Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008933.1 Hibiscus syriacus cultivar Beakdansim tig00112249_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: 2862162
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 11 of 14
Found at i:2232438 original size:24 final size:23
Alignment explanation
Indices: 2232406--2232453 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 23
2232396 ATAAGGATCA
2232406 TGCCATAAGAGCAGAGAAAACGTG
1 TGCCATAAGAGCAGAGAAAA-GTG
*
2232430 TGCCATAAGAGCATAGAAAAGTG
1 TGCCATAAGAGCAGAGAAAAGTG
2232453 T
1 T
2232454 CAGTAGAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.42, C:0.15, G:0.27, T:0.17
Consensus pattern (23 bp):
TGCCATAAGAGCAGAGAAAAGTG
Found at i:2236890 original size:23 final size:21
Alignment explanation
Indices: 2236861--2236910 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
2236851 ATAATAACAT
*
2236861 TTATTTGTATTAATTATTTTAAA
1 TTATTTG-ATTAAAT-TTTTAAA
2236884 TTATTTGATTAAATTTTTAAA
1 TTATTTGATTAAATTTTTAAA
*
2236905 TAATTT
1 TTATTT
2236911 TATCATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 12 0.48
22 6 0.24
23 7 0.28
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (21 bp):
TTATTTGATTAAATTTTTAAA
Found at i:2239243 original size:100 final size:100
Alignment explanation
Indices: 2239070--2239258 Score: 342
Period size: 100 Copynumber: 1.9 Consensus size: 100
2239060 ATACAAATAG
*
2239070 GTAGTGATCTCCAAGAAATAAGTTAACAATGGAGTGAGATACACTACCGCATCTAGCACTGAACT
1 GTAGTGATCTCCAAGAAATAAGTTAACAATGGAGTGAGATACACTACCACATCTAGCACTGAACT
2239135 TATTATTTTATAGTTCGACATGACATGACAGATAT
66 TATTATTTTATAGTTCGACATGACATGACAGATAT
* * *
2239170 GTAGTGATCTCCAAGAAATAAGTTAACAATGGAGTGAGATACACTTCCACATCTAGTATTGAACT
1 GTAGTGATCTCCAAGAAATAAGTTAACAATGGAGTGAGATACACTACCACATCTAGCACTGAACT
2239235 TATTATTTTATAGTTCGACATGAC
66 TATTATTTTATAGTTCGACATGAC
2239259 GGATATTGAG
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 85 1.00
ACGTcount: A:0.35, C:0.16, G:0.17, T:0.31
Consensus pattern (100 bp):
GTAGTGATCTCCAAGAAATAAGTTAACAATGGAGTGAGATACACTACCACATCTAGCACTGAACT
TATTATTTTATAGTTCGACATGACATGACAGATAT
Found at i:2243028 original size:2 final size:2
Alignment explanation
Indices: 2243021--2243047 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2243011 ATTAGCAATC
2243021 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
2243048 AAGTGTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:2244074 original size:60 final size:60
Alignment explanation
Indices: 2243953--2244079 Score: 141
Period size: 60 Copynumber: 2.1 Consensus size: 60
2243943 ATTGGATTTA
* * * *
2243953 AAAAGTTAATGGACTAATTTAGAAAGAAGCTCATAGTTTAGGGATGAAATTATAATTTTC
1 AAAAGTTAATGGACTAATTTAGAAAGAAGCTCATAGTTTAAGGATGAAACTAGAATATTC
* * * * *
2244013 AAAAGTGTAA-GGCCTAATTTAGAATGTGAG-TCATAGTTTAAGGATGAAACTGGGATATTC
1 AAAAGT-TAATGGACTAATTTAGAAAG-AAGCTCATAGTTTAAGGATGAAACTAGAATATTC
2244073 AAAAGTT
1 AAAAGTT
2244080 TAAAGACCAA
Statistics
Matches: 56, Mismatches: 9, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
59 1 0.02
60 50 0.89
61 5 0.09
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.31
Consensus pattern (60 bp):
AAAAGTTAATGGACTAATTTAGAAAGAAGCTCATAGTTTAAGGATGAAACTAGAATATTC
Found at i:2253373 original size:18 final size:18
Alignment explanation
Indices: 2253350--2253384 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
2253340 CTGAAATAAA
* *
2253350 AATAAATTATTAAACAAT
1 AATAAATAAATAAACAAT
2253368 AATAAATAAATAAACAA
1 AATAAATAAATAAACAA
2253385 ATATATTTCG
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:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (18 bp):
AATAAATAAATAAACAAT
Found at i:2253988 original size:19 final size:20
Alignment explanation
Indices: 2253960--2253997 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
2253950 TATTGTCAAA
*
2253960 TATTATTTTTTAA-AAATTC
1 TATTAATTTTTAATAAATTC
2253979 TATTAATTTTTAATAAATT
1 TATTAATTTTTAATAAATT
2253998 TTTAGACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTAATTTTTAATAAATTC
Found at i:2257781 original size:20 final size:20
Alignment explanation
Indices: 2257753--2257802 Score: 66
Period size: 21 Copynumber: 2.5 Consensus size: 20
2257743 AAGGAGCAAG
*
2257753 AGACCGAAAACGTGTCATAA
1 AGACAGAAAACGTGTCATAA
*
2257773 AGACAGAAAAACGTGTCATAG
1 AGACAG-AAAACGTGTCATAA
2257794 AGACA-AAAA
1 AGACAGAAAA
2257803 AAGACATGTC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 4 0.15
20 5 0.19
21 18 0.67
ACGTcount: A:0.52, C:0.16, G:0.20, T:0.12
Consensus pattern (20 bp):
AGACAGAAAACGTGTCATAA
Found at i:2257783 original size:21 final size:22
Alignment explanation
Indices: 2257759--2257824 Score: 80
Period size: 21 Copynumber: 3.0 Consensus size: 22
2257749 CAAGAGACCG
*
2257759 AAAACGTGTCATAAAGAC-AGA
1 AAAACGTGTCATAAAGACAAAA
*
2257780 AAAACGTGTCATAGAGACAAAA
1 AAAACGTGTCATAAAGACAAAA
* *
2257802 AAAGACATGTCATAAAGATAAAA
1 AAA-ACGTGTCATAAAGACAAAA
2257825 CTATTAAAAA
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
21 17 0.45
22 5 0.13
23 16 0.42
ACGTcount: A:0.56, C:0.12, G:0.17, T:0.15
Consensus pattern (22 bp):
AAAACGTGTCATAAAGACAAAA
Found at i:2258009 original size:16 final size:16
Alignment explanation
Indices: 2257988--2258028 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
2257978 AAAGAAAAAT
2257988 TAATAAAGAA-ATACTA
1 TAATAAA-AATATACTA
*
2258004 TAATAAAAATATATTA
1 TAATAAAAATATACTA
2258020 TAATAAAAA
1 TAATAAAAA
2258029 AGAAGAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 2 0.09
16 21 0.91
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.29
Consensus pattern (16 bp):
TAATAAAAATATACTA
Found at i:2258437 original size:2 final size:2
Alignment explanation
Indices: 2258430--2258470 Score: 73
Period size: 2 Copynumber: 20.0 Consensus size: 2
2258420 TCAAACACTA
2258430 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
2258471 CATTTTCATA
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 36 0.95
3 2 0.05
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2259626 original size:2 final size:2
Alignment explanation
Indices: 2259605--2259641 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
2259595 TATTTTATTA
2259605 AT AT A- AT AT A- AT AT -T AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
2259642 TATTTTCGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.09
2 29 0.91
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2261114 original size:22 final size:23
Alignment explanation
Indices: 2261055--2261121 Score: 59
Period size: 22 Copynumber: 3.0 Consensus size: 23
2261045 AATTAAATTT
*
2261055 TTCTTAAATGTCTGGATCTGCCA
1 TTCTTAAATTTCTGGATCTGCCA
* * *
2261078 --CTAAAATTTTTTGGATC-GTCA
1 TTCTTAAA-TTTCTGGATCTGCCA
*
2261099 TTCTTAAATTTCTGGATCCGCCA
1 TTCTTAAATTTCTGGATCTGCCA
2261122 CTGACAATAA
Statistics
Matches: 33, Mismatches: 7, Indels: 8
0.69 0.15 0.17
Matches are distributed among these distances:
21 8 0.24
22 17 0.52
23 8 0.24
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (23 bp):
TTCTTAAATTTCTGGATCTGCCA
Found at i:2284711 original size:14 final size:14
Alignment explanation
Indices: 2284692--2284802 Score: 65
Period size: 14 Copynumber: 8.3 Consensus size: 14
2284682 ACAGAATGTC
2284692 AATATTATTATTAA
1 AATATTATTATTAA
*
2284706 AATATTA-TATCTAT
1 AATATTATTAT-TAA
* * *
2284720 AATTTTATAAATAAA
1 AATATTAT-TATTAA
**
2284735 AATATTAGGATTAA
1 AATATTATTATTAA
*
2284749 TATATT-TTATTAA
1 AATATTATTATTAA
** *
2284762 AATAAAATTATTAT
1 AATATTATTATTAA
2284776 AA-ATTA-TATT-A
1 AATATTATTATTAA
2284787 AATA--ATTATTAA
1 AATATTATTATTAA
2284799 AATA
1 AATA
2284803 AGAATAATAT
Statistics
Matches: 71, Mismatches: 19, Indels: 16
0.67 0.18 0.15
Matches are distributed among these distances:
10 1 0.01
11 6 0.08
12 10 0.14
13 13 0.18
14 32 0.45
15 7 0.10
16 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (14 bp):
AATATTATTATTAA
Found at i:2284741 original size:29 final size:32
Alignment explanation
Indices: 2284704--2284776 Score: 82
Period size: 33 Copynumber: 2.3 Consensus size: 32
2284694 TATTATTATT
2284704 AAAATATTATATCT-ATA-ATTTTA-T-AAATA
1 AAAATATTATAT-TAATATATTTTATTAAAATA
*
2284733 AAAATATTAGGATTAATATATTTTATTAAAATA
1 AAAATATTA-TATTAATATATTTTATTAAAATA
*
2284766 AAATTATTATA
1 AAAATATTATA
2284777 AATTATATTA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
29 10 0.28
30 5 0.14
31 6 0.17
32 2 0.06
33 13 0.36
ACGTcount: A:0.52, C:0.01, G:0.03, T:0.44
Consensus pattern (32 bp):
AAAATATTATATTAATATATTTTATTAAAATA
Found at i:2286628 original size:5 final size:5
Alignment explanation
Indices: 2286618--2286697 Score: 74
Period size: 5 Copynumber: 15.8 Consensus size: 5
2286608 TAATGAAAGT
* * * *
2286618 AAATA AAATA AAAAA ACAATTA AAAAA CAAATG AAAT- AAATA AGATA
1 AAATA AAATA AAATA A-AA-TA AAATA -AAATA AAATA AAATA AAATA
*
2286665 AGAT- AAATA AAATA AAATA AAATA AAATA AAAT
1 AAATA AAATA AAATA AAATA AAATA AAATA AAAT
2286698 GAAGTTAAAT
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
4 7 0.11
5 47 0.75
6 7 0.11
7 2 0.03
ACGTcount: A:0.75, C:0.03, G:0.04, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:2286629 original size:9 final size:9
Alignment explanation
Indices: 2286617--2286867 Score: 71
Period size: 9 Copynumber: 28.0 Consensus size: 9
2286607 GTAATGAAAG
2286617 TAAATAAAA
1 TAAATAAAA
2286626 TAAA-AAAA
1 TAAATAAAA
* *
2286634 CAATTAAAAAA
1 TAA--ATAAAA
* *
2286645 CAAATGAAA
1 TAAATAAAA
*
2286654 TAAATAAGA
1 TAAATAAAA
2286663 TAAGAT-AAA
1 TAA-ATAAAA
2286672 TAAAATAAAA
1 T-AAATAAAA
2286682 TAAAATAAAA
1 T-AAATAAAA
**
2286692 TAAAATGAAGT
1 T-AAAT-AAAA
**
2286703 TAAATAGGA
1 TAAATAAAA
*
2286712 TAAATATAA
1 TAAATAAAA
**
2286721 TAAAGGAAA
1 TAAATAAAA
2286730 -AAATAATAA
1 TAAATAA-AA
2286739 -AAATATAAA
1 TAAATA-AAA
* *
2286748 GAAA-AAGA
1 TAAATAAAA
* **
2286756 CAAAGGAAA
1 TAAATAAAA
2286765 -AAATAAAA
1 TAAATAAAA
*
2286773 T--ATATAA
1 TAAATAAAA
2286780 TAAA-AAAA
1 TAAATAAAA
2286788 T-AA-AAAA
1 TAAATAAAA
*
2286795 TAAA-AACTA
1 TAAATAA-AA
*
2286804 GAAACTAGAAA
1 TAAA-TA-AAA
2286815 TAAA-AAAA
1 TAAATAAAA
*
2286823 TAAATACAA
1 TAAATAAAA
*
2286832 TAAAGATAAA
1 TAAATA-AAA
*
2286842 -AAATTAAA
1 TAAATAAAA
*
2286850 TAAATTAAA
1 TAAATAAAA
2286859 TAAATAAAA
1 TAAATAAAA
2286868 GAGAGTATAT
Statistics
Matches: 184, Mismatches: 36, Indels: 44
0.70 0.14 0.17
Matches are distributed among these distances:
7 13 0.07
8 39 0.21
9 82 0.45
10 34 0.18
11 15 0.08
12 1 0.01
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.19
Consensus pattern (9 bp):
TAAATAAAA
Found at i:2286672 original size:14 final size:14
Alignment explanation
Indices: 2286646--2286867 Score: 72
Period size: 15 Copynumber: 15.6 Consensus size: 14
2286636 ATTAAAAAAC
*
2286646 AAATGAAATAAATA
1 AAATAAAATAAATA
* *
2286660 AGATAAGATAAATA
1 AAATAAAATAAATA
2286674 AAATAAAATAAAATA
1 AAATAAAAT-AAATA
* *
2286689 AAATAAAATGAAGTT
1 AAATAAAAT-AAATA
**
2286704 AAATAGGATAAATA
1 AAATAAAATAAATA
* *
2286718 TAATAAAGGAAAAAATA
1 AAAT-AA--AATAAATA
*
2286735 ATAA-AAATATAAAGAA
1 A-AATAAA-ATAAA-TA
* **
2286751 AAAGACAAAGGAA-A
1 AAATA-AAATAAATA
2286765 AAATAAAAT--ATA
1 AAATAAAATAAATA
*
2286777 TAATAAAA-AAATA
1 AAATAAAATAAATA
2286790 AAA-AATAA-AAACTA
1 AAATAA-AATAAA-TA
2286804 GAAACTAGAAATAAA-A
1 -AAA-TA-AAATAAATA
2286820 AAAT-AAATACAATA
1 AAATAAAATA-AATA
*
2286834 AAGAT-AAA-AAATT
1 AA-ATAAAATAAATA
*
2286847 AAATAAATTAAAT-
1 AAATAAAATAAATA
2286860 AAATAAAA
1 AAATAAAA
2286868 GAGAGTATAT
Statistics
Matches: 156, Mismatches: 28, Indels: 49
0.67 0.12 0.21
Matches are distributed among these distances:
11 1 0.01
12 17 0.11
13 29 0.19
14 41 0.26
15 42 0.27
16 9 0.06
17 11 0.07
18 6 0.04
ACGTcount: A:0.72, C:0.02, G:0.07, T:0.19
Consensus pattern (14 bp):
AAATAAAATAAATA
Found at i:2286738 original size:49 final size:48
Alignment explanation
Indices: 2286617--2286741 Score: 119
Period size: 49 Copynumber: 2.5 Consensus size: 48
2286607 GTAATGAAAG
*
2286617 TAAATAAAATAAAAAAACAATTAAAAAACAAATGAAATAAATAAGATAAGA
1 TAAATAAAA-GAAAAAA-AA-TAAAAAACAAATGAAATAAATAAGATAAGA
* * * *
2286668 TAAATAAAATAAAATAAAATAAAATA-AAATGAAGTTAAATAGGATAA-A
1 TAAATAAAAGAAAA-AAAATAAAAAACAAATGAA-ATAAATAAGATAAGA
*
2286716 TATAATAAAGGAAAAAATAATAAAAA
1 TA-AATAAAAGAAAAAA-AATAAAAA
2286742 TATAAAGAAA
Statistics
Matches: 63, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
48 12 0.19
49 34 0.54
50 6 0.10
51 11 0.17
ACGTcount: A:0.71, C:0.02, G:0.07, T:0.20
Consensus pattern (48 bp):
TAAATAAAAGAAAAAAAATAAAAAACAAATGAAATAAATAAGATAAGA
Found at i:2286792 original size:7 final size:7
Alignment explanation
Indices: 2286762--2286867 Score: 56
Period size: 7 Copynumber: 14.6 Consensus size: 7
2286752 AAGACAAAGG
2286762 AAAAAAT
1 AAAAAAT
*
2286769 AAAATAT
1 AAAAAAT
* *
2286776 ATAATA-
1 AAAAAAT
2286782 AAAAAAT
1 AAAAAAT
2286789 AAAAAAT
1 AAAAAAT
*
2286796 AAAAACT
1 AAAAAAT
* *
2286803 AGAAACT
1 AAAAAAT
*
2286810 -AGAAAT
1 AAAAAAT
2286816 AAAAAAAT
1 -AAAAAAT
2286824 AAATACAAT
1 AAA-A-AAT
*
2286833 -AAAGAT
1 AAAAAAT
2286839 AAAAAATT
1 AAAAAA-T
2286847 AAATAAATT
1 AAA-AAA-T
2286856 AAATAAAT
1 AAA-AAAT
2286864 AAAA
1 AAAA
2286868 GAGAGTATAT
Statistics
Matches: 79, Mismatches: 12, Indels: 16
0.74 0.11 0.15
Matches are distributed among these distances:
6 9 0.11
7 39 0.49
8 16 0.20
9 15 0.19
ACGTcount: A:0.75, C:0.03, G:0.03, T:0.20
Consensus pattern (7 bp):
AAAAAAT
Found at i:2286840 original size:23 final size:21
Alignment explanation
Indices: 2286765--2286867 Score: 68
Period size: 22 Copynumber: 4.8 Consensus size: 21
2286755 ACAAAGGAAA
* * *
2286765 AAATAAAAT-ATATAATAAAA
1 AAATAAAATAAAAAAATAAAT
*
2286785 AAATAAAA-AATAAAAACTAGA-
1 AAATAAAATAA-AAAAA-TAAAT
*
2286806 AACTAGAAATAAAAAAATAAAT
1 AAATA-AAATAAAAAAATAAAT
*
2286828 ACAATAAAGATAAAAAATTAAAT
1 A-AATAAA-ATAAAAAAATAAAT
*
2286851 AAATTAAATAAATAAAA
1 AAATAAAATAAA-AAAA
2286868 GAGAGTATAT
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
20 9 0.14
21 15 0.23
22 22 0.34
23 19 0.29
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (21 bp):
AAATAAAATAAAAAAATAAAT
Found at i:2286851 original size:35 final size:36
Alignment explanation
Indices: 2286769--2286866 Score: 103
Period size: 35 Copynumber: 2.7 Consensus size: 36
2286759 AGGAAAAAAT
*
2286769 AAAATATATAATAAAAAAATAAA-AAATAAAAACTAG
1 AAAATATA-AATAAAAAAATAAATAAATAAAAACTAA
* * *
2286805 AAACTAGAAATAAAAAAATAAATACAATAAAGA-TAA
1 AAAATATAAATAAAAAAATAAATA-AATAAAAACTAA
*
2286841 AAAAT-TAAATAAATTAAATAAATAAA
1 AAAATATAAATAAA-AAAATAAATAAA
2286867 AGAGAGTATA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
35 23 0.44
36 22 0.42
37 7 0.13
ACGTcount: A:0.73, C:0.03, G:0.03, T:0.20
Consensus pattern (36 bp):
AAAATATAAATAAAAAAATAAATAAATAAAAACTAA
Found at i:2286970 original size:23 final size:23
Alignment explanation
Indices: 2286938--2286991 Score: 83
Period size: 23 Copynumber: 2.3 Consensus size: 23
2286928 ATAAACAAAG
*
2286938 TAATAGAAATAAAAGAAAT-AAAA
1 TAATAAAAAT-AAAGAAATAAAAA
2286961 TAATAAAAATAAAGAAATAAAAA
1 TAATAAAAATAAAGAAATAAAAA
2286984 TAATAAAA
1 TAATAAAA
2286992 TGATTAAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 8 0.28
23 21 0.72
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.19
Consensus pattern (23 bp):
TAATAAAAATAAAGAAATAAAAA
Found at i:2286977 original size:31 final size:31
Alignment explanation
Indices: 2286942--2287002 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
2286932 ACAAAGTAAT
2286942 AGAAATAAAAGA-AATAAAATAATAAAAATAA
1 AGAAATAAAA-ATAATAAAATAATAAAAATAA
* *
2286973 AGAAATAAAAATAATAAAATGATTAAAATA
1 AGAAATAAAAATAATAAAATAATAAAAATA
2287003 TAAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.20
Consensus pattern (31 bp):
AGAAATAAAAATAATAAAATAATAAAAATAA
Found at i:2286978 original size:17 final size:17
Alignment explanation
Indices: 2286958--2286990 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
2286948 AAAAGAAATA
2286958 AAATAATAAA-AATAAAG
1 AAATAA-AAATAATAAAG
2286975 AAATAAAAATAATAAA
1 AAATAAAAATAATAAA
2286991 ATGATTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (17 bp):
AAATAAAAATAATAAAG
Found at i:2286979 original size:14 final size:14
Alignment explanation
Indices: 2286939--2287118 Score: 70
Period size: 15 Copynumber: 12.5 Consensus size: 14
2286929 TAAACAAAGT
2286939 AATAGAAATAA-AAGA
1 AATA-AAATAATAA-A
2286954 AATAAAATAATAAA
1 AATAAAATAATAAA
2286968 AATAAAGA-AATAAAAA
1 AATAAA-ATAAT--AAA
*
2286984 TAATAAAATGATTAAA
1 -AATAAAAT-AATAAA
2287000 ATATAAAAT-ATAATA
1 A-ATAAAATAATAA-A
* ** **
2287015 TATATATGTAATATCG
1 AATA-AAATAATA-AA
* *
2287031 TATA-AATAAAAAA
1 AATAAAATAATAAA
*
2287044 AATAAGA-AAT-AA
1 AATAAAATAATAAA
*
2287056 AATAAAATAATAAT
1 AATAAAATAATAAA
*
2287070 AAT--AATAATAAT
1 AATAAAATAATAAA
*
2287082 AATAATAATAATAAT
1 AATAA-AATAATAAA
2287097 AATAATAATAATAAA
1 AATAA-AATAATAAA
*
2287112 GATAAAA
1 AATAAAA
2287119 GGATTAAATT
Statistics
Matches: 128, Mismatches: 19, Indels: 37
0.70 0.10 0.20
Matches are distributed among these distances:
12 20 0.16
13 8 0.06
14 33 0.26
15 38 0.30
16 21 0.16
17 6 0.05
18 2 0.02
ACGTcount: A:0.69, C:0.01, G:0.04, T:0.26
Consensus pattern (14 bp):
AATAAAATAATAAA
Found at i:2287046 original size:9 final size:9
Alignment explanation
Indices: 2287035--2287110 Score: 71
Period size: 9 Copynumber: 8.2 Consensus size: 9
2287025 ATATCGTATA
*
2287035 AATAAAAAA
1 AATAAAAAT
2287044 AATAAGAAAT
1 AATAA-AAAT
*
2287054 AAAATAAAAT
1 AATA-AAAAT
*
2287064 AATAATAAT
1 AATAAAAAT
*
2287073 AATAATAAT
1 AATAAAAAT
*
2287082 AATAATAAT
1 AATAAAAAT
*
2287091 AATAATAAT
1 AATAAAAAT
*
2287100 AATAATAAT
1 AATAAAAAT
2287109 AA
1 AA
2287111 AGATAAAAGG
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
9 47 0.77
10 13 0.21
11 1 0.02
ACGTcount: A:0.72, C:0.00, G:0.01, T:0.26
Consensus pattern (9 bp):
AATAAAAAT
Found at i:2287069 original size:3 final size:3
Alignment explanation
Indices: 2287051--2287110 Score: 106
Period size: 3 Copynumber: 20.7 Consensus size: 3
2287041 AAAAATAAGA
2287051 AAT AA- AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
2287097 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
2287111 AGATAAAAGG
Statistics
Matches: 55, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
2 4 0.07
3 51 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2288825 original size:84 final size:83
Alignment explanation
Indices: 2288617--2289785 Score: 1194
Period size: 84 Copynumber: 14.1 Consensus size: 83
2288607 GCTATGTTGT
* * * ** *
2288617 AAATGATATGACCTCGAAGTTGAGTGTAATCGAACTCGGGGGTC--T-TTGGCAGATAGCCCTTC
1 AAATGATATG-CCTTGGAGCTGAGTGTAATCGAACTCAAGGGTCTTTGTTGGCAGATAACCCTTC
*
2288679 TCGACTTAAGCTATGCTGC
65 TCGACTTAAGTTATGCTGC
* * *
2288698 AAATGATGTGCCTTGGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGTTGACAGATAACCCTTCT
1 AAATGATATGCCTTGGAGCTGAGTGTAATCGAACTCAAGGGTCTTTGTTGGCAGATAACCCTTCT
* * * *
2288763 AGCCTTGAGTTATGCTGT
66 CGACTTAAGTTATGCTGC
* * *
2288781 AAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTC--T-TTGGCAGATAGCCCTTC
1 AAATGATATG-CCTTGGAGCTGAGTGTAATCGAACTCAAGGGTCTTTGTTGGCAGATAACCCTTC
* *
2288843 TCGACTTAAGCTATGCTAC
65 TCGACTTAAGTTATGCTGC
** * *
2288862 AAATGATATGCCTTGGAGCTGAGCATAATCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTC
1 AAATGATATGCCTTGGAGCTGAGTGTAATCGAACTCAAGGGTC-TTTGTTGGCAGATAACCCTTC
* *
2288927 TAGACTTAAGTTGTGCTGC
65 TCGACTTAAGTTATGCTGC
* * * * * *
2288946 AAATGATGTGCCTTGGAGCTGAGTGTAGTTGAACTCGAA-GGTCTTTGGTGACAGATAACCCTTA
1 AAATGATATGCCTTGGAGCTGAGTGTAATCGAACTC-AAGGGTCTTTGTTGGCAGATAACCCTTC
* * * *
2289010 TAGCCTTGAGTTATGCTGT
65 TCGACTTAAGTTATGCTGC
* * ** *
2289029 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TT-TTGGCAGATAGCCCTTC
1 AAATGATATG-CCTTGGAGCTGAGTGTAATCGAACTCAAGGGTCTTTGTTGGCAGATAACCCTTC
* *
2289092 TCGACTTAAGCTATACTGC
65 TCGACTTAAGTTATGCTGC
* * * * *
2289111 AAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAA-GGTCTTTGGTGACAGATAACCCTTC
1 AAATGATATGCCTTGGAGCTGAGTGTAATCGAACTC-AAGGGTCTTTGTTGGCAGATAACCCTTC
* * * *
2289175 TAGCCTTGAGTTATGCTGT
65 TCGACTTAAGTTATGCTGC
* * * ** * *
2289194 AAATGATATGCCCTCGAAGATGAGTGTAATCGAACTCGGGGGTCTTTGGTTAGCAGATAGCCCTT
1 AAATGATATG-CCTTGGAGCTGAGTGTAATCGAACTCAAGGGTCTTT-GTTGGCAGATAACCCTT
*
2289259 CTCGACTTAAGCTATGCTGC
64 CTCGACTTAAGTTATGCTGC
* * * * * *
2289279 AAACGATGTGCCTTGGAGCTGAGCGTAATCGAATTCAAAGGTCTTTGGTTGGCGGATAACCCTTC
1 AAATGATATGCCTTGGAGCTGAGTGTAATCGAACTCAAGGGTCTTT-GTTGGCAGATAACCCTTC
* *
2289344 TCGACTTAAGTTATGCCGT
65 TCGACTTAAGTTATGCTGC
* * * * ** *
2289363 AAATGTTGTGCCCTTGAAACTGAGTGTAATCGAACTCGGGGGTC-TT-TTGGCAGATAGCCCTTC
1 AAATGATATG-CCTTGGAGCTGAGTGTAATCGAACTCAAGGGTCTTTGTTGGCAGATAACCCTTC
* *
2289426 TCGACTTAAGCTATGCTTC
65 TCGACTTAAGTTATGCTGC
* * *
2289445 AAATGATATGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTC
1 AAATGATATGCCTTGGAGCTGAGTGTAATCGAACTCAAGGGTC-TTTGTTGGCAGATAACCCTTC
* * *
2289510 TAGACTTAAGTTGTACTGC
65 TCGACTTAAGTTATGCTGC
* * * * *
2289529 AAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCGAA-GGTCTTTGGTGACAGATAACCCTTA
1 AAATGATATGCCTTGGAGCTGAGTGTAATCGAACTC-AAGGGTCTTTGTTGGCAGATAACCCTTC
* * * *
2289593 TAGCCTTGAGTTATGCTGT
65 TCGACTTAAGTTATGCTGC
* * **
2289612 AAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGTTGGCAGATAACCCTT
1 AAATGATATG-CCTTGGAGCTGAGTGTAATCGAACTCAAGGGTCTTT-GTTGGCAGATAACCCTT
*
2289677 CTCGACTTAAGCTATGCTGC
64 CTCGACTTAAGTTATGCTGC
* * * * *
2289697 AAACGATGTGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGGTTGGCGGATAACCCTTC
1 AAATGATATGCCTTGGAGCTGAGTGTAATCGAACTCAAGGGTCTTT-GTTGGCAGATAACCCTTC
*
2289762 TCGACTTAAGTTATGCCGC
65 TCGACTTAAGTTATGCTGC
2289781 AAATG
1 AAATG
2289786 TTGTCTTAAA
Statistics
Matches: 879, Mismatches: 184, Indels: 47
0.79 0.17 0.04
Matches are distributed among these distances:
80 55 0.06
81 100 0.11
82 77 0.09
83 160 0.18
84 384 0.44
85 103 0.12
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (83 bp):
AAATGATATGCCTTGGAGCTGAGTGTAATCGAACTCAAGGGTCTTTGTTGGCAGATAACCCTTCT
CGACTTAAGTTATGCTGC
Found at i:2289541 original size:583 final size:580
Alignment explanation
Indices: 2288581--2289777 Score: 1986
Period size: 583 Copynumber: 2.1 Consensus size: 580
2288571 GACAATTTTA
* * * * * *
2288581 TTGACAAATAGCCCTTCTTGCCTTGAGCTATGTTGTAAATGATATGACCTCGAAGTTGAGTGTAA
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGACCTCGAAGATGAGTGTAA
*
2288646 TCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCT
66 TCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAACGATGTGCCT
* * *
2288711 TGGAGCTGAGTGTAATCGAACTCAAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTAT
131 TGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTAT
* * *
2288776 GCTGTAAATGATATGCCCTTGAAGCTGAGTGTAATCGAACTTAAGGGTCTTTGGCAGATAGCCCT
196 GCCGTAAATGATATGCCCTTGAAACTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATAGCCCT
2288841 TCTCGACTTAAGCTATGCTACAAATGATATGCCTTGGAGCTGAGCATAATCGAACTCAAAGGTCT
261 TCTCGACTTAAGCTATGCTACAAATGATATGCCTTGGAGCTGAGCATAATCGAACTCAAAGGTCT
*
2288906 TTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTGCTGCAAATGATGTGCCTTGGAGCTGAGTG
326 TTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGATGTGCCTTGGAGCTGAGTG
*
2288971 TAGTTGAACTCGAAGGTCTTTGGTGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGAT
391 TAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGAT
*
2289036 ATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTC-TT-TTGGCAGATAGCCCTTCTCGACTT
456 ATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGTTGGCAGATAACCCTTCTCGACTT
* * *
2289099 AAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGG
521 AAGCTATACTGCAAACGATGTGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGG
*
2289159 -TGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAGATGAGTGTAA
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGACCTCGAAGATGAGTGTAA
2289223 TCGAACTCGGGGGTCTTTGGTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAACGATGT
66 TCGAACTCGGGGGTCTTT-G---GCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAACGATGT
* * * *
2289288 GCCTTGGAGCTGAGCGTAATCGAATTCAAAGGTCTTTGGTTGGCGGATAACCCTTCTCGACTTAA
127 GCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTT-GTTGACAGATAACCCTTCTAGACTTAA
* * **
2289353 GTTATGCCGTAAATGTTGTGCCCTTGAAACTGAGTGTAATCGAACTCGGGGGTCTTTTGGCAGAT
191 GTTATGCCGTAAATGATATGCCCTTGAAACTGAGTGTAATCGAACTCAAGGGTC-TTTGGCAGAT
* *
2289418 AGCCCTTCTCGACTTAAGCTATGCTTCAAATGATATGCCTTGGAGCTGAGCGTAATCGAACTCAA
255 AGCCCTTCTCGACTTAAGCTATGCTACAAATGATATGCCTTGGAGCTGAGCATAATCGAACTCAA
2289483 AGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGATGTGCCTTGGAGC
320 AGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGATGTGCCTTGGAGC
2289548 TGAGTGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTATAGCCTTGAGTTATGCTGTA
385 TGAGTGTAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTATAGCCTTGAGTTATGCTGTA
2289613 AATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGTTGGCAGATAACCCTTC
450 AATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTT-GTTGGCAGATAACCCTTC
*
2289678 TCGACTTAAGCTATGCTGCAAACGATGTGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTT
514 TCGACTTAAGCTATACTGCAAACGATGTGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTT
2289743 GG
579 GG
* * * * *
2289745 TTGGCGGATAACCCTTCTCGACTTAAGTTATGC
1 TTGACAGATAACCCTTCTAGCCTTGAGTTATGC
2289778 CGCAAATGTT
Statistics
Matches: 573, Mismatches: 36, Indels: 11
0.92 0.06 0.02
Matches are distributed among these distances:
577 75 0.13
578 1 0.00
581 76 0.13
582 69 0.12
583 244 0.43
584 2 0.00
586 79 0.14
587 27 0.05
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (580 bp):
TTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGACCTCGAAGATGAGTGTAA
TCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAACGATGTGCCT
TGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGTTGACAGATAACCCTTCTAGACTTAAGTTAT
GCCGTAAATGATATGCCCTTGAAACTGAGTGTAATCGAACTCAAGGGTCTTTGGCAGATAGCCCT
TCTCGACTTAAGCTATGCTACAAATGATATGCCTTGGAGCTGAGCATAATCGAACTCAAAGGTCT
TTTGTTGGCAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGATGTGCCTTGGAGCTGAGTG
TAGTCGAACTCGAAGGTCTTTGGTGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGAT
ATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGTTGGCAGATAACCCTTCTCGACTT
AAGCTATACTGCAAACGATGTGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGG
Found at i:2289563 original size:418 final size:415
Alignment explanation
Indices: 2288606--2289789 Score: 1743
Period size: 418 Copynumber: 2.9 Consensus size: 415
2288596 TCTTGCCTTG
* * * * ***
2288606 AGCTATGTTGTAAATGATATGACCTCGAAGTTGAGTGTAATCGAACTCGGGGGTC-TTTGGCAGA
1 AGCTATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCAAAGGTCTTTTGGCAGA
* * *
2288670 TAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAATCGAACTCA
66 TAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCG
* *
2288735 AAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTTGAAG
131 AAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAG
*** *
2288800 CTGAGTGTAATCGAACTTAAGGGTCTTT-G--GCAGATAGCCCTTCTCGACTTAAGCTATGCTAC
196 CTGAGTGTAATCGAACTCGGGGGTCTTTGGTTGCAGATAGCCCTTCTCGACTTAAGCTATGCTGC
* * * * * *
2288862 AAATGATATGCCTTGGAGCTGAGCATAATCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTC
261 AAACGATGTGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGGTTGGCGGATAACCCTTC
* * * * * * * *
2288927 TAGACTTAAGTTGTGCTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTTGAACTCGAAGGTCTTT
326 TCGACTTAAGTTATGCCGCAAATGTTGTGCCTTGAAACTGAGTGTAATCGAACTCGAAGGTCTTT
* *
2288992 GGTGACAGATAACCCTTATAGCCTTG
391 -GTGACAGATAACCCTTATAGACTTA
* * ***
2289018 AGTTATGCTGTAAATGATATGCCCTCGAAGCTGAGTGTAATCGAACTCGGGGGTCTTTTGGCAGA
1 AGCTATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCAAAGGTCTTTTGGCAGA
*
2289083 TAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGCGTAGTCGAACTCG
66 TAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCG
2289148 AAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAG
131 AAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAG
*
2289213 ATGAGTGTAATCGAACTCGGGGGTCTTTGGTTAGCAGATAGCCCTTCTCGACTTAAGCTATGCTG
196 CTGAGTGTAATCGAACTCGGGGGTCTTTGGTT-GCAGATAGCCCTTCTCGACTTAAGCTATGCTG
*
2289278 CAAACGATGTGCCTTGGAGCTGAGCGTAATCGAATTCAAAGGTCTTTGGTTGGCGGATAACCCTT
260 CAAACGATGTGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGGTTGGCGGATAACCCTT
* **
2289343 CTCGACTTAAGTTATGCCGTAAATGTTGTGCCCTTGAAACTGAGTGTAATCGAACTCGGGGGTCT
325 CTCGACTTAAGTTATGCCGCAAATGTTGTG-CCTTGAAACTGAGTGTAATCGAACTCGAAGGTCT
* * * *
2289408 TT-TGGCAGATAGCCCTTCTCGACTTA
389 TTGTGACAGATAACCCTTATAGACTTA
* *
2289434 AGCTATGCT-TCAAATGATATG-CCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTTGTTGG
1 AGCTATGCTGT-AAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCAAAGGTC--TT-TTGG
* * * * *
2289497 CAGACAACCCTTCTAGACTTAAGTTGTACTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAA
62 CAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAA
*
2289562 CTCGAAGGTCTTTGGTGACAGATAACCCTTATAGCCTTGAGTTATGCTGTAAATGATATGCCCTC
127 CTCGAAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTC
*
2289627 GAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAGCTAT
192 GAAGCTGAGTGTAATCGAACTCGGGGGTCTTTGGTT-GCAGATAGCCCTTCTCGACTTAAGCTAT
2289692 GCTGCAAACGATGTGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGGTTGGCGGATAAC
256 GCTGCAAACGATGTGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGGTTGGCGGATAAC
2289757 CCTTCTCGACTTAAGTTATGCCGCAAATGTTGT
321 CCTTCTCGACTTAAGTTATGCCGCAAATGTTGT
2289790 CTTAAAAAAA
Statistics
Matches: 704, Mismatches: 58, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
412 51 0.07
413 157 0.22
414 1 0.00
415 28 0.04
416 36 0.05
417 116 0.16
418 315 0.45
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (415 bp):
AGCTATGCTGTAAATGATATGCCCTCGAAGCTGAGCGTAATCGAACTCAAAGGTCTTTTGGCAGA
TAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTGCCTTGGAGCTGAGTGTAGTCGAACTCG
AAGGTCTTTGGTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGTAAATGATATGCCCTCGAAG
CTGAGTGTAATCGAACTCGGGGGTCTTTGGTTGCAGATAGCCCTTCTCGACTTAAGCTATGCTGC
AAACGATGTGCCTTGGAGCTGAGCGTAATCGAACTCAAAGGTCTTTGGTTGGCGGATAACCCTTC
TCGACTTAAGTTATGCCGCAAATGTTGTGCCTTGAAACTGAGTGTAATCGAACTCGAAGGTCTTT
GTGACAGATAACCCTTATAGACTTA
Found at i:2293231 original size:18 final size:19
Alignment explanation
Indices: 2293191--2293235 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
2293181 AGTTAATGTG
2293191 AATGCAAAGAAAATAACAA
1 AATGCAAAGAAAATAACAA
2293210 AATGCAAAGAAAATAA-AA
1 AATGCAAAGAAAATAACAA
2293228 AATGCAAA
1 AATGCAAA
2293236 ATGTCTAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 10 0.38
19 16 0.62
ACGTcount: A:0.69, C:0.09, G:0.11, T:0.11
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:2294945 original size:5 final size:5
Alignment explanation
Indices: 2294935--2295016 Score: 73
Period size: 5 Copynumber: 16.8 Consensus size: 5
2294925 TAATGAAAGT
* * * *
2294935 AAATA AAATA AAA-A AAA-A CAATTA AAAAA CAAATG AAAT- AAATA AGATA
1 AAATA AAATA AAATA AAATA -AAATA AAATA -AAATA AAATA AAATA AAATA
*
2294984 AGAT- AAATA AAATA AAATA AAATA AAATA AAAT
1 AAATA AAATA AAATA AAATA AAATA AAATA AAAT
2295017 GAAGTTAAAT
Statistics
Matches: 65, Mismatches: 7, Indels: 10
0.79 0.09 0.12
Matches are distributed among these distances:
4 12 0.18
5 49 0.75
6 4 0.06
ACGTcount: A:0.76, C:0.02, G:0.04, T:0.18
Consensus pattern (5 bp):
AAATA
Found at i:2294946 original size:9 final size:9
Alignment explanation
Indices: 2294935--2295187 Score: 62
Period size: 9 Copynumber: 27.3 Consensus size: 9
2294925 TAATGAAAGT
2294935 AAATAAAATA
1 AAAT-AAATA
2294945 AAA-AAA-A
1 AAATAAATA
*
2294952 ACAATTAA-A
1 A-AATAAATA
* *
2294961 AAACAAATG
1 AAATAAATA
2294970 AAATAAATA
1 AAATAAATA
*
2294979 AGATAAGAT-
1 AAATAA-ATA
2294988 AAATAAAATA
1 AAAT-AAATA
2294998 AAATAAAATA
1 AAAT-AAATA
2295008 AAATAAAATGA
1 AAAT-AAAT-A
**
2295019 AGTTAAATA
1 AAATAAATA
**
2295028 GGATAAATA
1 AAATAAATA
* *
2295037 TAATAAAGGA
1 AAATAAA-TA
2295047 AAA-AAATA
1 AAATAAATA
2295055 ATAA-AAATA
1 A-AATAAATA
*
2295064 TAAAGAAA-A
1 -AAATAAATA
* * **
2295073 AGACAAAGG
1 AAATAAATA
2295082 AAA-AAATAA
1 AAATAAAT-A
2295091 AATATATAATA
1 AA-ATA-AATA
2295102 AAA-AAATTAA
1 AAATAAA-T-A
2295112 AAATAAA-A
1 AAATAAATA
* *
2295120 ACTAGAAACTA
1 A-AATAAA-TA
2295131 GAAATAAA-A
1 -AAATAAATA
2295140 AAATAAATA
1 AAATAAATA
* *
2295149 CAATAAAGA
1 AAATAAATA
*
2295158 TAAA-AAATT
1 -AAATAAATA
*
2295167 AAATAAATT
1 AAATAAATA
2295176 AAATAAATA
1 AAATAAATA
2295185 AAA
1 AAA
2295188 GAGAGTATAT
Statistics
Matches: 184, Mismatches: 33, Indels: 53
0.68 0.12 0.20
Matches are distributed among these distances:
7 2 0.01
8 33 0.18
9 85 0.46
10 45 0.24
11 15 0.08
12 4 0.02
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.19
Consensus pattern (9 bp):
AAATAAATA
Found at i:2294991 original size:14 final size:14
Alignment explanation
Indices: 2294934--2295187 Score: 79
Period size: 14 Copynumber: 18.0 Consensus size: 14
2294924 GTAATGAAAG
2294934 TAAATAAAATAAAA
1 TAAATAAAATAAAA
*
2294948 -AAA-AACAATTAAA
1 TAAATAA-AATAAAA
* *
2294961 -AAA-CAAATGAAA
1 TAAATAAAATAAAA
* *
2294973 TAAATAAGATAAGA
1 TAAATAAAATAAAA
2294987 TAAATAAAATAAAA
1 TAAATAAAATAAAA
2295001 TAAAATAAAATAAAA
1 T-AAATAAAATAAAA
* * **
2295016 TGAAGTTAAATAGGA
1 T-AAATAAAATAAAA
* *
2295031 TAAATATAATAAAG
1 TAAATAAAATAAAA
*
2295045 GAAA-AAAATAATAA
1 TAAATAAAATAA-AA
*
2295059 -AAATATAAAGAAAA
1 TAAATA-AAATAAAA
* * *
2295073 -AGACAAAGGAAAAAA
1 TAAATAAA--ATAAAA
2295088 TAAAATATATAATAAAA
1 T-AAATA-A-AATAAAA
2295105 -AAATTAAAA-ATAAA
1 TAAA-TAAAATA-AAA
*
2295119 -AACTAGAAACTAGAAA
1 TAAATA-AAA-TA-AAA
2295135 TAAA-AAAAT-AAA
1 TAAATAAAATAAAA
2295147 TACAATAAAGAT-AAA
1 TA-AATAAA-ATAAAA
* *
2295162 -AAATTAAATAAAT
1 TAAATAAAATAAAA
2295175 TAAAT-AAATAAAA
1 TAAATAAAATAAAA
2295188 GAGAGTATAT
Statistics
Matches: 180, Mismatches: 36, Indels: 49
0.68 0.14 0.18
Matches are distributed among these distances:
12 15 0.08
13 46 0.26
14 54 0.30
15 46 0.26
16 7 0.04
17 10 0.06
18 1 0.01
19 1 0.01
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.19
Consensus pattern (14 bp):
TAAATAAAATAAAA
Found at i:2295160 original size:23 final size:21
Alignment explanation
Indices: 2295132--2295187 Score: 67
Period size: 23 Copynumber: 2.5 Consensus size: 21
2295122 TAGAAACTAG
2295132 AAATAAAAAAATAAATACAATA
1 AAATAAAAAAATAAATA-AATA
* *
2295154 AAGATAAAAAATTAAATAAATT
1 AA-ATAAAAAAATAAATAAATA
2295176 AAATAAATAAAA
1 AAATAAA-AAAA
2295188 GAGAGTATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 5 0.17
22 10 0.34
23 14 0.48
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (21 bp):
AAATAAAAAAATAAATAAATA
Found at i:2295198 original size:2 final size:2
Alignment explanation
Indices: 2295193--2295252 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
2295183 TAAAAGAGAG
2295193 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
2295235 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
2295253 AACAAAGTAA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2295278 original size:9 final size:8
Alignment explanation
Indices: 2295266--2295329 Score: 51
Period size: 8 Copynumber: 8.0 Consensus size: 8
2295256 AAAGTAATAG
2295266 AAATAAAA
1 AAATAAAA
2295274 GAAATAAAA
1 -AAATAAAA
*
2295283 TAAT--AA
1 AAATAAAA
*
2295289 AAATAAAG
1 AAATAAAA
2295297 AAATAAAA
1 AAATAAAA
2295305 ATAATAAAA
1 A-AATAAAA
** *
2295314 TGATTAAA
1 AAATAAAA
2295322 AAATAAAA
1 AAATAAAA
2295330 TATAATATAT
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
6 5 0.12
8 22 0.52
9 15 0.36
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.19
Consensus pattern (8 bp):
AAATAAAA
Found at i:2295289 original size:17 final size:16
Alignment explanation
Indices: 2295267--2295331 Score: 64
Period size: 17 Copynumber: 4.1 Consensus size: 16
2295257 AAGTAATAGA
2295267 AATAAAAGAAATAAAAT
1 AATAAAA-AAATAAAAT
2295284 AAT--AAAAATAAAGA-
1 AATAAAAAAATAAA-AT
2295298 AATAAAAATAATAAAAT
1 AATAAAAA-AATAAAAT
* *
2295315 GATTAAAAAATAAAAT
1 AATAAAAAAATAAAAT
2295331 A
1 A
2295332 TAATATATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
14 10 0.25
15 3 0.08
16 12 0.30
17 15 0.38
ACGTcount: A:0.75, C:0.00, G:0.05, T:0.20
Consensus pattern (16 bp):
AATAAAAAAATAAAAT
Found at i:2295299 original size:31 final size:33
Alignment explanation
Indices: 2295250--2295328 Score: 92
Period size: 31 Copynumber: 2.4 Consensus size: 33
2295240 ATATATATAT
2295250 ATAAACAAAGTAATAGAAATAAAAGA-AATAAAAT-A
1 ATAAA-AAA-TAA-AGAAATAAAA-ATAATAAAATGA
2295285 AT-AAAAATAAAGAAATAAAAATAATAAAATGA
1 ATAAAAAATAAAGAAATAAAAATAATAAAATGA
*
2295317 TTAAAAAATAAA
1 ATAAAAAATAAA
2295329 ATATAATATA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
30 1 0.03
31 18 0.45
32 5 0.12
33 12 0.30
34 2 0.05
35 2 0.05
ACGTcount: A:0.73, C:0.01, G:0.06, T:0.19
Consensus pattern (33 bp):
ATAAAAAATAAAGAAATAAAAATAATAAAATGA
Found at i:2295301 original size:14 final size:14
Alignment explanation
Indices: 2295261--2295420 Score: 59
Period size: 14 Copynumber: 11.5 Consensus size: 14
2295251 TAAACAAAGT
2295261 AATAGAAATAA-AAGA
1 AATA-AAATAATAA-A
2295276 AATAAAATAATAAA
1 AATAAAATAATAAA
2295290 AATAAAGA-AATAAA
1 AATAAA-ATAATAAA
*
2295304 AAT--AATAA-AATG
1 AATAAAATAATAA-A
*
2295316 ATTAAAA-AAT-AA
1 AATAAAATAATAAA
* *
2295328 AATATAATATATATA
1 AATAAAATA-ATAAA
** * ** *
2295343 TGTAATATCGTATA
1 AATAAAATAATAAA
*
2295357 AATAAATAAAATAAGA
1 AATAAA-ATAATAA-A
*
2295373 AATAAAATAATAAT
1 AATAAAATAATAAA
*
2295387 AAT--AATAATAAT
1 AATAAAATAATAAA
2295399 AATAATAATAATAAA
1 AATAA-AATAATAAA
*
2295414 GATAAAA
1 AATAAAA
2295421 GGATTAAATT
Statistics
Matches: 107, Mismatches: 23, Indels: 31
0.66 0.14 0.19
Matches are distributed among these distances:
11 3 0.03
12 22 0.21
13 4 0.04
14 38 0.36
15 33 0.31
16 7 0.07
ACGTcount: A:0.69, C:0.01, G:0.05, T:0.26
Consensus pattern (14 bp):
AATAAAATAATAAA
Found at i:2295321 original size:26 final size:23
Alignment explanation
Indices: 2295260--2295336 Score: 86
Period size: 23 Copynumber: 3.2 Consensus size: 23
2295250 ATAAACAAAG
*
2295260 TAATAGAAATAAAAGAAAT-AAAA
1 TAATAAAAAT-AAAGAAATAAAAA
2295283 TAATAAAAATAAAGAAATAAAAA
1 TAATAAAAATAAAGAAATAAAAA
2295306 TAATAAAATGATTAAA-AAATAAAATA
1 TAATAAAA--A-TAAAGAAATAAAA-A
2295332 TAATA
1 TAATA
2295337 TATATATGTA
Statistics
Matches: 48, Mismatches: 1, Indels: 7
0.86 0.02 0.12
Matches are distributed among these distances:
22 8 0.17
23 21 0.44
25 9 0.19
26 10 0.21
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (23 bp):
TAATAAAAATAAAGAAATAAAAA
Found at i:2295386 original size:3 final size:3
Alignment explanation
Indices: 2295373--2295412 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
2295363 TAAAATAAGA
2295373 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
2295413 AGATAAAAGG
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:2298140 original size:2 final size:2
Alignment explanation
Indices: 2298133--2298159 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2298123 ATCCTAACCC
2298133 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2298160 AAAGAGAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2300356 original size:29 final size:31
Alignment explanation
Indices: 2300313--2300382 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
2300303 GTTGCATCAT
*
2300313 TTATAACACTGAACTTTCA-ATTT-TTTCAA
1 TTATAACACTAAACTTTCATATTTGTTTCAA
* * *
2300342 TTATAGCACTAAACTTTGATTTTTGTTTCAA
1 TTATAACACTAAACTTTCATATTTGTTTCAA
*
2300373 TTATACCACT
1 TTATAACACT
2300383 TGGGCGTTAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
29 16 0.47
30 3 0.09
31 15 0.44
ACGTcount: A:0.31, C:0.17, G:0.06, T:0.46
Consensus pattern (31 bp):
TTATAACACTAAACTTTCATATTTGTTTCAA
Found at i:2303646 original size:13 final size:13
Alignment explanation
Indices: 2303628--2303652 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
2303618 TATAGAATCC
2303628 GTGGTCATAAACA
1 GTGGTCATAAACA
2303641 GTGGTCATAAAC
1 GTGGTCATAAAC
2303653 CAACATATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.24, T:0.24
Consensus pattern (13 bp):
GTGGTCATAAACA
Found at i:2303805 original size:21 final size:21
Alignment explanation
Indices: 2303781--2303841 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
2303771 ACTTTGAAAA
2303781 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
*
2303802 AAAT-G-TTTC----TTT-GA
1 AAATGGTTTTCAAAGTTTGGT
2303816 AAATGGTTTTCAAAGTTTGGT
1 AAATGGTTTTCAAAGTTTGGT
2303837 AAATG
1 AAATG
2303842 TTTCTTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
14 5 0.16
15 4 0.13
16 4 0.13
19 4 0.13
20 4 0.13
21 10 0.32
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.43
Consensus pattern (21 bp):
AAATGGTTTTCAAAGTTTGGT
Found at i:2303872 original size:37 final size:37
Alignment explanation
Indices: 2303772--2303891 Score: 174
Period size: 35 Copynumber: 3.3 Consensus size: 37
2303762 TGATAACCAA
*
2303772 CTTTGAAAAAAATGGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATA-GGTTTTCAAAGTTTGGTAAATGTTT
2303810 CTTTG-AAAAT-GGTTTTCAAAGTTTGGTAAATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
* *
2303845 CTTTGAAAAATAGTTTTTCAAAGTTTGGTAGATGTTT
1 CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
*
2303882 -GTTGAAAAAT
1 CTTTGAAAAAT
2303892 GATAATGAGA
Statistics
Matches: 76, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
35 30 0.39
36 14 0.18
37 27 0.36
38 5 0.07
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (37 bp):
CTTTGAAAAATAGGTTTTCAAAGTTTGGTAAATGTTT
Found at i:2308482 original size:37 final size:35
Alignment explanation
Indices: 2308355--2308502 Score: 167
Period size: 35 Copynumber: 4.2 Consensus size: 35
2308345 TGAAAGTATT
****
2308355 AAAATGGTTTTC-AAGTTTGGT-AATCAACTTTGAA
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTTTTTG-A
2308389 AATAATGGTTTTCAAAGTTTGGTAAATGTTTATTTG-
1 AA-AATGGTTTTCAAAGTTTGGTAAATGTTT-TTTGA
2308425 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTGA
1 AAAATGGTTTTCAAAGTTTGGTAAATGTTT-TTTGA
* * *
2308461 AAAATAGTTTTTCAAAGTTTGGTAGATGTTTGTTGA
1 AAAAT-GGTTTTCAAAGTTTGGTAAATGTTTTTTGA
2308497 AAAATG
1 AAAATG
2308503 ATAATGGGAT
Statistics
Matches: 100, Mismatches: 8, Indels: 11
0.84 0.07 0.09
Matches are distributed among these distances:
34 2 0.02
35 43 0.43
36 25 0.25
37 26 0.26
38 4 0.04
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.43
Consensus pattern (35 bp):
AAAATGGTTTTCAAAGTTTGGTAAATGTTTTTTGA
Found at i:2308502 original size:72 final size:70
Alignment explanation
Indices: 2308355--2308499 Score: 179
Period size: 72 Copynumber: 2.1 Consensus size: 70
2308345 TGAAAGTATT
2308355 AAAATGGTTTTCAAGTTTGGTAATCAACTTTGAAAATAATGGTTTTCAAAGTTTGGTAAATGTTT
1 AAAATGGTTTTCAAGTTTGGTAATCAACTTTGAAAATAATGGTTTTCAAAGTTTGGTAAATGTTT
*
2308420 ATTTG
66 AGTTG
*** * *
2308425 AAAATGGTTTTCAAAGTTTGGTAAATGTTTCTTTG-AAA-AATAGTTTTTCAAAGTTTGGTAGAT
1 AAAATGGTTTTC-AAGTTTGGT-AAT-CAACTTTGAAAATAAT-GGTTTTCAAAGTTTGGTAAAT
2308488 GTTT-GTTG
62 GTTTAGTTG
2308496 AAAA
1 AAAA
2308500 ATGATAATGG
Statistics
Matches: 65, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
70 12 0.18
71 19 0.29
72 29 0.45
73 5 0.08
ACGTcount: A:0.33, C:0.05, G:0.19, T:0.43
Consensus pattern (70 bp):
AAAATGGTTTTCAAGTTTGGTAATCAACTTTGAAAATAATGGTTTTCAAAGTTTGGTAAATGTTT
AGTTG
Found at i:2315515 original size:23 final size:23
Alignment explanation
Indices: 2315461--2315529 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
2315451 TTGAAAAGAT
*
2315461 ATATTAAAATAAAATAAATAA-AA
1 ATATTAAAATAATAT-AATAATAA
* **
2315484 AAAGAAAAATAATATAATAATAA
1 ATATTAAAATAATATAATAATAA
2315507 ATATTAAAAGTAATA-AAT-ATAA
1 ATATTAAAA-TAATATAATAATAA
2315529 A
1 A
2315530 AGGGGGATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
22 10 0.27
23 22 0.59
24 5 0.14
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (23 bp):
ATATTAAAATAATATAATAATAA
Found at i:2315515 original size:29 final size:30
Alignment explanation
Indices: 2315469--2315525 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
2315459 ATATATTAAA
2315469 ATAAAATAAATAAAAAAAG-AA-AAATAAT
1 ATAAAATAAATAAAAAAAGTAATAAATAAT
**
2315497 ATAATAATAAATATTAAAAGTAATAAATA
1 ATAA-AATAAATAAAAAAAGTAATAAATA
2315526 TAAAAGGGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 4 0.17
29 13 0.54
30 2 0.08
31 5 0.21
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.25
Consensus pattern (30 bp):
ATAAAATAAATAAAAAAAGTAATAAATAAT
Found at i:2315522 original size:16 final size:15
Alignment explanation
Indices: 2315501--2315531 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
2315491 AATAATATAA
2315501 TAATAAATATTAAAAG
1 TAATAAATA-TAAAAG
2315517 TAATAAATATAAAAG
1 TAATAAATATAAAAG
2315532 GGGGATTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.65, C:0.00, G:0.06, T:0.29
Consensus pattern (15 bp):
TAATAAATATAAAAG
Found at i:2315597 original size:21 final size:22
Alignment explanation
Indices: 2315564--2315604 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2315554 GGTTAAAATA
2315564 AAAAATAAGAATTAAATAAAAG
1 AAAAATAAGAATTAAATAAAAG
*
2315586 AAAAA-AATAATTAAATAAA
1 AAAAATAAGAATTAAATAAA
2315605 CAAATTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.20
Consensus pattern (22 bp):
AAAAATAAGAATTAAATAAAAG
Found at i:2316223 original size:19 final size:19
Alignment explanation
Indices: 2316167--2316229 Score: 54
Period size: 19 Copynumber: 3.2 Consensus size: 19
2316157 CTATTTAAAC
**
2316167 TAAAATACCTAAAAAATAAT
1 TAAAATA-CTAAAACCTAAT
* * *
2316187 ATAATATTCTAAATCCTAAT
1 -TAAAATACTAAAACCTAAT
*
2316207 TAAAATACTAAAACCTATT
1 TAAAATACTAAAACCTAAT
2316226 TAAA
1 TAAA
2316230 CTAAAATACA
Statistics
Matches: 33, Mismatches: 9, Indels: 2
0.75 0.20 0.05
Matches are distributed among these distances:
19 19 0.58
20 9 0.27
21 5 0.15
ACGTcount: A:0.56, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
TAAAATACTAAAACCTAAT
Found at i:2316257 original size:64 final size:68
Alignment explanation
Indices: 2316132--2316329 Score: 206
Period size: 64 Copynumber: 2.8 Consensus size: 68
2316122 TAAAACATCT
* * * ** *
2316132 TAAATCCTAATTAAAACACTTAAATCTATTTAAACTAAAATAC--CTA-AAAAAT-AATATAATA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAAATAAAAATAATA
*
2316193 TTC
66 TCC
2316196 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAGATAAAATATAAA
1 TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATAC------AAAGATAAAA-ATAAA
2316261 AATAATATCC
59 AATAATATCC
* *
2316271 TAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATATAA
1 TAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAA-ATAA
2316330 TGTTTAAAAT
Statistics
Matches: 113, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
64 40 0.35
70 15 0.13
72 1 0.01
73 4 0.04
74 2 0.02
75 28 0.25
76 23 0.20
ACGTcount: A:0.58, C:0.12, G:0.02, T:0.29
Consensus pattern (68 bp):
TAAATCCTAATTAAAATACTAAAACCTATTTAAACTAAAATACAAAGATAAAAATAAAAATAATA
TCC
Found at i:2316274 original size:75 final size:76
Alignment explanation
Indices: 2316187--2316351 Score: 244
Period size: 76 Copynumber: 2.2 Consensus size: 76
2316177 AAAAAATAAT
*
2316187 ATAATATTCTAAATCCTAATTAAAATACT-AAAACCTATTTAAACTAAAATACAAAGATAAAGAT
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAA-AT
2316251 AAAAT-ATAAAA
65 AAAATGATAAAA
* *
2316262 ATAATATCCTAAAACTTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
1 ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
* * *
2316327 TAATGTTTAAA
66 AAATGATAAAA
*
2316338 ATATTATCCTAAAT
1 ATAATATCCTAAAT
2316352 TTAAGTTTAA
Statistics
Matches: 80, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
75 32 0.40
76 48 0.60
ACGTcount: A:0.56, C:0.11, G:0.02, T:0.30
Consensus pattern (76 bp):
ATAATATCCTAAATCCTAATTAAAATACTAAAAACCTATTTAAACTAAAATACAAAGATAAAATA
AAATGATAAAA
Found at i:2319461 original size:50 final size:50
Alignment explanation
Indices: 2319407--2319504 Score: 187
Period size: 50 Copynumber: 2.0 Consensus size: 50
2319397 CTCATTCTCG
2319407 TAACTCAGATAAGATCCCAGCTCAACATTTTCAACAGAAATAACATGGAA
1 TAACTCAGATAAGATCCCAGCTCAACATTTTCAACAGAAATAACATGGAA
*
2319457 TAACTCAGATAAGATCTCAGCTCAACATTTTCAACAGAAATAACATGG
1 TAACTCAGATAAGATCCCAGCTCAACATTTTCAACAGAAATAACATGG
2319505 GACGGGTCAG
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.43, C:0.21, G:0.12, T:0.23
Consensus pattern (50 bp):
TAACTCAGATAAGATCCCAGCTCAACATTTTCAACAGAAATAACATGGAA
Found at i:2321870 original size:29 final size:29
Alignment explanation
Indices: 2321830--2321904 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
2321820 GGGAATGAGG
*
2321830 TCCCATGAAGAATCAGGACGAGGAATAAA
1 TCCCATGCAGAATCAGGACGAGGAATAAA
* * *
2321859 TCTCATGCAGAATTAGGACGGGGAATAAA
1 TCCCATGCAGAATCAGGACGAGGAATAAA
2321888 TCCCATGCAGATATCAG
1 TCCCATGCAGA-ATCAG
2321905 AAATGCATCA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 35 0.90
30 4 0.10
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.19
Consensus pattern (29 bp):
TCCCATGCAGAATCAGGACGAGGAATAAA
Found at i:2323000 original size:18 final size:18
Alignment explanation
Indices: 2322958--2323000 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
2322948 CATTTTCATC
* *
2322958 ATCATTATTAATTTTATT
1 ATCATTATCAATATTATT
*
2322976 ATAATTATCAATATTATT
1 ATCATTATCAATATTATT
*
2322994 CTCATTA
1 ATCATTA
2323001 ATCCCTCTTA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCATTATCAATATTATT
Found at i:2323949 original size:21 final size:21
Alignment explanation
Indices: 2323923--2323962 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
2323913 CCGAAGTACC
*
2323923 ACATATATGTTCCAAAGGATT
1 ACATATATGTCCCAAAGGATT
*
2323944 ACATATATGTCCCGAAGGA
1 ACATATATGTCCCAAAGGA
2323963 CCACGTAGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.17, G:0.17, T:0.28
Consensus pattern (21 bp):
ACATATATGTCCCAAAGGATT
Found at i:2324809 original size:21 final size:21
Alignment explanation
Indices: 2324768--2324824 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
2324758 TCGATGTTTC
*
2324768 CTGGTATCGATACCCTCCATA
1 CTGGTATCGATACTCTCCATA
* *
2324789 CTGGTATCGATACTGTTCATA
1 CTGGTATCGATACTCTCCATA
* *
2324810 CAGGTACCGATACTC
1 CTGGTATCGATACTC
2324825 CATGCGTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (21 bp):
CTGGTATCGATACTCTCCATA
Found at i:2325669 original size:20 final size:20
Alignment explanation
Indices: 2325644--2325683 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2325634 TAGTCGGCGG
*
2325644 TCAAAATCAACTGTCAACGA
1 TCAAAATCAACGGTCAACGA
2325664 TCAAAATCAACGGTCAACGA
1 TCAAAATCAACGGTCAACGA
2325684 GTCGGGTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.25, G:0.12, T:0.17
Consensus pattern (20 bp):
TCAAAATCAACGGTCAACGA
Found at i:2326065 original size:17 final size:16
Alignment explanation
Indices: 2326036--2326068 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
2326026 CGTACAGTAG
2326036 GAAAGAAATAAAGAAA
1 GAAAGAAATAAAGAAA
2326052 GAAAGAAGATAAAGAAA
1 GAAAGAA-ATAAAGAAA
2326069 AAGTGGGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (16 bp):
GAAAGAAATAAAGAAA
Found at i:2330096 original size:138 final size:138
Alignment explanation
Indices: 2329848--2330391 Score: 711
Period size: 138 Copynumber: 3.9 Consensus size: 138
2329838 TTAAGGTCAA
** * * ** *
2329848 TTGACCTTTCTGGTTGCGAGAGTCTGGGGAAGATCCCTAATCTATCAGGAGCCATCAACCTTCAA
1 TTGACCTTTCTTATTGCAAGAATCTAAGGAAGATCCCTAATCCATCAGGAGCCATCAACCTT-AA
* * * **
2329913 AGC-CTT-TGCTGC-AGTGGGTGTGA-AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTAT
65 ATCACTTAAG-TGCAAAT-ACTGT-ACAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTAT
2329974 CTCTTGAAAGCC
127 CTCTTGAAAGCC
* * * * *
2329986 TTGACTTTTCTTATTGCAAGAGTCT-AGTGGAGATCCCTAATCTATCAAGAGCCATCAACCTTAA
1 TTGACCTTTCTTATTGCAAGAATCTAAG-GAAGATCCCTAATCCATCAGGAGCCATCAACCTTAA
**
2330050 ATCACTTAAGTGCAGTTACTGTACAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTC
65 ATCACTTAAGTGCAAATACTGTACAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTC
2330115 TTGAAAGCC
130 TTGAAAGCC
* * **
2330124 TTGACCTTTCTTATTGCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAA
1 TTGACCTTTCTTATTGCAAGAATCTAAGGAAGATCCCTAATCCATCAGGAGCCATCAACCTTAAA
2330189 TCACTTAAGTGCAAATACTGTACAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCT
66 TCACTTAAGTGCAAATACTGTACAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCT
2330254 TGAAAGCC
131 TGAAAGCC
** * * **
2330262 TTGACCTTTCTGGTTGCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAA
1 TTGACCTTTCTTATTGCAAGAATCTAAGGAAGATCCCTAATCCATCAGGAGCCATCAACCTTAAA
* * * *
2330327 TCACTTAAGTGCAAATACTGTACAAGTTTGGTTGAACTACCTTTCTTCAACCATTTGGCATCTCT
66 TCACTTAAGTGCAAATACTGTACAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCT
2330392 CAAAGAGCTC
Statistics
Matches: 370, Mismatches: 30, Indels: 12
0.90 0.07 0.03
Matches are distributed among these distances:
137 6 0.02
138 360 0.97
139 4 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (138 bp):
TTGACCTTTCTTATTGCAAGAATCTAAGGAAGATCCCTAATCCATCAGGAGCCATCAACCTTAAA
TCACTTAAGTGCAAATACTGTACAAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCT
TGAAAGCC
Found at i:2332020 original size:27 final size:26
Alignment explanation
Indices: 2331973--2332027 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
2331963 ATATGATTTG
*
2331973 GACTTCAAATATTAGTGTCATCCTTT
1 GACTTCAAATATTAATGTCATCCTTT
2331999 GACTTCAAATATTACAAT-TCATCCTTT
1 GACTTCAAATATT--AATGTCATCCTTT
2332026 GA
1 GA
2332028 AATGTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 13 0.50
27 11 0.42
28 2 0.08
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (26 bp):
GACTTCAAATATTAATGTCATCCTTT
Found at i:2333666 original size:16 final size:16
Alignment explanation
Indices: 2333645--2333675 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
2333635 CTAATCACAT
2333645 ACATCAATCTTAAGGA
1 ACATCAATCTTAAGGA
2333661 ACATCAATCTTAAGG
1 ACATCAATCTTAAGG
2333676 CAATGGTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.19, G:0.13, T:0.26
Consensus pattern (16 bp):
ACATCAATCTTAAGGA
Found at i:2335313 original size:3 final size:3
Alignment explanation
Indices: 2335298--2335347 Score: 77
Period size: 3 Copynumber: 17.3 Consensus size: 3
2335288 TATGTAACAT
*
2335298 TAA TAA TAC TAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA TAA T-A
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
2335344 TAA T
1 TAA T
2335348 TTTAATATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
2 4 0.09
3 39 0.91
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2335331 original size:17 final size:17
Alignment explanation
Indices: 2335298--2335360 Score: 83
Period size: 17 Copynumber: 3.7 Consensus size: 17
2335288 TATGTAACAT
*
2335298 TAATAATACTAATAATAA
1 TAATAATAAT-ATAATAA
2335316 TAATAATAATATAATAA
1 TAATAATAATATAATAA
**
2335333 TAATAATAATATAATTT
1 TAATAATAATATAATAA
2335350 TAAT-ATAATAT
1 TAATAATAATAT
2335361 TTATAACCCA
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
16 7 0.17
17 26 0.62
18 9 0.21
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (17 bp):
TAATAATAATATAATAA
Found at i:2335802 original size:54 final size:54
Alignment explanation
Indices: 2335588--2336169 Score: 584
Period size: 54 Copynumber: 10.8 Consensus size: 54
2335578 TTCTGCCAAT
* * * *
2335588 GGGTTCTCTCCCTCTTTCTTTAGGGAGTA-GGAACTCGAACA-ATCTTTTGTCTT-C
1 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACACA--TTCT-TCTTAC
* * * * * *
2335642 -GGTTCGCTGCTTCTTTCTTTATGGAGTA-GGAATTCGAACA-A-TCTTCTGCCTAC
1 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACACATTCTTCT---TAC
*
2335695 GGGTTCGCTCCCTCTTTCTTTCAGGGAGTATAGAACTCGAACATC-TTCTTCTTAC
1 GGGTTCGCTCCCTCTTTCTCT-AGGGAGTATAGAACTCGAACA-CATTCTTCTTAC
* * **
2335750 GGGTTCGCTCCCTATTTCTCTAGGGAGTATAGAAGTCGAACACATTAGTCTTAC
1 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACACATTCTTCTTAC
* **
2335804 GGGTTTGCTCCCT-TATTCTCTAGGGAGTATAGAACTCGAACACATTAGTCTTAC
1 GGGTTCGCTCCCTCT-TTCTCTAGGGAGTATAGAACTCGAACACATTCTTCTTAC
2335858 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACACATTCTTCTTAC
1 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACACATTCTTCTTAC
* * ** *
2335912 GGGTTCGCTCCCTCTTTCTCTAGGTAGTATGGAACTCGAACATC-TTCTTCAAAT
1 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACA-CATTCTTCTTAC
* *
2335966 GGGTTCCCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACACATTCTTTTTAC
1 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACACATTCTTCTTAC
* *
2336020 GGGTTTGCTCCCTCTTCCTCTAGGGAGTATAGAACTCGAACA-A-TCTTCTTCAAAC
1 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACACATTCTTCTT---AC
* * * * * *
2336075 CGGTTCACTCCCTCTTTCTTTAGGGAGTATAGAACTC-AA-A-AATCTTCTGAAAAT
1 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACACATTCTTCT---TAC
* * *
2336129 AGGTTCGCTCCCTCTTTCTTTAGGGAGTATA-AACTCAAACA
1 GGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACA
2336170 TCTTCATCAA
Statistics
Matches: 458, Mismatches: 46, Indels: 47
0.83 0.08 0.09
Matches are distributed among these distances:
49 3 0.01
50 2 0.00
52 7 0.02
53 48 0.10
54 316 0.69
55 66 0.14
56 10 0.02
58 6 0.01
ACGTcount: A:0.22, C:0.25, G:0.19, T:0.34
Consensus pattern (54 bp):
GGGTTCGCTCCCTCTTTCTCTAGGGAGTATAGAACTCGAACACATTCTTCTTAC
Found at i:2336246 original size:55 final size:55
Alignment explanation
Indices: 2336153--2337225 Score: 1365
Period size: 55 Copynumber: 19.5 Consensus size: 55
2336143 TTTCTTTAGG
* * * *
2336153 GAGTATAA-ACTCAAAC-ATCTTCATCAATCGTGTCTGCTCCCTA-TCGCTTCAAA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTC-CTTCAGA
** *** * *
2336206 GAGTATAAGACTTTAACAATCTTCTGTAAACATGTCTGCTCTCTATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
* * *
2336261 GAGTATAAGACTCAAACAATCTTCAACAATTGTGTCTGCTC-CATATTCCTCCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTC-TATTCCTTCAGA
* * *
2336316 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTATATTTCTTCGGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
2336371 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTC-CTTATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTC-TATTCCTTCAGA
* *
2336426 GAGTATAGGACTCGAACAATCTTCAACAATCGTGTCTGTTCTCTATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
*
2336481 GAGTATAAGACTCGAACAATCTTCAACAATTGTGTCTGCTCTCTATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
* * *
2336536 GAGTATAAGACTCGAAC-ATCTTCAACAAACGTATCTGCTCTCTATTCCTTTAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
* * *
2336590 GAGTATAAGACTCGAGCAATCTTCAATAATCGTGTCTGCTCCCTATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
* * * *
2336645 GAGTATAAGACTTGAACAATCTTCAACAAACGTGTCTGTTCTCTATTCCTTTAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
* * *
2336700 GAGTATAAGACTCTAGCAATCTTCAACAATCTTCAACAATCTTGTCTGCTCCCTATTTCTTCAGA
1 GAGTATAAGACTC--G--------AACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
* * * * * *
2336765 GAGTATTAGAATCGAACAATTTTCAACATTCGTGTCTGCTCCCTATTTCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
* * * **
2336820 GAGTATGAGACTCGAACAATCTTCAACATTCGTGTCTGCTCCCTATTTTTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
* * * * *
2336875 GAGTATGAGACTCGAATAATCTTCAACAATCGTGTCTGTTCCCTATTTCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
* * * * *
2336930 GAGTATATGACTCGAACAA---TCAACAATTGTGCCTGCTCCCTATTTCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
* * *
2336982 GAGTATAAGACTCGAACAATCTTCAACAATTGTGTCCGCTCTATATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
*
2337037 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
* * * * *
2337092 GAGTATAAGACTTGAACAACCCTCAACAATCTTGTCTGCTCCCTATTCCTTCAGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
* * *
2337147 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTACTCCCTATTCATT-AGA
1 GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
2337201 GAGTATAAGACTCGAACAATCTTCA
1 GAGTATAAGACTCGAACAATCTTCA
2337226 TTTGCTTCAC
Statistics
Matches: 904, Mismatches: 95, Indels: 41
0.87 0.09 0.04
Matches are distributed among these distances:
52 48 0.05
53 8 0.01
54 84 0.09
55 713 0.79
56 3 0.00
57 1 0.00
63 1 0.00
65 46 0.05
ACGTcount: A:0.30, C:0.24, G:0.14, T:0.32
Consensus pattern (55 bp):
GAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCTCTATTCCTTCAGA
Found at i:2336731 original size:10 final size:10
Alignment explanation
Indices: 2336716--2336742 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
2336706 AAGACTCTAG
2336716 CAATCTTCAA
1 CAATCTTCAA
2336726 CAATCTTCAA
1 CAATCTTCAA
2336736 CAATCTT
1 CAATCTT
2336743 GTCTGCTCCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.37, C:0.30, G:0.00, T:0.33
Consensus pattern (10 bp):
CAATCTTCAA
Found at i:2337596 original size:37 final size:37
Alignment explanation
Indices: 2337575--2337707 Score: 203
Period size: 37 Copynumber: 3.6 Consensus size: 37
2337565 ACTCTTTCGA
*
2337575 GAAGGCTTAAAATGGATTTGCTTCACTACTCTTCAGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCAGT
* *
2337612 GAAGGCTTAAGATGGATTTGTTTCACTACTCTTCGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCAGT
* *
2337649 GAAGGCTTAAGATGGATTTGCTTCACTATTCTTCGGT
1 GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCAGT
*
2337686 GAAGGCTTAAGATTGACTTTGC
1 GAAGGCTTAAGATGGA-TTTGC
2337708 CCCAATCTCC
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
37 84 0.94
38 5 0.06
ACGTcount: A:0.24, C:0.17, G:0.23, T:0.36
Consensus pattern (37 bp):
GAAGGCTTAAGATGGATTTGCTTCACTACTCTTCAGT
Found at i:2347150 original size:179 final size:172
Alignment explanation
Indices: 2346816--2347166 Score: 639
Period size: 179 Copynumber: 2.0 Consensus size: 172
2346806 TGAAAGCAGC
2346816 TAGTGCATTCGTAACTCCAAACGGCATTACGATAACTCATAGGACCATATCTTGTTCTAAACGCC
1 TAGTGCATTCGTAACTCCAAACGGCATTACGATAACTCATAGGACCATATCTTGTTCTAAACGCC
2346881 GTCTTTGGAATCTTTCTCTTGAATCTTTAATTGATGATAACCCGAATAAATCAATTTTGAGAACA
66 GTCTTTGGAATCTTTCTCTTGAATCTTTAATTGATGATAACCCGAATAAATCAATTTTGAGAACA
2346946 CTGAAGCTCCCTTTAATTGGTCAAATAAATCGTCAATTCGGG
131 CTGAAGCTCCCTTTAATTGGTCAAATAAATCGTCAATTCGGG
2346988 TAGTGCATTCGTAACTCCAAACGGCATTACGATAAACTCATAGTGACCATATCTTGTTCTAAACG
1 TAGTGCATTCGTAACTCCAAACGGCATTACGAT-AACTCATAG-GACCATATCTTGTTCTAAACG
2347053 CCGTCTTTGGAATATCTTTCTCTTGAATCTTTAATTGATGATAACCCGAACGTAAATCAATTTTT
64 CCGTCTTTGG-A-ATCTTTCTCTTGAATCTTTAATTGATGATAACCCGAA--TAAATCAA-TTTT
2347118 GAGAACACTGAAGCTCCCTTTAATTGGTCAAATAAATCGTCAATTCGGG
124 GAGAACACTGAAGCTCCCTTTAATTGGTCAAATAAATCGTCAATTCGGG
2347167 GAAGTGGATA
Statistics
Matches: 172, Mismatches: 0, Indels: 7
0.96 0.00 0.04
Matches are distributed among these distances:
172 33 0.19
173 9 0.05
174 31 0.18
175 1 0.01
176 37 0.22
178 8 0.05
179 53 0.31
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.33
Consensus pattern (172 bp):
TAGTGCATTCGTAACTCCAAACGGCATTACGATAACTCATAGGACCATATCTTGTTCTAAACGCC
GTCTTTGGAATCTTTCTCTTGAATCTTTAATTGATGATAACCCGAATAAATCAATTTTGAGAACA
CTGAAGCTCCCTTTAATTGGTCAAATAAATCGTCAATTCGGG
Found at i:2347821 original size:30 final size:29
Alignment explanation
Indices: 2347785--2347845 Score: 113
Period size: 30 Copynumber: 2.1 Consensus size: 29
2347775 TTCGTATGGG
2347785 ACACCCTCGACTCACCTTATTTACCCGAGC
1 ACACCCTCGACTCACCTTATTTA-CCGAGC
2347815 ACACCCTCGACTCACCTTATTTACCGAGC
1 ACACCCTCGACTCACCTTATTTACCGAGC
2347844 AC
1 AC
2347846 TGTGTCCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
29 8 0.26
30 23 0.74
ACGTcount: A:0.25, C:0.43, G:0.10, T:0.23
Consensus pattern (29 bp):
ACACCCTCGACTCACCTTATTTACCGAGC
Found at i:2356701 original size:21 final size:23
Alignment explanation
Indices: 2356676--2356720 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 23
2356666 TGTACCTAAG
2356676 ATTAAA-CATA-TAAATAAAAAA
1 ATTAAAGCATACTAAATAAAAAA
2356697 ATTAAAGCATACTTAAATAAAAAA
1 ATTAAAGCATAC-TAAATAAAAAA
2356721 TGCATAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.29
22 4 0.19
24 11 0.52
ACGTcount: A:0.67, C:0.07, G:0.02, T:0.24
Consensus pattern (23 bp):
ATTAAAGCATACTAAATAAAAAA
Found at i:2356968 original size:17 final size:17
Alignment explanation
Indices: 2356946--2356982 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
2356936 ACCAATATAT
2356946 ATATTAAACTAAACCTA
1 ATATTAAACTAAACCTA
2356963 ATATTAAACTAAACCTA
1 ATATTAAACTAAACCTA
2356980 ATA
1 ATA
2356983 GTCACTCCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (17 bp):
ATATTAAACTAAACCTA
Found at i:2366869 original size:92 final size:91
Alignment explanation
Indices: 2366690--2366983 Score: 421
Period size: 92 Copynumber: 3.2 Consensus size: 91
2366680 TTTTTTATAC
* * * ** *
2366690 TTCTTCAT-GTAATTAAATGTAGAAATATTATAAAATAATGAAGCGTAATTTA-TTAGTAAACAT
1 TTCTTCATAG-AATTAAATGCAAAAATATTATAAAA-AATGAAGCGTAGTTTACCAAGTAAACTT
*
2366753 GACAATGATCTTATCTTTATAAAAACCT
64 GACAATGCTCTTATCTTTATAAAAACCT
2366781 TTCTTCATAGAATTAAATGCAAAAATATTATTAAAAAATGAAGCGTAGTTTACCAAGTAAACTTG
1 TTCTTCATAGAATTAAATGCAAAAATATTA-TAAAAAATGAAGCGTAGTTTACCAAGTAAACTTG
2366846 ACAATGCTCTTATCTTTATAAAAACCT
65 ACAATGCTCTTATCTTTATAAAAACCT
2366873 TTCTTCATAGAATTAAATGCAAAAATATTATACAAAAATGAAGCGTAGTTTACCAAGTAAACTTG
1 TTCTTCATAGAATTAAATGCAAAAATATTATA-AAAAATGAAGCGTAGTTTACCAAGTAAACTTG
**
2366938 ACAATGCTCTTGCCTTTATAAAAACCT
65 ACAATGCTCTTATCTTTATAAAAACCT
* * * *
2366965 GTCTCCGTATAATTAAATG
1 TTCTTCATAGAATTAAATG
2366984 TAGAGAGATA
Statistics
Matches: 186, Mismatches: 13, Indels: 7
0.90 0.06 0.03
Matches are distributed among these distances:
91 43 0.23
92 143 0.77
ACGTcount: A:0.41, C:0.14, G:0.11, T:0.34
Consensus pattern (91 bp):
TTCTTCATAGAATTAAATGCAAAAATATTATAAAAAATGAAGCGTAGTTTACCAAGTAAACTTGA
CAATGCTCTTATCTTTATAAAAACCT
Found at i:2368470 original size:30 final size:30
Alignment explanation
Indices: 2368414--2368470 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
2368404 TTCTCCTCGA
* *
2368414 TTGAAGTATTCTTCCTTCCCTTCTCGTCAG
1 TTGAAGTATTCTTCCTCCCCTCCTCGTCAG
*
2368444 TTGAAGTGTT-TTCACTCCCCTCCTCGT
1 TTGAAGTATTCTTC-CTCCCCTCCTCGT
2368471 TCTTCCTTCG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 3 0.13
30 20 0.87
ACGTcount: A:0.12, C:0.32, G:0.14, T:0.42
Consensus pattern (30 bp):
TTGAAGTATTCTTCCTCCCCTCCTCGTCAG
Found at i:2368599 original size:27 final size:29
Alignment explanation
Indices: 2368500--2368599 Score: 96
Period size: 30 Copynumber: 3.4 Consensus size: 29
2368490 TTTTCCCTTG
* * * *
2368500 TCGTCAATTGAAGTATCCTTTCTCCCCTTC
1 TCGTCAATTGAAGGATTC-TTATCCTCTTC
*
2368530 TTGTCAATTGAAGGATTCTTCATCCTCTTC
1 TCGTCAATTGAAGGATTCTT-ATCCTCTTC
* *
2368560 TCTTCAGTTGAAGGATTC-T-TCCTCTTC
1 TCGTCAATTGAAGGATTCTTATCCTCTTC
*
2368587 TCGTCAATGGAAG
1 TCGTCAATTGAAG
2368600 TATCAAGTTT
Statistics
Matches: 58, Mismatches: 11, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
27 18 0.31
29 3 0.05
30 37 0.64
ACGTcount: A:0.19, C:0.26, G:0.15, T:0.40
Consensus pattern (29 bp):
TCGTCAATTGAAGGATTCTTATCCTCTTC
Found at i:2368997 original size:15 final size:15
Alignment explanation
Indices: 2368977--2369025 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
2368967 GTGGCGAAGA
2368977 GAAATTGAAGCAGTG
1 GAAATTGAAGCAGTG
**
2368992 GAAATTGAAGCAGCA
1 GAAATTGAAGCAGTG
*
2369007 GAAAGTGAAGCAGTG
1 GAAATTGAAGCAGTG
2369022 GAAA
1 GAAA
2369026 GCTGACTTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.45, C:0.08, G:0.33, T:0.14
Consensus pattern (15 bp):
GAAATTGAAGCAGTG
Found at i:2371571 original size:138 final size:138
Alignment explanation
Indices: 2371330--2371960 Score: 712
Period size: 138 Copynumber: 4.6 Consensus size: 138
2371320 TGCAAAAAAC
* * * * * * *
2371330 TAAGGACGATCCCTAATTTATCGGGAGCCATCAACCTTCAAATCCTTGACTGTCA-C-GAGTGTG
1 TAAGGAAGATACCTAATCTATCAGGAACCATCAACCTTAAAAGCCTTGACTGT-AGCTG-GTGTG
* * * * * * * *
2371393 AAAGTTTGATTGAACTACTCTGCCTCGGTCGTTTGCCATCTCTTGAAAGATTTGACCTTTATGGT
64 AAAGTTTGGTTGAACTACCCTGCCTCAGTCATTTGACATCTCTCGAAAGACTTAACCTTTATGGT
2371458 TGCAAGAATT
129 TGCAAGAATT
* * * * **
2371468 TAAGGAATATACCTAATCTATTAGGAGCCATCAACCTTAAAAGTCTTGACTGTAGCTGGTACGAA
1 TAAGGAAGATACCTAATCTATCAGGAACCATCAACCTTAAAAGCCTTGACTGTAGCTGGTGTGAA
* * * * * * **
2371533 AATTTGGTTGAACTACCTTACCTTAGTCATTTGGCATCTCTCGAAA-ACCTTAACCTTTCTCATT
66 AGTTTGGTTGAACTACCCTGCCTCAGTCATTTGACATCTCTCGAAAGA-CTTAACCTTTATGGTT
2371597 GCAAGAATT
130 GCAAGAATT
* * * *
2371606 TAAGGAAGATCCCTGATCTATCAGGAACCATCAACCTTAAAAGCCTTGATTGTACCTGGTGTGAA
1 TAAGGAAGATACCTAATCTATCAGGAACCATCAACCTTAAAAGCCTTGACTGTAGCTGGTGTGAA
* * * * **
2371671 AGTTTGGTTGAACTACCCTGCCTCAGTCATTTGACCTCTCTTGAAAGAATTAATCTTCGTGGTTG
66 AGTTTGGTTGAACTACCCTGCCTCAGTCATTTGACATCTCTCGAAAGACTTAACCTTTATGGTTG
2371736 CAAGAATT
131 CAAGAATT
* * * * * *
2371744 TAAGGAACATACCTAATTTATTAGGAGCCATCAACCTTAAAAGTCTTGACTGTAGCCGGTGTGAA
1 TAAGGAAGATACCTAATCTATCAGGAACCATCAACCTTAAAAGCCTTGACTGTAGCTGGTGTGAA
* * * *
2371809 AGTTTAGTTGAACTACCCTGCCTCAGTCATTTGACCTCTCTCGAAAGCCTTAACCTCTATGGTTG
66 AGTTTGGTTGAACTACCCTGCCTCAGTCATTTGACATCTCTCGAAAGACTTAACCTTTATGGTTG
*
2371874 CATGAATT
131 CAAGAATT
* * * *
2371882 TAAGGAAGAT-CTCTAGTCTATCAGGAACCACCAACCTTAATAGCCTTGATTGTAGCTGGTGTGA
1 TAAGGAAGATAC-CTAATCTATCAGGAACCATCAACCTTAAAAGCCTTGACTGTAGCTGGTGTGA
2371946 AAGTTTGGTTGAACT
65 AAGTTTGGTTGAACT
2371961 TCCTGAGCTC
Statistics
Matches: 409, Mismatches: 79, Indels: 10
0.82 0.16 0.02
Matches are distributed among these distances:
137 3 0.01
138 404 0.99
139 2 0.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (138 bp):
TAAGGAAGATACCTAATCTATCAGGAACCATCAACCTTAAAAGCCTTGACTGTAGCTGGTGTGAA
AGTTTGGTTGAACTACCCTGCCTCAGTCATTTGACATCTCTCGAAAGACTTAACCTTTATGGTTG
CAAGAATT
Found at i:2371821 original size:276 final size:275
Alignment explanation
Indices: 2371309--2371960 Score: 851
Period size: 276 Copynumber: 2.4 Consensus size: 275
2371299 AGGTCAATTG
* * ** * * * * * *
2371309 ACCTTTCTTATTGCAAAAAACTAAGGACGATCCCTAATTTATCGGGAGCCATCAACCTTCAAATC
1 ACCTTTCTCATTGCAAGAATTTAAGGAAGATCCCT-ATCTATCAGGAACCATCAACCTTAAAAGC
* * * * *
2371374 CTTGACTGT-CAC-GAGTGTGAAAGTTTGATTGAACTACTCTGCCTCGGTCGTTTGCCATCTCTT
65 CTTGATTGTAC-CTG-GTGTGAAAGTTTGGTTGAACTACCCTGCCTCAGTCATTTGCCATCTCTT
* * * *
2371437 GAAAGATTTGACCTTTATGGTTGCAAGAATTTAAGGAATATACCTAATCTATTAGGAGCCATCAA
128 GAAAGAATTAACCTTCATGGTTGCAAGAATTTAAGGAACATACCTAATCTATTAGGAGCCATCAA
* * * * *
2371502 CCTTAAAAGTCTTGACTGTAGCTGGTACGAAAATTTGGTTGAACTACCTTACCTTAGTCATTTGG
193 CCTTAAAAGTCTTGACTGTAGCCGGTACGAAAATTTAGTTGAACTACCCTACCTCAGTCATTTGA
2371567 CATCTCTCGAAAACCTTA
258 CATCTCTCGAAAACCTTA
2371585 ACCTTTCTCATTGCAAGAATTTAAGGAAGATCCCTGATCTATCAGGAACCATCAACCTTAAAAGC
1 ACCTTTCTCATTGCAAGAATTTAAGGAAGATCCCT-ATCTATCAGGAACCATCAACCTTAAAAGC
2371650 CTTGATTGTACCTGGTGTGAAAGTTTGGTTGAACTACCCTGCCTCAGTCATTTGACC-TCTCTTG
65 CTTGATTGTACCTGGTGTGAAAGTTTGGTTGAACTACCCTGCCTCAGTCATTTG-CCATCTCTTG
* * *
2371714 AAAGAATTAATCTTCGTGGTTGCAAGAATTTAAGGAACATACCTAATTTATTAGGAGCCATCAAC
129 AAAGAATTAACCTTCATGGTTGCAAGAATTTAAGGAACATACCTAATCTATTAGGAGCCATCAAC
** * *
2371779 CTTAAAAGTCTTGACTGTAGCCGGTGTGAAAGTTTAGTTGAACTACCCTGCCTCAGTCATTTGAC
194 CTTAAAAGTCTTGACTGTAGCCGGTACGAAAATTTAGTTGAACTACCCTACCTCAGTCATTTGAC
* *
2371844 CTCTCTCGAAAGCCTTA
259 ATCTCTCGAAAACCTTA
* * ** * * * *
2371861 ACCTCTATGGTTGCATGAATTTAAGGAAGATCTCTAGTCTATCAGGAACCACCAACCTTAATAGC
1 ACCTTTCTCATTGCAAGAATTTAAGGAAGATCCCTA-TCTATCAGGAACCATCAACCTTAAAAGC
*
2371926 CTTGATTGTAGCTGGTGTGAAAGTTTGGTTGAACT
65 CTTGATTGTACCTGGTGTGAAAGTTTGGTTGAACT
2371961 TCCTGAGCTC
Statistics
Matches: 329, Mismatches: 43, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
275 1 0.00
276 324 0.98
277 4 0.01
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (275 bp):
ACCTTTCTCATTGCAAGAATTTAAGGAAGATCCCTATCTATCAGGAACCATCAACCTTAAAAGCC
TTGATTGTACCTGGTGTGAAAGTTTGGTTGAACTACCCTGCCTCAGTCATTTGCCATCTCTTGAA
AGAATTAACCTTCATGGTTGCAAGAATTTAAGGAACATACCTAATCTATTAGGAGCCATCAACCT
TAAAAGTCTTGACTGTAGCCGGTACGAAAATTTAGTTGAACTACCCTACCTCAGTCATTTGACAT
CTCTCGAAAACCTTA
Found at i:2376395 original size:30 final size:29
Alignment explanation
Indices: 2376243--2376408 Score: 115
Period size: 30 Copynumber: 5.6 Consensus size: 29
2376233 TCTTCTTTCA
* *
2376243 AATTGAAGTATTCCTCCTTCCCTTCTCGTC
1 AATTGAAGTATTCTTTCTT-CCTTCTCGTC
* *
2376273 AATTGAAGTGTT-TTCTCTGCCCTTCTCGTC
1 AATTGAAGTATTCTT-TCT-TCCTTCTCGTC
* * * * * *
2376303 GACTGAATTATTC-TCCATCCTTTTCTCGCC
1 AATTGAAGTATTCTTTCTTCC--TTCTCGTC
* * *
2376333 GATTGAAGTATTC-TTCGTCATCTTCTCTTC
1 AATTGAAGTATTCTTTCTTC--CTTCTCGTC
2376363 AATTGAAGTATTCTTTCTTCCTTCCTCGTC
1 AATTGAAGTATTCTTTCTTCCTT-CTCGTC
2376393 AATTGAAGTATT-TTTC
1 AATTGAAGTATTCTTTC
2376409 GCTCCCTTCT
Statistics
Matches: 106, Mismatches: 21, Indels: 19
0.73 0.14 0.13
Matches are distributed among these distances:
28 2 0.02
29 9 0.08
30 89 0.84
31 5 0.05
32 1 0.01
ACGTcount: A:0.17, C:0.27, G:0.12, T:0.44
Consensus pattern (29 bp):
AATTGAAGTATTCTTTCTTCCTTCTCGTC
Found at i:2376418 original size:60 final size:58
Alignment explanation
Indices: 2376229--2376418 Score: 161
Period size: 60 Copynumber: 3.2 Consensus size: 58
2376219 CTTCTTTTAA
* *
2376229 CTCCTCTTCT-TTCAAATTGAAGTATTCCTCCTTCCCTTCTCGTCAATTGAAGT-GTTTTCT
1 CTCC-CTTCTCTTC-AATTGAAGTATT-CTCCTT-CCTTCTCGTCAATTGAAGTATTTTTCG
* * * * * * * *
2376289 CTGCCCTTCTCGTCGACTGAATTATTCTCCATCCTTTTCTCGCCGATTGAAGTATTCTTCG
1 CT-CCCTTCTCTTCAATTGAAGTATTCTCCTTCC--TTCTCGTCAATTGAAGTATTTTTCG
* *
2376350 -TCATCTTCTCTTCAATTGAAGTATTCTTTCTTCCTTCCTCGTCAATTGAAGTATTTTTCG
1 CTC-CCTTCTCTTCAATTGAAGTATTC-TCCTTCCTT-CTCGTCAATTGAAGTATTTTTCG
2376410 CTCCCTTCT
1 CTCCCTTCT
2376419 TGTCGATTGG
Statistics
Matches: 100, Mismatches: 21, Indels: 18
0.72 0.15 0.13
Matches are distributed among these distances:
58 2 0.02
59 8 0.08
60 75 0.75
61 15 0.15
ACGTcount: A:0.16, C:0.29, G:0.11, T:0.44
Consensus pattern (58 bp):
CTCCCTTCTCTTCAATTGAAGTATTCTCCTTCCTTCTCGTCAATTGAAGTATTTTTCG
Found at i:2379274 original size:43 final size:43
Alignment explanation
Indices: 2379201--2379498 Score: 309
Period size: 43 Copynumber: 6.9 Consensus size: 43
2379191 CCGCTAATAT
* * * *
2379201 TAGCGGCGTTTGTGAAATAAAAACGCCGCAAAAAGTCAAGATATA
1 TAGCGGCGTTTTTGTAA-ACAAACGCCGCAAAAAGTC-AGATCTA
* * *
2379246 TAGCGGCG-TTTTGGAAACAAACGCCGCAAAAGGTCGAGATATA
1 TAGCGGCGTTTTTGTAAACAAACGCCGCAAAAAGTC-AGATCTA
* * *
2379289 TAGCGGCGTTTTTCT-AA-AAATGCCGCAAAAAGTTAGATCTA
1 TAGCGGCGTTTTTGTAAACAAACGCCGCAAAAAGTCAGATCTA
* *
2379330 TAGCGGCGTTTTTTTATACAAACGCCGC-AAAAGATCGAGATCTA
1 TAGCGGCGTTTTTGTAAACAAACGCCGCAAAAAG-TC-AGATCTA
* * * * *
2379374 TAGTGGGGTTTTTG-GAACAAACGTCGCAAAAGGTCAGATCTA
1 TAGCGGCGTTTTTGTAAACAAACGCCGCAAAAAGTCAGATCTA
* * * *
2379416 TAGCGGCGTTTTTCTATACAAACACCGCAAAAGGTCAGATCTA
1 TAGCGGCGTTTTTGTAAACAAACGCCGCAAAAAGTCAGATCTA
* *
2379459 TAGCGGCGTTTTTGTATACAAACGCCGCAAAATGTCAGAT
1 TAGCGGCGTTTTTGTAAACAAACGCCGCAAAAAGTCAGAT
2379499 TTGTACACAA
Statistics
Matches: 214, Mismatches: 32, Indels: 16
0.82 0.12 0.06
Matches are distributed among these distances:
41 20 0.09
42 38 0.18
43 116 0.54
44 32 0.15
45 8 0.04
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (43 bp):
TAGCGGCGTTTTTGTAAACAAACGCCGCAAAAAGTCAGATCTA
Found at i:2379447 original size:86 final size:86
Alignment explanation
Indices: 2379221--2379498 Score: 364
Period size: 85 Copynumber: 3.2 Consensus size: 86
2379211 TGTGAAATAA
* ** *
2379221 AAACGCCGCAAAAAGTCAAGATATATAGCGGCG-TTTTGGAAACAAACGCCGCAAAAGGTCGAGA
1 AAACGCCGCAAAAAGTC-AGATCTATAGCGGCGTTTTTCTATACAAACGCCGCAAAAGGTCGAGA
* *
2379285 TATATAGCGGCGTTTTTCTAA-
65 TCTATAGCGGCGTTTTTGTAAC
* * * *
2379306 AAATGCCGCAAAAAGTTAGATCTATAGCGGCGTTTTTTTATACAAACGCCGCAAAAGATCGAGAT
1 AAACGCCGCAAAAAGTCAGATCTATAGCGGCGTTTTTCTATACAAACGCCGCAAAAGGTCGAGAT
* * *
2379371 CTATAGTGGGGTTTTTGGAAC
66 CTATAGCGGCGTTTTTGTAAC
* * *
2379392 AAACGTCGCAAAAGGTCAGATCTATAGCGGCGTTTTTCTATACAAACACCGCAAAAGGTC-AGAT
1 AAACGCCGCAAAAAGTCAGATCTATAGCGGCGTTTTTCTATACAAACGCCGCAAAAGGTCGAGAT
2379456 CTATAGCGGCGTTTTTGTATAC
66 CTATAGCGGCGTTTTTGTA-AC
*
2379478 AAACGCCGCAAAATGTCAGAT
1 AAACGCCGCAAAAAGTCAGAT
2379499 TTGTACACAA
Statistics
Matches: 166, Mismatches: 24, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
84 14 0.08
85 78 0.47
86 74 0.45
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.24
Consensus pattern (86 bp):
AAACGCCGCAAAAAGTCAGATCTATAGCGGCGTTTTTCTATACAAACGCCGCAAAAGGTCGAGAT
CTATAGCGGCGTTTTTGTAAC
Found at i:2379488 original size:129 final size:128
Alignment explanation
Indices: 2379201--2379495 Score: 389
Period size: 129 Copynumber: 2.3 Consensus size: 128
2379191 CCGCTAATAT
* * *
2379201 TAGCGGCGTTTGTGAAATAAAAACGCCGCAAAAAGTCAAGATATATAGCGGCGTTTTGGAAACAA
1 TAGCGGCGTTTTTG-TATACAAACGCCGCAAAAAGTCAAGATATATAGCGGCGTTTTGGAAACAA
** *
2379266 ACGCCGCAAAAGGTCGAGATATATAGCGGCGTTTTTCTAAAAATGCCGCAAAAAGTTAGATCTA
65 ACGCCGCAAAAGGTCGAGATATATAGCGGCGTTTTTCTAAAAACACCGCAAAAAGTCAGATCTA
* * * * *
2379330 TAGCGGCGTTTTTTTATACAAACGCCGC-AAAAGATCGAGATCTATAGTGGGGTTTTTGG-AACA
1 TAGCGGCGTTTTTGTATACAAACGCCGCAAAAAG-TCAAGATATATAGCGGCG-TTTTGGAAACA
* * *
2379393 AACGTCGCAAAAGGTC-AGATCTATAGCGGCGTTTTTCTATACAAACACCGCAAAAGGTCAGATC
64 AACGCCGCAAAAGGTCGAGATATATAGCGGCGTTTTTCTA-A-AAACACCGCAAAAAGTCAGATC
2379457 TA
127 TA
*
2379459 TAGCGGCGTTTTTGTATACAAACGCCGCAAAATGTCA
1 TAGCGGCGTTTTTGTATACAAACGCCGCAAAAAGTCA
2379496 GATTTGTACA
Statistics
Matches: 144, Mismatches: 17, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
127 27 0.19
128 46 0.32
129 67 0.47
130 4 0.03
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.25
Consensus pattern (128 bp):
TAGCGGCGTTTTTGTATACAAACGCCGCAAAAAGTCAAGATATATAGCGGCGTTTTGGAAACAAA
CGCCGCAAAAGGTCGAGATATATAGCGGCGTTTTTCTAAAAACACCGCAAAAAGTCAGATCTA
Found at i:2379698 original size:84 final size:83
Alignment explanation
Indices: 2379526--2379711 Score: 189
Period size: 84 Copynumber: 2.2 Consensus size: 83
2379516 AAAAGATCGA
* * * * * *
2379526 GCGTTTTTAGAATAAACGCCGCAAAAGGTGGATCTATAGCGGCGTTTTGTATTCAAACGTCGTAA
1 GCGTTTTTAGAACAAACGCCGCAAAAGGTAGATCTATAGCAGCGTTTTGGATACAAACGTCGCAA
**
2379591 AAGGTCAGCTCAGTAGCG
66 AACATCAGCTCAGTAGCG
* * * *
2379609 ACGTTTTTGGAACAAACGCCGTAAAAGGTCAGATCTGTAGCAGCGTTTTTGGA-ACAAACGTCGC
1 GCGTTTTTAGAACAAACGCCGCAAAAGGT-AGATCTATAGCAGCG-TTTTGGATACAAACGTCGC
2379673 AAAACATCAGAACT-A-TAGCG
64 AAAACATCAG--CTCAGTAGCG
*
2379693 GCGTTTTTTGATACAAACG
1 GCGTTTTTAGA-ACAAACG
2379712 TCACTAATTA
Statistics
Matches: 84, Mismatches: 14, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
83 25 0.30
84 43 0.51
85 14 0.17
86 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (83 bp):
GCGTTTTTAGAACAAACGCCGCAAAAGGTAGATCTATAGCAGCGTTTTGGATACAAACGTCGCAA
AACATCAGCTCAGTAGCG
Found at i:2379711 original size:43 final size:41
Alignment explanation
Indices: 2379526--2379713 Score: 157
Period size: 42 Copynumber: 4.5 Consensus size: 41
2379516 AAAAGATCGA
* * * * *
2379526 GCGTTTTTAGAATAAACGCCGCAAAAGGT-GGATCTATAGCG
1 GCGTTTTTGGAACAAACGTCGTAAAAGGTCAGA-CTATAGCG
* *
2379567 GCG-TTTTGTATTCAAACGTCGTAAAAGGTCAG-CTCAGTAGCG
1 GCGTTTTTGGA-ACAAACGTCGTAAAAGGTCAGACT-A-TAGCG
* * * *
2379609 ACGTTTTTGGAACAAACGCCGTAAAAGGTCAGATCTGTAGCA
1 GCGTTTTTGGAACAAACGTCGTAAAAGGTCAGA-CTATAGCG
* **
2379651 GCGTTTTTGGAACAAACGTCGCAAAACATCAGAACTATAGCG
1 GCGTTTTTGGAACAAACGTCGTAAAAGGTCAG-ACTATAGCG
*
2379693 GCGTTTTTTGATACAAACGTC
1 GCGTTTTTGGA-ACAAACGTC
2379714 ACTAATTACC
Statistics
Matches: 117, Mismatches: 21, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
40 7 0.06
41 18 0.15
42 74 0.63
43 16 0.14
44 2 0.02
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (41 bp):
GCGTTTTTGGAACAAACGTCGTAAAAGGTCAGACTATAGCG
Found at i:2379808 original size:16 final size:15
Alignment explanation
Indices: 2379787--2379820 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
2379777 ACCTAAATTT
2379787 AATAACAACAACCATA
1 AATAACAACAA-CATA
2379803 AATAACAACAACATA
1 AATAACAACAACATA
2379818 AAT
1 AAT
2379821 TTTAACAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.65, C:0.21, G:0.00, T:0.15
Consensus pattern (15 bp):
AATAACAACAACATA
Found at i:2381832 original size:210 final size:211
Alignment explanation
Indices: 2381470--2381890 Score: 835
Period size: 210 Copynumber: 2.0 Consensus size: 211
2381460 TAGACCCACT
2381470 TCATGTGATCTGGATTATCTGGATCGAATGCCTTTCCACTGTGAACCTATAAGGTTGAAGAACAG
1 TCATGTGATCTGGATTATCTGGATCGAATGCCTTTCCACTGTGAACCTATAAGGTTGAAGAACAG
2381535 AATTGTCATGAAATATGAGAATCAACCGATATGTCATCTATTTACGAAAGCAGAAACAAGACAAA
66 AATTGTCATGAAATATGAGAATCAACCGATATGTCATCTATTTACGAAAGCAGAAACAAGACAAA
2381600 TTACTACCTCATCCCATTTAATTAAGTGAGAATATTCAATACAATGAGCTGCATTTCT-GGGGTT
131 TTACTACCTCATCCCATTTAATTAAGTGAGAATATTCAATACAATGAGCTGCATTTCTGGGGGTT
2381664 TTTGCTAAGGTACACA
196 TTTGCTAAGGTACACA
2381680 TCATGTGATCTGGATTATCTGGATCGAATGCCTTTCCACTGTGAACCTATAAGGTTGAAGAACAG
1 TCATGTGATCTGGATTATCTGGATCGAATGCCTTTCCACTGTGAACCTATAAGGTTGAAGAACAG
2381745 AATTGTCATGAAATATGAGAATCAACCGATATGTCATCTATTTACGAAAGCAGAAACAAGACAAA
66 AATTGTCATGAAATATGAGAATCAACCGATATGTCATCTATTTACGAAAGCAGAAACAAGACAAA
2381810 TTACTACCTCATCCCATTTAATTAAGTGAGAATATTCAATACAATGAGCTGCATTTCTGGGGGTT
131 TTACTACCTCATCCCATTTAATTAAGTGAGAATATTCAATACAATGAGCTGCATTTCTGGGGGTT
2381875 TTTGCTAAGGTACACA
196 TTTGCTAAGGTACACA
2381891 GAGGAAAAAG
Statistics
Matches: 210, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
210 188 0.90
211 22 0.10
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (211 bp):
TCATGTGATCTGGATTATCTGGATCGAATGCCTTTCCACTGTGAACCTATAAGGTTGAAGAACAG
AATTGTCATGAAATATGAGAATCAACCGATATGTCATCTATTTACGAAAGCAGAAACAAGACAAA
TTACTACCTCATCCCATTTAATTAAGTGAGAATATTCAATACAATGAGCTGCATTTCTGGGGGTT
TTTGCTAAGGTACACA
Found at i:2382909 original size:41 final size:41
Alignment explanation
Indices: 2382795--2383189 Score: 531
Period size: 41 Copynumber: 9.5 Consensus size: 41
2382785 TATGACAATT
* *
2382795 GCGGCGTTTGGTACT-AAAACACCACTAAAGTACGCGTCTATA
1 GCGGCGTTT-GTA-TAAAAACGCCACTAAAGTACGAGTCTATA
* *
2382837 GCGGCGTTTGGTATTAAAACGCCACAAAAGTACGAGTCTATA
1 GCGGCGTTT-GTATAAAAACGCCACTAAAGTACGAGTCTATA
*
2382879 GCGGCGTTTATATAAAAACGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
* * *
2382920 GCGGCGTTTGTGTAAAAACGCCACTACAGTATGAGTCTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
*
2382961 GCGGCGTTTGTATAAAAAACGCCACTAAAGTACGCGTCTATA
1 GCGGCGTTTGTAT-AAAAACGCCACTAAAGTACGAGTCTATA
* * * *
2383003 GCGACGTTTGGTATTAAAACGCCACAAAAATACGAGTCTATA
1 GCGGCGTTT-GTATAAAAACGCCACTAAAGTACGAGTCTATA
* *
2383045 TCGGCGTTTATATAAAAACGCCACTAAAGTACGAGTCTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
* *
2383086 GCGGCGTTTGTGTAAAAACGCCACTACAGTACGAGTCTATA
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
* * * * *
2383127 GCGGTGTTTATATAAAAACGCCACTAAAGTAAGAGTCTTTT
1 GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
*
2383168 GCGGCGTTTGTATATAAACGCC
1 GCGGCGTTTGTATAAAAACGCC
2383190 GCTATATGTT
Statistics
Matches: 311, Mismatches: 39, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
41 197 0.63
42 110 0.35
43 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.22, T:0.26
Consensus pattern (41 bp):
GCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTATA
Found at i:2383043 original size:166 final size:165
Alignment explanation
Indices: 2382810--2383157 Score: 624
Period size: 166 Copynumber: 2.1 Consensus size: 165
2382800 GTTTGGTACT
* * *
2382810 AAAACACCACTAAAGTACGCGTCTATAGCGGCGTTTGGTATTAAAACGCCACAAAAGTACGAGTC
1 AAAACGCCACTAAAGTACGCGTCTATAGCGACGTTTGGTATTAAAACGCCACAAAAATACGAGTC
2382875 TATAGCGGCGTTTATATAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTGTAAAAACG
66 TATAGCGGCGTTTATATAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTGTAAAAACG
* *
2382940 CCACTACAGTATGAGTCTATAGCGGCGTTTGTATAA
131 CCACTACAGTACGAGTCTATAGCGGCGTTTATAT-A
2382976 AAAACGCCACTAAAGTACGCGTCTATAGCGACGTTTGGTATTAAAACGCCACAAAAATACGAGTC
1 AAAACGCCACTAAAGTACGCGTCTATAGCGACGTTTGGTATTAAAACGCCACAAAAATACGAGTC
*
2383041 TATATCGGCGTTTATATAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTGTAAAAACG
66 TATAGCGGCGTTTATATAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTGTAAAAACG
*
2383106 CCACTACAGTACGAGTCTATAGCGGTGTTTATATA
131 CCACTACAGTACGAGTCTATAGCGGCGTTTATATA
2383141 AAAACGCCACTAAAGTA
1 AAAACGCCACTAAAGTA
2383158 AGAGTCTTTT
Statistics
Matches: 175, Mismatches: 7, Indels: 1
0.96 0.04 0.01
Matches are distributed among these distances:
165 18 0.10
166 157 0.90
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (165 bp):
AAAACGCCACTAAAGTACGCGTCTATAGCGACGTTTGGTATTAAAACGCCACAAAAATACGAGTC
TATAGCGGCGTTTATATAAAAACGCCACTAAAGTACGAGTCTATAGCGGCGTTTGTGTAAAAACG
CCACTACAGTACGAGTCTATAGCGGCGTTTATATA
Found at i:2384364 original size:19 final size:19
Alignment explanation
Indices: 2384326--2384368 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
2384316 GTATCACAAA
2384326 AAGAATTCCATTCAGAATC
1 AAGAATTCCATTCAGAATC
* **
2384345 AAGAGTTCCATTCATTATC
1 AAGAATTCCATTCAGAATC
2384364 AAGAA
1 AAGAA
2384369 GAACGTTTTC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.42, C:0.19, G:0.12, T:0.28
Consensus pattern (19 bp):
AAGAATTCCATTCAGAATC
Found at i:2385845 original size:30 final size:30
Alignment explanation
Indices: 2385751--2385871 Score: 97
Period size: 30 Copynumber: 4.0 Consensus size: 30
2385741 TTTCTCGCCG
* * **
2385751 ATTGAAGTATTCTTCGTCATCTTCTCT-TCA
1 ATTGAAGTATTTTTCGCCCCCTTCT-TGTCA
* *
2385781 ATTGAAGTATTCTTTCTCCCCAC--CTCGTCA
1 ATTGAAGTATT-TTTCGCCCC-CTTCTTGTCA
*
2385811 ATTGAAGTATTTTTCGCCCCCTTCTTGTCG
1 ATTGAAGTATTTTTCGCCCCCTTCTTGTCA
* *
2385841 ATTGAAGGATTTTTC-CTCCTCTTCTTGTCA
1 ATTGAAGTATTTTTCGC-CCCCTTCTTGTCA
2385871 A
1 A
2385872 CTAGAGTATC
Statistics
Matches: 73, Mismatches: 12, Indels: 12
0.75 0.12 0.12
Matches are distributed among these distances:
28 1 0.01
29 9 0.12
30 58 0.79
31 4 0.05
32 1 0.01
ACGTcount: A:0.18, C:0.26, G:0.12, T:0.43
Consensus pattern (30 bp):
ATTGAAGTATTTTTCGCCCCCTTCTTGTCA
Found at i:2393757 original size:138 final size:137
Alignment explanation
Indices: 2393509--2393931 Score: 546
Period size: 138 Copynumber: 3.1 Consensus size: 137
2393499 TTAAGGTCAA
* * ** * *
2393509 TTGACCTTTCTAATTGCAATAAACTACGGAATATCCCTGATCTATCAGGAGCCATCAACCTTCAA
1 TTGACCTTTCTGATTGCAAGAGTCTAAGGAAAATCCC-GATCTATCAGGAGCCATCAACCTTCAA
* * *
2393574 AGCTTTTACTGCAATGGGTGTGAAAATTTGGTT-AAGCTGCCTTGCCTTAACCATTTGGCATCTC
65 AGCATTTGCTGCAATGGGTGTGAAAATTTGGTTGAA-CTGCCTTGCCTCAACCATTTGGCATCTC
2393638 TTGAAAAAC
129 TTGAAAAAC
* *
2393647 TTGACCTTTCTGGTTGCAAGAGTCTAAGGAAAATCCCGAGTCTATCAAGAGCCATCAACCTTCAA
1 TTGACCTTTCTGATTGCAAGAGTCTAAGGAAAATCCCGA-TCTATCAGGAGCCATCAACCTTCAA
* * *
2393712 AGCATTTGCTGCAATGGGTGTGAAAATTTGATTGAACTACCTTGCCTCAACCACTTGGCATCTCT
65 AGCATTTGCTGCAATGGGTGTGAAAATTTGGTTGAACTGCCTTGCCTCAACCATTTGGCATCTCT
2393777 TGAAAAAC
130 TGAAAAAC
* * * * *
2393785 TTGGCCTTTCTGACTGCAAGAGTCTAATGG-AGATCCCTAATCTATCAGGAGCCATCAACCTCCA
1 TTGACCTTTCTGATTGCAAGAGTCTAA-GGAAAATCCC-GATCTATCAGGAGCCATCAACCTTCA
* * * *
2393849 AAGCCTTTGCTGCAATGGGTGTGAAAATTTGGTTGAAATGCCTTCCCTCAACCAATTT-GTATCT
64 AAGCATTTGCTGCAATGGGTGTGAAAATTTGGTTGAACTGCCTTGCCTCAACC-ATTTGGCATCT
**
2393913 CTTGAAATCC
128 CTTGAAAAAC
2393923 TTGACCTTT
1 TTGACCTTT
2393932 ATTGTTGCAG
Statistics
Matches: 249, Mismatches: 31, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
137 2 0.01
138 239 0.96
139 8 0.03
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (137 bp):
TTGACCTTTCTGATTGCAAGAGTCTAAGGAAAATCCCGATCTATCAGGAGCCATCAACCTTCAAA
GCATTTGCTGCAATGGGTGTGAAAATTTGGTTGAACTGCCTTGCCTCAACCATTTGGCATCTCTT
GAAAAAC
Found at i:2393962 original size:138 final size:137
Alignment explanation
Indices: 2393541--2393984 Score: 516
Period size: 138 Copynumber: 3.2 Consensus size: 137
2393531 ACTACGGAAT
* * *
2393541 ATCCCTGATCTATCAGGAGCCATCAACCTTCAAAGCTTTTACTGCAATGGGTGTGAAAATTTGGT
1 ATCCCTAATCTATCAGGAGCCATCAACCTTCAAAGCATTTGCTGCAATGGGTGTGAAAATTTGGT
* *
2393606 T-AAGCTGCCTTGCCTTAACC-ATTTGGCATCTCTTGAAAAACTTGACCTTTCTGGTTGCAAGAG
66 TGAA-CTGCCTTGCCTCAACCAATTT-GCATCTCTTGAAAAACTTGACCTTT-TTGTTGCAAGAG
* *
2393669 TCTAAGGAAA
128 TCTAAGTAAG
* * * *
2393679 ATCCCGAGTCTATCAAGAGCCATCAACCTTCAAAGCATTTGCTGCAATGGGTGTGAAAATTTGAT
1 ATCCCTAATCTATCAGGAGCCATCAACCTTCAAAGCATTTGCTGCAATGGGTGTGAAAATTTGGT
* * * * * *
2393744 TGAACTACCTTGCCTCAACCACTTGGCATCTCTTGAAAAACTTGGCCTTTCTGACTGCAAGAGTC
66 TGAACTGCCTTGCCTCAACCAATTTGCATCTCTTGAAAAACTTGACCTTTTTG-TTGCAAGAGTC
*
2393809 TAA-TGGAG
130 TAAGT-AAG
* *
2393817 ATCCCTAATCTATCAGGAGCCATCAACCTCCAAAGCCTTTGCTGCAATGGGTGTGAAAATTTGGT
1 ATCCCTAATCTATCAGGAGCCATCAACCTTCAAAGCATTTGCTGCAATGGGTGTGAAAATTTGGT
* * * ** * * *
2393882 TGAAATGCCTTCCCTCAACCAATTTGTATCTCTTGAAATCCTTGACCTTTATTGTTGCAGGAATT
66 TGAACTGCCTTGCCTCAACCAATTTGCATCTCTTGAAAAACTTGACCTTT-TTGTTGCAAGAGTC
2393947 TAAGTAAG
130 TAAGTAAG
* * ** *
2393955 ATTCCTAATCCATTTGTAGCCATCAACCTT
1 ATCCCTAATCTATCAGGAGCCATCAACCTT
2393985 AAATCACTTA
Statistics
Matches: 255, Mismatches: 45, Indels: 12
0.82 0.14 0.04
Matches are distributed among these distances:
137 1 0.00
138 247 0.97
139 7 0.03
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (137 bp):
ATCCCTAATCTATCAGGAGCCATCAACCTTCAAAGCATTTGCTGCAATGGGTGTGAAAATTTGGT
TGAACTGCCTTGCCTCAACCAATTTGCATCTCTTGAAAAACTTGACCTTTTTGTTGCAAGAGTCT
AAGTAAG
Found at i:2396916 original size:30 final size:30
Alignment explanation
Indices: 2396882--2396985 Score: 108
Period size: 29 Copynumber: 3.6 Consensus size: 30
2396872 GAAACAGAAT
* *
2396882 GGGGAAATAGGTCGCAT-ACAGAATCAGGAC
1 GGGGAAATAGATCCCATGA-AGAATCAGGAC
2396912 GGGG-AATAGATCCCATGAAGAATCAGGAC
1 GGGGAAATAGATCCCATGAAGAATCAGGAC
* * * *
2396941 GGGG-AATAAATCCCCTGCAGAATCAAGAC
1 GGGGAAATAGATCCCATGAAGAATCAGGAC
*
2396970 -GGGAAATAAATCCCAT
1 GGGGAAATAGATCCCAT
2396986 TTAGATATCA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
28 3 0.05
29 57 0.88
30 5 0.08
ACGTcount: A:0.38, C:0.19, G:0.28, T:0.14
Consensus pattern (30 bp):
GGGGAAATAGATCCCATGAAGAATCAGGAC
Found at i:2396933 original size:29 final size:29
Alignment explanation
Indices: 2396901--2396985 Score: 125
Period size: 29 Copynumber: 2.9 Consensus size: 29
2396891 GGTCGCATAC
*
2396901 AGAATCAGGACGGGGAATAGATCCCATGA
1 AGAATCAGGACGGGGAATAAATCCCATGA
* *
2396930 AGAATCAGGACGGGGAATAAATCCCCTGC
1 AGAATCAGGACGGGGAATAAATCCCATGA
* *
2396959 AGAATCAAGACGGGAAATAAATCCCAT
1 AGAATCAGGACGGGGAATAAATCCCAT
2396986 TTAGATATCA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 50 1.00
ACGTcount: A:0.40, C:0.20, G:0.26, T:0.14
Consensus pattern (29 bp):
AGAATCAGGACGGGGAATAAATCCCATGA
Found at i:2397530 original size:13 final size:13
Alignment explanation
Indices: 2397512--2397541 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2397502 AGGTTATTGA
*
2397512 TCAACGGTCAAGG
1 TCAACGGTCAAAG
2397525 TCAACGGTCAAAG
1 TCAACGGTCAAAG
2397538 TCAA
1 TCAA
2397542 TGGTTAATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (13 bp):
TCAACGGTCAAAG
Found at i:2398422 original size:50 final size:50
Alignment explanation
Indices: 2398360--2398457 Score: 196
Period size: 50 Copynumber: 2.0 Consensus size: 50
2398350 CTCATTCTCG
2398360 TAACTCAGATAAGATCTCAGCTCAACATTTTCAACAGAAATAACATGGAA
1 TAACTCAGATAAGATCTCAGCTCAACATTTTCAACAGAAATAACATGGAA
2398410 TAACTCAGATAAGATCTCAGCTCAACATTTTCAACAGAAATAACATGG
1 TAACTCAGATAAGATCTCAGCTCAACATTTTCAACAGAAATAACATGG
2398458 GACGGGTCAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.24
Consensus pattern (50 bp):
TAACTCAGATAAGATCTCAGCTCAACATTTTCAACAGAAATAACATGGAA
Found at i:2398955 original size:25 final size:26
Alignment explanation
Indices: 2398906--2398956 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
2398896 GCATAAACTG
2398906 AATCTTACTTTGATAACGTCAAAGAA
1 AATCTTACTTTGATAACGTCAAAGAA
2398932 AATCTTACTTTGAT-ACGTCAAAGAA
1 AATCTTACTTTGATAACGTCAAAGAA
2398957 TCTACTAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
25 11 0.44
26 14 0.56
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (26 bp):
AATCTTACTTTGATAACGTCAAAGAA
Found at i:2400833 original size:29 final size:29
Alignment explanation
Indices: 2400793--2400867 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
2400783 GGGAATGAGG
*
2400793 TCCCATGAAGAATCAGGACGAGGAATAAA
1 TCCCATGCAGAATCAGGACGAGGAATAAA
* * *
2400822 TCTCATGCAGAATTAGGACGGGGAATAAA
1 TCCCATGCAGAATCAGGACGAGGAATAAA
2400851 TCCCATGCAGATATCAG
1 TCCCATGCAGA-ATCAG
2400868 AAATGCATCA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
29 35 0.90
30 4 0.10
ACGTcount: A:0.39, C:0.19, G:0.24, T:0.19
Consensus pattern (29 bp):
TCCCATGCAGAATCAGGACGAGGAATAAA
Found at i:2402683 original size:64 final size:64
Alignment explanation
Indices: 2402630--2402792 Score: 236
Period size: 65 Copynumber: 2.5 Consensus size: 64
2402620 CGGTGCACCA
*
2402630 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
** * **
2402694 CTTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGG
1 AGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCCAGAGTGCATCGATGCATGG
* * *
2402759 AGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 AGTGTGCATCGATGCATGAAATGCATTCGATGTT
2402793 CAATTAATTC
Statistics
Matches: 86, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
64 31 0.36
65 55 0.64
ACGTcount: A:0.27, C:0.16, G:0.27, T:0.30
Consensus pattern (64 bp):
AGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCAGAGTGCATCGATGCATGG
Found at i:2402764 original size:19 final size:19
Alignment explanation
Indices: 2402740--2402790 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
2402730 GAAAATATTC
2402740 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
2402759 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
2402778 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
2402791 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:2402832 original size:65 final size:65
Alignment explanation
Indices: 2402634--2402841 Score: 223
Period size: 65 Copynumber: 3.2 Consensus size: 65
2402624 GCACCAAGTG
* * ** *
2402634 TGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCCTGAGTGCATCGATGCATGG-CTTG
1 TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGAC-TG
2402698 -
65 A
* * *
2402698 TGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTCAGAGTGCATCGATGCATGGA--G
1 TGCATCGGTGCATGAAATGCATTCGATG-TTTCAAAATATTCAGAGTGCATCGATGCATGGACTG
2402761 A
65 A
* *
2402762 GTGCATCGGTGCATGGAATGCATTCGATG-TTC-AATTAATTCATCGA-TGCATCGATGCATGGA
1 -TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAAT-ATTCA--GAGTGCATCGATGCATGGA
2402824 CTGA
62 CTGA
2402828 TGCATCGGTGCATG
1 TGCATCGGTGCATG
2402842 CCTTTGAATA
Statistics
Matches: 126, Mismatches: 9, Indels: 17
0.83 0.06 0.11
Matches are distributed among these distances:
62 3 0.02
63 8 0.06
64 43 0.34
65 70 0.56
66 2 0.02
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (65 bp):
TGCATCGGTGCATGAAATGCATTCGATGTTTCAAAATATTCAGAGTGCATCGATGCATGGACTGA
Found at i:2403147 original size:18 final size:18
Alignment explanation
Indices: 2403105--2403147 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
2403095 CATTTTCATC
* *
2403105 ATCATTATTAATTTTATT
1 ATCATTATCAATATTATT
*
2403123 ATAATTATCAATATTATT
1 ATCATTATCAATATTATT
*
2403141 CTCATTA
1 ATCATTA
2403148 ATCCCTCTTA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCATTATCAATATTATT
Found at i:2404942 original size:21 final size:21
Alignment explanation
Indices: 2404901--2404957 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
2404891 TCGATGTTTC
*
2404901 CTGGTATCGATACCCTCCATA
1 CTGGTATCGATACTCTCCATA
* *
2404922 CTGGTATCGATACTGTTCATA
1 CTGGTATCGATACTCTCCATA
* *
2404943 CAGGTACCGATACTC
1 CTGGTATCGATACTC
2404958 CATGCGTAAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.25, C:0.28, G:0.18, T:0.30
Consensus pattern (21 bp):
CTGGTATCGATACTCTCCATA
Found at i:2405801 original size:20 final size:20
Alignment explanation
Indices: 2405776--2405815 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
2405766 TAGTCGGCGG
*
2405776 TCAAAATCAACTGTCAACGA
1 TCAAAATCAACGGTCAACGA
2405796 TCAAAATCAACGGTCAACGA
1 TCAAAATCAACGGTCAACGA
2405816 GTCGGGTTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.45, C:0.25, G:0.12, T:0.17
Consensus pattern (20 bp):
TCAAAATCAACGGTCAACGA
Found at i:2406283 original size:17 final size:16
Alignment explanation
Indices: 2406254--2406286 Score: 57
Period size: 17 Copynumber: 2.0 Consensus size: 16
2406244 CGTACAGTAG
2406254 GAAAGAAATAAAGAAA
1 GAAAGAAATAAAGAAA
2406270 GAAAGAAGATAAAGAAA
1 GAAAGAA-ATAAAGAAA
2406287 AAGTGGGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.73, C:0.00, G:0.21, T:0.06
Consensus pattern (16 bp):
GAAAGAAATAAAGAAA
Found at i:2410295 original size:138 final size:138
Alignment explanation
Indices: 2410074--2410590 Score: 720
Period size: 138 Copynumber: 3.7 Consensus size: 138
2410064 GTGAGTCTGG
* * * * **
2410074 GGAAGATCCCTAATCTATCAGGAGCCATCAACCTTCAAAGC-CTT-TGCTGC-AGTGGGTGTGA-
1 GGAAGATCCCTAATCCATCAGGAGCCATCAACCTT-AAATCACTTAAG-TGCAAAT-ACTGT-AC
*
2410135 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACTTTTCTTATT
62 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
* *
2410200 GCAAGAGTCT-A
127 GCAAGAATTTAA
* * * **
2410211 GTGGAGATCCCTAATCTATCAAGAGCCATCAACCTTAAATCACTTAAGTGCAGTTACTGTACAAG
1 G-GAAGATCCCTAATCCATCAGGAGCCATCAACCTTAAATCACTTAAGTGCAAATACTGTACAAG
2410276 TTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATTGCA
65 TTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATTGCA
2410341 AGAATTTAA
130 AGAATTTAA
* **
2410350 GGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCAAATACTGTACAAGT
1 GGAAGATCCCTAATCCATCAGGAGCCATCAACCTTAAATCACTTAAGTGCAAATACTGTACAAGT
**
2410415 TTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTGGTTGCAA
66 TTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATTGCAA
2410480 GAATTTAA
131 GAATTTAA
* **
2410488 GGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCAAATACTGTACAAGT
1 GGAAGATCCCTAATCCATCAGGAGCCATCAACCTTAAATCACTTAAGTGCAAATACTGTACAAGT
* * * *
2410553 TTGGTTGAACTACCTTTCTTCAACCATTTGGCATCTCT
66 TTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCT
2410591 CAAAGAGCTC
Statistics
Matches: 349, Mismatches: 25, Indels: 11
0.91 0.06 0.03
Matches are distributed among these distances:
137 6 0.02
138 339 0.97
139 4 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (138 bp):
GGAAGATCCCTAATCCATCAGGAGCCATCAACCTTAAATCACTTAAGTGCAAATACTGTACAAGT
TTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATTGCAA
GAATTTAA
Found at i:2414398 original size:92 final size:92
Alignment explanation
Indices: 2414218--2414496 Score: 393
Period size: 92 Copynumber: 3.0 Consensus size: 92
2414208 TTTTTTATAC
* * * * * *
2414218 TTCTTCAT-GTAATTAAATGTAGAAATATTATAAAATAATGAAGCGTAATTTA-TAAGTAAACAT
1 TTCTTCATAG-AATTAAATGTAAAAATATTATAAAAAAATGAAGAGTAGTTTACCAAGTAAACTT
* *
2414281 GACAACGATCTTATCTTTATAAAAACCT
65 GACAATGCTCTTATCTTTATAAAAACCT
**
2414309 TTCTTCATAGAATTAAATGTAAAAATATTATAAAAAAAACAAGAGTAGTTTACCAAGTAAACTTG
1 TTCTTCATAGAATTAAATGTAAAAATATTATAAAAAAATGAAGAGTAGTTTACCAAGTAAACTTG
*
2414374 ACAATGCTCTTATCTTTATAAAAACCC
66 ACAATGCTCTTATCTTTATAAAAACCT
* *
2414401 TTCTTCATAGAATTAAATGCAAAAATATTATTAAAAAATGAA-ACGTAGTTTACCAAGTAAACTT
1 TTCTTCATAGAATTAAATGTAAAAATATTATAAAAAAATGAAGA-GTAGTTTACCAAGTAAACTT
*
2414465 GACAATGCTCTTGTCTTTATAAAAACCT
65 GACAATGCTCTTATCTTTATAAAAACCT
2414493 TTCT
1 TTCT
2414497 CCAATTAAAT
Statistics
Matches: 168, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
91 45 0.27
92 123 0.73
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.34
Consensus pattern (92 bp):
TTCTTCATAGAATTAAATGTAAAAATATTATAAAAAAATGAAGAGTAGTTTACCAAGTAAACTTG
ACAATGCTCTTATCTTTATAAAAACCT
Found at i:2416132 original size:30 final size:29
Alignment explanation
Indices: 2416057--2416163 Score: 106
Period size: 30 Copynumber: 3.6 Consensus size: 29
2416047 CCTCCTCGTT
* * *
2416057 CTTCTCGTCAACTCAAGTATTCTTTCTCCC
1 CTTCTCGCCAATTGAAGTA-TCTTTCTCCC
* *
2416087 CTTGTCGTCAATTGAAGTATCCTTTCTCCC
1 CTTCTCGCCAATTGAAGTAT-CTTTCTCCC
* *
2416117 CTTCTCGCCAGTTGAAGTATTTTTCATCCC
1 CTTCTCGCCAATTGAAGTATCTTTC-TCCC
* *
2416147 CTTCTTGTCAATTGAAG
1 CTTCTCGCCAATTGAAG
2416164 GATTCTTCAC
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
29 5 0.08
30 60 0.92
ACGTcount: A:0.18, C:0.30, G:0.12, T:0.40
Consensus pattern (29 bp):
CTTCTCGCCAATTGAAGTATCTTTCTCCC
Found at i:2416135 original size:60 final size:60
Alignment explanation
Indices: 2416071--2416224 Score: 165
Period size: 60 Copynumber: 2.6 Consensus size: 60
2416061 TCGTCAACTC
* *
2416071 AAGTATTCTTTCTCCCCTTGTCGTCAATTGAAGTATCCTTTCTCCC-CTTCTCGCCAGTTG
1 AAGTATTCTTTCTCCCCTTCTCGTCAATTGAAGTATCC-TTCACCCTCTTCTCGCCAGTTG
* * * **
2416131 AAGTATT-TTTCATCCCCTTCTTGTCAATTGAAGGATTCTTCACCCTCTTCTCTTCAGTTG
1 AAGTATTCTTTC-TCCCCTTCTCGTCAATTGAAGTATCCTTCACCCTCTTCTCGCCAGTTG
* * *
2416191 AAGGATTC--T-TCCTCTTCTCGTCAATGGAAGTATC
1 AAGTATTCTTTCTCCCCTTCTCGTCAATTGAAGTATC
2416225 AAGTTTTCTT
Statistics
Matches: 78, Mismatches: 13, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
57 20 0.26
59 11 0.14
60 47 0.60
ACGTcount: A:0.18, C:0.28, G:0.14, T:0.40
Consensus pattern (60 bp):
AAGTATTCTTTCTCCCCTTCTCGTCAATTGAAGTATCCTTCACCCTCTTCTCGCCAGTTG
Found at i:2416220 original size:27 final size:28
Alignment explanation
Indices: 2416056--2416220 Score: 98
Period size: 30 Copynumber: 5.6 Consensus size: 28
2416046 CCCTCCTCGT
* * *
2416056 TCTTCTCGTCAACTCAAGTATTCTTTCTCC
1 TCTTCTCGTCAATTGAAGGATTC-TTC-CC
* * * *
2416086 CCTTGTCGTCAATTGAAGTATCCTTTCTCC
1 TCTTCTCGTCAATTGAAGGATTC-TTC-CC
* * * * *
2416116 CCTTCTCGCCAGTTGAAGTATTTTTCATCC
1 TCTTCTCGTCAATTGAAGGATTCTTC--CC
* *
2416146 CCTTCTTGTCAATTGAAGGATTCTTCACCC
1 TCTTCTCGTCAATTGAAGGATTCTT--CCC
* *
2416176 TCTTCTCTTCAGTTGAAGGATTCTT-CC
1 TCTTCTCGTCAATTGAAGGATTCTTCCC
*
2416203 TCTTCTCGTCAATGGAAG
1 TCTTCTCGTCAATTGAAG
2416221 TATCAAGTTT
Statistics
Matches: 110, Mismatches: 22, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
27 17 0.15
29 3 0.03
30 89 0.81
32 1 0.01
ACGTcount: A:0.18, C:0.29, G:0.13, T:0.40
Consensus pattern (28 bp):
TCTTCTCGTCAATTGAAGGATTCTTCCC
Found at i:2416618 original size:15 final size:15
Alignment explanation
Indices: 2416598--2416646 Score: 71
Period size: 15 Copynumber: 3.3 Consensus size: 15
2416588 GTGACGAAGA
2416598 GAAATTGAAGCAGTG
1 GAAATTGAAGCAGTG
**
2416613 GAAATTGAAGCAGCA
1 GAAATTGAAGCAGTG
*
2416628 GAAAGTGAAGCAGTG
1 GAAATTGAAGCAGTG
2416643 GAAA
1 GAAA
2416647 GCTGACTTGG
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.45, C:0.08, G:0.33, T:0.14
Consensus pattern (15 bp):
GAAATTGAAGCAGTG
Found at i:2421690 original size:29 final size:29
Alignment explanation
Indices: 2421627--2421682 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
2421617 AAAGAGGTCC
*
2421627 CATGAAGAATCAGGACAGAGAATAAATAT
1 CATGCAGAATCAGGACAGAGAATAAATAT
*
2421656 CATGCAGAATCAGGACAGTGAATAAAT
1 CATGCAGAATCAGGACAGAGAATAAAT
2421683 CCTATGCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.48, C:0.12, G:0.21, T:0.18
Consensus pattern (29 bp):
CATGCAGAATCAGGACAGAGAATAAATAT
Found at i:2424968 original size:138 final size:138
Alignment explanation
Indices: 2424805--2425402 Score: 955
Period size: 138 Copynumber: 4.3 Consensus size: 138
2424795 ATGGGTGTGA
*
2424805 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTATTGAAAGCCTTGACCTTTCTTATT
1 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
* * *
2424870 GCAAGAATTTAAGGAAGATTCCTAATCCATTTCGAGCCATCAACCTTAAATCACTTGAGTGCTAT
66 GCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCAAT
2424935 TACTGTAC
131 TACTGTAC
* *
2424943 AAGTTTGGTTGAACTATCTTGCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
1 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
*
2425008 GCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCAAA
66 GCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCAAT
2425073 TACTGTAC
131 TACTGTAC
* *
2425081 AAGTTTGGTTGAACTACCTTCCCTCAACAAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTTTT
1 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
* * * *
2425146 GCGAGAATTTAAGGAAGATTTCTGATCCATTTGGAGCCATCAACCTTAAATCAATTAAGTGCAAT
66 GCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCAAT
2425211 TACTGTAC
131 TACTGTAC
* * * *
2425219 AAGTTTGATTGAATTACCTTCTCTCAACCAATTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
1 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
* * * *
2425284 GCGAGAATTTAAGGAAGAATCCTGAA-CCATTTGGAGCCATCAACCTTAAATCACTTGAGTGCTA
66 GCAAGAATTTAAGGAAGATTCCT-AATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCAA
2425348 TTACTGTAC
130 TTACTGTAC
* * * *
2425357 AAGTTTGGTTGAACTATCTTGCCTCAACCATTTGGCATCTCTTGAA
1 AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAA
2425403 GAGCTTGGAC
Statistics
Matches: 424, Mismatches: 35, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
138 423 1.00
139 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.34
Consensus pattern (138 bp):
AAGTTTGGTTGAACTACCTTCCCTCAACCAGTTGGTATCTCTTGAAAGCCTTGACCTTTCTTATT
GCAAGAATTTAAGGAAGATTCCTAATCCATTTGGAGCCATCAACCTTAAATCACTTAAGTGCAAT
TACTGTAC
Found at i:2432135 original size:192 final size:192
Alignment explanation
Indices: 2431808--2432186 Score: 749
Period size: 192 Copynumber: 2.0 Consensus size: 192
2431798 GATACAAAGG
2431808 TCATAATTCCTTAATTGCTTAAACCTGAATCAATTGTTTTGTTGTACCCCAGGAAATGAAGTTTC
1 TCATAATTCCTTAATTGCTTAAACCTGAATCAATTGTTTTGTTGTACCCCAGGAAATGAAGTTTC
2431873 GGCAAATGAGTTGAGCATCGAAGCGTGAATTCTCGGATAAATTTAAAGATAGCCCCAAATGGGTG
66 GGCAAATGAGTTGAGCATCGAAGCGTGAATTCTCGGATAAATTTAAAGATAGCCCCAAATGGGTG
2431938 TAATGGGAGCAGATTCTTGGCATTTGCTTTATGCTTTTTGGCTACCAACTGACAGCTACCGA
131 TAATGGGAGCAGATTCTTGGCATTTGCTTTATGCTTTTTGGCTACCAACTGACAGCTACCGA
*
2432000 TCATAATTCCTTAATTGCTTAAACCTGAATCAATTGTTTTGTTGTATCCCAGGAAATGAAGTTTC
1 TCATAATTCCTTAATTGCTTAAACCTGAATCAATTGTTTTGTTGTACCCCAGGAAATGAAGTTTC
2432065 GGCAAATGAGTTGAGCATCGAAGCGTGAATTCTCGGATAAATTTAAAGATAGCCCCAAATGGGTG
66 GGCAAATGAGTTGAGCATCGAAGCGTGAATTCTCGGATAAATTTAAAGATAGCCCCAAATGGGTG
2432130 TAATGGGAGCAGATTCTTGGCATTTGCTTTATGCTTTTTGGCTACCAACTGACAGCT
131 TAATGGGAGCAGATTCTTGGCATTTGCTTTATGCTTTTTGGCTACCAACTGACAGCT
2432187 GCCAGTGGTG
Statistics
Matches: 186, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
192 186 1.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.32
Consensus pattern (192 bp):
TCATAATTCCTTAATTGCTTAAACCTGAATCAATTGTTTTGTTGTACCCCAGGAAATGAAGTTTC
GGCAAATGAGTTGAGCATCGAAGCGTGAATTCTCGGATAAATTTAAAGATAGCCCCAAATGGGTG
TAATGGGAGCAGATTCTTGGCATTTGCTTTATGCTTTTTGGCTACCAACTGACAGCTACCGA
Done.