Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold100
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: 904619
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.34
File 7 of 8
Found at i:785243 original size:27 final size:27
Alignment explanation
Indices: 785213--785309 Score: 88
Period size: 27 Copynumber: 3.5 Consensus size: 27
785203 TGCTGAGGTA
*
785213 CATAAGGAAGCTGGTGCTGAAGATAAC
1 CATAAGGAAGCTGGTGCTGAAGATAGC
** *
785240 CATAAGGAAGCTATCTATGCTAAAGATAGC
1 CATAAGGAAGC--T-GGTGCTGAAGATAGC
** *
785270 CACGAGGAAGTTGGTGCTGAAGATAGC
1 CATAAGGAAGCTGGTGCTGAAGATAGC
785297 CATGAA-GAAGCTG
1 CAT-AAGGAAGCTG
785310 CCAATGCTGA
Statistics
Matches: 53, Mismatches: 13, Indels: 8
0.72 0.18 0.11
Matches are distributed among these distances:
27 31 0.58
28 2 0.04
29 1 0.02
30 19 0.36
ACGTcount: A:0.36, C:0.15, G:0.29, T:0.20
Consensus pattern (27 bp):
CATAAGGAAGCTGGTGCTGAAGATAGC
Found at i:787552 original size:21 final size:21
Alignment explanation
Indices: 787526--787567 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
787516 TATTTGGGAT
*
787526 GGATATTTAGTATGTATTTTG
1 GGATATTTAGGATGTATTTTG
787547 GGATATTTAGGATGTATTTTG
1 GGATATTTAGGATGTATTTTG
787568 TGATGTCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (21 bp):
GGATATTTAGGATGTATTTTG
Found at i:787578 original size:12 final size:12
Alignment explanation
Indices: 787518--787585 Score: 52
Period size: 12 Copynumber: 5.8 Consensus size: 12
787508 GATCGTAGTA
*
787518 TTTGGGATGGAT
1 TTTGGGATGTAT
* *
787530 ATTTAGTATGTAT
1 -TTTGGGATGTAT
787543 TTTGGGA--TA-
1 TTTGGGATGTAT
*
787552 TTTAGGATGTAT
1 TTTGGGATGTAT
* *
787564 TTTGTGATGTCT
1 TTTGGGATGTAT
787576 TTTGGGATGT
1 TTTGGGATGT
787586 TTGATCCTTA
Statistics
Matches: 42, Mismatches: 10, Indels: 7
0.71 0.17 0.12
Matches are distributed among these distances:
9 6 0.14
10 2 0.05
11 2 0.05
12 23 0.55
13 9 0.21
ACGTcount: A:0.19, C:0.01, G:0.29, T:0.50
Consensus pattern (12 bp):
TTTGGGATGTAT
Found at i:791681 original size:2 final size:2
Alignment explanation
Indices: 791669--791699 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
791659 ATTTTGATAA
791669 AT AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
791700 GAAAATTTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:792918 original size:2 final size:2
Alignment explanation
Indices: 792911--792937 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
792901 TATTAAGATC
792911 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
792938 GTGTTGTGTG
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:794193 original size:2 final size:2
Alignment explanation
Indices: 794188--794213 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
794178 AAAAAATTTG
794188 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
794214 GAAAGTTAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:795195 original size:28 final size:30
Alignment explanation
Indices: 795142--795210 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
795132 CTAGTCTTAT
795142 ATAAATATATAAAAACTAAAATTTTTTAAC
1 ATAAATATATAAAAACTAAAATTTTTTAAC
*
795172 ATAAATATATAAAAA-TTAAA-TTTTTAAC
1 ATAAATATATAAAAACTAAAATTTTTTAAC
*
795200 AAAAATA-ATAA
1 ATAAATATATAA
795211 TTATATTCGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
27 4 0.11
28 14 0.38
29 4 0.11
30 15 0.41
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (30 bp):
ATAAATATATAAAAACTAAAATTTTTTAAC
Found at i:795631 original size:18 final size:17
Alignment explanation
Indices: 795604--795638 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
795594 TTTGATGCAT
*
795604 TTTATCATTAAATATTTA
1 TTTATAATTAAAT-TTTA
795622 TTTATAATTAAATTTTA
1 TTTATAATTAAATTTTA
795639 CTATTTAACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (17 bp):
TTTATAATTAAATTTTA
Found at i:796264 original size:2 final size:2
Alignment explanation
Indices: 796257--796298 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
796247 TATTCCTCTT
*
796257 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT 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
796299 GTTACAGATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:796415 original size:15 final size:15
Alignment explanation
Indices: 796395--796432 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
796385 AGGATTATTT
796395 TAAATAATATATATA
1 TAAATAATATATATA
*
796410 TAAATAAAATATATA
1 TAAATAATATATATA
*
796425 TAATTAAT
1 TAAATAAT
796433 GCATTTTTTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
TAAATAATATATATA
Found at i:796488 original size:23 final size:23
Alignment explanation
Indices: 796440--796490 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
796430 AATGCATTTT
* * *
796440 TTAAATTTAATAAAAATAACATA
1 TTAAATGTAAAAAAAATAACAAA
796463 TTAAATGTAAAAAAAATTAA-AAA
1 TTAAATGTAAAAAAAA-TAACAAA
796486 TTAAA
1 TTAAA
796491 ATGATAATCA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 21 0.88
24 3 0.12
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (23 bp):
TTAAATGTAAAAAAAATAACAAA
Found at i:796968 original size:22 final size:22
Alignment explanation
Indices: 796940--797004 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
796930 TCAAAATTAC
*
796940 AATTTAATAAAAAAATTATTTA
1 AATTTAATAAAAAAATTATATA
* *
796962 AATTTAATTATAAAA-TATATA
1 AATTTAATAAAAAAATTATATA
* *
796983 AATATTAATATAAAAATAATAT
1 AAT-TTAATAAAAAAATTATAT
797005 TTTAATAATA
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
21 8 0.24
22 22 0.65
23 4 0.12
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
AATTTAATAAAAAAATTATATA
Found at i:801666 original size:2 final size:2
Alignment explanation
Indices: 801659--801697 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
801649 TCGAAGTACC
801659 AT AT AT AT AT AT 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 AT AT AT AT AT AT A
801698 ACCCTAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:811623 original size:84 final size:84
Alignment explanation
Indices: 811466--811623 Score: 219
Period size: 84 Copynumber: 1.9 Consensus size: 84
811456 ACTTATCAGC
* * * * *
811466 ATCCAACACTCAAACCTAAATCTGACTAACATAAATTTATGCTATTTTTGAGATCCGAATCCATT
1 ATCCAACACTCAAACCCAAATCTGACGAACATAAATTTATACTATTTTTGAAATCCAAATCCATT
*
811531 TGATGAAATGCATAGCGGT
66 TGACGAAATGCATAGCGGT
* * *
811550 ATCCAACAGTCAAACCCAATTCTGACGAACGTAAATTTATACTATTTTTGAAATCCAAATCCATC
1 ATCCAACACTCAAACCCAAATCTGACGAACATAAATTTATACTATTTTTGAAATCCAAATCCAT-
811615 TT-ACGAAAT
65 TTGACGAAAT
811624 TTAAATTCCC
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
84 62 0.97
85 2 0.03
ACGTcount: A:0.37, C:0.22, G:0.11, T:0.30
Consensus pattern (84 bp):
ATCCAACACTCAAACCCAAATCTGACGAACATAAATTTATACTATTTTTGAAATCCAAATCCATT
TGACGAAATGCATAGCGGT
Found at i:812539 original size:7 final size:7
Alignment explanation
Indices: 812527--812558 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
812517 ACAATTTAAA
812527 AAATTTT
1 AAATTTT
812534 AAATTTT
1 AAATTTT
812541 AAA-TTT
1 AAATTTT
812547 AAA-TTT
1 AAATTTT
812553 AAATTT
1 AAATTT
812559 AATTTAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
AAATTTT
Found at i:812549 original size:6 final size:6
Alignment explanation
Indices: 812531--812565 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
812521 TTTAAAAAAT
812531 TTTAAA TTTTAAA TTTAAA TTTAAA TTT-AA TTTAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAAA TTTAA
812566 TTAATTTATT
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTTAAA
Found at i:812977 original size:20 final size:21
Alignment explanation
Indices: 812952--813006 Score: 87
Period size: 20 Copynumber: 2.7 Consensus size: 21
812942 GTTTTAAATC
812952 TATTTTATTAAATATA-TTTA
1 TATTTTATTAAATATATTTTA
812972 TATTTTATTAAATATATTTTA
1 TATTTTATTAAATATATTTTA
*
812993 AATTTT-TTAAATAT
1 TATTTTATTAAATAT
813007 TAATTTAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
20 24 0.73
21 9 0.27
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATTAAATATATTTTA
Found at i:813013 original size:21 final size:21
Alignment explanation
Indices: 812953--813014 Score: 83
Period size: 20 Copynumber: 3.0 Consensus size: 21
812943 TTTTAAATCT
*
812953 ATTTTATTAAATAT-ATTTAT
1 ATTTTATTAAATATAATTTAA
*
812973 ATTTTATTAAATATATTTTAA
1 ATTTTATTAAATATAATTTAA
812994 ATTTT-TTAAATATTAATTTAA
1 ATTTTATTAAATA-TAATTTAA
813015 TTATTTCAGT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 21 0.57
21 16 0.43
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (21 bp):
ATTTTATTAAATATAATTTAA
Found at i:813900 original size:17 final size:16
Alignment explanation
Indices: 813878--813909 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
813868 AAATAATAAT
813878 AATATTATTATTATTAC
1 AATATTATT-TTATTAC
813895 AATATTATTTTATTA
1 AATATTATTTTATTA
813910 ATATAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
AATATTATTTTATTAC
Found at i:815747 original size:47 final size:48
Alignment explanation
Indices: 815685--815777 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 48
815675 TTTCTTTTAC
815685 ATAATTTTTTTTATTTCTCTATTTTCAATTATTTATTGTAATAATAGT
1 ATAATTTTTTTTATTTCTCTATTTTCAATTATTTATTGTAATAATAGT
* *
815733 ATAA-TTTTTTTATTTTTTTATTTTCAATTATTTATTGTAATAATA
1 ATAATTTTTTTTATTTCTCTATTTTCAATTATTTATTGTAATAATA
815778 ATATTAGTAA
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
47 39 0.91
48 4 0.09
ACGTcount: A:0.30, C:0.04, G:0.03, T:0.62
Consensus pattern (48 bp):
ATAATTTTTTTTATTTCTCTATTTTCAATTATTTATTGTAATAATAGT
Found at i:819032 original size:10 final size:9
Alignment explanation
Indices: 819014--819047 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
819004 CTTGGATTAC
819014 TATTTAAAA
1 TATTTAAAA
819023 TATATTAAAA
1 TAT-TTAAAA
*
819033 TATTAAAAA
1 TATTTAAAA
819042 TATTTA
1 TATTTA
819048 TACTTATATA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
TATTTAAAA
Found at i:819605 original size:22 final size:22
Alignment explanation
Indices: 819580--819634 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
819570 AATATAATAA
*
819580 AATATTATAAATATTTTTAATT
1 AATATTATAAATATTTATAATT
* *
819602 AATATAATATATATTTATAATT
1 AATATTATAAATATTTATAATT
819624 AA-ATT-TAAATA
1 AATATTATAAATA
819635 AAAATATTAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
20 5 0.18
21 2 0.07
22 21 0.75
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
AATATTATAAATATTTATAATT
Found at i:820005 original size:19 final size:20
Alignment explanation
Indices: 819983--820026 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
819973 ATTTTATTTT
819983 ATATAAAT-TTAATTATAA-A
1 ATATAAATATTAA-TATAACA
820002 ATATAAATATTAATATAACA
1 ATATAAATATTAATATAACA
820022 ATATA
1 ATATA
820027 TTTTTAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
ATATAAATATTAATATAACA
Found at i:821749 original size:19 final size:19
Alignment explanation
Indices: 821704--821741 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
821694 TCTATTCATA
821704 ATTATATTTAAAATATTAT
1 ATTATATTTAAAATATTAT
* *
821723 ATTATATTTTAATTATTAT
1 ATTATATTTAAAATATTAT
821742 TTAATATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTATATTTAAAATATTAT
Found at i:822239 original size:22 final size:21
Alignment explanation
Indices: 822185--822239 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 21
822175 TCTCAGGTTA
*
822185 TTTTTTTATTTAATTCACATT
1 TTTTTTTTTTTAATTCACATT
*
822206 TTTTTTTATTTTAATT-AGATT
1 TTTTTTT-TTTTAATTCACATT
822227 TTGTTGTTTTTTT
1 TT-TT-TTTTTTT
822240 TGTTTTAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
21 13 0.45
22 13 0.45
23 3 0.10
ACGTcount: A:0.18, C:0.04, G:0.05, T:0.73
Consensus pattern (21 bp):
TTTTTTTTTTTAATTCACATT
Found at i:822313 original size:22 final size:23
Alignment explanation
Indices: 822243--822314 Score: 76
Period size: 23 Copynumber: 3.2 Consensus size: 23
822233 TTTTTTTTGT
* * *
822243 TTTAATTGGGTTTTTAGTTTAAG
1 TTTAAATGGGTTTTAAGTTTAAA
* *
822266 TTTAGATGGGTTTTTAA-TTTAGA
1 TTTAAATGGG-TTTTAAGTTTAAA
822289 TTTAAATGGG-TTTAAGTTTAAA
1 TTTAAATGGGTTTTAAGTTTAAA
822311 TTTA
1 TTTA
822315 TATTTTATTA
Statistics
Matches: 40, Mismatches: 7, Indels: 5
0.77 0.13 0.10
Matches are distributed among these distances:
21 5 0.12
22 9 0.22
23 21 0.52
24 5 0.12
ACGTcount: A:0.28, C:0.00, G:0.19, T:0.53
Consensus pattern (23 bp):
TTTAAATGGGTTTTAAGTTTAAA
Found at i:824249 original size:53 final size:53
Alignment explanation
Indices: 824169--824276 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
824159 AAACACGAAC
824169 ATAGACATAAAATATGAGTATGATATGATATGATAAGATACGATGATATTCGA
1 ATAGACATAAAATATGAGTATGATATGATATGATAAGATACGATGATATTCGA
*
824222 ATAGACATAAAATATGAGTATGATATGATATGATAAGATACGATGATATTTGA
1 ATAGACATAAAATATGAGTATGATATGATATGATAAGATACGATGATATTCGA
824275 AT
1 AT
824277 TGTTAAAAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.45, C:0.05, G:0.19, T:0.31
Consensus pattern (53 bp):
ATAGACATAAAATATGAGTATGATATGATATGATAAGATACGATGATATTCGA
Found at i:824472 original size:23 final size:22
Alignment explanation
Indices: 824431--824473 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
824421 TAATTTTATG
* *
824431 TTTAAATTTAATTTTAAAATTA
1 TTTAAATTTAATATAAAAATTA
824453 TTTAAATATTAATATAAAAAT
1 TTTAAAT-TTAATATAAAAAT
824474 AAATTTGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTAAATTTAATATAAAAATTA
Found at i:826631 original size:2 final size:2
Alignment explanation
Indices: 826624--826651 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
826614 CTAACCAAGT
826624 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
826652 AAGTTTGATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:826888 original size:15 final size:16
Alignment explanation
Indices: 826863--826894 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
826853 TTTTATTTAA
826863 ATTTAATTATAAAAAT
1 ATTTAATTATAAAAAT
826879 ATTT-ATTATAAAAAT
1 ATTTAATTATAAAAAT
826894 A
1 A
826895 ATATTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (16 bp):
ATTTAATTATAAAAAT
Found at i:827568 original size:19 final size:19
Alignment explanation
Indices: 827541--827635 Score: 70
Period size: 19 Copynumber: 4.8 Consensus size: 19
827531 TAATAATTCG
*
827541 TATATTTTTATTATATTTA
1 TATAATTTTATTATATTTA
827560 TATAATTTTA-TATA-TTA
1 TATAATTTTATTATATTTA
* *
827577 TAATCATATTTATTATATATACA
1 T-ATAAT-TTTATTATAT-T-TA
*
827600 TATATATTTTAATATA-TTA
1 TATA-ATTTTATTATATTTA
*
827619 AATAATTTATATTATAT
1 TATAATTT-TATTATAT
827636 AAATTCTGAT
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
17 4 0.07
18 12 0.20
19 23 0.39
20 5 0.08
22 11 0.19
23 4 0.07
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (19 bp):
TATAATTTTATTATATTTA
Found at i:827595 original size:22 final size:20
Alignment explanation
Indices: 827541--827628 Score: 62
Period size: 21 Copynumber: 4.5 Consensus size: 20
827531 TAATAATTCG
*
827541 TATATTT-TTATTATATT-TA
1 TATATTTATTA-TATATTAAA
*
827560 TATAATT-TTATATATTATAA
1 TATATTTATTATATATTA-AA
827580 TCATATTTATTATATA-TACATA
1 T-ATATTTATTATATATTA-A-A
*
827602 TATATTT-TAATATATTAAA
1 TATATTTATTATATATTAAA
827621 TA-ATTTAT
1 TATATTTAT
827629 ATTATATAAA
Statistics
Matches: 57, Mismatches: 5, Indels: 14
0.75 0.07 0.18
Matches are distributed among these distances:
18 10 0.18
19 13 0.23
20 9 0.16
21 16 0.28
22 9 0.16
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TATATTTATTATATATTAAA
Found at i:827871 original size:21 final size:22
Alignment explanation
Indices: 827844--827895 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
827834 AATTAATAAA
827844 AAATTTTAAAATATTTAT-ATT
1 AAATTTTAAAATATTTATAATT
* * * *
827865 AATTTTTTATATTTTTATAATT
1 AAATTTTAAAATATTTATAATT
827887 AAATTTTAA
1 AAATTTTAA
827896 TAAAAATATT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
21 14 0.58
22 10 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (22 bp):
AAATTTTAAAATATTTATAATT
Found at i:828170 original size:47 final size:48
Alignment explanation
Indices: 828088--828221 Score: 111
Period size: 47 Copynumber: 2.8 Consensus size: 48
828078 TATAATATAA
* **
828088 ATAAAATATTAAATATATAATATAATATAAATATATGTATTAAAATTT
1 ATAAAATAATAAATATATAATATAATATAAATATATAAATTAAAATTT
*
828136 ATAAAA-AATAAAT-TATTAATATATTA-AAATTATATAAATTAAAAAATATT
1 ATAAAATAATAAATATA-TAATATAATATAAA-TATATAAATT--AAAAT-TT
* * *
828186 -TTAAAT-AT-AAT-TATAATAAAATAAAAATATATAAAT
1 ATAAAATAATAAATATATAATATAATATAAATATATAAAT
828222 ATAACATAAA
Statistics
Matches: 72, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
46 5 0.07
47 40 0.56
48 14 0.19
49 11 0.15
50 2 0.03
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.39
Consensus pattern (48 bp):
ATAAAATAATAAATATATAATATAATATAAATATATAAATTAAAATTT
Found at i:828198 original size:31 final size:30
Alignment explanation
Indices: 828163--828225 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 30
828153 AATATATTAA
* *
828163 AATTAT-ATAAATTAAAAAATATTTTAAATAT
1 AATTATAATAAAAT-AAAAATA-TATAAATAT
828194 AATTATAATAAAATAAAAATATATAAATAT
1 AATTATAATAAAATAAAAATATATAAATAT
828224 AA
1 AA
828226 CATAAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
30 10 0.34
31 13 0.45
32 6 0.21
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (30 bp):
AATTATAATAAAATAAAAATATATAAATAT
Found at i:828225 original size:16 final size:16
Alignment explanation
Indices: 828160--828225 Score: 57
Period size: 17 Copynumber: 4.2 Consensus size: 16
828150 ATTAATATAT
*
828160 TAAAATTATATAAAT-
1 TAAAAATATATAAATA
*
828175 TAAAAAATATTTTAAATA
1 T-AAAAATA-TATAAATA
**
828193 TAATTATA-ATAAA-A
1 TAAAAATATATAAATA
828207 TAAAAATATATAAATA
1 TAAAAATATATAAATA
828223 TAA
1 TAA
828226 CATAAATAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 9
0.71 0.13 0.16
Matches are distributed among these distances:
14 7 0.18
15 10 0.26
16 10 0.26
17 11 0.28
18 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAAAATATATAAATA
Found at i:828234 original size:30 final size:31
Alignment explanation
Indices: 828177--828234 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
828167 ATATAAATTA
* *
828177 AAAAATATTTTAAATATAATTATAATAAAAT
1 AAAAATATTATAAATATAAATATAATAAAAT
828208 AAAAATA-TATAAATATAACATA-AATAA
1 AAAAATATTATAAATATAA-ATATAATAA
828235 TCTCAAGTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 15 0.62
31 9 0.38
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (31 bp):
AAAAATATTATAAATATAAATATAATAAAAT
Found at i:828249 original size:19 final size:19
Alignment explanation
Indices: 828227--828264 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
828217 TAAATATAAC
828227 ATAAATAATCTCAAGTGAA
1 ATAAATAATCTCAAGTGAA
828246 ATAAATAATCTCAAGTGAA
1 ATAAATAATCTCAAGTGAA
828265 TGGTGAATGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.26
Consensus pattern (19 bp):
ATAAATAATCTCAAGTGAA
Found at i:828688 original size:14 final size:13
Alignment explanation
Indices: 828664--828702 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
828654 TTAATATTTA
828664 AAAAAATTTAAAT
1 AAAAAATTTAAAT
828677 AAAAAATATTAAAT
1 AAAAAAT-TTAAAT
**
828691 TTAAAATTTAAA
1 AAAAAATTTAAA
828703 AAAGATTAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 12 0.52
14 11 0.48
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
AAAAAATTTAAAT
Found at i:828713 original size:22 final size:23
Alignment explanation
Indices: 828675--828724 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
828665 AAAAATTTAA
*
828675 ATAAAAAATATTAAATTTAAAAT
1 ATAAAAAAGATTAAATTTAAAAT
*
828698 TTAAAAAAGATT-AATTTAAAAT
1 ATAAAAAAGATTAAATTTAAAAT
828720 ATAAA
1 ATAAA
828725 TCGAGTTTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 14 0.58
23 10 0.42
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (23 bp):
ATAAAAAAGATTAAATTTAAAAT
Found at i:829558 original size:26 final size:26
Alignment explanation
Indices: 829512--829574 Score: 67
Period size: 26 Copynumber: 2.5 Consensus size: 26
829502 ATATTTTTAT
*
829512 AAAATA-AAAATTACTTAATATAATA
1 AAAATATAAAATTAATTAATATAATA
*
829537 AAAATATAAAATTAA-TATATATTATA
1 AAAATATAAAATTAATTA-ATATAATA
* *
829563 TAATTATAAAAT
1 AAAATATAAAAT
829575 GAGCTAGATT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 8 0.25
26 24 0.75
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (26 bp):
AAAATATAAAATTAATTAATATAATA
Found at i:829971 original size:25 final size:26
Alignment explanation
Indices: 829943--829993 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
829933 ATGTTTTTTT
*
829943 AATAT-ATAAAAGA-TCATAATTCAAA
1 AATATAATAAAAAATTCA-AATTCAAA
829968 AATATAATAAAAAATTCAAATTCAAA
1 AATATAATAAAAAATTCAAATTCAAA
829994 TCTATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 5 0.22
26 15 0.65
27 3 0.13
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (26 bp):
AATATAATAAAAAATTCAAATTCAAA
Found at i:830711 original size:6 final size:6
Alignment explanation
Indices: 830702--830732 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
830692 TAAAATAATT
830702 TATTTA TATTTA TATTTA TATTTA TATTTA T
1 TATTTA TATTTA TATTTA TATTTA TATTTA T
830733 TATTAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:830931 original size:20 final size:19
Alignment explanation
Indices: 830895--830938 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
830885 TAATTATTAA
* *
830895 ATAATTATTATTTATTTTG
1 ATAATTATTAATAATTTTG
*
830914 ATAACTTATTAATAATTTTT
1 ATAA-TTATTAATAATTTTG
830934 ATAAT
1 ATAAT
830939 AAAAATTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (19 bp):
ATAATTATTAATAATTTTG
Found at i:831161 original size:29 final size:30
Alignment explanation
Indices: 831108--831166 Score: 93
Period size: 29 Copynumber: 2.0 Consensus size: 30
831098 CCAAGTAACT
831108 ATTTAATAATAAAAAAATATTTTTATTTAA
1 ATTTAATAATAAAAAAATATTTTTATTTAA
* *
831138 ATTTAATTAT-AAAAATTATTTTTATTTAA
1 ATTTAATAATAAAAAAATATTTTTATTTAA
831167 TTGTAAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 18 0.67
30 9 0.33
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (30 bp):
ATTTAATAATAAAAAAATATTTTTATTTAA
Found at i:831177 original size:29 final size:29
Alignment explanation
Indices: 831115--831182 Score: 86
Period size: 29 Copynumber: 2.4 Consensus size: 29
831105 ACTATTTAAT
*
831115 AATA-AAAAAATATTTTTATTTAAATTTA
1 AATATAAAAATTATTTTTATTTAAATTTA
*
831143 ATTATAAAAATTATTTTTATTT-AATTGTA
1 AATATAAAAATTATTTTTATTTAAATT-TA
*
831172 AATATATAAAT
1 AATATAAAAAT
831183 ATTAATATAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.21
29 27 0.79
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
AATATAAAAATTATTTTTATTTAAATTTA
Found at i:831722 original size:14 final size:14
Alignment explanation
Indices: 831703--831730 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
831693 ATATTAAAAA
831703 AATATTTTTATATT
1 AATATTTTTATATT
831717 AATATTTTTATATT
1 AATATTTTTATATT
831731 TTATAATTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
AATATTTTTATATT
Found at i:832080 original size:82 final size:85
Alignment explanation
Indices: 831938--832104 Score: 268
Period size: 83 Copynumber: 2.0 Consensus size: 85
831928 ACTGATTAAC
*
831938 AATTAGTTATTTATCATTTTGGGAAAAATTTTTATATTTAATATATTATTTTATTGAATT-AAAA
1 AATTAGTTATTTATCATTTTGGG-AAAATTTTTATATTTAATATATTATTTTATTAAATTAAAAA
*
832002 ATAATTAATTAATTACATTTT
65 ATAATAAATTAATTACATTTT
* *
832023 AATTAGTTTTTTATCATTTTTGG-AAATTTTT-TATTTAATATATTATTTTATTAAATTAAAAAA
1 AATTAGTTATTTATCATTTTGGGAAAATTTTTATATTTAATATATTATTTTATTAAATTAAAAAA
832086 TAATAAATTAATTACATTT
66 TAATAAATTAATTACATTT
832105 ATATATATAT
Statistics
Matches: 77, Mismatches: 4, Indels: 4
0.91 0.05 0.05
Matches are distributed among these distances:
82 25 0.32
83 31 0.40
85 21 0.27
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (85 bp):
AATTAGTTATTTATCATTTTGGGAAAATTTTTATATTTAATATATTATTTTATTAAATTAAAAAA
TAATAAATTAATTACATTTT
Found at i:832120 original size:82 final size:83
Alignment explanation
Indices: 831938--832120 Score: 230
Period size: 82 Copynumber: 2.2 Consensus size: 83
831928 ACTGATTAAC
* *
831938 AATTAGTTATTTATCATTTTGGGAAAAATTTTTATATTTAATATATTATTTTATTGAATTAAAAA
1 AATTAG-TATATATCATTTTGGG-AAAATTTTTATATTTAATATATTATTTTATTAAATTAAAAA
*
832003 TAATTAATTAATTACATTTT
64 TAATAAATTAATTACATTTT
* * *
832023 AATTAGTTTTTTATCATTTTTGG-AAATTTTT-TATTTAATATATTATTTTATTAAATTAAAAAA
1 AATTAG-TATATATCATTTTGGGAAAATTTTTATATTTAATATATTATTTTATTAAATT-AAAAA
832086 TAATAAATTAATTACA-TTT
64 TAATAAATTAATTACATTTT
832105 ATATATA-TATATATCA
1 A-AT-TAGTATATATCA
832121 ATCAATATCA
Statistics
Matches: 89, Mismatches: 6, Indels: 9
0.86 0.06 0.09
Matches are distributed among these distances:
82 36 0.40
83 30 0.34
84 2 0.02
85 21 0.24
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.52
Consensus pattern (83 bp):
AATTAGTATATATCATTTTGGGAAAATTTTTATATTTAATATATTATTTTATTAAATTAAAAATA
ATAAATTAATTACATTTT
Found at i:832266 original size:18 final size:19
Alignment explanation
Indices: 832243--832282 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
832233 TATAATAAAG
*
832243 TATTAAAATTT-TATTTTT
1 TATTAAAATTTATATATTT
*
832261 TATTAATATTTATATATTT
1 TATTAAAATTTATATATTT
832280 TAT
1 TAT
832283 AATTAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 10 0.53
19 9 0.47
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TATTAAAATTTATATATTT
Found at i:832506 original size:30 final size:31
Alignment explanation
Indices: 832447--832515 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
832437 TTGTACTTTT
*
832447 AATTTTAATGATTATAATTCAATTAGTTCAA
1 AATTTCAATGATTATAATTCAATTAGTTCAA
*
832478 AATTTCAATGATTATAATTTAA-TAGTTCAA
1 AATTTCAATGATTATAATTCAATTAGTTCAA
832508 AATTTCAA
1 AATTTCAA
832516 GTTTTAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
30 16 0.44
31 20 0.56
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.43
Consensus pattern (31 bp):
AATTTCAATGATTATAATTCAATTAGTTCAA
Found at i:833294 original size:3 final size:3
Alignment explanation
Indices: 833288--833327 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
833278 TAATGGCGAC
833288 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
833328 CTGAGAAAAG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:833817 original size:19 final size:19
Alignment explanation
Indices: 833793--833833 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
833783 GAGTTAATTA
833793 TAAAATATTATTTATTAT-T
1 TAAAATATTATTT-TTATAT
833812 TAAAATATTATTTTTATAT
1 TAAAATATTATTTTTATAT
833831 TAA
1 TAA
833834 TATTTATAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TAAAATATTATTTTTATAT
Found at i:834075 original size:14 final size:14
Alignment explanation
Indices: 834056--834110 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
834046 AAATACAAAA
834056 AAAATTTAAATATT
1 AAAATTTAAATATT
834070 AAAATTTAAA-ACTTT
1 AAAATTTAAATA--TT
*
834085 AAATTTATTAAATATT
1 AAA-AT-TTAAATATT
834101 -AAATTTAAAT
1 AAAATTTAAAT
834111 CTCACATGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 11
0.72 0.04 0.23
Matches are distributed among these distances:
13 7 0.21
14 11 0.32
15 7 0.21
16 3 0.09
17 5 0.15
18 1 0.03
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAATTTAAATATT
Found at i:834104 original size:16 final size:16
Alignment explanation
Indices: 834061--834107 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
834051 CAAAAAAAAT
834061 TTAAATATTAAAATTTA
1 TTAAATATT-AAATTTA
834078 --AAACT-TTAAATTTA
1 TTAAA-TATTAAATTTA
834092 TTAAATATTAAATTTA
1 TTAAATATTAAATTTA
834108 AATCTCACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
14 7 0.27
15 6 0.23
16 13 0.50
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (16 bp):
TTAAATATTAAATTTA
Found at i:834107 original size:22 final size:22
Alignment explanation
Indices: 834056--834110 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
834046 AAATACAAAA
834056 AAAATTTAAA-TATTAAAATTT
1 AAAATTTAAATTATTAAAATTT
834077 AAAACTTTAAATTTATT-AAATATT
1 AAAA-TTTAAA-TTATTAAAAT-TT
834101 -AAATTTAAAT
1 AAAATTTAAAT
834111 CTCACATGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
21 5 0.17
22 12 0.40
23 7 0.23
24 6 0.20
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAATTTAAATTATTAAAATTT
Found at i:835098 original size:19 final size:17
Alignment explanation
Indices: 835068--835113 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 17
835058 ATATATTAAA
835068 TAAAATATATAAATATTT
1 TAAAATATATAAA-ATTT
835086 TAAAATAATATAAAATTT
1 TAAAAT-ATATAAAATTT
*
835104 GAATAATATA
1 TAA-AATATA
835114 ACATGTGGCC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
TAAAATATATAAAATTT
Found at i:835400 original size:23 final size:23
Alignment explanation
Indices: 835353--835418 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
835343 CTTCGTATAC
835353 AATATAATTATACGATAT-AAAT-AA
1 AATATAA-TATA--ATATAAAATAAA
835377 AATATAATATAATATAAAATTAAA
1 AATATAATATAATATAAAA-TAAA
*
835401 AATATAA-ATAAGATAAAA
1 AATATAATATAATATAAAA
835419 ATATATAAAT
Statistics
Matches: 38, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
21 4 0.11
22 3 0.08
23 15 0.39
24 16 0.42
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (23 bp):
AATATAATATAATATAAAATAAA
Found at i:835406 original size:19 final size:17
Alignment explanation
Indices: 835367--835423 Score: 71
Period size: 17 Copynumber: 3.3 Consensus size: 17
835357 TAATTATACG
*
835367 ATATAAATAAAAT-ATA
1 ATATAAATAAAATAAAA
835383 ATATAATATAAAATTAAAA
1 ATATAA-ATAAAA-TAAAA
*
835402 ATATAAATAAGATAAAA
1 ATATAAATAAAATAAAA
835419 ATATA
1 ATATA
835424 TAAATATATA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
16 6 0.17
17 16 0.44
18 6 0.17
19 8 0.22
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (17 bp):
ATATAAATAAAATAAAA
Found at i:835408 original size:35 final size:35
Alignment explanation
Indices: 835367--835438 Score: 94
Period size: 35 Copynumber: 2.1 Consensus size: 35
835357 TAATTATACG
*
835367 ATATAAATAAAATATAATATAATATAAA-AT-TAAAA
1 ATATAAATAAAATA-AAAAT-ATATAAATATATAAAA
*
835402 ATATAAATAAGATAAAAATATATAAATATATAAAA
1 ATATAAATAAAATAAAAATATATAAATATATAAAA
835437 AT
1 AT
835439 TATATTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
33 7 0.21
34 6 0.18
35 20 0.61
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (35 bp):
ATATAAATAAAATAAAAATATATAAATATATAAAA
Found at i:835424 original size:19 final size:18
Alignment explanation
Indices: 835369--835442 Score: 71
Period size: 18 Copynumber: 3.9 Consensus size: 18
835359 ATTATACGAT
835369 ATAAATAAAATATAATATAA
1 ATAAATAAAA-AT-ATATAA
*
835389 TATAAAATTAAAA-ATATAA
1 -AT-AAATAAAAATATATAA
835408 ATAAGATAAAAATATATAA
1 ATAA-ATAAAAATATATAA
*
835427 ATATATAAAAAT-TATA
1 ATAAATAAAAATATATA
835443 TTTTATAAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
17 6 0.13
18 16 0.34
19 15 0.32
21 3 0.06
22 7 0.15
ACGTcount: A:0.68, C:0.00, G:0.01, T:0.31
Consensus pattern (18 bp):
ATAAATAAAAATATATAA
Found at i:835430 original size:8 final size:8
Alignment explanation
Indices: 835375--835438 Score: 60
Period size: 9 Copynumber: 7.6 Consensus size: 8
835365 CGATATAAAT
835375 AAAATATA
1 AAAATATA
835383 ATATAATAT-
1 A-A-AATATA
835392 AAAAT-TA
1 AAAATATA
835399 AAAATATA
1 AAAATATA
*
835407 AATAAGATA
1 AA-AATATA
835416 AAAATATA
1 AAAATATA
835424 TAAATATATA
1 -AAA-ATATA
835434 AAAAT
1 AAAAT
835439 TATATTTTAT
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
6 1 0.02
7 8 0.17
8 13 0.28
9 15 0.32
10 10 0.21
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.30
Consensus pattern (8 bp):
AAAATATA
Found at i:835431 original size:25 final size:24
Alignment explanation
Indices: 835353--835418 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
835343 CTTCGTATAC
*
835353 AATATAATTATACGATATAAA-T-AA
1 AATATAA-TATAAGATA-AAATTAAA
*
835377 AATATAATATAATATAAAATTAAA
1 AATATAATATAAGATAAAATTAAA
835401 AATATAA-ATAAGATAAAA
1 AATATAATATAAGATAAAA
835419 ATATATAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
22 3 0.08
23 18 0.49
24 16 0.43
ACGTcount: A:0.65, C:0.02, G:0.03, T:0.30
Consensus pattern (24 bp):
AATATAATATAAGATAAAATTAAA
Found at i:835499 original size:21 final size:21
Alignment explanation
Indices: 835475--835522 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
835465 TATCAATAAT
*
835475 AATATAA-TATAAAATATTTTA
1 AATATAATTATAAAATA-TTAA
*
835496 AATAAAATTATAAAATATTAA
1 AATATAATTATAAAATATTAA
835517 AATATA
1 AATATA
835523 TAAACATGAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AATATAATTATAAAATATTAA
Found at i:835515 original size:10 final size:9
Alignment explanation
Indices: 835497--835545 Score: 50
Period size: 8 Copynumber: 5.6 Consensus size: 9
835487 AATATTTTAA
835497 ATAAAAT-T
1 ATAAAATAT
835505 ATAAAATAT
1 ATAAAATAT
835514 -TAAAATAT
1 ATAAAATAT
835522 ATAAACATGAT
1 ATAAA-AT-AT
*
835533 A-AAAATAA
1 ATAAAATAT
835541 ATAAA
1 ATAAA
835546 TCACCGAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
8 17 0.49
9 10 0.29
10 5 0.14
11 3 0.09
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (9 bp):
ATAAAATAT
Found at i:835526 original size:17 final size:17
Alignment explanation
Indices: 835374--835545 Score: 59
Period size: 17 Copynumber: 9.8 Consensus size: 17
835364 ACGATATAAA
*
835374 TAAAATATAATATAATA-
1 TAAAATAT-ATAAAATAT
835391 TAAAAT-TA-AAAATAT
1 TAAAATATATAAAATAT
* *
835406 AAATAAGATA-AAAATA-
1 TAA-AATATATAAAATAT
835422 TATAAATATATAAAA-AT
1 TA-AAATATATAAAATAT
* * * *
835439 TATATTTTATAAATTAT
1 TAAAATATATAAAATAT
** * *
835456 TATCATATATATCAATAA
1 TAAAATATATA-AAATAT
*
835474 TAATATAATATAAAATATTT
1 TAAAAT-ATATAAAATA--T
*
835494 TAAATAAAATTATAAAATAT
1 T-AA-AATA-TATAAAATAT
835514 TAAAATATATAAACATGAT
1 TAAAATATATAAA-AT-AT
* *
835533 AAAAATAAATAAA
1 TAAAATATATAAA
835546 TCACCGAATC
Statistics
Matches: 115, Mismatches: 24, Indels: 30
0.68 0.14 0.18
Matches are distributed among these distances:
14 5 0.04
15 3 0.03
16 18 0.16
17 37 0.32
18 16 0.14
19 20 0.17
20 3 0.03
21 3 0.03
22 10 0.09
ACGTcount: A:0.62, C:0.02, G:0.01, T:0.35
Consensus pattern (17 bp):
TAAAATATATAAAATAT
Found at i:836231 original size:2 final size:2
Alignment explanation
Indices: 836224--836261 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
836214 ACCAAAATAA
836224 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
836262 GCTTTAGGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:836764 original size:28 final size:26
Alignment explanation
Indices: 836719--836770 Score: 68
Period size: 28 Copynumber: 1.9 Consensus size: 26
836709 ACTTATTTTA
*
836719 TTTTTTAAAAATATTAAATAAAATAT
1 TTTTTTAAAAATAATAAATAAAATAT
*
836745 TTTTATTAATAAATAATAAATCAAAT
1 TTTT-TTAA-AAATAATAAATAAAAT
836771 CGATTTAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 4 0.18
27 4 0.18
28 14 0.64
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (26 bp):
TTTTTTAAAAATAATAAATAAAATAT
Found at i:837092 original size:2 final size:2
Alignment explanation
Indices: 837085--837113 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
837075 TCAACATCAA
837085 AT 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 AT A
837114 ATTAAACATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:837174 original size:19 final size:18
Alignment explanation
Indices: 837150--837186 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
837140 AGATTTAATA
*
837150 ATTTATGTATTTATGTTAT
1 ATTTATATATTT-TGTTAT
837169 ATTTATATATTTTGTTAT
1 ATTTATATATTTTGTTAT
837187 GTTATGATCG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (18 bp):
ATTTATATATTTTGTTAT
Found at i:837724 original size:14 final size:15
Alignment explanation
Indices: 837707--837772 Score: 57
Period size: 16 Copynumber: 4.4 Consensus size: 15
837697 ATTTTAAAAG
837707 TATTAAAATT-TTTA
1 TATTAAAATTATTTA
*
837721 TATTAATATTTATTTA
1 TATTAA-AATTATTTA
*
837737 TTTTAAAATTAAATTTA
1 TATTAAAATT--ATTTA
*
837754 -ATTAAAA-TATTTT
1 TATTAAAATTATTTA
837767 TATTAA
1 TATTAA
837773 TAAATATTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
13 4 0.10
14 11 0.26
15 7 0.17
16 15 0.36
17 5 0.12
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTAAAATTATTTA
Found at i:837786 original size:18 final size:17
Alignment explanation
Indices: 837725--837786 Score: 51
Period size: 16 Copynumber: 3.7 Consensus size: 17
837715 TTTTTATATT
* *
837725 AATATTTATTTATTTTA
1 AATATTAATTTATTATA
837742 AA-ATTAAATTTAATTA-A
1 AATATT-AATTT-ATTATA
837759 AATATT--TTTATTAATA
1 AATATTAATTTATT-ATA
837775 AATATTAATTTA
1 AATATTAATTTA
837787 AGCAAGCTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
14 3 0.08
15 4 0.11
16 10 0.28
17 9 0.25
18 10 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATATTAATTTATTATA
Found at i:839072 original size:2 final size:2
Alignment explanation
Indices: 839065--839123 Score: 91
Period size: 2 Copynumber: 29.5 Consensus size: 2
839055 TGTATATGAA
* **
839065 AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT GC AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
839107 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
839124 AAGATCAGAT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.49, C:0.03, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:840627 original size:20 final size:20
Alignment explanation
Indices: 840525--840627 Score: 56
Period size: 20 Copynumber: 5.3 Consensus size: 20
840515 TGGTTTGGTT
*
840525 TAAATTATTA-TTTAAATAA
1 TAAAATATTATTTTAAATAA
*
840544 TAAAA-ATTATTTTTAAA-AT
1 TAAAATATTA-TTTTAAATAA
* * *
840563 TTAATTATATATATT-AAT-A
1 TAAAATAT-TATTTTAAATAA
* * *
840582 TATAA-ATTATTTTTAATAT
1 TAAAATATTATTTTAAATAA
**
840601 TTTAATATTATTTTAAATAA
1 TAAAATATTATTTTAAATAA
840621 TAAAATA
1 TAAAATA
840628 AGTGTTTAAG
Statistics
Matches: 60, Mismatches: 16, Indels: 15
0.66 0.18 0.16
Matches are distributed among these distances:
17 5 0.08
18 9 0.15
19 16 0.27
20 28 0.47
21 2 0.03
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
TAAAATATTATTTTAAATAA
Found at i:841884 original size:19 final size:19
Alignment explanation
Indices: 841860--841901 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
841850 AAATTAATAG
* *
841860 ATTTAAATATTTAATAAAT
1 ATTTAAATATTCAACAAAT
841879 ATTTAAATATTCAACAAAT
1 ATTTAAATATTCAACAAAT
841898 ATTT
1 ATTT
841902 TTATTTAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATATTCAACAAAT
Found at i:842272 original size:11 final size:11
Alignment explanation
Indices: 842252--842280 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
842242 TTTATTTGAT
842252 TTAA-TTTAAA
1 TTAATTTTAAA
842262 TTAATTTTAAA
1 TTAATTTTAAA
842273 TTAATTTT
1 TTAATTTT
842281 TTATTTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 4 0.22
11 14 0.78
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (11 bp):
TTAATTTTAAA
Found at i:842286 original size:28 final size:27
Alignment explanation
Indices: 842250--842326 Score: 84
Period size: 28 Copynumber: 2.7 Consensus size: 27
842240 AATTTATTTG
842250 ATTTAATTTAAATTAATTTTAAATTAATT
1 ATTT-ATTTAAATTAATTTTAAATT-ATT
* *
842279 TTTTATTTAAATTAA-TTTAGATTATT
1 ATTTATTTAAATTAATTTTAAATTATT
842305 ATTTATTAATAAAATTAATTTT
1 ATTTATT--T-AAATTAATTTT
842327 TATTTAAATT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 9 0.22
27 7 0.17
28 12 0.29
29 10 0.24
30 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.01, T:0.57
Consensus pattern (27 bp):
ATTTATTTAAATTAATTTTAAATTATT
Found at i:842763 original size:20 final size:20
Alignment explanation
Indices: 842738--842777 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
842728 TTGTCACATA
842738 TGTCTTACTTATTCATAAGT
1 TGTCTTACTTATTCATAAGT
*
842758 TGTCTTACTTATTTATAAGT
1 TGTCTTACTTATTCATAAGT
842778 CGAGTTACTC
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:0.25, C:0.12, G:0.10, T:0.53
Consensus pattern (20 bp):
TGTCTTACTTATTCATAAGT
Found at i:842785 original size:20 final size:20
Alignment explanation
Indices: 842741--842786 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
842731 TCACATATGT
* *
842741 CTTACTTATTCATAAGTTGT
1 CTTACTTATTCATAAGTCGA
*
842761 CTTACTTATTTATAAGTCGA
1 CTTACTTATTCATAAGTCGA
*
842781 GTTACT
1 CTTACT
842787 CGCTTAGGCT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.26, C:0.15, G:0.11, T:0.48
Consensus pattern (20 bp):
CTTACTTATTCATAAGTCGA
Found at i:843067 original size:2 final size:2
Alignment explanation
Indices: 843060--843093 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
843050 TTCTCTTTTA
*
843060 AT AT AT AT AT AT AT AT AT AT AT AT AA AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
843094 TAAAGGAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:843442 original size:3 final size:3
Alignment explanation
Indices: 843436--843486 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
843426 GTAGTAGTAT
843436 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
843484 ATA
1 ATA
843487 TACCAAGTTT
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:843860 original size:2 final size:2
Alignment explanation
Indices: 843853--843881 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
843843 CATTTCCATT
843853 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
843882 ATCTATATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:843890 original size:2 final size:2
Alignment explanation
Indices: 843885--843931 Score: 94
Period size: 2 Copynumber: 23.5 Consensus size: 2
843875 TCTCTCTATC
843885 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
843927 TA TA T
1 TA TA T
843932 TCCAATGGGT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:844131 original size:2 final size:2
Alignment explanation
Indices: 844124--844153 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
844114 AACAATTCAC
844124 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
844154 TCGAGTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:846591 original size:34 final size:33
Alignment explanation
Indices: 846553--846620 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
846543 AAAAGATACG
*
846553 TTAAATTATTTAAAAATTAAAATTA-AAAAAAATA
1 TTAAATTA-CTAAAAATT-AAATTATAAAAAAATA
* *
846587 TTAAATTACTAAAGATTTAATTATAAAAAAATA
1 TTAAATTACTAAAAATTAAATTATAAAAAAATA
846620 T
1 T
846621 ATTATTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
32 5 0.17
33 17 0.57
34 8 0.27
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (33 bp):
TTAAATTACTAAAAATTAAATTATAAAAAAATA
Found at i:846624 original size:15 final size:16
Alignment explanation
Indices: 846606--846635 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
846596 TAAAGATTTA
846606 ATTA-TAAAAAAATAT
1 ATTATTAAAAAAATAT
846621 ATTATTAAAAAAATA
1 ATTATTAAAAAAATA
846636 ATATAGGCAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTATTAAAAAAATAT
Found at i:846948 original size:19 final size:19
Alignment explanation
Indices: 846921--847001 Score: 78
Period size: 19 Copynumber: 4.2 Consensus size: 19
846911 GTTAAATAGA
*
846921 TTATCATATTTATATATTT
1 TTATTATATTTATATATTT
846940 TTATTATATTTATATTATTT
1 TTATTATATTTATA-TATTT
*
846960 TTA-TATCATATTATATTTTAT
1 TTATTAT-AT-TTATATATT-T
*
846981 TTTTTAT-TTTATAT-TTT
1 TTATTATATTTATATATTT
846998 TTAT
1 TTAT
847002 CAGTTAATAT
Statistics
Matches: 53, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
17 4 0.08
18 2 0.04
19 22 0.42
20 14 0.26
21 8 0.15
22 3 0.06
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.69
Consensus pattern (19 bp):
TTATTATATTTATATATTT
Found at i:847437 original size:19 final size:21
Alignment explanation
Indices: 847395--847439 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
847385 ATTAGAATAC
* *
847395 AAATATATAATATAATTATTA
1 AAATATATAATAAAATTATAA
847416 AAATATAT-ATAAAATT-TAA
1 AAATATATAATAAAATTATAA
847435 AAATA
1 AAATA
847440 AATTAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 7 0.32
20 7 0.32
21 8 0.36
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
AAATATATAATAAAATTATAA
Found at i:847754 original size:32 final size:32
Alignment explanation
Indices: 847699--847761 Score: 101
Period size: 33 Copynumber: 2.0 Consensus size: 32
847689 TCGTATTTAA
*
847699 AATATTTTATATTTATATAAATTTTGACACATT
1 AATAATTTATATTTATATAAATTTTGA-ACATT
847732 AATAATTTATATTT-TATAAATTTTGAACAT
1 AATAATTTATATTTATATAAATTTTGAACAT
847762 GTATTCTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
31 4 0.14
32 12 0.41
33 13 0.45
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (32 bp):
AATAATTTATATTTATATAAATTTTGAACATT
Found at i:848748 original size:28 final size:27
Alignment explanation
Indices: 848671--848748 Score: 70
Period size: 28 Copynumber: 2.9 Consensus size: 27
848661 TAATAAAAAA
* *
848671 TTATTTTTATAATAAT-ATTTATATATT
1 TTATTATTA-AATAATAATTTAAATATT
** **
848698 TT-TTATTAAATTTTAATAAAAATATTT
1 TTATTATTAAATAATAATTTAAATA-TT
848725 TTATTATTAAATAATAATTTAAAT
1 TTATTATTAAATAATAATTTAAAT
848749 TAAATCCATT
Statistics
Matches: 38, Mismatches: 10, Indels: 5
0.72 0.19 0.09
Matches are distributed among these distances:
25 4 0.11
26 11 0.29
27 6 0.16
28 17 0.45
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (27 bp):
TTATTATTAAATAATAATTTAAATATT
Found at i:849263 original size:15 final size:16
Alignment explanation
Indices: 849235--849270 Score: 65
Period size: 15 Copynumber: 2.3 Consensus size: 16
849225 TTACGCATCG
849235 AATATAATATATATTT
1 AATATAATATATATTT
849251 AATATAA-ATATATTT
1 AATATAATATATATTT
849266 AATAT
1 AATAT
849271 TTTTAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 13 0.65
16 7 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATATAATATATATTT
Found at i:852132 original size:2 final size:2
Alignment explanation
Indices: 852125--852149 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
852115 GGTTTATAAT
852125 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
852150 TTATTGCCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:852414 original size:2 final size:2
Alignment explanation
Indices: 852407--852450 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
852397 ATCTCACTTC
852407 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
852449 AT
1 AT
852451 GTAAAAGGTA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:853236 original size:14 final size:14
Alignment explanation
Indices: 853199--853237 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
853189 TACTAAAATT
853199 ATATTTATAA-ATA
1 ATATTTATAATATA
853212 A-ATTTATAATATA
1 ATATTTATAATATA
*
853225 ATATTTACAATAT
1 ATATTTATAATAT
853238 TAAGTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 8 0.35
13 5 0.22
14 10 0.43
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (14 bp):
ATATTTATAATATA
Found at i:854274 original size:20 final size:20
Alignment explanation
Indices: 854235--854285 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
854225 CCGAATTACT
* *
854235 ATTTAATAAT-AATATTTAA
1 ATTTAATTATAAATATATAA
854254 ATTTAATTATAAATATATAA
1 ATTTAATTATAAATATATAA
854274 ATATTAA-TATAA
1 AT-TTAATTATAA
854286 TAATAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 9 0.32
20 15 0.54
21 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
ATTTAATTATAAATATATAA
Found at i:864468 original size:109 final size:110
Alignment explanation
Indices: 864277--864496 Score: 390
Period size: 109 Copynumber: 2.0 Consensus size: 110
864267 CATATATGAA
864277 AATAAGTATTTATCAAGCTAGCAAATTAACAAATTACTAATATTTTTGTCGAACAAATTCGATTT
1 AATAAGTATTTATCAAGCTAGCAAATTAACAAATTACTAATATTTTTGTCGAACAAATTCGATTT
*
864342 GCTTAAATTAAGAGATGCCA-GAAAATTTGAGATACCTTAGCTCC
66 GCTTAAATTAAGAGATGCCATAAAAATTTGAGATACCTTAGCTCC
* *
864386 AATAAGTATTTATCAAGCTAGCAAATTAACAAATTGCTAATCTCTTTT-TCGAACAAATTCGATT
1 AATAAGTATTTATCAAGCTAGCAAATTAACAAATTACTAATAT-TTTTGTCGAACAAATTCGATT
864450 TGCTTAAATTAAGAGATGCCATAAAAATTTGAGATACCTTAGCTCC
65 TGCTTAAATTAAGAGATGCCATAAAAATTTGAGATACCTTAGCTCC
864496 A
1 A
864497 TAGTTAGCGG
Statistics
Matches: 106, Mismatches: 3, Indels: 3
0.95 0.03 0.03
Matches are distributed among these distances:
109 78 0.74
110 28 0.26
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (110 bp):
AATAAGTATTTATCAAGCTAGCAAATTAACAAATTACTAATATTTTTGTCGAACAAATTCGATTT
GCTTAAATTAAGAGATGCCATAAAAATTTGAGATACCTTAGCTCC
Found at i:865025 original size:12 final size:12
Alignment explanation
Indices: 864998--865026 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
864988 GAGTTTGAAA
864998 AAATTTTTATTT
1 AAATTTTTATTT
865010 -AATTTTTATTT
1 AAATTTTTATTT
865021 AAATTT
1 AAATTT
865027 AAGTTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (12 bp):
AAATTTTTATTT
Found at i:865073 original size:21 final size:22
Alignment explanation
Indices: 865049--865095 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
865039 TTATATTATC
865049 ATTTAAAAATTATTAA-AAATT
1 ATTTAAAAATTATTAATAAATT
** *
865070 ATTTTTATATTATTAATAAATT
1 ATTTAAAAATTATTAATAAATT
865092 -TTTA
1 ATTTA
865096 TAATTAAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (22 bp):
ATTTAAAAATTATTAATAAATT
Found at i:865422 original size:28 final size:29
Alignment explanation
Indices: 865389--865447 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 29
865379 GTATTTATAT
*
865389 ATATTTATATAATTAAAATTA-AATAAAA
1 ATATTTATATAATTAAAATAATAATAAAA
* *
865417 ATATTTTTATTATTAAAATAATAATAAAA
1 ATATTTATATAATTAAAATAATAATAAAA
865446 AT
1 AT
865448 CTTATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 18 0.67
29 9 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (29 bp):
ATATTTATATAATTAAAATAATAATAAAA
Found at i:865426 original size:30 final size:29
Alignment explanation
Indices: 865387--865447 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 29
865377 TAGTATTTAT
*
865387 ATATATTTATATAATTAAAATTA-AATAAAA
1 ATATATTTAT-T-ATTAAAATAATAATAAAA
*
865417 ATATTTTTATTATTAAAATAATAATAAAA
1 ATATATTTATTATTAAAATAATAATAAAA
865446 AT
1 AT
865448 CTTATTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 9 0.32
29 10 0.36
30 9 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (29 bp):
ATATATTTATTATTAAAATAATAATAAAA
Found at i:865652 original size:14 final size:13
Alignment explanation
Indices: 865631--865703 Score: 55
Period size: 14 Copynumber: 5.5 Consensus size: 13
865621 TTTATTAAAA
865631 AAATTAAT-TATAT
1 AAATTAATATA-AT
865644 AATATTAATATAAT
1 AA-ATTAATATAAT
865658 AAATTAA-A-AAT
1 AAATTAATATAAT
865669 -AATTAAAATATAAT
1 AAATT--AATATAAT
* *
865683 AAAAATAATATAAA
1 -AAATTAATATAAT
865697 AAATTAA
1 AAATTAA
865704 AAAAATATAA
Statistics
Matches: 49, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
10 4 0.08
11 3 0.06
12 3 0.06
13 14 0.29
14 20 0.41
15 2 0.04
16 3 0.06
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (13 bp):
AAATTAATATAAT
Found at i:865674 original size:10 final size:10
Alignment explanation
Indices: 865659--865724 Score: 61
Period size: 10 Copynumber: 6.8 Consensus size: 10
865649 TAATATAATA
865659 AATTAAAAAT
1 AATTAAAAAT
865669 AATTAAAATAT
1 AATTAAAA-AT
865680 AA-TAAAAAT
1 AATTAAAAAT
865689 AA-TATAAAA-
1 AATTA-AAAAT
865698 AATTAAAAA-
1 AATTAAAAAT
*
865707 AA-TATAAAT
1 AATTAAAAAT
865716 ATATTAAAA
1 A-ATTAAAA
865725 TTTTTATAAC
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
8 5 0.10
9 15 0.31
10 20 0.42
11 8 0.17
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
AATTAAAAAT
Found at i:865685 original size:20 final size:22
Alignment explanation
Indices: 865662--865710 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 22
865652 TATAATAAAT
*
865662 TAAAAATAAT-TAAAATA-TAA
1 TAAAAATAATATAAAAAATTAA
865682 TAAAAATAATATAAAAAATTAA
1 TAAAAATAATATAAAAAATTAA
865704 -AAAAATA
1 TAAAAATA
865711 TAAATATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
20 10 0.38
21 13 0.50
22 3 0.12
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAAATAATATAAAAAATTAA
Found at i:865940 original size:49 final size:50
Alignment explanation
Indices: 865887--866002 Score: 125
Period size: 49 Copynumber: 2.3 Consensus size: 50
865877 AAATTTATAT
865887 TTAATAATTAAAA-AAA-TTTAA-TTTAAATTAATTATAAAATATATAAATA
1 TTAATAATTAAAATAAATTTTAATTTTAAATTAATTAT-AAATA-ATAAATA
**
865936 TTAAT-A-TAAAATAAATTTTAATTTTTTTATTAATTATAAATAATAAATA
1 TTAATAATTAAAATAAATTTTAA-TTTTAAATTAATTATAAATAATAAATA
* *
865985 TAAATAAATTAAATTAAA
1 TTAAT-AATTAAAATAAA
866003 AATATATTTA
Statistics
Matches: 56, Mismatches: 4, Indels: 11
0.79 0.06 0.15
Matches are distributed among these distances:
47 5 0.09
48 4 0.07
49 21 0.38
50 5 0.09
51 13 0.23
52 8 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (50 bp):
TTAATAATTAAAATAAATTTTAATTTTAAATTAATTATAAATAATAAATA
Found at i:866014 original size:22 final size:22
Alignment explanation
Indices: 865972--866041 Score: 54
Period size: 22 Copynumber: 3.1 Consensus size: 22
865962 TTATTAATTA
**
865972 TAAA-TAATAAATATAAATAAAT
1 TAAATTAA-AAATATATTTAAAT
865994 TAAATTAAAAATATATTTAAAT
1 TAAATTAAAAATATATTTAAAT
* *
866016 AAAAATATATAAAA-ATTTTTAAAT
1 -TAAAT-TA-AAAATATATTTAAAT
866040 TA
1 TA
866042 CTATTCCATT
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
22 16 0.41
23 8 0.21
24 11 0.28
25 4 0.10
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATTAAAAATATATTTAAAT
Found at i:866018 original size:16 final size:16
Alignment explanation
Indices: 865979--866025 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
865969 TTATAAATAA
* *
865979 TAAATATAAATA-AAT
1 TAAATAAAAATATATT
865994 TAAATTAAAAATATATT
1 TAAA-TAAAAATATATT
866011 TAAATAAAAATATAT
1 TAAATAAAAATATAT
866026 AAAAATTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 4 0.14
16 18 0.64
17 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (16 bp):
TAAATAAAAATATATT
Found at i:866031 original size:16 final size:16
Alignment explanation
Indices: 865975--866031 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
865965 TTAATTATAA
* *
865975 ATAATAAATATAAATAA
1 ATAA-AAATAAAAATAT
* *
865992 ATTAAATTAAAAATAT
1 ATAAAAATAAAAATAT
**
866008 ATTTAAATAAAAATAT
1 ATAAAAATAAAAATAT
866024 ATAAAAAT
1 ATAAAAAT
866032 TTTTAAATTA
Statistics
Matches: 32, Mismatches: 8, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
16 29 0.91
17 3 0.09
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAAAAATAAAAATAT
Found at i:866574 original size:2 final size:2
Alignment explanation
Indices: 866567--866620 Score: 83
Period size: 2 Copynumber: 27.5 Consensus size: 2
866557 AAAATTAAGA
*
866567 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
866609 AC AT AT AT -T AT A
1 AT AT AT AT AT AT A
866621 CATAAAAATA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:868287 original size:2 final size:2
Alignment explanation
Indices: 868282--868312 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
868272 TGTGTGTGTG
868282 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
868313 GTAATCTTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:872988 original size:24 final size:24
Alignment explanation
Indices: 872955--873015 Score: 72
Period size: 24 Copynumber: 2.5 Consensus size: 24
872945 AATAAGCACT
872955 TATCTTGGATAAGGATGCACTATAG
1 TATC-TGGATAAGGATGCACTATAG
* *
872980 CT-TCTGGATAATGATGCACTGTAG
1 -TATCTGGATAAGGATGCACTATAG
873004 TATCTGG-TAAGG
1 TATCTGGATAAGG
873016 TTGTTAGGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
23 5 0.16
24 23 0.74
25 2 0.06
26 1 0.03
ACGTcount: A:0.28, C:0.13, G:0.26, T:0.33
Consensus pattern (24 bp):
TATCTGGATAAGGATGCACTATAG
Found at i:874221 original size:2 final size:2
Alignment explanation
Indices: 874214--874255 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
874204 ATTAAAAAGA
874214 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
874256 GAGAGGTTTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:875125 original size:21 final size:20
Alignment explanation
Indices: 875101--875155 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
875091 TTTAAGTACT
875101 TGTATTGATACACATAAGGAA
1 TGTATTGATACA-ATAAGGAA
** *
875122 TGTATCAATACATTAAGGAA
1 TGTATTGATACAATAAGGAA
875142 TGTATTGATACAAT
1 TGTATTGATACAAT
875156 TGATACTTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 18 0.64
21 10 0.36
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (20 bp):
TGTATTGATACAATAAGGAA
Found at i:875276 original size:12 final size:12
Alignment explanation
Indices: 875259--875283 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
875249 TCACACTAAT
875259 AAAGCTTCCAAC
1 AAAGCTTCCAAC
875271 AAAGCTTCCAAC
1 AAAGCTTCCAAC
875283 A
1 A
875284 GCTCCAAAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.32, G:0.08, T:0.16
Consensus pattern (12 bp):
AAAGCTTCCAAC
Found at i:879729 original size:29 final size:32
Alignment explanation
Indices: 879697--879759 Score: 89
Period size: 29 Copynumber: 2.1 Consensus size: 32
879687 ATAATTCATT
*
879697 TATTTAT-ATTATATTT-ATATATTTTATA-A
1 TATTTATAATTATATTTAAAATATTTTATACA
879726 TA-TTATAATTATATTTAAAATATTTTATACA
1 TATTTATAATTATATTTAAAATATTTTATACA
879757 TAT
1 TAT
879760 ATTTACGTTA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 4 0.14
29 11 0.38
30 11 0.38
31 3 0.10
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (32 bp):
TATTTATAATTATATTTAAAATATTTTATACA
Found at i:880922 original size:19 final size:18
Alignment explanation
Indices: 880891--880932 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 18
880881 CCTAAATTAT
880891 TATT-AAAAATATTAATA
1 TATTAAAAAATATTAATA
**
880908 TATTAAAAAATTATTTTTA
1 TATTAAAAAA-TATTAATA
880927 TATTAA
1 TATTAA
880933 TATTTATATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 4 0.19
18 5 0.24
19 12 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (18 bp):
TATTAAAAAATATTAATA
Found at i:880947 original size:22 final size:22
Alignment explanation
Indices: 880919--880960 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
880909 ATTAAAAAAT
880919 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
880941 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
880961 AATAAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:882573 original size:11 final size:11
Alignment explanation
Indices: 882493--882580 Score: 60
Period size: 11 Copynumber: 8.3 Consensus size: 11
882483 AAAATTTTTG
882493 TAATATAAAT-
1 TAATATAAATA
*
882503 TATTA-AAATA
1 TAATATAAATA
*
882513 TTAA-ATTAATA
1 -TAATATAAATA
882524 TAATATAAA-A
1 TAATATAAATA
* * *
882534 TACTTTAAACA
1 TAATATAAATA
882545 TAAT-TATAATA
1 TAATATA-AATA
**
882556 TGGTATAAATA
1 TAATATAAATA
882567 TAATATAAATA
1 TAATATAAATA
882578 TAA
1 TAA
882581 GAATTATCAA
Statistics
Matches: 59, Mismatches: 12, Indels: 13
0.70 0.14 0.15
Matches are distributed among these distances:
9 4 0.07
10 18 0.31
11 35 0.59
12 2 0.03
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (11 bp):
TAATATAAATA
Found at i:883610 original size:5 final size:5
Alignment explanation
Indices: 883595--883643 Score: 66
Period size: 5 Copynumber: 9.8 Consensus size: 5
883585 ATCCACTCCT
883595 ATTTAA ATTTA ATTTA ATTTA ATTTA ATTT- ATTT- ATTTAA ATTTA ATTT
1 ATTT-A ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTT-A ATTTA ATTT
883644 TTTATTTAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
4 8 0.20
5 25 0.61
6 8 0.20
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTTA
Found at i:883633 original size:34 final size:31
Alignment explanation
Indices: 883594--883658 Score: 94
Period size: 34 Copynumber: 2.0 Consensus size: 31
883584 AATCCACTCC
*
883594 TATTTAAATTTAATTTAATTTAATTTAATTTATT
1 TATTTAAATTTAATTT--TTT-ATTTAAATTATT
883628 TATTTAAATTTAATTTTTTATTTAAATTATT
1 TATTTAAATTTAATTTTTTATTTAAATTATT
883659 AAAAAAATTA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
31 11 0.37
32 3 0.10
34 16 0.53
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (31 bp):
TATTTAAATTTAATTTTTTATTTAAATTATT
Found at i:883647 original size:14 final size:15
Alignment explanation
Indices: 883601--883647 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
883591 TCCTATTTAA
883601 ATTT-AATTTAATTT
1 ATTTAAATTTAATTT
883615 AATTT-AATTT-ATTT
1 -ATTTAAATTTAATTT
883629 ATTTAAATTTAATTT
1 ATTTAAATTTAATTT
883644 -TTTA
1 ATTTA
883648 TTTAAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.13
14 13 0.43
15 13 0.43
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (15 bp):
ATTTAAATTTAATTT
Done.