Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008761.1 Hibiscus syriacus cultivar Beakdansim tig00111853_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: 337887
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:3526 original size:52 final size:52
Alignment explanation
Indices: 3448--3550 Score: 197
Period size: 52 Copynumber: 2.0 Consensus size: 52
3438 TTATAATATT
3448 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATGC
1 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATGC
*
3500 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTTTCCTATTTCTATG
1 CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATG
3551 TGTCCAATTT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (52 bp):
CTTGTAATTAGTTGTAATCCCCTAACTCTAGGCTAGTCTCCTATTTCTATGC
Found at i:5018 original size:23 final size:23
Alignment explanation
Indices: 4992--5042 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
4982 AATAATGACA
4992 AAAGACAGAGA-AAAGCATGCCAC
1 AAAGACAGAGATAAA-CATGCCAC
* *
5015 AAAGACAGAGATAAACGTGTCAC
1 AAAGACAGAGATAAACATGCCAC
5038 AAAGA
1 AAAGA
5043 TAAAATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 22 0.88
24 3 0.12
ACGTcount: A:0.53, C:0.18, G:0.22, T:0.08
Consensus pattern (23 bp):
AAAGACAGAGATAAACATGCCAC
Found at i:13583 original size:4 final size:4
Alignment explanation
Indices: 13574--18353 Score: 8796
Period size: 4 Copynumber: 1213.2 Consensus size: 4
13564 ATTTAGTGAT
13574 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
13622 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
13670 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG-- TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
13716 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
13764 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA GTGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA -TGTA TGTA TGTA TGTA
13813 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA -GTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
13860 TGTA --TA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
13906 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
13954 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14002 TGTA TGTA TGTA -GTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14049 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14097 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14145 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14193 TGTA TGTA TGTA TGTA TGTA TGTA TGTA T-TA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14240 --TA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14286 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14334 TGTA TGTA TGTA TGTA TGTA TGTA TGTA -GTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14381 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14429 TGTA TGTA TGTA TG-A TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG--
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14474 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14520 TGTA TGTA TGTA --TA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14566 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14614 TGTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TAGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T-GTA TGTA TGTA TGTA
14661 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14709 TGTA TGTA TGTA TGTA TGTA TGTA -GTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14756 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14804 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14852 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14900 TGTA TGTA TGTA TGTA -GTA TG-- TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14945 --TA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA -GTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
14990 TGTA TGTA --TA TGTA TGT- TGTA TGTA TGTA TGT- TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15034 TGTA TGTA TGTA TGTA TGTA TGTA -GTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15081 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15129 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15177 TGTA TGTA TGTA TGTA TGTA TGTA -GTA -GTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
* *
15223 TGTA TGTA TG-A TGATG TGTA TGTA TGTA TGTA TGTA TGTA TGTA GGTA
1 TGTA TGTA TGTA TG-TA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15271 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15319 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15367 GTGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 -TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15416 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGT- TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15463 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15511 TGTA TGTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15557 T-TA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15604 TGTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15650 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
15698 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA GGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
15746 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA GTATA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA -TGTA TGTA TGTA TGTA
15795 TG-A TGTA TGTA TGTA TGTA TGTA TGTA TG-- TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15840 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15888 TGTA TGTA TGTA TGTA TGTA TGTA TG-A TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15935 TGTA TGTA TGTA TTGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA -TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
15984 TGTA TGTA TGTA TGTA TGTA TGT- TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16031 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16079 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16127 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16175 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
16223 TGTA TGTA TGTA TGTA TGTA GGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16271 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16319 TGTA GTGTA TGTA TGTA TGTA TGTA TGTA TGT- TGTA TGTA TGTA TGGTA
1 TGTA -TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T-GTA
16368 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16416 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16464 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16512 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16558 TGTA TGTA TGTA TGTA TGTA TG-- TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16604 TGTA TGTA TGTA TGTA TGTA TG-A TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16651 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16699 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16747 TGTA TGTA -GTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16794 TGTA TGTA TGT- TGTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16839 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA -GTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16886 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16934 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA -GTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
16981 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17029 TGTA TGTA TGTA -GTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17076 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T-GTA TGTA TGTA TGTA
17125 TGTA TGTA TGTA TGTA TG-- TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17171 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17219 TGTA TGTA --TA TGTA TGTA TGTA TGTA TGTA TGT- TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17264 TGTA TGTA TGTA TGTA TGT- TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17311 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGGATA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA T-G-TA TGTA TGTA TGTA TGTA
17361 TGTA TGTA TGTA -GTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17406 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17454 TGTA TGTA TGTA TGTA -GTA TGTA TGTA TGTA TGTA TGTA TGTTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG-TA TGTA
17502 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG-- TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17548 TGTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17594 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG-- TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17640 TG-- TGTA TGTA TGTA TGTA -GTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17685 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17733 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA -GTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17780 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TG-- TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17826 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17874 TGTA TGTA TGTA TGTA TGTA TGTA --TA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17920 TGTA TGTA TGTA TGTA TGTA TG-- TGTA TGTA TGTA TGTA -GTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
17965 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA -GTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
18012 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
18060 TGTA TGGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA T-GTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
18109 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
18157 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
18205 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
18253 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
18301 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
18349 TGTA T
1 TGTA T
18354 ATGACACTAA
Statistics
Matches: 4668, Mismatches: 10, Indels: 196
0.96 0.00 0.04
Matches are distributed among these distances:
2 52 0.01
3 102 0.02
4 4468 0.96
5 43 0.01
6 3 0.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TGTA
Found at i:18435 original size:2 final size:2
Alignment explanation
Indices: 18428--18472 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
18418 GATAGTAAAT
18428 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18470 TA T
1 TA T
18473 TATTATTATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:18575 original size:3 final size:3
Alignment explanation
Indices: 18567--18598 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
18557 GGGGTTATAA
18567 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
18599 AAATAAAGAC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:24831 original size:31 final size:31
Alignment explanation
Indices: 24793--24854 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
24783 AAGTGTTCTA
24793 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
*
24824 TACGAGCTGTGGTGAGAGGATGAAGCTTTGC
1 TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
24855 ATGCGCCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.15, G:0.39, T:0.24
Consensus pattern (31 bp):
TACGAGCTGTGGCGAGAGGATGAAGCTTTGC
Found at i:25336 original size:85 final size:84
Alignment explanation
Indices: 25227--25400 Score: 291
Period size: 85 Copynumber: 2.1 Consensus size: 84
25217 TGTTTCAAAT
25227 TTTA-AATAATTAGGGTTGAGGACCAATAAC-ATGATGAATATGGATGTTCTTCATGTGATATTG
1 TTTATAATAATTAGGGTTGAGGACCAATAACAATGATGAATATGGATG-TCTTCATGTG--ATTG
25290 ATAT-TACCTAGAGTATCATTC
63 ATATCTACCTAGAGTATCATTC
25311 TTTATAATAATTAGGGTTGAGGACCAATAACATATGATGAATATGGATGTCTTCATGTGATTGAT
1 TTTATAATAATTAGGGTTGAGGACCAATAACA-ATGATGAATATGGATGTCTTCATGTGATTGAT
25376 ATCTACCTAGAGTATCATTC
65 ATCTACCTAGAGTATCATTC
25396 TTTAT
1 TTTAT
25401 GTAATTTTTA
Statistics
Matches: 86, Mismatches: 0, Indels: 7
0.92 0.00 0.08
Matches are distributed among these distances:
84 12 0.14
85 48 0.56
86 10 0.12
87 16 0.19
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (84 bp):
TTTATAATAATTAGGGTTGAGGACCAATAACAATGATGAATATGGATGTCTTCATGTGATTGATA
TCTACCTAGAGTATCATTC
Found at i:28262 original size:20 final size:21
Alignment explanation
Indices: 28232--28277 Score: 78
Period size: 19 Copynumber: 2.3 Consensus size: 21
28222 TTAATACTTT
28232 AAAATAATTTTTTAT-ACC-C
1 AAAATAATTTTTTATCACCTC
28251 AAAATAATTTTTTATCACCTC
1 AAAATAATTTTTTATCACCTC
28272 AAAATA
1 AAAATA
28278 TTCTTTTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 15 0.60
20 3 0.12
21 7 0.28
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.39
Consensus pattern (21 bp):
AAAATAATTTTTTATCACCTC
Found at i:37303 original size:2 final size:2
Alignment explanation
Indices: 37296--37354 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
37286 TCACATTGAG
37296 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
37338 TA TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA TA T
37355 TTGGGTTTTT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:43946 original size:77 final size:80
Alignment explanation
Indices: 43849--44040 Score: 248
Period size: 83 Copynumber: 2.4 Consensus size: 80
43839 ATCCATGAAG
* *
43849 GTGAAAATGGTTGTTAGCAAGCTGACATGCAT-ACATACATGGATCCATTTGTTCCGA-TTTTTT
1 GTGAAAATGGTTGTTAGCAAGCTGACATGCATAACATACATGGATCCATGTGTTCCGAGTTTTTC
* *
43912 TGACAAAATGCAAAGT
66 AGACAAAATG-AAACT
*
43928 -TGAAAATGG-TGTTAGCAAGCTGACACGCATACACACACATACATGGATCCATGTGTTCCGAGT
1 GTGAAAATGGTTGTTAGCAAGCTGACATGCAT----A-ACATACATGGATCCATGTGTTCCGAGT
*
43991 TTTTCAGACAAAATGTAACT
61 TTTTCAGACAAAATGAAACT
44011 GTGAAAATGGTTGTTAGCAAGCTGACATGC
1 GTGAAAATGGTTGTTAGCAAGCTGACATGC
44041 GCGCGCGCGT
Statistics
Matches: 97, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
77 20 0.21
78 9 0.09
83 27 0.28
84 23 0.24
85 18 0.19
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.29
Consensus pattern (80 bp):
GTGAAAATGGTTGTTAGCAAGCTGACATGCATAACATACATGGATCCATGTGTTCCGAGTTTTTC
AGACAAAATGAAACT
Found at i:52381 original size:121 final size:121
Alignment explanation
Indices: 52153--52458 Score: 382
Period size: 121 Copynumber: 2.5 Consensus size: 121
52143 TAAATTATGT
* * * * * *
52153 ATTTAATACTTAAACTATTAGTTTTGGTCCATTTTAGTACCTAGACTTTCATTTTTTTCAAAATC
1 ATTTAGTACCTAAACTATTAGTTTTAGTCCATTTTAGTACCTAAACTTTCAATTTTTTCAAAACC
* * *
52218 ATACCTAACATTTAATTTTTATTTCATTTTAGCACCCGTCATTAAAAACTTAACGT-C
66 ATACCTAACATTTAATTATCATTTCATTTTAGCACCCATCATTAAAAACTTAA--TAC
* * * *
52275 -TTTAGTACCTAAACTATCAATTTTAGTCTATTTTAGTACCTAAACTTTTAATTTTTTCAAAACC
1 ATTTAGTACCTAAACTATTAGTTTTAGTCCATTTTAGTACCTAAACTTTCAATTTTTTCAAAACC
* ** * * *
52339 TTACCTAATGTTTAGTTATCATTTCATTTTAGTACCTATCATTAAAAACTTAATAC
66 ATACCTAACATTTAATTATCATTTCATTTTAGCACCCATCATTAAAAACTTAATAC
* * *
52395 ATTTAGTACCTAAACTATTAGTTTTTGTCCAATTTAGTACATAAACTTTCAATTTTTTCAAAAC
1 ATTTAGTACCTAAACTATTAGTTTTAGTCCATTTTAGTACCTAAACTTTCAATTTTTTCAAAAC
52459 TTAACGTTTA
Statistics
Matches: 156, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
119 1 0.01
120 1 0.01
121 154 0.99
ACGTcount: A:0.33, C:0.17, G:0.06, T:0.44
Consensus pattern (121 bp):
ATTTAGTACCTAAACTATTAGTTTTAGTCCATTTTAGTACCTAAACTTTCAATTTTTTCAAAACC
ATACCTAACATTTAATTATCATTTCATTTTAGCACCCATCATTAAAAACTTAATAC
Found at i:52712 original size:19 final size:19
Alignment explanation
Indices: 52670--52715 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
52660 TTATACTAAC
* *
52670 AATTTGATAAGTTTAAGAA
1 AATTTGATAAGATTAAAAA
* *
52689 TATTTTATAAGATTAAAAA
1 AATTTGATAAGATTAAAAA
52708 AATTTGAT
1 AATTTGAT
52716 GACCAAAACA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.11, T:0.41
Consensus pattern (19 bp):
AATTTGATAAGATTAAAAA
Found at i:55289 original size:19 final size:21
Alignment explanation
Indices: 55255--55299 Score: 58
Period size: 19 Copynumber: 2.2 Consensus size: 21
55245 ATTAAATCTC
55255 TATTTTATTGAATAAAAATAA
1 TATTTTATTGAATAAAAATAA
* *
55276 TATTTT-TT-AATAAATATAT
1 TATTTTATTGAATAAAAATAA
55295 TATTT
1 TATTT
55300 CGGGTCGGGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 14 0.64
20 2 0.09
21 6 0.27
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (21 bp):
TATTTTATTGAATAAAAATAA
Found at i:60030 original size:54 final size:54
Alignment explanation
Indices: 59948--60052 Score: 192
Period size: 54 Copynumber: 1.9 Consensus size: 54
59938 GTTATTTTAA
59948 ACATCAAAATAACGTCATTAAAATGCCATCGTTTCAATATGACATCCACATTAG
1 ACATCAAAATAACGTCATTAAAATGCCATCGTTTCAATATGACATCCACATTAG
* *
60002 ACATCAAAGTAACGTCATTAAAATGCCATCGTTTTAATATGACATCCACAT
1 ACATCAAAATAACGTCATTAAAATGCCATCGTTTCAATATGACATCCACAT
60053 CAGCACCTTG
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.40, C:0.22, G:0.10, T:0.29
Consensus pattern (54 bp):
ACATCAAAATAACGTCATTAAAATGCCATCGTTTCAATATGACATCCACATTAG
Found at i:87578 original size:31 final size:31
Alignment explanation
Indices: 87543--87629 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
87533 TAAAAGTTCA
* *
87543 ATAAATTTAATGATCACTT-TGTAACAGTTTG
1 ATAAATTTAATGACCA-TTCTGTAACAGTTAG
*
87574 ATAAAATTAATGACCATTCTGTAACAGTTAG
1 ATAAATTTAATGACCATTCTGTAACAGTTAG
* *
87605 ATAAATTTAATGACTATTTTGTAAC
1 ATAAATTTAATGACCATTCTGTAAC
87630 TTTTGAAAGT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
30 2 0.04
31 47 0.96
ACGTcount: A:0.39, C:0.10, G:0.11, T:0.39
Consensus pattern (31 bp):
ATAAATTTAATGACCATTCTGTAACAGTTAG
Found at i:90948 original size:16 final size:18
Alignment explanation
Indices: 90912--90948 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
90902 AAATAGATTT
*
90912 TTTTTTATATTAATAATA
1 TTTTTTATATTAATAAAA
90930 TTTTTTAT-TTAA-AAAA
1 TTTTTTATATTAATAAAA
90946 TTT
1 TTT
90949 AAAAAATACA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 4 0.22
18 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
TTTTTTATATTAATAAAA
Found at i:91033 original size:14 final size:16
Alignment explanation
Indices: 91009--91048 Score: 57
Period size: 14 Copynumber: 2.6 Consensus size: 16
90999 TTACAGTCCA
91009 AACACTTAAAAA-TAT
1 AACACTTAAAAACTAT
91024 AACA-TTAAAAACTAT
1 AACACTTAAAAACTAT
91039 AAACACTTAA
1 -AACACTTAA
91049 TTTTAACGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
14 7 0.32
15 7 0.32
16 4 0.18
17 4 0.18
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (16 bp):
AACACTTAAAAACTAT
Found at i:103272 original size:12 final size:12
Alignment explanation
Indices: 103257--103285 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
103247 GGGATATATA
103257 TATATATATAAT
1 TATATATATAAT
103269 TATATATATAAT
1 TATATATATAAT
103281 TATAT
1 TATAT
103286 GTATTTGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TATATATATAAT
Found at i:103363 original size:64 final size:64
Alignment explanation
Indices: 103295--103425 Score: 208
Period size: 64 Copynumber: 2.0 Consensus size: 64
103285 TGTATTTGGC
* * *
103295 TTTGTGCTGGTGTGTTTGAGTCGAGTTTAAATTATAATAATCGAGTTAGAGTCGACTTTGGGGA
1 TTTGTGCTGGTGTGTTTGAGTCGAGTATAAATTATAATAATCAAGTTAGACTCGACTTTGGGGA
* **
103359 TTTGTGCTGGTGTGTTTGAGTCGAGTATAAGTTATAATAATCAAGTTAGACTCGGGTTTGGGGA
1 TTTGTGCTGGTGTGTTTGAGTCGAGTATAAATTATAATAATCAAGTTAGACTCGACTTTGGGGA
103423 TTT
1 TTT
103426 ATATGTGTAT
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.23, C:0.08, G:0.30, T:0.40
Consensus pattern (64 bp):
TTTGTGCTGGTGTGTTTGAGTCGAGTATAAATTATAATAATCAAGTTAGACTCGACTTTGGGGA
Found at i:111115 original size:22 final size:22
Alignment explanation
Indices: 111064--111116 Score: 54
Period size: 22 Copynumber: 2.4 Consensus size: 22
111054 TAAATTATAT
* * *
111064 ATAAAATTTTAAAAATAAAAGT
1 ATAAATTTTTAAAAAGAAAAGC
*
111086 ATATATTTTTAAAAAGAAACA-C
1 ATAAATTTTTAAAAAGAAA-AGC
111108 ATAAATTTT
1 ATAAATTTT
111117 CATATAACCC
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
22 24 0.96
23 1 0.04
ACGTcount: A:0.57, C:0.04, G:0.04, T:0.36
Consensus pattern (22 bp):
ATAAATTTTTAAAAAGAAAAGC
Found at i:112125 original size:196 final size:198
Alignment explanation
Indices: 111754--112149 Score: 762
Period size: 196 Copynumber: 2.0 Consensus size: 198
111744 TAATATTTAA
111754 TTTTAATTAATTAATCAATAAATTAAATATTTATCAATATTGTTGTTATATATGAAGCAGCGGTA
1 TTTTAATTAATTAATCAATAAATTAAATATTTATCAATATTGTTGTTATATATGAAGCAGCGGTA
111819 GTAGTTTGAGAAACACGCGAAGTCCGTCAGAATTAGAGGGGGAGGGAAATTATGGCGTGTTTCGC
66 GTAGTTTGAGAAACACGCGAAGTCCGTCAGAATTAGAGGGGGAGGGAAATTATGGCGTGTTTCGC
111884 GGTACAGGATAAGATAATTTAATGCTTTCCCTTGGATTGTCCCACTCCTTTTCTTTAATGTCTGT
131 GGTACAGGATAAGATAATTTAATGCTTTCCCTTGGATTGTCCCACTCCTTTTCTTTAATGTCTGT
111949 ATG
196 ATG
111952 TTTTAATTAATTAATCAAT-AATT-AA-ATTTATCAATATTGTTGTTATATATGAAGCAGCGGTA
1 TTTTAATTAATTAATCAATAAATTAAATATTTATCAATATTGTTGTTATATATGAAGCAGCGGTA
112014 GTAGTTTGAGAAACACGCGAAGTCCGTCAGAATTAGATGGGGGAGGGAAATTATGGCGTGTTTCG
66 GTAGTTTGAGAAACACGCGAAGTCCGTCAGAATTAGA-GGGGGAGGGAAATTATGGCGTGTTTCG
112079 CGGTACAGGATAAGATAATTTAATGCTTTCCCTTGGATTGTCCCACTCCTTTTCTTTAATGTCTG
130 CGGTACAGGATAAGATAATTTAATGCTTTCCCTTGGATTGTCCCACTCCTTTTCTTTAATGTCTG
112144 TATG
195 TATG
112148 TT
1 TT
112150 ACAACCCCAA
Statistics
Matches: 197, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
195 74 0.38
196 100 0.51
197 4 0.02
198 19 0.10
ACGTcount: A:0.29, C:0.13, G:0.21, T:0.36
Consensus pattern (198 bp):
TTTTAATTAATTAATCAATAAATTAAATATTTATCAATATTGTTGTTATATATGAAGCAGCGGTA
GTAGTTTGAGAAACACGCGAAGTCCGTCAGAATTAGAGGGGGAGGGAAATTATGGCGTGTTTCGC
GGTACAGGATAAGATAATTTAATGCTTTCCCTTGGATTGTCCCACTCCTTTTCTTTAATGTCTGT
ATG
Found at i:114055 original size:14 final size:16
Alignment explanation
Indices: 114029--114060 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
114019 TTTTTATCCC
114029 AATCTCAAACCC-TAA
1 AATCTCAAACCCTTAA
114044 AATCTC-AACCCTTAA
1 AATCTCAAACCCTTAA
114059 AA
1 AA
114061 CCCAAAATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (16 bp):
AATCTCAAACCCTTAA
Found at i:114076 original size:21 final size:22
Alignment explanation
Indices: 114035--114088 Score: 74
Period size: 21 Copynumber: 2.4 Consensus size: 22
114025 TCCCAATCTC
114035 AAACCCTAAAATCTCAACCCTTA
1 AAACCC-AAAATCTCAACCCTTA
*
114058 AAACCCAAAATGT-AACCCTTA
1 AAACCCAAAATCTCAACCCTTA
114079 AAACCTCAAA
1 AAACC-CAAA
114089 TTTTCAATCT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 13 0.45
22 10 0.34
23 6 0.21
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (22 bp):
AAACCCAAAATCTCAACCCTTA
Found at i:120553 original size:21 final size:21
Alignment explanation
Indices: 120511--120553 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
120501 TTTCTGGGTT
* * *
120511 AGGGGAATCGGTACCCATTCA
1 AGGGGAACCGATACCCACTCA
*
120532 AGGGGAACCGATACCCCCTCA
1 AGGGGAACCGATACCCACTCA
120553 A
1 A
120554 CGAAATGAAT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.30, G:0.26, T:0.14
Consensus pattern (21 bp):
AGGGGAACCGATACCCACTCA
Found at i:120614 original size:66 final size:67
Alignment explanation
Indices: 120511--120681 Score: 222
Period size: 67 Copynumber: 2.6 Consensus size: 67
120501 TTTCTGGGTT
* * *
120511 AGGGGAATCGGTACCCATTCA-AGGGGAACCGATACCCCCTCAACG-AAATGAATTTCCAGAATG
1 AGGGGAATCGGTACCC--CCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATG
120574 CTAG
64 CTAG
* * *
120578 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCATCGTATATGAAATTCCAGATTGCT
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCT
*
120643 TG
66 AG
* *
120645 AGGGGAATCGATA-CCCCAGGGGGGAACCGATTCCCCC
1 AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCC
120682 ATGAGAAAAA
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
65 2 0.02
66 45 0.48
67 46 0.49
ACGTcount: A:0.28, C:0.27, G:0.27, T:0.18
Consensus pattern (67 bp):
AGGGGAATCGGTACCCCCAGGGGGGAACCGATACCCCCTCAACGTAAATGAAATTCCAGAATGCT
AG
Found at i:121079 original size:30 final size:30
Alignment explanation
Indices: 121045--121103 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
121035 GTTATATGAG
* *
121045 CTATGTGATAAAGGTATGTAAATGATATGT
1 CTATGTGATAAAGGTATGGAAATAATATGT
121075 CTATGTGATAAAGGTATGGAAATAATATG
1 CTATGTGATAAAGGTATGGAAATAATATG
121104 ACTACACGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.39, C:0.03, G:0.24, T:0.34
Consensus pattern (30 bp):
CTATGTGATAAAGGTATGGAAATAATATGT
Found at i:121345 original size:22 final size:23
Alignment explanation
Indices: 121317--121362 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
121307 TTATGGACAT
121317 AATTCTAC-GGGCACTTCGGTGC
1 AATTCTACGGGGCACTTCGGTGC
121339 AATTCTACGGGGCACTTCGGTGC
1 AATTCTACGGGGCACTTCGGTGC
121362 A
1 A
121363 TTTATACGAG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 8 0.35
23 15 0.65
ACGTcount: A:0.20, C:0.26, G:0.28, T:0.26
Consensus pattern (23 bp):
AATTCTACGGGGCACTTCGGTGC
Found at i:121370 original size:23 final size:23
Alignment explanation
Indices: 121317--121370 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
121307 TTATGGACAT
*
121317 AATTCTAC-GGGCACTTCGGTGC
1 AATTATACGGGGCACTTCGGTGC
*
121339 AATTCTACGGGGCACTTCGGTGC
1 AATTATACGGGGCACTTCGGTGC
*
121362 ATTTATACG
1 AATTATACG
121371 AGCTGTGGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 8 0.28
23 21 0.72
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (23 bp):
AATTATACGGGGCACTTCGGTGC
Found at i:127631 original size:2 final size:2
Alignment explanation
Indices: 127624--127678 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
127614 GATATGATGT
127624 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
127666 TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA
127679 AGATAAATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:128020 original size:18 final size:18
Alignment explanation
Indices: 127997--128031 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
127987 TATAAAATTA
127997 TTAAATAAATAAATTATT
1 TTAAATAAATAAATTATT
* *
128015 TTAAATGAATAATTTAT
1 TTAAATAAATAAATTAT
128032 ATAAAATTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (18 bp):
TTAAATAAATAAATTATT
Found at i:129427 original size:17 final size:17
Alignment explanation
Indices: 129400--129438 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
129390 AATTTACAAT
129400 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
129416 TAATTATAAATAATATC
1 TAATTATAAATAATATC
129433 TAATTA
1 TAATTA
129439 ATTTGATTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:129556 original size:9 final size:9
Alignment explanation
Indices: 129542--129567 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
129532 TATATTTAAA
129542 GGTTAATTC
1 GGTTAATTC
129551 GGTTAATTC
1 GGTTAATTC
129560 GGTTAATT
1 GGTTAATT
129568 AACCGATTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (9 bp):
GGTTAATTC
Found at i:129959 original size:57 final size:59
Alignment explanation
Indices: 129886--130014 Score: 158
Period size: 60 Copynumber: 2.2 Consensus size: 59
129876 GGTTTTTATA
* * *
129886 TTTTTGAATATTCTAATTTCA-TCCTAAAC-TGACTTTAATTT-TAAATTAGTCCTTAAAC
1 TTTTTGAACATTCTAATTTCATTCCTAAACATGACTCT-ATTTCTAAATTAGTCC-CAAAC
* *
129944 -TTTTGAACATTCTAATTTCATTCCTCAACTATGACTCTCTTTCTAAATTAGTCCCAAAC
1 TTTTTGAACATTCTAATTTCATTCCTAAAC-ATGACTCTATTTCTAAATTAGTCCCAAAC
130003 TTTTTGAACATT
1 TTTTTGAACATT
130015 TCATTTTCAT
Statistics
Matches: 61, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
57 19 0.31
58 7 0.11
59 7 0.11
60 28 0.46
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.45
Consensus pattern (59 bp):
TTTTTGAACATTCTAATTTCATTCCTAAACATGACTCTATTTCTAAATTAGTCCCAAAC
Found at i:134936 original size:163 final size:163
Alignment explanation
Indices: 134666--134991 Score: 652
Period size: 163 Copynumber: 2.0 Consensus size: 163
134656 CTTTATCACT
134666 TATCAAGTCTGCAGCCATCAAAGTTGAGGCAAATTGTGCAATATTCCATGAACCAATATCAGGCT
1 TATCAAGTCTGCAGCCATCAAAGTTGAGGCAAATTGTGCAATATTCCATGAACCAATATCAGGCT
134731 GATTTGCGAAACAGTATCTTCTCCCAGGAAGATCTGTAGTATTTGGTGTATAACTCGGATCAAAA
66 GATTTGCGAAACAGTATCTTCTCCCAGGAAGATCTGTAGTATTTGGTGTATAACTCGGATCAAAA
134796 GCATCAAAAAATCCAAAAGGACCATAATCAATG
131 GCATCAAAAAATCCAAAAGGACCATAATCAATG
134829 TATCAAGTCTGCAGCCATCAAAGTTGAGGCAAATTGTGCAATATTCCATGAACCAATATCAGGCT
1 TATCAAGTCTGCAGCCATCAAAGTTGAGGCAAATTGTGCAATATTCCATGAACCAATATCAGGCT
134894 GATTTGCGAAACAGTATCTTCTCCCAGGAAGATCTGTAGTATTTGGTGTATAACTCGGATCAAAA
66 GATTTGCGAAACAGTATCTTCTCCCAGGAAGATCTGTAGTATTTGGTGTATAACTCGGATCAAAA
134959 GCATCAAAAAATCCAAAAGGACCATAATCAATG
131 GCATCAAAAAATCCAAAAGGACCATAATCAATG
134992 GTGACACCCA
Statistics
Matches: 163, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
163 163 1.00
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (163 bp):
TATCAAGTCTGCAGCCATCAAAGTTGAGGCAAATTGTGCAATATTCCATGAACCAATATCAGGCT
GATTTGCGAAACAGTATCTTCTCCCAGGAAGATCTGTAGTATTTGGTGTATAACTCGGATCAAAA
GCATCAAAAAATCCAAAAGGACCATAATCAATG
Found at i:144527 original size:65 final size:66
Alignment explanation
Indices: 144423--144557 Score: 209
Period size: 65 Copynumber: 2.0 Consensus size: 66
144413 GCAAACGAAT
**
144423 GTGGCCATGGCATAAAAGTTAAAGGAAAGGTAATGAATAATGACTT-AAGTTAAATGACCAGGCT
1 GTGGCCATGGCATAAAAGTTAAAGGAAAGACAATGAATAATGACTTAAAGTTAAATGACCAGGCT
144487 A
66 A
* *
144488 GTGGCCATGGCATAAAAGTTAAAGGAAAGACGATGAATAATGACTTAAGAAGTTTAATGACCAGG
1 GTGGCCATGGCATAAAAGTTAAAGGAAAGACAATGAATAATGACTT-A-AAGTTAAATGACCAGG
144553 CTA
64 CTA
144556 GT
1 GT
144558 TAATTCCTAA
Statistics
Matches: 63, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
65 43 0.68
68 20 0.32
ACGTcount: A:0.41, C:0.11, G:0.25, T:0.23
Consensus pattern (66 bp):
GTGGCCATGGCATAAAAGTTAAAGGAAAGACAATGAATAATGACTTAAAGTTAAATGACCAGGCT
A
Found at i:169405 original size:19 final size:18
Alignment explanation
Indices: 169381--169416 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
169371 CGAGACTATA
*
169381 ATATTATTTTTTTCATATT
1 ATATTATATTTTT-ATATT
169400 ATATTATATTTTTATAT
1 ATATTATATTTTTATAT
169417 AAATAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.67
Consensus pattern (18 bp):
ATATTATATTTTTATATT
Found at i:173589 original size:30 final size:30
Alignment explanation
Indices: 173542--173616 Score: 141
Period size: 30 Copynumber: 2.5 Consensus size: 30
173532 TAGAGAATAG
173542 TGCCAACCTGTAACCTTTGTTTGACGTGGCT
1 TGCCAACCTG-AACCTTTGTTTGACGTGGCT
173573 TGCCAACCTGAACCTTTGTTTGACGTGGCT
1 TGCCAACCTGAACCTTTGTTTGACGTGGCT
173603 TGCCAACCTGAACC
1 TGCCAACCTGAACC
173617 GTTTAGCTAG
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 34 0.77
31 10 0.23
ACGTcount: A:0.19, C:0.29, G:0.21, T:0.31
Consensus pattern (30 bp):
TGCCAACCTGAACCTTTGTTTGACGTGGCT
Found at i:176176 original size:14 final size:15
Alignment explanation
Indices: 176150--176178 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
176140 AATCAAGATT
176150 TTTGGGACAGGAATA
1 TTTGGGACAGGAATA
176165 TTTGGG-CAGGAATA
1 TTTGGGACAGGAATA
176179 GCTCCTCCTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.31, C:0.07, G:0.34, T:0.28
Consensus pattern (15 bp):
TTTGGGACAGGAATA
Found at i:210100 original size:18 final size:19
Alignment explanation
Indices: 210068--210113 Score: 85
Period size: 18 Copynumber: 2.5 Consensus size: 19
210058 TTAGGGGAAC
210068 TTGAATTTAGAGGGCGAAT
1 TTGAATTTAGAGGGCGAAT
210087 TTGAATTTAG-GGGCGAAT
1 TTGAATTTAGAGGGCGAAT
210105 TTGAATTTA
1 TTGAATTTA
210114 TAAAATTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 17 0.63
19 10 0.37
ACGTcount: A:0.30, C:0.04, G:0.28, T:0.37
Consensus pattern (19 bp):
TTGAATTTAGAGGGCGAAT
Found at i:210457 original size:20 final size:20
Alignment explanation
Indices: 210434--210471 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
210424 ATTAATCTCC
210434 GAAAATATTTAATTTTATAT
1 GAAAATATTTAATTTTATAT
* *
210454 GAAAATTTTTAGTTTTAT
1 GAAAATATTTAATTTTAT
210472 CATATTTGTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.08, T:0.53
Consensus pattern (20 bp):
GAAAATATTTAATTTTATAT
Found at i:214490 original size:21 final size:21
Alignment explanation
Indices: 214461--214513 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
214451 ATTCTGACTA
214461 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
214482 TCGCGTTGCGATTTTCCGAAT
1 TCGCATTGCGATTTTCCAAAT
*
214503 TCGCAATGCGA
1 TCGCATTGCGA
214514 ATATGTAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.34
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:214565 original size:20 final size:20
Alignment explanation
Indices: 214503--214635 Score: 117
Period size: 20 Copynumber: 6.7 Consensus size: 20
214493 TTTTCCGAAT
* *
214503 TCGCAATGCGAATATGTA-AA
1 TCGCAATGCGATTATG-ACTA
* * *
214523 TCGCAATACGAATATGTA-AA
1 TCGCAATGCGATTATG-ACTA
214543 TCGCAATGCGATTATGACTA
1 TCGCAATGCGATTATGACTA
* *
214563 TCGCAACGCGATTCTGACTA
1 TCGCAATGCGATTATGACTA
* * *
214583 TCGCAACGAGATTCTGACTA
1 TCGCAATGCGATTATGACTA
* **
214603 TCGCAACGCGATGCTGACTA
1 TCGCAATGCGATTATGACTA
214623 TCGCAATGCGATT
1 TCGCAATGCGATT
214636 TTCAAAGCGC
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
19 1 0.01
20 100 0.99
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.26
Consensus pattern (20 bp):
TCGCAATGCGATTATGACTA
Found at i:214586 original size:40 final size:40
Alignment explanation
Indices: 214542--214635 Score: 152
Period size: 40 Copynumber: 2.4 Consensus size: 40
214532 GAATATGTAA
*
214542 ATCGCAATGCGATTATGACTATCGCAACGCGATTCTGACT
1 ATCGCAATGCGATTATGACTATCGCAACGCGATGCTGACT
* * *
214582 ATCGCAACGAGATTCTGACTATCGCAACGCGATGCTGACT
1 ATCGCAATGCGATTATGACTATCGCAACGCGATGCTGACT
214622 ATCGCAATGCGATT
1 ATCGCAATGCGATT
214636 TTCAAAGCGC
Statistics
Matches: 48, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
ATCGCAATGCGATTATGACTATCGCAACGCGATGCTGACT
Found at i:214834 original size:22 final size:22
Alignment explanation
Indices: 214809--214851 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
214799 GGCGACATCC
214809 GTCCCCATCTCCGACGAAATCA
1 GTCCCCATCTCCGACGAAATCA
214831 GTCCCCATCTCCGACGAAATC
1 GTCCCCATCTCCGACGAAATC
214852 CGTCTATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.26, C:0.42, G:0.14, T:0.19
Consensus pattern (22 bp):
GTCCCCATCTCCGACGAAATCA
Found at i:215058 original size:13 final size:13
Alignment explanation
Indices: 215040--215065 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
215030 AGATTAACCA
215040 TTTCATTTAGATT
1 TTTCATTTAGATT
215053 TTTCATTTAGATT
1 TTTCATTTAGATT
215066 GCTTATTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.08, T:0.62
Consensus pattern (13 bp):
TTTCATTTAGATT
Found at i:215310 original size:20 final size:20
Alignment explanation
Indices: 215251--215337 Score: 115
Period size: 20 Copynumber: 4.5 Consensus size: 20
215241 AGAATCACAA
* *
215251 TGCGATTTT-AGTTTCGAGT
1 TGCGATTTTCATTTTCGTGT
*
215270 TGCGATTTTCA-TTTCGCGT
1 TGCGATTTTCATTTTCGTGT
**
215289 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTTCGTGT
215309 TGCGATTTTCATTTTCGTGT
1 TGCGATTTTCATTTTCGTGT
215329 TGCGATTTT
1 TGCGATTTT
215338 AAGTTTCAGA
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
19 25 0.42
20 35 0.58
ACGTcount: A:0.13, C:0.15, G:0.23, T:0.49
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGTGT
Found at i:217246 original size:20 final size:20
Alignment explanation
Indices: 217221--217268 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
217211 TAGTTTACTT
217221 TCGCAACGCGAAAATGACTA
1 TCGCAACGCGAAAATGACTA
**
217241 TCGCAACGCGAATTTGACTA
1 TCGCAACGCGAAAATGACTA
*
217261 TCGTAACG
1 TCGCAACG
217269 AAAGAATCGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAAAATGACTA
Found at i:217365 original size:20 final size:20
Alignment explanation
Indices: 217311--217366 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
217301 ACGATTCTCT
* **
217311 CGTTGCGATAGTCAAATTCG
1 CGTTGCTATAGTCATTTTCG
217331 CGTTG-TGATAGTCATTTTCG
1 CGTTGCT-ATAGTCATTTTCG
217351 CGTTGCTATAGTCATT
1 CGTTGCTATAGTCATT
217367 CGTGTTGCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 30 0.97
21 1 0.03
ACGTcount: A:0.20, C:0.18, G:0.23, T:0.39
Consensus pattern (20 bp):
CGTTGCTATAGTCATTTTCG
Found at i:217958 original size:21 final size:21
Alignment explanation
Indices: 217867--217970 Score: 84
Period size: 21 Copynumber: 5.0 Consensus size: 21
217857 GACTCACCTG
*
217867 TCATCGTTCAAGAGGCCTCCCA
1 TCATCGTTCAAGAGGCC-CCTA
217889 T-ATCGTTCAAGAGGCCCCTA
1 TCATCGTTCAAGAGGCCCCTA
** * * *
217909 TCATCCCTCAAGAGTCCTCTC
1 TCATCGTTCAAGAGGCCCCTA
* * * *
217930 CCACCGTTCAAGAGGCCACTG
1 TCATCGTTCAAGAGGCCCCTA
* *
217951 TCATCGTTGAAGAGGTCCCT
1 TCATCGTTCAAGAGGCCCCT
217971 CCCAACATTC
Statistics
Matches: 63, Mismatches: 18, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
20 4 0.06
21 58 0.92
22 1 0.02
ACGTcount: A:0.22, C:0.35, G:0.19, T:0.24
Consensus pattern (21 bp):
TCATCGTTCAAGAGGCCCCTA
Found at i:217964 original size:42 final size:42
Alignment explanation
Indices: 217864--217974 Score: 118
Period size: 42 Copynumber: 2.6 Consensus size: 42
217854 CCCGACTCAC
* * * *
217864 CTGTCATCGTTCAAGAGGCCTC-CCATATCGTTCAAGAGGCCC
1 CTGTCATCGTTCAAGAGTCCTCTCC-CACCGTTCAAGAGGCCA
* **
217906 CTATCATCCCTCAAGAGTCCTCTCCCACCGTTCAAGAGGCCA
1 CTGTCATCGTTCAAGAGTCCTCTCCCACCGTTCAAGAGGCCA
*
217948 CTGTCATCGTTGAAGAGGTCC-CTCCCA
1 CTGTCATCGTTCAAGA-GTCCTCTCCCA
217975 ACATTCTAGA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
42 50 0.89
43 6 0.11
ACGTcount: A:0.22, C:0.36, G:0.19, T:0.23
Consensus pattern (42 bp):
CTGTCATCGTTCAAGAGTCCTCTCCCACCGTTCAAGAGGCCA
Found at i:219602 original size:14 final size:14
Alignment explanation
Indices: 219583--219644 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
219573 TTGCTTGTTT
219583 AATTGATTTGTAAA
1 AATTGATTTGTAAA
219597 AATTGATTTGTAAA
1 AATTGATTTGTAAA
** *
219611 AGCTGATTTGTTTAA
1 AATTGATTTG-TAAA
* *
219626 TATTGATGTGTAAA
1 AATTGATTTGTAAA
219640 TAATT
1 -AATT
219645 CTTATTTGTA
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
14 25 0.68
15 12 0.32
ACGTcount: A:0.37, C:0.02, G:0.16, T:0.45
Consensus pattern (14 bp):
AATTGATTTGTAAA
Found at i:219782 original size:20 final size:20
Alignment explanation
Indices: 219757--219795 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
219747 AACGCTAACT
219757 CAAAATCGCAATGCGAAAGC
1 CAAAATCGCAATGCGAAAGC
219777 CAAAATCGCAATGCGAAAG
1 CAAAATCGCAATGCGAAAG
219796 TCAATTCGCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.10
Consensus pattern (20 bp):
CAAAATCGCAATGCGAAAGC
Found at i:219863 original size:20 final size:20
Alignment explanation
Indices: 219838--219968 Score: 103
Period size: 20 Copynumber: 6.8 Consensus size: 20
219828 GCGATTTTCT
* * *
219838 CGTTGCGATAGTCGAATACC
1 CGTTGCGATAGTCAAATTCA
* *
219858 CGTTGCGATAATTAAATTCA
1 CGTTGCGATAGTCAAATTCA
*
219878 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCAAATTCA
* *
219898 CGTTGCGAT--T---TTTGA
1 CGTTGCGATAGTCAAATTCA
* *
219913 -GTTGCGATAATCAAATTCG
1 CGTTGCGATAGTCAAATTCA
* *
219932 CGTTGCGATATTCAAATTCG
1 CGTTGCGATAGTCAAATTCA
*
219952 CGTTGCGATATTCAAAT
1 CGTTGCGATAGTCAAAT
219969 GAATGTGTAA
Statistics
Matches: 90, Mismatches: 15, Indels: 12
0.77 0.13 0.10
Matches are distributed among these distances:
14 8 0.09
15 2 0.02
16 1 0.01
18 1 0.01
19 2 0.02
20 76 0.84
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCA
Found at i:219904 original size:74 final size:74
Alignment explanation
Indices: 219798--219968 Score: 211
Period size: 74 Copynumber: 2.3 Consensus size: 74
219788 TGCGAAAGTC
* * * * * *
219798 AATTCGCGTTGCGATGGTCTAATACGCTTTGCGATTTTCT-CGTTGCGATAGTCGAATACCCGTT
1 AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTT-TGAGTTGCGATAATCAAATACCCGTT
219862 GCGATAATT-A
65 GCGAT-ATTCA
* * * *
219872 AATTCACGTTGCGATAGTCAAATTCGCGTTGCGATTTTTGAGTTGCGATAATCAAATTCGCGTTG
1 AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTTGAGTTGCGATAATCAAATACCCGTTG
219937 CGATATTCA
66 CGATATTCA
*
219946 AATTCGCGTTGCGATATTCAAAT
1 AATTCGCGTTGCGATAGTCAAAT
219969 GAATGTGTAA
Statistics
Matches: 83, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
73 4 0.05
74 79 0.95
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.35
Consensus pattern (74 bp):
AATTCGCGTTGCGATAGTCAAATACGCGTTGCGATTTTTGAGTTGCGATAATCAAATACCCGTTG
CGATATTCA
Found at i:220158 original size:18 final size:18
Alignment explanation
Indices: 220135--220169 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
220125 AAGCCGGTTG
*
220135 TGATTGGGATTTTGATTT
1 TGATTGCGATTTTGATTT
220153 TGATTGCGATTTTGATT
1 TGATTGCGATTTTGATT
220170 GCATTTTTCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.26, T:0.54
Consensus pattern (18 bp):
TGATTGCGATTTTGATTT
Found at i:220177 original size:12 final size:12
Alignment explanation
Indices: 220148--220176 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
220138 TTGGGATTTT
220148 GATTTTGATTGC
1 GATTTTGATTGC
220160 GATTTTGATTGC
1 GATTTTGATTGC
220172 -ATTTT
1 GATTTT
220177 TCTTGACACC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.17, C:0.07, G:0.21, T:0.55
Consensus pattern (12 bp):
GATTTTGATTGC
Found at i:223320 original size:23 final size:23
Alignment explanation
Indices: 223294--223357 Score: 76
Period size: 23 Copynumber: 2.8 Consensus size: 23
223284 CAGCTTGTAT
223294 AATTGCACCGAAGTGCCACGTAG
1 AATTGCACCGAAGTGCCACGTAG
* * **
223317 AATTACACCGGAGTGCCGTGTAG
1 AATTGCACCGAAGTGCCACGTAG
223340 AATTGCACCGTAA-TGCCA
1 AATTGCACCG-AAGTGCCA
223358 TATAATAATG
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
23 32 0.97
24 1 0.03
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.20
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCACGTAG
Found at i:223544 original size:103 final size:103
Alignment explanation
Indices: 223373--223590 Score: 384
Period size: 103 Copynumber: 2.1 Consensus size: 103
223363 TAATGTCCAT
*
223373 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAGGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTCACCA
*
223438 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATATCCCG
*
223476 AAGGACCACATATCATTCCTTAAGAATCATATACATATGAC-AAGGATCAAGTATGTGTCTCACT
1 AAGGACCACATATCATTCCTTAAGAATCATATACATAT-ACTAAGGATCAAGTATGTGTCTCACC
*
223540 AGACTTCACACATGTTTCAAAGAATACATATATATCCCG
65 AGACTTCACACATGTTCCAAAGAATACATATATATCCCG
223579 AAGGACCACATA
1 AAGGACCACATA
223591 GACCCTCGAC
Statistics
Matches: 110, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
103 108 0.98
104 2 0.02
ACGTcount: A:0.38, C:0.22, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACTAAGGATCAAGTATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATATCCCG
Found at i:226278 original size:20 final size:20
Alignment explanation
Indices: 226253--226360 Score: 171
Period size: 20 Copynumber: 5.4 Consensus size: 20
226243 GAAATTCAGT
* *
226253 GTTGCGACAGTCAGAATTGC
1 GTTGCGATAGTCAGAATCGC
*
226273 GTTGCGATAGTCAGAATCTC
1 GTTGCGATAGTCAGAATCGC
226293 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
226313 GTTGCGATAGTCAGAATCGC
1 GTTGCGATAGTCAGAATCGC
*
226333 GTTGCGATAGTCATAATCGC
1 GTTGCGATAGTCAGAATCGC
*
226353 ATTGCGAT
1 GTTGCGAT
226361 TTACATATTC
Statistics
Matches: 82, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 82 1.00
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (20 bp):
GTTGCGATAGTCAGAATCGC
Found at i:226367 original size:20 final size:20
Alignment explanation
Indices: 226344--226399 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
226334 TTGCGATAGT
*
226344 CATAATCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
226364 CATATTCGCATTGCGATTTA
1 CATATTCGCATTGCGATTTA
226384 CATATTCGCATTGCGA
1 CATATTCGCATTGCGA
226400 ATTCGAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.27, C:0.21, G:0.16, T:0.36
Consensus pattern (20 bp):
CATATTCGCATTGCGATTTA
Found at i:226378 original size:40 final size:40
Alignment explanation
Indices: 226254--226399 Score: 134
Period size: 40 Copynumber: 3.6 Consensus size: 40
226244 AAATTCAGTG
* * * * * *
226254 TTGCGACAGTCAGAATTGCGTTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCATAATCGCATTGCGATAGTCAGAATCGCA
* * *
226294 TTGCGATAGTCAGAATCGCGTTGCGATAGTCAGAATCGCG
1 TTGCGATAGTCATAATCGCATTGCGATAGTCAGAATCGCA
* * *
226334 TTGCGATAGTCATAATCGCATTGCGAT-TTACATATTCGCA
1 TTGCGATAGTCATAATCGCATTGCGATAGT-CAGAATCGCA
* *
226374 TTGCGAT-TTACATATTCGCATTGCGA
1 TTGCGATAGT-CATAATCGCATTGCGA
226400 ATTCGAAAAA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 2 0.02
40 91 0.98
ACGTcount: A:0.25, C:0.20, G:0.24, T:0.31
Consensus pattern (40 bp):
TTGCGATAGTCATAATCGCATTGCGATAGTCAGAATCGCA
Found at i:226420 original size:21 final size:21
Alignment explanation
Indices: 226396--226441 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
226386 TATTCGCATT
226396 GCGAATTCGAAAAATCGCAAC
1 GCGAATTCGAAAAATCGCAAC
* * *
226417 GCGAATTTGGAAAATCGCAAT
1 GCGAATTCGAAAAATCGCAAC
226438 GCGA
1 GCGA
226442 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (21 bp):
GCGAATTCGAAAAATCGCAAC
Found at i:227035 original size:17 final size:17
Alignment explanation
Indices: 227005--227040 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
226995 ATCGATAAAA
*
227005 TTTATTAAAATATTAAT
1 TTTATCAAAATATTAAT
*
227022 TTTATCAAAGTATTAAT
1 TTTATCAAAATATTAAT
227039 TT
1 TT
227041 AATAAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
TTTATCAAAATATTAAT
Found at i:227821 original size:27 final size:24
Alignment explanation
Indices: 227791--227855 Score: 67
Period size: 27 Copynumber: 2.5 Consensus size: 24
227781 TACTTTGTTT
*
227791 TAATATAAAAATAATTCATTCAAAAAA
1 TAATATAAAAATAAAT-ATT--AAAAA
*
227818 TAATCTAAAAATAAATATTAAAAA
1 TAATATAAAAATAAATATTAAAAA
227842 TAAATCATAAAAAT
1 T-AAT-ATAAAAAT
227856 TATTTTTATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
24 6 0.18
25 3 0.09
26 10 0.30
27 14 0.42
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (24 bp):
TAATATAAAAATAAATATTAAAAA
Found at i:227839 original size:13 final size:13
Alignment explanation
Indices: 227795--227855 Score: 56
Period size: 13 Copynumber: 4.6 Consensus size: 13
227785 TTGTTTTAAT
*
227795 ATAAAAATAATTC
1 ATAAAAATAAATC
227808 ATTCAAAAA-ATAATC
1 A-T-AAAAATA-AATC
227823 -TAAAAATAAAT-
1 ATAAAAATAAATC
227834 ATTAAAAATAAATC
1 A-TAAAAATAAATC
227848 ATAAAAAT
1 ATAAAAAT
227856 TATTTTTATT
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
12 8 0.20
13 21 0.52
14 3 0.08
15 8 0.20
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (13 bp):
ATAAAAATAAATC
Found at i:228577 original size:17 final size:17
Alignment explanation
Indices: 228539--228577 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
228529 AAAGGAGATA
**
228539 AAAATATATAATTTTTT
1 AAAATATATAATAATTT
*
228556 TAAATATATAATAATTT
1 AAAATATATAATAATTT
228573 AAAAT
1 AAAAT
228578 TTTCAATGGA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
AAAATATATAATAATTT
Found at i:228903 original size:31 final size:31
Alignment explanation
Indices: 228814--228908 Score: 84
Period size: 31 Copynumber: 3.0 Consensus size: 31
228804 AAAGGACCTC
* * * * *
228814 TTAAACGATTAAAAAATAGTCATAAAAAGTTA
1 TTAAACTATTATAAAATAATCAT-TAAACTTA
* *
228846 TTAAACTATTATAAAATGATCATTAAATTTA
1 TTAAACTATTATAAAATAATCATTAAACTTA
* *
228877 TTGAACTATTCTAAAATAAT-ATTTAAACTTA
1 TTAAACTATTATAAAATAATCA-TTAAACTTA
228908 T
1 T
228909 CAAAATTTAT
Statistics
Matches: 52, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 1 0.02
31 32 0.62
32 19 0.37
ACGTcount: A:0.49, C:0.07, G:0.05, T:0.38
Consensus pattern (31 bp):
TTAAACTATTATAAAATAATCATTAAACTTA
Found at i:228944 original size:21 final size:22
Alignment explanation
Indices: 228920--228961 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
228910 AAAATTTATT
228920 ACTATTTTATAACA-TATAAAA
1 ACTATTTTATAACATTATAAAA
*
228941 ACTATTTTATAATATTATAAA
1 ACTATTTTATAACATTATAAA
228962 TTTTTTTAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (22 bp):
ACTATTTTATAACATTATAAAA
Found at i:232212 original size:22 final size:22
Alignment explanation
Indices: 232187--232234 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
232177 TACTTCTTAG
232187 AAAATATA-TAAATTAATTC-ATA
1 AAAAT-TACTAAATT-ATTCAATA
*
232209 AAAATTACTTAATTATTCAATA
1 AAAATTACTAAATTATTCAATA
232231 AAAA
1 AAAA
232235 ATGTTCAAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (22 bp):
AAAATTACTAAATTATTCAATA
Found at i:235243 original size:57 final size:57
Alignment explanation
Indices: 235156--235271 Score: 155
Period size: 59 Copynumber: 2.0 Consensus size: 57
235146 TATTAAATAA
* ** *
235156 AAAAGTATTATATGATTACAATCTATTGTTAATG-A-CTTAAGATGATATAAATTTT
1 AAAAGTATTATATAATTACAATCTATTGTTAATGAATCACAAGATGATATAAAATTT
*
235211 AAAAGTATTATATAATTACACAATTTATTGTTAATGAATCACAAGATGATATAAAATTT
1 AAAAGTATTATATAATT--ACAATCTATTGTTAATGAATCACAAGATGATATAAAATTT
235270 AA
1 AA
235272 GGGTGAATTA
Statistics
Matches: 52, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
55 16 0.31
57 16 0.31
58 1 0.02
59 19 0.37
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (57 bp):
AAAAGTATTATATAATTACAATCTATTGTTAATGAATCACAAGATGATATAAAATTT
Found at i:244956 original size:18 final size:18
Alignment explanation
Indices: 244933--244978 Score: 74
Period size: 18 Copynumber: 2.6 Consensus size: 18
244923 ACCGGTCATA
244933 ACCCGACCCGACCCGTTT
1 ACCCGACCCGACCCGTTT
* *
244951 ACCCGACTCGACCTGTTT
1 ACCCGACCCGACCCGTTT
244969 ACCCGACCCG
1 ACCCGACCCG
244979 TTGACCGACC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.17, C:0.48, G:0.17, T:0.17
Consensus pattern (18 bp):
ACCCGACCCGACCCGTTT
Found at i:244991 original size:17 final size:17
Alignment explanation
Indices: 244969--245002 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
244959 CGACCTGTTT
244969 ACCCGACCCGTTGACCG
1 ACCCGACCCGTTGACCG
244986 ACCCGACCCGTTGACCG
1 ACCCGACCCGTTGACCG
245003 TTGACCACTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.47, G:0.24, T:0.12
Consensus pattern (17 bp):
ACCCGACCCGTTGACCG
Found at i:246335 original size:18 final size:18
Alignment explanation
Indices: 246309--246343 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
246299 TCGAAAGAAC
*
246309 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
246327 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
246344 CCGGATGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.54, C:0.00, G:0.17, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:247983 original size:63 final size:63
Alignment explanation
Indices: 247851--247984 Score: 150
Period size: 63 Copynumber: 2.1 Consensus size: 63
247841 CTAATGTGAC
* * *
247851 TCTTAGGTAGGCTCTGCGGCCCTGAGATCATTCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
1 TCTTAGGTAGGCTCTACGGCCCCGAAATCATTCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
* * *
247914 TATTAGGTAGGC-CTCACGGCCCCGAAATC-TATCTTGGGTAGGCTCT-CAGGCCCTAAGATGT-
1 TCTTAGGTAGGCTCT-ACGGCCCCGAAATCAT-TCTCGGGTAGGCCCTGC-GGCCCTAAGATGTG
247975 T
63 T
247976 TCCTTAGGT
1 T-CTTAGGT
247985 TAACTCTTTA
Statistics
Matches: 60, Mismatches: 7, Indels: 8
0.80 0.09 0.11
Matches are distributed among these distances:
62 6 0.10
63 54 0.90
ACGTcount: A:0.17, C:0.26, G:0.28, T:0.28
Consensus pattern (63 bp):
TCTTAGGTAGGCTCTACGGCCCCGAAATCATTCTCGGGTAGGCCCTGCGGCCCTAAGATGTGT
Found at i:250261 original size:116 final size:115
Alignment explanation
Indices: 250132--250366 Score: 443
Period size: 116 Copynumber: 2.0 Consensus size: 115
250122 ATATATTGAA
*
250132 TTGTATTTAATATATAATTTAAAATAATGACCATGCATTTGGTCTCCTATAGGACCACATGCATC
1 TTGTATTTAATATATAATTTAAAATAATGACCATGCATTTGGTCTACTATAGGACCACATGCATC
*
250197 CACCCATGTCGTCAAATGGTCTTATAAGATATTATTTATAAGGTGTAGTG
66 CACCCATGTCGACAAATGGTCTTATAAGATATTATTTATAAGGTGTAGTG
250247 TTGTAATTTAATATATAATTTAAAATAATGACCATGCATTTGGTCTACTATAGGACCACATGCAT
1 TTGT-ATTTAATATATAATTTAAAATAATGACCATGCATTTGGTCTACTATAGGACCACATGCAT
250312 CCACCCATGTCGACAAATGGTCTTATAAGATATTATTTATAAGGTGTAGTG
65 CCACCCATGTCGACAAATGGTCTTATAAGATATTATTTATAAGGTGTAGTG
250363 TTGT
1 TTGT
250367 CAGTAAATTA
Statistics
Matches: 117, Mismatches: 2, Indels: 1
0.98 0.02 0.01
Matches are distributed among these distances:
115 4 0.03
116 113 0.97
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (115 bp):
TTGTATTTAATATATAATTTAAAATAATGACCATGCATTTGGTCTACTATAGGACCACATGCATC
CACCCATGTCGACAAATGGTCTTATAAGATATTATTTATAAGGTGTAGTG
Found at i:251393 original size:3 final size:3
Alignment explanation
Indices: 251350--251376 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
251340 ATAATGGAAT
251350 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
251377 GTGGTCCATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:256890 original size:278 final size:278
Alignment explanation
Indices: 256393--256949 Score: 1114
Period size: 278 Copynumber: 2.0 Consensus size: 278
256383 ATTCCCCTTA
256393 CGAATGATTTGGGAACTTATTTGGGAGTTCCAATAATTCATAAGAGGGTCAATGCAGAAACTTAT
1 CGAATGATTTGGGAACTTATTTGGGAGTTCCAATAATTCATAAGAGGGTCAATGCAGAAACTTAT
256458 GCTCCTCTTATAGATAAGGTCATGAGGAAACTTGCGGGCTGGAAAGGACGAGTCTTGTCCATGGC
66 GCTCCTCTTATAGATAAGGTCATGAGGAAACTTGCGGGCTGGAAAGGACGAGTCTTGTCCATGGC
256523 GGGGAGAAGAACACTCATCCAATCAGTTTCAAATGCAATACATATTCATACAATGCAAACAGTTA
131 GGGGAGAAGAACACTCATCCAATCAGTTTCAAATGCAATACATATTCATACAATGCAAACAGTTA
256588 TGCTTCTAGTGGCCGTCTGTAAGAAACTAGACAGTTTAAATGCAAATTTTTTGTGGGGAGGAGAC
196 TGCTTCTAGTGGCCGTCTGTAAGAAACTAGACAGTTTAAATGCAAATTTTTTGTGGGGAGGAGAC
256653 ACTGAATATGCGCATAAT
261 ACTGAATATGCGCATAAT
256671 CGAATGATTTGGGAACTTATTTGGGAGTTCCAATAATTCATAAGAGGGTCAATGCAGAAACTTAT
1 CGAATGATTTGGGAACTTATTTGGGAGTTCCAATAATTCATAAGAGGGTCAATGCAGAAACTTAT
256736 GCTCCTCTTATAGATAAGGTCATGAGGAAACTTGCGGGCTGGAAAGGACGAGTCTTGTCCATGGC
66 GCTCCTCTTATAGATAAGGTCATGAGGAAACTTGCGGGCTGGAAAGGACGAGTCTTGTCCATGGC
256801 GGGGAGAAGAACACTCATCCAATCAGTTTCAAATGCAATACATATTCATACAATGCAAACAGTTA
131 GGGGAGAAGAACACTCATCCAATCAGTTTCAAATGCAATACATATTCATACAATGCAAACAGTTA
256866 TGCTTCTAGTGGCCGTCTGTAAGAAACTAGACAGTTTAAATGCAAATTTTTTGTGGGGAGGAGAC
196 TGCTTCTAGTGGCCGTCTGTAAGAAACTAGACAGTTTAAATGCAAATTTTTTGTGGGGAGGAGAC
256931 ACTGAATATGCGCATAAT
261 ACTGAATATGCGCATAAT
256949 C
1 C
256950 ATCTTGTTAG
Statistics
Matches: 279, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
278 279 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (278 bp):
CGAATGATTTGGGAACTTATTTGGGAGTTCCAATAATTCATAAGAGGGTCAATGCAGAAACTTAT
GCTCCTCTTATAGATAAGGTCATGAGGAAACTTGCGGGCTGGAAAGGACGAGTCTTGTCCATGGC
GGGGAGAAGAACACTCATCCAATCAGTTTCAAATGCAATACATATTCATACAATGCAAACAGTTA
TGCTTCTAGTGGCCGTCTGTAAGAAACTAGACAGTTTAAATGCAAATTTTTTGTGGGGAGGAGAC
ACTGAATATGCGCATAAT
Found at i:266642 original size:6 final size:6
Alignment explanation
Indices: 266605--266641 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
266595 TGTCCCACTC
*
266605 CACCCT CACCCT CACCCT CACCCT CACCCT CTCCCT C
1 CACCCT CACCCT CACCCT CACCCT CACCCT CACCCT C
266642 TTCTTCTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.14, C:0.68, G:0.00, T:0.19
Consensus pattern (6 bp):
CACCCT
Found at i:270962 original size:24 final size:24
Alignment explanation
Indices: 270915--270987 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 24
270905 TAAACAACCG
270915 AAAATGTGTCAT-AAA-TACAAAA
1 AAAATGTGTCATAAAAGTACAAAA
*
270937 AAAATGTGTTATAAAAGTACAAAA
1 AAAATGTGTCATAAAAGTACAAAA
* * *
270961 AAAACGTGTCCTAAAAGTAGAAAA
1 AAAATGTGTCATAAAAGTACAAAA
270985 AAA
1 AAA
270988 CGTATACTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
22 11 0.25
23 3 0.07
24 30 0.68
ACGTcount: A:0.59, C:0.08, G:0.12, T:0.21
Consensus pattern (24 bp):
AAAATGTGTCATAAAAGTACAAAA
Found at i:270984 original size:23 final size:24
Alignment explanation
Indices: 270930--271002 Score: 87
Period size: 24 Copynumber: 3.1 Consensus size: 24
270920 GTGTCATAAA
*
270930 TACAAAAAAAATGTGTTA-TAAAAG
1 TACAAAAAAAACGTG-TACTAAAAG
*
270954 TACAAAAAAAACGTGTCCTAAAAG
1 TACAAAAAAAACGTGTACTAAAAG
* *
270978 TA-GAAAAAAACGTATACTAAAAG
1 TACAAAAAAAACGTGTACTAAAAG
271001 TA
1 TA
271003 AATTTATTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
23 21 0.49
24 22 0.51
ACGTcount: A:0.58, C:0.10, G:0.12, T:0.21
Consensus pattern (24 bp):
TACAAAAAAAACGTGTACTAAAAG
Found at i:272344 original size:18 final size:19
Alignment explanation
Indices: 272310--272352 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
272300 GTGTGATTCT
*
272310 CAATTGTATTCAAATATAA
1 CAATTTTATTCAAATATAA
*
272329 CAATTTTATT-AAATATAT
1 CAATTTTATTCAAATATAA
272347 CAATTT
1 CAATTT
272353 CTGTTTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (19 bp):
CAATTTTATTCAAATATAA
Found at i:273062 original size:13 final size:13
Alignment explanation
Indices: 273040--273071 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
273030 TCACGTTCAA
*
273040 ATTTTTAAATAAT
1 ATTTTAAAATAAT
273053 ATTTTAAAATAAT
1 ATTTTAAAATAAT
273066 ATTTTA
1 ATTTTA
273072 TTTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (13 bp):
ATTTTAAAATAAT
Found at i:277575 original size:21 final size:21
Alignment explanation
Indices: 277551--277878 Score: 119
Period size: 21 Copynumber: 15.7 Consensus size: 21
277541 CCGGCTTTAT
* *
277551 CGGCAACACCCTCTGATTTGG
1 CGGCAACTCCCCCTGATTTGG
* * **
277572 CGGCAACTCCCCCGGCTTTAT
1 CGGCAACTCCCCCTGATTTGG
* * * *
277593 CAGAAACGCCCTCTGATTTGG
1 CGGCAACTCCCCCTGATTTGG
*
277614 CGGCAACTCCCCCTGATATGG
1 CGGCAACTCCCCCTGATTTGG
* * * *
277635 CGGCCACTCCCCCCGCTTTGT
1 CGGCAACTCCCCCTGATTTGG
* * *
277656 CGGC-ATTGCCCCCT-ACTGTGT
1 CGGCAACT-CCCCCTGA-TTTGG
* * *
277677 CCGCAACACCCTCC-GATTTGT
1 CGGCAACTCCC-CCTGATTTGG
* * * * **
277698 CAGCAATTCCCCCTGCTGTAT
1 CGGCAACTCCCCCTGATTTGG
* *
277719 C-GCAACACCCTCTGATTTGG
1 CGGCAACTCCCCCTGATTTGG
* * *
277739 CGGCAACTCCCCCCGCTTTGT
1 CGGCAACTCCCCCTGATTTGG
** * * *
277760 CGGCATTTCCCCCTGCTGTGT
1 CGGCAACTCCCCCTGATTTGG
* *
277781 CGGCATCTCCCCCTGTTTTGG
1 CGGCAACTCCCCCTGATTTGG
* ** *
277802 CGGCCACTCCCCCTTCTTTGT
1 CGGCAACTCCCCCTGATTTGG
* *
277823 CGTCAA-TCCCCCTG-TTGTGT
1 CGGCAACTCCCCCTGATT-TGG
* * *
277843 CGGCATCGCCCCCTGTTTTGG
1 CGGCAACTCCCCCTGATTTGG
* * *
277864 TGGCAGCACCCCCTG
1 CGGCAACTCCCCCTG
277879 GTTCAGTGGC
Statistics
Matches: 224, Mismatches: 73, Indels: 20
0.71 0.23 0.06
Matches are distributed among these distances:
19 2 0.01
20 31 0.14
21 185 0.83
22 6 0.03
ACGTcount: A:0.12, C:0.40, G:0.21, T:0.27
Consensus pattern (21 bp):
CGGCAACTCCCCCTGATTTGG
Found at i:277589 original size:42 final size:42
Alignment explanation
Indices: 277537--277764 Score: 190
Period size: 42 Copynumber: 5.5 Consensus size: 42
277527 CTCCGGCAGT
*
277537 TCCCCCGGCTTTATCGGCAACACCCTCTGATTTGGCGGCAAC
1 TCCCCCTGCTTTATCGGCAACACCCTCTGATTTGGCGGCAAC
* * * *
277579 TCCCCCGGCTTTATCAGAAACGCCCTCTGATTTGGCGGCAAC
1 TCCCCCTGCTTTATCGGCAACACCCTCTGATTTGGCGGCAAC
* * ** * * * * * * *
277621 TCCCCCTGATATGGCGGCCACTCCCCCCGCTTTGTCGGC-AT
1 TCCCCCTGCTTTATCGGCAACACCCTCTGATTTGGCGGCAAC
* * * * * * * *
277662 TGCCCCCTACTGTGTCCGCAACACCCTCCGATTTGTCAGCAAT
1 T-CCCCCTGCTTTATCGGCAACACCCTCTGATTTGGCGGCAAC
*
277705 TCCCCCTGCTGTATC-GCAACACCCTCTGATTTGGCGGCAAC
1 TCCCCCTGCTTTATCGGCAACACCCTCTGATTTGGCGGCAAC
* *
277746 TCCCCCCGCTTTGTCGGCA
1 TCCCCCTGCTTTATCGGCA
277765 TTTCCCCCTG
Statistics
Matches: 147, Mismatches: 36, Indels: 6
0.78 0.19 0.03
Matches are distributed among these distances:
41 36 0.24
42 108 0.73
43 3 0.02
ACGTcount: A:0.15, C:0.40, G:0.20, T:0.25
Consensus pattern (42 bp):
TCCCCCTGCTTTATCGGCAACACCCTCTGATTTGGCGGCAAC
Found at i:277759 original size:62 final size:62
Alignment explanation
Indices: 277679--277868 Score: 177
Period size: 62 Copynumber: 3.0 Consensus size: 62
277669 TACTGTGTCC
* * * *
277679 GCAACACCCTCCGATTTGTCAGCAATTCCCCCTGCTGTATC-GCAACACCCTCTGATTTGGCG
1 GCAACTCCCCCCGCTTTGTC-GCAATTCCCCCTGCTGTATCGGCAACACCCCCTGATTTGGCG
* * * * *
277741 GCAACTCCCCCCGCTTTGTCGGCATTTCCCCCTGCTGTGTCGGCATCTCCCCCTGTTTTGGCG
1 GCAACTCCCCCCGCTTTGTC-GCAATTCCCCCTGCTGTATCGGCAACACCCCCTGATTTGGCG
* ** * * * * * *
277804 GCCACTCCCCCTTCTTTGTCGTCAA-TCCCCCTGTTGTGTCGGCATCGCCCCCTGTTTTGGTG
1 GCAACTCCCCCCGCTTTGTCG-CAATTCCCCCTGCTGTATCGGCAACACCCCCTGATTTGGCG
277866 GCA
1 GCA
277869 GCACCCCCTG
Statistics
Matches: 108, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
62 72 0.67
63 36 0.33
ACGTcount: A:0.11, C:0.39, G:0.21, T:0.29
Consensus pattern (62 bp):
GCAACTCCCCCCGCTTTGTCGCAATTCCCCCTGCTGTATCGGCAACACCCCCTGATTTGGCG
Found at i:277847 original size:104 final size:102
Alignment explanation
Indices: 277616--277847 Score: 234
Period size: 104 Copynumber: 2.2 Consensus size: 102
277606 TGATTTGGCG
* *
277616 GCAACTCCCCCTGATATGGCGGCCACTCCCCCCGCTTTGTCGGCATTGCCCCCTACTGTGTCCGC
1 GCAA-TCCCCCTG-TTTGGCGGCAACTCCCCCCGCTTTGTCGGCATTGCCCCCTACTGTGTCCGC
* *
277681 AACACCCTCCGATTTGTCAGCAATTCCCCCTGCTGTATC
64 AACACCCTCCGATTTGGCAGCAACTCCCCCTGCTGTATC
* * *
277720 GCAA-CACCCTCTGATTTGGCGGCAACTCCCCCCGCTTTGTCGGCATTTCCCCCTGCTGTGTCGG
1 GCAATC-CCC-CTG-TTTGGCGGCAACTCCCCCCGCTTTGTCGGCATTGCCCCCTACTGTGTCCG
* * * * * * * *
277784 CATCTCCC-CCTGTTTTGGCGGCCACTCCCCCTTCTTTGTC
63 CAACACCCTCC-GATTTGGCAGCAACTCCCCCTGCTGTATC
*
277824 GTCAATCCCCCTGTTGTGTCGGCA
1 G-CAATCCCCCTGTT-TGGCGGCA
277848 TCGCCCCCTG
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
102 1 0.01
103 7 0.07
104 91 0.86
105 6 0.06
106 1 0.01
ACGTcount: A:0.12, C:0.41, G:0.20, T:0.28
Consensus pattern (102 bp):
GCAATCCCCCTGTTTGGCGGCAACTCCCCCCGCTTTGTCGGCATTGCCCCCTACTGTGTCCGCAA
CACCCTCCGATTTGGCAGCAACTCCCCCTGCTGTATC
Found at i:294772 original size:21 final size:20
Alignment explanation
Indices: 294686--294843 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
294676 AAATGACCAA
**
294686 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
294705 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
294725 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
294745 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
294766 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
294787 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
294807 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
294828 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
294844 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 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:294836 original size:20 final size:20
Alignment explanation
Indices: 294811--295004 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
294801 GATTTTCAAT
* *
294811 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
294831 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
294851 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
294871 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
294891 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
294911 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
294931 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
294951 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
294972 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
294992 AATCGCAACGCGA
1 AATCGCAACGCGA
295005 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:294856 original size:40 final size:39
Alignment explanation
Indices: 294811--295004 Score: 199
Period size: 40 Copynumber: 4.8 Consensus size: 39
294801 GATTTTCAAT
* ** *
294811 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATA
* * *
294851 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
** * * *
294891 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* ** *
294931 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT-A
294972 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
295005 TATTTAAAGC
Statistics
Matches: 128, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.73
41 33 0.26
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATA
Found at i:294894 original size:60 final size:60
Alignment explanation
Indices: 294811--295003 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
294801 GATTTTCAAT
* ** * *
294811 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
294871 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
294931 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
294992 AATCGCAACGCG
1 AATCGCAACGCG
295004 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:295423 original size:33 final size:33
Alignment explanation
Indices: 295384--295454 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
295374 TTCACTTAGA
*
295384 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
295417 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
295450 TTTCA
1 TTTCA
295455 AGTTAGTATT
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:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:295594 original size:14 final size:14
Alignment explanation
Indices: 295575--295634 Score: 57
Period size: 14 Copynumber: 3.9 Consensus size: 14
295565 AGAATGACTG
295575 TCGCAACGAGAAAA
1 TCGCAACGAGAAAA
295589 TCGCAACGCGAAATGAAAA
1 TCGCAA--CG--A-GAAAA
*
295608 TCGCAACGAGAGAA
1 TCGCAACGAGAAAA
*
295622 TCGCAACGCGAAA
1 TCGCAACGAGAAA
295635 CCAAAATCGC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 21 0.55
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 11 0.29
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.08
Consensus pattern (14 bp):
TCGCAACGAGAAAA
Found at i:295612 original size:33 final size:33
Alignment explanation
Indices: 295550--295645 Score: 120
Period size: 33 Copynumber: 2.9 Consensus size: 33
295540 CGAGATAAAT
* ***
295550 GAAAATCGCAACGAGAGAATGACTGTCGCAACGA
1 GAAAATCGCAACGCGA-AATGAAAATCGCAACGA
295584 GAAAATCGCAACGCGAAATGAAAATCGCAACGA
1 GAAAATCGCAACGCGAAATGAAAATCGCAACGA
* **
295617 GAGAATCGCAACGCGAAACCAAAATCGCA
1 GAAAATCGCAACGCGAAATGAAAATCGCA
295646 TTGCGATTTT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
33 40 0.73
34 15 0.27
ACGTcount: A:0.45, C:0.23, G:0.23, T:0.09
Consensus pattern (33 bp):
GAAAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:295663 original size:19 final size:19
Alignment explanation
Indices: 295641--295738 Score: 81
Period size: 19 Copynumber: 5.7 Consensus size: 19
295631 GAAACCAAAA
*
295641 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
295660 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
*
295674 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
295693 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* * *
295707 TCTCGTTGCGATTGTCATC
1 TCGCGTTGCGATTTTCATT
295726 TCGCGTTGCGATT
1 TCGCGTTGCGATT
295739 CTCTCGTTGC
Statistics
Matches: 63, Mismatches: 6, Indels: 20
0.71 0.07 0.22
Matches are distributed among these distances:
14 20 0.32
16 5 0.08
17 6 0.10
19 32 0.51
ACGTcount: A:0.10, C:0.24, G:0.22, T:0.43
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:295682 original size:14 final size:14
Alignment explanation
Indices: 295663--295752 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
295653 TTTCATTTCG
295663 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
295677 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
295696 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
295710 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
295727 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
295743 CGTTGCGATT
1 CGTTGCGATT
295753 TTCATTTCAA
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:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:295688 original size:33 final size:33
Alignment explanation
Indices: 295646--295760 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
295636 CAAAATCGCA
295646 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
295679 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
295712 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
295745 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
295761 AACCAAAAGA
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:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:297663 original size:92 final size:93
Alignment explanation
Indices: 297457--297835 Score: 735
Period size: 92 Copynumber: 4.1 Consensus size: 93
297447 TAGATTGCTT
*
297457 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
297522 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
297550 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
297614 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
297642 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
297706 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
297734 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
297799 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
297827 AGTAAATTT
1 AGTAAATTT
297836 ATCCATTCAA
Statistics
Matches: 284, Mismatches: 1, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
92 184 0.65
93 100 0.35
ACGTcount: A:0.22, C:0.13, G:0.18, T:0.46
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:297687 original size:185 final size:185
Alignment explanation
Indices: 297457--297837 Score: 737
Period size: 185 Copynumber: 2.1 Consensus size: 185
297447 TAGATTGCTT
297457 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
297522 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
65 TTTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACT
297587 GTGTATTCTTTAACACTGTGAAATA-TATTTGTCTTTGTTTTGTCTTTTGGTTGAA
130 GTGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
297642 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATATAT
1 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATATAT
297707 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
66 TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
297772 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
131 TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
297827 AGTAAATTTAT
1 AGTAAATTTAT
297838 CCATTCAAGT
Statistics
Matches: 193, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
184 92 0.48
185 101 0.52
ACGTcount: A:0.23, C:0.13, G:0.18, T:0.46
Consensus pattern (185 bp):
AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATATAT
TTGTCTTTGTTTTGTCTTTTGGTTGAAAGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTG
TGTATTCTTTAACACTGTGAAATAGTATTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:297919 original size:19 final size:19
Alignment explanation
Indices: 297879--298007 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
297869 TAGTTTACTT
* *
297879 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC-CAAAA
297899 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
**
297918 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAACCAAAA
*
297937 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAACCAAAA
297951 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
*
297970 TCGCAA--CG--A-CAAGA
1 TCGCAACGCGAAACCAAAA
297984 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAACCAAAA
298003 TCGCA
1 TCGCA
298008 TTGCGATTTT
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 19 0.21
15 2 0.02
16 4 0.04
17 4 0.04
18 2 0.02
19 46 0.51
20 13 0.14
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (19 bp):
TCGCAACGCGAAACCAAAA
Found at i:297958 original size:33 final size:32
Alignment explanation
Indices: 297915--298007 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 32
297905 CGCGAAACCA
**
297915 AAATCGCAACGCGAAATGAAAATCGCAACGAC
1 AAATCGCAACGCGAAACCAAAATCGCAACGAC
297947 AGAATCGCAACGCGAAACCAAAATCGCAACGAC
1 A-AATCGCAACGCGAAACCAAAATCGCAACGAC
297980 AAGATCGCAACGCGAAACCAAAATCGCA
1 AA-ATCGCAACGCGAAACCAAAATCGCA
298008 TTGCGATTTT
Statistics
Matches: 57, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 2 0.04
33 55 0.96
ACGTcount: A:0.46, C:0.28, G:0.18, T:0.08
Consensus pattern (32 bp):
AAATCGCAACGCGAAACCAAAATCGCAACGAC
Found at i:298005 original size:52 final size:52
Alignment explanation
Indices: 297879--298007 Score: 140
Period size: 52 Copynumber: 2.5 Consensus size: 52
297869 TAGTTTACTT
**
297879 TCGCAACACGAAACTTAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
1 TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
* * *
297931 T-G-AAAATCGCAACGACAGAATCGCAACGCGAAACCAAAATCGCAACGAC-AAGA
1 TCGCAACA-CGAAAC-ACAAAATCGCAACGCGAAACCAAAATCGCAACG-CGAA-A
*
297984 TCGCAACGCGAAAC-CAAAATCGCA
1 TCGCAACACGAAACACAAAATCGCA
298008 TTGCGATTTT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
50 3 0.05
51 6 0.10
52 42 0.68
53 3 0.05
54 6 0.10
55 2 0.03
ACGTcount: A:0.46, C:0.29, G:0.17, T:0.09
Consensus pattern (52 bp):
TCGCAACACGAAACACAAAATCGCAACGCGAAACCAAAATCGCAACGCGAAA
Found at i:298025 original size:19 final size:19
Alignment explanation
Indices: 298003--298137 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
297993 GAAACCAAAA
*
298003 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
298022 TCGCGTTGCGA--TTC-TT
1 TCGCGTTGCGATTTTCATT
298038 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
* *
298055 TCGCATTGCGA--TTC-TG
1 TCGCGTTGCGATTTTCATT
298071 T--CGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
**
298088 TCGCGTTGCGATTTTGGTT
1 TCGCGTTGCGATTTTCATT
*
298107 TCGCGTTGCGATTTTAAGTT
1 TCGCGTTGCGATTTTCA-TT
*
298127 TCGTGTTGCGA
1 TCGCGTTGCGA
298138 AAGTAAACTA
Statistics
Matches: 95, Mismatches: 10, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 15 0.16
16 11 0.12
17 11 0.12
19 46 0.48
20 12 0.13
ACGTcount: A:0.11, C:0.19, G:0.24, T:0.46
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:298044 original size:14 final size:14
Alignment explanation
Indices: 298025--298081 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
298015 TTTCATTTCG
298025 CGTTGCGATTCTTT
1 CGTTGCGATTCTTT
298039 CGTTGCGATTTTCATTT
1 CGTTGCGA--TTC-TTT
*
298056 CGCATTGCGATTCTGT
1 CG--TTGCGATTCTTT
298072 CGTTGCGATT
1 CGTTGCGATT
298082 TTCATTTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 16 0.43
16 7 0.19
17 8 0.22
19 6 0.16
ACGTcount: A:0.11, C:0.21, G:0.23, T:0.46
Consensus pattern (14 bp):
CGTTGCGATTCTTT
Found at i:298050 original size:33 final size:33
Alignment explanation
Indices: 298008--298100 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
297998 CAAAATCGCA
*
298008 TTGCGATTTTCATTTCGCGTTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
*
298041 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
298074 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGCGTTGCGATT
298101 TTGGTTTCGC
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTGTCG
Found at i:300054 original size:14 final size:14
Alignment explanation
Indices: 300035--300070 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
300025 ATTGTTTAAT
300035 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
*
300049 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
300063 TGATTTGT
1 TGATTTGT
300071 GTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:300245 original size:20 final size:19
Alignment explanation
Indices: 300177--300259 Score: 113
Period size: 19 Copynumber: 4.6 Consensus size: 19
300167 AAAAATGACT
300177 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
300196 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
300210 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
300229 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATGAAA
300249 ATCGCAATGCG
1 ATCGCAATGCG
300260 TTTATAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 12
0.80 0.03 0.17
Matches are distributed among these distances:
14 10 0.18
15 1 0.02
16 2 0.04
17 2 0.04
18 1 0.02
19 21 0.38
20 19 0.34
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:300312 original size:19 final size:19
Alignment explanation
Indices: 300288--300561 Score: 354
Period size: 19 Copynumber: 15.4 Consensus size: 19
300278 GATTATCTCG
300288 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
300307 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
300326 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
300340 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
300359 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
300378 TTGCGATTTCCATTTCGCA
1 TTGCGATTTTCATTTCGCA
300397 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
300416 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
300435 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
300449 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
300468 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
300487 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
300501 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
300521 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
300535 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
300554 TTGCGATT
1 TTGCGATT
300562 GTATTTTCCG
Statistics
Matches: 226, Mismatches: 8, Indels: 42
0.82 0.03 0.15
Matches are distributed among these distances:
14 29 0.13
16 24 0.11
17 21 0.09
18 3 0.01
19 137 0.61
20 12 0.05
ACGTcount: A:0.14, C:0.22, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:300328 original size:52 final size:52
Alignment explanation
Indices: 300266--300533 Score: 455
Period size: 52 Copynumber: 5.0 Consensus size: 52
300256 TGCGTTTATA
*
300266 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
300318 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
300370 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TT-C-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
300427 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
300479 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
300532 AT
1 AT
300534 GTTGGGATTT
Statistics
Matches: 207, Mismatches: 3, Indels: 11
0.94 0.01 0.05
Matches are distributed among these distances:
52 131 0.63
53 19 0.09
54 5 0.02
55 6 0.03
56 2 0.01
57 44 0.21
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:300417 original size:109 final size:105
Alignment explanation
Indices: 300266--300533 Score: 459
Period size: 109 Copynumber: 2.5 Consensus size: 105
300256 TGCGTTTATA
300266 ATTTCGCATTGCGATT-ATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
1 ATTTCGCATTGCGATTCATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
*
300330 GATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
66 GATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
300370 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGA-TT-CATCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
300435 TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
62 TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
300479 ATTTCGCATTGCGATTC-TCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCAT
1 ATTTCGCATTGCGATTCATCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCAT
300534 GTTGGGATTT
Statistics
Matches: 155, Mismatches: 3, Indels: 11
0.92 0.02 0.07
Matches are distributed among these distances:
104 29 0.19
105 19 0.12
106 4 0.03
107 6 0.04
108 2 0.01
109 95 0.61
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.46
Consensus pattern (105 bp):
ATTTCGCATTGCGATTCATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
GATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:303076 original size:24 final size:24
Alignment explanation
Indices: 303042--303088 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
303032 CTGAAACATC
303042 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
303066 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
303089 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:303793 original size:20 final size:20
Alignment explanation
Indices: 303765--304154 Score: 457
Period size: 20 Copynumber: 19.4 Consensus size: 20
303755 AAATTTCAGT
* * * *
303765 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
303785 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
303805 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
303825 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
303845 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
303865 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
303885 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
303905 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
303925 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
303945 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
303965 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
303985 GTTGCGATTTTATGTATTA-TC
1 GTTGCGA-TTTACGGA-TACGC
304006 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
304026 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
304046 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
304066 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
304086 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
304106 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
304126 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
304146 GTTGCGATT
1 GTTGCGATT
304155 ATTGAAAATC
Statistics
Matches: 323, Mismatches: 36, Indels: 22
0.85 0.09 0.06
Matches are distributed among these distances:
19 7 0.02
20 295 0.91
21 19 0.06
22 2 0.01
ACGTcount: A:0.20, C:0.18, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:308502 original size:25 final size:25
Alignment explanation
Indices: 308474--308526 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
308464 AAAAAATTAT
*
308474 AAATATCGTGTCACAAAAACAGA-AA
1 AAATA-CGTATCACAAAAACAGAGAA
* *
308499 AAATACGTATCATAATAACAGAGAA
1 AAATACGTATCACAAAAACAGAGAA
308524 AAA
1 AAA
308527 CATGTCCTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.58, C:0.13, G:0.11, T:0.17
Consensus pattern (25 bp):
AAATACGTATCACAAAAACAGAGAA
Found at i:310250 original size:29 final size:29
Alignment explanation
Indices: 310207--310265 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
310197 ATGAATTCGA
*
310207 GAAAGGTCATGAGTTAATGGGTTGGGGAG
1 GAAAGGTCATAAGTTAATGGGTTGGGGAG
310236 GAAAGGTCATAAGTTAATGGGTTGGGGAG
1 GAAAGGTCATAAGTTAATGGGTTGGGGAG
310265 G
1 G
310266 CATGTTTGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.29, C:0.03, G:0.44, T:0.24
Consensus pattern (29 bp):
GAAAGGTCATAAGTTAATGGGTTGGGGAG
Found at i:315726 original size:59 final size:59
Alignment explanation
Indices: 315639--315778 Score: 156
Period size: 59 Copynumber: 2.4 Consensus size: 59
315629 CCCCCGTCCA
* * * * * *
315639 AAATTGGTCCCTAATCTTTAAAACATTCTATGTCTATTCCCGAGTTAAGACCCCATTCT
1 AAATTGATCCCTAATCTTTAAAACATTCTATATCGATCCCCGAATTAAGAACCCATTCT
* * * * *
315698 AGATTGATCCCTGATCTTTGAAATATTCTATATCGATCCCCGAATTATGAACCCATTCT
1 AAATTGATCCCTAATCTTTAAAACATTCTATATCGATCCCCGAATTAAGAACCCATTCT
*
315757 AAATTAATCCCTCAA-CTTTAAA
1 AAATTGATCCCT-AATCTTTAAA
315779 TTATTTTATA
Statistics
Matches: 65, Mismatches: 15, Indels: 2
0.79 0.18 0.02
Matches are distributed among these distances:
59 64 0.98
60 1 0.02
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.35
Consensus pattern (59 bp):
AAATTGATCCCTAATCTTTAAAACATTCTATATCGATCCCCGAATTAAGAACCCATTCT
Found at i:319298 original size:15 final size:15
Alignment explanation
Indices: 319275--319312 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
319265 CTGTTAGTAT
319275 TAATTTATT-TTTCTA
1 TAATTTATTGTTT-TA
*
319290 TATTTTATTGTTTTA
1 TAATTTATTGTTTTA
319305 TAATTTAT
1 TAATTTAT
319313 ATTTGTATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
15 17 0.85
16 3 0.15
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (15 bp):
TAATTTATTGTTTTA
Found at i:330678 original size:19 final size:19
Alignment explanation
Indices: 330654--330706 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 19
330644 ATCCTCTAAG
330654 AATTTATAATTTAATCTTT
1 AATTTATAATTTAATCTTT
* ** *
330673 AATTTAAAAAGTAAACTTT
1 AATTTATAATTTAATCTTT
* *
330692 AATTTTTTATTTAAT
1 AATTTATAATTTAAT
330707 TTATTCTTAA
Statistics
Matches: 24, Mismatches: 10, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.53
Consensus pattern (19 bp):
AATTTATAATTTAATCTTT
Found at i:330757 original size:15 final size:15
Alignment explanation
Indices: 330715--330759 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
330705 ATTTATTCTT
*
330715 AATTTCAATAATTTA
1 AATTTCTATAATTTA
*
330730 AATTTCTGTAATTTA
1 AATTTCTATAATTTA
330745 AATTT-TATAAATTTA
1 AATTTCTAT-AATTTA
330760 TTTTAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 2 0.08
15 24 0.92
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.51
Consensus pattern (15 bp):
AATTTCTATAATTTA
Found at i:332028 original size:15 final size:15
Alignment explanation
Indices: 332008--332081 Score: 67
Period size: 15 Copynumber: 4.9 Consensus size: 15
331998 CAACATCTAA
332008 TGCATCATCACCCGC
1 TGCATCATCACCCGC
332023 TGCATCATCACCCGC
1 TGCATCATCACCCGC
* * * *
332038 TACATCAACGCCCCC
1 TGCATCATCACCCGC
* * *
332053 TACCTCATCACCGGC
1 TGCATCATCACCCGC
* *
332068 TGCAGCAACACCCG
1 TGCATCATCACCCG
332082 TTGCTCTAAC
Statistics
Matches: 45, Mismatches: 14, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.23, C:0.47, G:0.14, T:0.16
Consensus pattern (15 bp):
TGCATCATCACCCGC
Done.