Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold132
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: 2458301
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 25 characters in sequence are not A, C, G, or T
File 5 of 15
Found at i:854970 original size:29 final size:29
Alignment explanation
Indices: 854927--854995 Score: 85
Period size: 29 Copynumber: 2.5 Consensus size: 29
854917 ATATGAATAA
*
854927 ATATTT-TATTT-AAATATATT-TATTTT
1 ATATTTATATTTAAAAAATATTATATTTT
854953 -T-TTATATATTTAAAAAATATTATATTTT
1 ATATT-TATATTTAAAAAATATTATATTTT
854981 ATATTTATATTTAAA
1 ATATTTATATTTAAA
854996 TATATGATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
24 2 0.06
25 2 0.06
26 5 0.14
27 8 0.22
28 6 0.17
29 11 0.31
30 2 0.06
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (29 bp):
ATATTTATATTTAAAAAATATTATATTTT
Found at i:859079 original size:2 final size:2
Alignment explanation
Indices: 859066--859099 Score: 59
Period size: 2 Copynumber: 16.5 Consensus size: 2
859056 TCTTGAACCT
859066 TA TA TGA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA T
859100 TTTGCTCGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 29 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:864199 original size:17 final size:17
Alignment explanation
Indices: 864172--864206 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
864162 AATCAAATAA
864172 ATTTAAATAATTAAATTT
1 ATTTAAATAATT-AATTT
864190 ATTT-AATAATTAATTT
1 ATTTAAATAATTAATTT
864206 A
1 A
864207 AAATAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 7 0.41
18 4 0.24
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
ATTTAAATAATTAATTT
Found at i:864858 original size:3 final size:3
Alignment explanation
Indices: 864852--864891 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
864842 CAGTTCAAAC
864852 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
864892 AAAACCAAAA
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:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:872117 original size:2 final size:2
Alignment explanation
Indices: 872110--872141 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
872100 GGTTTGATAA
*
872110 AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
872142 TGGTGATTAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:872217 original size:2 final size:2
Alignment explanation
Indices: 872210--872236 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
872200 ACTCTTCTTT
872210 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 T
872237 TTATTGAAAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:872943 original size:21 final size:20
Alignment explanation
Indices: 872897--872962 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
872887 TTATAACAAT
* *
872897 TTATATATTTATATAATATTA
1 TTATAT-TTTATATATTATAA
*
872918 GTATATTTTATTATATTATAA
1 TTATATTTTA-TATATTATAA
* *
872939 TTATATTTAAATATTTTATAA
1 TTATATTT-TATATATTATAA
872960 TTA
1 TTA
872963 CATAAAATTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
20 4 0.11
21 32 0.86
22 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTATATTTTATATATTATAA
Found at i:873077 original size:21 final size:21
Alignment explanation
Indices: 873036--873079 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
873026 TATAATTATG
*
873036 TTATTTATTTTTATATTATAT
1 TTATTTATTTTTATATCATAT
*
873057 TTATTATATTTTTA-GTCATAT
1 TTATT-TATTTTTATATCATAT
873078 TT
1 TT
873080 TAATTAATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.68
Consensus pattern (21 bp):
TTATTTATTTTTATATCATAT
Found at i:876028 original size:13 final size:13
Alignment explanation
Indices: 876010--876034 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
876000 CTAAAGCCCT
876010 AATTAGGGCTAAG
1 AATTAGGGCTAAG
876023 AATTAGGGCTAA
1 AATTAGGGCTAA
876035 AAGATTTGGG
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:0.40, C:0.08, G:0.28, T:0.24
Consensus pattern (13 bp):
AATTAGGGCTAAG
Found at i:880351 original size:26 final size:25
Alignment explanation
Indices: 880314--880370 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
880304 ATAAATTTTT
* * *
880314 AATTTTATTA-AATTATATAATTAA
1 AATTTTATTATAAATAAATAAATAA
*
880338 ATTTTTATTATAAATAAATAAATAA
1 AATTTTATTATAAATAAATAAATAA
880363 AATTTTAT
1 AATTTTAT
880371 GTTAATTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 9 0.33
25 18 0.67
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
AATTTTATTATAAATAAATAAATAA
Found at i:880463 original size:36 final size:36
Alignment explanation
Indices: 880393--880469 Score: 86
Period size: 36 Copynumber: 2.2 Consensus size: 36
880383 AGATATTATT
* **
880393 TAAT-AAAATTAACATAAAATTATTTAATTTATTAA
1 TAATAAAAATTAACATAAAATAATTTAATAAATTAA
*
880428 TAATAAAAATTAA-ATAAAATAATTTTATGAAATTAA
1 TAATAAAAATTAACATAAAATAATTTAAT-AAATTAA
*
880464 AAATAA
1 TAATAA
880470 TTATCGTTTA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
35 17 0.49
36 18 0.51
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.38
Consensus pattern (36 bp):
TAATAAAAATTAACATAAAATAATTTAATAAATTAA
Found at i:887672 original size:15 final size:15
Alignment explanation
Indices: 887654--887706 Score: 54
Period size: 15 Copynumber: 3.6 Consensus size: 15
887644 TTTACAATTT
887654 TTAAATTTTATTTAA
1 TTAAATTTTATTTAA
*
887669 TTAATTTTTATTTAA
1 TTAAATTTTATTTAA
* * * *
887684 -AAAATATTATATAT
1 TTAAATTTTATTTAA
887698 TTAAATTTT
1 TTAAATTTT
887707 TTAAATTTAT
Statistics
Matches: 29, Mismatches: 8, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
14 9 0.31
15 20 0.69
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (15 bp):
TTAAATTTTATTTAA
Found at i:893041 original size:4 final size:4
Alignment explanation
Indices: 893032--893077 Score: 83
Period size: 4 Copynumber: 11.5 Consensus size: 4
893022 TAATCCCATA
*
893032 TATG TATG TATG TATG TATG TATG TATG TATG TATG TAAG TATG TA
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TA
893078 GATGAGAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
TATG
Found at i:894764 original size:20 final size:22
Alignment explanation
Indices: 894735--894778 Score: 56
Period size: 20 Copynumber: 2.0 Consensus size: 22
894725 ATATTTTAAT
*
894735 ATTTTTAAAT-AATAA-AATAA
1 ATTTTCAAATCAATAATAATAA
894755 ATTTTCAAATCGAATAATAATAA
1 ATTTTCAAATC-AATAATAATAA
894778 A
1 A
894779 AAATTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 9 0.45
22 5 0.25
23 6 0.30
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (22 bp):
ATTTTCAAATCAATAATAATAA
Found at i:899511 original size:7 final size:7
Alignment explanation
Indices: 899491--899525 Score: 52
Period size: 7 Copynumber: 4.9 Consensus size: 7
899481 ATAAAAAATA
899491 AAAATATT
1 AAAAT-TT
*
899499 ATAATTT
1 AAAATTT
899506 AAAATTT
1 AAAATTT
899513 AAAATTT
1 AAAATTT
899520 AAAATT
1 AAAATT
899526 ATTAAATATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 21 0.84
8 4 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (7 bp):
AAAATTT
Found at i:899516 original size:29 final size:29
Alignment explanation
Indices: 899461--899549 Score: 78
Period size: 29 Copynumber: 3.1 Consensus size: 29
899451 TTTTTTTAAA
*
899461 AAAAATATT-TCAATTTTAAAA-TAAAAAAT
1 AAAAATATTAT-AA-TTTAAAATTTAAAAAT
*
899490 AAAAATATTATAATTTAAAATTTAAAATTT
1 AAAAATATTATAATTTAAAATTTAAAA-AT
* *
899520 AAAATTATTA-AATATT-AATTTTAAAAAT
1 AAAAATATTATAAT-TTAAAATTTAAAAAT
899548 AA
1 AA
899550 TTATATAAAA
Statistics
Matches: 51, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
28 10 0.20
29 28 0.55
30 13 0.25
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (29 bp):
AAAAATATTATAATTTAAAATTTAAAAAT
Found at i:901285 original size:2 final size:2
Alignment explanation
Indices: 901278--901302 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
901268 TTTCTCTTTT
901278 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
901303 TATTTGATTT
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:908366 original size:19 final size:19
Alignment explanation
Indices: 908338--908374 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
908328 TTTAAATTAT
908338 TATTTAAAATAATAATATA
1 TATTTAAAATAATAATATA
* *
908357 TATTTTAAATATTAATAT
1 TATTTAAAATAATAATAT
908375 TTATAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TATTTAAAATAATAATATA
Found at i:908399 original size:26 final size:27
Alignment explanation
Indices: 908360--908410 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
908350 TAATATATAT
**
908360 TTTAAATATTAAT-ATTTATAATTAAA
1 TTTAAATAAAAATAATTTATAATTAAA
*
908386 TTTAAATAAAAATAATTTTTAATTA
1 TTTAAATAAAAATAATTTATAATTA
908411 TTAAAATAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 11 0.52
27 10 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TTTAAATAAAAATAATTTATAATTAAA
Found at i:908413 original size:43 final size:45
Alignment explanation
Indices: 908339--908437 Score: 114
Period size: 43 Copynumber: 2.2 Consensus size: 45
908329 TTAAATTATT
* * *
908339 ATTTAAAATAATAATATATATTTTAAATATTAATATTTATAA-TTAA
1 ATTT-AAATAAAAATATATATTTTAAATATTAA-AATAATAATTTAA
*
908385 ATTTAAATAAAAATA-AT-TTTTAATTATTAAAATAATAATTTAA
1 ATTTAAATAAAAATATATATTTTAAATATTAAAATAATAATTTAA
*
908428 ATTAAAATAA
1 ATTTAAATAA
908438 TTAAATTATA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 6 0.13
43 25 0.53
44 2 0.04
45 10 0.21
46 4 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (45 bp):
ATTTAAATAAAAATATATATTTTAAATATTAAAATAATAATTTAA
Found at i:908455 original size:16 final size:16
Alignment explanation
Indices: 908430--908460 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
908420 TAATTTAAAT
*
908430 TAAAATAATTAAATTA
1 TAAAAAAATTAAATTA
908446 TAAAAAAATTAAATT
1 TAAAAAAATTAAATT
908461 TAATTTAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAAAAAATTAAATTA
Found at i:909059 original size:6 final size:6
Alignment explanation
Indices: 909015--909075 Score: 54
Period size: 6 Copynumber: 10.2 Consensus size: 6
909005 TAAAATTTTC
* * * *
909015 AATTTT AATTTA AATTTA AATTTT AATATA AATAATTA AATTTA AAATTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AAT--TTA AATTTA AATTTA
909065 AA--TA AATTTA A
1 AATTTA AATTTA A
909076 TATTATTTTT
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
4 4 0.09
6 36 0.80
8 5 0.11
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (6 bp):
AATTTA
Found at i:909066 original size:20 final size:20
Alignment explanation
Indices: 909030--909069 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
909020 TAATTTAAAT
*
909030 TTAAATTTTAATATAAATAA
1 TTAAATTTAAATATAAATAA
909050 TTAAATTTAAA-ATTAAATAA
1 TTAAATTTAAATA-TAAATAA
909070 ATTTAATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAAATTTAAATATAAATAA
Found at i:909076 original size:26 final size:26
Alignment explanation
Indices: 909018--909109 Score: 73
Period size: 28 Copynumber: 3.4 Consensus size: 26
909008 AATTTTCAAT
*
909018 TTTAATTTAAATTTAAATTTTAATATAAA
1 TTTAA-TTAAATTTAAA-ATTAA-ATAAA
909047 --TAATTAAATTTAAAATTAAATAAA
1 TTTAATTAAATTTAAAATTAAATAAA
** *
909071 TTTAATATTATTTTTAATAA-TATATAAA
1 TTT-A-ATTAAATTTAA-AATTAAATAAA
909099 TTTAATTAAAT
1 TTTAATTAAAT
909110 AAACTTAATA
Statistics
Matches: 52, Mismatches: 6, Indels: 13
0.73 0.08 0.18
Matches are distributed among these distances:
24 5 0.10
25 4 0.08
26 17 0.33
27 5 0.10
28 19 0.37
29 2 0.04
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTAATTAAATTTAAAATTAAATAAA
Found at i:913208 original size:2 final size:2
Alignment explanation
Indices: 913201--913248 Score: 62
Period size: 2 Copynumber: 24.5 Consensus size: 2
913191 TATGAAGTAC
* *
913201 AT AT AT AT AT AT AT AT AT TT AT AT A- AA 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
*
913242 AT GT AT A
1 AT AT AT A
913249 GCACACTTCC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:915644 original size:6 final size:7
Alignment explanation
Indices: 915632--915662 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
915622 ATATATATTA
915632 TATTTTT
1 TATTTTT
915639 TATTTTT
1 TATTTTT
915646 TATTTTT
1 TATTTTT
915653 TATTTTT
1 TATTTTT
915660 TAT
1 TAT
915663 GGCATCTTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (7 bp):
TATTTTT
Found at i:918022 original size:17 final size:17
Alignment explanation
Indices: 917996--918030 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
917986 GTAACATAAA
917996 TATGATTT-AAAATTTT
1 TATGATTTAAAAATTTT
918012 TATGTATTTAAAAATTTT
1 TATG-ATTTAAAAATTTT
918030 T
1 T
918031 TTAAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 4 0.24
18 9 0.53
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (17 bp):
TATGATTTAAAAATTTT
Found at i:918626 original size:19 final size:18
Alignment explanation
Indices: 918580--918626 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
918570 TGTGAGGGAC
*
918580 ATAAATTTTAATTATTAT
1 ATAAATTTTAAATATTAT
918598 ATAAATTTTAAATA-TAT
1 ATAAATTTTAAATATTAT
918615 ATTAATATTTTA
1 A-TAA-ATTTTA
918627 TTCCTATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 4 0.15
18 16 0.62
19 6 0.23
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
ATAAATTTTAAATATTAT
Found at i:919858 original size:32 final size:32
Alignment explanation
Indices: 919794--919858 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
919784 ACAAATCATT
* * *
919794 ATTTATTAATAAAAATATAATTTTTTATTTAA
1 ATTTATTAATAAAAATATAATATATTAATTAA
*
919826 ATTTATTTATAAAATATATAA-ATATTAATTAA
1 ATTTATTAATAAAA-ATATAATATATTAATTAA
919858 A
1 A
919859 AATTTAAACA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 22 0.79
33 6 0.21
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (32 bp):
ATTTATTAATAAAAATATAATATATTAATTAA
Found at i:919866 original size:19 final size:19
Alignment explanation
Indices: 919820--919866 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
919810 ATAATTTTTT
*
919820 ATTTAAATTTATTTATAAA
1 ATTTAAATTTAATTATAAA
919839 ATATATAAATATTAATTA-AAA
1 AT-T-TAAAT-TTAATTATAAA
919860 ATTTAAA
1 ATTTAAA
919867 CACGACTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
19 6 0.25
20 2 0.08
21 10 0.42
22 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTTAAATTTAATTATAAA
Found at i:920846 original size:23 final size:22
Alignment explanation
Indices: 920824--920870 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
920814 GTTAAAATAT
920824 TAATTTTAT-ATTAAGATTTATA
1 TAATTTTATCATTAA-ATTTATA
* *
920846 TATTTTTATCATTAAATTTAAA
1 TAATTTTATCATTAAATTTATA
920868 TAA
1 TAA
920871 AATTTTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (22 bp):
TAATTTTATCATTAAATTTATA
Found at i:922365 original size:3 final size:3
Alignment explanation
Indices: 922357--922383 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
922347 AAACAATTGC
922357 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
922384 TTCAATATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:923522 original size:27 final size:27
Alignment explanation
Indices: 923464--923527 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 27
923454 TTAATCCATT
* * ***
923464 AATTATATATTATTTAAAATATTTTTA
1 AATTATATATTATATAAAACATAAATA
923491 AATTATATATTATATAAAACATAAATA
1 AATTATATATTATATAAAACATAAATA
*
923518 TATTA-ATATT
1 AATTATATATT
923528 GTAAATGTAA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
26 5 0.16
27 26 0.84
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (27 bp):
AATTATATATTATATAAAACATAAATA
Found at i:925436 original size:18 final size:18
Alignment explanation
Indices: 925413--925452 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
925403 AATCAAATTA
925413 AATTTATTTAATTAATAT
1 AATTTATTTAATTAATAT
*
925431 AATTTATTTAATTAATGT
1 AATTTATTTAATTAATAT
925449 AATT
1 AATT
925453 AATTCTATTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (18 bp):
AATTTATTTAATTAATAT
Found at i:926678 original size:30 final size:30
Alignment explanation
Indices: 926642--926700 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
926632 TTTATATTAA
926642 TAAAAT-AAATTTAAAATTAAATAAAATAAT
1 TAAAATAAAATTT-AAATTAAATAAAATAAT
* *
926672 TAAAATAAAATTTTAATTCAATAAAATAA
1 TAAAATAAAATTTAAATTAAATAAAATAA
926701 AACATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 20 0.77
31 6 0.23
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (30 bp):
TAAAATAAAATTTAAATTAAATAAAATAAT
Found at i:926776 original size:19 final size:19
Alignment explanation
Indices: 926741--926784 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
926731 TTTATTTTTC
926741 AAAAC-TTGAATAGCTATT
1 AAAACATTGAATAGCTATT
926759 AAAACATTGAAATA-CTATT
1 AAAACATTG-AATAGCTATT
*
926778 CAAACAT
1 AAAACAT
926785 CTCCTGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
18 5 0.22
19 14 0.61
20 4 0.17
ACGTcount: A:0.50, C:0.14, G:0.07, T:0.30
Consensus pattern (19 bp):
AAAACATTGAATAGCTATT
Found at i:927072 original size:2 final size:2
Alignment explanation
Indices: 927065--927089 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
927055 GTGCATTAAC
927065 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
927090 AAGAGATAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:927607 original size:17 final size:18
Alignment explanation
Indices: 927572--927609 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
927562 AGTGATAAAG
927572 TAAAAGATTGTGCTTATT
1 TAAAAGATTGTGCTTATT
927590 TAAAAGATAT-TG-TTATT
1 TAAAAGAT-TGTGCTTATT
927607 TAA
1 TAA
927610 TTAAAAGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 8 0.42
18 10 0.53
19 1 0.05
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (18 bp):
TAAAAGATTGTGCTTATT
Found at i:928479 original size:25 final size:25
Alignment explanation
Indices: 928433--928480 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
928423 TTTTATTTAA
*
928433 ATTAAATTATATAAAATTATTTTTT
1 ATTAAATTATATAAAATAATTTTTT
*
928458 ATTAATTTATA-AATAATAATTTT
1 ATTAAATTATATAA-AATAATTTT
928481 AATTTTCTAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 18 0.90
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (25 bp):
ATTAAATTATATAAAATAATTTTTT
Found at i:933080 original size:34 final size:33
Alignment explanation
Indices: 932995--933106 Score: 97
Period size: 33 Copynumber: 3.4 Consensus size: 33
932985 TCGTTAGGAA
* * *
932995 ATTTTTATTTTT-TTTTTGAATTTAAGTAAGAAT
1 ATTTTTATTTTTATTATTAAATTTAAATAA-AAT
* ** *
933028 AATTTTAAATTTA-AATT-AA-TTAAATATTAAAT
1 ATTTTTATTTTTATTATTAAATTTAAATA--AAAT
933060 ATTATTTATTTTTATTATTAAATTTAAATAAAAT
1 ATT-TTTATTTTTATTATTAAATTTAAATAAAAT
933094 ATTTTTATTTTTA
1 ATTTTTATTTTTA
933107 AATAATAACT
Statistics
Matches: 62, Mismatches: 10, Indels: 14
0.72 0.12 0.16
Matches are distributed among these distances:
31 6 0.10
32 7 0.11
33 30 0.48
34 10 0.16
35 2 0.03
36 7 0.11
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (33 bp):
ATTTTTATTTTTATTATTAAATTTAAATAAAAT
Found at i:933120 original size:33 final size:35
Alignment explanation
Indices: 933047--933121 Score: 84
Period size: 33 Copynumber: 2.2 Consensus size: 35
933037 TTTAAATTAA
* * *
933047 TTAAATATTAAATATTATTTATTTTTATTATTAAAT
1 TTAAATA-TAAATATTATTTATTTTTAATAATAAAC
933083 TTAAATA-AAATATT-TTTATTTTTAAATAAT-AAC
1 TTAAATATAAATATTATTTATTTTT-AATAATAAAC
933116 TTAAAT
1 TTAAAT
933122 TTATTTAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
33 17 0.49
34 11 0.31
36 7 0.20
ACGTcount: A:0.45, C:0.01, G:0.00, T:0.53
Consensus pattern (35 bp):
TTAAATATAAATATTATTTATTTTTAATAATAAAC
Found at i:934430 original size:15 final size:15
Alignment explanation
Indices: 934410--934440 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
934400 AATGATTATC
934410 ACTTTGCATAAAACT
1 ACTTTGCATAAAACT
934425 ACTTTGCATAAAACT
1 ACTTTGCATAAAACT
934440 A
1 A
934441 TTTAAATGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.19, G:0.06, T:0.32
Consensus pattern (15 bp):
ACTTTGCATAAAACT
Found at i:934621 original size:14 final size:15
Alignment explanation
Indices: 934604--934634 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
934594 AATCTATTAA
934604 TTTAAAT-ATTAAAT
1 TTTAAATAATTAAAT
934618 TTTAAATAATTAAAT
1 TTTAAATAATTAAAT
934633 TT
1 TT
934635 AAGATGATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TTTAAATAATTAAAT
Found at i:934635 original size:14 final size:13
Alignment explanation
Indices: 934598--934636 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
934588 ATTTAAAATC
934598 TATT-AATTTAAA
1 TATTAAATTTAAA
934610 TATTAAATTTTAAA
1 TATTAAA-TTTAAA
934624 TAATTAAATTTAA
1 T-ATTAAATTTAA
934637 GATGATTGGA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 4 0.17
13 2 0.08
14 12 0.50
15 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TATTAAATTTAAA
Found at i:936256 original size:29 final size:29
Alignment explanation
Indices: 936223--936313 Score: 86
Period size: 29 Copynumber: 3.3 Consensus size: 29
936213 TTGTTGGCTT
*
936223 ATATAATTATTTTTTAAAAATAATATTTA
1 ATATAATTATATTTTAAAAATAATATTTA
* * *
936252 ATATATTTATAATTTAAATATTAATA-TT-
1 ATATAATTATATTTTAAA-AATAATATTTA
936280 -TATAATT-TATTTTAAAAA-AATATGTTA
1 ATATAATTATATTTTAAAAATAATAT-TTA
936307 AT-TAATT
1 ATATAATT
936314 TTAAAAATAT
Statistics
Matches: 50, Mismatches: 7, Indels: 12
0.72 0.10 0.17
Matches are distributed among these distances:
24 4 0.08
25 1 0.02
26 10 0.20
27 11 0.22
28 1 0.02
29 17 0.34
30 6 0.12
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (29 bp):
ATATAATTATATTTTAAAAATAATATTTA
Found at i:936279 original size:30 final size:27
Alignment explanation
Indices: 936235--936322 Score: 80
Period size: 23 Copynumber: 3.4 Consensus size: 27
936225 ATAATTATTT
936235 TTTAAAAATAATATTTAATATATTTATAA
1 TTTAAAAATAATATTT-ATA-ATTTATAA
*
936264 TTTAAATATTAATATTTATAATTTAT--
1 TTTAAA-AATAATATTTATAATTTATAA
* *
936290 TTTAAAAA-AATATGT-TAA-TTA-AT
1 TTTAAAAATAATATTTATAATTTATAA
936313 TTTAAAAATA
1 TTTAAAAATA
936323 TTTAAAGCAT
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
22 3 0.06
23 11 0.21
24 7 0.13
25 1 0.02
26 6 0.12
28 6 0.12
29 9 0.17
30 9 0.17
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (27 bp):
TTTAAAAATAATATTTATAATTTATAA
Found at i:939484 original size:22 final size:22
Alignment explanation
Indices: 939453--939494 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
939443 ATAAAATTAA
*
939453 TAAAATATTTATAATTAAATTT
1 TAAAAAATTTATAATTAAATTT
*
939475 TAAAAAATTTATTATTAAAT
1 TAAAAAATTTATAATTAAAT
939495 AATAATTCTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAAAAATTTATAATTAAATTT
Found at i:943322 original size:73 final size:72
Alignment explanation
Indices: 943228--943365 Score: 249
Period size: 73 Copynumber: 1.9 Consensus size: 72
943218 AATATTAAAA
* *
943228 TAACTCAATCAAAATTTTTAAAATTGGTTAATTTAAATAATATATTTTAAATAATTTAAATTTAA
1 TAACTCAATCAAAATTTTTAAAATTGATTAATTCAAATAATATATTTTAAATAATTTAAATTTAA
943293 TAAAATT
66 TAAAATT
943300 TAACTCAATCAAAATTTTTTAAAATTGATTAATTCAAATAATATATTTTAAATAATTTAAATTTA
1 TAACTCAATCAAAA-TTTTTAAAATTGATTAATTCAAATAATATATTTTAAATAATTTAAATTTA
943365 A
65 A
943366 GAAGATTAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
72 14 0.22
73 49 0.78
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (72 bp):
TAACTCAATCAAAATTTTTAAAATTGATTAATTCAAATAATATATTTTAAATAATTTAAATTTAA
TAAAATT
Found at i:944441 original size:13 final size:15
Alignment explanation
Indices: 944404--944452 Score: 50
Period size: 14 Copynumber: 3.3 Consensus size: 15
944394 TTTATATAAT
*
944404 TATTTTAAA-AGTAA
1 TATTTTAAATATTAA
944418 TATTTAATAAAT-TTAA
1 TATTT--TAAATATTAA
944434 -ATTTTAAATATTAA
1 TATTTTAAATATTAA
944448 TATTT
1 TATTT
944453 ATAATTTATT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
13 5 0.17
14 9 0.31
15 8 0.28
16 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TATTTTAAATATTAA
Found at i:944467 original size:28 final size:29
Alignment explanation
Indices: 944405--944470 Score: 82
Period size: 28 Copynumber: 2.3 Consensus size: 29
944395 TTATATAATT
944405 ATTTTAAAAGTAATATTTAATAAATTTAA
1 ATTTTAAAAGTAATATTTAATAAATTTAA
* *
944434 ATTTTAAATATTAATATTT-AT-AATTTAT
1 ATTTTAAA-AGTAATATTTAATAAATTTAA
*
944462 TTTTTAAAA
1 ATTTTAAAA
944471 AAAAATGCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 1 0.03
28 13 0.39
29 10 0.30
30 9 0.27
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (29 bp):
ATTTTAAAAGTAATATTTAATAAATTTAA
Found at i:947608 original size:19 final size:19
Alignment explanation
Indices: 947576--947612 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
947566 TATTTTTATT
947576 TAAATTTAATTATAATATA
1 TAAATTTAATTATAATATA
947595 TAAATATTAA-TATAATAT
1 TAAAT-TTAATTATAATAT
947613 TTTTAAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 13 0.76
20 4 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
TAAATTTAATTATAATATA
Found at i:947621 original size:21 final size:21
Alignment explanation
Indices: 947574--947634 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
947564 AATATTTTTA
947574 TTTAAAT-TTAATTATAATA--
1 TTTAAATATTAA-TATAATATT
*
947593 TATAAATATTAATATAATATT
1 TTTAAATATTAATATAATATT
* *
947614 TTTAAATAATAAAATAA-ATT
1 TTTAAATATTAATATAATATT
947634 T
1 T
947635 ATGAATCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
19 13 0.37
20 8 0.23
21 14 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (21 bp):
TTTAAATATTAATATAATATT
Found at i:947730 original size:10 final size:10
Alignment explanation
Indices: 947715--947744 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
947705 CATGCAACTC
947715 TTAAAATATT
1 TTAAAATATT
947725 TTAAAATATT
1 TTAAAATATT
*
947735 TTGAAATATT
1 TTAAAATATT
947745 GTACCAATGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (10 bp):
TTAAAATATT
Found at i:948274 original size:2 final size:2
Alignment explanation
Indices: 948267--948296 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
948257 ATGATTATTA
*
948267 AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
948297 TTTTGTGTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:949817 original size:17 final size:17
Alignment explanation
Indices: 949792--949830 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
949782 AATTTTAAAT
*
949792 ATTTTATATTTATATAA
1 ATTTAATATTTATATAA
* *
949809 ATTTAATATTTTTATAT
1 ATTTAATATTTATATAA
949826 ATTTA
1 ATTTA
949831 TTTTAAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTAATATTTATATAA
Found at i:949843 original size:17 final size:18
Alignment explanation
Indices: 949823--949863 Score: 59
Period size: 16 Copynumber: 2.4 Consensus size: 18
949813 AATATTTTTA
949823 TATATTTATTTTAAAT-T
1 TATATTTATTTTAAATAT
*
949840 TATA-TTATTTTTAATAT
1 TATATTTATTTTAAATAT
949857 TATATTT
1 TATATTT
949864 TTATATTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
16 10 0.48
17 9 0.43
18 2 0.10
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (18 bp):
TATATTTATTTTAAATAT
Found at i:949864 original size:13 final size:12
Alignment explanation
Indices: 949841--949892 Score: 61
Period size: 13 Copynumber: 4.2 Consensus size: 12
949831 TTTTAAATTT
949841 ATATTATTTTTA
1 ATATTATTTTTA
*
949853 ATATTATATTTTT
1 ATATTAT-TTTTA
949866 ATATTATTTGTTA
1 ATATTATTT-TTA
*
949879 ATTTTA-TTTTA
1 ATATTATTTTTA
949890 ATA
1 ATA
949893 AATCATGTCT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
11 5 0.15
12 11 0.32
13 18 0.53
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (12 bp):
ATATTATTTTTA
Found at i:949866 original size:25 final size:24
Alignment explanation
Indices: 949838--949888 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 24
949828 TTATTTTAAA
949838 TTTATATTATTT-TTAATATTATATT
1 TTTATATTATTTGTTAAT-TT-TATT
949863 TTTATATTATTTGTTAATTTTATT
1 TTTATATTATTTGTTAATTTTATT
949887 TT
1 TT
949889 AATAAATCAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
24 6 0.24
25 14 0.56
26 5 0.20
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (24 bp):
TTTATATTATTTGTTAATTTTATT
Found at i:950005 original size:29 final size:28
Alignment explanation
Indices: 949968--950035 Score: 66
Period size: 30 Copynumber: 2.3 Consensus size: 28
949958 AAAAGACACA
*
949968 TTATCTTTTAAATTTTTTTAAAAAATA-TAT
1 TTAT-TTTTAAA-TATTTT-AAAAATACTAT
*
949998 TTATTTTTTTAATATTTTAAAAATACTTAT
1 TTA-TTTTTAAATATTTTAAAAATAC-TAT
950028 TTATTTTT
1 TTATTTTT
950036 TTAAAGTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
28 7 0.21
29 10 0.30
30 15 0.45
31 1 0.03
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (28 bp):
TTATTTTTAAATATTTTAAAAATACTAT
Found at i:950031 original size:30 final size:29
Alignment explanation
Indices: 949983--950039 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 29
949973 TTTTAAATTT
949983 TTTTAAAAAATATATTTATTTTTTTAATA
1 TTTTAAAAAATATATTTATTTTTTTAATA
950012 TTTT-AAAAATACTTATTTATTTTTTTAA
1 TTTTAAAAAATA--TATTTATTTTTTTAA
950040 AGTTTAATCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
28 7 0.27
29 4 0.15
30 15 0.58
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.60
Consensus pattern (29 bp):
TTTTAAAAAATATATTTATTTTTTTAATA
Found at i:950045 original size:29 final size:28
Alignment explanation
Indices: 949988--950046 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 28
949978 AATTTTTTTA
*
949988 AAAAATATATTTATTTTTTTAATATTTT
1 AAAAATATATTTATTTTTTTAATAGTTT
950016 AAAAATACTTATTTATTTTTTTAA-AGTTT
1 AAAAATA--TATTTATTTTTTTAATAGTTT
950045 AA
1 AA
950047 TCAAAAATAC
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
28 7 0.25
29 6 0.21
30 15 0.54
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (28 bp):
AAAAATATATTTATTTTTTTAATAGTTT
Found at i:950592 original size:25 final size:25
Alignment explanation
Indices: 950544--950590 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
950534 TTTAAATAAA
950544 AATATAATATATTAACATTAAAATT
1 AATATAATATATTAACATTAAAATT
950569 AATAT-ATATAATTAA-ATTAAAA
1 AATATAATAT-ATTAACATTAAAA
950591 ATAAATTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (25 bp):
AATATAATATATTAACATTAAAATT
Found at i:950604 original size:29 final size:28
Alignment explanation
Indices: 950540--950604 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
950530 TATTTTTAAA
* * * *
950540 TAAAAATATAATATATTAACATTAAAAT
1 TAAATATATAATAAATTAAAAATAAAAT
*
950568 TAATATATATAATTAAATTAAAAATAAATT
1 TAA-ATATATAA-TAAATTAAAAATAAAAT
950598 TAAATAT
1 TAAATAT
950605 TTTTGTGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 3 0.10
29 11 0.37
30 16 0.53
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (28 bp):
TAAATATATAATAAATTAAAAATAAAAT
Found at i:950765 original size:25 final size:25
Alignment explanation
Indices: 950715--950765 Score: 59
Period size: 25 Copynumber: 2.0 Consensus size: 25
950705 AGATTTAAAC
**
950715 TTTAAAAAAATATTTAATATGTTTA
1 TTTAAAAAAATATTTAATATAATTA
*
950740 TTTAAATAAAA-ATTTAATTTAATTA
1 TTTAAA-AAAATATTTAATATAATTA
950765 T
1 T
950766 ATTTTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 18 0.82
26 4 0.18
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
TTTAAAAAAATATTTAATATAATTA
Found at i:950822 original size:16 final size:16
Alignment explanation
Indices: 950801--950831 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
950791 TATTTTTAAA
950801 AATTAATTAATAAAAT
1 AATTAATTAATAAAAT
950817 AATTAATTAATAAAA
1 AATTAATTAATAAAA
950832 GATATATTTT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AATTAATTAATAAAAT
Found at i:950902 original size:10 final size:10
Alignment explanation
Indices: 950887--950914 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
950877 GGTTCACTTA
950887 TTTCAATCTC
1 TTTCAATCTC
950897 TTTCAATCTC
1 TTTCAATCTC
950907 TTTCAATC
1 TTTCAATC
950915 CTGTCGTTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.21, C:0.29, G:0.00, T:0.50
Consensus pattern (10 bp):
TTTCAATCTC
Found at i:951058 original size:3 final size:3
Alignment explanation
Indices: 951052--951080 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
951042 ATGAATGATG
951052 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
951081 TAATTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:951089 original size:3 final size:3
Alignment explanation
Indices: 951083--951116 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
951073 ATAATAATTA
*
951083 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATC ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
951117 ATATAATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:951263 original size:35 final size:35
Alignment explanation
Indices: 951219--951288 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
951209 ATTAAAAATA
* *
951219 ATTTAAAAATTAAATAAAACTTAAAATATTTTATT
1 ATTTAAAAATAAAATAAAACTTAAAATATATTATT
* *
951254 ATTTAAAAATAAAATAAAATTTAAATTATATTATT
1 ATTTAAAAATAAAATAAAACTTAAAATATATTATT
951289 TAAATTTATA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (35 bp):
ATTTAAAAATAAAATAAAACTTAAAATATATTATT
Found at i:951275 original size:18 final size:18
Alignment explanation
Indices: 951218--951278 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
951208 AATTAAAAAT
*
951218 AATTTAAAAATTAAATAA
1 AATTTAAAAATAAAATAA
* *** *
951236 AACTT-AAAATATTTTAT
1 AATTTAAAAATAAAATAA
*
951253 TATTTAAAAATAAAATAA
1 AATTTAAAAATAAAATAA
951271 AATTTAAA
1 AATTTAAA
951279 TTATATTATT
Statistics
Matches: 29, Mismatches: 13, Indels: 2
0.66 0.30 0.05
Matches are distributed among these distances:
17 10 0.34
18 19 0.66
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
AATTTAAAAATAAAATAA
Found at i:954137 original size:22 final size:21
Alignment explanation
Indices: 954090--954138 Score: 53
Period size: 22 Copynumber: 2.3 Consensus size: 21
954080 GAATATCGGA
* *
954090 GGAAAAACAGGGGAAACACAG
1 GGAAAAACAGGCGAAACAAAG
* *
954111 AGAAAAACAAGGCGAAAGAAAG
1 GGAAAAAC-AGGCGAAACAAAG
954133 GGAAAA
1 GGAAAA
954139 TGAAGAGAAA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.59, C:0.10, G:0.31, T:0.00
Consensus pattern (21 bp):
GGAAAAACAGGCGAAACAAAG
Found at i:958621 original size:18 final size:16
Alignment explanation
Indices: 958594--958627 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 16
958584 CCCACTTGTG
958594 TTTTATTTTTAATTTTT
1 TTTTATTTTT-ATTTTT
958611 TTTTCATTTTTATTTTT
1 TTTT-ATTTTTATTTTT
958628 AAATTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTATTTTTATTTTT
Found at i:958856 original size:29 final size:29
Alignment explanation
Indices: 958810--958868 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
958800 CTTCCTTTTC
*
958810 TTTTTATTAATTTAAAATTTTATT-TATT
1 TTTTTATTAATTTAAAATTATATTATATT
* *
958838 TTTTATATTATTTTTAAATTATATTATATT
1 TTTT-TATTAATTTAAAATTATATTATATT
958868 T
1 T
958869 AAAATATTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 4 0.15
29 17 0.65
30 5 0.19
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (29 bp):
TTTTTATTAATTTAAAATTATATTATATT
Found at i:958859 original size:16 final size:16
Alignment explanation
Indices: 958840--958871 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
958830 TATTTATTTT
*
958840 TTATATTATTTTTAAA
1 TTATATTATATTTAAA
958856 TTATATTATATTTAAA
1 TTATATTATATTTAAA
958872 ATATTACATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATATTATATTTAAA
Found at i:958929 original size:26 final size:25
Alignment explanation
Indices: 958884--958935 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
958874 ATTACATAAT
958884 TTTTAATTTATTAATAATTTATATA
1 TTTTAATTTATTAATAATTTATATA
* * *
958909 TTTTATTTTATTTATATATTTTTATA
1 TTTTAATTTATTAATA-ATTTATATA
958935 T
1 T
958936 AATGATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 14 0.61
26 9 0.39
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (25 bp):
TTTTAATTTATTAATAATTTATATA
Found at i:960425 original size:21 final size:21
Alignment explanation
Indices: 960396--960465 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 21
960386 TATTAATAAT
960396 TTTAA-TAAAAATAATTTTATA
1 TTTAATTAAAAAT-ATTTTATA
*
960417 -TTAATTAAATAATACTTTATA
1 TTTAATTAAA-AATATTTTATA
* *
960438 TTTTATTAAAAATTATTTTAAA
1 TTTAATTAAAAA-TATTTTATA
960460 TTTAAT
1 TTTAAT
960466 CTTTAGATAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
20 4 0.10
21 13 0.32
22 23 0.57
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAATTAAAAATATTTTATA
Found at i:962759 original size:30 final size:30
Alignment explanation
Indices: 962697--962760 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
962687 TATTATACAT
* * *
962697 AAATAAATTTTTAATTTTTAATTTGCACTC
1 AAATAAATTATTAATATTTAATTTACACTC
* *
962727 AAATAAATTATTAATATTTAATTTATATTC
1 AAATAAATTATTAATATTTAATTTACACTC
962757 AAAT
1 AAAT
962761 CAGCTCTTAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.02, T:0.48
Consensus pattern (30 bp):
AAATAAATTATTAATATTTAATTTACACTC
Found at i:962826 original size:21 final size:21
Alignment explanation
Indices: 962797--962837 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
962787 AATATAAATT
* *
962797 AATTTTTTATTTAAAATAAAA
1 AATTATTTATATAAAATAAAA
*
962818 AATTATTTATATAAATTAAA
1 AATTATTTATATAAAATAAA
962838 GAATATGATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
AATTATTTATATAAAATAAAA
Found at i:963114 original size:2 final size:2
Alignment explanation
Indices: 963107--963139 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
963097 TATTAAGCTT
963107 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
963140 GAAGTGTAAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:963691 original size:13 final size:13
Alignment explanation
Indices: 963673--963703 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
963663 ATTTAATTAT
963673 ATATTAAAAATAA
1 ATATTAAAAATAA
*
963686 ATATTAAATATAA
1 ATATTAAAAATAA
963699 ATATT
1 ATATT
963704 TATAAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (13 bp):
ATATTAAAAATAA
Found at i:964255 original size:9 final size:9
Alignment explanation
Indices: 964235--964267 Score: 57
Period size: 9 Copynumber: 3.6 Consensus size: 9
964225 TGCACATGCC
964235 TTTCTCTTTT
1 TTTCT-TTTT
964245 TTTCTTTTT
1 TTTCTTTTT
964254 TTTCTTTTT
1 TTTCTTTTT
964263 TTTCT
1 TTTCT
964268 GAGACCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.78
10 5 0.22
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTCTTTTT
Found at i:964881 original size:28 final size:28
Alignment explanation
Indices: 964849--964902 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
964839 TTTTTATTTA
964849 AATTTAATTATAAATATTAATATAAAAT
1 AATTTAATTATAAATATTAATATAAAAT
* * *
964877 AATTTTATTTTTAATATTAATATAAA
1 AATTTAATTATAAATATTAATATAAA
964903 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
AATTTAATTATAAATATTAATATAAAAT
Found at i:964953 original size:21 final size:20
Alignment explanation
Indices: 964913--964955 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 20
964903 TTTTTTATTT
964913 ATTTAAATTAATTTAATTTAA
1 ATTTAAATTAATTT-ATTTAA
964934 ATTTAAATAATAATTT-TTTAA
1 ATTTAAAT--TAATTTATTTAA
964955 A
1 A
964956 ATTATATCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
21 14 0.70
23 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
ATTTAAATTAATTTATTTAA
Found at i:965477 original size:26 final size:24
Alignment explanation
Indices: 965448--965496 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
965438 CTGACATATA
*
965448 AATTTGAATTTGATTTTAAATATTTT
1 AATTTGAATTT--TTTTAAAAATTTT
*
965474 AATTTTAATTTTTTTAAAAATTT
1 AATTTGAATTTTTTTAAAAATTT
965497 AAATAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 11 0.52
26 10 0.48
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (24 bp):
AATTTGAATTTTTTTAAAAATTTT
Found at i:966271 original size:17 final size:17
Alignment explanation
Indices: 966249--966286 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
966239 CTTTAAAAAT
966249 ATAAATA-ATATAATATA
1 ATAAATATAT-TAATATA
*
966266 ATAAATATATTTATATA
1 ATAAATATATTAATATA
966283 ATAA
1 ATAA
966287 TTTTAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
ATAAATATATTAATATA
Found at i:966286 original size:25 final size:25
Alignment explanation
Indices: 966247--966313 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 25
966237 ATCTTTAAAA
*
966247 ATATAAATAATATAAT-ATAATAAA-T
1 ATAT-AAT-ATATAATAATTATAAATT
* *
966272 ATAT-TTATATAATAATTTTAAATT
1 ATATAATATATAATAATTATAAATT
966296 ATATAATATATAATAATT
1 ATATAATATATAATAATT
966314 TATTTTAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
22 7 0.20
23 7 0.20
24 5 0.14
25 16 0.46
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (25 bp):
ATATAATATATAATAATTATAAATT
Found at i:966801 original size:12 final size:12
Alignment explanation
Indices: 966784--966813 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
966774 CCAAATACCC
966784 AAAGAACGAAAA
1 AAAGAACGAAAA
*
966796 AAAGAACGAAAG
1 AAAGAACGAAAA
966808 AAAGAA
1 AAAGAA
966814 ATCTTCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.73, C:0.07, G:0.20, T:0.00
Consensus pattern (12 bp):
AAAGAACGAAAA
Found at i:969619 original size:2 final size:2
Alignment explanation
Indices: 969614--969640 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
969604 ATATATATAT
969614 AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG A
969641 TCACATGACA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:974420 original size:30 final size:31
Alignment explanation
Indices: 974375--974432 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
974365 AATTTATTTT
974375 ATTATTTAAATTAATATTA-AA-TAAATAAA
1 ATTATTTAAATTAATATTATAATTAAATAAA
*
974404 ATTATTTTATATTAATATTATAATTAAAT
1 ATTA-TTTAAATTAATATTATAATTAAAT
974433 TTAAATAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 4 0.16
30 14 0.56
31 2 0.08
32 5 0.20
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (31 bp):
ATTATTTAAATTAATATTATAATTAAATAAA
Found at i:974469 original size:42 final size:41
Alignment explanation
Indices: 974383--974476 Score: 97
Period size: 42 Copynumber: 2.2 Consensus size: 41
974373 TTATTATTTA
974383 AATT-AATATTAAATAAATAAAATTATTTTATATTAATATTAT
1 AATTAAAT-TTAAATAAATAAAATTATTTTATATTAATA-TAT
974425 AATTAAATTTAAATAAA-AATAATT-TTTTATTATTTTAATA-AT
1 AATTAAATTTAAATAAATAA-AATTATTTTA-TA--TTAATATAT
974467 AATTTAAATT
1 AA-TTAAATT
974477 AACCCGAATT
Statistics
Matches: 46, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
41 7 0.15
42 23 0.50
43 10 0.22
44 6 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (41 bp):
AATTAAATTTAAATAAATAAAATTATTTTATATTAATATAT
Found at i:975738 original size:3 final size:3
Alignment explanation
Indices: 975730--975764 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
975720 AGTCAAGCAT
975730 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
975765 TTAGCTTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:975852 original size:24 final size:24
Alignment explanation
Indices: 975825--975883 Score: 77
Period size: 23 Copynumber: 2.5 Consensus size: 24
975815 TTAGAAGATG
975825 TTTTAAAAATATATTT-TTTAAATA
1 TTTTAAAAATATATTTATTT-AATA
*
975849 TTTTAAAAA-ACATTTATTTAATA
1 TTTTAAAAATATATTTATTTAATA
*
975872 TATTAAAAATAT
1 TTTTAAAAATAT
975884 TAAATAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
23 17 0.57
24 13 0.43
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTTAAAAATATATTTATTTAATA
Found at i:975856 original size:23 final size:22
Alignment explanation
Indices: 975825--975884 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 22
975815 TTAGAAGATG
*
975825 TTTTAAAAATATATTTTTTAAATA
1 TTTTAAAAATAT-TTATTT-AATA
*
975849 TTTTAAAAAACATTTATTTAATA
1 TTTT-AAAAATATTTATTTAATA
*
975872 TATTAAAAATATT
1 TTTTAAAAATATT
975885 AAATAAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
22 8 0.26
23 7 0.23
24 9 0.29
25 7 0.23
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TTTTAAAAATATTTATTTAATA
Found at i:976315 original size:46 final size:45
Alignment explanation
Indices: 976232--976321 Score: 112
Period size: 46 Copynumber: 2.0 Consensus size: 45
976222 ATTTATCTAG
* *
976232 TATTATTTTTTAAAAATAATTAAAATTTGAATTTAAATATATTATA
1 TATTATTTTTTAAAAATAATTAAAATTT-AATATAAATAAATTATA
976278 TATTAATTTTTT-AAAATAATTATATAATTT-ATATAAATAAATTA
1 TATT-ATTTTTTAAAAATAATTA-A-AATTTAATATAAATAAATTA
976322 AATTAAACAT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
46 26 0.67
47 8 0.21
48 5 0.13
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (45 bp):
TATTATTTTTTAAAAATAATTAAAATTTAATATAAATAAATTATA
Found at i:976720 original size:24 final size:22
Alignment explanation
Indices: 976681--976814 Score: 76
Period size: 22 Copynumber: 5.9 Consensus size: 22
976671 TCACATGATT
976681 TTATATTTATTTATTATTTTTA
1 TTATATTTATTTATTATTTTTA
976703 TTATAATTATATTTATTATTTTTTA
1 TTAT-ATT-TATTTATTA-TTTTTA
* * * **
976728 TTGATATTAATTTTAATATATAAA
1 TT-ATATTTA-TTTATTATTTTTA
* *
976752 TTAT-TTATATTATATAAATTTTA
1 TTATATT-TATT-TATTATTTTTA
* * *
976775 ATATTTTTATTTATTAATTTTA
1 TTATATTTATTTATTATTTTTA
* *
976797 -AATATATATTT-TTATTTT
1 TTATATTTATTTATTATTTT
976815 GTGTACGATA
Statistics
Matches: 86, Mismatches: 18, Indels: 18
0.70 0.15 0.15
Matches are distributed among these distances:
20 6 0.07
21 8 0.09
22 18 0.21
23 18 0.21
24 17 0.20
25 17 0.20
26 2 0.02
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.64
Consensus pattern (22 bp):
TTATATTTATTTATTATTTTTA
Found at i:976742 original size:25 final size:24
Alignment explanation
Indices: 976681--976725 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
976671 TCACATGATT
976681 TTAT-ATT-TATTTATTATTTTTA
1 TTATAATTATATTTATTATTTTTA
976703 TTATAATTATATTTATTATTTTT
1 TTATAATTATATTTATTATTTTT
976726 TATTGATATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 4 0.19
23 3 0.14
24 14 0.67
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (24 bp):
TTATAATTATATTTATTATTTTTA
Found at i:976748 original size:14 final size:14
Alignment explanation
Indices: 976731--976778 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 14
976721 TTTTTTATTG
*
976731 ATATTAATTTTAAT
1 ATATAAATTTTAAT
976745 ATATAAATTATTTATATT
1 ATATAAA-T-TTTA-A-T
976763 ATATAAATTTTAAT
1 ATATAAATTTTAAT
976777 AT
1 AT
976779 TTTTATTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
14 9 0.31
15 2 0.07
16 8 0.28
17 2 0.07
18 8 0.28
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
ATATAAATTTTAAT
Found at i:976805 original size:27 final size:27
Alignment explanation
Indices: 976722--976813 Score: 84
Period size: 27 Copynumber: 3.3 Consensus size: 27
976712 TATTTATTAT
*
976722 TTTTTATTGATATTAATTTTAATATATAAA
1 TTTTTATT--TATTAATTTTAA-ATATATA
*
976752 TTATTTATATTATATAAATTT---TA-ATA
1 TT-TTTAT-TTAT-TAATTTTAAATATATA
976778 TTTTTATTTATTAATTTTAAATATATA
1 TTTTTATTTATTAATTTTAAATATATA
976805 TTTTTATTT
1 TTTTTATTT
976814 TGTGTACGAT
Statistics
Matches: 52, Mismatches: 3, Indels: 17
0.72 0.04 0.24
Matches are distributed among these distances:
23 6 0.12
24 4 0.08
25 5 0.10
26 6 0.12
27 14 0.27
30 5 0.10
31 11 0.21
32 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (27 bp):
TTTTTATTTATTAATTTTAAATATATA
Found at i:976810 original size:23 final size:22
Alignment explanation
Indices: 976759--976812 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
976749 AAATTATTTA
* *
976759 TATTATATAAATTTTAATATTTT
1 TATT-TATTAATTTTAATATTAT
976782 TATTTATTAATTTTAAATATATAT
1 TATTTATTAATTTT-AATAT-TAT
976806 T-TTTATT
1 TATTTATT
976813 TTGTGTACGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 9 0.33
23 15 0.56
24 3 0.11
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTTATTAATTTTAATATTAT
Found at i:977177 original size:14 final size:14
Alignment explanation
Indices: 977127--977184 Score: 53
Period size: 14 Copynumber: 3.9 Consensus size: 14
977117 ATTTTATTTT
977127 TATATAAATTTTAA
1 TATATAAATTTTAA
*
977141 TATATTAATAATTTATAT
1 TATA-T-A-AATTT-TAA
977159 TATATAAATTTTAA
1 TATATAAATTTTAA
* *
977173 AATATATATTTT
1 TATATAAATTTT
977185 TATCGTATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
14 16 0.44
15 6 0.17
16 2 0.06
17 6 0.17
18 6 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATAAATTTTAA
Found at i:977178 original size:16 final size:16
Alignment explanation
Indices: 977127--977180 Score: 56
Period size: 16 Copynumber: 3.4 Consensus size: 16
977117 ATTTTATTTT
*
977127 TATATAAATTTTAATA
1 TATATAAATTTTAAAA
* * *
977143 TAT-TAATAATTTATAT
1 TATATAA-ATTTTAAAA
977159 TATATAAATTTTAAAA
1 TATATAAATTTTAAAA
977175 TATATA
1 TATATA
977181 TTTTTATCGT
Statistics
Matches: 29, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
15 3 0.10
16 23 0.79
17 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATATAAATTTTAAAA
Found at i:978055 original size:44 final size:44
Alignment explanation
Indices: 977987--978071 Score: 143
Period size: 44 Copynumber: 1.9 Consensus size: 44
977977 AAATTTGTTC
* * *
977987 AAATGGGTTTTCTTAGTAACCTAATAATTCTTGAATTATTACAT
1 AAATCGGTTTTATTAGTAAACTAATAATTCTTGAATTATTACAT
978031 AAATCGGTTTTATTAGTAAACTAATAATTCTTGAATTATTA
1 AAATCGGTTTTATTAGTAAACTAATAATTCTTGAATTATTA
978072 TATGGTTGGT
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.36, C:0.09, G:0.11, T:0.44
Consensus pattern (44 bp):
AAATCGGTTTTATTAGTAAACTAATAATTCTTGAATTATTACAT
Found at i:978124 original size:2 final size:2
Alignment explanation
Indices: 978117--978151 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
978107 AAGTGACTTA
978117 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 A
978152 AACTTTGATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:979157 original size:23 final size:22
Alignment explanation
Indices: 979129--979197 Score: 70
Period size: 23 Copynumber: 3.0 Consensus size: 22
979119 TAATTAATAA
979129 AAATTTAAAATTATTTTAT-ATT
1 AAATTT-AAATTATTTTATAATT
* *
979151 AATATTTATATATATTATATAATT
1 AA-ATTTAAAT-TATTTTATAATT
979175 AAATTTAAATTAATTTT-TAATT
1 AAATTTAAATT-ATTTTATAATT
979197 A
1 A
979198 TTAAATATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 12 0.31
23 22 0.56
24 5 0.13
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (22 bp):
AAATTTAAATTATTTTATAATT
Found at i:979187 original size:35 final size:31
Alignment explanation
Indices: 979133--979218 Score: 84
Period size: 35 Copynumber: 2.7 Consensus size: 31
979123 TAATAAAAAT
* *
979133 TTAAA-ATTATTTTATATTAATATTTATATATA
1 TTAAATATTAATTTAAATTAATATTTA-AT-TA
* *
979165 TTATATAATTAAATTTAAATTAATTTTTAATTA
1 TTAAAT-ATT-AATTTAAATTAATATTTAATTA
*
979198 TTAAATATTAATTTAAGTTAA
1 TTAAATATTAATTTAAATTAA
979219 CTTATATTGA
Statistics
Matches: 45, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
31 11 0.24
32 7 0.16
33 7 0.16
34 5 0.11
35 15 0.33
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.53
Consensus pattern (31 bp):
TTAAATATTAATTTAAATTAATATTTAATTA
Found at i:979590 original size:10 final size:10
Alignment explanation
Indices: 979575--979603 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
979565 TGAATTTTAA
979575 ATTTATAAAT
1 ATTTATAAAT
979585 ATTTATAAAT
1 ATTTATAAAT
979595 ATTT-TAAAT
1 ATTTATAAAT
979604 TTACCATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 5 0.26
10 14 0.74
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (10 bp):
ATTTATAAAT
Found at i:979708 original size:16 final size:16
Alignment explanation
Indices: 979687--979717 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
979677 AATTACTAAT
979687 TTAAAATTTAAGTTTA
1 TTAAAATTTAAGTTTA
979703 TTAAAATTTAAGTTT
1 TTAAAATTTAAGTTT
979718 TCAATCGTAA
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:0.00, G:0.06, T:0.52
Consensus pattern (16 bp):
TTAAAATTTAAGTTTA
Found at i:980349 original size:17 final size:17
Alignment explanation
Indices: 980312--980367 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
980302 ATTTTACCCA
* **
980312 AAAATATTAAAATATAA
1 AAAATATTAAAATTTTT
980329 AAAATATTAAAATTTTT
1 AAAATATTAAAATTTTT
*
980346 AAAATATATATATATTTTT
1 AAAATAT-TA-AAATTTTT
980365 AAA
1 AAA
980368 TAAAAAACTA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 21 0.64
18 2 0.06
19 10 0.30
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
AAAATATTAAAATTTTT
Found at i:980354 original size:19 final size:19
Alignment explanation
Indices: 980326--980367 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
980316 TATTAAAATA
980326 TAAAAAATAT-TAAAATTTT
1 TAAAAAATATAT-AAATTTT
* *
980345 TAAAATATATATATATTTT
1 TAAAAAATATATAAATTTT
980364 TAAA
1 TAAA
980368 TAAAAAACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 19 0.95
20 1 0.05
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TAAAAAATATATAAATTTT
Found at i:983607 original size:3 final size:3
Alignment explanation
Indices: 983599--983623 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
983589 TCTCAAGGAG
983599 AAC AAC AAC AAC AAC AAC AAC AAC A
1 AAC AAC AAC AAC AAC AAC AAC AAC A
983624 GCATCAAGCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:983985 original size:2 final size:2
Alignment explanation
Indices: 983978--984006 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
983968 TGAGTTAAAT
983978 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 T
984007 TTCCTTGTGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:985597 original size:109 final size:109
Alignment explanation
Indices: 985406--985622 Score: 344
Period size: 109 Copynumber: 2.0 Consensus size: 109
985396 AGGGGAAAAA
** * * *
985406 AGAATTGTAACTTGGGTTTTCTTTAGTTGTTGTTGTATGATCTAGGTGGTATGATAATGAATCAA
1 AGAATTGTAACTTAAGTTTCCTTTAGTTGTTGTTGTATAATCTAGGTGGTATAATAATGAATCAA
* *
985471 GGAGAAAAACTTTGAGAATATTGCTTTAATATTTCCTAATTTGC
66 GAAGAAAAACTTTGAGAATATTGCTTGAATATTTCCTAATTTGC
985515 AGAATTGTAACTTAAGTTTCCTTTAGTTGTTGTTGTATAATCTAGGTGGTATAATAATGAATCAA
1 AGAATTGTAACTTAAGTTTCCTTTAGTTGTTGTTGTATAATCTAGGTGGTATAATAATGAATCAA
* * *
985580 GAAGACAAACTTTGAGAATGTTGCTTGAATTTTTCCTAATTTG
66 GAAGAAAAACTTTGAGAATATTGCTTGAATATTTCCTAATTTG
985623 AAGTGTTTCT
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
109 98 1.00
ACGTcount: A:0.30, C:0.09, G:0.20, T:0.41
Consensus pattern (109 bp):
AGAATTGTAACTTAAGTTTCCTTTAGTTGTTGTTGTATAATCTAGGTGGTATAATAATGAATCAA
GAAGAAAAACTTTGAGAATATTGCTTGAATATTTCCTAATTTGC
Found at i:986682 original size:31 final size:31
Alignment explanation
Indices: 986616--986686 Score: 97
Period size: 31 Copynumber: 2.3 Consensus size: 31
986606 TAAATTGTTG
* * * **
986616 AGAAGTGTCTTTGTTTCAGCTCAAGTTGTTG
1 AGAAGTGTCTTTGTTTCAACACAAGCTGTCA
986647 AGAAGTGTCTTTGTTTCAACACAAGCTGTCA
1 AGAAGTGTCTTTGTTTCAACACAAGCTGTCA
986678 AGAAGTGTC
1 AGAAGTGTC
986687 CCTGAATTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.25, C:0.15, G:0.24, T:0.35
Consensus pattern (31 bp):
AGAAGTGTCTTTGTTTCAACACAAGCTGTCA
Found at i:989821 original size:14 final size:15
Alignment explanation
Indices: 989782--989821 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 15
989772 ATATTTTTTA
989782 TATAT-TTAAATAAT
1 TATATCTTAAATAAT
*
989796 TATATCTT-AATACT
1 TATATCTTAAATAAT
989810 TAT-TCTTAAATA
1 TATATCTTAAATA
989822 TATGTTAAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 4 0.17
14 17 0.74
15 2 0.09
ACGTcount: A:0.42, C:0.07, G:0.00, T:0.50
Consensus pattern (15 bp):
TATATCTTAAATAAT
Found at i:993069 original size:35 final size:33
Alignment explanation
Indices: 992996--993066 Score: 79
Period size: 35 Copynumber: 2.0 Consensus size: 33
992986 AGATGATGAT
992996 ATTTTATTAAAAATTTTTAAAATTAAAAATTAAAA
1 ATTTTATTAAAAATTTTTAAAATTAAAAATT--AA
* *
993031 ATTTTATTTAAATTTATTTAAAAATTAAATAATTAA
1 ATTTTATTAAAAATT-TTT-AAAATTAAA-AATTAA
993067 TTTAACAAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
35 13 0.42
36 5 0.16
37 9 0.29
38 4 0.13
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (33 bp):
ATTTTATTAAAAATTTTTAAAATTAAAAATTAA
Found at i:995077 original size:29 final size:30
Alignment explanation
Indices: 995023--995091 Score: 79
Period size: 29 Copynumber: 2.3 Consensus size: 30
995013 TATAATAAAG
995023 ATTATATTATTAAATTAAATATATATTTTT
1 ATTATATTATTAAATTAAATATATATTTTT
* * *
995053 ATTA-ATTATT-AATTATATTTAATATTTAT
1 ATTATATTATTAAATTAAATAT-ATATTTTT
*
995082 CTTATATTAT
1 ATTATATTAT
995092 ATTTAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 8 0.24
29 16 0.48
30 9 0.27
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (30 bp):
ATTATATTATTAAATTAAATATATATTTTT
Found at i:995745 original size:20 final size:20
Alignment explanation
Indices: 995705--995741 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
995695 ATTTATTTAG
995705 ATAAATTTTTATATTTTATT
1 ATAAATTTTTATATTTTATT
*
995725 ATAATTTTTTAT-TTTTA
1 ATAAATTTTTATATTTTA
995742 ATTAATATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 5 0.31
20 11 0.69
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (20 bp):
ATAAATTTTTATATTTTATT
Found at i:995747 original size:18 final size:20
Alignment explanation
Indices: 995705--995747 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
995695 ATTTATTTAG
* *
995705 ATAAATTTTTATATTTTATT
1 ATAATTTTTTATATTTTAAT
995725 ATAATTTTTTAT-TTTTAAT
1 ATAATTTTTTATATTTTAAT
995744 -TAAT
1 ATAAT
995748 ATTAAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 4 0.19
19 6 0.29
20 11 0.52
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (20 bp):
ATAATTTTTTATATTTTAAT
Found at i:995762 original size:30 final size:30
Alignment explanation
Indices: 995727--995795 Score: 102
Period size: 30 Copynumber: 2.3 Consensus size: 30
995717 ATTTTATTAT
*
995727 AATTTTTTATTTTTAATTAATATTAAAATA
1 AATTTTTAATTTTTAATTAATATTAAAATA
* * *
995757 TATTTTTAATTTTTAATTCATATTTAAATA
1 AATTTTTAATTTTTAATTAATATTAAAATA
995787 AATTTTTAA
1 AATTTTTAA
995796 AATAAATAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (30 bp):
AATTTTTAATTTTTAATTAATATTAAAATA
Found at i:995988 original size:20 final size:19
Alignment explanation
Indices: 995963--996013 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
995953 AGGTACTTTC
995963 TTTTTTTTAAATATGATTAT
1 TTTTTTTTAAAT-TGATTAT
* *
995983 TTTTTTATATAATTTATTAT
1 TTTTTTTTA-AATTGATTAT
*
996003 TTTTATTTAAA
1 TTTTTTTTAAA
996014 AATATTTTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 2 0.08
20 21 0.81
21 3 0.12
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (19 bp):
TTTTTTTTAAATTGATTAT
Done.