Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167926.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_19, 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: 20060819
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 113000 characters in sequence are not A, C, G, or T
File 29 of 117
Found at i:4174618 original size:24 final size:24
Alignment explanation
Indices: 4174566--4174611 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
4174556 AAATTGTTTC
**
4174566 ATAAAAAATATGAATTGTTTCATA
1 ATAAAAAATATGAATTACTTCATA
*
4174590 ATAAACAATATGAATTACTTCA
1 ATAAAAAATATGAATTACTTCA
4174612 AATTAAAGCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.09, G:0.07, T:0.35
Consensus pattern (24 bp):
ATAAAAAATATGAATTACTTCATA
Found at i:4178171 original size:32 final size:33
Alignment explanation
Indices: 4178107--4178178 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 33
4178097 TACTTAATAA
* *
4178107 TTTATATATTTCTATCATATAAAATATTAAAAT
1 TTTATATATTTCAATCATATAAAATATAAAAAT
***
4178140 TTTATATATTT-AATCATATTTTATATAAAAAT
1 TTTATATATTTCAATCATATAAAATATAAAAAT
*
4178172 TATATAT
1 TTTATAT
4178179 TATAAATATT
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
32 22 0.67
33 11 0.33
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (33 bp):
TTTATATATTTCAATCATATAAAATATAAAAAT
Found at i:4181283 original size:22 final size:22
Alignment explanation
Indices: 4181257--4181300 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4181247 TGTATATTTA
*
4181257 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
4181279 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
4181301 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:4181489 original size:23 final size:25
Alignment explanation
Indices: 4181448--4181507 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
4181438 AAAATTTTCA
* *
4181448 GCCTTCATTGCTG-ACTTT-TTTAG
1 GCCTTCATTGCCGAATTTTGTTTAG
4181471 GCCTTCATTGCCGAATTTTGTTTAG
1 GCCTTCATTGCCGAATTTTGTTTAG
*
4181496 GTCTTCATTGCC
1 GCCTTCATTGCC
4181508 AAACCCTTTC
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
23 12 0.38
24 4 0.12
25 16 0.50
ACGTcount: A:0.13, C:0.23, G:0.18, T:0.45
Consensus pattern (25 bp):
GCCTTCATTGCCGAATTTTGTTTAG
Found at i:4185177 original size:22 final size:22
Alignment explanation
Indices: 4185151--4185194 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
4185141 TGTATATTTA
*
4185151 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
4185173 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
4185195 GAAGATTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:4193786 original size:27 final size:27
Alignment explanation
Indices: 4193732--4193799 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 27
4193722 GAATTATTGT
*
4193732 AATTAAAATTAAA-AAATATTCACAAAA
1 AATTAATATTAAATAAATATTCAC-AAA
* * *
4193759 AATTTATATTAAATAAAT-TTTACTAA
1 AATTAATATTAAATAAATATTCACAAA
4193785 AATTAATATTTAAAT
1 AATTAATA-TTAAAT
4193800 TTAATTAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
26 9 0.26
27 21 0.62
28 4 0.12
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.38
Consensus pattern (27 bp):
AATTAATATTAAATAAATATTCACAAA
Found at i:4194511 original size:24 final size:24
Alignment explanation
Indices: 4194484--4194541 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
4194474 TTTATATATA
4194484 ATTATTATTAAAATTTTAAATTAT
1 ATTATTATTAAAATTTTAAATTAT
* * * * *
4194508 ATTATTTTTATATTTTTTATTTAT
1 ATTATTATTAAAATTTTAAATTAT
*
4194532 ATTATAATTA
1 ATTATTATTA
4194542 TATTATATTA
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATTATTATTAAAATTTTAAATTAT
Found at i:4194532 original size:13 final size:13
Alignment explanation
Indices: 4194504--4194570 Score: 50
Period size: 13 Copynumber: 5.1 Consensus size: 13
4194494 AAATTTTAAA
4194504 TTATA-TTATT-T
1 TTATATTTATTAT
*
4194515 TTATATTTTTTAT
1 TTATATTTATTAT
4194528 TTATATTATAATTAT
1 TTATATT-T-ATTAT
4194543 ATTATA-TTATTAT
1 -TTATATTTATTAT
* *
4194556 GTCATATTTTTTAT
1 -TTATATTTATTAT
4194570 T
1 T
4194571 ATAAGCTCTA
Statistics
Matches: 45, Mismatches: 5, Indels: 10
0.75 0.08 0.17
Matches are distributed among these distances:
11 5 0.11
12 4 0.09
13 18 0.40
14 8 0.18
15 5 0.11
16 5 0.11
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (13 bp):
TTATATTTATTAT
Found at i:4194546 original size:5 final size:5
Alignment explanation
Indices: 4194503--4194552 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
4194493 AAAATTTTAA
* *
4194503 ATTAT ATTATT TTTAT ATT-T TTTAT -TTAT ATTAT AATTAT ATTAT ATTAT
1 ATTAT ATTA-T ATTAT ATTAT ATTAT ATTAT ATTAT -ATTAT ATTAT ATTAT
4194553 TATGTCATAT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
4 7 0.18
5 22 0.58
6 9 0.24
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (5 bp):
ATTAT
Found at i:4194548 original size:11 final size:10
Alignment explanation
Indices: 4194503--4194552 Score: 50
Period size: 11 Copynumber: 5.0 Consensus size: 10
4194493 AAAATTTTAA
4194503 ATTATATTATT
1 ATTATATTA-T
*
4194514 TTTATATT-T
1 ATTATATTAT
*
4194523 TTTAT-TTAT
1 ATTATATTAT
4194532 ATTATAATTAT
1 ATTAT-ATTAT
4194543 ATTATATTAT
1 ATTATATTAT
4194553 TATGTCATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
8 2 0.06
9 11 0.32
10 5 0.15
11 16 0.47
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
ATTATATTAT
Found at i:4194555 original size:24 final size:23
Alignment explanation
Indices: 4194503--4194555 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 23
4194493 AAAATTTTAA
** *
4194503 ATTATATTATTTTTATATTTTTT
1 ATTATATTATAATTATATTTATT
4194526 ATTTATATTATAATTATATTATATT
1 A-TTATATTATAATTATATT-TATT
4194551 ATTAT
1 ATTAT
4194556 GTCATATTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
23 1 0.04
24 20 0.80
25 4 0.16
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (23 bp):
ATTATATTATAATTATATTTATT
Found at i:4195305 original size:19 final size:19
Alignment explanation
Indices: 4195268--4195317 Score: 77
Period size: 18 Copynumber: 2.7 Consensus size: 19
4195258 TAATTTAAAA
4195268 TTAATA-AAATATTATTTT
1 TTAATATAAATATTATTTT
4195286 TTAAATATAAATATTA-TTT
1 TT-AATATAAATATTATTTT
4195305 TTAATATAAATAT
1 TTAATATAAATAT
4195318 AAAATTAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
18 13 0.43
19 9 0.30
20 8 0.27
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAATATAAATATTATTTT
Found at i:4195326 original size:12 final size:12
Alignment explanation
Indices: 4195311--4195365 Score: 62
Period size: 12 Copynumber: 4.7 Consensus size: 12
4195301 ATTTTTAATA
4195311 TAAATATAAAAT
1 TAAATATAAAAT
*
4195323 TAAATAT-ATA-
1 TAAATATAAAAT
4195333 TAAATATAAAAT
1 TAAATATAAAAT
4195345 TAAATA-AATAAT
1 TAAATATAA-AAT
4195357 TAAAATATA
1 T-AAATATA
4195366 TATATTATGA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 7 0.19
11 6 0.17
12 17 0.47
13 5 0.14
14 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TAAATATAAAAT
Found at i:4195328 original size:18 final size:18
Alignment explanation
Indices: 4195286--4195369 Score: 61
Period size: 18 Copynumber: 4.8 Consensus size: 18
4195276 ATATTATTTT
* **
4195286 TTAAATATAAATATTATT
1 TTAAATATAAATATAAAA
*
4195304 TTTAATATAAATATAAAA
1 TTAAATATAAATATAAAA
4195322 TTAAATAT--ATATAAATA
1 TTAAATATAAATATAAA-A
*
4195339 TAAAAT-TAAATA-AATAA
1 TTAAATATAAATATAA-AA
*
4195356 TTAAA-ATATATATA
1 TTAAATATAAATATA
4195370 TTATGACAGA
Statistics
Matches: 52, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
16 8 0.15
17 18 0.35
18 26 0.50
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAAATATAAATATAAAA
Found at i:4195335 original size:16 final size:16
Alignment explanation
Indices: 4195314--4195369 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 16
4195304 TTTAATATAA
4195314 ATATAAAATTAAATAT
1 ATATAAAATTAAATAT
*
4195330 ATATAAATATAAAAT-T
1 ATATAAA-ATTAAATAT
*
4195346 AAATAAATAATTAAAATAT
1 ATAT-AA-AATT-AAATAT
4195365 ATATA
1 ATATA
4195370 TTATGACAGA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
16 11 0.35
17 10 0.32
18 6 0.19
19 4 0.13
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
ATATAAAATTAAATAT
Found at i:4195336 original size:22 final size:22
Alignment explanation
Indices: 4195308--4195350 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
4195298 ATTATTTTTA
4195308 ATATAAATATAAAATTAAATAT
1 ATATAAATATAAAATTAAATAT
4195330 ATATAAATATAAAATTAAATA
1 ATATAAATATAAAATTAAATA
4195351 AATAATTAAA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
ATATAAATATAAAATTAAATAT
Found at i:4196624 original size:19 final size:19
Alignment explanation
Indices: 4196602--4196640 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
4196592 AATATTATTT
*
4196602 TTAAATATA-AATATAAAAA
1 TTAAATAAATAATA-AAAAA
4196621 TTAAATAAATAATAAAAAA
1 TTAAATAAATAATAAAAAA
4196640 T
1 T
4196641 AATATATTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (19 bp):
TTAAATAAATAATAAAAAA
Found at i:4203152 original size:21 final size:20
Alignment explanation
Indices: 4203128--4203170 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
4203118 AATATGATTC
4203128 ATAATTTTAAAAAAATTATAA
1 ATAATTTTAAAAAAATTA-AA
*
4203149 ATAATTTTAATAAAATTAAA
1 ATAATTTTAAAAAAATTAAA
4203169 AT
1 AT
4203171 TTTATATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
ATAATTTTAAAAAAATTAAA
Found at i:4203203 original size:32 final size:34
Alignment explanation
Indices: 4203149--4203257 Score: 88
Period size: 32 Copynumber: 3.3 Consensus size: 34
4203139 AAAATTATAA
* *
4203149 ATAATTTTAATAA--AAT-TAAAATTTTATATTTT
1 ATAATTTTTATAATTAATATAAAA-TTTATATTAT
*
4203181 ATAA-TTTTAT-ATTAATAT-AAA-TTATAATAT
1 ATAATTTTTATAATTAATATAAAATTTATATTAT
* *
4203211 ATAATTTTTATAATTTATATAAAATATTATATAAAT
1 ATAATTTTTATAATTAATATAAAAT-TTATAT-TAT
4203247 ATAATATTTTA
1 ATAAT-TTTTA
4203258 CACGATACGA
Statistics
Matches: 61, Mismatches: 6, Indels: 15
0.74 0.07 0.18
Matches are distributed among these distances:
30 12 0.20
31 11 0.18
32 17 0.28
33 4 0.07
35 5 0.08
36 7 0.11
37 5 0.08
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (34 bp):
ATAATTTTTATAATTAATATAAAATTTATATTAT
Found at i:4203244 original size:30 final size:29
Alignment explanation
Indices: 4203173--4203244 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
4203163 ATTAAAATTT
*
4203173 TATATTTTATAATTTTATATTAATATAAA
1 TATATTATATAATTTTATATTAATATAAA
* *
4203202 TTATAATATATAATTTTTATAATTTATATAAA
1 -TATATTATATAA-TTTTAT-ATTAATATAAA
4203234 -ATATTATATAA
1 TATATTATATAA
4203245 ATATAATATT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 20 0.56
31 6 0.17
32 10 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
TATATTATATAATTTTATATTAATATAAA
Found at i:4203827 original size:75 final size:74
Alignment explanation
Indices: 4203706--4203872 Score: 221
Period size: 76 Copynumber: 2.2 Consensus size: 74
4203696 TACTGCTTTT
* * * *
4203706 ATTTAATTTTAAAAATTTATTAAAGACAACTTTTTAAGACAAAAATAT-AATTTTGATTGAAAAT
1 ATTTATTTTTTAAAATTTATAAAAAACAACTTTTTAAGACAAAAATATCAATTTTGATTGAAAAT
4203770 ATGAAAAAA
66 ATGAAAAAA
* * * *
4203779 ATTTATTTTTTAAAATTTAATAAAAAACAATGTTTTTAAGATAAAAATATCATTTTTGGTTGAAA
1 ATTTATTTTTTAAAATTT-ATAAAAAACAA-CTTTTTAAGACAAAAATATCAATTTTGATTGAAA
4203844 ATATGAAAAAA
64 ATATGAAAAAA
4203855 A-TTATTTTTTAGAAATTT
1 ATTTATTTTTTA-AAATTT
4203873 TTAATTTAAA
Statistics
Matches: 82, Mismatches: 8, Indels: 5
0.86 0.08 0.05
Matches are distributed among these distances:
73 16 0.20
74 9 0.11
75 27 0.33
76 30 0.37
ACGTcount: A:0.49, C:0.03, G:0.07, T:0.41
Consensus pattern (74 bp):
ATTTATTTTTTAAAATTTATAAAAAACAACTTTTTAAGACAAAAATATCAATTTTGATTGAAAAT
ATGAAAAAA
Found at i:4204089 original size:20 final size:19
Alignment explanation
Indices: 4204043--4204090 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
4204033 TTTAATAAAA
*
4204043 ATAT-TAAATAAACAATTT
1 ATATATAAATAAAAAATTT
*
4204061 ATATTTAAATAAATAAATTT
1 ATATATAAATAAA-AAATTT
*
4204081 TTATATAAAT
1 ATATATAAAT
4204091 TATTTATTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.16
19 8 0.32
20 13 0.52
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (19 bp):
ATATATAAATAAAAAATTT
Found at i:4204185 original size:13 final size:14
Alignment explanation
Indices: 4204156--4204191 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
4204146 TTCACGTATC
4204156 ATTAAATAAAATAT
1 ATTAAATAAAATAT
*
4204170 ATTAAA-AAAATTT
1 ATTAAATAAAATAT
4204183 ATTAAATAA
1 ATTAAATAA
4204192 TTTTATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 12 0.60
14 8 0.40
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATTAAATAAAATAT
Found at i:4207148 original size:10 final size:10
Alignment explanation
Indices: 4207133--4207157 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
4207123 ATACATGAGG
4207133 TTTTCTTTTA
1 TTTTCTTTTA
4207143 TTTTCTTTTA
1 TTTTCTTTTA
4207153 TTTTC
1 TTTTC
4207158 CTACTTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.12, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTCTTTTA
Found at i:4209442 original size:18 final size:19
Alignment explanation
Indices: 4209415--4209450 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
4209405 ACTTTAAATT
4209415 AAAATATAAAAAAATAAAA
1 AAAATATAAAAAAATAAAA
*
4209434 AAAAT-TAAAAAATTAAA
1 AAAATATAAAAAAATAAA
4209451 TTATATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (19 bp):
AAAATATAAAAAAATAAAA
Found at i:4209466 original size:18 final size:19
Alignment explanation
Indices: 4209445--4209482 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
4209435 AAATTAAAAA
*
4209445 ATTAAATTATATAT-TTTT
1 ATTAAATTAAATATATTTT
*
4209463 ATTAATTTAAATATATTTT
1 ATTAAATTAAATATATTTT
4209482 A
1 A
4209483 AATTTTTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTAAATTAAATATATTTT
Found at i:4209550 original size:22 final size:24
Alignment explanation
Indices: 4209518--4209561 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
4209508 TATATATAAA
*
4209518 TTTATTTAAAT-ATAT-TAAAATT
1 TTTATTAAAATAATATATAAAATT
4209540 TTTATTAAAATAATATATAAAA
1 TTTATTAAAATAATATATAAAA
4209562 AATAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 4 0.21
24 5 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTATTAAAATAATATATAAAATT
Found at i:4210247 original size:32 final size:32
Alignment explanation
Indices: 4210200--4210267 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
4210190 ACTTTTTAAT
* *
4210200 TAAATTTGTTTTAAAACTAAAAATAAAAGTGA
1 TAAATTTGATCTAAAACTAAAAATAAAAGTGA
* * * *
4210232 TAAATTTGATCTAAAATTAAAATTATAATTGA
1 TAAATTTGATCTAAAACTAAAAATAAAAGTGA
4210264 TAAA
1 TAAA
4210268 ATCATAATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.53, C:0.03, G:0.07, T:0.37
Consensus pattern (32 bp):
TAAATTTGATCTAAAACTAAAAATAAAAGTGA
Found at i:4218280 original size:22 final size:24
Alignment explanation
Indices: 4218255--4218298 Score: 56
Period size: 22 Copynumber: 1.9 Consensus size: 24
4218245 TAATACATTC
4218255 ATATACTT-TTCAATAT-TATAAA
1 ATATACTTATTCAATATATATAAA
* *
4218277 ATATCCTTATTTAATATATATA
1 ATATACTTATTCAATATATATA
4218299 TATATATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 7 0.39
24 4 0.22
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (24 bp):
ATATACTTATTCAATATATATAAA
Found at i:4218297 original size:2 final size:2
Alignment explanation
Indices: 4218290--4218314 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4218280 TCCTTATTTA
4218290 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
4218315 AATTTTACAT
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:4219718 original size:40 final size:40
Alignment explanation
Indices: 4219663--4219742 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
4219653 TGGTGATCCC
*
4219663 AACAAGTGGTATCAAAGTCGAAGGTTTGAAAATGGAAAGA
1 AACAAGTGGTATCAAAGTCAAAGGTTTGAAAATGGAAAGA
*
4219703 AACAAGTGGTATCAAAGTCAAAGGTTTGAGAATGGAAAGA
1 AACAAGTGGTATCAAAGTCAAAGGTTTGAAAATGGAAAGA
4219743 GGCATGGGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.45, C:0.07, G:0.28, T:0.20
Consensus pattern (40 bp):
AACAAGTGGTATCAAAGTCAAAGGTTTGAAAATGGAAAGA
Found at i:4220107 original size:52 final size:52
Alignment explanation
Indices: 4220015--4220118 Score: 147
Period size: 52 Copynumber: 2.0 Consensus size: 52
4220005 GGATAAGAAG
*
4220015 ACTTGCAAAAGAAGAATTTTAAAAGAAAAAGGATTCTTAATAGGTAAGTTTA
1 ACTTGCAAAAGAAGAATTCTAAAAGAAAAAGGATTCTTAATAGGTAAGTTTA
* * * *
4220067 ACTTGCAGAAGAAGAATTCTAAGAG-GAAAGAGATTTTTAATAGGTAAGTTTA
1 ACTTGCAAAAGAAGAATTCTAAAAGAAAAAG-GATTCTTAATAGGTAAGTTTA
4220119 TATAGTTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
51 4 0.09
52 42 0.91
ACGTcount: A:0.45, C:0.06, G:0.20, T:0.29
Consensus pattern (52 bp):
ACTTGCAAAAGAAGAATTCTAAAAGAAAAAGGATTCTTAATAGGTAAGTTTA
Found at i:4220355 original size:35 final size:35
Alignment explanation
Indices: 4220306--4220372 Score: 98
Period size: 35 Copynumber: 1.9 Consensus size: 35
4220296 ATGATGTATG
* * *
4220306 GGTGCATATTGGTATGTGTTTGGTTGTGTTGAAAT
1 GGTGCACATGGGTATGTGTTTGGTTGGGTTGAAAT
*
4220341 GGTGCACATGGGTATGTGTTTGTTTGGGTTGA
1 GGTGCACATGGGTATGTGTTTGGTTGGGTTGA
4220373 GAATACTTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 28 1.00
ACGTcount: A:0.15, C:0.04, G:0.37, T:0.43
Consensus pattern (35 bp):
GGTGCACATGGGTATGTGTTTGGTTGGGTTGAAAT
Found at i:4221835 original size:365 final size:366
Alignment explanation
Indices: 4221129--4221844 Score: 1116
Period size: 365 Copynumber: 2.0 Consensus size: 366
4221119 TGAGATTCAA
* * *
4221129 ATTTGAAAGGTGATAAAAGTTGGGTTTTAGATTCAGTTGCTACAGTCCATTTTTGCAATGATAGG
1 ATTTGAAAGGTGATAAAAGTTAGGTTTTAGATTCAGCTACTACAGTCCATTTTTGCAATGATAGG
* * *
4221194 AGTTACTTTGTGGAATTGGATGAAAATGAGAAGTATGGGGATATTGTGATTGCTAATAATGAAAA
66 AGTTACTTTGTGGAATTGGATGAAAATGAGAAGTATGGGGACATTGTGATTCCTAACAATGAAAA
* * *
4221259 AGTGCAAATTTAAGGCATTGGGAGTGTTCGCTTTAGATCTTACAATGGTGTTGTTAGAACATTTC
131 AGTGCAAATTCAAGGCATTGGGAGTGTTCGCCTTAGATCTTACAATGGTGTTATTAGAACATTTC
* * *
4221324 ATCATGTAAGGTATGTATCGAGTTGTAGCTATAATTTGATTGCTTTAGGTGAGTTAGCTTCTCGG
196 ATCATGTAAGGTATGTACCGAGTTGTAGCTATAATTTGATTGCTTTAAGTGAGTTAGCTTATCGG
*
4221389 AGGTACACATATTATGGTAATAATGATTGGTTGAAAGTGTACAAGAATGGTAGTGTGATTCTACA
261 AGGTACACATATTATGGTAATAATGATTGGTTGAAAGTGTACAAGAATGATAGTGTGATTCTACA
*
4221454 AGGGAAAAAAGTCAAAAATCACTTGTGTGAATGTGACTCAG
326 AGAGAAAAAAGTCAAAAATCACTTGTGTGAATGTGACTCAG
4221495 ATTTGAAAGGTGATAAAAGTTAGGTTTT-GATTCAGCTACTACAGTCCATTTTTGCAATGATAGG
1 ATTTGAAAGGTGATAAAAGTTAGGTTTTAGATTCAGCTACTACAGTCCATTTTTGCAATGATAGG
* * *
4221559 AGTTGCTTTGTGGAATTGGATGAGAATGAGAAGTATGGGGACATTGTGGTTCCTAACAATG-AAA
66 AGTTACTTTGTGGAATTGGATGAAAATGAGAAGTATGGGGACATTGTGATTCCTAACAATGAAAA
* * *
4221623 AGATGTAGATTCAAGGCATTGGGAGTGTTTGCCTTAGATCTTACAATGGTGTTATTAGAACACTT
131 AG-TGCAAATTCAAGGCATTGGGAGTGTTCGCCTTAGATCTTACAATGGTGTTATTAGAACA-TT
*
4221688 T-GTCATGTAAGGTATGTACCGAGTTGTAGCTATAATTTGATTGCTTTAAGTGAGTTAGCTTATC
194 TCATCATGTAAGGTATGTACCGAGTTGTAGCTATAATTTGATTGCTTTAAGTGAGTTAGCTTATC
* * * *
4221752 ATGA-GTACACATATTATGGTAGTAATGATTGGTTGAAAGTGTACAAGAATTATAGTGTGATTGT
259 -GGAGGTACACATATTATGGTAATAATGATTGGTTGAAAGTGTACAAGAATGATAGTGTGATTCT
* * **
4221816 ACAAGATAATAGGGTCAAAAATCACTTGT
323 ACAAGAGAAAAAAGTCAAAAATCACTTGT
4221845 ACATGCTTTA
Statistics
Matches: 318, Mismatches: 29, Indels: 7
0.90 0.08 0.02
Matches are distributed among these distances:
364 5 0.02
365 281 0.88
366 32 0.10
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.34
Consensus pattern (366 bp):
ATTTGAAAGGTGATAAAAGTTAGGTTTTAGATTCAGCTACTACAGTCCATTTTTGCAATGATAGG
AGTTACTTTGTGGAATTGGATGAAAATGAGAAGTATGGGGACATTGTGATTCCTAACAATGAAAA
AGTGCAAATTCAAGGCATTGGGAGTGTTCGCCTTAGATCTTACAATGGTGTTATTAGAACATTTC
ATCATGTAAGGTATGTACCGAGTTGTAGCTATAATTTGATTGCTTTAAGTGAGTTAGCTTATCGG
AGGTACACATATTATGGTAATAATGATTGGTTGAAAGTGTACAAGAATGATAGTGTGATTCTACA
AGAGAAAAAAGTCAAAAATCACTTGTGTGAATGTGACTCAG
Found at i:4222707 original size:12 final size:12
Alignment explanation
Indices: 4222690--4222714 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4222680 AAATGTGTAA
4222690 TTAAGTTTTGAG
1 TTAAGTTTTGAG
4222702 TTAAGTTTTGAG
1 TTAAGTTTTGAG
4222714 T
1 T
4222715 AAGAAGTTTT
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:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (12 bp):
TTAAGTTTTGAG
Found at i:4222911 original size:70 final size:70
Alignment explanation
Indices: 4222757--4222903 Score: 276
Period size: 70 Copynumber: 2.1 Consensus size: 70
4222747 AGTCTCACAG
* *
4222757 TTGTAAAGATTTATTTGTTAGTGGATTGGTTTGGAGTAAGTCATTTTGAGTTGAGCTGAAACAAA
1 TTGTATAGATTTATTTGTTAGTGGATTGGTTTGGAGTAAGTCATTCTGAGTTGAGCTGAAACAAA
4222822 TAAAT
66 TAAAT
4222827 TTGTATAGATTTATTTGTTAGTGGATTGGTTTGGAGTAAGTCATTCTGAGTTGAGCTGAAACAAA
1 TTGTATAGATTTATTTGTTAGTGGATTGGTTTGGAGTAAGTCATTCTGAGTTGAGCTGAAACAAA
4222892 TAAAT
66 TAAAT
4222897 TTGTATA
1 TTGTATA
4222904 TTCTTATTCT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
70 75 1.00
ACGTcount: A:0.31, C:0.05, G:0.24, T:0.41
Consensus pattern (70 bp):
TTGTATAGATTTATTTGTTAGTGGATTGGTTTGGAGTAAGTCATTCTGAGTTGAGCTGAAACAAA
TAAAT
Found at i:4225651 original size:21 final size:21
Alignment explanation
Indices: 4225608--4225653 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
4225598 TGTAAATTTG
* * *
4225608 ATTTAATTTTATATTAGATTT
1 ATTTAATTATATATGAGAATT
*
4225629 ATTTAATTATATATGATAATT
1 ATTTAATTATATATGAGAATT
4225650 ATTT
1 ATTT
4225654 GATTGTTTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (21 bp):
ATTTAATTATATATGAGAATT
Found at i:4232741 original size:24 final size:24
Alignment explanation
Indices: 4232714--4232768 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
4232704 GATCGAGTTT
4232714 AATTTAATATAATATT-AAATTTAA
1 AATTTAATATAAT-TTGAAATTTAA
* * *
4232738 AATTAAATTTAATTTGATATTTAA
1 AATTTAATATAATTTGAAATTTAA
4232762 AATTTAA
1 AATTTAA
4232769 AATTTAGTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 2 0.08
24 24 0.92
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
AATTTAATATAATTTGAAATTTAA
Found at i:4232751 original size:17 final size:17
Alignment explanation
Indices: 4232711--4232752 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
4232701 ATCGATCGAG
*
4232711 TTTAATTTAATATAATA
1 TTTAATTTAAAATAATA
*
4232728 TTAAATTTAAAATTAA-A
1 TTTAATTTAAAA-TAATA
4232745 TTTAATTT
1 TTTAATTT
4232753 GATATTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 18 0.86
18 3 0.14
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTAATTTAAAATAATA
Found at i:4232816 original size:6 final size:6
Alignment explanation
Indices: 4232728--4232786 Score: 50
Period size: 6 Copynumber: 9.7 Consensus size: 6
4232718 TAATATAATA
* * *
4232728 TTAAAT TTAAAA TTAAAT TT-AAT TTGATAT TTAAAAT TTAAAAT TT-AGT
1 TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TT-AAAT TT-AAAT TTAAAT
4232777 TTAAAT TTAA
1 TTAAAT TTAA
4232787 TCAAAATTTA
Statistics
Matches: 43, Mismatches: 7, Indels: 6
0.77 0.12 0.11
Matches are distributed among these distances:
5 9 0.21
6 18 0.42
7 16 0.37
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.49
Consensus pattern (6 bp):
TTAAAT
Found at i:4232954 original size:9 final size:9
Alignment explanation
Indices: 4232940--4232969 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
4232930 AAATTTTTAT
4232940 TAATTAAAA
1 TAATTAAAA
4232949 TAATTAAAA
1 TAATTAAAA
4232958 TATATTAAAA
1 TA-ATTAAAA
4232968 TA
1 TA
4232970 TAAAAATTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (9 bp):
TAATTAAAA
Found at i:4232966 original size:10 final size:10
Alignment explanation
Indices: 4232942--4232971 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
4232932 ATTTTTATTA
4232942 ATTAAAATA-
1 ATTAAAATAT
4232951 ATTAAAATAT
1 ATTAAAATAT
4232961 ATTAAAATAT
1 ATTAAAATAT
4232971 A
1 A
4232972 AAAATTCGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:4234475 original size:2 final size:2
Alignment explanation
Indices: 4234468--4234501 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
4234458 ACTTGAATTC
4234468 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
4234502 CTAAAAGTCA
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):
AT
Found at i:4238069 original size:6 final size:6
Alignment explanation
Indices: 4237981--4238039 Score: 59
Period size: 6 Copynumber: 9.7 Consensus size: 6
4237971 TAATATAACA
* *
4237981 TTAAAT TTAAAT TTAAAT TT-AAT TTGATAT TTAAAAT TTAAAAT TT-AGT
1 TTAAAT TTAAAT TTAAAT TTAAAT TT-AAAT TT-AAAT TT-AAAT TTAAAT
4238030 TTAAAT TTAA
1 TTAAAT TTAA
4238040 TCAAAATTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
5 9 0.20
6 20 0.44
7 16 0.36
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (6 bp):
TTAAAT
Found at i:4240483 original size:10 final size:10
Alignment explanation
Indices: 4240459--4240488 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
4240449 TATTTTATCA
4240459 ATTAAAATA-
1 ATTAAAATAT
4240468 ATTAAAATAT
1 ATTAAAATAT
4240478 ATTAAAATAT
1 ATTAAAATAT
4240488 A
1 A
4240489 GAAGTTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:4246088 original size:30 final size:30
Alignment explanation
Indices: 4246066--4246123 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
4246056 ATAGATAATA
4246066 TAAAA-ATT-AAAATTAAAATAATAAAAAC
1 TAAAATATTGAAAATTAAAATAATAAAAAC
*
4246094 TAAAATTTTGAAAATTAAAATAATATAAAA
1 TAAAATATTGAAAATTAAAATAATA-AAAA
4246124 ATCAAATTCG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 5 0.19
29 2 0.08
30 15 0.58
31 4 0.15
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (30 bp):
TAAAATATTGAAAATTAAAATAATAAAAAC
Found at i:4246097 original size:15 final size:15
Alignment explanation
Indices: 4246074--4246123 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
4246064 TATAAAAATT
4246074 AAAATTAAAATAATA
1 AAAATTAAAATAATA
* ** *
4246089 AAAACTAAAATTTTG
1 AAAATTAAAATAATA
4246104 AAAATTAAAATAATA
1 AAAATTAAAATAATA
4246119 TAAAA
1 -AAAA
4246124 ATCAAATTCG
Statistics
Matches: 26, Mismatches: 8, Indels: 1
0.74 0.23 0.03
Matches are distributed among these distances:
15 22 0.85
16 4 0.15
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (15 bp):
AAAATTAAAATAATA
Found at i:4246758 original size:28 final size:28
Alignment explanation
Indices: 4246708--4246763 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
4246698 GATTTGGATG
* *
4246708 TAAATAATACAAGTTTACCTTAAAAAAA
1 TAAATAATACAAGTTCACATTAAAAAAA
4246736 TAAATAATACAAGTTGCA-ATTAAAAAAA
1 TAAATAATACAAGTT-CACATTAAAAAAA
4246764 ACTTTACTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 24 0.96
29 1 0.04
ACGTcount: A:0.59, C:0.09, G:0.05, T:0.27
Consensus pattern (28 bp):
TAAATAATACAAGTTCACATTAAAAAAA
Found at i:4247347 original size:2 final size:2
Alignment explanation
Indices: 4247335--4247369 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
4247325 TTGAAGAAGA
* *
4247335 AT AT AT TT AT AT AT AT AT AT AT AT AT AG AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
4247370 AGTGCAAACA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4250275 original size:42 final size:42
Alignment explanation
Indices: 4250214--4250327 Score: 174
Period size: 42 Copynumber: 2.7 Consensus size: 42
4250204 TGGTATTCCA
* *
4250214 CCATGAGAAGATGACAGTAAACCATTTTGCATAGCTATACCT
1 CCATGAGAAGATGAAAGTAAACCATTTTGCATAGATATACCT
* * *
4250256 CCATGATAAGGTGAGAGTAAACCATTTTGCATAGATATACCT
1 CCATGAGAAGATGAAAGTAAACCATTTTGCATAGATATACCT
*
4250298 CCATGAGAAGATGAAAGAAAACCATTTTGC
1 CCATGAGAAGATGAAAGTAAACCATTTTGC
4250328 TTCATCTCCT
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 64 1.00
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.25
Consensus pattern (42 bp):
CCATGAGAAGATGAAAGTAAACCATTTTGCATAGATATACCT
Found at i:4253486 original size:20 final size:20
Alignment explanation
Indices: 4253441--4253486 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
4253431 AATTTTCATT
* *
4253441 TCAAATCAAATTTGATTTAA
1 TCAAATAAAATTTGATCTAA
**
4253461 AAAAATAAAATTTGATCTAA
1 TCAAATAAAATTTGATCTAA
4253481 TCAAAT
1 TCAAAT
4253487 TAAGTTTTAA
Statistics
Matches: 20, Mismatches: 6, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.35
Consensus pattern (20 bp):
TCAAATAAAATTTGATCTAA
Found at i:4255960 original size:25 final size:25
Alignment explanation
Indices: 4255905--4255955 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
4255895 ATACAAATAA
* *
4255905 AAATTTA-AATTTAAATTTGATTTG
1 AAATTTATTATTTAAATTTAATTTG
4255929 AAATTTATTATTTAAAATTTAATTTG
1 AAATTTATTATTT-AAATTTAATTTG
4255955 A
1 A
4255956 GTTTAATTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 7 0.30
25 4 0.17
26 12 0.52
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (25 bp):
AAATTTATTATTTAAATTTAATTTG
Found at i:4257345 original size:21 final size:21
Alignment explanation
Indices: 4257314--4257362 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
4257304 AAATTTTTTT
4257314 TATTAT-T-TATTTAATTATA
1 TATTATATATATTTAATTATA
*
4257333 TATTATATATATTTAATTATT
1 TATTATATATATTTAATTATA
4257354 TATT-TATAT
1 TATTATATAT
4257363 TAAAAATAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
19 6 0.22
20 6 0.22
21 15 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (21 bp):
TATTATATATATTTAATTATA
Found at i:4268182 original size:12 final size:13
Alignment explanation
Indices: 4268151--4268189 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
4268141 GTTTATTTCG
*
4268151 TAAAAAATTATTTT
1 TAAAAAA-TAATTT
4268165 TAAAAAATAATTT
1 TAAAAAATAATTT
4268178 T-AAAAATAATTT
1 TAAAAAATAATTT
4268190 ATATTTTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
12 11 0.46
13 6 0.25
14 7 0.29
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAAAAAATAATTT
Found at i:4268326 original size:17 final size:17
Alignment explanation
Indices: 4268281--4268397 Score: 75
Period size: 17 Copynumber: 6.8 Consensus size: 17
4268271 TATTTTTAAA
4268281 TAATATTAATATAATTATT
1 TAATATTAA-A-AATTATT
*
4268300 AAAATATTAAAAATTATT
1 -TAATATTAAAAATTATT
*
4268318 TATTATT-AAAA-TA-T
1 TAATATTAAAAATTATT
4268332 TAATATTAAAAAAATTATAT
1 TAATATT--AAAAATTAT-T
* * *
4268352 T-GTAATAATAA-TATT
1 TAATATTAAAAATTATT
4268367 TAATATTAAAAAATTATGT
1 TAATATT-AAAAATTAT-T
4268386 TAATA-TAAAAAT
1 TAATATTAAAAAT
4268398 ATTAAAATAA
Statistics
Matches: 77, Mismatches: 10, Indels: 23
0.70 0.09 0.21
Matches are distributed among these distances:
14 7 0.09
15 4 0.05
16 10 0.13
17 23 0.30
18 13 0.17
19 10 0.13
20 10 0.13
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.44
Consensus pattern (17 bp):
TAATATTAAAAATTATT
Found at i:4268338 original size:14 final size:16
Alignment explanation
Indices: 4268302--4268342 Score: 50
Period size: 14 Copynumber: 2.6 Consensus size: 16
4268292 TAATTATTAA
4268302 AATATTAAAAATTATTT
1 AATATT-AAAATTATTT
*
4268319 ATTATTAAAA-TA-TT
1 AATATTAAAATTATTT
4268333 AATATTAAAA
1 AATATTAAAA
4268343 AAATTATATT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 11 0.50
15 2 0.09
16 4 0.18
17 5 0.23
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
AATATTAAAATTATTT
Found at i:4268378 original size:34 final size:32
Alignment explanation
Indices: 4268302--4268402 Score: 100
Period size: 34 Copynumber: 3.1 Consensus size: 32
4268292 TAATTATTAA
* *
4268302 AATATT-AAAAATTATTTATTATTAAAATATT
1 AATATTAAAAAATTATTTAGTAATAAAATATT
4268333 AATATTAAAAAAATTATATT-GTAATAATAATATTT
1 AATATT-AAAAAATTAT-TTAGTAATAA-AATA-TT
*
4268368 AATATTAAAAAATTATGTTAAT-ATAAAAATATT
1 AATATTAAAAAATTAT-TTAGTAAT-AAAATATT
4268401 AA
1 AA
4268403 AATAAAACTA
Statistics
Matches: 59, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
31 6 0.10
33 18 0.31
34 24 0.41
35 11 0.19
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (32 bp):
AATATTAAAAAATTATTTAGTAATAAAATATT
Found at i:4268451 original size:23 final size:23
Alignment explanation
Indices: 4268425--4268631 Score: 80
Period size: 22 Copynumber: 9.0 Consensus size: 23
4268415 TATTATTTTT
4268425 ATATTGTTTATTAATA-TATTATA
1 ATATT-TTTATTAATAGTATTATA
* *
4268448 ATATTACTTGTTAATAGTATGTATTA
1 ATATT-TTTATTAATAGTAT-TA-TA
*
4268474 ATATATTATATTAATAGTA-TAT-
1 ATAT-TTTTATTAATAGTATTATA
4268496 -TATTTATTATTAATA-TATTAT-
1 ATATTT-TTATTAATAGTATTATA
* * **
4268517 TTATTCATATATTATTATAAAAATTATA
1 ATATT--TTTATTA--AT-AGTATTATA
** *
4268545 A-A-TTAAATTAATAATATT-TA
1 ATATTTTTATTAATAGTATTATA
* * *
4268565 TTATTATATTATTCAT--TAATATA
1 ATATT-T-TTATTAATAGTATTATA
*
4268588 ATATTTTTATGAATA-TATTATA
1 ATATTTTTATTAATAGTATTATA
4268610 ATATTTTTATTAATA-TATTATA
1 ATATTTTTATTAATAGTATTATA
4268632 TTAATAGTAT
Statistics
Matches: 142, Mismatches: 22, Indels: 41
0.69 0.11 0.20
Matches are distributed among these distances:
20 6 0.04
21 26 0.18
22 38 0.27
23 26 0.18
24 17 0.12
25 4 0.03
26 18 0.13
27 7 0.05
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (23 bp):
ATATTTTTATTAATAGTATTATA
Found at i:4268474 original size:13 final size:13
Alignment explanation
Indices: 4268458--4268495 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
4268448 ATATTACTTG
*
4268458 TTAATAGTATGTA
1 TTAATAGTATATA
4268471 TTAATA-TATTATA
1 TTAATAGTA-TATA
4268484 TTAATAGTATAT
1 TTAATAGTATAT
4268496 TATTTATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
12 2 0.09
13 18 0.82
14 2 0.09
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (13 bp):
TTAATAGTATATA
Found at i:4268503 original size:18 final size:17
Alignment explanation
Indices: 4268474--4268668 Score: 107
Period size: 18 Copynumber: 11.8 Consensus size: 17
4268464 GTATGTATTA
4268474 ATATATTA--TATTAAT
1 ATATATTATTTATTAAT
*
4268489 AGTATATTATTTATTATT
1 A-TATATTATTTATTAAT
*
4268507 AATATATTATTTATT--C
1 -ATATATTATTTATTAAT
4268523 ATATATTA-TTA-TAA-
1 ATATATTATTTATTAAT
**
4268537 A-A-ATTATAAATTAA-
1 ATATATTATTTATTAAT
*
4268551 ATTAATAATATTTATT-AT
1 A-T-ATATTATTTATTAAT
*
4268569 -TATATTATTCATTAAT
1 ATATATTATTTATTAAT
*
4268585 ATAATATT-TTTATGAAT
1 AT-ATATTATTTATTAAT
*
4268602 ATATTATAATATTT-TTATT
1 ATA-TAT--TATTTATTAAT
4268621 A-ATA-TATTATATTAAT
1 ATATATTATT-TATTAAT
4268637 AGTATATTATTTATTAAT
1 A-TATATTATTTATTAAT
4268655 ATAATATTATTTAT
1 AT-ATATTATTTAT
4268669 AAGTAAAATT
Statistics
Matches: 140, Mismatches: 14, Indels: 49
0.69 0.07 0.24
Matches are distributed among these distances:
12 4 0.03
13 3 0.02
14 12 0.09
15 20 0.14
16 16 0.11
17 18 0.13
18 54 0.39
19 10 0.07
20 3 0.02
ACGTcount: A:0.43, C:0.01, G:0.02, T:0.54
Consensus pattern (17 bp):
ATATATTATTTATTAAT
Found at i:4268514 original size:148 final size:151
Alignment explanation
Indices: 4268356--4268669 Score: 319
Period size: 148 Copynumber: 2.1 Consensus size: 151
4268346 TTATATTGTA
*
4268356 ATAATAATATTTA-ATATTAAAAAATTATGT-T-AATATAAAAATATTAAAATAA-AACTATTTA
1 ATAAT-ATATTTATATATTAAAAAATTAT-TATAAAAATAAAAA-ATTAAAATAATAA-TATTTA
** * *
4268417 TTATT-T-TTATATTGTTTAT-TAATA-TATTAT-AATATTACTTGTTAATAGTATGTATTAATA
62 TTATTATATTAT-TCATTAATATAATATTATTATGAATA-TA-TT-ATAATA-TATGTATTAATA
4268477 TATTATATTAATAGTATATTATTTATT-AT
122 TATTATATTAATAGTATATTATTTATTAAT
* * * * * * *
4268506 -TAATATA-TTATTTATTCATATATTATTATAAAAATTATAAATTAAATTAATAATATTTATTAT
1 ATAATATATTTATATATTAAAAAATTATTATAAAAATAAAAAATTAAAATAATAATATTTATTAT
* * *
4268569 TATATTATTCATTAATATAATATTTTTATGAATATATTATAATATTTTTATTAATATATTATATT
66 TATATTATTCATTAATATAATATTATTATGAATATATTATAATATATGTATTAATATATTATATT
4268634 AATAGTATATTATTTATTAAT
131 AATAGTATATTATTTATTAAT
4268655 ATAATATTATTTATA
1 ATAATA-TATTTATA
4268670 AGTAAAATTA
Statistics
Matches: 135, Mismatches: 16, Indels: 24
0.77 0.09 0.14
Matches are distributed among these distances:
147 4 0.03
148 72 0.53
149 26 0.19
150 16 0.12
151 9 0.07
152 8 0.06
ACGTcount: A:0.44, C:0.01, G:0.03, T:0.52
Consensus pattern (151 bp):
ATAATATATTTATATATTAAAAAATTATTATAAAAATAAAAAATTAAAATAATAATATTTATTAT
TATATTATTCATTAATATAATATTATTATGAATATATTATAATATATGTATTAATATATTATATT
AATAGTATATTATTTATTAAT
Found at i:4268611 original size:22 final size:22
Alignment explanation
Indices: 4268584--4268631 Score: 87
Period size: 22 Copynumber: 2.2 Consensus size: 22
4268574 TATTCATTAA
4268584 TATAATATTTTTATGAATATAT
1 TATAATATTTTTATGAATATAT
*
4268606 TATAATATTTTTATTAATATAT
1 TATAATATTTTTATGAATATAT
4268628 TATA
1 TATA
4268632 TTAATAGTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
TATAATATTTTTATGAATATAT
Found at i:4268611 original size:52 final size:53
Alignment explanation
Indices: 4268555--4268657 Score: 133
Period size: 52 Copynumber: 2.0 Consensus size: 53
4268545 AATTAAATTA
4268555 ATAATATTTATTATT-ATATTATT-CATTAATA-TAATATT-TTTATGAATATATT
1 ATAATATTT-TTATTAATA-TATTACATTAATAGT-ATATTATTTATGAATATATT
* *
4268607 ATAATATTTTTATTAATATATTATATTAATAGTATATTATTTATTAATATA
1 ATAATATTTTTATTAATATATTACATTAATAGTATATTATTTATGAATATA
4268658 ATATTATTTA
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
51 9 0.20
52 24 0.53
53 12 0.27
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (53 bp):
ATAATATTTTTATTAATATATTACATTAATAGTATATTATTTATGAATATATT
Found at i:4268680 original size:34 final size:31
Alignment explanation
Indices: 4268615--4268680 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 31
4268605 TTATAATATT
* *
4268615 TTTATTAATATATTATATTAATAGTATATTA
1 TTTATTAATATAATATATTAATAGTAAATTA
*
4268646 TTTATTAATATAATATTATTTATAAGTAAAATTA
1 TTTATTAATATAATA-TATTAAT-AGT-AAATTA
4268680 T
1 T
4268681 ACTAAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
31 14 0.48
32 6 0.21
33 3 0.10
34 6 0.21
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (31 bp):
TTTATTAATATAATATATTAATAGTAAATTA
Found at i:4268802 original size:22 final size:23
Alignment explanation
Indices: 4268768--4268810 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
4268758 TTTTTTTAAA
* *
4268768 AATAATATTATTTTTTATTGATG
1 AATAATATCATTTTCTATTGATG
4268791 AATAA-ATCATTTTCTATTGA
1 AATAATATCATTTTCTATTGA
4268811 CCAATATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (23 bp):
AATAATATCATTTTCTATTGATG
Found at i:4268816 original size:22 final size:23
Alignment explanation
Indices: 4268768--4268816 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
4268758 TTTTTTTAAA
* * **
4268768 AATAATATTATTTTTTATTGATG
1 AATAATATCATTTTCTATTGACC
4268791 AATAA-ATCATTTTCTATTGACC
1 AATAATATCATTTTCTATTGACC
4268813 AATA
1 AATA
4268817 TTTTTTCACC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (23 bp):
AATAATATCATTTTCTATTGACC
Found at i:4272190 original size:52 final size:51
Alignment explanation
Indices: 4272104--4272260 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 51
4272094 TATAACCATA
* * * *
4272104 CAAACTTGCTTATTAAGAATCCCTCTCTTCTTAGAATTCTTCTCTTGCAAGT
1 CAAACTTACCTATTAAGAATTCCTTTCTT-TTAGAATTCTTCTCTTGCAAGT
*
4272156 CAAACTTACCTATTAAGAATTCCTTTCCTTTTAGAATTCTTCTCCTGCAAGT
1 CAAACTTACCTATTAAGAATTCCTTT-CTTTTAGAATTCTTCTCTTGCAAGT
* * *
4272208 CAAACTTACCTATTAAGAATCCTCTTTCTCTT-GAAATTCTTCTTTTGCAAGT
1 CAAACTTACCTATTAAGAATTC-CTTTCTTTTAG-AATTCTTCTCTTGCAAGT
4272260 C
1 C
4272261 TTCTTGTCCA
Statistics
Matches: 93, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
51 1 0.01
52 85 0.91
53 7 0.08
ACGTcount: A:0.26, C:0.25, G:0.08, T:0.41
Consensus pattern (51 bp):
CAAACTTACCTATTAAGAATTCCTTTCTTTTAGAATTCTTCTCTTGCAAGT
Found at i:4272309 original size:11 final size:11
Alignment explanation
Indices: 4272295--4272327 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
4272285 ATAAATCCCA
4272295 AACAAATCTCT
1 AACAAATCTCT
*
4272306 AACAAATCTCA
1 AACAAATCTCT
4272317 AACAAATCTCT
1 AACAAATCTCT
4272328 TATGGGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.48, C:0.27, G:0.00, T:0.24
Consensus pattern (11 bp):
AACAAATCTCT
Found at i:4272617 original size:24 final size:25
Alignment explanation
Indices: 4272590--4272685 Score: 113
Period size: 25 Copynumber: 3.9 Consensus size: 25
4272580 TAGCTCTTCC
*
4272590 CACATCTCGAACTTTCAACTC-TTT
1 CACATCTCGAACCTTCAACTCTTTT
**
4272614 CACATCTCGAACCTTCGGCTCTTTT
1 CACATCTCGAACCTTCAACTCTTTT
* *
4272639 CACATCTTGAATCTTCAACTCTTTT
1 CACATCTCGAACCTTCAACTCTTTT
* * *
4272664 CACGTTTCGAACCTTCAGCTCT
1 CACATCTCGAACCTTCAACTCT
4272686 GATACCACTT
Statistics
Matches: 59, Mismatches: 12, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
24 18 0.31
25 41 0.69
ACGTcount: A:0.21, C:0.33, G:0.08, T:0.38
Consensus pattern (25 bp):
CACATCTCGAACCTTCAACTCTTTT
Found at i:4277608 original size:22 final size:21
Alignment explanation
Indices: 4277572--4277614 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
4277562 TTCAAGGAAG
4277572 TGAAATGGTTTTTTTTTTCTT
1 TGAAATGGTTTTTTTTTTCTT
4277593 TGAAATGGTTTTTTTTTTCTT
1 TGAAATGGTTTTTTTTTTCTT
4277614 T
1 T
4277615 TTTTTTTTTT
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:0.14, C:0.05, G:0.14, T:0.67
Consensus pattern (21 bp):
TGAAATGGTTTTTTTTTTCTT
Found at i:4277619 original size:15 final size:15
Alignment explanation
Indices: 4277601--4277630 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4277591 TTTGAAATGG
*
4277601 TTTTTTTTTTCTTTT
1 TTTTTTTTTTATTTT
4277616 TTTTTTTTTTATTTT
1 TTTTTTTTTTATTTT
4277631 CCCCTTTGTT
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:0.03, C:0.03, G:0.00, T:0.93
Consensus pattern (15 bp):
TTTTTTTTTTATTTT
Found at i:4278070 original size:20 final size:21
Alignment explanation
Indices: 4278034--4278085 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
4278024 TCCGAAATTA
4278034 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
4278056 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
4278077 AT-AAATATT
1 ATAAAATATT
4278086 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:4278076 original size:21 final size:22
Alignment explanation
Indices: 4278034--4278085 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
4278024 TCCGAAATTA
4278034 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
4278056 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
4278077 AT-AAATATT
1 ATAAAATATT
4278086 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:4278093 original size:30 final size:32
Alignment explanation
Indices: 4278058--4278127 Score: 83
Period size: 30 Copynumber: 2.3 Consensus size: 32
4278048 TTTAAAATAT
* * *
4278058 AAAATATTATTTTTTAAATATA-A-ATATTTA
1 AAAATATTATTATATAAATATATATATAATTA
*
4278088 AAAATATCATTATATAAATATATATATAATTA
1 AAAATATTATTATATAAATATATATATAATTA
4278120 AAAA-ATTA
1 AAAATATTA
4278128 AAAAATTAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
30 19 0.58
31 4 0.12
32 10 0.30
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (32 bp):
AAAATATTATTATATAAATATATATATAATTA
Found at i:4279159 original size:25 final size:24
Alignment explanation
Indices: 4279131--4279178 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
4279121 TTTTATATTA
* *
4279131 ATATAAATTATAATATATAATTTTT
1 ATATAAAATATAACATA-AATTTTT
4279156 ATATAAAATATAACATAAATTTT
1 ATATAAAATATAACATAAATTTT
4279179 AAAATTTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATATAAAATATAACATAAATTTTT
Found at i:4279166 original size:32 final size:32
Alignment explanation
Indices: 4279092--4279168 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 32
4279082 TATATTTAAA
* *
4279092 TTTA-ATAAAATA-AAATATATATTTTATATT
1 TTTATATAAAATATAAATATATAATATATATT
*
4279122 TTTATAT-TAATATAAAT-TATAATATATAATT
1 TTTATATAAAATATAAATATATAATATAT-ATT
4279153 TTTATATAAAATATAA
1 TTTATATAAAATATAA
4279169 CATAAATTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
30 16 0.41
31 16 0.41
32 7 0.18
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
TTTATATAAAATATAAATATATAATATATATT
Found at i:4279746 original size:29 final size:28
Alignment explanation
Indices: 4279714--4279800 Score: 87
Period size: 28 Copynumber: 3.2 Consensus size: 28
4279704 GCTGACAATG
4279714 TAAAAATATATATGAGAATATAATATAAA
1 TAAAAATATATATGA-AATATAATATAAA
4279743 T-AAAA-A-ATATGAAA-ATAATATAATA
1 TAAAAATATATATGAAATATAATATAA-A
* *
4279768 TAATAATTATATAT-AAATTTAATA-AAA
1 TAA-AAATATATATGAAATATAATATAAA
4279795 TAAAAA
1 TAAAAA
4279801 ATACATTTTT
Statistics
Matches: 49, Mismatches: 3, Indels: 15
0.73 0.04 0.22
Matches are distributed among these distances:
24 9 0.18
25 4 0.08
26 9 0.18
27 7 0.14
28 10 0.20
29 10 0.20
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.32
Consensus pattern (28 bp):
TAAAAATATATATGAAATATAATATAAA
Found at i:4281085 original size:2 final size:2
Alignment explanation
Indices: 4281078--4281103 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
4281068 GAACTTGGAA
4281078 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
4281104 TTGGGAGGGT
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:4290525 original size:4 final size:4
Alignment explanation
Indices: 4290518--4290547 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
4290508 TATATATATA
4290518 TATG TATG TATG TATG TATG TATG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TA
4290548 ATAACTTGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:4292384 original size:14 final size:14
Alignment explanation
Indices: 4292362--4292403 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
4292352 ATATATATTA
*
4292362 ATGTGATTTTGAT-T
1 ATGTAATTTT-ATAT
4292376 ATGTAATTTTATAT
1 ATGTAATTTTATAT
*
4292390 ATATAATTTTATAT
1 ATGTAATTTTATAT
4292404 TTTTGTGTGC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 2 0.08
14 23 0.92
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.57
Consensus pattern (14 bp):
ATGTAATTTTATAT
Found at i:4299803 original size:16 final size:16
Alignment explanation
Indices: 4299782--4299813 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
4299772 CAATCATTAA
4299782 AAATCATCATTATCAT
1 AAATCATCATTATCAT
4299798 AAATCATCATTATCAT
1 AAATCATCATTATCAT
4299814 TCAAATCGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATCATCATTATCAT
Found at i:4302594 original size:18 final size:18
Alignment explanation
Indices: 4302571--4302605 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
4302561 TTTATTTAAA
4302571 AATAATTTAATAATTTTT
1 AATAATTTAATAATTTTT
*
4302589 AATAATTTATTAATTTT
1 AATAATTTAATAATTTT
4302606 ATAAATTTTT
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATAATTTAATAATTTTT
Found at i:4303368 original size:3 final size:3
Alignment explanation
Indices: 4303362--4303399 Score: 58
Period size: 3 Copynumber: 12.7 Consensus size: 3
4303352 CAACAACAAC
* *
4303362 AAT AAT AAT AAT AAT AAT AGT AAT AAT AAT AAT GAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
4303400 AAAAAAGAGT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.63, C:0.00, G:0.05, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:4306461 original size:6 final size:6
Alignment explanation
Indices: 4306452--4306481 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
4306442 AAGTATAAGT
*
4306452 AATATA AATATA AATATA AATAAA AATATA
1 AATATA AATATA AATATA AATATA AATATA
4306482 TAGTGTTGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (6 bp):
AATATA
Found at i:4307122 original size:24 final size:24
Alignment explanation
Indices: 4307079--4307129 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4307069 TTATATTATT
* * * *
4307079 TTTATATTTTATTTTTGTATTGTA
1 TTTATATTATATTATCGTATCGTA
4307103 TTTATATTATATTATCGTATCGTA
1 TTTATATTATATTATCGTATCGTA
4307127 TTT
1 TTT
4307130 TACATCATCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.24, C:0.04, G:0.08, T:0.65
Consensus pattern (24 bp):
TTTATATTATATTATCGTATCGTA
Found at i:4308774 original size:2 final size:2
Alignment explanation
Indices: 4308767--4308791 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
4308757 TAAATAATTA
4308767 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
4308792 AAGAGTTAAT
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:4309237 original size:7 final size:7
Alignment explanation
Indices: 4309220--4309256 Score: 58
Period size: 7 Copynumber: 5.3 Consensus size: 7
4309210 AAAATCTTTT
4309220 TAAAA-A
1 TAAAATA
4309226 TAAAATA
1 TAAAATA
4309233 TAAAATA
1 TAAAATA
4309240 TAAAAATA
1 T-AAAATA
4309248 TAAAATA
1 TAAAATA
4309255 TA
1 TA
4309257 TATATACTTA
Statistics
Matches: 29, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
6 5 0.17
7 17 0.59
8 7 0.24
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAAATA
Found at i:4309247 original size:15 final size:15
Alignment explanation
Indices: 4309227--4309256 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
4309217 TTTTAAAAAT
4309227 AAAATATAAAATATA
1 AAAATATAAAATATA
4309242 AAAATATAAAATATA
1 AAAATATAAAATATA
4309257 TATATACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATATAAAATATA
Found at i:4312884 original size:21 final size:21
Alignment explanation
Indices: 4312834--4312885 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
4312824 TAAGTTTTAG
4312834 TTATATTATTTTTAATAAATTT
1 TTATATTA-TTTTAATAAATTT
* *
4312856 TTA-CTTATTTTAATATATTT
1 TTATATTATTTTAATAAATTT
*
4312876 TTATTTTATT
1 TTATATTATT
4312886 AATTTCATAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 15 0.58
21 8 0.31
22 3 0.12
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATATTATTTTAATAAATTT
Found at i:4313435 original size:42 final size:42
Alignment explanation
Indices: 4313376--4313464 Score: 160
Period size: 42 Copynumber: 2.1 Consensus size: 42
4313366 GTCCATTGGT
*
4313376 TTTGTAAATTGAGTTGAGCATGCAAAATATACATATGATTTC
1 TTTGTAAATTGAGTTGAGCATACAAAATATACATATGATTTC
*
4313418 TTTGTAAATTGAGTTGAGCATACAAAATATACATATGATTTT
1 TTTGTAAATTGAGTTGAGCATACAAAATATACATATGATTTC
4313460 TTTGT
1 TTTGT
4313465 TATGAGTTTG
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.35, C:0.08, G:0.16, T:0.42
Consensus pattern (42 bp):
TTTGTAAATTGAGTTGAGCATACAAAATATACATATGATTTC
Found at i:4313636 original size:15 final size:15
Alignment explanation
Indices: 4313613--4313642 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
4313603 TTATGAGAAA
4313613 ATTTATATATATTGG
1 ATTTATATATATTGG
*
4313628 ATTTGTATATATTGG
1 ATTTATATATATTGG
4313643 GTAATTTGAA
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:0.30, C:0.00, G:0.17, T:0.53
Consensus pattern (15 bp):
ATTTATATATATTGG
Found at i:4315365 original size:24 final size:24
Alignment explanation
Indices: 4315318--4315362 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
4315308 ATTTAGATTA
* *
4315318 TAATATAATAATATGATATAAATT
1 TAATATAATAAAATAATATAAATT
4315342 TAATATAA-AAAATAATATAAA
1 TAATATAATAAAATAATATAAA
4315363 ATTGATACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
TAATATAATAAAATAATATAAATT
Found at i:4315991 original size:11 final size:11
Alignment explanation
Indices: 4315940--4315996 Score: 51
Period size: 11 Copynumber: 4.9 Consensus size: 11
4315930 AATTAAATCT
*
4315940 AATAATTTAAA
1 AATAATATAAA
*
4315951 ATATAATATAAT
1 A-ATAATATAAA
*
4315963 AATACGATACAAA
1 AATA--ATATAAA
*
4315976 TATAATATAAA
1 AATAATATAAA
4315987 AATAATATAA
1 AATAATATAA
4315997 TTTAAACTCG
Statistics
Matches: 36, Mismatches: 7, Indels: 6
0.73 0.14 0.12
Matches are distributed among these distances:
11 19 0.53
12 9 0.25
13 8 0.22
ACGTcount: A:0.63, C:0.04, G:0.02, T:0.32
Consensus pattern (11 bp):
AATAATATAAA
Found at i:4316069 original size:30 final size:31
Alignment explanation
Indices: 4316028--4316103 Score: 95
Period size: 30 Copynumber: 2.5 Consensus size: 31
4316018 TTATATAAAT
4316028 TTAATA-AAATTAAAAAACAT-ATTTTTTTA
1 TTAATATAAATTAAAAAACATAATTTTTTTA
* *
4316057 TTAATATAAATTATAATACATAATTTTTTTA
1 TTAATATAAATTAAAAAACATAATTTTTTTA
* *
4316088 -TAAAATAAAATAAAAA
1 TTAATATAAATTAAAAA
4316104 TACACCAATT
Statistics
Matches: 39, Mismatches: 6, Indels: 3
0.81 0.12 0.06
Matches are distributed among these distances:
29 6 0.15
30 24 0.62
31 9 0.23
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (31 bp):
TTAATATAAATTAAAAAACATAATTTTTTTA
Found at i:4316106 original size:31 final size:29
Alignment explanation
Indices: 4316030--4316107 Score: 86
Period size: 31 Copynumber: 2.6 Consensus size: 29
4316020 ATATAAATTT
*
4316030 AATAAAATTAAAAA-ACATATTTTTTTATT
1 AATAAAA-TAAAAATACATATTTTTTTATA
* *
4316059 AATATAAATTATAATACATAATTTTTTTATAA
1 AATA-AAATAAAAATACAT-ATTTTTTTAT-A
4316091 AATAAAATAAAAATACA
1 AATAAAATAAAAATACA
4316108 CCAATTTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
29 8 0.20
30 7 0.17
31 21 0.52
32 4 0.10
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (29 bp):
AATAAAATAAAAATACATATTTTTTTATA
Found at i:4316114 original size:32 final size:31
Alignment explanation
Indices: 4316048--4316115 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
4316038 TAAAAAACAT
* * * *
4316048 ATTTTTTTATTAATATAAATTATAATACATA
1 ATTTTTTTATAAATATAAATAAAAATACACA
4316079 ATTTTTTTATAAA-ATAAAATAAAAATACACCA
1 ATTTTTTTATAAATAT-AAATAAAAATACA-CA
4316111 ATTTT
1 ATTTT
4316116 AATATTCTAG
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 2 0.06
31 23 0.74
32 6 0.19
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.46
Consensus pattern (31 bp):
ATTTTTTTATAAATATAAATAAAAATACACA
Found at i:4317903 original size:16 final size:16
Alignment explanation
Indices: 4317882--4317913 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
4317872 TTTGAGGGGG
4317882 CATAGTAGAAATATTT
1 CATAGTAGAAATATTT
*
4317898 CATAGTGGAAATATTT
1 CATAGTAGAAATATTT
4317914 TAATCTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (16 bp):
CATAGTAGAAATATTT
Found at i:4322965 original size:4 final size:4
Alignment explanation
Indices: 4322956--4323009 Score: 72
Period size: 4 Copynumber: 13.5 Consensus size: 4
4322946 TAGTTTTATG
** * *
4322956 TTTA TTTA TTTA TTTA TTTA TCCA TTTA TTTG TTTG TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
4323004 TTTA TT
1 TTTA TT
4323010 ATTATTATTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 44 1.00
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.72
Consensus pattern (4 bp):
TTTA
Found at i:4330899 original size:38 final size:37
Alignment explanation
Indices: 4330808--4330926 Score: 97
Period size: 38 Copynumber: 3.3 Consensus size: 37
4330798 TAACACTATT
* *
4330808 TAAATTATAATAATAA--TTATATATATAT-TTAAT-
1 TAAATTATAATAATAATTTTATATTTTTATATTAATA
* * *
4330841 GAAATTAAAAAAATATATTTTATATTTTTATATTAATA
1 TAAATTATAATAATA-ATTTTATATTTTTATATTAATA
* *
4330879 TAAATTATAATATATAATTTT-TA-TTTAAAATATAATA
1 TAAATTATAATA-ATAATTTTATATTTTTATAT-TAATA
4330916 TAAATATATAA
1 TAAAT-TATAA
4330927 ATTAAAATAT
Statistics
Matches: 68, Mismatches: 10, Indels: 11
0.76 0.11 0.12
Matches are distributed among these distances:
33 12 0.18
34 1 0.01
36 16 0.24
37 17 0.25
38 19 0.28
39 3 0.04
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (37 bp):
TAAATTATAATAATAATTTTATATTTTTATATTAATA
Found at i:4330902 original size:31 final size:31
Alignment explanation
Indices: 4330864--4330926 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 31
4330854 TATATTTTAT
*
4330864 ATTTTTATATTAATATA-AAT-TATAATATATA
1 ATTTTTAT-TTAAAATATAATATA-AATATATA
4330895 ATTTTTATTTAAAATATAATATAAATATATA
1 ATTTTTATTTAAAATATAATATAAATATATA
4330926 A
1 A
4330927 ATTAAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 7 0.24
31 20 0.69
32 2 0.07
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (31 bp):
ATTTTTATTTAAAATATAATATAAATATATA
Found at i:4335414 original size:15 final size:16
Alignment explanation
Indices: 4335377--4335695 Score: 136
Period size: 15 Copynumber: 19.4 Consensus size: 16
4335367 CATTTGTTAT
* *
4335377 TAATAATATAATAATA
1 TAATATTATATTAATA
* *
4335393 TATTATT-TATTACTA
1 TAATATTATATTAATA
4335408 TAATATTAT-TT-AT-
1 TAATATTATATTAATA
4335421 TAATATTATATTAATAAA
1 TAATATTATATTAAT--A
4335439 TAATATTATATTAATATAA
1 TAATATTATATT-A-AT-A
4335458 TAAATATTATATTAATA
1 T-AATATTATATTAATA
4335475 T-A-ATTATATTAATA
1 TAATATTATATTAATA
*
4335489 -AATATTATA-AAATA
1 TAATATTATATTAATA
4335503 -ATATATTATATTAATA
1 TA-ATATTATATTAATA
*
4335519 -AATAATATATT-ATA
1 TAATATTATATTAATA
*
4335533 TTAATATGATA-TAA-A
1 -TAATATTATATTAATA
4335548 T-A-A-TATATTAATA
1 TAATATTATATTAATA
* *
4335561 GAA-ATTAT-TTATTAA
1 TAATATTATATTAAT-A
4335576 TAATA-TATTATTATATA
1 TAATATTA-TATTA-ATA
*
4335593 TAATTTCTTTATATTAATAAA
1 TAA--T-ATTATATTAAT--A
4335614 TAATATTGTATTATTAATA
1 TAATA-T-TA-TATTAATA
4335633 TACTATATTATTTATTAATA
1 TA--ATATTA--TATTAATA
*
4335653 TGATATTTATATAATAAGTA
1 TAATA-TTATAT--TAA-TA
* *
4335673 TATTATTTTATTAATA
1 TAATATTATATTAATA
*
4335689 TATTATT
1 TAATATT
4335696 TGTAACATTA
Statistics
Matches: 240, Mismatches: 22, Indels: 82
0.70 0.06 0.24
Matches are distributed among these distances:
11 3 0.01
12 4 0.02
13 11 0.05
14 31 0.13
15 50 0.21
16 30 0.12
17 15 0.06
18 18 0.08
19 26 0.11
20 36 0.15
21 16 0.07
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (16 bp):
TAATATTATATTAATA
Found at i:4335415 original size:18 final size:18
Alignment explanation
Indices: 4335392--4335695 Score: 127
Period size: 17 Copynumber: 17.3 Consensus size: 18
4335382 ATATAATAAT
*
4335392 ATATTATTTATTACTATA
1 ATATTATTTATTAATATA
4335410 ATATTATTTATTAATAT-
1 ATATTATTTATTAATATA
*
4335427 -TA-TA-TTAATAA-ATA
1 ATATTATTTATTAATATA
4335441 ATATTA--TATTAATATA
1 ATATTATTTATTAATATA
*
4335457 ATAAATATTATATTAATAT-
1 AT-ATTATT-TATTAATATA
4335476 A-ATTA--TATTAATA-A
1 ATATTATTTATTAATATA
** *
4335490 ATATTATAAAATAATATA
1 ATATTATTTATTAATATA
* *
4335508 TTA-TA-TTAATAA-ATA
1 ATATTATTTATTAATATA
4335523 ATA-TATTATATTAATATGA
1 ATATTATT-TATTAATAT-A
* * *
4335542 TATAAATAATATATTAATAGA
1 -AT--ATTATTTATTAATATA
4335563 A-ATTATTTATT-A-ATA
1 ATATTATTTATTAATATA
4335578 ATA-TA-TTATTATATATA
1 ATATTATTTATTA-ATATA
*
4335595 AT-TTCTTTATATTAATAAATA
1 ATATT-ATT-TATTAAT--ATA
*
4335616 ATATTGTATTATTAATATA
1 ATATTAT-TTATTAATATA
*
4335635 CTATATTATTTATTAATATG
1 --ATATTATTTATTAATATA
*
4335655 ATATT-TATA-TAATA-A
1 ATATTATTTATTAATATA
4335670 GTATATTATTTTATTAATATA
1 --ATATTA-TTTATTAATATA
*
4335691 TTATT
1 ATATT
4335696 TGTAACATTA
Statistics
Matches: 219, Mismatches: 26, Indels: 81
0.67 0.08 0.25
Matches are distributed among these distances:
13 2 0.01
14 20 0.09
15 25 0.11
16 23 0.11
17 41 0.19
18 26 0.12
19 15 0.07
20 32 0.15
21 21 0.10
22 12 0.05
23 2 0.01
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (18 bp):
ATATTATTTATTAATATA
Found at i:4335436 original size:44 final size:47
Alignment explanation
Indices: 4335373--4335497 Score: 130
Period size: 49 Copynumber: 2.7 Consensus size: 47
4335363 ACTCCATTTG
* * * *
4335373 TTATTAATAATATAATAAT-ATATTATT-TATTACTATAAT-ATTAT
1 TTATTAATATTATAATAATAATAATATTATATTAATATAATAAATAT
*
4335417 TTATTAATATTATATTAATAAATAATATTATATTAATATAATAAATAT
1 TTATTAATATTATAATAAT-AATAATATTATATTAATATAATAAATAT
* * *
4335465 TATATTAATATAATTATATTAATAAATATTATA
1 T-TATTAATATTATAATAATAAT-AATATTATA
4335498 AAATAATATA
Statistics
Matches: 66, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
44 17 0.26
46 7 0.11
47 11 0.17
48 8 0.12
49 23 0.35
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.50
Consensus pattern (47 bp):
TTATTAATATTATAATAATAATAATATTATATTAATATAATAAATAT
Found at i:4335463 original size:20 final size:20
Alignment explanation
Indices: 4335422--4335560 Score: 142
Period size: 20 Copynumber: 6.8 Consensus size: 20
4335412 ATTATTTATT
4335422 AATATTATATTAATA-AAT-
1 AATATTATATTAATATAATA
4335440 AATATTATATTAATATAATA
1 AATATTATATTAATATAATA
4335460 AATATTATATTAATATAAT-
1 AATATTATATTAATATAATA
* * *
4335479 TATATTAATAAATATTATAAAATA
1 AATATT-AT--AT-TAATATAATA
4335503 ATATATTATATTAATA-AATA
1 A-ATATTATATTAATATAATA
4335523 ATATATTATATTAATATGATATA
1 A-ATATTATATTAATAT-A-ATA
*
4335546 AATAATATATTAATA
1 AATATTATATTAATA
4335561 GAAATTATTT
Statistics
Matches: 104, Mismatches: 6, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
18 15 0.14
19 8 0.08
20 41 0.39
21 4 0.04
22 18 0.17
23 11 0.11
24 2 0.02
25 5 0.05
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.45
Consensus pattern (20 bp):
AATATTATATTAATATAATA
Found at i:4335596 original size:20 final size:20
Alignment explanation
Indices: 4335382--4335695 Score: 99
Period size: 18 Copynumber: 16.9 Consensus size: 20
4335372 GTTATTAATA
4335382 ATATAATAATATATTATT-T
1 ATATAATAATATATTATTAT
*
4335401 AT-TACT-ATAATATTATT-T
1 ATATAATAAT-ATATTATTAT
*
4335419 AT-TAATATTATATTA--AT
1 ATATAATAATATATTATTAT
* * *
4335436 AAATAATATTATATTAATAT
1 ATATAATAATATATTATTAT
* *
4335456 A-ATAAATATTATATTAATAT
1 ATAT-AATAATATATTATTAT
* *
4335476 AATTATATTAATA-AATATTAT
1 -A-TATAATAATATATTATTAT
4335497 A-A-AATAATATATTA-TAT
1 ATATAATAATATATTATTAT
4335514 -TAATAAATAATATATTA-TAT
1 AT-AT-AATAATATATTATTAT
* * *
4335534 -TA-ATATGATATA-AATAAT
1 ATATA-ATAATATATTATTAT
4335552 ATATTAATAGA-A-ATTATT-T
1 ATA-TAATA-ATATATTATTAT
4335571 AT-TAATAATATATTATTAT
1 ATATAATAATATATTATTAT
* * *
4335590 ATATAAT-TTCTTTATATTA-
1 ATATAATAATATAT-TATTAT
4335609 ATA-AATAATAT-TGTATTAT
1 ATATAATAATATAT-TATTAT
*
4335628 -TA-ATATACTATATTATT-T
1 ATATA-ATAATATATTATTAT
*
4335646 AT-TAAT-AT-GA-TATT-T
1 ATATAATAATATATTATTAT
4335661 ATATAATAAGTATATTATT-T
1 ATATAATAA-TATATTATTAT
4335681 -TAT--TAATATATTATT
1 ATATAATAATATATTATT
4335696 TGTAACATTA
Statistics
Matches: 231, Mismatches: 26, Indels: 79
0.69 0.08 0.24
Matches are distributed among these distances:
15 7 0.03
16 15 0.06
17 26 0.11
18 72 0.31
19 39 0.17
20 56 0.24
21 9 0.04
22 5 0.02
23 2 0.01
ACGTcount: A:0.48, C:0.01, G:0.02, T:0.50
Consensus pattern (20 bp):
ATATAATAATATATTATTAT
Found at i:4335696 original size:16 final size:16
Alignment explanation
Indices: 4335636--4335696 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 16
4335626 ATTAATATAC
4335636 TATATTA-TTTATTAA
1 TATATTATTTTATTAA
4335651 TATGA-TATTTATATAATAA
1 TAT-ATTATTT-TAT--TAA
4335670 GTATATTATTTTATTAA
1 -TATATTATTTTATTAA
4335687 TATATTATTT
1 TATATTATTT
4335697 GTAACATTAC
Statistics
Matches: 39, Mismatches: 0, Indels: 13
0.75 0.00 0.25
Matches are distributed among these distances:
15 5 0.13
16 13 0.33
17 6 0.15
19 7 0.18
20 8 0.21
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.57
Consensus pattern (16 bp):
TATATTATTTTATTAA
Found at i:4335991 original size:53 final size:54
Alignment explanation
Indices: 4335855--4335979 Score: 243
Period size: 53 Copynumber: 2.3 Consensus size: 54
4335845 TTTCAGTTTT
4335855 AAAAACAAAAAATAAAAACAACCTACCAAATATATTTTTGTTTCCAATTTTCAA
1 AAAAACAAAAAATAAAAACAACCTACCAAATATATTTTTGTTTCCAATTTTCAA
4335909 AAAAACAAAAAATAAAAACAACCTACCAAATATA-TTTTGTTTCCAATTTTCAA
1 AAAAACAAAAAATAAAAACAACCTACCAAATATATTTTTGTTTCCAATTTTCAA
4335962 AAAAACAAAAAATAAAAA
1 AAAAACAAAAAATAAAAA
4335980 TAAAAAACCA
Statistics
Matches: 71, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
53 37 0.52
54 34 0.48
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.26
Consensus pattern (54 bp):
AAAAACAAAAAATAAAAACAACCTACCAAATATATTTTTGTTTCCAATTTTCAA
Found at i:4345182 original size:22 final size:22
Alignment explanation
Indices: 4345139--4345183 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
4345129 ATATGATTAA
*
4345139 AATTTTAATAATAATTATATAT
1 AATTTTAATAATAATTAAATAT
4345161 AATTTTAATAA-AATTAAAATAT
1 AATTTTAATAATAATT-AAATAT
4345183 A
1 A
4345184 TATATTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (22 bp):
AATTTTAATAATAATTAAATAT
Found at i:4351234 original size:36 final size:36
Alignment explanation
Indices: 4351187--4351262 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 36
4351177 ACTGGCTGGG
* * *
4351187 GTGCAAGGCACTTTTGCTAGATTGAGTTATGCCTTA
1 GTGCAAGGCACTTTAGCTAGATTGAGTTAGGACTTA
4351223 GTGCAAGGCACTTTAGCTAGATTGAGTTAGGACTTA
1 GTGCAAGGCACTTTAGCTAGATTGAGTTAGGACTTA
4351259 GTGC
1 GTGC
4351263 TTACATATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.33
Consensus pattern (36 bp):
GTGCAAGGCACTTTAGCTAGATTGAGTTAGGACTTA
Found at i:4362677 original size:18 final size:18
Alignment explanation
Indices: 4362654--4362706 Score: 65
Period size: 18 Copynumber: 3.1 Consensus size: 18
4362644 GTATACCAAC
4362654 TGCATATATATATACATA
1 TGCATATATATATACATA
* *
4362672 TGCATACATACATACATA
1 TGCATATATATATACATA
*
4362690 --CATATATATATATATA
1 TGCATATATATATACATA
4362706 T
1 T
4362707 CAAGTATTCC
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
16 13 0.45
18 16 0.55
ACGTcount: A:0.45, C:0.13, G:0.04, T:0.38
Consensus pattern (18 bp):
TGCATATATATATACATA
Found at i:4365434 original size:30 final size:31
Alignment explanation
Indices: 4365399--4365476 Score: 108
Period size: 29 Copynumber: 2.6 Consensus size: 31
4365389 ATATAAAAAC
*
4365399 TAAATTTCT-TAAAAATAATAATGTAAGGAT
1 TAAATTTCTGTAAAAATAATAATGGAAGGAT
*
4365429 TAAATTTCTGT--AAATAATATTGGAAGGAT
1 TAAATTTCTGTAAAAATAATAATGGAAGGAT
4365458 TAAATTTCTGTAAATAATA
1 TAAATTTCTGTAAA-AATA
4365477 TTATAAAAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
29 27 0.64
30 9 0.21
31 2 0.05
32 4 0.10
ACGTcount: A:0.46, C:0.04, G:0.12, T:0.38
Consensus pattern (31 bp):
TAAATTTCTGTAAAAATAATAATGGAAGGAT
Found at i:4365477 original size:29 final size:29
Alignment explanation
Indices: 4365411--4365478 Score: 118
Period size: 29 Copynumber: 2.3 Consensus size: 29
4365401 AATTTCTTAA
* *
4365411 AAATAATAATGTAAGGATTAAATTTCTGT
1 AAATAATATTGGAAGGATTAAATTTCTGT
4365440 AAATAATATTGGAAGGATTAAATTTCTGT
1 AAATAATATTGGAAGGATTAAATTTCTGT
4365469 AAATAATATT
1 AAATAATATT
4365479 ATAAAAACTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.46, C:0.03, G:0.13, T:0.38
Consensus pattern (29 bp):
AAATAATATTGGAAGGATTAAATTTCTGT
Found at i:4365490 original size:29 final size:29
Alignment explanation
Indices: 4365386--4365493 Score: 94
Period size: 29 Copynumber: 3.7 Consensus size: 29
4365376 AATCGTCAAC
4365386 AATA-TATAAAAACTAAATTTCT-TAAAAAT
1 AATATTATAAAAACTAAATTTCTGT--AAAT
* * ** *
4365415 AATAATGTAAGGATTAAATTTCTGTAAAT
1 AATATTATAAAAACTAAATTTCTGTAAAT
** ** *
4365444 AATATTGGAAGGATTAAATTTCTGTAAAT
1 AATATTATAAAAACTAAATTTCTGTAAAT
4365473 AATATTATAAAAACTAAATTT
1 AATATTATAAAAACTAAATTT
4365494 TAAAAATTGT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
29 51 0.77
30 14 0.21
31 1 0.02
ACGTcount: A:0.50, C:0.05, G:0.08, T:0.37
Consensus pattern (29 bp):
AATATTATAAAAACTAAATTTCTGTAAAT
Found at i:4367423 original size:32 final size:32
Alignment explanation
Indices: 4367338--4367440 Score: 91
Period size: 32 Copynumber: 3.1 Consensus size: 32
4367328 TATTTTATAT
* **
4367338 ATAAAAAAAAAAGACTTTATCCTATTATAAATC
1 ATAAAAAAAATAGACTTTAT-CTATTATAAAAA
* *
4367371 ATAAAACAAAT-GAGCTTTATCTATTGTAAAAA
1 ATAAAAAAAATAGA-CTTTATCTATTATAAAAA
* *
4367403 ATAAAATAAATAGACCTTATCTGATTATGATAAAA
1 ATAAAAAAAATAGACTTTATCT-ATTAT-A-AAAA
4367438 ATA
1 ATA
4367441 TTTTTTTAAT
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
32 28 0.49
33 21 0.37
34 1 0.02
35 7 0.12
ACGTcount: A:0.52, C:0.10, G:0.07, T:0.31
Consensus pattern (32 bp):
ATAAAAAAAATAGACTTTATCTATTATAAAAA
Found at i:4369733 original size:21 final size:21
Alignment explanation
Indices: 4369700--4369753 Score: 56
Period size: 21 Copynumber: 2.5 Consensus size: 21
4369690 CAAATAACTT
* * *
4369700 TTTAATGATTTTAATTTTATTA
1 TTTAATTA-TTTAATTATATCA
4369722 TTATAA-TATTTAATTATATCA
1 TT-TAATTATTTAATTATATCA
4369743 TTTAATTATTT
1 TTTAATTATTT
4369754 TTTATTTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
20 3 0.11
21 18 0.67
22 3 0.11
23 3 0.11
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTAATTATTTAATTATATCA
Found at i:4372696 original size:10 final size:9
Alignment explanation
Indices: 4372678--4372714 Score: 56
Period size: 10 Copynumber: 3.9 Consensus size: 9
4372668 CAGTGAATGA
4372678 ATAATATAT
1 ATAATATAT
4372687 ATATATATAT
1 ATA-ATATAT
4372697 ATAACTATAT
1 ATAA-TATAT
4372707 ATAATATA
1 ATAATATA
4372715 GTTAAAGAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
9 8 0.31
10 18 0.69
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (9 bp):
ATAATATAT
Found at i:4374033 original size:3 final size:3
Alignment explanation
Indices: 4374025--4374052 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
4374015 ATCCTACTAA
4374025 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
4374053 CTTTTTAATT
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:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:4374426 original size:3 final size:3
Alignment explanation
Indices: 4374418--4374454 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
4374408 ATTCCTTCTT
4374418 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
4374455 CTTCCCTGCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:4375304 original size:2 final size:2
Alignment explanation
Indices: 4375299--4375329 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4375289 TATATATATA
*
4375299 TG TG TG TG TG TG TG TG TG TG TG TA TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG T
4375330 TCCTTGTTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.03, C:0.00, G:0.45, T:0.52
Consensus pattern (2 bp):
TG
Found at i:4378104 original size:69 final size:69
Alignment explanation
Indices: 4378018--4378157 Score: 262
Period size: 69 Copynumber: 2.0 Consensus size: 69
4378008 GTTTTTTATG
*
4378018 TAGAAAGCATGCGCCTTTACCAATCAATTTTCATAGAATCGAATCTCTATAGCTTCTTCCCACGT
1 TAGAAAGCATGCGCCTTTACCAATCAATTTTCATAGAATCAAATCTCTATAGCTTCTTCCCACGT
4378083 TCTC
66 TCTC
*
4378087 TAGAAAGCATGCTCCTTTACCAATCAATTTTCATAGAATCAAATCTCTATAGCTTCTTCCCACGT
1 TAGAAAGCATGCGCCTTTACCAATCAATTTTCATAGAATCAAATCTCTATAGCTTCTTCCCACGT
4378152 TCTC
66 TCTC
4378156 TA
1 TA
4378158 ATCTATTCCC
Statistics
Matches: 69, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 69 1.00
ACGTcount: A:0.29, C:0.27, G:0.10, T:0.34
Consensus pattern (69 bp):
TAGAAAGCATGCGCCTTTACCAATCAATTTTCATAGAATCAAATCTCTATAGCTTCTTCCCACGT
TCTC
Done.