Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, 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: 12862612
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 56
Found at i:1966239 original size:17 final size:17
Alignment explanation
Indices: 1966219--1966272 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
1966209 CTATACAATT
* *
1966219 TATATTTATATATTATG
1 TATATTTATAAATTATA
* *
1966236 TATAATTATAAATAATA
1 TATATTTATAAATTATA
1966253 TATATTGTATAAATTATA
1 TATATT-TATAAATTATA
1966271 TA
1 TA
1966273 GTTTATTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 18 0.60
18 12 0.40
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (17 bp):
TATATTTATAAATTATA
Found at i:1966271 original size:99 final size:98
Alignment explanation
Indices: 1966063--1966307 Score: 248
Period size: 99 Copynumber: 2.5 Consensus size: 98
1966053 TAAAGATTAA
* * * *
1966063 ATAAATTATATAGTTTATATATAAAGTATATGT-ATTATATATATAAACTATATAGTTTATATAT
1 ATAAATTATATAGTTTATATATAAACTATATATGAATATATATATAAACTATAAAGTTTATATAT
* * *
1966127 ATTATGTATAAACTATATATACCATGTTTAAACT
66 ATTATGTATAAACTATAAATA-CATATATAAACT
* * *
1966161 ATAATACTATATAGTTTATATATAAATTATATATGAAT-TATATATAAACTATACAATTTATATT
1 ATAA-ATTATATAGTTTATATATAAACTATATATGAATATATATATAAACTATA-AAGTT-TA--
* ***
1966225 TATATATTATGTAT-AATTATAAATA-ATATATATTGT
61 TATATATTATGTATAAACTATAAATACATATATAAACT
*
1966261 ATAAATTATATAGTTTATTAATATAAACTATATA-GTATATATATATA
1 ATAAATTATATAGTTTA-T-ATATAAACTATATATGAATATATATATA
1966308 TATATATAGT
Statistics
Matches: 122, Mismatches: 16, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
98 4 0.03
99 53 0.43
100 19 0.16
101 23 0.19
102 9 0.07
103 14 0.11
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.46
Consensus pattern (98 bp):
ATAAATTATATAGTTTATATATAAACTATATATGAATATATATATAAACTATAAAGTTTATATAT
ATTATGTATAAACTATAAATACATATATAAACT
Found at i:1966334 original size:7 final size:7
Alignment explanation
Indices: 1966324--1966384 Score: 79
Period size: 7 Copynumber: 8.9 Consensus size: 7
1966314 TAGTATATAT
1966324 GGTTTAG
1 GGTTTAG
*
1966331 GGTTTAA
1 GGTTTAG
1966338 GGTTTAG
1 GGTTTAG
*
1966345 AGTTTAG
1 GGTTTAG
1966352 GGTTTA-
1 GGTTTAG
*
1966358 AGTTTAG
1 GGTTTAG
*
1966365 GGATTAG
1 GGTTTAG
1966372 GGTTTAG
1 GGTTTAG
1966379 GGTTTA
1 GGTTTA
1966385 TATTTATGTT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
6 5 0.11
7 40 0.89
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (7 bp):
GGTTTAG
Found at i:1966371 original size:27 final size:27
Alignment explanation
Indices: 1966332--1966384 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
1966322 ATGGTTTAGG
*
1966332 GTTTAAGGTTTAGAGTTTAGGGTTTAA
1 GTTTAAGGATTAGAGTTTAGGGTTTAA
* *
1966359 GTTTAGGGATTAGGGTTTAGGGTTTA
1 GTTTAAGGATTAGAGTTTAGGGTTTA
1966385 TATTTATGTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.23, C:0.00, G:0.34, T:0.43
Consensus pattern (27 bp):
GTTTAAGGATTAGAGTTTAGGGTTTAA
Found at i:1966396 original size:6 final size:6
Alignment explanation
Indices: 1966390--1968108 Score: 2705
Period size: 6 Copynumber: 286.8 Consensus size: 6
1966380 GTTTATATTT
* * * * * * * *
1966390 ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
* * * * * * *
1966438 ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1966486 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1966534 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1966582 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1966630 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1966678 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1966726 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1966774 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1966822 ATG-TC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1966869 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1966917 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1966965 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATG-TC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1967012 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1967060 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1967108 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1967156 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1967204 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1967252 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATG-TTC ATGTTC
1967301 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1967349 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1967397 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1967445 ATG-TC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1967492 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1967540 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1967588 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1967636 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1967684 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1967732 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
* * * * * *
1967780 ATGTTC ATGTTC ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
* * * * * * * *
1967828 ATGTTT ATGTTT ATGTTT ATGTT- -TGTTT ATGTTT ATGTTT AGGGTTT
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC A-TGTTC
* * * * * * * * * *
1967875 ATGTTT AGGGTTT ATATTT ATGTTT ATGTTT ATGTTG ATGTTT ATGTTT
1 ATGTTC A-TGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
* * * * * * * *
1967924 ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
* * * * * * * *
1967972 ATGTTT ATGTT- -TGTTT ATGTTT ATGTTT ATGTTT ATGTTT AGGGTTT
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC A-TGTTC
* * * * * * * * * *
1968019 ATGTTT AGGGTTT ATATTT ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT
1 ATGTTC A-TGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC
* * * * * *
1968068 ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATGTTT ATGTT
1 ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTTC ATGTT
1968109 AGGGTTTATA
Statistics
Matches: 1685, Mismatches: 16, Indels: 24
0.98 0.01 0.01
Matches are distributed among these distances:
4 8 0.00
5 15 0.01
6 1636 0.97
7 26 0.02
ACGTcount: A:0.17, C:0.13, G:0.17, T:0.53
Consensus pattern (6 bp):
ATGTTC
Found at i:1966397 original size:12 final size:12
Alignment explanation
Indices: 1966380--1968783 Score: 1395
Period size: 12 Copynumber: 203.5 Consensus size: 12
1966370 AGGGTTTAGG
*
1966380 GTTTATATTTAT
1 GTTTATGTTTAT
1966392 GTTTATGTTTAT
1 GTTTATGTTTAT
1966404 GTTTATGTTTAT
1 GTTTATGTTTAT
1966416 GTTTATGTTTAT
1 GTTTATGTTTAT
1966428 GTTTATGTTTAT
1 GTTTATGTTTAT
1966440 GTTTATGTTTAT
1 GTTTATGTTTAT
1966452 GTTTATGTTTAT
1 GTTTATGTTTAT
1966464 GTTTATGTTTAT
1 GTTTATGTTTAT
*
1966476 GTTTATGTTCAT
1 GTTTATGTTTAT
* *
1966488 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966500 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966512 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966524 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966536 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966548 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966560 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966572 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966584 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966596 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966608 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966620 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966632 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966644 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966656 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966668 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966680 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966692 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966704 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966716 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966728 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966740 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966752 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966764 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966776 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966788 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966800 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966812 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966824 G-TCATGTTCAT
1 GTTTATGTTTAT
* *
1966835 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966847 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966859 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966871 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966883 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966895 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966907 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966919 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966931 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966943 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966955 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966967 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966979 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1966991 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967003 G-TCATGTTCAT
1 GTTTATGTTTAT
* *
1967014 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967026 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967038 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967050 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967062 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967074 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967086 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967098 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967110 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967122 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967134 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967146 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967158 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967170 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967182 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967194 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967206 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967218 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967230 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967242 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967254 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967266 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967278 GTTCATGTTCAT
1 GTTTATGTTTAT
*
1967290 GTTTCATGTTCAT
1 GTTT-ATGTTTAT
* *
1967303 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967315 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967327 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967339 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967351 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967363 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967375 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967387 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967399 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967411 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967423 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967435 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967447 G-TCATGTTCAT
1 GTTTATGTTTAT
* *
1967458 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967470 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967482 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967494 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967506 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967518 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967530 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967542 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967554 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967566 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967578 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967590 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967602 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967614 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967626 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967638 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967650 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967662 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967674 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967686 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967698 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967710 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967722 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967734 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967746 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967758 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967770 GTTCATGTTCAT
1 GTTTATGTTTAT
* *
1967782 GTTCATGTTCAT
1 GTTTATGTTTAT
1967794 GTTTATGTTTAT
1 GTTTATGTTTAT
1967806 GTTTATGTTTAT
1 GTTTATGTTTAT
1967818 GTTTATGTTTAT
1 GTTTATGTTTAT
1967830 GTTTATGTTTAT
1 GTTTATGTTTAT
1967842 GTTTATG-TT-T
1 GTTTATGTTTAT
1967852 GTTTATGTTTAT
1 GTTTATGTTTAT
*
1967864 GTTTAGGGTTTAT
1 GTTTA-TGTTTAT
*
1967877 GTTTAGGGTTTAT
1 GTTTA-TGTTTAT
*
1967890 ATTTATGTTTAT
1 GTTTATGTTTAT
*
1967902 GTTTATGTTGAT
1 GTTTATGTTTAT
1967914 GTTTATGTTTAT
1 GTTTATGTTTAT
1967926 GTTTATGTTTAT
1 GTTTATGTTTAT
1967938 GTTTATGTTTAT
1 GTTTATGTTTAT
1967950 GTTTATGTTTAT
1 GTTTATGTTTAT
1967962 GTTTATGTTTAT
1 GTTTATGTTTAT
1967974 GTTTATG-TT-T
1 GTTTATGTTTAT
1967984 GTTTATGTTTAT
1 GTTTATGTTTAT
1967996 GTTTATGTTTAT
1 GTTTATGTTTAT
*
1968008 GTTTAGGGTTTAT
1 GTTTA-TGTTTAT
*
1968021 GTTTAGGGTTTAT
1 GTTTA-TGTTTAT
*
1968034 ATTTATGTTTAT
1 GTTTATGTTTAT
1968046 GTTTATGTTTAT
1 GTTTATGTTTAT
1968058 GTTTATGTTTAT
1 GTTTATGTTTAT
1968070 GTTTATGTTTAT
1 GTTTATGTTTAT
1968082 GTTTATGTTTAT
1 GTTTATGTTTAT
1968094 GTTTATGTTTAT
1 GTTTATGTTTAT
*
1968106 G-TTAGGGTTTAT
1 GTTTA-TGTTTAT
* *
1968118 ATTTATATTTAT
1 GTTTATGTTTAT
* *
1968130 ATTTATATTTAT
1 GTTTATGTTTAT
*
1968142 GTTTATATTTA-
1 GTTTATGTTTAT
* *
1968153 ATTTATATTTAT
1 GTTTATGTTTAT
* *
1968165 ATTTATGTTTAGG
1 GTTTATGTTTA-T
*
1968178 GTTTATATTTAT
1 GTTTATGTTTAT
* *
1968190 ATTTATATTTAT
1 GTTTATGTTTAT
* *
1968202 ATTTATATTTTAT
1 GTTTAT-GTTTAT
* *
1968215 ATTTATATTTA-
1 GTTTATGTTTAT
*
1968226 -TTTATATTTAT
1 GTTTATGTTTAT
*
1968237 ATTTA--TTTAT
1 GTTTATGTTTAT
*
1968247 ATTTA--TTTAT
1 GTTTATGTTTAT
* *
1968257 ATTTAT-ATTAT
1 GTTTATGTTTAT
* *
1968268 -ATTATATTTAT
1 GTTTATGTTTAT
* *
1968279 -ATTATATTTA-
1 GTTTATGTTTAT
*
1968289 -TTTATATTTAT
1 GTTTATGTTTAT
* *
1968300 ATTTATATTTAT
1 GTTTATGTTTAT
*
1968312 ATTTA--TTTAT
1 GTTTATGTTTAT
* *
1968322 ATTTATATTTAT
1 GTTTATGTTTAT
* *
1968334 ATTTAT-ATTAT
1 GTTTATGTTTAT
* *
1968345 ATTTATATTTAT
1 GTTTATGTTTAT
* *
1968357 ATTTAT-ATTAT
1 GTTTATGTTTAT
* *
1968368 ATTTAT-ATTAT
1 GTTTATGTTTAT
* *
1968379 -ATTATATTTAT
1 GTTTATGTTTAT
* *
1968390 ATATTATATTTAT
1 GT-TTATGTTTAT
* *
1968403 ATTTTATTTTATTAT
1 -GTTTA-TGT-TTAT
* *
1968418 ATTTATATTTAT
1 GTTTATGTTTAT
*
1968430 ATTTA--TTTAT
1 GTTTATGTTTAT
*
1968440 ATTTA--TTTAT
1 GTTTATGTTTAT
* *
1968450 ATTTATATTTAT
1 GTTTATGTTTAT
* *
1968462 ATTTATATTTAT
1 GTTTATGTTTAT
* *
1968474 ATTTAT-ATTAT
1 GTTTATGTTTAT
*
1968485 ATTTAT-TTTAT
1 GTTTATGTTTAT
* *
1968496 ATTTAT-ATTAT
1 GTTTATGTTTAT
* *
1968507 ATTTATATTTAT
1 GTTTATGTTTAT
*
1968519 ATTTAT-TTTAT
1 GTTTATGTTTAT
* *
1968530 -ATTATATTTAT
1 GTTTATGTTTAT
* *
1968541 ATTTAT-ATTAT
1 GTTTATGTTTAT
* *
1968552 ATTTATATTTAT
1 GTTTATGTTTAT
* *
1968564 ATTTATATTTAT
1 GTTTATGTTTAT
*
1968576 ATTTA--TTTAT
1 GTTTATGTTTAT
*
1968586 -TTATATTATATTAT
1 GTT-TA-TGT-TTAT
* *
1968600 ATTTATATTTAT
1 GTTTATGTTTAT
* *
1968612 ATTTATATTTAT
1 GTTTATGTTTAT
* *
1968624 ATTTATATTTAT
1 GTTTATGTTTAT
* *
1968636 ATTTATATTTAT
1 GTTTATGTTTAT
* *
1968648 ATTTATATTTAT
1 GTTTATGTTTAT
*
1968660 ATTTAT-TTTA-
1 GTTTATGTTTAT
*
1968670 -TTTATATTTAT
1 GTTTATGTTTAT
* *
1968681 ATTTAT-ATTAT
1 GTTTATGTTTAT
* *
1968692 ATTTATATTTAT
1 GTTTATGTTTAT
*
1968704 ATTTA--TTTAT
1 GTTTATGTTTAT
* *
1968714 ATTTATATTTA-
1 GTTTATGTTTAT
*
1968725 -TTTATATTTAT
1 GTTTATGTTTAT
1968736 -TTTA--TTTAT
1 GTTTATGTTTAT
* *
1968745 ATTTATATTTA-
1 GTTTATGTTTAT
1968756 -TTTAT-TTTAT
1 GTTTATGTTTAT
* *
1968766 ATTTATATTTAT
1 GTTTATGTTTAT
*
1968778 ATTTAT
1 GTTTAT
1968784 ATATATTTAT
Statistics
Matches: 2282, Mismatches: 55, Indels: 110
0.93 0.02 0.04
Matches are distributed among these distances:
9 16 0.01
10 137 0.06
11 174 0.08
12 1837 0.80
13 99 0.04
14 13 0.01
15 6 0.00
ACGTcount: A:0.21, C:0.09, G:0.13, T:0.57
Consensus pattern (12 bp):
GTTTATGTTTAT
Found at i:1966403 original size:18 final size:18
Alignment explanation
Indices: 1966381--1970053 Score: 1077
Period size: 18 Copynumber: 207.3 Consensus size: 18
1966371 GGGTTTAGGG
* *
1966381 TTTATATTTATGTTTATG
1 TTTATGTTTATGTTTATA
*
1966399 TTTATGTTTATGTTTATG
1 TTTATGTTTATGTTTATA
*
1966417 TTTATGTTTATGTTTATG
1 TTTATGTTTATGTTTATA
*
1966435 TTTATGTTTATGTTTATG
1 TTTATGTTTATGTTTATA
*
1966453 TTTATGTTTATGTTTATG
1 TTTATGTTTATGTTTATA
* *
1966471 TTTATGTTTATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966489 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966507 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966525 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966543 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966561 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966579 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966597 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966615 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966633 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966651 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966669 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966687 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966705 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966723 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966741 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966759 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966777 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966795 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966813 TTCATGTTCATG-TCATG
1 TTTATGTTTATGTTTATA
* * * *
1966830 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966848 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966866 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966884 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966902 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966920 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966938 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966956 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966974 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1966992 TTCATGTTCATG-TCATG
1 TTTATGTTTATGTTTATA
* * * *
1967009 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967027 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967045 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967063 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967081 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967099 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967117 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967135 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967153 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967171 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967189 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967207 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967225 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967243 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967261 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * *
1967279 TTCATGTTCATGTTTCATG
1 TTTATGTTTATGTTT-ATA
* * * *
1967298 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967316 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967334 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967352 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967370 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967388 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967406 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967424 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967442 TTCATG-TCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967459 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967477 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967495 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967513 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967531 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967549 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967567 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967585 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967603 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967621 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967639 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967657 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967675 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967693 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967711 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967729 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967747 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * * *
1967765 TTCATGTTCATGTTCATG
1 TTTATGTTTATGTTTATA
* * *
1967783 TTCATGTTCATGTTTATG
1 TTTATGTTTATGTTTATA
*
1967801 TTTATGTTTATGTTTATG
1 TTTATGTTTATGTTTATA
*
1967819 TTTATGTTTATGTTTATG
1 TTTATGTTTATGTTTATA
*
1967837 TTTATGTTTATG-TT-TG
1 TTTATGTTTATGTTTATA
**
1967853 TTTATGTTTATGTTTAGGG
1 TTTATGTTTATGTTTA-TA
*
1967872 TTTATGTTTAGGGTTTATA
1 TTTATGTTTA-TGTTTATA
*
1967891 TTTATGTTTATGTTTATG
1 TTTATGTTTATGTTTATA
* *
1967909 TTGATGTTTATGTTTATG
1 TTTATGTTTATGTTTATA
*
1967927 TTTATGTTTATGTTTATG
1 TTTATGTTTATGTTTATA
*
1967945 TTTATGTTTATGTTTATG
1 TTTATGTTTATGTTTATA
1967963 TTTATGTTTATGTTTAT-
1 TTTATGTTTATGTTTATA
* *
1967980 GTT-TGTTTATGTTTATG
1 TTTATGTTTATGTTTATA
**
1967997 TTTATGTTTATGTTTAGGG
1 TTTATGTTTATGTTTA-TA
*
1968016 TTTATGTTTAGGGTTTATA
1 TTTATGTTTA-TGTTTATA
*
1968035 TTTATGTTTATGTTTATG
1 TTTATGTTTATGTTTATA
*
1968053 TTTATGTTTATGTTTATG
1 TTTATGTTTATGTTTATA
*
1968071 TTTATGTTTATGTTTATG
1 TTTATGTTTATGTTTATA
1968089 TTTATGTTTATGTTTAT-
1 TTTATGTTTATGTTTATA
* * *
1968106 GTTAGGGTTTATATTTATA
1 TTTA-TGTTTATGTTTATA
* * *
1968125 TTTATATTTATATTTATG
1 TTTATGTTTATGTTTATA
* *
1968143 TTTATATTTA-ATTTATA
1 TTTATGTTTATGTTTATA
* **
1968160 TTTATATTTATGTTTAGGG
1 TTTATGTTTATGTTTA-TA
* *
1968179 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1968197 TTTATATTTATATTTTATA
1 TTTATGTTTAT-GTTTATA
*
1968216 TTTATATTTA--TTTATA
1 TTTATGTTTATGTTTATA
*
1968232 TTTATATTTA--TTTATA
1 TTTATGTTTATGTTTATA
*
1968248 TTTA--TTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1968264 -TTAT-ATTATATTTATA
1 TTTATGTTTATGTTTATA
*
1968280 -TTATATTTA--TTTATA
1 TTTATGTTTATGTTTATA
* *
1968295 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
*
1968313 TTTA--TTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1968329 TTTATATTTAT-ATTATA
1 TTTATGTTTATGTTTATA
* *
1968346 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1968364 -TTATATTTAT-ATTATA
1 TTTATGTTTATGTTTATA
* *
1968380 -TTATATTTATATATTATA
1 TTTATGTTTATGT-TTATA
* *
1968398 TTTATATTT-TATTT-TA
1 TTTATGTTTATGTTTATA
* *
1968414 -TTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
*
1968431 TTTA--TTTAT-ATT-TA
1 TTTATGTTTATGTTTATA
* *
1968445 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1968463 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
*
1968481 -TTATATTTAT-TTTATA
1 TTTATGTTTATGTTTATA
* *
1968497 TTTAT-ATTATATTTATA
1 TTTATGTTTATGTTTATA
*
1968514 TTTATATTTAT-TTTATA
1 TTTATGTTTATGTTTATA
* *
1968531 -TTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1968548 -TTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1968565 TTTATATTTATATTTATTTA
1 TTTATGTTTATGTTTA--TA
* *
1968585 TTTAT-ATTAT-ATTATA
1 TTTATGTTTATGTTTATA
* *
1968601 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1968619 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1968637 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
*
1968655 TTTATATTTA--TTT-TA
1 TTTATGTTTATGTTTATA
* *
1968670 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1968688 -TTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
*
1968705 TTTA--TTTATATTTATA
1 TTTATGTTTATGTTTATA
*
1968721 TTTA--TTTATATTTAT-
1 TTTATGTTTATGTTTATA
*
1968736 TTTA--TTTATATTTATA
1 TTTATGTTTATGTTTATA
1968752 TTTA--TTTAT-TTTATA
1 TTTATGTTTATGTTTATA
* *
1968767 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1968785 --TATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* * * * *
1968801 TCTATATCTATATCTATA
1 TTTATGTTTATGTTTATA
* * * *
1968819 TCTATATCTATATCTATATA
1 T-T-TATGTTTATGTTTATA
* * *
1968839 TATTATATCTAT-ATTATA
1 T-TTATGTTTATGTTTATA
*
1968857 TTTA--TTTAT-ATTATA
1 TTTATGTTTATGTTTATA
* *
1968872 TTTAT-ATTATATTTATAA
1 TTTATGTTTATGTTTAT-A
** ** * *
1968890 ACTACATACTATAATTTATA
1 TTTATGT-TTAT-GTTTATA
*
1968910 TTTATATACTATAT-TTTATA
1 TTTATGT--T-TATGTTTATA
* ***
1968930 -CTAT-TTATATAAACTATA
1 TTTATGTT-TAT-GTTTATA
* *
1968948 GTTTATATTTA--TATACTA
1 -TTTATGTTTATGTTTA-TA
* ** *
1968966 TATATGAACTATAGTTTACA
1 TTTATG-TTTAT-GTTTATA
* ** * * * *
1968986 TATGAACTATATATATAAA
1 T-TTATGTTTATGTTTATA
**
1969005 TTATATAGTTTA--CATATGA
1 TT-TAT-GTTTATGTTTAT-A
** * * * *
1969024 CCTATATATATATATATA
1 TTTATGTTTATGTTTATA
* * *
1969042 TACTATAGTTGATATTTATA
1 T-TTAT-GTTTATGTTTATA
* * *
1969062 CTATATAGTTTAT-ATGACCTA
1 -TTTAT-GTTTATGTTTA--TA
* * *
1969083 TATATACTATATAGTTTATA
1 TTTAT-GTTTAT-GTTTATA
* *
1969103 TGACCTATATATATACTAG-TTATA
1 T----T-TATGTTTA-T-GTTTATA
* *
1969127 TTTATATTTAT-ATTATA
1 TTTATGTTTATGTTTATA
* *
1969144 -TTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
*
1969161 -TTATATTTA--TTTATA
1 TTTATGTTTATGTTTATA
* *
1969176 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969194 TTTATATTTAT-ATTATA
1 TTTATGTTTATGTTTATA
* *
1969211 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
1969229 TTATAT-TTATAT-TTATATA
1 TT-TATGTT-TATGTT-TATA
* *
1969248 TTTAT-ATTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969265 TTTATATTTAT-ATTATA
1 TTTATGTTTATGTTTATA
* *
1969282 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969300 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969318 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969336 TTTATATTTA--TAT-TA
1 TTTATGTTTATGTTTATA
* *
1969351 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969369 TTTATATTTATATTTATATA
1 TTTATGTTTAT-GTT-TATA
* *
1969389 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969407 TTTATATTTAT-ATTATA
1 TTTATGTTTATGTTTATA
* *
1969424 -TTATATTTAT-ATTATA
1 TTTATGTTTATGTTTATA
* *
1969440 TTTATATTTATATTATATA
1 TTTATGTTTATGTT-TATA
* *
1969459 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969477 TTTATATTTATATTT-TA
1 TTTATGTTTATGTTTATA
* *
1969494 TTTATATTTAT-ATTATA
1 TTTATGTTTATGTTTATA
*
1969511 TTTATATTTA--TTTATA
1 TTTATGTTTATGTTTATA
*
1969527 TTTA--TTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969543 TTT-TATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969560 TTTAT-ATT-T-TATATA
1 TTTATGTTTATGTTTATA
* *
1969575 TTTATATTTATATTTATATA
1 TTTATGTTTAT-GTT-TATA
* *
1969595 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969613 TTTATATTTATATTTATATA
1 TTTATGTTTAT-GTT-TATA
* *
1969633 TTTATATTTATATTTATATA
1 TTTATGTTTAT-GTT-TATA
*
1969653 TTTATATTTA--TTTATA
1 TTTATGTTTATGTTTATA
* *
1969669 -TTATATTTAT-ATTATA
1 TTTATGTTTATGTTTATA
* *
1969685 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969703 TTTTATATTTATATTTATA
1 -TTTATGTTTATGTTTATA
* *
1969722 TTTATATTTAT-ATTATA
1 TTTATGTTTATGTTTATA
* *
1969739 TTT-TATTTAT-ATTATA
1 TTTATGTTTATGTTTATA
* *
1969755 TTTATATTT-T-ATTATA
1 TTTATGTTTATGTTTATA
* *
1969771 TTTATATTTAT-ATTATA
1 TTTATGTTTATGTTTATA
*
1969788 TTTATATTTAT-TTTATA
1 TTTATGTTTATGTTTATA
* *
1969805 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969823 TTTAT-ATTATATTTATA
1 TTTATGTTTATGTTTATA
*
1969840 TTATAT-TATATATATTTATA
1 TT-TATGT-T-TATGTTTATA
* *
1969860 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969878 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969896 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969914 -TTATATTTATATTT-TA
1 TTTATGTTTATGTTTATA
*
1969930 TTTA--TTTAT-ATTATA
1 TTTATGTTTATGTTTATA
* *
1969945 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969963 -TTATATTTAT-ATTATA
1 TTTATGTTTATGTTTATA
* *
1969979 TTTAT-ATTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1969996 TTTAT-ATTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1970013 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
* *
1970031 TTTATATTTATATTTATA
1 TTTATGTTTATGTTTATA
1970049 TTTAT
1 TTTAT
1970054 ATAAACATAT
Statistics
Matches: 3348, Mismatches: 160, Indels: 294
0.88 0.04 0.08
Matches are distributed among these distances:
14 16 0.00
15 118 0.04
16 334 0.10
17 470 0.14
18 2006 0.60
19 201 0.06
20 167 0.05
21 15 0.00
22 5 0.00
24 10 0.00
25 6 0.00
ACGTcount: A:0.26, C:0.07, G:0.09, T:0.59
Consensus pattern (18 bp):
TTTATGTTTATGTTTATA
Found at i:1968122 original size:6 final size:6
Alignment explanation
Indices: 1967885--1970094 Score: 2360
Period size: 6 Copynumber: 378.0 Consensus size: 6
1967875 ATGTTTAGGG
* * * * * * * *
1967885 TTTATA TTTATG TTTATG TTTATG TTGATG TTTATG TTTATG TTTATG
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
* * * * * * *
1967933 TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTAT-
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
* * * * * * ** * **
1967980 GTT-TG TTTATG TTTATG TTTATG TTTATG TTTAGGG TTTATG TTTAGGG
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTA-TA TTTATA TTTA-TA
* * * * * * *
1968029 TTTATA TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG TTTATG
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
* * * * * **
1968077 TTTATG TTTATG TTTATG TTTATG TTTAT- GTTAGGG TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTA-TA TTTATA TTTATA
* *
1968125 TTTATA TTTATA TTTATG TTTATA TTTA-A TTTATA TTTATA TTTATG
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
**
1968172 TTTAGGG TTTATA TTTATA TTTATA TTTATA TTTATA TTTTATA TTTATA
1 TTTA-TA TTTATA TTTATA TTTATA TTTATA TTTATA -TTTATA TTTATA
1968222 -TT-TA TTTATA TTTATA -TT-TA TTTATA -TT-TA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1968264 -TTATA -TTATA TTTATA -TTATA -TT-TA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1968307 TTTATA -TT-TA TTTATA TTTATA TTTATA TTTATA -TTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1968352 TTTATA TTTATA -TTATA TTTATA -TTATA -TTATA TTTATA TATTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA T-TTATA
1968398 TTTATA TTT-TA TTT-TA -TTATA TTTATA TTTATA -TT-TA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1968441 -TT-TA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA -TTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1968486 TTTAT- TTTATA TTTATA -TTATA TTTATA TTTATA TTTAT- TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1968531 -TTATA TTTATA TTTATA -TTATA TTTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1968577 TTTATTTA TTTATA -TTATA -TTATA TTTATA TTTATA TTTATA TTTATA
1 TTTA--TA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1968625 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA -TT-TA TTT-TA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1968670 TTTATA TTTATA TTTATA -TTATA TTTATA TTTATA -TT-TA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1968715 TTTATA -TT-TA TTTATA -TT-TA TTT-TA TTTATA TTTATA -TT-TA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1968756 TTTAT- TTTATA TTTATA TTTATA TTTATA --TATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
* * * * * *
1968801 TCTATA TCTATA TCTATA TCTATA TCTATA TCTATATA TATTATA TCTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA T-T-TATA T-TTATA TTTATA
** *
1968852 -TTATA -TT-TA TTTATA -TTATA TTTATA -TTATA TTTATAA ACTACA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTAT-A TTTATA
* * *
1968896 TACTATAA TTTATA TTTATA TACTATA TTT-TA --TACTA TTTATA TAAACTATA
1 T-TTAT-A TTTATA TTTATA T-TTATA TTTATA TTTA-TA TTTATA T---TTATA
* ** * * *
1968948 GTTTATA TTTATA --TACTA TATATGA ACTATA GTTTACA TATGA-A CTATATA
1 -TTTATA TTTATA TTTA-TA TTTAT-A TTTATA -TTTATA T-TTATA -TTTATA
* * * ** * * *
1968999 TATAAA TTATATA GTTTACA --TATGA CCTATA TATATA TATATA TACTATA
1 TTTATA TT-TATA -TTTATA TTTAT-A TTTATA TTTATA TTTATA T-TTATA
* * * * *
1969049 GTTGATA TTTATA CTATATA GTTTATA -TGACCTA TATATA CTATATA
1 -TTTATA TTTATA -TTTATA -TTTATA TTTA--TA TTTATA -TTTATA
* ** * * *
1969096 GTTTATA -TGACC TATATA TATACTA GTTATA TTTATA TTTATA -TTATA
1 -TTTATA TTTATA TTTATA TTTA-TA TTTATA TTTATA TTTATA TTTATA
1969144 -TTATA TTTATA TTTATA -TTATA -TT-TA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1969188 TTTATA TTTATA TTTATA -TTATA TTTATA TTTATA TTTATA -TTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1969234 TTTATA TTTATA TATT-TA TATTATA TTTATA TTTATA TTTATA -TTATA
1 TTTATA TTTATA T-TTATA T-TTATA TTTATA TTTATA TTTATA TTTATA
1969282 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1969330 TTTATA TTTATA TTTATA --T-TA TTTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1969375 TTTATA TTTATATA TTTATA TTTATA TTTATA TTTATA TTTATA -TTATA
1 TTTATA -TT-TATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1969424 -TTATA TTTATA -TTATA TTTATA TTTATA TTATATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TT-TATA TTTATA TTTATA
1969471 TTTATA TTTATA TTTATA TTT-TA TTTATA TTTATA -TTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1969517 -TT-TA TTTATA -TT-TA TTTATA TTTATA TTT-TA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1969560 TTTATA TTT-TA --TATA TTTATA TTTATA TTTATATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA -TT-TATA TTTATA TTTATA
1969607 TTTATA TTTATA TTTATA TTTATATA TTTATA TTTATA TTTATA TATT-TA
1 TTTATA TTTATA TTTATA -TT-TATA TTTATA TTTATA TTTATA T-TTATA
1969657 TATT-TA TTTATA -TTATA TTTATA -TTATA TTTATA TTTATA TTTATA
1 T-TTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1969703 TTTTATA TTTATA TTTATA TTTATA TTTATA -TTATA TTT-TA TTTATA
1 -TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1969750 -TTATA TTTATA TTT-TA -TTATA TTTATA TTTATA -TTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1969794 TTTAT- TTTATA TTTATA TTTATA TTTATA TTTATA -TTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
*
1969840 TTATATTA TATATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1 TT-TA-TA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1969890 TTTATA TTTATA TTTATA TTTATA -TTATA TTTATA TTT-TA -TT-TA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1969934 TTTATA -TTATA TTTATA TTTATA TTTATA -TTATA TTTATA -TTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
1969979 TTTATA -TTATA TTTATA TTTATA -TTATA TTTATA TTTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA TTTATA
** *
1970025 TTTATA TTTATA TTTATA TTTATA TTTATA TAAACATA TACTATA TTTATA
1 TTTATA TTTATA TTTATA TTTATA TTTATA T--TTATA T-TTATA TTTATA
*
1970076 TTTATA TACTATA TTTATA
1 TTTATA T-TTATA TTTATA
1970095 CTATTTATAT
Statistics
Matches: 1972, Mismatches: 83, Indels: 298
0.84 0.04 0.13
Matches are distributed among these distances:
3 4 0.00
4 52 0.03
5 348 0.18
6 1370 0.69
7 156 0.08
8 37 0.02
9 4 0.00
10 1 0.00
ACGTcount: A:0.33, C:0.01, G:0.03, T:0.63
Consensus pattern (6 bp):
TTTATA
Found at i:1968945 original size:25 final size:23
Alignment explanation
Indices: 1968908--1968967 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
1968898 CTATAATTTA
*
1968908 TATTTATATACTATATTTTATAC
1 TATTTATATACTATAGTTTATAC
1968931 TATTTATATAAACTATAG-TT-TA-
1 TATTTATAT--ACTATAGTTTATAC
1968953 TATTTATATACTATA
1 TATTTATATACTATA
1968968 TATGAACTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
20 6 0.18
22 9 0.26
23 11 0.32
24 2 0.06
25 6 0.18
ACGTcount: A:0.38, C:0.07, G:0.02, T:0.53
Consensus pattern (23 bp):
TATTTATATACTATAGTTTATAC
Found at i:1970137 original size:33 final size:33
Alignment explanation
Indices: 1970091--1970233 Score: 125
Period size: 33 Copynumber: 4.3 Consensus size: 33
1970081 ATACTATATT
* *
1970091 TATACTATTTATATAAACTATAGTTTATATTTA
1 TATACTATATATATAAACTATAGTTTACATTTA
*
1970124 TATACTATATATATGAACTATAGTTTACA--TA
1 TATACTATATATATAAACTATAGTTTACATTTA
*
1970155 TGA-ACTATATATATAAGTTA-TATAGTTTACATATGA
1 T-ATACTATATATATAA---ACTATAGTTTACAT-TTA
** * * *
1970191 CCTA-TATATATATATACTATAGTTGATATTTA
1 TATACTATATATATAAACTATAGTTTACATTTA
1970223 TATACTATATA
1 TATACTATATA
1970234 GTTTATATAT
Statistics
Matches: 87, Mismatches: 13, Indels: 20
0.73 0.11 0.17
Matches are distributed among these distances:
31 15 0.17
32 6 0.07
33 53 0.61
34 1 0.01
35 10 0.11
36 2 0.02
ACGTcount: A:0.41, C:0.08, G:0.06, T:0.45
Consensus pattern (33 bp):
TATACTATATATATAAACTATAGTTTACATTTA
Found at i:1970161 original size:51 final size:50
Alignment explanation
Indices: 1970100--1970283 Score: 166
Period size: 51 Copynumber: 3.7 Consensus size: 50
1970090 TTATACTATT
*
1970100 TATATA-AACTATAGTTTATATTTATATACTATATATATGAACTATAGTT
1 TATATATAACTATAGTTTATATTTATATACTATATATATGAACTATAGTA
* * * * * * *
1970149 TACATATGAACTATA-TATATAAGTTATATAGTTTACATATGACCTATA-TA
1 TATATAT-AACTATAGTTTAT-ATTTATATACTATATATATGAACTATAGTA
* * *
1970199 TATATAT-ACTATAGTTGATATTTATATACTATATAGT-TTATA-TATGACCTA
1 TATATATAACTATAGTTTATATTTATATACTATATA-TATGA-ACTAT-A-GTA
1970250 TATATAT-ACTATAGTTTATATTTATATACTATAT
1 TATATATAACTATAGTTTATATTTATATACTATAT
1970284 GTAGACACCC
Statistics
Matches: 108, Mismatches: 18, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
48 23 0.21
49 10 0.09
50 11 0.10
51 64 0.59
ACGTcount: A:0.40, C:0.08, G:0.07, T:0.46
Consensus pattern (50 bp):
TATATATAACTATAGTTTATATTTATATACTATATATATGAACTATAGTA
Found at i:1970219 original size:22 final size:22
Alignment explanation
Indices: 1970194--1970243 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
1970184 CATATGACCT
1970194 ATATATATATA-TACTATAGTTG
1 ATATATATATACTA-TATAGTTG
* *
1970216 ATATTTATATACTATATAGTTT
1 ATATATATATACTATATAGTTG
1970238 ATATAT
1 ATATAT
1970244 GACCTATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 22 0.92
23 2 0.08
ACGTcount: A:0.40, C:0.04, G:0.06, T:0.50
Consensus pattern (22 bp):
ATATATATATACTATATAGTTG
Found at i:1970250 original size:20 final size:18
Alignment explanation
Indices: 1970173--1970253 Score: 53
Period size: 20 Copynumber: 4.3 Consensus size: 18
1970163 ATATATAAGT
*
1970173 TATATAGTTTACATATGACC
1 TATATAGTTTATATAT-A-C
1970193 TATATA---TATATATAC
1 TATATAGTTTATATATAC
*
1970208 TATAGTTGATATT-TATATAC
1 TATA-TAG-T-TTATATATAC
1970228 TATATAGTTTATATATGACC
1 TATATAGTTTATATAT-A-C
1970248 TATATA
1 TATATA
1970254 TATACTATAG
Statistics
Matches: 49, Mismatches: 3, Indels: 18
0.70 0.04 0.26
Matches are distributed among these distances:
15 5 0.10
16 2 0.04
17 8 0.16
18 6 0.12
19 3 0.06
20 24 0.49
21 1 0.02
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.46
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:1970338 original size:17 final size:17
Alignment explanation
Indices: 1970316--1970373 Score: 80
Period size: 17 Copynumber: 3.3 Consensus size: 17
1970306 AAAATAAAAA
1970316 ATTATATTATAATAATT
1 ATTATATTATAATAATT
1970333 ATTATATTATAATAATT
1 ATTATATTATAATAATT
* *
1970350 ATTATTATAAATTATAATT
1 ATTA-TAT-TATAATAATT
1970369 ATTAT
1 ATTAT
1970374 TAGTATTAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
17 21 0.57
18 4 0.11
19 12 0.32
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
ATTATATTATAATAATT
Found at i:1970363 original size:22 final size:22
Alignment explanation
Indices: 1970314--1970375 Score: 74
Period size: 22 Copynumber: 2.8 Consensus size: 22
1970304 AAAAAATAAA
*
1970314 AAATTATATTATAATAATTATTAT
1 AAATTATA--ATAATTATTATTAT
1970338 --ATTATAATAATTATTATTAT
1 AAATTATAATAATTATTATTAT
*
1970358 AAATTATAATTATTATTA
1 AAATTATAATAATTATTA
1970376 GTATTAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 13 0.38
22 21 0.62
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
AAATTATAATAATTATTATTAT
Found at i:1971570 original size:20 final size:20
Alignment explanation
Indices: 1971541--1971591 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
1971531 TTTTTTATTA
* *
1971541 TGTTTTATATTGTTTGCTTT
1 TGTTTGATATTGTTTGCTTC
1971561 TGTTTGATATTGTTTGCTTC
1 TGTTTGATATTGTTTGCTTC
*
1971581 TGCTTGATATT
1 TGTTTGATATT
1971592 TGTAAGGGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.12, C:0.08, G:0.18, T:0.63
Consensus pattern (20 bp):
TGTTTGATATTGTTTGCTTC
Found at i:1972443 original size:56 final size:51
Alignment explanation
Indices: 1972391--1972490 Score: 137
Period size: 51 Copynumber: 1.9 Consensus size: 51
1972381 TTATAATTAA
* *
1972391 TATAAAACTAAATTTCAAAAAAGTAATTATATTAATTTGATTATCATAATAATT
1 TATAAAA--AAATTTC-AAAAAGTAATCATATTAATTTAATTATCATAATAATT
* *
1972445 TATGATAAAATTTCAAAAAGTAATCATATTAATTTAATTATCATAA
1 TATAAAAAAATTTCAAAAAGTAATCATATTAATTTAATTATCATAA
1972491 GTTTATTATA
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
51 30 0.71
52 7 0.17
54 5 0.12
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (51 bp):
TATAAAAAAATTTCAAAAAGTAATCATATTAATTTAATTATCATAATAATT
Found at i:1977399 original size:10 final size:10
Alignment explanation
Indices: 1977384--1977412 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
1977374 GAGAGGATCG
1977384 AATTGAAATA
1 AATTGAAATA
1977394 AATTGAAATA
1 AATTGAAATA
1977404 AATTGAAAT
1 AATTGAAAT
1977413 TAATGGGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.10, T:0.31
Consensus pattern (10 bp):
AATTGAAATA
Found at i:1978545 original size:5 final size:5
Alignment explanation
Indices: 1978495--1978538 Score: 79
Period size: 5 Copynumber: 8.8 Consensus size: 5
1978485 AAAAACAAAA
*
1978495 TAAAT TAAAT TAAAG TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
1978539 AATAAAAGTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
5 37 1.00
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.36
Consensus pattern (5 bp):
TAAAT
Found at i:1979912 original size:84 final size:84
Alignment explanation
Indices: 1979700--1980179 Score: 534
Period size: 84 Copynumber: 5.7 Consensus size: 84
1979690 CTGAATGAAA
* * * * * * * * *
1979700 TCGAACTCGACGGT-TTTTATTGACAGATAGCCCTTCTTA-CCTTGCGCTAAGCTGTAAATGATG
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTC-TAGCCTTGAGTTATGCTGCAAATGATG
* * *
1979763 TGCCTTTGAGCTGAGTGTAA
65 TGCCTTGGAGCTGAGCGTAG
* * * * * *
1979783 TAGAACT-GAAGGTCTTTTGTTGGCAGATAACCCTTCTAACGTTGAGTAATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
1979847 GCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * *
1979866 TCGAACTAGAAGGTCTTTTGTTGGAAAATAGCCCTTCTTGCCTTGAGTTATGTTGCAAATGATGT
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* * *
1979931 GCCTTAGAGCTAAACGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * *
1979950 TCGAACTTGAAGGTCTTTGGTTGGCAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATAT
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
* **
1980015 ACCTTTAAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * * * *
1980034 TCGAACTCGAAGGTTTTTTGTTGGCATATAACCATTATAGCCTTGAGTTATGCTGCAAATGATGC
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
1980099 GCCTTGGAGCTGAGCGTAG
66 GCCTTGGAGCTGAGCGTAG
* * ** * *
1980118 TCGAACTCGAAGGTCTTTGGTTGGAAAATAACCCTTCTTTCCTTGAGCTATGTTGCAAATGA
1 TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGA
1980180 ACACGATATC
Statistics
Matches: 334, Mismatches: 60, Indels: 5
0.84 0.15 0.01
Matches are distributed among these distances:
82 7 0.02
83 65 0.19
84 262 0.78
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (84 bp):
TCGAACTCGAAGGTCTTTTGTTGGCAAATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGATGT
GCCTTGGAGCTGAGCGTAG
Found at i:1980266 original size:66 final size:66
Alignment explanation
Indices: 1980184--1980399 Score: 188
Period size: 66 Copynumber: 3.4 Consensus size: 66
1980174 AAATGAACAC
*
1980184 GATATCCTTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGAATT
1 GATATCCTTCATCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGAATT
1980249 G
66 G
* ***
1980250 GATATCCTTCATCGTGAAGTTGAAATCC----A--A--TCTT-AAAGATGAATGTT--G-CTGGT
1 GATATCCTTCATCGTGAAGTTGAAA-CCGTGGATGACCCCTTCGTTG-TGAA-GTTGAGCCT--T
****
1980303 GAGCAC
61 GAATTG
*
1980309 GAT-TCCCTTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGAAT
1 GATAT-CCTTCATCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGAAT
1980373 TG
65 TG
*
1980375 GATATCCTTCATCGTGAATTTGAAA
1 GATATCCTTCATCGTGAAGTTGAAA
1980400 TCCAATCTTA
Statistics
Matches: 111, Mismatches: 20, Indels: 38
0.66 0.12 0.22
Matches are distributed among these distances:
57 2 0.02
58 5 0.05
59 32 0.29
60 3 0.03
61 1 0.01
62 1 0.01
63 1 0.01
64 1 0.01
65 3 0.03
66 55 0.50
67 5 0.05
68 2 0.02
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (66 bp):
GATATCCTTCATCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGAATT
G
Found at i:1980389 original size:125 final size:124
Alignment explanation
Indices: 1980181--1981025 Score: 1257
Period size: 124 Copynumber: 6.8 Consensus size: 124
1980171 TGCAAATGAA
1980181 CACGATAT-CCTTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTG
1 CACGAT-TCCCTTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTG
1980245 AATTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTTAAAGATGAATGTTGCTGGTGAG
65 AATTGGATATCCTTCATCGTGAAGTTGAAATCCAATC-TAAAGATGAATGTTGCTGGTGAG
1980306 CACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGA
1 CACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGA
*
1980371 ATTGGATATCCTTCATCGTGAATTTGAAATCCAATCTTAAAGATGAATGTTGCTGGTGAG
66 ATTGGATATCCTTCATCGTGAAGTTGAAATCCAATC-TAAAGATGAATGTTGCTGGTGAG
* ** *
1980431 CACGATTCCCTTCGTCGTGAATTTGAAATTGTGGATGGCCCCTTCGTTGTGAAGTTGAGCCTTGA
1 CACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGA
* * **
1980496 ATTGGATATCCTTCGTCGTGAATTTGAAATCCAATCTAAAGATGAATGTCACTGGTGAG
66 ATTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAG
* * *
1980555 CACGATTCCCTTCGTCGTGAAGTTGAAAACGTGGATGGA-CCATTCATTGTGAAGTTGAGCCTTG
1 CACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGAT-GACCCCTTCGTTGTGAAGTTGAGCCTTG
** * * * *
1980619 AATTGGATATTTTTCGTCGTGAAGTTGAAATCCCATTTTAAAGATGAATGTTGCTGGCGAG
65 AATTGGATATCCTTCATCGTGAAGTTGAAAT-CCAATCTAAAGATGAATGTTGCTGGTGAG
* * *
1980680 CACGATTCCCTTCATCGTGAAGTTGAAACCGTGGATG-GCCCTTCGTTGTGAAGTTGATCCTTGA
1 CACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGA
* * * * * * * *
1980744 ATTTGATATCATTCGTCGTGAAGTTGAAATCCAATCTAAATAGGAATATTGTTGGTTAG
66 ATTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAG
* *
1980803 CACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGGCCCATTCGTTGTGAAGTTGAGCCTTGA
1 CACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGA
* *
1980868 TTTGGATATCCTTCTTCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAG
66 ATTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAG
* * * *
1980927 CACGATTCCCTTCGTCATGAAGTTGAAACCGTGGATGGCCCTTTCGTTGTAAAGTTGAGCCTT-A
1 CACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGA
* *
1980991 ACTTGAATATCTTTCATCGTGAAGTTGAAATCCAA
66 A-TTGGATATCCTTCATCGTGAAGTTGAAATCCAA
1981026 GCTTGTATTG
Statistics
Matches: 656, Mismatches: 58, Indels: 13
0.90 0.08 0.02
Matches are distributed among these distances:
123 58 0.09
124 321 0.49
125 277 0.42
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (124 bp):
CACGATTCCCTTCGTCGTGAAGTTGAAACCGTGGATGACCCCTTCGTTGTGAAGTTGAGCCTTGA
ATTGGATATCCTTCATCGTGAAGTTGAAATCCAATCTAAAGATGAATGTTGCTGGTGAG
Found at i:1985253 original size:9 final size:10
Alignment explanation
Indices: 1985229--1985260 Score: 55
Period size: 10 Copynumber: 3.1 Consensus size: 10
1985219 AAGTCTTAAG
1985229 AAAATAAAATT
1 AAAA-AAAATT
1985240 AAAAAAAATT
1 AAAAAAAATT
1985250 AAAAAAAATT
1 AAAAAAAATT
1985260 A
1 A
1985261 GAGGATCGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 17 0.81
11 4 0.19
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (10 bp):
AAAAAAAATT
Found at i:1986692 original size:38 final size:37
Alignment explanation
Indices: 1986523--1986925 Score: 266
Period size: 38 Copynumber: 10.9 Consensus size: 37
1986513 ATATATTATA
* * * * *
1986523 TTTTTAAAAAAGTTTTCAAAACTACATATTATGT-AG
1 TTTTTCAAAATGTTTTCAAAACCATATATTATATAAG
* *
1986559 -TTTTCAAAAATGATTTTTAAAA--A-ATATTTTATAAG
1 TTTTTC-AAAATG-TTTTCAAAACCATATATTATATAAG
* * * * *
1986594 -TTTTCAAAAATATTTTTAAAACTATTTATTATATAATT
1 TTTTTC-AAAATGTTTTCAAAACCATATATTATATAA-G
*
1986632 TTTTTCAAATATGTTTTTAAAACCATATATTATATAAG
1 TTTTTCAAA-ATGTTTTCAAAACCATATATTATATAAG
* *
1986670 TTTTTCAAAATGTTTTCCAAAACTATCTATTATATAAG
1 TTTTTCAAAATGTTTT-CAAAACCATATATTATATAAG
*
1986708 TTTTATCAAAAATGATTTTCAAAAACCATATAATATATATA-
1 TTTT-TC-AAAATG-TTTTC-AAAACCATATATTATATA-AG
* * *
1986749 TATTT-AAAATGTTTTTCAAAAAC-TATATAATAT-AG
1 TTTTTCAAAATG-TTTTCAAAACCATATATTATATAAG
*
1986784 -TTTT-AAAATGTTTTTCAAAACTATATATTATAT-A-
1 TTTTTCAAAATG-TTTTCAAAACCATATATTATATAAG
* * *
1986818 TATTTTCAAAATATTTTAAAAACCATATATTATATCAG
1 T-TTTTCAAAATGTTTTCAAAACCATATATTATATAAG
* * *
1986856 -TTTTCGAAAAATATTTTTAAAAACATATATTATATAA-
1 TTTTTC--AAAATGTTTTCAAAACCATATATTATATAAG
* * * *
1986893 -TTTCCAAAATGATTTC-AAACTATATATAATATA
1 TTTTTCAAAATGTTTTCAAAACCATATATTATATA
1986926 TATAAAAAAT
Statistics
Matches: 302, Mismatches: 41, Indels: 50
0.77 0.10 0.13
Matches are distributed among these distances:
34 50 0.17
35 36 0.12
36 43 0.14
37 39 0.13
38 72 0.24
39 31 0.10
40 8 0.03
41 22 0.07
42 1 0.00
ACGTcount: A:0.44, C:0.08, G:0.04, T:0.44
Consensus pattern (37 bp):
TTTTTCAAAATGTTTTCAAAACCATATATTATATAAG
Found at i:1988696 original size:19 final size:18
Alignment explanation
Indices: 1988677--1988725 Score: 62
Period size: 19 Copynumber: 2.6 Consensus size: 18
1988667 GTTGTTTTTA
1988677 AAATAAAAAATAAGAATT
1 AAATAAAAAATAAGAATT
* *
1988695 AAATAAAAGAAAAATAATT
1 AAATAAAA-AATAAGAATT
1988714 AAATAAACAAAT
1 AAATAAA-AAAT
1988726 TAAAGAGATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
18 8 0.31
19 17 0.65
20 1 0.04
ACGTcount: A:0.73, C:0.02, G:0.04, T:0.20
Consensus pattern (18 bp):
AAATAAAAAATAAGAATT
Found at i:1989414 original size:62 final size:67
Alignment explanation
Indices: 1989312--1989487 Score: 209
Period size: 71 Copynumber: 2.6 Consensus size: 67
1989302 TAAAACATCT
* *
1989312 TAAATCCTAATTAAAACACTTAAAACTATTTAAACTAAAATACCT-AAA-A-AT-AAT-ATAATA
1 TAAATCCTAATTAAAATAC-TAAACCTATTTAAACTAAAATACCTAAAACAGATAAATAATAATA
*
1989372 TTC
65 TCC
*
1989375 TAAATCCTAATTAAAATGCTAAACCTATTTAAACTAAAATACCTAAAACATGATAAATAAAAATA
1 TAAATCCTAATTAAAATACTAAACCTATTTAAACTAAAATACCTAAAACA-GATAAAT---AATA
1989440 ATATCC
62 ATATCC
* *
1989446 TAAAACTTAATTAAAATACTAAAACCTATTTAAACTAAAATA
1 TAAATCCTAATTAAAATACT-AAACCTATTTAAACTAAAATA
1989488 AAAAGATAAA
Statistics
Matches: 96, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
62 24 0.25
63 20 0.21
64 1 0.01
66 2 0.02
67 3 0.03
71 25 0.26
72 21 0.22
ACGTcount: A:0.55, C:0.14, G:0.01, T:0.30
Consensus pattern (67 bp):
TAAATCCTAATTAAAATACTAAACCTATTTAAACTAAAATACCTAAAACAGATAAATAATAATAT
CC
Found at i:1996796 original size:7 final size:7
Alignment explanation
Indices: 1996784--1996808 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1996774 ATATAAAAAT
1996784 AAAAGGA
1 AAAAGGA
1996791 AAAAGGA
1 AAAAGGA
1996798 AAAAGGA
1 AAAAGGA
1996805 AAAA
1 AAAA
1996809 TAATATAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (7 bp):
AAAAGGA
Found at i:1996881 original size:11 final size:11
Alignment explanation
Indices: 1996865--1996900 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1996855 GTTGTTTCAA
1996865 AAATAATAATT
1 AAATAATAATT
1996876 AAATAA-AA-T
1 AAATAATAATT
1996885 AAA-AATAATT
1 AAATAATAATT
1996895 AAATAA
1 AAATAA
1996901 ACAAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
8 2 0.09
9 6 0.27
10 6 0.27
11 8 0.36
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AAATAATAATT
Found at i:1996901 original size:23 final size:22
Alignment explanation
Indices: 1996863--1996910 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
1996853 AAGTTGTTTC
* *
1996863 AAAAATAATAATTAAATAAAAT
1 AAAAATAATAAATAAACAAAAT
*
1996885 AAAAATAATTAAATAAACAAATT
1 AAAAATAA-TAAATAAACAAAAT
1996908 AAA
1 AAA
1996911 GAGATTGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 8 0.36
23 14 0.64
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAAATAATAAATAAACAAAAT
Found at i:2002001 original size:21 final size:21
Alignment explanation
Indices: 2001958--2002001 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
2001948 GTTGGGAAGA
*
2001958 TCATCTTTGTCTTCTTCTCCT
1 TCATCTTTGTCTTCGTCTCCT
*
2001979 TCATCTTT-TCTTCCGTCTTCT
1 TCATCTTTGTCTT-CGTCTCCT
2002000 TC
1 TC
2002002 TCCAAATCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.05, C:0.34, G:0.05, T:0.57
Consensus pattern (21 bp):
TCATCTTTGTCTTCGTCTCCT
Found at i:2003331 original size:22 final size:23
Alignment explanation
Indices: 2003306--2003354 Score: 57
Period size: 22 Copynumber: 2.2 Consensus size: 23
2003296 ATGCGTTCGG
* *
2003306 ACTTCT-GTATCAGTGTTGAGGT
1 ACTTCTAGTATCAGTGTTAAGGC
*
2003328 ACTT-TAGTATTAGTGTTAAGGC
1 ACTTCTAGTATCAGTGTTAAGGC
2003350 ACTTC
1 ACTTC
2003355 CGTGATAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.41
Consensus pattern (23 bp):
ACTTCTAGTATCAGTGTTAAGGC
Found at i:2010340 original size:16 final size:15
Alignment explanation
Indices: 2010315--2010344 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
2010305 ATTAATAATT
2010315 TTTTAAATATTTATA
1 TTTTAAATATTTATA
2010330 TTTTAATATATTTAT
1 TTTTAA-ATATTTAT
2010345 TTGATAACTA
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:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TTTTAAATATTTATA
Found at i:2010578 original size:13 final size:13
Alignment explanation
Indices: 2010560--2010602 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
2010550 TTTATTCTTA
2010560 TATTAAAATTGTG
1 TATTAAAATTGTG
** *
2010573 TATTAAACGT-TA
1 TATTAAAATTGTG
2010585 TATTAAAATTGTG
1 TATTAAAATTGTG
2010598 TATTA
1 TATTA
2010603 TCACACACCT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
12 9 0.39
13 14 0.61
ACGTcount: A:0.40, C:0.02, G:0.12, T:0.47
Consensus pattern (13 bp):
TATTAAAATTGTG
Found at i:2014294 original size:21 final size:20
Alignment explanation
Indices: 2014208--2014365 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
2014198 AAATGACCAA
**
2014208 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
2014227 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
2014247 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
2014267 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * *
2014288 GAAAATCGCAATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
2014309 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* * *
2014329 CCATAATCGCAACGCGAATAT
1 -CAAAATCGCAACGCGATTTT
*
2014350 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
2014366 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 40 0.39
21 46 0.45
ACGTcount: A:0.38, C:0.25, G:0.17, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:2014427 original size:20 final size:20
Alignment explanation
Indices: 2014333--2014701 Score: 451
Period size: 20 Copynumber: 18.4 Consensus size: 20
2014323 GATTTTCCAT
* ** *
2014333 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2014353 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2014373 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2014393 AATCGCAACGAGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
2014413 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
2014433 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2014453 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2014473 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2014493 AA-CTGCAACGTGTATCCGTA
1 AATC-GCAACGCGTATCCGTA
2014513 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2014533 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2014553 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2014573 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
2014593 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2014613 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2014633 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2014653 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2014673 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2014693 AATCACAAC
1 AATCGCAAC
2014702 ACTTAAATTT
Statistics
Matches: 305, Mismatches: 34, Indels: 20
0.85 0.09 0.06
Matches are distributed among these distances:
19 4 0.01
20 297 0.97
21 4 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2015616 original size:12 final size:12
Alignment explanation
Indices: 2015599--2015623 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2015589 ATATAATCCT
2015599 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2015611 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2015623 G
1 G
2015624 TCCCCGAAGA
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:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2017899 original size:19 final size:19
Alignment explanation
Indices: 2017877--2018165 Score: 372
Period size: 19 Copynumber: 16.4 Consensus size: 19
2017867 CGGAAAATAC
*
2017877 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2017896 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
*
2017910 AATCGCAATGCGGAATGAA
1 AATCGCAATGCGAAATGAA
2017929 AATCGCAA--CG--A-G--
1 AATCGCAATGCGAAATGAA
2017941 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2017960 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
2017979 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
2017993 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
2018012 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
2018030 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2018049 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2018068 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2018087 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2018106 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
2018120 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2018139 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
2018158 AATCGCAA
1 AATCGCAA
2018166 CGAGATAATC
Statistics
Matches: 241, Mismatches: 6, Indels: 46
0.82 0.02 0.16
Matches are distributed among these distances:
12 8 0.03
14 31 0.13
15 1 0.00
16 13 0.05
17 14 0.06
18 18 0.07
19 156 0.65
ACGTcount: A:0.47, C:0.18, G:0.20, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:2018111 original size:127 final size:125
Alignment explanation
Indices: 2017877--2018187 Score: 436
Period size: 127 Copynumber: 2.6 Consensus size: 125
2017867 CGGAAAATAC
* *
2017877 AATCGCAACGCGAAATGAAAATCCCAA--C---ATGAAAATCGCAATGCGGAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGC-GAATGAAAATCGCAA
*
2017937 --CG--A-GAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGACAG
65 TGCGAAATGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
*
2017993 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAAAATCGCAA
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCG-AATGAAAATCGCAA
2018057 TGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
65 TGCGAAATG--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
*
2018120 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CG-A-GATAATCGCAAT
1 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAATGAAAATCGCAAT
2018181 GCGAAAT
66 GCGAAAT
2018188 TATAAACGCA
Statistics
Matches: 175, Mismatches: 6, Indels: 21
0.87 0.03 0.10
Matches are distributed among these distances:
116 24 0.14
118 1 0.01
119 1 0.01
120 26 0.15
121 3 0.02
122 2 0.01
123 18 0.10
124 2 0.01
125 1 0.01
126 2 0.01
127 86 0.49
128 9 0.05
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (125 bp):
AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAATGAAAATCGCAAT
GCGAAATGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAACGAAAG
Found at i:2018147 original size:52 final size:53
Alignment explanation
Indices: 2017941--2018187 Score: 294
Period size: 52 Copynumber: 4.6 Consensus size: 53
2017931 TCGCAACGAG
*
2017941 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAA--CGACA-G--
1 AATCGCAA-GCGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
2017993 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATG-AAATCGCAATGCGAAATGAA
1 AATCGCAA-GCG-AA--AGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
2018049 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA-GCGAAA-G--AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
2018106 AATCGCAA-CGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAAGCGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
* *
2018158 AATCGCAA-CGAGATAATCGCAATGCGAAAT
1 AATCGCAAGCGAAAGAATCGCAATGCGAAAT
2018188 TATAAACGCA
Statistics
Matches: 178, Mismatches: 5, Indels: 24
0.86 0.02 0.12
Matches are distributed among these distances:
51 9 0.05
52 95 0.53
53 7 0.04
54 2 0.01
55 8 0.04
56 29 0.16
57 28 0.16
ACGTcount: A:0.47, C:0.17, G:0.21, T:0.15
Consensus pattern (53 bp):
AATCGCAAGCGAAAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:2018302 original size:19 final size:19
Alignment explanation
Indices: 2018194--2018294 Score: 142
Period size: 19 Copynumber: 5.6 Consensus size: 19
2018184 AAATTATAAA
2018194 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2018213 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
2018233 CGCATTGCGA---TC-TCT
1 CGCATTGCGATTTTCATTT
2018248 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2018265 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
2018284 CGCATTGCGAT
1 CGCATTGCGAT
2018295 AGTCATTTTT
Statistics
Matches: 73, Mismatches: 2, Indels: 13
0.83 0.02 0.15
Matches are distributed among these distances:
13 6 0.08
15 4 0.05
16 4 0.05
17 4 0.05
19 36 0.49
20 19 0.26
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:2018420 original size:14 final size:14
Alignment explanation
Indices: 2018401--2018437 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
2018391 CATCAATTAC
2018401 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
2018415 ACAAATCATCTTTT
1 ACAAATCAACTTTT
2018429 ACAAATCAA
1 ACAAATCAA
2018438 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:2020394 original size:14 final size:14
Alignment explanation
Indices: 2020375--2020431 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2020365 GCGAAATGAA
*
2020375 AATCGCAACGACAG
1 AATCGCAACGAAAG
2020389 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
2020406 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
2020422 AATCGCAACG
1 AATCGCAACG
2020432 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:2020402 original size:33 final size:33
Alignment explanation
Indices: 2020356--2020447 Score: 159
Period size: 33 Copynumber: 2.8 Consensus size: 33
2020346 GCGAAACCAA
*
2020356 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
2020389 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
2020422 AATCGCAACGCGAAATG-AAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
2020448 TGCGATTTTG
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 9 0.16
33 47 0.84
ACGTcount: A:0.47, C:0.22, G:0.21, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:2020413 original size:19 final size:19
Alignment explanation
Indices: 2020319--2020452 Score: 119
Period size: 19 Copynumber: 7.6 Consensus size: 19
2020309 TAGTTTACTT
* *
2020319 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
2020339 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
2020358 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2020377 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
2020391 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
2020410 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
2020424 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
2020442 TCGCAATGCGA
1 TCGCAACGCGA
2020453 TTTTGTTTCG
Statistics
Matches: 97, Mismatches: 8, Indels: 20
0.78 0.06 0.16
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
18 12 0.12
19 35 0.36
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2020499 original size:33 final size:31
Alignment explanation
Indices: 2020448--2020539 Score: 139
Period size: 33 Copynumber: 2.8 Consensus size: 31
2020438 GAAATCGCAA
2020448 TGCGATTTTGTTTCGCGTTGCGATCTTGTCGT
1 TGCGATTTTGTTTCGCGTTGCGAT-TTGTCGT
2020480 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTT-GTTTCGCGTTGCGATT-TGTCGT
*
2020513 TGCGATTTTCATTTCGCGTTGCGATTT
1 TGCGATTTT-GTTTCGCGTTGCGATTT
2020540 TGGTTCGCGT
Statistics
Matches: 56, Mismatches: 2, Indels: 4
0.90 0.03 0.06
Matches are distributed among these distances:
32 11 0.20
33 45 0.80
ACGTcount: A:0.08, C:0.18, G:0.27, T:0.47
Consensus pattern (31 bp):
TGCGATTTTGTTTCGCGTTGCGATTTGTCGT
Found at i:2020501 original size:19 final size:18
Alignment explanation
Indices: 2020448--2020574 Score: 117
Period size: 18 Copynumber: 7.3 Consensus size: 18
2020438 GAAATCGCAA
2020448 TGCGATTTTGTTTCGCGT
1 TGCGATTTTGTTTCGCGT
*
2020466 TGCGATCTTG--T--CGT
1 TGCGATTTTGTTTCGCGT
2020480 TGCGATTTTGGTTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
2020499 TGCGATTCTG--T--CGT
1 TGCGATTTTGTTTCGCGT
*
2020513 TGCGATTTTCATTTCGCGT
1 TGCGATTTT-GTTTCGCGT
*
2020532 TGCGATTTTGGTTCGCGT
1 TGCGATTTTGTTTCGCGT
*
2020550 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT--GTTTCGCGT
2020570 TGCGA
1 TGCGA
2020575 AAGTAAACTA
Statistics
Matches: 88, Mismatches: 9, Indels: 22
0.74 0.08 0.18
Matches are distributed among these distances:
14 22 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 26 0.30
19 23 0.26
20 12 0.14
ACGTcount: A:0.09, C:0.17, G:0.28, T:0.46
Consensus pattern (18 bp):
TGCGATTTTGTTTCGCGT
Found at i:2020980 original size:89 final size:93
Alignment explanation
Indices: 2020617--2021075 Score: 795
Period size: 89 Copynumber: 5.1 Consensus size: 93
2020607 TTGAATGGAT
2020617 AAATTTACTTTCAACCAAAAGACAAAAC-AA-AC-AATACTATTTCACAGTGTT--A-AATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2020676 AGTTTAGCAGAATTGGCAGCAACCGAA-
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2020703 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2020767 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2020795 AAA-TT--TTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2020857 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
*
2020885 AAATTTACTTTCAACC-AAAGACAAAACAAAGAC-AA-A-TATTTCACAGTGTTAAAGAATATAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2020946 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2020974 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
2021039 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2021067 AAATTTACT
1 AAATTTACT
2021076 AAGCAATCTA
Statistics
Matches: 355, Mismatches: 3, Indels: 23
0.93 0.01 0.06
Matches are distributed among these distances:
86 28 0.08
87 2 0.01
88 16 0.05
89 103 0.29
90 75 0.21
91 42 0.12
92 21 0.06
93 68 0.19
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2021013 original size:182 final size:184
Alignment explanation
Indices: 2020617--2021075 Score: 807
Period size: 182 Copynumber: 2.5 Consensus size: 184
2020607 TTGAATGGAT
2020617 AAATTTACTTTCAACCAAAAGACAAAAC-AA-AC-AATACTATTTCACAGTGTT--A-AATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2020676 AGTTTAGCAGAATTGGCAGCAACCGAAAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
2020741 ATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 ATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2020795 AAA-TT--TTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2020857 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACC-AAAGACAAAACAAAGAC-AA
66 AGTTTAGCAGAATTGGCAGCAACCGAA-AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
*
2020920 -ATATTTCACAGTGTTAAAGAATATACAGTTTAGCAGAATTGGCAGCAACCGAAC
130 TATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2020974 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2021039 AGTTTAGCAGAATTGGCAGCAACCGAATAAATTTACT
66 AGTTTAGCAGAATTGGCAGCAACCGAA-AAATTTACT
2021076 AAGCAATCTA
Statistics
Matches: 269, Mismatches: 2, Indels: 16
0.94 0.01 0.06
Matches are distributed among these distances:
175 20 0.07
176 2 0.01
177 4 0.01
178 22 0.08
179 56 0.21
180 5 0.02
181 51 0.19
182 109 0.41
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.23
Consensus pattern (184 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAAT
ATATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2022780 original size:14 final size:14
Alignment explanation
Indices: 2022761--2022850 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
2022751 TTGAAATGAA
2022761 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2022775 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
2022792 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
2022808 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2022827 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2022841 AATCGCAACG
1 AATCGCAACG
2022851 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2022798 original size:33 final size:33
Alignment explanation
Indices: 2022753--2022867 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
2022743 TCTTTTGGTT
2022753 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
2022786 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2022819 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2022852 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2022868 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2022799 original size:19 final size:18
Alignment explanation
Indices: 2022760--2022872 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
2022750 GTTGAAATGA
2022760 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
2022775 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
2022792 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
2022808 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
2022825 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
2022841 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
2022858 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
2022873 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:2022903 original size:14 final size:14
Alignment explanation
Indices: 2022884--2022938 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2022874 TTTGGTTTCG
2022884 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2022898 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
2022917 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2022931 CGTTGCGA
1 CGTTGCGA
2022939 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2022916 original size:33 final size:33
Alignment explanation
Indices: 2022868--2022938 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
2022858 AAAATCGCAA
**
2022868 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2022901 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
2022934 TGCGA
1 TGCGA
2022939 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:2022946 original size:33 final size:33
Alignment explanation
Indices: 2022879--2022960 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
2022869 GCGATTTTGG
***
2022879 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
2022912 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
2022945 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
2022961 TCATTTATCT
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:2023099 original size:33 final size:33
Alignment explanation
Indices: 2023057--2023127 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2023047 AATACTAACT
*
2023057 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
2023090 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
2023123 TGAAA
1 TGAAA
2023128 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:2023358 original size:22 final size:22
Alignment explanation
Indices: 2023306--2023360 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2023296 TGGTTGTGAG
**
2023306 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
2023328 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2023350 GGATTTCTTCG
1 GGATTTCTTCG
2023361 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:2023526 original size:20 final size:20
Alignment explanation
Indices: 2023501--2023693 Score: 210
Period size: 20 Copynumber: 9.6 Consensus size: 20
2023491 CTTTAAATAT
2023501 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2023521 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2023543 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2023562 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2023582 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2023602 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2023622 CACGCTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2023642 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2023662 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2023682 CGCGTTGCGATT
1 CGCGTTGCGATT
2023694 ATGGAAAATC
Statistics
Matches: 144, Mismatches: 24, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
19 2 0.01
20 125 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2023691 original size:60 final size:60
Alignment explanation
Indices: 2023501--2023693 Score: 242
Period size: 60 Copynumber: 3.2 Consensus size: 60
2023491 CTTTAAATAT
**
2023501 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
2023562 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * * ** *
2023622 CACGCTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
2023682 CGCGTTGCGATT
1 CGCGTTGCGATT
2023694 ATGGAAAATC
Statistics
Matches: 109, Mismatches: 23, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
60 81 0.74
61 28 0.26
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:2023774 original size:20 final size:20
Alignment explanation
Indices: 2023749--2023800 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2023739 AAGAATCGCG
*
2023749 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2023769 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2023789 TTGCGATTCTGG
1 TTGCGATTCTGG
2023801 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:2033494 original size:200 final size:200
Alignment explanation
Indices: 2033134--2035132 Score: 3049
Period size: 200 Copynumber: 10.0 Consensus size: 200
2033124 GATACCGGAT
* * * * *
2033134 ATGTAATTGGTAAATTATTAATGTAACCGGACTAAATATATCGGTTTTGGAGAAAACAGGTGTAC
1 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTAC
** *
2033199 AAAAAGTATTAACACAAATAAAAAAAATGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCA
66 AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCA
* * * *
2033264 AGTGCACAACAAAGTGTCGATACCTTTAAAACAAGTGTCGTTCCCGAAAACATCGAAAAATATAA
131 AGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAA
2033329 TTATA
196 TTATA
* *
2033334 ATTTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAAGTGTA-
1 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTAC
* * *
2033398 AAACAAGTATCGACAAAAATAAAACAAGTGTCGATACATTTTGTCCAGATTGTATTTTAAAAACC
66 AAA-AAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACC
* ** * * * *
2033463 AAATGCACAACAAAGTGTTAATACGTTTAAAACAAGTATCGATCCCGAAATCATCGAAAAACATA
130 AAGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATA
2033528 ATTATA
195 ATTATA
* * * *
2033534 ATGTAATAAGTAAATTATTAATGTAACCAGTCTAAATATACCGGTTTTTGAGGAAACTAGTGTAC
1 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTAC
* *
2033599 AAAAAGTATCGACACAAATAAAAAAAGTATCGATACATCTTGTCCAGATTGTTTTTTAAAAACCA
66 AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCA
* * * * *
2033664 AGTGCATAACAAAGTGTCGATACGTTTAAAACAAGTGTCGATTCCGAAAACATCGAAAAATATAA
131 AGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAA
2033729 TTATA
196 TTATA
**
2033734 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACGGGTGTA-
1 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTAC
* * * * *
2033798 AAACAAGTATCAACACAAATAAAACAAGTGTCGATACATTTTGTCCAAATTTTATTTTAAAAACC
66 AAA-AAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACC
* * ** * *
2033863 AAGTGCACAACAAAGTGTCGATACGTTTAAAACAAGTGTCGATCCTAAAAATATCGAAAAATATA
130 AAGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATA
2033928 ATTATA
195 ATTATA
* * * *
2033934 ATGTAATAGGTAAATTATTAATGTAACTGGTCTAAATATACTGATTTTTGAGAAAACATGTGTAC
1 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTAC
* *
2033999 AAAAAGTATTGACAC--ATAAAAAAAGTGTCGATACATCTTGTCCCGATTGTATTTT-AAAACCT
66 AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACC-
*
2034061 AAGTGCACAACAAAGTGTCGATACATTTATAATAAGTGTCGATCCCGAAAACATCGAAAAACATA
130 AAGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATA
2034126 ATTATA
195 ATTATA
** * *
2034132 ATGTAATAGGTAAATTATTAATGTAACAAGTCTAAATATACCGATTTTTGAGAAAACATGTGTAC
1 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTAC
* *
2034197 AAAAAATATCGACACAAATAAAAAAAAGTGTCGATACATCTTGTCCAGGTTGTATTTTAAAAACC
66 AAAAAGTATCGACACAAAT-AAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACC
* * * *
2034262 AAGTGCACAACAAAGTGTCGATACATTTATAACAAGTATCGATTCCAAAAATATCGAAAAACATA
130 AAGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATA
2034327 ATTATA
195 ATTATA
* *
2034333 ATGTAATAGGTAAATTATTAATGCAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAATGTAC
1 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTAC
*
2034398 AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGAATTTTAAAAACCA
66 AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCA
* *
2034463 AGTACACAACAAAGTGTCGATACATTTATAACAAGTTTCGATCCCGAAAACATCGAAAAACATAA
131 AGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAA
2034528 TTATA
196 TTATA
* * *
2034533 ATGTAATATGTAAATTATTAATGTATCCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAC
1 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTAC
* * *
2034598 AAAAAGCATCGACACAAATAAAAAAAAATGTCGATACATCTTGTCCAGATTCTATTTTAAAAACC
66 AAAAAGTATCGACACAAAT-AAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACC
*
2034663 AAGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAATATCGAAAAACATA
130 AAGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATA
2034728 ATTATA
195 ATTATA
* * *
2034734 ATGTAATATGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAT
1 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTAC
*
2034799 AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAATCA
66 AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCA
* *
2034864 AGTGCATAACAAAGTGTCGATACATTTATAACAAGTATCGATCCCGAAAACATCGAAAAACATAA
131 AGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAA
2034929 TTATA
196 TTATA
*
2034934 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAAAAAACAAGTGTAC
1 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTAC
* * * * *
2034999 AAAAAGTATTGACAC--ATAAAAAAAATATCGATAAATCTTGTCCAGATTGTATTTTAAAAACTA
66 AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCA
* * * * * *
2035062 AGGGCATAACAAAGTTTCGATACATTTATAACAATTATCGATCCCAAAAACATCGAAAAACATAA
131 AGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAA
2035127 TTATA
196 TTATA
2035132 A
1 A
2035133 CCAAATGTCT
Statistics
Matches: 1652, Mismatches: 137, Indels: 22
0.91 0.08 0.01
Matches are distributed among these distances:
197 6 0.00
198 284 0.17
199 6 0.00
200 974 0.59
201 376 0.23
202 6 0.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.29
Consensus pattern (200 bp):
ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAGTGTAC
AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCA
AGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAA
TTATA
Found at i:2033874 original size:400 final size:399
Alignment explanation
Indices: 2033134--2035132 Score: 3060
Period size: 401 Copynumber: 5.0 Consensus size: 399
2033124 GATACCGGAT
* * * *
2033134 ATGTAATTGGTAAATTATTAATGTAACCGGACTAAATATATCGGTTTTGGAGAAAACAGGTGTAC
1 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAC
** *
2033199 AAAAAGTATTAACACAAATAAAAAAAATGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCA
66 AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCA
* * * *
2033264 AGTGCACAACAAAGTGTCGATACCTTTAAAACAAGTGTCGTTCCCGAAAACATCGAAAAATATAA
131 AGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAA
* *
2033329 TTATAATTTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCAGTTTTTGAGAAAACAAG
196 TTATAATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAG
* * *
2033394 TGTA-AAACAAGTATCGACAAAAATAAAACAAGTGTCGATACATTTTGTCCAGATTGTATTTTAA
261 TGTACAAA-AAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAA
* ** * * *
2033458 AAACCAAATGCACAACAAAGTGTTAATACGTTTAAAACAAGTATCGATCCCGAAATCATCGAAAA
325 AAACCAAGTGCACAACAAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAAT-ATCGAAAA
2033523 ACATAATTATA
389 ACATAATTATA
* * *
2033534 ATGTAATAAGTAAATTATTAATGTAACCAGTCTAAATATACCGGTTTTTGAGGAAACTA-GTGTA
1 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAAC-AGGTGTA
* *
2033598 CAAAAAGTATCGACACAAATAAAAAAAGTATCGATACATCTTGTCCAGATTGTTTTTTAAAAACC
65 CAAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACC
* * * * *
2033663 AAGTGCATAACAAAGTGTCGATACGTTTAAAACAAGTGTCGATTCCGAAAACATCGAAAAATATA
130 AAGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATA
**
2033728 ATTATAATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACGG
195 ATTATAATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAA
* * * * *
2033793 GTGTA-AAACAAGTATCAACACAAATAAAACAAGTGTCGATACATTTTGTCCAAATTTTATTTTA
260 GTGTACAAA-AAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTA
* * * *
2033857 AAAACCAAGTGCACAACAAAGTGTCGATACGTTTAAAACAAGTGTCGATCCTAAAAATATCGAAA
324 AAAACCAAGTGCACAACAAAGTGTCGATACATTTATAACAAGTATCGATCC-CAAAATATCGAAA
*
2033922 AATATAATTATA
388 AACATAATTATA
* * * *
2033934 ATGTAATAGGTAAATTATTAATGTAACTGGTCTAAATATACTGATTTTTGAGAAAACATGTGTAC
1 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAC
* *
2033999 AAAAAGTATTGACAC--ATAAAAAAAGTGTCGATACATCTTGTCCCGATTGTATTTT-AAAACCT
66 AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACC-
*
2034061 AAGTGCACAACAAAGTGTCGATACATTTATAATAAGTGTCGATCCCGAAAACATCGAAAAACATA
130 AAGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATA
** * *
2034126 ATTATAATGTAATAGGTAAATTATTAATGTAACAAGTCTAAATATACCGATTTTTGAGAAAACAT
195 ATTATAATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAA
* *
2034191 GTGTACAAAAAATATCGACACAAATAAAAAAAAGTGTCGATACATCTTGTCCAGGTTGTATTTTA
260 GTGTACAAAAAGTATCGACACAAAT-AAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTA
*
2034256 AAAACCAAGTGCACAACAAAGTGTCGATACATTTATAACAAGTATCGATTCCAAAAATATCGAAA
324 AAAACCAAGTGCACAACAAAGTGTCGATACATTTATAACAAGTATCGA-TCCCAAAATATCGAAA
2034321 AACATAATTATA
388 AACATAATTATA
* **
2034333 ATGTAATAGGTAAATTATTAATGCAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAATGTAC
1 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAC
*
2034398 AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGAATTTTAAAAACCA
66 AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCA
* *
2034463 AGTACACAACAAAGTGTCGATACATTTATAACAAGTTTCGATCCCGAAAACATCGAAAAACATAA
131 AGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAA
* * *
2034528 TTATAATGTAATATGTAAATTATTAATGTATCCGGTCTAAATATACCGGTTTTTGAGAAAACAGG
196 TTATAATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAG
* * *
2034593 TGTACAAAAAGCATCGACACAAATAAAAAAAAATGTCGATACATCTTGTCCAGATTCTATTTTAA
261 TGTACAAAAAGTATCGACACAAAT-AAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAA
*
2034658 AAACCAAGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAATATCGAAAA
325 AAACCAAGTGCACAACAAAGTGTCGATACATTTATAACAAGTATCGATCCC-AAAATATCGAAAA
2034723 ACATAATTATA
389 ACATAATTATA
* *
2034734 ATGTAATATGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAT
1 ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAC
*
2034799 AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAATCA
66 AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCA
* *
2034864 AGTGCATAACAAAGTGTCGATACATTTATAACAAGTATCGATCCCGAAAACATCGAAAAACATAA
131 AGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAA
*
2034929 TTATAATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAAAAAACAAG
196 TTATAATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAG
* * * *
2034994 TGTACAAAAAGTATTGACAC--ATAAAAAAAATATCGATAAATCTTGTCCAGATTGTATTTTAAA
261 TGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAA
* * * * * *
2035057 AACTAAGGGCATAACAAAGTTTCGATACATTTATAACAATTATCGATCCCAAAAACATCGAAAAA
326 AACCAAGTGCACAACAAAGTGTCGATACATTTATAACAAGTATCGATCCC-AAAATATCGAAAAA
2035122 CATAATTATA
390 CATAATTATA
2035132 A
1 A
2035133 CCAAATGTCT
Statistics
Matches: 1473, Mismatches: 115, Indels: 24
0.91 0.07 0.01
Matches are distributed among these distances:
397 6 0.00
398 281 0.19
399 182 0.12
400 439 0.30
401 559 0.38
402 6 0.00
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.29
Consensus pattern (399 bp):
ATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAC
AAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAAAACCA
AGTGCACAACAAAGTGTCGATACATTTATAACAAGTGTCGATCCCGAAAACATCGAAAAACATAA
TTATAATGTAATAGGTAAATTATTAATGTAACCGGTCTAAATATACCGGTTTTTGAGAAAACAAG
TGTACAAAAAGTATCGACACAAATAAAAAAAGTGTCGATACATCTTGTCCAGATTGTATTTTAAA
AACCAAGTGCACAACAAAGTGTCGATACATTTATAACAAGTATCGATCCCAAAATATCGAAAAAC
ATAATTATA
Found at i:2036987 original size:23 final size:23
Alignment explanation
Indices: 2036961--2037019 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
2036951 CGGTTAAATG
* *
2036961 CCTATTTTATTATATAAGCGTTA
1 CCTATTATATTATATAAGCGCTA
*
2036984 CCTATTACATTATATAAGCGCTA
1 CCTATTATATTATATAAGCGCTA
*
2037007 CCTAATATATTAT
1 CCTATTATATTAT
2037020 TGTACTTGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.34, C:0.17, G:0.07, T:0.42
Consensus pattern (23 bp):
CCTATTATATTATATAAGCGCTA
Found at i:2036988 original size:87 final size:87
Alignment explanation
Indices: 2036885--2037121 Score: 411
Period size: 87 Copynumber: 2.7 Consensus size: 87
2036875 AAATAGGTCA
**
2036885 ATATAAGCGCTACCTATTACATTATATAAGCATTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
2036950 CCGGTTAAATGCCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
* *
2036972 ATATAAGCGTTACCTATTACATTATATAAGCGCTACCTAATATATTATTGTACTTGATAATATTT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
*
2037037 CCGGTTAAATGTCTATTTTATT
66 CCGGTTAAATGCCTATTTTATT
* *
2037059 ATATAAGCGCTACCTATTACATTATATAAGTGCTACCTAATATGTTATTGTGCTTGATAATAT
1 ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATAT
2037122 AATATAACAT
Statistics
Matches: 141, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 141 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
CCGGTTAAATGCCTATTTTATT
Found at i:2037106 original size:23 final size:23
Alignment explanation
Indices: 2037056--2037100 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
2037046 TGTCTATTTT
*
2037056 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
2037079 ATTATATAAGTGCTACCTAATA
1 ATTATATAAGCGCTACCTAATA
2037101 TGTTATTGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.18, G:0.09, T:0.36
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:2037329 original size:2 final size:2
Alignment explanation
Indices: 2037322--2037358 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2037312 ACTTGGATAC
2037322 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2037359 TGTTCTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:2038483 original size:21 final size:22
Alignment explanation
Indices: 2038459--2038503 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
2038449 TTGTCATTTC
* *
2038459 ATTTTAT-TAAATTAATTGATA
1 ATTTTATCTAAATTAACTAATA
2038480 A-TTTATCTAAATTAACTAATA
1 ATTTTATCTAAATTAACTAATA
2038501 ATT
1 ATT
2038504 ATTCAGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
20 5 0.25
21 14 0.70
22 1 0.05
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTTTATCTAAATTAACTAATA
Found at i:2038958 original size:2 final size:2
Alignment explanation
Indices: 2038951--2038981 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
2038941 AAGGAAAAGC
2038951 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
2038982 ATTGTCGCCC
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:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:2041759 original size:43 final size:43
Alignment explanation
Indices: 2041711--2041796 Score: 154
Period size: 43 Copynumber: 2.0 Consensus size: 43
2041701 TTTAAGTTTC
2041711 TTGTGGGAAACTTTTAAATATCTATTAACTTACTAGAGGCTAA
1 TTGTGGGAAACTTTTAAATATCTATTAACTTACTAGAGGCTAA
**
2041754 TTGTGGGAATTTTTTAAATATCTATTAACTTACTAGAGGCTAA
1 TTGTGGGAAACTTTTAAATATCTATTAACTTACTAGAGGCTAA
2041797 GGATTTAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.34, C:0.10, G:0.16, T:0.40
Consensus pattern (43 bp):
TTGTGGGAAACTTTTAAATATCTATTAACTTACTAGAGGCTAA
Found at i:2044367 original size:16 final size:16
Alignment explanation
Indices: 2044346--2044377 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
2044336 TGAAGTCATC
2044346 ATCGACCTTTAGATTA
1 ATCGACCTTTAGATTA
*
2044362 ATCGACTTTTAGATTA
1 ATCGACCTTTAGATTA
2044378 GGTAGGATGA
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:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (16 bp):
ATCGACCTTTAGATTA
Found at i:2045335 original size:16 final size:16
Alignment explanation
Indices: 2045306--2045354 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
2045296 TCAAAGATAA
*
2045306 AAAATAAAAT-AAAAT
1 AAAACAAAATAAAAAT
2045321 AAAACAAAATAAAAAT
1 AAAACAAAATAAAAAT
* * *
2045337 AGAACGAGATAAAAAT
1 AAAACAAAATAAAAAT
2045353 AA
1 AA
2045355 TAGAATAAAA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
15 9 0.32
16 19 0.68
ACGTcount: A:0.76, C:0.04, G:0.06, T:0.14
Consensus pattern (16 bp):
AAAACAAAATAAAAAT
Found at i:2046325 original size:25 final size:25
Alignment explanation
Indices: 2046294--2046345 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
2046284 AAATGTTAGT
2046294 AAGTTAGTAAGAACAATAAAAATAA
1 AAGTTAGTAAGAACAATAAAAATAA
* *
2046319 AAGTTAGTATGATCAATAAAAATAA
1 AAGTTAGTAAGAACAATAAAAATAA
2046344 AA
1 AA
2046346 AGCTAGAATG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.62, C:0.04, G:0.12, T:0.23
Consensus pattern (25 bp):
AAGTTAGTAAGAACAATAAAAATAA
Found at i:2046583 original size:29 final size:29
Alignment explanation
Indices: 2046506--2046595 Score: 83
Period size: 29 Copynumber: 3.1 Consensus size: 29
2046496 ATAAATAAAT
* *
2046506 AAATAAATAACCAATAGTT-ATAATGCAAGA
1 AAATAAA-AATCAATAGTTAAT-ATGCAATA
*
2046536 AAATAAAAATCAATGGTTAATATGCAATA
1 AAATAAAAATCAATAGTTAATATGCAATA
* * * * *
2046565 AAATAAAAGTTAGTAGTTAATTTGAAATA
1 AAATAAAAATCAATAGTTAATATGCAATA
2046594 AA
1 AA
2046596 TAATATAGCA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
29 41 0.82
30 9 0.18
ACGTcount: A:0.56, C:0.06, G:0.11, T:0.28
Consensus pattern (29 bp):
AAATAAAAATCAATAGTTAATATGCAATA
Found at i:2047898 original size:122 final size:122
Alignment explanation
Indices: 2047676--2048157 Score: 606
Period size: 122 Copynumber: 4.0 Consensus size: 122
2047666 TTGAGGACAT
* * *
2047676 TGCTCATCCACGTTGAAGAGATTTGGTCGCTTTCAGATAAATTGTTTGTTGAAGATGACGTTGTT
1 TGCTCATCCATGTTGAAGAGATCTGGTCGCTTTCAGATAAATTGTTCGTTGAAGATGACGTTGTT
* * *
2047741 CCTTCTCGTTGGGGAAATCGGGTCAATATGGAGATAATTTGGTGTTGAAGACGACTC
66 CCTTCTCGTTGAGGAAATCGGGTCAATCTGAAGATAATTTGGTGTTGAAGACGACTC
* * * * *
2047798 CGCTCATCCATGTTGAAGAGATCTAGTCGCTTTCAAATAAATTGTTCGTTGAAGATGACTTTTTT
1 TGCTCATCCATGTTGAAGAGATCTGGTCGCTTTCAGATAAATTGTTCGTTGAAGATGACGTTGTT
* * * * ** *
2047863 ACTTCTCATTGAGGAAATTGGGTCAATCCGAAGATAATACGGTGTTGAAGATGACTC
66 CCTTCTCGTTGAGGAAATCGGGTCAATCTGAAGATAATTTGGTGTTGAAGACGACTC
* * * * * * * * **
2047920 TGTTCATCCGTATTGAAGAGTTATGGCCGCTTTCAGGTAAATTCTTTATTGAAGATGACGTTGTT
1 TGCTCATCCATGTTGAAGAGATCTGGTCGCTTTCAGATAAATTGTTCGTTGAAGATGACGTTGTT
* * * * * *
2047985 CCTTCTTGTTAAAGAAGTCTGGTCAATCTGGAGATAATTTGGTGTTGAAGACGACTC
66 CCTTCTCGTTGAGGAAATCGGGTCAATCTGAAGATAATTTGGTGTTGAAGACGACTC
*
2048042 TGCTCATCCATGTTGAAGAGATCTTGTCGCTTTCAGATAAATTGTTTC-TTGAAGATGACGTTGT
1 TGCTCATCCATGTTGAAGAGATCTGGTCGCTTTCAGATAAATTG-TTCGTTGAAGATGACGTTGT
* * *
2048106 TCCTTCTCGTTGAGAAAATCAGGTCAATCTGAAGATAATTTGGTGTTAAAGA
65 TCCTTCTCGTTGAGGAAATCGGGTCAATCTGAAGATAATTTGGTGTTGAAGA
2048158 TGTTCTAGAA
Statistics
Matches: 295, Mismatches: 64, Indels: 2
0.82 0.18 0.01
Matches are distributed among these distances:
122 293 0.99
123 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.23, T:0.35
Consensus pattern (122 bp):
TGCTCATCCATGTTGAAGAGATCTGGTCGCTTTCAGATAAATTGTTCGTTGAAGATGACGTTGTT
CCTTCTCGTTGAGGAAATCGGGTCAATCTGAAGATAATTTGGTGTTGAAGACGACTC
Found at i:2048033 original size:61 final size:61
Alignment explanation
Indices: 2047968--2048159 Score: 142
Period size: 61 Copynumber: 3.1 Consensus size: 61
2047958 AAATTCTTTA
*
2047968 TTGAAGATGACGTTGTTCCTTCTTGTTAAAGAAGTCTGGTCAATCTGGAGATAATTTGGTG
1 TTGAAGATGACGTTGTTCCTTCTTGTTAAAGAAGTCTGGTCAATCTGAAGATAATTTGGTG
* * * * * * * ** ** * * *
2048029 TTGAAGACGAC-TCTGCTCATCCATGTTGAAG-AGATCTTGTCGCT-TTCAGATAAATTGTTTC
1 TTGAAGATGACGT-TGTTCCTTCTTGTTAAAGAAG-TCTGGTCAATCTGAAGATAATTTG-GTG
* *
2048090 TTGAAGATGACGTTGTTCCTTCTCGTTGAGAA-AA-TCAGGTCAATCTGAAGATAATTTGGTG
1 TTGAAGATGACGTTGTTCCTTCTTGTT-A-AAGAAGTCTGGTCAATCTGAAGATAATTTGGTG
*
2048151 TTAAAGATG
1 TTGAAGATG
2048160 TTCTAGAAGT
Statistics
Matches: 92, Mismatches: 31, Indels: 16
0.66 0.22 0.12
Matches are distributed among these distances:
60 13 0.14
61 65 0.71
62 11 0.12
63 3 0.03
ACGTcount: A:0.27, C:0.14, G:0.23, T:0.36
Consensus pattern (61 bp):
TTGAAGATGACGTTGTTCCTTCTTGTTAAAGAAGTCTGGTCAATCTGAAGATAATTTGGTG
Found at i:2048133 original size:244 final size:244
Alignment explanation
Indices: 2047688--2048159 Score: 687
Period size: 244 Copynumber: 1.9 Consensus size: 244
2047678 CTCATCCACG
* * * **
2047688 TTGAAGAGATTTGGTCGCTTTCAGATAAATTGTTTGTTGAAGATGACGTTGTTCCTTCTCGTTGG
1 TTGAAGAGATTTGGCCGCTTTCAGATAAATTCTTTATTGAAGATGACGTTGTTCCTTCTCGTTAA
*
2047753 GGAAATCGGGTCAATATGGAGATAATTTGGTGTTGAAGACGACTCCGCTCATCCATGTTGAAGAG
66 AGAAATCGGGTCAATATGGAGATAATTTGGTGTTGAAGACGACTCCGCTCATCCATGTTGAAGAG
* * * **
2047818 ATCTAGTCGCTTTCAAATAAATTGTTCGTTGAAGATGACTTTTTTACTTCTCATTGAGGAAATTG
131 ATCTAGTCGCTTTCAAATAAATTGTTCGTTGAAGATGACGTTGTTACTTCTCATTGAGAAAATCA
*
2047883 GGTCAATCCGAAGATAATACGGTGTTGAAGATGACTCTGTTCATCCGTA
196 GGTCAATCCGAAGATAATACGGTGTTAAAGATGACTCTGTTCATCCGTA
* *
2047932 TTGAAGAG-TTATGGCCGCTTTCAGGTAAATTCTTTATTGAAGATGACGTTGTTCCTTCTTGTTA
1 TTGAAGAGATT-TGGCCGCTTTCAGATAAATTCTTTATTGAAGATGACGTTGTTCCTTCTCGTTA
* * * *
2047996 AAGAAGTCTGGTCAATCTGGAGATAATTTGGTGTTGAAGACGACTCTGCTCATCCATGTTGAAGA
65 AAGAAATCGGGTCAATATGGAGATAATTTGGTGTTGAAGACGACTCCGCTCATCCATGTTGAAGA
* * * *
2048061 GATCTTGTCGCTTTCAGATAAATTGTTTC-TTGAAGATGACGTTGTTCCTTCTCGTTGAGAAAAT
130 GATCTAGTCGCTTTCAAATAAATTG-TTCGTTGAAGATGACGTTGTTACTTCTCATTGAGAAAAT
* **
2048125 CAGGTCAATCTGAAGATAATTTGGTGTTAAAGATG
194 CAGGTCAATCCGAAGATAATACGGTGTTAAAGATG
2048160 TTCTAGAAGT
Statistics
Matches: 201, Mismatches: 25, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
243 2 0.01
244 196 0.98
245 3 0.01
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (244 bp):
TTGAAGAGATTTGGCCGCTTTCAGATAAATTCTTTATTGAAGATGACGTTGTTCCTTCTCGTTAA
AGAAATCGGGTCAATATGGAGATAATTTGGTGTTGAAGACGACTCCGCTCATCCATGTTGAAGAG
ATCTAGTCGCTTTCAAATAAATTGTTCGTTGAAGATGACGTTGTTACTTCTCATTGAGAAAATCA
GGTCAATCCGAAGATAATACGGTGTTAAAGATGACTCTGTTCATCCGTA
Found at i:2048351 original size:139 final size:139
Alignment explanation
Indices: 2048180--2048456 Score: 367
Period size: 139 Copynumber: 2.0 Consensus size: 139
2048170 ATTTGAGTAA
* ** *
2048180 TTTGGAGACAATATGGTTCCTTCGCGTTGAGGAAGTCTAATTGTCT-AAGGATGACAATGCTCCT
1 TTTGGAGACAACACAGTTCCTTCGCGTTGAGGAAGTCTAATTATCTGAA-GATGACAATGCTCCT
* * * * *
2048244 TCACGTTGAGGAGATCTGGTCGGTGGATGACATTGTTCCTTCATGATGAGGAAGTCTAGCCGTTT
65 TCACGTTGAGAAGATATGGTCAGTGGAAGACATTGTTCCTTCATGATGAGGAAGTCTAGCCATTT
2048309 TAGCAGATAG
130 TAGCAGATAG
* ** * *
2048319 TTTGGAGACAACACAGTTCCTTCGTGTTGAGGAAGTCTGGTTATCTGAAGATGACACTGCTTCTT
1 TTTGGAGACAACACAGTTCCTTCGCGTTGAGGAAGTCTAATTATCTGAAGATGACAATGCTCCTT
* ** *
2048384 CGCGTTGAGAAGATATGGTCAGTGGAAGACATTGTTCCTTTGTGTTGAGGAAGTCTAGCCATTTT
66 CACGTTGAGAAGATATGGTCAGTGGAAGACATTGTTCCTTCATGATGAGGAAGTCTAGCCATTTT
*
2048449 AGGAGATA
131 AGCAGATA
2048457 ATTTTTCTTT
Statistics
Matches: 118, Mismatches: 19, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
139 116 0.98
140 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (139 bp):
TTTGGAGACAACACAGTTCCTTCGCGTTGAGGAAGTCTAATTATCTGAAGATGACAATGCTCCTT
CACGTTGAGAAGATATGGTCAGTGGAAGACATTGTTCCTTCATGATGAGGAAGTCTAGCCATTTT
AGCAGATAG
Found at i:2048946 original size:2 final size:2
Alignment explanation
Indices: 2048939--2049006 Score: 136
Period size: 2 Copynumber: 34.0 Consensus size: 2
2048929 AAGAAAAAGA
2048939 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2048981 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
2049007 TGTTGGAATG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 66 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2049727 original size:2 final size:2
Alignment explanation
Indices: 2049720--2049753 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
2049710 GGGACACAGA
2049720 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
2049754 TATTTCGGAA
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:2050019 original size:2 final size:2
Alignment explanation
Indices: 2050012--2050066 Score: 110
Period size: 2 Copynumber: 27.5 Consensus size: 2
2050002 AAACTGTACA
2050012 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2050054 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
2050067 AAATAACATT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2054827 original size:17 final size:18
Alignment explanation
Indices: 2054805--2054838 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2054795 AATATGTTGT
*
2054805 ATATTATGTA-CATTATG
1 ATATTATATATCATTATG
2054822 ATATTATATATCATTAT
1 ATATTATATATCATTAT
2054839 ACATTAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.38, C:0.06, G:0.06, T:0.50
Consensus pattern (18 bp):
ATATTATATATCATTATG
Found at i:2056903 original size:3 final size:3
Alignment explanation
Indices: 2056895--2056920 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
2056885 ATTATAAACT
2056895 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
2056921 TACAAAGAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:2057158 original size:17 final size:17
Alignment explanation
Indices: 2057136--2057168 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2057126 CGAGATCATA
2057136 ATATTAT-TTTTCATATT
1 ATATTATATTTT-ATATT
2057153 ATATTATATTTTATAT
1 ATATTATATTTTATAT
2057169 AAATAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATTATATTTTATATT
Found at i:2065143 original size:13 final size:12
Alignment explanation
Indices: 2065125--2065167 Score: 63
Period size: 10 Copynumber: 3.7 Consensus size: 12
2065115 TGCAATGTTC
2065125 ACTGTTCACGGGT
1 ACTGTTCAC-GGT
2065138 ACTGTTCACGG-
1 ACTGTTCACGGT
2065149 -CTGTTCACGGT
1 ACTGTTCACGGT
2065160 ACTGTTCA
1 ACTGTTCA
2065168 TCACTATTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.36
12 9 0.32
13 9 0.32
ACGTcount: A:0.16, C:0.26, G:0.26, T:0.33
Consensus pattern (12 bp):
ACTGTTCACGGT
Found at i:2065177 original size:22 final size:23
Alignment explanation
Indices: 2065123--2065177 Score: 69
Period size: 22 Copynumber: 2.4 Consensus size: 23
2065113 GATGCAATGT
2065123 TCACTGTTCACGGGTACTGTTCA
1 TCACTGTTCACGGGTACTGTTCA
*
2065146 -CGGCTGTTCAC-GGTACTGTTCA
1 TC-ACTGTTCACGGGTACTGTTCA
*
2065168 TCACTATTCA
1 TCACTGTTCA
2065178 TAAAAAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
22 18 0.67
23 9 0.33
ACGTcount: A:0.18, C:0.27, G:0.20, T:0.35
Consensus pattern (23 bp):
TCACTGTTCACGGGTACTGTTCA
Found at i:2069088 original size:23 final size:23
Alignment explanation
Indices: 2069054--2069122 Score: 111
Period size: 23 Copynumber: 3.0 Consensus size: 23
2069044 CATTATTATA
2069054 TGGCACTACGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
*
2069077 TGGCACTCCGGTGCAATTCTACG
1 TGGCACTACGGTGCAATTCTACG
* *
2069100 TGGCACTTCGGTGCAATTATACG
1 TGGCACTACGGTGCAATTCTACG
2069123 AGCTGTGGTG
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 43 1.00
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (23 bp):
TGGCACTACGGTGCAATTCTACG
Found at i:2070140 original size:24 final size:24
Alignment explanation
Indices: 2070059--2070159 Score: 116
Period size: 23 Copynumber: 4.3 Consensus size: 24
2070049 GAGTTGAGGG
*
2070059 TTCTACGTGGTCCTTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
* * *
2070083 -TCTATGCGGTCCTTCGTGAC-AT
1 TTCTACGCGGTCCTTCGGGACAAA
* *
2070105 TTCTATGTGGTCCTTCGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
* *
2070129 TTCTACACGGTCCTTTGGGACAAA
1 TTCTACGCGGTCCTTCGGGACAAA
2070153 TTCTACG
1 TTCTACG
2070160 TGGCACTTCA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
22 1 0.02
23 35 0.56
24 27 0.43
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.33
Consensus pattern (24 bp):
TTCTACGCGGTCCTTCGGGACAAA
Found at i:2072160 original size:12 final size:13
Alignment explanation
Indices: 2072128--2072162 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
2072118 CAACATCTAA
2072128 GAGAAAAAATCTT
1 GAGAAAAAATCTT
2072141 GAGAAAAAATCTT
1 GAGAAAAAATCTT
2072154 GAGAAAAAA
1 GAGAAAAAA
2072163 ATACCAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.60, C:0.06, G:0.17, T:0.17
Consensus pattern (13 bp):
GAGAAAAAATCTT
Found at i:2076492 original size:12 final size:12
Alignment explanation
Indices: 2076455--2076493 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
2076445 ATCAGATACT
2076455 TGACATGGATTC
1 TGACATGGATTC
*
2076467 TGATAT-GATATC
1 TGACATGGAT-TC
2076479 TGACATGGATTC
1 TGACATGGATTC
2076491 TGA
1 TGA
2076494 TCTGATACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 3 0.13
12 17 0.74
13 3 0.13
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.36
Consensus pattern (12 bp):
TGACATGGATTC
Found at i:2076571 original size:24 final size:24
Alignment explanation
Indices: 2076440--2076554 Score: 153
Period size: 24 Copynumber: 4.8 Consensus size: 24
2076430 TCGATTTGAT
2076440 TTCTGATCA-GATACTTGACATGGA
1 TTCTGAT-ATGATACTTGACATGGA
2076464 TTCTGATATGATA-TCTGACATGGA
1 TTCTGATATGATACT-TGACATGGA
* *
2076488 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATATGATACTTGACATGGA
* *
2076512 TTTTGATATGATACTTGACCTGGA
1 TTCTGATATGATACTTGACATGGA
*
2076536 TTTTGATATGATACTTGAC
1 TTCTGATATGATACTTGAC
2076555 GTGAATTATG
Statistics
Matches: 83, Mismatches: 5, Indels: 6
0.88 0.05 0.06
Matches are distributed among these distances:
23 2 0.02
24 80 0.96
25 1 0.01
ACGTcount: A:0.26, C:0.14, G:0.20, T:0.40
Consensus pattern (24 bp):
TTCTGATATGATACTTGACATGGA
Found at i:2076794 original size:2 final size:2
Alignment explanation
Indices: 2076787--2076826 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
2076777 ACATACATAC
2076787 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2076827 GTTTTAAAAG
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):
AT
Found at i:2081192 original size:48 final size:49
Alignment explanation
Indices: 2081157--2081289 Score: 148
Period size: 48 Copynumber: 2.8 Consensus size: 49
2081147 TCGATTTGAT
2081157 TTCTGATCAGATACTTGACATGGATTCTGATCTGA-TATCTGACATGGA
1 TTCTGATCAGATACTTGACATGGATTCTGATCTGATTATCTGACATGGA
* * *
2081205 TTCTGATCTGATACTTGACTTGGATTCTGATCTGA-TA-CTTGACCTGGA
1 TTCTGATCAGATACTTGACATGGATTCTGATCTGATTATC-TGACATGGA
* * * * *
2081253 TTTTGAT-ATGATACTTGACGTGAATTATGATTTGATT
1 TTCTGATCA-GATACTTGACATGGATTCTGATCTGATT
2081290 TTTGATATAT
Statistics
Matches: 73, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
47 1 0.01
48 71 0.97
49 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.20, T:0.41
Consensus pattern (49 bp):
TTCTGATCAGATACTTGACATGGATTCTGATCTGATTATCTGACATGGA
Found at i:2081288 original size:24 final size:24
Alignment explanation
Indices: 2081157--2081271 Score: 169
Period size: 24 Copynumber: 4.8 Consensus size: 24
2081147 TCGATTTGAT
*
2081157 TTCTGATCAGATACTTGACATGGA
1 TTCTGATCTGATACTTGACATGGA
2081181 TTCTGATCTGATA-TCTGACATGGA
1 TTCTGATCTGATACT-TGACATGGA
*
2081205 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
*
2081229 TTCTGATCTGATACTTGACCTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
2081253 TTTTGATATGATACTTGAC
1 TTCTGATCTGATACTTGAC
2081272 GTGAATTATG
Statistics
Matches: 84, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
23 1 0.01
24 82 0.98
25 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:2084100 original size:26 final size:26
Alignment explanation
Indices: 2084066--2084115 Score: 75
Period size: 27 Copynumber: 1.9 Consensus size: 26
2084056 TTAAAGGTAC
*
2084066 TTGGATGGT-AAATTATGAGAATATT
1 TTGGATGGTAAAATTATGAAAATATT
2084091 TTGGTATGGTAAAATTATGAAAATA
1 TTGG-ATGGTAAAATTATGAAAATA
2084116 CCCTTATGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 4 0.18
26 5 0.23
27 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.22, T:0.38
Consensus pattern (26 bp):
TTGGATGGTAAAATTATGAAAATATT
Found at i:2085912 original size:24 final size:24
Alignment explanation
Indices: 2085781--2085895 Score: 151
Period size: 24 Copynumber: 4.8 Consensus size: 24
2085771 TCGATTTGAT
*
2085781 TTCTGATCTGATACATGACATGGA
1 TTCTGATCTGATACTTGACATGGA
* *
2085805 TTTTGATCTGATA-TCTGACATGAA
1 TTCTGATCTGATACT-TGACATGGA
*
2085829 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
*
2085853 TTCTGATCTGATACTTGACTTGGA
1 TTCTGATCTGATACTTGACATGGA
* *
2085877 TTTTGATATGATACTTGAC
1 TTCTGATCTGATACTTGAC
2085896 GTGAATTATG
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
24 80 0.99
25 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.19, T:0.41
Consensus pattern (24 bp):
TTCTGATCTGATACTTGACATGGA
Found at i:2087356 original size:5 final size:4
Alignment explanation
Indices: 2087320--2087369 Score: 55
Period size: 4 Copynumber: 12.0 Consensus size: 4
2087310 TCTATTTTCA
* * *
2087320 TTAT TTAT TTAC TGAT TTAT TTAT TTAGT TTATT TTAT TCAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTA-T TTA-T TTAT TTAT TTAT TTAT
2087370 CTTTTTTTCC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
4 30 0.79
5 8 0.21
ACGTcount: A:0.24, C:0.04, G:0.04, T:0.68
Consensus pattern (4 bp):
TTAT
Found at i:2087358 original size:18 final size:17
Alignment explanation
Indices: 2087312--2087369 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
2087302 ATTTTTTTTC
2087312 TATTTTCATT-ATTTATT
1 TATTTT-ATTCATTTATT
*
2087329 TACTGATTTATTTATTTAGTT
1 TA-T--TTTATTCATTTA-TT
2087350 TATTTTATTCATTTATT
1 TATTTTATTCATTTATT
2087367 TAT
1 TAT
2087370 CTTTTTTTCC
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
17 7 0.20
18 12 0.34
19 3 0.09
20 9 0.26
21 4 0.11
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.67
Consensus pattern (17 bp):
TATTTTATTCATTTATT
Found at i:2091773 original size:22 final size:21
Alignment explanation
Indices: 2091748--2091802 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 21
2091738 TACTCAGGAT
*
2091748 AGTATCGATACTCTAGTTCTAA-
1 AGTATCGATACTC-AG-TCCAAG
* *
2091770 AGTATTGATTCTCAGTCCAAG
1 AGTATCGATACTCAGTCCAAG
2091791 AGTATCGATACT
1 AGTATCGATACT
2091803 ACCCTTCATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 4 0.15
21 12 0.44
22 11 0.41
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (21 bp):
AGTATCGATACTCAGTCCAAG
Found at i:2095178 original size:37 final size:39
Alignment explanation
Indices: 2095135--2095209 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
2095125 CACCCAAACT
*
2095135 CGACCCGACCC-AAAAAT-TTTATACCCTCCACCCGACC
1 CGACCCGACCCAAAAAATATATATACCCTCCACCCGACC
*
2095172 CGACCCGACCCAAAAAATATATATATCCTCCACCCGAC
1 CGACCCGACCCAAAAAATATATATACCCTCCACCCGAC
2095210 TCTAACACGA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
37 11 0.32
38 6 0.18
39 17 0.50
ACGTcount: A:0.33, C:0.43, G:0.08, T:0.16
Consensus pattern (39 bp):
CGACCCGACCCAAAAAATATATATACCCTCCACCCGACC
Found at i:2099826 original size:5 final size:5
Alignment explanation
Indices: 2099818--2099843 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
2099808 GATTTAAAGG
2099818 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
2099844 GCTTGTGTAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:2102556 original size:13 final size:13
Alignment explanation
Indices: 2102540--2102582 Score: 54
Period size: 13 Copynumber: 3.5 Consensus size: 13
2102530 AATCTTTTCC
2102540 TTTGTTCTTTATT
1 TTTGTTCTTTATT
**
2102553 TTTGTT-TTT-CC
1 TTTGTTCTTTATT
2102564 TTTGTTCTTTATT
1 TTTGTTCTTTATT
2102577 TTTGTT
1 TTTGTT
2102583 TTAACCATAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
11 6 0.25
12 6 0.25
13 12 0.50
ACGTcount: A:0.05, C:0.09, G:0.09, T:0.77
Consensus pattern (13 bp):
TTTGTTCTTTATT
Found at i:2102565 original size:24 final size:24
Alignment explanation
Indices: 2102534--2102584 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
2102524 ACATTAAATC
2102534 TTTTCCTTTGTTCTTTATTTTTGT
1 TTTTCCTTTGTTCTTTATTTTTGT
2102558 TTTTCCTTTGTTCTTTATTTTTGT
1 TTTTCCTTTGTTCTTTATTTTTGT
2102582 TTT
1 TTT
2102585 AACCATATGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.04, C:0.12, G:0.08, T:0.76
Consensus pattern (24 bp):
TTTTCCTTTGTTCTTTATTTTTGT
Found at i:2108264 original size:69 final size:68
Alignment explanation
Indices: 2108147--2108289 Score: 178
Period size: 69 Copynumber: 2.1 Consensus size: 68
2108137 ACCATTTGAC
* * * ** ** *
2108147 AATGAACGCTCAATCACTCTGCTACAGTTGTTGGTGCTCGAATTCGTCACCTCTAGGTTATAAAT
1 AATGAACGCTCAATCACCCTGCTACAATCGCGGGTGCTCGAACCCGTCACCTCTAGGCTAT-AAT
*
2108212 GTTA
65 ATTA
* *
2108216 AATGAACGCTCAATCACCCTGCTGCAATCGCGGGTGCTCGAACCCGTCACCTCTAGGCTGTAATA
1 AATGAACGCTCAATCACCCTGCTACAATCGCGGGTGCTCGAACCCGTCACCTCTAGGCTATAATA
2108281 TTA
66 TTA
2108284 AATGAA
1 AATGAA
2108290 TTGATATGGA
Statistics
Matches: 63, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
68 12 0.19
69 51 0.81
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (68 bp):
AATGAACGCTCAATCACCCTGCTACAATCGCGGGTGCTCGAACCCGTCACCTCTAGGCTATAATA
TTA
Found at i:2110618 original size:26 final size:26
Alignment explanation
Indices: 2110584--2110635 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
2110574 TATCGTTGAC
2110584 ATAAAAAATATTATTAAAATCAATAT
1 ATAAAAAATATTATTAAAATCAATAT
*
2110610 ATAACAAATATTATTAAAATCAATAT
1 ATAAAAAATATTATTAAAATCAATAT
2110636 GAATATAGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.35
Consensus pattern (26 bp):
ATAAAAAATATTATTAAAATCAATAT
Found at i:2110634 original size:15 final size:15
Alignment explanation
Indices: 2110590--2110635 Score: 55
Period size: 15 Copynumber: 3.3 Consensus size: 15
2110580 TGACATAAAA
2110590 AATATTATTAAAATC
1 AATATTATTAAAATC
*
2110605 AATA-TA-TAACA--
1 AATATTATTAAAATC
2110616 AATATTATTAAAATC
1 AATATTATTAAAATC
2110631 AATAT
1 AATAT
2110636 GAATATAGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 8
0.71 0.06 0.23
Matches are distributed among these distances:
11 4 0.16
12 2 0.08
13 8 0.32
14 2 0.08
15 9 0.36
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
AATATTATTAAAATC
Found at i:2114884 original size:127 final size:127
Alignment explanation
Indices: 2114658--2115281 Score: 1113
Period size: 127 Copynumber: 4.9 Consensus size: 127
2114648 GTAAAGGTGG
* *
2114658 GTTCCCGGAGGCGCGCCTTCCATTATTTTGTCAAAGAATATGTTATCATTGCCCTATTATGTCAC
1 GTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCAC
*
2114723 TTATGTCCCCCGGGAACTATTTATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGC
66 TTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGC
*
2114785 GTTCCCGAGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCAC
1 GTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCAC
2114850 TTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGC
66 TTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGC
* *
2114912 GTTCCCGGGGGCGTGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTACCCTATTATGTCAC
1 GTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCAC
* *
2114977 TTATGTCCCCTGGGAACTATTCATGTCAATACCTAATATTCCTTAGGGGACCGTGAAGGCGC
66 TTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGC
*
2115039 GTTTCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCAC
1 GTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCAC
*
2115104 TTATGTCCCCCGGGAACTATTTATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGC
66 TTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGC
* * **
2115166 GTTCCCGGGGGTGCGCCTTCCATTATTTTGTCAGCGAATATGTTATCATTAACCTATTATGTCAC
1 GTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCAC
*
2115231 TTATGTCCCCCGAGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
66 TTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGAC
2115282 TTTAAAGCGC
Statistics
Matches: 475, Mismatches: 22, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 475 1.00
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (127 bp):
GTTCCCGGGGGCGCGCCTTCCATTATTTTGTCAGAGAATATGTTATCATTGCCCTATTATGTCAC
TTATGTCCCCCGGGAACTATTCATGTCAATACCTATTATTCCTTAGGGGACCGTGAAGGCGC
Found at i:2115747 original size:13 final size:13
Alignment explanation
Indices: 2115729--2115753 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2115719 CGAATACTAT
2115729 AATTTATATTTTA
1 AATTTATATTTTA
2115742 AATTTATATTTT
1 AATTTATATTTT
2115754 GAATAATATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
AATTTATATTTTA
Found at i:2115758 original size:34 final size:34
Alignment explanation
Indices: 2115711--2115811 Score: 148
Period size: 34 Copynumber: 3.0 Consensus size: 34
2115701 GAATTTAATG
2115711 TTAAATTTCGAATACTATAATTTATATTTTAAAT
1 TTAAATTTCGAATACTATAATTTATATTTTAAAT
* * * * * *
2115745 TTATATTTTGAATAATATTATTTGTATTTTAATT
1 TTAAATTTCGAATACTATAATTTATATTTTAAAT
2115779 TTAAATTTCGAATACTATAATTTATATTTTAAA
1 TTAAATTTCGAATACTATAATTTATATTTTAAA
2115812 AACATTTATT
Statistics
Matches: 55, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 55 1.00
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.53
Consensus pattern (34 bp):
TTAAATTTCGAATACTATAATTTATATTTTAAAT
Found at i:2118240 original size:30 final size:32
Alignment explanation
Indices: 2118182--2118259 Score: 88
Period size: 30 Copynumber: 2.4 Consensus size: 32
2118172 TTAATAAATT
*
2118182 TAAATAAATAATAATTATATAAATATTATTTTAA
1 TAAA-AAATAAT-ATTATATAAATATTATATTAA
*
2118216 TAAAAAATAATATT-TATATA-ATTATATTAA
1 TAAAAAATAATATTATATAAATATTATATTAA
2118246 TATAAAATATAATA
1 TA-AAAA-ATAATA
2118260 ACTATTTAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
30 11 0.28
31 9 0.22
32 9 0.22
33 7 0.17
34 4 0.10
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (32 bp):
TAAAAAATAATATTATATAAATATTATATTAA
Found at i:2120665 original size:3 final size:3
Alignment explanation
Indices: 2120647--2120691 Score: 72
Period size: 3 Copynumber: 14.7 Consensus size: 3
2120637 CTTTTCTATC
*
2120647 TAT TTT TAT CTAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
2120692 ATATAAATTA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 36 0.92
4 3 0.08
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2122366 original size:10 final size:10
Alignment explanation
Indices: 2122351--2122395 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
2122341 ATACACATTA
2122351 TTTTATTTAT
1 TTTTATTTAT
2122361 TTTTATTTCA-
1 TTTTATTT-AT
2122371 TTTTATTTAT
1 TTTTATTTAT
*
2122381 TTATTTTTTAT
1 TT-TTATTTAT
2122392 TTTT
1 TTTT
2122396 GTGATGTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
9 1 0.03
10 20 0.65
11 10 0.32
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:2122393 original size:20 final size:20
Alignment explanation
Indices: 2122348--2122394 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
2122338 AGTATACACA
2122348 TTATTTTATTTATTTTTATT
1 TTATTTTATTTATTTTTATT
*
2122368 TCATTTTATTTATTTATT-TT
1 TTATTTTATTTATTT-TTATT
2122388 TTATTTT
1 TTATTTT
2122395 TGTGATGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (20 bp):
TTATTTTATTTATTTTTATT
Found at i:2123696 original size:9 final size:9
Alignment explanation
Indices: 2123678--2123710 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
2123668 TTTACTCCTT
2123678 TTTTATTTTA
1 TTTTA-TTTA
2123688 TTTTATTTA
1 TTTTATTTA
2123697 TTTTATTT-
1 TTTTATTTA
2123705 TTTTAT
1 TTTTAT
2123711 GTAGAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
8 6 0.26
9 12 0.52
10 5 0.22
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (9 bp):
TTTTATTTA
Found at i:2123698 original size:14 final size:13
Alignment explanation
Indices: 2123676--2123710 Score: 61
Period size: 14 Copynumber: 2.6 Consensus size: 13
2123666 CTTTTACTCC
2123676 TTTTTTATTTTAT
1 TTTTTTATTTTAT
2123689 TTTATTTATTTTAT
1 TTT-TTTATTTTAT
2123703 TTTTTTAT
1 TTTTTTAT
2123711 GTAGAATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 8 0.38
14 13 0.62
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTATTTTAT
Found at i:2133760 original size:7 final size:7
Alignment explanation
Indices: 2133748--2133790 Score: 59
Period size: 7 Copynumber: 5.7 Consensus size: 7
2133738 ACTTAAAGAA
2133748 AAAAATG
1 AAAAATG
2133755 AAAAATG
1 AAAAATG
2133762 AAAAAAATG
1 --AAAAATG
2133771 AAAAATG
1 AAAAATG
2133778 AAAAATG
1 AAAAATG
2133785 AGAAAA
1 A-AAAA
2133791 AAGAAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
7 22 0.67
8 4 0.12
9 7 0.21
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:2133777 original size:23 final size:23
Alignment explanation
Indices: 2133748--2133798 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 23
2133738 ACTTAAAGAA
2133748 AAAAATGAAAAATGA-AAAAAATG
1 AAAAATGAAAAATGAGAAAAAA-G
2133771 AAAAATGAAAAATGAGAAAAAAG
1 AAAAATGAAAAATGAGAAAAAAG
2133794 AAAAA
1 AAAAA
2133799 ATAAATAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.76, C:0.00, G:0.14, T:0.10
Consensus pattern (23 bp):
AAAAATGAAAAATGAGAAAAAAG
Found at i:2133791 original size:16 final size:16
Alignment explanation
Indices: 2133745--2133782 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
2133735 TACACTTAAA
2133745 GAAAAAAATGAAAAAT
1 GAAAAAAATGAAAAAT
2133761 GAAAAAAATGAAAAAT
1 GAAAAAAATGAAAAAT
2133777 GAAAAA
1 GAAAAA
2133783 TGAGAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.13, T:0.11
Consensus pattern (16 bp):
GAAAAAAATGAAAAAT
Found at i:2135249 original size:3 final size:3
Alignment explanation
Indices: 2135231--2135321 Score: 130
Period size: 3 Copynumber: 29.7 Consensus size: 3
2135221 TGTCTGGGTC
*
2135231 TAT TTT TAT CTAT TAT TAT CTAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
2135278 TAT TAT TAT TAT TAT TAT TAT TAT TAT T-T TCAT TTT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TA
2135322 ATATAAATTA
Statistics
Matches: 80, Mismatches: 4, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
2 2 0.03
3 70 0.88
4 8 0.10
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:2135335 original size:24 final size:24
Alignment explanation
Indices: 2135289--2135335 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
2135279 ATTATTATTA
* * * *
2135289 TTATTATTATTATTATTTTCATTT
1 TTATTATTAATATAAATTACATTT
2135313 TTATTATTAATATAAATTACATT
1 TTATTATTAATATAAATTACATT
2135336 CTTGTCCATG
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:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (24 bp):
TTATTATTAATATAAATTACATTT
Found at i:2136938 original size:10 final size:10
Alignment explanation
Indices: 2136923--2136967 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
2136913 ATACACATTA
2136923 TTTTATTTAT
1 TTTTATTTAT
2136933 TTTTATTTCA-
1 TTTTATTT-AT
2136943 TTTTATTTAT
1 TTTTATTTAT
*
2136953 TTATTTTTTAT
1 TT-TTATTTAT
2136964 TTTT
1 TTTT
2136968 GTGATGTTCA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
9 1 0.03
10 20 0.65
11 10 0.32
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:2136965 original size:20 final size:20
Alignment explanation
Indices: 2136920--2136966 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
2136910 AGTATACACA
2136920 TTATTTTATTTATTTTTATT
1 TTATTTTATTTATTTTTATT
*
2136940 TCATTTTATTTATTTATT-TT
1 TTATTTTATTTATTT-TTATT
2136960 TTATTTT
1 TTATTTT
2136967 TGTGATGTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 22 0.92
21 2 0.08
ACGTcount: A:0.19, C:0.02, G:0.00, T:0.79
Consensus pattern (20 bp):
TTATTTTATTTATTTTTATT
Done.