Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold265
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: 864291
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
File 5 of 6
Found at i:573207 original size:6 final size:6
Alignment explanation
Indices: 573198--573235 Score: 58
Period size: 6 Copynumber: 6.0 Consensus size: 6
573188 AAAAAAGAAA
573198 AATTTT AATTTT AATTGTT ATATTTT AATTTT AATTTT
1 AATTTT AATTTT AATT-TT A-ATTTT AATTTT AATTTT
573236 TATATTTTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 21 0.70
7 6 0.20
8 3 0.10
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.66
Consensus pattern (6 bp):
AATTTT
Found at i:573224 original size:20 final size:20
Alignment explanation
Indices: 573199--573243 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
573189 AAAAAGAAAA
573199 ATTTTAATTTTAATTGTTAT
1 ATTTTAATTTTAATTGTTAT
*
573219 ATTTTAATTTTAATTTTTAT
1 ATTTTAATTTTAATTGTTAT
573239 ATTTT
1 ATTTT
573244 TATCAATTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (20 bp):
ATTTTAATTTTAATTGTTAT
Found at i:573242 original size:14 final size:14
Alignment explanation
Indices: 573200--573246 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
573190 AAAAGAAAAA
573200 TTTTA-ATTTTAAT
1 TTTTATATTTTAAT
*
573213 TGTTATATTTTAAT
1 TTTTATATTTTAAT
*
573227 TTTAAT-TTTTATAT
1 TTTTATATTTTA-AT
573241 TTTTAT
1 TTTTAT
573247 CAATTAATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
13 9 0.32
14 19 0.68
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (14 bp):
TTTTATATTTTAAT
Found at i:573718 original size:6 final size:6
Alignment explanation
Indices: 573700--573735 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
573690 GATTACAATT
*
573700 TTTTTA TTGTTA TTTTTA TTTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA -TTTTTA TTTTTA TTTTT
573736 CTGTATTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
6 21 0.78
7 6 0.22
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (6 bp):
TTTTTA
Found at i:573723 original size:19 final size:19
Alignment explanation
Indices: 573699--573735 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
573689 AGATTACAAT
573699 TTTTTTATTGTTATTTTTA
1 TTTTTTATTGTTATTTTTA
*
573718 TTTTTTATTTTTATTTTT
1 TTTTTTATTGTTATTTTT
573736 CTGTATTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.84
Consensus pattern (19 bp):
TTTTTTATTGTTATTTTTA
Found at i:573725 original size:13 final size:13
Alignment explanation
Indices: 573700--573735 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
573690 GATTACAATT
*
573700 TTTTTA-TTGTTA
1 TTTTTATTTTTTA
573712 TTTTTATTTTTTA
1 TTTTTATTTTTTA
573725 TTTTTATTTTT
1 TTTTTATTTTT
573736 CTGTATTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 6 0.27
13 16 0.73
ACGTcount: A:0.14, C:0.00, G:0.03, T:0.83
Consensus pattern (13 bp):
TTTTTATTTTTTA
Found at i:575800 original size:19 final size:18
Alignment explanation
Indices: 575776--575819 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
575766 AACTCATGAA
575776 TTTAATTTAATTTTTTAAT
1 TTTAATTT-ATTTTTTAAT
* *
575795 TTTAATATATTTTTTATT
1 TTTAATTTATTTTTTAAT
575813 TTTAATT
1 TTTAATT
575820 AATATTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 15 0.68
19 7 0.32
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTAATTTATTTTTTAAT
Found at i:577303 original size:23 final size:22
Alignment explanation
Indices: 577277--577319 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
577267 AATTTTAATT
*
577277 ATTTATTATATATACATATTTTA
1 ATTTAATATATATA-ATATTTTA
*
577300 ATTTAATATCTATAATATTT
1 ATTTAATATATATAATATTT
577320 ATTTTTCTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTAATATATATAATATTTTA
Found at i:577600 original size:16 final size:17
Alignment explanation
Indices: 577570--577614 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
577560 AATCTAAATT
577570 ATTAT-TTAATAATAAA
1 ATTATATTAATAATAAA
*
577586 A-TATATTAATTATAAA
1 ATTATATTAATAATAAA
577602 ATTATATATAATA
1 ATTATAT-TAATA
577615 TTAATATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 3 0.12
16 12 0.50
17 5 0.21
18 4 0.17
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATTATATTAATAATAAA
Found at i:577615 original size:24 final size:24
Alignment explanation
Indices: 577588--577652 Score: 73
Period size: 24 Copynumber: 2.8 Consensus size: 24
577578 ATAATAAAAT
*
577588 ATATTAATTATAAAATTATATATA
1 ATATTAATTATAAAATAATATATA
*
577612 ATATTAA-TATAAAAATAATATTTA
1 ATATTAATTAT-AAAATAATATATA
*
577636 ATAAT-ATTAT-AAATAAT
1 ATATTAATTATAAAATAAT
577653 CAAATAAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
22 7 0.19
23 4 0.11
24 25 0.69
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
ATATTAATTATAAAATAATATATA
Found at i:577630 original size:11 final size:11
Alignment explanation
Indices: 577590--577632 Score: 50
Period size: 11 Copynumber: 3.7 Consensus size: 11
577580 AATAAAATAT
577590 ATTAATTATAAA
1 ATTAA-TATAAA
*
577602 ATTATATATAAT
1 ATTA-ATATAAA
577614 ATTAATATAAA
1 ATTAATATAAA
*
577625 AATAATAT
1 ATTAATAT
577633 TTAATAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 13 0.48
12 13 0.48
13 1 0.04
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATTAATATAAA
Found at i:577645 original size:39 final size:40
Alignment explanation
Indices: 577575--577652 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 40
577565 AAATTATTAT
* *
577575 TTAATAATAAAATATATTAATTATAAAATTATATATAATA
1 TTAATAATAAAATATAATAATTATAAAATTATAAATAATA
* *
577615 TTAAT-ATAAAA-ATAATATTTAATAATATTATAAATAAT
1 TTAATAATAAAATATAATAATT-ATAAAATTATAAATAAT
577653 CAAATAAAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
38 7 0.21
39 21 0.64
40 5 0.15
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (40 bp):
TTAATAATAAAATATAATAATTATAAAATTATAAATAATA
Found at i:577649 original size:22 final size:21
Alignment explanation
Indices: 577597--577652 Score: 57
Period size: 17 Copynumber: 2.8 Consensus size: 21
577587 TATATTAATT
* *
577597 ATAAAATTATATATAATATTA
1 ATAATATTATAAATAATATTA
577618 AT-ATA--A-AAATAATATTTA
1 ATAATATTATAAATAATA-TTA
577636 ATAATATTATAAATAAT
1 ATAATATTATAAATAAT
577653 CAAATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
17 7 0.25
18 6 0.21
19 3 0.11
20 2 0.07
21 3 0.11
22 7 0.25
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
ATAATATTATAAATAATATTA
Found at i:577668 original size:20 final size:21
Alignment explanation
Indices: 577635--577677 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
577625 AATAATATTT
*
577635 AATAATATTATAAA-TAATCA
1 AATAAAATTATAAATTAATCA
*
577655 AATAAAATTTTAAATTAATCA
1 AATAAAATTATAAATTAATCA
577676 AA
1 AA
577678 CTCAATCTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (21 bp):
AATAAAATTATAAATTAATCA
Found at i:577951 original size:29 final size:29
Alignment explanation
Indices: 577919--578037 Score: 79
Period size: 32 Copynumber: 4.0 Consensus size: 29
577909 TCAAATGATT
577919 ATTTATATATTTATTTTATATTTATATAA
1 ATTTATATATTTATTTTATATTTATATAA
577948 ATTTTAATATATATTAATAATTTATA-TTATATAA
1 A-TTT-ATATAT-TT-AT--TTTATATTTATATAA
* *
577982 ATTT-TA-A---AATATATATTTATATAA
1 ATTTATATATTTATTTTATATTTATATAA
* *
578006 TATTATATTTTATTTATTTTATATTCATATAA
1 -ATT-TA-TATATTTATTTTATATTTATATAA
578038 TTATATTTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 27
0.68 0.06 0.26
Matches are distributed among these distances:
23 5 0.07
24 8 0.12
25 4 0.06
26 1 0.01
28 1 0.01
29 2 0.03
30 4 0.06
31 8 0.12
32 16 0.23
33 5 0.07
34 9 0.13
35 6 0.09
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (29 bp):
ATTTATATATTTATTTTATATTTATATAA
Found at i:577973 original size:13 final size:14
Alignment explanation
Indices: 577952--578014 Score: 57
Period size: 13 Copynumber: 4.8 Consensus size: 14
577942 ATATAAATTT
577952 TAATATATATTA-A
1 TAATATATATTATA
*
577965 TAATTTATATTATA
1 TAATATATATTATA
577979 TAA-AT-T-TTA-A
1 TAATATATATTATA
577989 -AATATATATTTATA
1 TAATATATA-TTATA
578003 TAATATTATATT
1 TAATA-TATATT
578015 TTATTTATTT
Statistics
Matches: 40, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
9 2 0.05
10 3 0.08
11 4 0.10
12 1 0.03
13 15 0.38
14 5 0.12
15 6 0.15
16 4 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (14 bp):
TAATATATATTATA
Found at i:577983 original size:34 final size:37
Alignment explanation
Indices: 577933--578014 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 37
577923 ATATATTTAT
577933 TTTATATTTATATAAATTTT-AATATATA-TTA-ATAA
1 TTTATA-TTATATAAATTTTAAATATATATTTATATAA
577968 TTTATATTATATAAATTTTAAAATATATATTTATATAA
1 TTTATATTATATAAATTTT-AAATATATATTTATATAA
578006 TATTATATT
1 T-TTATATT
578015 TTATTTATTT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
34 13 0.31
35 6 0.14
36 8 0.19
37 3 0.07
38 5 0.12
39 7 0.17
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (37 bp):
TTTATATTATATAAATTTTAAATATATATTTATATAA
Found at i:577994 original size:16 final size:16
Alignment explanation
Indices: 577941--577996 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
577931 ATTTTATATT
*
577941 TATATAAATTTTAATA
1 TATATAAATTTTAAAA
* * *
577957 TATATTAATAATTTATAT
1 TATA-TAA-ATTTTAAAA
577975 TATATAAATTTTAAAA
1 TATATAAATTTTAAAA
577991 TATATA
1 TATATA
577997 TTTATATAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 4
0.74 0.17 0.10
Matches are distributed among these distances:
16 16 0.52
17 6 0.19
18 9 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATATAAATTTTAAAA
Found at i:578012 original size:16 final size:16
Alignment explanation
Indices: 577934--578046 Score: 64
Period size: 14 Copynumber: 7.6 Consensus size: 16
577924 TATATTTATT
577934 TTATATTTATATAA-A
1 TTATATTTATATAATA
* * *
577949 TTTTA-ATATATATTA
1 TTATATTTATATAATA
* *
577964 ATA-ATTTATATTATA
1 TTATATTTATATAATA
* *
577979 -TAAATTT-TAAAATA
1 TTATATTTATATAATA
577993 -TATATTTATATAATA
1 TTATATTTATATAATA
* *
578008 TTATATTT-TATTTATT
1 TTATATTTATA-TAATA
*
578024 TTATATTCATAT-A-A
1 TTATATTTATATAATA
578038 TTATATTTA
1 TTATATTTA
578047 ATACTAAAAA
Statistics
Matches: 74, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
14 28 0.38
15 26 0.35
16 18 0.24
17 2 0.03
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATATTTATATAATA
Found at i:578029 original size:21 final size:22
Alignment explanation
Indices: 577995--578035 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
577985 TTAAAATATA
577995 TATTTATATAATATT-ATATTT
1 TATTTATATAATATTCATATTT
* *
578016 TATTTATTTTATATTCATAT
1 TATTTATATAATATTCATAT
578036 AATTATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTTATATAATATTCATATTT
Found at i:578372 original size:18 final size:19
Alignment explanation
Indices: 578322--578373 Score: 54
Period size: 18 Copynumber: 2.8 Consensus size: 19
578312 AAAAATTTAA
*
578322 ATTTATTTTAT-TTTATTT
1 ATTTATTTTATAATTATTT
** *
578340 ATTTAAATTAAAATTATTT
1 ATTTATTTTATAATTATTT
578359 -TTTATTTTATAATTA
1 ATTTATTTTATAATTA
578374 CGATCCGACT
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 20 0.77
19 6 0.23
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTTATTTTATAATTATTT
Found at i:585588 original size:16 final size:16
Alignment explanation
Indices: 585541--585593 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
585531 ATTTAGTTTG
585541 TTTTAAATT-ATTGTTAA
1 TTTT-AATTAATT-TTAA
585558 TTATT-ATTAAATTTTAA
1 TT-TTAATT-AATTTTAA
585575 TTTTAATTAATTTTAA
1 TTTTAATTAATTTTAA
585591 TTT
1 TTT
585594 AAATATAGGT
Statistics
Matches: 32, Mismatches: 0, Indels: 9
0.78 0.00 0.22
Matches are distributed among these distances:
16 16 0.50
17 11 0.34
18 5 0.16
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (16 bp):
TTTTAATTAATTTTAA
Found at i:585853 original size:8 final size:8
Alignment explanation
Indices: 585840--585878 Score: 69
Period size: 8 Copynumber: 4.9 Consensus size: 8
585830 TAATATTTAA
585840 TTTAAAAT
1 TTTAAAAT
585848 TTTAAAAT
1 TTTAAAAT
585856 TTTAAAAT
1 TTTAAAAT
*
585864 TTTAAAAA
1 TTTAAAAT
585872 TTTAAAA
1 TTTAAAA
585879 ATTTGTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
8 30 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (8 bp):
TTTAAAAT
Found at i:585879 original size:8 final size:8
Alignment explanation
Indices: 585838--585882 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
585828 TTTAATATTT
585838 AATTTAAA
1 AATTTAAA
*
585846 ATTTTAAA
1 AATTTAAA
*
585854 ATTTTAAA
1 AATTTAAA
*
585862 ATTTTAAA
1 AATTTAAA
585870 AATTTAAA
1 AATTTAAA
585878 AATTT
1 AATTT
585883 GTATTTAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 35 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (8 bp):
AATTTAAA
Found at i:586284 original size:15 final size:15
Alignment explanation
Indices: 586261--586295 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
586251 TTTTGTGAAT
586261 AAAAATATA-TTTTA
1 AAAAATATATTTTTA
586275 AAAAATTATATTTTTA
1 AAAAA-TATATTTTTA
586291 AAAAA
1 AAAAA
586296 ATAAGTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 5 0.26
15 4 0.21
16 10 0.53
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAAATATATTTTTA
Found at i:586343 original size:20 final size:20
Alignment explanation
Indices: 586304--586358 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
586294 AAATAAGTTA
586304 AAAATAAATAATTAAGTTTT
1 AAAATAAATAATTAAGTTTT
* * **
586324 TAATTAAATAATTATTTTTT
1 AAAATAAATAATTAAGTTTT
*
586344 AAAATAAAAAATTAA
1 AAAATAAATAATTAA
586359 ATATATTTAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (20 bp):
AAAATAAATAATTAAGTTTT
Found at i:587171 original size:8 final size:8
Alignment explanation
Indices: 587145--587199 Score: 51
Period size: 8 Copynumber: 6.9 Consensus size: 8
587135 ACCTTCTTGT
*
587145 AAAGAATA
1 AAAGAAAA
*
587153 AAATAATAA
1 AAAGAA-AA
587162 AAAGAAAA
1 AAAGAAAA
587170 AAA-AAAA
1 AAAGAAAA
587177 AAA-AAAA
1 AAAGAAAA
*
587184 GAAAGAAAG
1 -AAAGAAAA
587193 AAAGAAA
1 AAAGAAA
587200 GCTTTTCTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
7 11 0.28
8 20 0.50
9 9 0.22
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (8 bp):
AAAGAAAA
Found at i:587196 original size:12 final size:11
Alignment explanation
Indices: 587160--587200 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 11
587150 ATAAAATAAT
587160 AAAAAGAAA-A
1 AAAAAGAAAGA
587170 AAAAA-AAA-A
1 AAAAAGAAAGA
587179 AAAAAGAAAGA
1 AAAAAGAAAGA
587190 AAGAAAGAAAG
1 AA-AAAGAAAG
587201 CTTTTCTTGG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.32
10 8 0.29
11 3 0.11
12 8 0.29
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAGA
Found at i:587291 original size:2 final size:2
Alignment explanation
Indices: 587284--587309 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
587274 ATGAATTTAT
587284 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
587310 ATTTAATAAA
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):
TA
Found at i:587694 original size:28 final size:30
Alignment explanation
Indices: 587662--587722 Score: 74
Period size: 31 Copynumber: 2.1 Consensus size: 30
587652 TGGTTGAATG
587662 AATTATAATT-TAAA-TATTTT-TTATTTTA
1 AATTA-AATTATAAATTATTTTATTATTTTA
*
587690 AATTAATTTATAAATTTATTTTATTATTTTA
1 AATTAAATTATAAA-TTATTTTATTATTTTA
587721 AA
1 AA
587723 AATATTAATA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 3 0.11
28 9 0.32
30 6 0.21
31 10 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (30 bp):
AATTAAATTATAAATTATTTTATTATTTTA
Found at i:587918 original size:16 final size:17
Alignment explanation
Indices: 587887--587919 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
587877 TAATCGGTTC
*
587887 AATTTATTTAAATTAAA
1 AATTAATTTAAATTAAA
587904 AATTAATTT-AATTAAA
1 AATTAATTTAAATTAAA
587920 TTTAGTGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTAATTTAAATTAAA
Found at i:588034 original size:14 final size:14
Alignment explanation
Indices: 588017--588044 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
588007 TTTTTTAATT
588017 TTAAATATATTTTA
1 TTAAATATATTTTA
588031 TTAAATATATTTTA
1 TTAAATATATTTTA
588045 AATATTAATT
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAAATATATTTTA
Found at i:588060 original size:9 final size:9
Alignment explanation
Indices: 588048--588077 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
588038 TATTTTAAAT
588048 ATTAATTTA
1 ATTAATTTA
588057 ATTAATTTA
1 ATTAATTTA
588066 ATTAATTTA
1 ATTAATTTA
588075 ATT
1 ATT
588078 TTATATTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
ATTAATTTA
Found at i:588291 original size:26 final size:25
Alignment explanation
Indices: 588249--588358 Score: 75
Period size: 25 Copynumber: 4.5 Consensus size: 25
588239 ACAAGCATTG
* *
588249 ATTTAAATAATTA-TTATAATATAA
1 ATTTTAATTATTATTTATAATATAA
*
588273 TATTTTAATTATTATTTATAATTTAA
1 -ATTTTAATTATTATTTATAATATAA
* * *
588299 ATTTTTATTAATATTTATTAT-TAA
1 ATTTTAATTATTATTTATAATATAA
* * * *
588323 AATTT-ATTCTAATTTATTATA-ATA
1 ATTTTAATTATTATTTATAATATA-A
*
588347 ATATTAATTATT
1 ATTTTAATTATT
588359 TTTGTGATTG
Statistics
Matches: 67, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
23 13 0.19
24 11 0.16
25 33 0.49
26 10 0.15
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (25 bp):
ATTTTAATTATTATTTATAATATAA
Found at i:588303 original size:25 final size:25
Alignment explanation
Indices: 588249--588327 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 25
588239 ACAAGCATTG
* * *
588249 ATTTAAATAATTA-TTATAATATAA
1 ATTTTAATTATTATTTATAATTTAA
588273 TATTTTAATTATTATTTATAATTTAA
1 -ATTTTAATTATTATTTATAATTTAA
* * * *
588299 ATTTTTATTAATATTTATTATTAAA
1 ATTTTAATTATTATTTATAATTTAA
588324 ATTT
1 ATTT
588328 ATTCTAATTT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
25 36 0.78
26 10 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
ATTTTAATTATTATTTATAATTTAA
Found at i:588314 original size:18 final size:18
Alignment explanation
Indices: 588270--588315 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
588260 TATTATAATA
*
588270 TAATATTTTAATTATTAT
1 TAATATTTAAATTATTAT
* *
588288 TTATAATTTAAATTTTTAT
1 TAAT-ATTTAAATTATTAT
588307 TAATATTTA
1 TAATATTTA
588316 TTATTAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (18 bp):
TAATATTTAAATTATTAT
Found at i:588319 original size:13 final size:13
Alignment explanation
Indices: 588270--588330 Score: 56
Period size: 13 Copynumber: 4.8 Consensus size: 13
588260 TATTATAATA
*
588270 TAATATTT-TAAT
1 TAATATTTATTAT
* *
588282 TATTATTTATAATT
1 TAATATTTATTA-T
588296 TAA-ATTT-TTAT
1 TAATATTTATTAT
588307 TAATATTTATTAT
1 TAATATTTATTAT
*
588320 TAAAATTTATT
1 TAATATTTATT
588331 CTAATTTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
11 4 0.10
12 13 0.32
13 21 0.51
14 3 0.07
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
TAATATTTATTAT
Found at i:588595 original size:15 final size:15
Alignment explanation
Indices: 588556--588595 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
588546 TTATTTAGAT
*
588556 TTTATATTTAAATTA
1 TTTAAATTTAAATTA
* *
588571 TTTGAGTTTAAATTA
1 TTTAAATTTAAATTA
588586 TTTAAATTTA
1 TTTAAATTTA
588596 TTTTATTAAT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (15 bp):
TTTAAATTTAAATTA
Found at i:588651 original size:28 final size:30
Alignment explanation
Indices: 588620--588675 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 30
588610 AAATTAAATC
588620 AAATTAAATTTAAAT-AAATTTT-TTGATT
1 AAATTAAATTTAAATAAAATTTTATTGATT
* *
588648 AAATTATATTTAATTAAAATTTTATTGA
1 AAATTAAATTTAAATAAAATTTTATTGA
588676 AATAGAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 13 0.54
29 7 0.29
30 4 0.17
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (30 bp):
AAATTAAATTTAAATAAAATTTTATTGATT
Found at i:589768 original size:29 final size:30
Alignment explanation
Indices: 589703--589768 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 30
589693 ATTTATGGAT
589703 TCAATT-ATTTTTAATTATTATAATTAAAA
1 TCAATTAATTTTTAATTATTATAATTAAAA
*
589732 TCAATTAATTTTT-ATTATTTTAATTAAAA
1 TCAATTAATTTTTAATTATTATAATTAAAA
*
589761 TTAATTAA
1 TCAATTAA
589769 ATTAATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
29 28 0.82
30 6 0.18
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (30 bp):
TCAATTAATTTTTAATTATTATAATTAAAA
Found at i:594671 original size:30 final size:30
Alignment explanation
Indices: 594635--594738 Score: 97
Period size: 30 Copynumber: 3.4 Consensus size: 30
594625 GGTAGCTGGA
594635 GGAGTCGAGAGTATGGGAATCCAAGCGGCT
1 GGAGTCGAGAGTATGGGAATCCAAGCGGCT
** *
594665 GGAGTCGAGAAG-ATGGTCAT-C-AGGGTAGCT
1 GGAGTCGAG-AGTATGGGAATCCAAGCG--GCT
*
594695 GGAAGAATCGAGAGTATGGGAATCCAAGTGGCT
1 GG-AG--TCGAGAGTATGGGAATCCAAGCGGCT
594728 GGAGTCGAGAG
1 GGAGTCGAGAG
594739 CAAAGGGATC
Statistics
Matches: 59, Mismatches: 6, Indels: 18
0.71 0.07 0.22
Matches are distributed among these distances:
28 3 0.05
29 1 0.02
30 27 0.46
31 4 0.07
32 4 0.07
33 16 0.27
34 1 0.02
35 3 0.05
ACGTcount: A:0.29, C:0.13, G:0.40, T:0.17
Consensus pattern (30 bp):
GGAGTCGAGAGTATGGGAATCCAAGCGGCT
Found at i:599560 original size:28 final size:27
Alignment explanation
Indices: 599517--599588 Score: 90
Period size: 28 Copynumber: 2.6 Consensus size: 27
599507 AAACAACATG
*
599517 CCACCATTTTTGACAAATAAAAAGAAA
1 CCACAATTTTTGACAAATAAAAAGAAA
* * *
599544 CCACTATTTTTTGACAAATACAAAGTAA
1 CCAC-AATTTTTGACAAATAAAAAGAAA
*
599572 TCACAATTTTTGACAAA
1 CCACAATTTTTGACAAA
599589 CAATGGGTGA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
27 16 0.42
28 22 0.58
ACGTcount: A:0.46, C:0.18, G:0.07, T:0.29
Consensus pattern (27 bp):
CCACAATTTTTGACAAATAAAAAGAAA
Found at i:601504 original size:21 final size:22
Alignment explanation
Indices: 601466--601511 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
601456 ATCTGTTGAA
* **
601466 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
601487 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
601509 ACT
1 ACT
601512 TGTCTGAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:604137 original size:28 final size:27
Alignment explanation
Indices: 604091--604157 Score: 80
Period size: 28 Copynumber: 2.4 Consensus size: 27
604081 ACATGTCATC
* *
604091 ATTTTTGATAAATAAAAAGAAACCACTA
1 ATTTTTGACAAACAAAAAGAAACCA-TA
* * *
604119 TTTTTTGACAAACACAAAGTAACCATA
1 ATTTTTGACAAACAAAAAGAAACCATA
604146 ATTTTTGACAAA
1 ATTTTTGACAAA
604158 TAATAGGTGG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
27 13 0.39
28 20 0.61
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.31
Consensus pattern (27 bp):
ATTTTTGACAAACAAAAAGAAACCATA
Found at i:604292 original size:15 final size:14
Alignment explanation
Indices: 604250--604292 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
604240 TCATAAGATA
*
604250 AAAAATAAATATTTT
1 AAAAA-AAATATATT
*
604265 AAAAAAGATATATT
1 AAAAAAAATATATT
604279 AAATAAAAATATAT
1 AAA-AAAAATATAT
604293 ATGTATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 10 0.42
15 14 0.58
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (14 bp):
AAAAAAAATATATT
Found at i:604415 original size:16 final size:15
Alignment explanation
Indices: 604390--604419 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
604380 AAAAATATAT
604390 ATTTTATTTTTTAAA
1 ATTTTATTTTTTAAA
604405 ATTTGTATTTTTTAA
1 ATTT-TATTTTTTAA
604420 TAGGTCATGT
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:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (15 bp):
ATTTTATTTTTTAAA
Found at i:605044 original size:15 final size:15
Alignment explanation
Indices: 605020--605050 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
605010 GCTTCCAATA
605020 ATGATCCACACAAGC
1 ATGATCCACACAAGC
*
605035 ATGATTCACACAAGC
1 ATGATCCACACAAGC
605050 A
1 A
605051 CTTGGTGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.29, G:0.13, T:0.16
Consensus pattern (15 bp):
ATGATCCACACAAGC
Found at i:606887 original size:24 final size:23
Alignment explanation
Indices: 606850--606896 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
606840 ATATAAAAAT
606850 ATAAAATACTTTAATTAGAATATG
1 ATAAAATACTTTAA-TAGAATATG
*
606874 ATAAAATA-TATTAATATAATATG
1 ATAAAATACT-TTAATAGAATATG
606897 GATATAAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 9 0.43
24 12 0.57
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (23 bp):
ATAAAATACTTTAATAGAATATG
Found at i:607013 original size:16 final size:16
Alignment explanation
Indices: 606994--607034 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
606984 AAAAGTCAAC
606994 AACTCAAAATCAA-TCA
1 AACTCAAAAT-AACTCA
*
607010 AACT-AAAATAACTCG
1 AACTCAAAATAACTCA
607025 AACTCAAAAT
1 AACTCAAAAT
607035 GTCCTAAACT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
14 2 0.09
15 11 0.50
16 9 0.41
ACGTcount: A:0.56, C:0.22, G:0.02, T:0.20
Consensus pattern (16 bp):
AACTCAAAATAACTCA
Found at i:607176 original size:16 final size:16
Alignment explanation
Indices: 607155--607197 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
607145 TAAACCTGAT
* *
607155 TGATCTGAATCTTAAA
1 TGATCTAAATCTAAAA
607171 TGATCTAAATCTAAAA
1 TGATCTAAATCTAAAA
*
607187 TGATCCAAATC
1 TGATCTAAATC
607198 CAATTAACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.42, C:0.16, G:0.09, T:0.33
Consensus pattern (16 bp):
TGATCTAAATCTAAAA
Found at i:607240 original size:22 final size:22
Alignment explanation
Indices: 607193--607240 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
607183 AAAATGATCC
* *
607193 AAATCCAATTAACTCAATTGTT
1 AAATCCAATTAACTCAATTCTA
*
607215 AAATCCAATTGACTCGAA-TCTA
1 AAATCCAATTAACTC-AATTCTA
607237 AAAT
1 AAAT
607241 TACTTGAATC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 20 0.91
23 2 0.09
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (22 bp):
AAATCCAATTAACTCAATTCTA
Found at i:607955 original size:9 final size:9
Alignment explanation
Indices: 607941--607994 Score: 63
Period size: 9 Copynumber: 5.7 Consensus size: 9
607931 AATTATAAAT
607941 AATAAATTA
1 AATAAATTA
607950 AATAAATTA
1 AATAAATTA
607959 AATAAATTA
1 AATAAATTA
*
607968 AATCGAATTTA
1 AAT--AAATTA
*
607979 TAATAAATTT
1 -AATAAATTA
607989 AATAAA
1 AATAAA
607995 AAATTAATTT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
9 27 0.69
10 4 0.10
11 5 0.13
12 3 0.08
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (9 bp):
AATAAATTA
Found at i:608493 original size:22 final size:23
Alignment explanation
Indices: 608450--608491 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
608440 TAAAATACTT
*
608450 AAAAAATTTAGTATCTTAAAATG
1 AAAAAATTTAGTATCTAAAAATG
608473 AAAAAATTTA-TAT-TAAAAA
1 AAAAAATTTAGTATCTAAAAA
608492 ATATAAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 3 0.17
23 10 0.56
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (23 bp):
AAAAAATTTAGTATCTAAAAATG
Found at i:609920 original size:14 final size:13
Alignment explanation
Indices: 609883--609941 Score: 52
Period size: 14 Copynumber: 4.6 Consensus size: 13
609873 TTAGACCTCA
609883 ATAATAT-TAAAT
1 ATAATATATAAAT
* *
609895 ATGATTTCATAAAT
1 ATAATAT-ATAAAT
*
609909 ATAATATGATAAAA
1 ATAATAT-ATAAAT
609923 ATAAT-TA-AAAT
1 ATAATATATAAAT
609934 ATAATATA
1 ATAATATA
609942 ATACGAATTC
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
11 8 0.22
12 8 0.22
13 1 0.03
14 20 0.54
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (13 bp):
ATAATATATAAAT
Found at i:611069 original size:13 final size:14
Alignment explanation
Indices: 611051--611083 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
611041 TTTTATTAAT
611051 TATAAATAATA-AA
1 TATAAATAATATAA
611064 TATAAATAATATAA
1 TATAAATAATATAA
611078 -ATAAAT
1 TATAAAT
611084 TAAATCGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 17 0.89
14 2 0.11
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TATAAATAATATAA
Found at i:611420 original size:22 final size:24
Alignment explanation
Indices: 611395--611438 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
611385 ACATTTAATT
611395 TTTTAAATT-AT-TAAATAATATA
1 TTTTAAATTCATATAAATAATATA
* *
611417 TTTTTACTTCATATAAATAATA
1 TTTTAAATTCATATAAATAATA
611439 AATTAACTAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 7 0.39
23 2 0.11
24 9 0.50
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTTAAATTCATATAAATAATATA
Found at i:611450 original size:15 final size:15
Alignment explanation
Indices: 611432--611478 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
611422 ACTTCATATA
*
611432 AATAATAAATTAACT
1 AATAATAATTTAACT
*
611447 AATAATAATTTAA-A
1 AATAATAATTTAACT
611461 AAT-ATAATTTAACT
1 AATAATAATTTAACT
611475 AATA
1 AATA
611479 GTTGAAATCC
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 9 0.33
14 6 0.22
15 12 0.44
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (15 bp):
AATAATAATTTAACT
Found at i:611478 original size:14 final size:14
Alignment explanation
Indices: 611436--611478 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
611426 CATATAAATA
*
611436 ATAAATTAACTAAT
1 ATAATTTAACTAAT
*
611450 AATAATTTAA-AAAT
1 -ATAATTTAACTAAT
611464 ATAATTTAACTAAT
1 ATAATTTAACTAAT
611478 A
1 A
611479 GTTGAAATCC
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
13 9 0.38
14 7 0.29
15 8 0.33
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (14 bp):
ATAATTTAACTAAT
Found at i:613151 original size:32 final size:33
Alignment explanation
Indices: 613091--613163 Score: 103
Period size: 32 Copynumber: 2.2 Consensus size: 33
613081 TAAAAATATA
*
613091 ATATAATATAAATACATAAATATTTTAAAATTT
1 ATATAATATAAATACATAAATATATTAAAATTT
* *
613124 ATATAATATAAAT-TATTAATATATTAAAATTT
1 ATATAATATAAATACATAAATATATTAAAATTT
*
613156 ATAAAATA
1 ATATAATA
613164 ATATAAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 23 0.64
33 13 0.36
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (33 bp):
ATATAATATAAATACATAAATATATTAAAATTT
Found at i:616221 original size:16 final size:16
Alignment explanation
Indices: 616200--616256 Score: 51
Period size: 17 Copynumber: 3.4 Consensus size: 16
616190 AATCATCTCT
**
616200 TTTTTTTAATTTATTA
1 TTTTTTTAATAAATTA
*
616216 TTTTTTAAATAAATTAA
1 TTTTTTTAATAAATT-A
* *
616233 TTTTTTAAAAAAATTA
1 TTTTTTTAATAAATTA
616249 TTATTTTT
1 TT-TTTTT
616257 TGCCCACATG
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
16 15 0.44
17 19 0.56
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (16 bp):
TTTTTTTAATAAATTA
Found at i:616255 original size:17 final size:16
Alignment explanation
Indices: 616212--616255 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
616202 TTTTTAATTT
*
616212 ATTATTTTTTAAATAA
1 ATTATTTTTTAAAAAA
616228 ATTAATTTTTTAAAAAA
1 ATT-ATTTTTTAAAAAA
616245 ATTATTATTTT
1 ATTATT-TTTT
616256 TTGCCCACAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 6 0.24
17 19 0.76
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
ATTATTTTTTAAAAAA
Found at i:618545 original size:19 final size:21
Alignment explanation
Indices: 618505--618546 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
618495 TCGATTAAAA
*
618505 TTTTTTTATTTATTATCTATT
1 TTTTTTTATATATTATCTATT
618526 TTTTTTTATATA-TATC-ATT
1 TTTTTTTATATATTATCTATT
618545 TT
1 TT
618547 AATCGATATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 4 0.20
21 11 0.55
ACGTcount: A:0.21, C:0.05, G:0.00, T:0.74
Consensus pattern (21 bp):
TTTTTTTATATATTATCTATT
Found at i:618865 original size:33 final size:33
Alignment explanation
Indices: 618813--618889 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 33
618803 ACGATTCTAC
*
618813 TAATATAATATAAAAAAATA-ATTAAAATATAATT
1 TAATATAA-ATAAAAAAATATATTAAAAT-TAATA
* * *
618847 TAATATAAATAAATAAATATTTTAAAATTTATA
1 TAATATAAATAAAAAAATATATTAAAATTAATA
618880 TAATATAAAT
1 TAATATAAAT
618890 TATTAATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
33 23 0.61
34 15 0.39
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (33 bp):
TAATATAAATAAAAAAATATATTAAAATTAATA
Found at i:618866 original size:24 final size:24
Alignment explanation
Indices: 618814--618863 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
618804 CGATTCTACT
*
618814 AATATAATATAAAAAAATAATTAA
1 AATATAATATAAAAAAATAAATAA
* *
618838 AATATAATTTAATATAAATAAATAA
1 AATATAATATAA-AAAAATAAATAA
618863 A
1 A
618864 TATTTTAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 11 0.50
25 11 0.50
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (24 bp):
AATATAATATAAAAAAATAAATAA
Found at i:618875 original size:29 final size:28
Alignment explanation
Indices: 618843--618935 Score: 82
Period size: 34 Copynumber: 3.1 Consensus size: 28
618833 ATTAAAATAT
618843 AATTTAATATAAATAAATAAATATTTTAA
1 AATTT-ATATAAATAAATAAATATTTTAA
**
618872 AATTTATATAATATAAATTATTAATATATCAAAA
1 AATTTATATAA-ATAAA-TA--AATAT-T-TTAA
618906 AATTTATATAAAT-AA-AAATATTTTATA
1 AATTTATATAAATAAATAAATATTTTA-A
618933 AAT
1 AAT
618936 ATAATTATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
26 1 0.02
27 5 0.09
28 11 0.21
29 10 0.19
30 3 0.06
32 7 0.13
33 3 0.06
34 13 0.25
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
AATTTATATAAATAAATAAATATTTTAA
Found at i:618932 original size:17 final size:17
Alignment explanation
Indices: 618870--618936 Score: 59
Period size: 17 Copynumber: 3.9 Consensus size: 17
618860 TAAATATTTT
*
618870 AAAATTTATAT-AATAT
1 AAAATTTATATAAATAA
* *
618886 AAATTATTA-ATATATCAA
1 AAAAT-TTATATAAAT-AA
618904 AAAATTTATATAAATAA
1 AAAATTTATATAAATAA
618921 AAATATTT-TATAAATA
1 AAA-ATTTATATAAATA
618937 TAATTATAAC
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
16 6 0.15
17 21 0.51
18 14 0.34
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.40
Consensus pattern (17 bp):
AAAATTTATATAAATAA
Found at i:619738 original size:50 final size:49
Alignment explanation
Indices: 619646--619740 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 49
619636 TTCCTAGTTG
619646 TATAAAAATATTTTTATTTAAATTTAATTATATAATATATAAATATTAA
1 TATAAAAATATTTTTATTTAAATTTAATTATATAATATATAAATATTAA
**
619695 TATAAAAATATTTTTAATTT-TTTATTAATTATA-AATAATATAAATA
1 TATAAAAATATTTTT-ATTTAAAT-TTAATTATATAAT-ATATAAATA
619741 AATTAAATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 5
0.85 0.04 0.10
Matches are distributed among these distances:
49 19 0.46
50 22 0.54
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (49 bp):
TATAAAAATATTTTTATTTAAATTTAATTATATAATATATAAATATTAA
Found at i:621775 original size:5 final size:5
Alignment explanation
Indices: 621765--621841 Score: 54
Period size: 5 Copynumber: 15.6 Consensus size: 5
621755 ACAATTTTAT
* *
621765 TAATA TAATA TTAATA -AAAA TAATTA AAATA TAATA TAATA TAA-A T-ATA
1 TAATA TAATA -TAATA TAATA TAA-TA TAATA TAATA TAATA TAATA TAATA
* * *
621814 TAA-A TATTT TAATA TTTATA TAATA TAA
1 TAATA TAATA TAATA -TAATA TAATA TAA
621842 ATTATTAACA
Statistics
Matches: 55, Mismatches: 10, Indels: 14
0.70 0.13 0.18
Matches are distributed among these distances:
3 1 0.02
4 10 0.18
5 32 0.58
6 12 0.22
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (5 bp):
TAATA
Found at i:621828 original size:58 final size:62
Alignment explanation
Indices: 621764--621892 Score: 144
Period size: 58 Copynumber: 2.1 Consensus size: 62
621754 CACAATTTTA
*
621764 TTAATATAATAT-TAATAAAAATAATTAAAATAT-AATA-TAATAT-AAA-TATATAAATATT
1 TTAATATAATATATAATAAAAATAATTAAAATATCAAAATTAATATAAAATTATA-AAATATT
* * * * *
621822 TTAATAT-TTATATAATATAAATTATTAACATATCAAAATTTATATAAAATTATAAAATATT
1 TTAATATAATATATAATAAAAATAATTAAAATATCAAAATTAATATAAAATTATAAAATATT
621883 TTAATTATAA
1 TTAA-TATAA
621893 CACGATAAAA
Statistics
Matches: 57, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
57 3 0.05
58 25 0.44
59 3 0.05
60 5 0.09
61 14 0.25
62 7 0.12
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.43
Consensus pattern (62 bp):
TTAATATAATATATAATAAAAATAATTAAAATATCAAAATTAATATAAAATTATAAAATATT
Found at i:622956 original size:9 final size:9
Alignment explanation
Indices: 622936--622990 Score: 65
Period size: 10 Copynumber: 5.7 Consensus size: 9
622926 AATTATAAAT
622936 AATAAATATA
1 AATAAAT-TA
622946 AATAAATTA
1 AATAAATTA
*
622955 AATAAGTTA
1 AATAAATTA
622964 AATAAACTTA
1 AATAAA-TTA
622974 TAATAAATCTA
1 -AATAAAT-TA
622985 AATAAA
1 AATAAA
622991 AAACTTAAAT
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
9 15 0.38
10 17 0.43
11 8 0.20
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.31
Consensus pattern (9 bp):
AATAAATTA
Found at i:623259 original size:24 final size:24
Alignment explanation
Indices: 623233--623277 Score: 65
Period size: 23 Copynumber: 1.9 Consensus size: 24
623223 TACATTTAAT
623233 TTTTTAAATTAT-TAAATAATATG
1 TTTTTAAATTATATAAATAATATG
**
623256 TTTTTACTTTATATAAATAATA
1 TTTTTAAATTATATAAATAATA
623278 AATTAATTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTTTAAATTATATAAATAATATG
Found at i:629562 original size:22 final size:23
Alignment explanation
Indices: 629535--629577 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
629525 GATATAATTT
*
629535 AAAATAT-TTAATTTTTATATTA
1 AAAATATATTAATTTTAATATTA
*
629557 AAAATATATTTATTTTAATAT
1 AAAATATATTAATTTTAATAT
629578 ATATATATTT
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:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
AAAATATATTAATTTTAATATTA
Found at i:629857 original size:17 final size:16
Alignment explanation
Indices: 629840--629890 Score: 52
Period size: 15 Copynumber: 3.2 Consensus size: 16
629830 TTTAAATTTT
*
629840 TTATTTATGTTTATTT
1 TTATTTATGTTTATTA
*
629856 TTAATT-TGTTTA-TA
1 TTATTTATGTTTATTA
*
629870 TTATTTATATTTATTTA
1 TTATTTATGTTTA-TTA
629887 TTAT
1 TTAT
629891 AATTAATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
14 6 0.21
15 11 0.39
16 5 0.18
17 6 0.21
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (16 bp):
TTATTTATGTTTATTA
Found at i:629861 original size:24 final size:26
Alignment explanation
Indices: 629829--629881 Score: 67
Period size: 24 Copynumber: 2.1 Consensus size: 26
629819 ATTTAAAAAG
629829 TTTTAAATTT-TTTAT-TTATGTT-TA
1 TTTTAAATTTGTTTATATTAT-TTATA
*
629853 TTTTTAATTTGTTTATATTATTTATA
1 TTTTAAATTTGTTTATATTATTTATA
629879 TTT
1 TTT
629882 ATTTATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 9 0.36
25 7 0.28
26 9 0.36
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.72
Consensus pattern (26 bp):
TTTTAAATTTGTTTATATTATTTATA
Found at i:629876 original size:9 final size:10
Alignment explanation
Indices: 629839--629887 Score: 55
Period size: 10 Copynumber: 4.9 Consensus size: 10
629829 TTTTAAATTT
*
629839 TTTATTTATG
1 TTTATTTATA
*
629849 TTTATTTTTAA
1 TTTATTTAT-A
*
629860 TTTGTTTATA
1 TTTATTTATA
629870 -TTATTTATA
1 TTTATTTATA
629879 TTTATTTAT
1 TTTATTTAT
629888 TATAATTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 8 0.25
10 17 0.53
11 7 0.22
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.71
Consensus pattern (10 bp):
TTTATTTATA
Found at i:632867 original size:22 final size:22
Alignment explanation
Indices: 632836--632880 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
632826 TAACATTCAA
*
632836 AATAATAATA-TTTATTATTAAT
1 AATAAAAATATTTTA-TATTAAT
632858 AATAAAAATATTTTATATTAAT
1 AATAAAAATATTTTATATTAAT
632880 A
1 A
632881 TGCAGTCATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
AATAAAAATATTTTATATTAAT
Found at i:633900 original size:32 final size:33
Alignment explanation
Indices: 633824--633925 Score: 110
Period size: 32 Copynumber: 3.3 Consensus size: 33
633814 ATACGATAAA
*
633824 AAATA-ATTAAAATATAATACAATATAAATATAT
1 AAATATATTAAAAT-TTATACAATATAAATATAT
* *
633857 AAATATTTTAAAATTTATATAATATAAAT-TAT
1 AAATATATTAAAATTTATACAATATAAATATAT
*
633889 TAATATATTAAAATTTAT--AA-A-AAATATAT
1 AAATATATTAAAATTTATACAATATAAATATAT
633918 AAA-ATATT
1 AAATATATT
633926 TTATTATAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 9
0.80 0.08 0.12
Matches are distributed among these distances:
28 9 0.15
29 6 0.10
30 2 0.03
32 19 0.31
33 18 0.30
34 7 0.11
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (33 bp):
AAATATATTAAAATTTATACAATATAAATATAT
Found at i:634235 original size:16 final size:16
Alignment explanation
Indices: 634214--634265 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
634204 TTAAACTGAT
634214 TAATTCGAATCTAAAA
1 TAATTCGAATCTAAAA
634230 TAATTCGAA-CTTAAAA
1 TAATTCGAATC-TAAAA
** *
634246 TAATTTAAATCGAAAA
1 TAATTCGAATCTAAAA
634262 TAAT
1 TAAT
634266 CTAAAAATTG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 1 0.03
16 29 0.94
17 1 0.03
ACGTcount: A:0.52, C:0.10, G:0.06, T:0.33
Consensus pattern (16 bp):
TAATTCGAATCTAAAA
Found at i:635904 original size:15 final size:15
Alignment explanation
Indices: 635884--635926 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
635874 GTTTTTACAG
*
635884 ATTTAAATATTGTAA
1 ATTTAAATATTATAA
635899 ATTTAAATTATTTATAA
1 ATTTAAA-TA-TTATAA
635916 ATTT-AATATTA
1 ATTTAAATATTA
635927 GATTTACTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 3 0.12
15 9 0.36
16 4 0.16
17 9 0.36
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
ATTTAAATATTATAA
Found at i:636915 original size:16 final size:17
Alignment explanation
Indices: 636894--636933 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
636884 AATCATCTCC
*
636894 TTTTTTTAATTTATT-A
1 TTTTTTTAATTAATTAA
*
636910 TTTTTTAAATTAATTAA
1 TTTTTTTAATTAATTAA
636927 TTTTTTT
1 TTTTTTT
636934 TAAAATTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 13 0.65
17 7 0.35
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (17 bp):
TTTTTTTAATTAATTAA
Found at i:636940 original size:20 final size:20
Alignment explanation
Indices: 636899--636937 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
636889 TCTCCTTTTT
*
636899 TTAATTTATTATTTTTTAAA
1 TTAATTAATTATTTTTTAAA
636919 TTAATTAATT-TTTTTTAAA
1 TTAATTAATTATTTTTTAAA
636938 ATTTTTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (20 bp):
TTAATTAATTATTTTTTAAA
Found at i:637632 original size:9 final size:9
Alignment explanation
Indices: 637618--637658 Score: 57
Period size: 9 Copynumber: 4.4 Consensus size: 9
637608 TATGTTTATT
637618 TTTAATTTA
1 TTTAATTTA
637627 TTTAATTTA
1 TTTAATTTA
637636 TTT-ATATTA
1 TTTAAT-TTA
637645 TTTATATTTA
1 TTTA-ATTTA
637655 TTTA
1 TTTA
637659 TTATAATTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 2 0.07
9 18 0.62
10 7 0.24
11 2 0.07
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (9 bp):
TTTAATTTA
Found at i:637638 original size:4 final size:4
Alignment explanation
Indices: 637612--637660 Score: 50
Period size: 4 Copynumber: 12.5 Consensus size: 4
637602 TTTGTTTATG
*
637612 TTTA TTT- TTAA TTTA TTTAA TTTA TTTA TATTA TTTA --TA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTT-A TTTA TTTA T-TTA TTTA TTTA TTTA TTTA
637659 TT
1 TT
637661 ATAATTAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
2 2 0.05
3 2 0.05
4 26 0.68
5 8 0.21
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (4 bp):
TTTA
Found at i:637640 original size:13 final size:13
Alignment explanation
Indices: 637618--637666 Score: 55
Period size: 14 Copynumber: 3.5 Consensus size: 13
637608 TATGTTTATT
637618 TTTAATTTATTTAA
1 TTTAATTTATTT-A
637632 TTT-ATTTATATTA
1 TTTAATTTAT-TTA
637645 TTTATATTTATTTA
1 TTTA-ATTTATTTA
637659 TTATAATT
1 TT-TAATT
637667 AATAAAAATT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 10 0.32
14 13 0.42
15 8 0.26
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTAATTTATTTA
Found at i:637655 original size:19 final size:18
Alignment explanation
Indices: 637624--637659 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
637614 TATTTTTAAT
637624 TTATTTAATTTATTTATA
1 TTATTTAATTTATTTATA
637642 TTATTTATATTTATTTAT
1 TTATTTA-ATTTATTTAT
637660 TATAATTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TTATTTAATTTATTTATA
Found at i:637722 original size:20 final size:20
Alignment explanation
Indices: 637681--637722 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
637671 AAAATTAAAA
* *
637681 AATATTTTTATATTAATATT
1 AATATTTTTAAATAAATATT
637701 AATATTTTATAAATAAAT-TT
1 AATATTTT-TAAATAAATATT
637721 AA
1 AA
637723 ATAAAAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 12 0.63
21 7 0.37
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AATATTTTTAAATAAATATT
Found at i:637909 original size:19 final size:19
Alignment explanation
Indices: 637885--637924 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
637875 ATGAAGTATA
*
637885 AAAAATTTTAATTCAAAAT
1 AAAAATTTAAATTCAAAAT
*
637904 AAAAATTTAAATTTAAAAT
1 AAAAATTTAAATTCAAAAT
637923 AA
1 AA
637925 TCTGAACGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
AAAAATTTAAATTCAAAAT
Found at i:639563 original size:5 final size:5
Alignment explanation
Indices: 639548--639601 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
639538 TTAACTGATT
*
639548 ATATAA ATATA ATATA A-AAA AT-TA ATTATA ATATA ATATA ATATA A-ATA
1 ATAT-A ATATA ATATA ATATA ATATA A-TATA ATATA ATATA ATATA ATATA
639597 A-ATA A
1 ATATA A
639602 ATATTTTAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
4 13 0.30
5 23 0.53
6 7 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
ATATA
Found at i:639587 original size:29 final size:28
Alignment explanation
Indices: 639545--639599 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 28
639535 ATATTAACTG
639545 ATTATATAAATATAATATAAA-AAATTA
1 ATTATATAAATATAATATAAATAAATTA
639572 ATTATAATATAATATAATATAAATAAAT
1 ATTAT-ATA-AATATAATATAAATAAAT
639600 AAATATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 5 0.20
28 3 0.12
29 13 0.52
30 4 0.16
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (28 bp):
ATTATATAAATATAATATAAATAAATTA
Found at i:639603 original size:8 final size:9
Alignment explanation
Indices: 639556--639628 Score: 55
Period size: 8 Copynumber: 8.2 Consensus size: 9
639546 TTATATAAAT
639556 ATAATATAA
1 ATAATATAA
*
639565 AAAAT-TAA
1 ATAATATAA
639573 TTATAATATAA
1 --ATAATATAA
639584 TATAATATAA
1 -ATAATATAA
639594 ATAA-ATAA
1 ATAATATAA
* *
639602 AT-ATTTTA
1 ATAATATAA
*
639610 A-AATTTAA
1 ATAATATAA
639618 ATAATATAA
1 ATAATATAA
639627 AT
1 AT
639629 TATTAATTAT
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
7 1 0.02
8 18 0.35
9 16 0.31
10 14 0.27
11 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (9 bp):
ATAATATAA
Found at i:639604 original size:24 final size:24
Alignment explanation
Indices: 639550--639628 Score: 72
Period size: 24 Copynumber: 3.2 Consensus size: 24
639540 AACTGATTAT
639550 ATAAATATAATATAA-A-AAATTAA
1 ATAAATATAATATAATATAAA-TAA
*
639573 TTATAATATAATATAATATAAATAA
1 ATA-AATATAATATAATATAAATAA
** * *
639598 ATAAATATTTTAAAATTTAAATAA
1 ATAAATATAATATAATATAAATAA
639622 TATAAAT
1 -ATAAAT
639629 TATTAATTAT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
23 2 0.04
24 29 0.63
25 12 0.26
26 3 0.07
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATAAATATAATATAATATAAATAA
Found at i:639605 original size:19 final size:20
Alignment explanation
Indices: 639548--639604 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
639538 TTAACTGATT
*
639548 ATATAAATATAATATAAAAA
1 ATATAAATATAATATAATAA
*
639568 AT-TAATTATAATATAATATA
1 ATATAAATATAATATAATA-A
639588 ATATAAATA-AATA-AATA
1 ATATAAATATAATATAATA
639605 TTTTAAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
19 18 0.56
20 9 0.28
21 5 0.16
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATAAATATAATATAATAA
Found at i:639622 original size:33 final size:32
Alignment explanation
Indices: 639585--639658 Score: 87
Period size: 33 Copynumber: 2.3 Consensus size: 32
639575 ATAATATAAT
*
639585 ATAATATAAATAAATAAATATTTTAAAATTTAA
1 ATAATATAAATAAATAAATA-TTAAAAATTTAA
* * * *
639618 ATAATATAAATTATTAATTATTAAAAATTTAT
1 ATAATATAAATAAATAAATATTAAAAATTTAA
639650 ATAA-ATAAA
1 ATAATATAAA
639659 AATATTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
31 5 0.14
32 14 0.39
33 17 0.47
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
ATAATATAAATAAATAAATATTAAAAATTTAA
Found at i:639675 original size:25 final size:25
Alignment explanation
Indices: 639588--639675 Score: 59
Period size: 31 Copynumber: 3.1 Consensus size: 25
639578 ATATAATATA
*
639588 ATATAAATAAATAAATATTTTAAAATTT
1 ATATAAAT-AA-AAATATTTTAAAA-AT
* *
639616 AAATAATATAAATTATTAATTATTAAAAATTT
1 ATATAA-ATAAA--AAT-ATT-TTAAAAA--T
639648 ATATAAATAAAAATATTTTAAAAAT
1 ATATAAATAAAAATATTTTAAAAAT
639673 ATA
1 ATA
639676 ATTATAACAC
Statistics
Matches: 48, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
25 4 0.08
27 8 0.17
28 10 0.21
29 6 0.12
30 3 0.06
31 11 0.23
32 6 0.12
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
ATATAAATAAAAATATTTTAAAAAT
Found at i:645201 original size:16 final size:16
Alignment explanation
Indices: 645182--645230 Score: 71
Period size: 16 Copynumber: 3.1 Consensus size: 16
645172 ATCAGAATGA
*
645182 TTAAAAATAAAATAAT
1 TTAAAATTAAAATAAT
*
645198 TTAAATTTAAAATAAT
1 TTAAAATTAAAATAAT
*
645214 TTAAAATTTAAATAAT
1 TTAAAATTAAAATAAT
645230 T
1 T
645231 CAAATACGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAAAATTAAAATAAT
Found at i:645222 original size:17 final size:16
Alignment explanation
Indices: 645189--645235 Score: 69
Period size: 16 Copynumber: 2.9 Consensus size: 16
645179 TGATTAAAAA
645189 TAAAATAATTTAAATT
1 TAAAATAATTTAAATT
645205 TAAAATAATTTAAAATT
1 TAAAATAATTT-AAATT
*
645222 T-AAATAATTCAAAT
1 TAAAATAATTTAAAT
645236 ACGAAACTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 4 0.14
16 19 0.66
17 6 0.21
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TAAAATAATTTAAATT
Found at i:646497 original size:2 final size:2
Alignment explanation
Indices: 646492--646532 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
646482 TATAAAAAAT
*
646492 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
646533 GATAGTTGTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:651551 original size:3 final size:3
Alignment explanation
Indices: 651543--651593 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
651533 TTTTAGTACA
651543 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
651591 TAT
1 TAT
651594 GTATCCAAGT
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:651760 original size:22 final size:22
Alignment explanation
Indices: 651725--651766 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
651715 TTTACTTGAT
651725 AAATTAAAAATAAAATTTTTTA
1 AAATTAAAAATAAAATTTTTTA
* *
651747 AAATTCAAATTAAAATTTTT
1 AAATTAAAAATAAAATTTTT
651767 CTTAAGAATT
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:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
AAATTAAAAATAAAATTTTTTA
Found at i:653456 original size:6 final size:6
Alignment explanation
Indices: 653447--653487 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
653437 TAAAATGTTA
*
653447 TATACG TATATG TATATG TATATG TATATG TATATG TATAT
1 TATATG TATATG TATATG TATATG TATATG TATATG TATAT
653488 ATAAAACCTG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (6 bp):
TATATG
Found at i:654944 original size:18 final size:17
Alignment explanation
Indices: 654906--654973 Score: 51
Period size: 18 Copynumber: 4.2 Consensus size: 17
654896 CAAGTGATGC
654906 ATAT-ATATAAATAGATT-
1 ATATGATATAAAT--ATTA
654923 ATATGATATAAATATTA
1 ATATGATATAAATATTA
*
654940 GATAT-A-ATACA-ATTA
1 -ATATGATATAAATATTA
654955 A-ATGATATAAATA-TA
1 ATATGATATAAATATTA
654970 ATAT
1 ATAT
654974 AAAAAATAAC
Statistics
Matches: 42, Mismatches: 2, Indels: 15
0.71 0.03 0.25
Matches are distributed among these distances:
13 2 0.05
14 2 0.05
15 11 0.26
16 10 0.24
17 5 0.12
18 12 0.29
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.38
Consensus pattern (17 bp):
ATATGATATAAATATTA
Found at i:654945 original size:31 final size:30
Alignment explanation
Indices: 654906--654976 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 30
654896 CAAGTGATGC
* *
654906 ATAT-ATATAAATA-GATTATATGATATAA
1 ATATAATATAAATACAATTAAATGATATAA
654934 ATATTAGATAT-AATACAATTAAATGATATAA
1 ATA-TA-ATATAAATACAATTAAATGATATAA
654965 ATATAATATAAA
1 ATATAATATAAA
654977 AAATAACACA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
28 3 0.08
29 5 0.14
30 8 0.22
31 20 0.56
ACGTcount: A:0.56, C:0.01, G:0.06, T:0.37
Consensus pattern (30 bp):
ATATAATATAAATACAATTAAATGATATAA
Found at i:655649 original size:14 final size:15
Alignment explanation
Indices: 655647--655677 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
655637 TATTTAATAA
655647 AATATAAATATATTT
1 AATATAAATATATTT
655662 AATA-AAATATATTT
1 AATATAAATATATTT
655676 AA
1 AA
655678 AACTGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 12 0.75
15 4 0.25
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
AATATAAATATATTT
Found at i:655657 original size:20 final size:20
Alignment explanation
Indices: 655632--655672 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
655622 TTAATATTTA
655632 AAATATATTTAATAAAATAT
1 AAATATATTTAATAAAATAT
655652 AAATATATTTAATAAAATAT
1 AAATATATTTAATAAAATAT
655672 A
1 A
655673 TTTAAAACTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATATATTTAATAAAATAT
Found at i:656567 original size:14 final size:14
Alignment explanation
Indices: 656548--656589 Score: 84
Period size: 14 Copynumber: 3.0 Consensus size: 14
656538 TTTTTTGATT
656548 TTAAATATATTTTA
1 TTAAATATATTTTA
656562 TTAAATATATTTTA
1 TTAAATATATTTTA
656576 TTAAATATATTTTA
1 TTAAATATATTTTA
656590 AATATTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (14 bp):
TTAAATATATTTTA
Found at i:657305 original size:17 final size:16
Alignment explanation
Indices: 657283--657330 Score: 60
Period size: 18 Copynumber: 2.8 Consensus size: 16
657273 AAATAATATT
657283 TTAAATTATAAATTAAA
1 TTAAATT-TAAATTAAA
*
657300 TTAAATTTAAATTTAA
1 TTAAATTTAAATTAAA
657316 TTAAAAATTTAAATT
1 TT--AAATTTAAATT
657331 TTTTCTCTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
16 10 0.36
17 7 0.25
18 11 0.39
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTAAATTTAAATTAAA
Found at i:657311 original size:6 final size:6
Alignment explanation
Indices: 657282--657331 Score: 52
Period size: 6 Copynumber: 8.5 Consensus size: 6
657272 TAAATAATAT
*
657282 TTTAAA TTATAAA -TTAAA -TTAAA TTTAAA TTT-AA TTAAAAA TTTAAA
1 TTTAAA TT-TAAA TTTAAA TTTAAA TTTAAA TTTAAA TT-TAAA TTTAAA
657329 TTT
1 TTT
657332 TTTCTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
5 13 0.34
6 17 0.45
7 8 0.21
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (6 bp):
TTTAAA
Found at i:659313 original size:98 final size:98
Alignment explanation
Indices: 659141--659340 Score: 235
Period size: 98 Copynumber: 2.0 Consensus size: 98
659131 ACTACACTGT
* **
659141 CTGCTATAAGCACAACTTGTTAAGGATTAACCTGACCAAACCTATTACAGTTGCAATCAAATTAT
1 CTGCTATAAGCACAACTTGTTAAGGAATAACCAAACCAAACCTATTACAGTTGCAATCAAATTAT
659206 GAGGATAAAC-AGCCCATTTCAACTGAAGTTTCC
66 GAGGATAAACAAG-CCATTTCAACTGAAGTTTCC
* ** *
659239 CTGCTATAAGCACAACTTGTTAAGGAATCACCAAACTTAACC-ACTTACTA-TTGCAATCAATTT
1 CTGCTATAAGCACAACTTGTTAAGGAATAACCAAACCAAACCTA-TTAC-AGTTGCAATCAAATT
** * * * *
659302 ATTTGGGTAAACAAGCCATTTCAGCTGAGGTTTCG
64 ATGAGGATAAACAAGCCATTTCAACTGAAGTTTCC
659337 CTGC
1 CTGC
659341 AAACTATTTT
Statistics
Matches: 86, Mismatches: 13, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
97 1 0.01
98 82 0.95
99 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.29
Consensus pattern (98 bp):
CTGCTATAAGCACAACTTGTTAAGGAATAACCAAACCAAACCTATTACAGTTGCAATCAAATTAT
GAGGATAAACAAGCCATTTCAACTGAAGTTTCC
Found at i:662970 original size:18 final size:18
Alignment explanation
Indices: 662949--662997 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
662939 GACACCCACG
*
662949 CCCACACTCACACTCACT
1 CCCACACCCACACTCACT
*
662967 CCCACTCCCACACTCACT
1 CCCACACCCACACTCACT
*
662985 CCCACTCCCACAC
1 CCCACACCCACAC
662998 CCACAAACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.24, C:0.61, G:0.00, T:0.14
Consensus pattern (18 bp):
CCCACACCCACACTCACT
Found at i:662976 original size:24 final size:24
Alignment explanation
Indices: 662943--663002 Score: 84
Period size: 24 Copynumber: 2.5 Consensus size: 24
662933 ACTACGGACA
* *
662943 CCCACGCCCACACTCACACTCACT
1 CCCACACCCACACTCACACCCACT
* *
662967 CCCACTCCCACACTCACTCCCACT
1 CCCACACCCACACTCACACCCACT
662991 CCCACACCCACA
1 CCCACACCCACA
663003 AACATATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.25, C:0.62, G:0.02, T:0.12
Consensus pattern (24 bp):
CCCACACCCACACTCACACCCACT
Found at i:663002 original size:6 final size:6
Alignment explanation
Indices: 662940--663002 Score: 54
Period size: 6 Copynumber: 10.5 Consensus size: 6
662930 AAAACTACGG
* * * * * * *
662940 ACACCC ACGCCC ACACTC ACACTC ACTCCC ACTCCC ACACTC ACTCCC
1 ACACCC ACACCC ACACCC ACACCC ACACCC ACACCC ACACCC ACACCC
*
662988 ACTCCC ACACCC ACA
1 ACACCC ACACCC ACA
663003 AACATATATA
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 47 1.00
ACGTcount: A:0.27, C:0.60, G:0.02, T:0.11
Consensus pattern (6 bp):
ACACCC
Found at i:667442 original size:28 final size:27
Alignment explanation
Indices: 667404--667477 Score: 87
Period size: 28 Copynumber: 2.7 Consensus size: 27
667394 TTAGTATTTC
667404 ATATTATATAA-ATTTTAATAATTTTAT
1 ATATTATATAACATTTTAATAATTTT-T
* *
667431 ATATTTATATAATATTTGTATTAATTTTT
1 ATA-TTATATAACATTT-TAATAATTTTT
*
667460 ATATCATATAACATTTTA
1 ATATTATATAACATTTTA
667478 TATTATATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
28 19 0.46
29 8 0.20
30 9 0.22
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.55
Consensus pattern (27 bp):
ATATTATATAACATTTTAATAATTTTT
Found at i:669500 original size:19 final size:19
Alignment explanation
Indices: 669472--669523 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
669462 TTTTATTTAA
*
669472 ATTAATTTAAATTATTATTT
1 ATTAA-TTAAATTAATATTT
*
669492 ATTAATTAAAATAATATTT
1 ATTAATTAAATTAATATTT
669511 -TT-ATATAAATTAA
1 ATTAAT-TAAATTAA
669524 AAATAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
17 2 0.07
18 9 0.32
19 12 0.43
20 5 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
ATTAATTAAATTAATATTT
Found at i:669523 original size:23 final size:22
Alignment explanation
Indices: 669454--669525 Score: 67
Period size: 23 Copynumber: 3.1 Consensus size: 22
669444 CGGGCCTGCC
669454 AAATAAT-TTTTTATTTAAATTA
1 AAATAATATTTTTA-TTAAATTA
**
669476 ATTTAAATTATTATTTATT-AATTA
1 AAAT-AA-TATT-TTTATTAAATTA
669500 AAATAATATTTTTATATAAATTA
1 AAATAATATTTTTAT-TAAATTA
669523 AAA
1 AAA
669526 ATAAATTACA
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
21 5 0.12
22 7 0.17
23 12 0.30
24 8 0.20
25 4 0.10
26 4 0.10
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
AAATAATATTTTTATTAAATTA
Found at i:669710 original size:29 final size:28
Alignment explanation
Indices: 669674--669728 Score: 74
Period size: 29 Copynumber: 1.9 Consensus size: 28
669664 CAAATAAATA
* **
669674 ATTTATATTTTTATTTAAAATAATAATC
1 ATTTATATTTTAATAAAAAATAATAATC
669702 ATTTAATATTTTAATAAAAAATAATAA
1 ATTT-ATATTTTAATAAAAAATAATAA
669729 AACAAACTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
28 4 0.17
29 19 0.83
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
ATTTATATTTTAATAAAAAATAATAATC
Found at i:670131 original size:25 final size:25
Alignment explanation
Indices: 670103--670154 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
670093 ATAATAATTT
670103 AAATTTAGTT-AATTTAAATTTATAA
1 AAATTTAGTTAAATTT-AATTTATAA
*
670128 AAATTTATTTAAAATTTAATTTATAA
1 AAATTTAGTT-AAATTTAATTTATAA
670154 A
1 A
670155 TAAATTTTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 9 0.38
26 10 0.42
27 5 0.21
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (25 bp):
AAATTTAGTTAAATTTAATTTATAA
Found at i:670164 original size:26 final size:27
Alignment explanation
Indices: 670113--670167 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
670103 AAATTTAGTT
*
670113 AATTTAAATTTATAAAAATTTATTTAA
1 AATTTAAATTTATAAAAAATTATTTAA
670140 AATTT-AATTTATAAATAAATT-TTTAA
1 AATTTAAATTTATAAA-AAATTATTTAA
670166 AA
1 AA
670168 CTAATCTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
26 17 0.65
27 9 0.35
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
AATTTAAATTTATAAAAAATTATTTAA
Found at i:670321 original size:19 final size:20
Alignment explanation
Indices: 670283--670321 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
670273 TTTTATTTAA
* *
670283 ATTAATTTAAATCATCATTT
1 ATTAATTAAAATAATCATTT
670303 ATTAATTAAAATAAT-ATTT
1 ATTAATTAAAATAATCATTT
670322 TATATAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTAATTAAAATAATCATTT
Found at i:681471 original size:2 final size:2
Alignment explanation
Indices: 681464--681516 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
681454 TTTCTGGGAT
681464 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
681506 TA TA TA T- TA TA
1 TA TA TA TA TA TA
681517 CTTGGAAAAG
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 49 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:683562 original size:25 final size:25
Alignment explanation
Indices: 683534--683586 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
683524 AACCTACAGG
683534 TAATGGCAAAACAAAGGAAAACACA
1 TAATGGCAAAACAAAGGAAAACACA
683559 TAATGGCAAAACAAAGGAAAACACA
1 TAATGGCAAAACAAAGGAAAACACA
683584 TAA
1 TAA
683587 ACTTGAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.60, C:0.15, G:0.15, T:0.09
Consensus pattern (25 bp):
TAATGGCAAAACAAAGGAAAACACA
Done.