTTTAAA
* * *
10561963 TCATATCATTTTGATATTTTATTT
1 TCATATCATATTCATATTGTATTT
10561987 TCATATCATATTCATATTGTATT
1 TCATATCATATTCATATTGTATT
10562010 ATTGTATTGT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.57
Consensus pattern (24 bp):
TCATATCATATTCATATTGTATTT
Found at i:10565517 original size:52 final size:50
Alignment explanation
Indices: 10565439--10565594 Score: 177
Period size: 52 Copynumber: 3.0 Consensus size: 50
10565429 ATAACCATAT
* * * *
10565439 AAACTTGCATACTAAGAATCTATTTTCTTTTAAAATTATTCTCTTACAAGTC
1 AAACTTGCCTATTAAGAATCT-TTTTCTTTTAAAATT-TTTTTTTACAAGTC
* **
10565491 AAACTTGCCTATTAAGAATCTCTTTTCCTCTTAAAATTTTTTTTTGTAAGTC
1 AAACTTGCCTATTAAGAATCT-TTTT-CTTTTAAAATTTTTTTTTACAAGTC
* *
10565543 AAACTTGTCTATTAAAAATCTTCTTTCTTTTAAAATTCTTTTTTTACAAGTC
1 AAACTTGCCTATTAAGAATCTT-TTTCTTTTAAAATT-TTTTTTTACAAGTC
10565595 TTCTTGTCTA
Statistics
Matches: 88, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
51 11 0.12
52 67 0.76
53 10 0.11
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.47
Consensus pattern (50 bp):
AAACTTGCCTATTAAGAATCTTTTTCTTTTAAAATTTTTTTTTACAAGTC
Found at i:10565932 original size:25 final size:25
Alignment explanation
Indices: 10565904--10565958 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
10565894 CTCTAACCAT
* *
10565904 GCTCTTCCCACGTCTTGAATCTTTA
1 GCTCTTCCCACATCTCGAATCTTTA
* *
10565929 GCTCTTCTCACATCTCGAATCTTTG
1 GCTCTTCCCACATCTCGAATCTTTA
10565954 GCTCT
1 GCTCT
10565959 GATACCACTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.15, C:0.33, G:0.13, T:0.40
Consensus pattern (25 bp):
GCTCTTCCCACATCTCGAATCTTTA
Found at i:10571646 original size:12 final size:13
Alignment explanation
Indices: 10571623--10571651 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10571613 CTCTGCTTTT
10571623 TTTTTTGTCTCTG
1 TTTTTTGTCTCTG
10571636 TTTTTTG-CTCTG
1 TTTTTTGTCTCTG
10571648 TTTT
1 TTTT
10571652 CAGTCTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.56
13 7 0.44
ACGTcount: A:0.00, C:0.14, G:0.14, T:0.72
Consensus pattern (13 bp):
TTTTTTGTCTCTG
Found at i:10578579 original size:2 final size:2
Alignment explanation
Indices: 10578572--10578602 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10578562 AATTTTATTT
10578572 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 T
10578603 CATAGCACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10583361 original size:3 final size:3
Alignment explanation
Indices: 10583353--10583391 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
10583343 AAGTTTATCC
10583353 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10583392 TATTATTATT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10583396 original size:3 final size:3
Alignment explanation
Indices: 10583390--10583432 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
10583380 AATAATAATA
10583390 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
10583433 CCAACAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 37 0.95
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:10583557 original size:3 final size:3
Alignment explanation
Indices: 10583549--10583578 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
10583539 TTTTTATTTA
10583549 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
10583579 CCACAAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:10583666 original size:2 final size:2
Alignment explanation
Indices: 10583659--10583696 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
10583649 TTGATTATCA
10583659 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
10583697 TGTAAAGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10583697 original size:145 final size:144
Alignment explanation
Indices: 10583362--10583677 Score: 403
Period size: 145 Copynumber: 2.1 Consensus size: 144
10583352 CAATAATAAT
*
10583362 AATAATA-ATA-ATA-ATAATAATAA-TAATAATTAT-TATTATTATTATTATTATTATTATTAT
1 AATAATATATATATATATAATTATAATTAATAATTATATA-TA-TA-TATTATTATTATTATTAT
10583422 TTTATTATTATCCAACAAATTCATTTTTTAAACAGTTATTTTATATCACAAAAGCAAAGCAATAT
63 TTTATTATTATCCAACAAATTCATTTTTTAAACAGTTATTTTATATCACAAAAGCAAAGCAATAT
10583487 GCCTTGACTTTGATATC
128 GCCTTGACTTTGATATC
* * *
10583504 AATAATATATATATATATAATTATAATTAATAAATTTTTTATTTATATTATTATTATTATTATTA
1 AATAATATATATATATATAATTATAATTAAT-AATTATATATATATATTATTATTATTATTATT-
10583569 TTATTATTATCC-ACAAAATTCATTTTTT-AACAGTTCCATTTTATATCACAAAAGCAAAGCCAA
64 TTATTATTATCCAAC-AAATTCATTTTTTAAACAGTT--ATTTTATATCACAAAAGCAAAG-CAA
10583632 TTATGCAGGCTTTGACTTTGATTATC
125 -TATGC---C-TTGACTTTGA-TATC
10583658 AATATATATATATATATATA
1 AATA-ATATATATATATATA
10583678 TATATATATA
Statistics
Matches: 153, Mismatches: 3, Indels: 23
0.85 0.02 0.13
Matches are distributed among these distances:
142 7 0.05
143 3 0.02
144 3 0.02
145 37 0.24
146 31 0.20
147 28 0.18
148 5 0.03
149 5 0.03
152 1 0.01
153 10 0.07
154 8 0.05
155 15 0.10
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.45
Consensus pattern (144 bp):
AATAATATATATATATATAATTATAATTAATAATTATATATATATATTATTATTATTATTATTTT
ATTATTATCCAACAAATTCATTTTTTAAACAGTTATTTTATATCACAAAAGCAAAGCAATATGCC
TTGACTTTGATATC
Found at i:10590029 original size:2 final size:2
Alignment explanation
Indices: 10590022--10590055 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
10590012 TATCGACAGT
10590022 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
10590056 ATAAGTAAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10590433 original size:2 final size:2
Alignment explanation
Indices: 10590428--10590467 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
10590418 TGCTAGGTTT
10590428 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
10590468 ACTCTTACAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10590927 original size:16 final size:16
Alignment explanation
Indices: 10590906--10590943 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
10590896 TAAATATCCC
*
10590906 TTAAAATATATTAA-AA
1 TTAAAAT-TAATAATAA
10590922 TTAAAATTAATAATAA
1 TTAAAATTAATAATAA
10590938 TTAAAA
1 TTAAAA
10590944 AATTAAGTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (16 bp):
TTAAAATTAATAATAA
Found at i:10598188 original size:33 final size:30
Alignment explanation
Indices: 10598147--10598236 Score: 92
Period size: 33 Copynumber: 2.8 Consensus size: 30
10598137 GCAAGTGATC
*
10598147 AAATTATATCCAAACAATAAAAAATAAATAATT
1 AAATTATAT-CAAA-AATAAAAAATAAA-AATA
* *
10598180 AAATTATAT-TAAAATAATAAATAAAAATA
1 AAATTATATCAAAAATAAAAAATAAAAATA
10598209 AAATTATATTCAAATAATGAAAAAATAA
1 AAATTATA-TCAAA-AAT-AAAAAATAA
10598237 TAAAGTAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
29 11 0.23
30 13 0.27
31 4 0.08
32 3 0.06
33 17 0.35
ACGTcount: A:0.66, C:0.04, G:0.01, T:0.29
Consensus pattern (30 bp):
AAATTATATCAAAAATAAAAAATAAAAATA
Found at i:10598201 original size:26 final size:27
Alignment explanation
Indices: 10598164--10598236 Score: 80
Period size: 29 Copynumber: 2.7 Consensus size: 27
10598154 ATCCAAACAA
*
10598164 TAAAA-AATAAAT-AATTAAATTATAT
1 TAAAATAATAAATAAATAAAATTATAT
10598189 TAAAATAATAAATAAAAATAAAATTATAT
1 TAAAATAATAAAT--AAATAAAATTATAT
*
10598218 TCAAATAATGAAA-AAATAA
1 TAAAATAAT-AAATAAATAA
10598237 TAAAGTAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
25 5 0.12
26 7 0.17
27 6 0.15
29 20 0.49
30 3 0.07
ACGTcount: A:0.67, C:0.01, G:0.01, T:0.30
Consensus pattern (27 bp):
TAAAATAATAAATAAATAAAATTATAT
Found at i:10598223 original size:29 final size:30
Alignment explanation
Indices: 10598162--10598250 Score: 110
Period size: 30 Copynumber: 3.0 Consensus size: 30
10598152 ATATCCAAAC
* * *
10598162 AATAAAAAATAAATAATTAAATTATATTAA
1 AATAATAAATAAATAATAAAATTATATTCA
10598192 AATAATAAATAAA-AATAAAATTATATTCA
1 AATAATAAATAAATAATAAAATTATATTCA
* *
10598221 AATAATGAAA-AAATAATAAAGTAATATTCA
1 AATAAT-AAATAAATAATAAAATTATATTCA
10598251 CACAATTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
29 23 0.44
30 29 0.56
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.30
Consensus pattern (30 bp):
AATAATAAATAAATAATAAAATTATATTCA
Done.