Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold182
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: 1166161
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 1 of 10
Found at i:568 original size:24 final size:23
Alignment explanation
Indices: 529--596 Score: 70
Period size: 22 Copynumber: 3.0 Consensus size: 23
519 CCGAAAGTTC
529 ATTTTTTTTATT--TATTAAAAT
1 ATTTTTTTTATTAATATTAAAAT
* *
550 ATTATTTTTTATTAATATTTATAT
1 ATT-TTTTTTATTAATATTAAAAT
* *
574 ATTTTTATAATTAA-ATTAAAAT
1 ATTTTTTTTATTAATATTAAAAT
596 A
1 A
597 AAATATATTT
Statistics
Matches: 38, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
21 3 0.08
22 16 0.42
23 9 0.24
24 10 0.26
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTTTTTTATTAATATTAAAAT
Found at i:591 original size:28 final size:27
Alignment explanation
Indices: 560--626 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 27
550 ATTATTTTTT
560 ATTAATATTTATATATTTTTATAATTAA
1 ATTAATATTTATATATTTTT-TAATTAA
* **
588 ATTAAAATAAAATATATTTTTTAATTAA
1 ATTAATAT-TTATATATTTTTTAATTAA
616 A-TAATAATTTA
1 ATTAAT-ATTTA
627 ATCTTAATCT
Statistics
Matches: 31, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
27 4 0.13
28 17 0.55
29 10 0.32
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
ATTAATATTTATATATTTTTTAATTAA
Found at i:772 original size:2 final size:2
Alignment explanation
Indices: 767--815 Score: 59
Period size: 2 Copynumber: 26.0 Consensus size: 2
757 AATGGTTCCT
* *
767 TA TA TA TA TA TA TA TA TA TA T- TA GA TA TA TA TA TA TA CA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
808 -A T- TA TA TA
1 TA TA TA TA TA
816 CAAAAGGGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
1 3 0.08
2 37 0.93
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (2 bp):
TA
Found at i:1631 original size:19 final size:19
Alignment explanation
Indices: 1609--1646 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
1599 ATATTTATTT
*
1609 ATTAAATTTAAATTTAATA
1 ATTAAATATAAATTTAATA
1628 ATTAAATATAAATTTAATA
1 ATTAAATATAAATTTAATA
1647 CGAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTAAATATAAATTTAATA
Found at i:2804 original size:29 final size:29
Alignment explanation
Indices: 2777--2836 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 29
2767 ATTTTATATC
*
2777 AAAATATTTTAAATATAATTATCAATATAAT
1 AAAATA-TATAAATAT-ATTATCAATATAAT
*
2808 AAAATATATAAATATATTATCAACATAAT
1 AAAATATATAAATATATTATCAATATAAT
2837 CAGATTAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 13 0.48
30 8 0.30
31 6 0.22
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (29 bp):
AAAATATATAAATATATTATCAATATAAT
Found at i:3270 original size:23 final size:23
Alignment explanation
Indices: 3223--3267 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
3213 AGATTTACAT
3223 TTAATCTATTGATAAATATATAA
1 TTAATCTATTGATAAATATATAA
*
3246 TTAATTTATTGAT-AATATATAA
1 TTAATCTATTGATAAATATATAA
3268 ATTTATATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (23 bp):
TTAATCTATTGATAAATATATAA
Found at i:5166 original size:12 final size:12
Alignment explanation
Indices: 5125--5167 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
5115 AAAATTAAGG
*
5125 GTATATACATAT
1 GTATATATATAT
5137 GTATATATATA-
1 GTATATATATAT
5148 -TATATATATAT
1 GTATATATATAT
5159 GTATATATA
1 GTATATATA
5168 ACCTCTTTTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
10 10 0.36
12 18 0.64
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (12 bp):
GTATATATATAT
Found at i:5182 original size:2 final size:2
Alignment explanation
Indices: 5126--5167 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
5116 AAATTAAGGG
* * *
5126 TA TA TA CA TA TG TA TA TA TA TA TA TA TA TA TA TG 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
5168 ACCTCTTTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (2 bp):
TA
Found at i:6068 original size:22 final size:24
Alignment explanation
Indices: 6043--6097 Score: 87
Period size: 24 Copynumber: 2.4 Consensus size: 24
6033 ACCTACTCTC
*
6043 TTAAAAAAT-AAGAA-TATATTTT
1 TTAAAAAATAAAAAATTATATTTT
6065 TTAAAAAATAAAAAATTATATTTT
1 TTAAAAAATAAAAAATTATATTTT
6089 TTAAAAAAT
1 TTAAAAAAT
6098 TTACAAACTA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
22 9 0.30
23 4 0.13
24 17 0.57
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (24 bp):
TTAAAAAATAAAAAATTATATTTT
Found at i:6109 original size:25 final size:25
Alignment explanation
Indices: 6057--6124 Score: 84
Period size: 25 Copynumber: 2.8 Consensus size: 25
6047 AAAATAAGAA
*
6057 TATATTTTTTAAAAAA-TAAAAAAT
1 TATATTTTTTAAAAAATTAAAAAAC
* *
6081 TATATTTTTTAAAAAATTTACAAAC
1 TATATTTTTTAAAAAATTAAAAAAC
* *
6106 TATATATCTTAAAAAATTA
1 TATATTTTTTAAAAAATTA
6125 TCCACTATTC
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
24 16 0.43
25 21 0.57
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (25 bp):
TATATTTTTTAAAAAATTAAAAAAC
Found at i:6484 original size:3 final size:3
Alignment explanation
Indices: 6476--6540 Score: 96
Period size: 3 Copynumber: 21.7 Consensus size: 3
6466 AATTATTTCT
*
6476 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TAA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
6524 TATA TAA TT- TTA TTA TT
1 T-TA TTA TTA TTA TTA TT
6541 TAATTTATAA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.04
3 52 0.93
4 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:6549 original size:20 final size:21
Alignment explanation
Indices: 6491--6550 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
6481 ATTATTATTA
* *
6491 TTATTATTATTAT-TATTATT
1 TTATTATTATAATATATAATT
6511 ATTATTATTATAATATATAATT
1 -TTATTATTATAATATATAATT
*
6533 TTATTATT-TAATTTATAA
1 TTATTATTATAATATATAA
6551 GAGGAGACCT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
20 9 0.26
21 20 0.57
22 6 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTATTATTATAATATATAATT
Found at i:7621 original size:20 final size:20
Alignment explanation
Indices: 7580--7637 Score: 57
Period size: 20 Copynumber: 2.9 Consensus size: 20
7570 TTATATTTTC
* *
7580 AAGTATTATA-ATCATATTTA
1 AAGTATTATATATTA-ATATA
7600 AAGTATTATATATTAATATA
1 AAGTATTATATATTAATATA
*
7620 AA-TTTTGATATATTAATA
1 AAGTATT-ATATATTAATA
7638 ATTCGTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
19 3 0.09
20 27 0.82
21 3 0.09
ACGTcount: A:0.47, C:0.02, G:0.05, T:0.47
Consensus pattern (20 bp):
AAGTATTATATATTAATATA
Found at i:8395 original size:23 final size:23
Alignment explanation
Indices: 8362--8405 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
8352 TCAGATTTTA
*
8362 AAATAATTATATAAAATTAAATTT
1 AAATAATTATA-AAAAATAAATTT
8386 AAAT-ATTATAAAAAATAAAT
1 AAATAATTATAAAAAATAAAT
8406 ATTCGATTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 9 0.47
23 6 0.32
24 4 0.21
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (23 bp):
AAATAATTATAAAAAATAAATTT
Found at i:8934 original size:11 final size:12
Alignment explanation
Indices: 8910--8954 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
8900 GTATGCTCTT
*
8910 AAATATAATAAA
1 AAATATAATTAA
8922 AAAT-TAATTAA
1 AAATATAATTAA
*
8933 AAATATAAATAA
1 AAATATAATTAA
8945 AATATATAAT
1 AA-ATATAAT
8955 AAACTCTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
11 10 0.36
12 12 0.43
13 6 0.21
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAATATAATTAA
Found at i:9282 original size:27 final size:26
Alignment explanation
Indices: 9243--9294 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
9233 TTTTATTTAA
*
9243 TTAAATTTAATTTGATTTTAATAATT
1 TTAAATTTAATTTAATTTTAATAATT
* *
9269 TTAAATTTTTATTTAATTTTATTAAT
1 TTAAA-TTTAATTTAATTTTAATAAT
9295 AAAATATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 5 0.23
27 17 0.77
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (26 bp):
TTAAATTTAATTTAATTTTAATAATT
Found at i:9283 original size:21 final size:20
Alignment explanation
Indices: 9232--9285 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
9222 TTAAATAATT
9232 TTTTTATTTAATTAAATTTAA
1 TTTTTATTTAA-TAAATTTAA
* *
9253 -TTTGATTTTAATAATTTTAAA
1 TTTTTA-TTTAATAAATTT-AA
9274 TTTTTATTTAAT
1 TTTTTATTTAAT
9286 TTTATTAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 10 0.37
21 13 0.48
22 4 0.15
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTTTATTTAATAAATTTAA
Found at i:9293 original size:47 final size:48
Alignment explanation
Indices: 9174--9293 Score: 133
Period size: 47 Copynumber: 2.5 Consensus size: 48
9164 TATTTGAGAG
* * *
9174 TTAAATTATTTATTTAATTTGA-TAAGTTTAATTTATTTTATTTAAATT
1 TTAAATT-TTTATTTAATTTAATTAAATTTAATTTATTTTATATAAATT
9222 TTAAATAATTTT-TTT-ATTTAATTAAATTTAATTTGATTTTA-AT-AATT
1 TTAAAT--TTTTATTTAATTTAATTAAATTTAATTT-ATTTTATATAAATT
*
9269 TTAAATTTTTATTTAATTTTATTAA
1 TTAAATTTTTATTTAATTTAATTAA
9294 TAAAATATAT
Statistics
Matches: 62, Mismatches: 4, Indels: 13
0.78 0.05 0.16
Matches are distributed among these distances:
45 4 0.06
46 3 0.05
47 24 0.39
48 21 0.34
49 9 0.15
50 1 0.02
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (48 bp):
TTAAATTTTTATTTAATTTAATTAAATTTAATTTATTTTATATAAATT
Found at i:9668 original size:35 final size:34
Alignment explanation
Indices: 9569--9683 Score: 203
Period size: 34 Copynumber: 3.4 Consensus size: 34
9559 ATTAATTAAC
9569 ATCCGAATTCCCCACTTCAAACAGGGAAAAAACA
1 ATCCGAATTCCCCACTTCAAACAGGGAAAAAACA
9603 ATCCGAATTCCCCACTTCAAACAGGGAAAAAACA
1 ATCCGAATTCCCCACTTCAAACAGGGAAAAAACA
*
9637 ATCCGAATTCCCCACTTCAAACAGGGAAAAAAAAA
1 ATCCGAATTCCCCACTTCAAACAGGG-AAAAAACA
*
9672 ATCCCAATTCCC
1 ATCCGAATTCCC
9684 ATTTACCAAT
Statistics
Matches: 78, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
34 60 0.77
35 18 0.23
ACGTcount: A:0.43, C:0.30, G:0.10, T:0.16
Consensus pattern (34 bp):
ATCCGAATTCCCCACTTCAAACAGGGAAAAAACA
Found at i:10400 original size:20 final size:19
Alignment explanation
Indices: 10355--10447 Score: 72
Period size: 20 Copynumber: 5.0 Consensus size: 19
10345 GACTTTCTAT
10355 ATTATATAAA-AT-A-AAA
1 ATTATATAAATATAATAAA
* *
10371 ATAATAATAAATATATTAAA
1 ATTAT-ATAAATATAATAAA
10391 ATGTATATAAATATAATAAA
1 AT-TATATAAATATAATAAA
*
10411 ATTATA-AGAATATAATGTAA
1 ATTATATA-AATATAAT-AAA
*
10431 A-TATATAGAT-TAATAAA
1 ATTATATAAATATAATAAA
10448 TAAAAATATT
Statistics
Matches: 62, Mismatches: 7, Indels: 15
0.74 0.08 0.18
Matches are distributed among these distances:
16 4 0.06
17 7 0.11
18 7 0.11
19 18 0.29
20 24 0.39
21 2 0.03
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.34
Consensus pattern (19 bp):
ATTATATAAATATAATAAA
Found at i:10893 original size:25 final size:26
Alignment explanation
Indices: 10857--10925 Score: 68
Period size: 25 Copynumber: 2.7 Consensus size: 26
10847 TTTTAAGTTT
* *
10857 ATAATTTTATTTAAAATTTTAAATAT
1 ATAATTTAATTTAAAATTTTAAATAA
* ** *
10883 TTAA-TTAATTTTTAACTTTAAATAA
1 ATAATTTAATTTAAAATTTTAAATAA
10908 ATAATTTAATTTATAAAT
1 ATAATTTAATTTA-AAAT
10926 ATTTTTATTT
Statistics
Matches: 31, Mismatches: 10, Indels: 3
0.70 0.23 0.07
Matches are distributed among these distances:
25 19 0.61
26 10 0.32
27 2 0.06
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (26 bp):
ATAATTTAATTTAAAATTTTAAATAA
Found at i:10962 original size:12 final size:12
Alignment explanation
Indices: 10941--10996 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
10931 TATTTAATAT
*
10941 ATATATAATAAA
1 ATATAAAATAAA
*
10953 ATATAAAATATA
1 ATATAAAATAAA
10965 ATA-AAAATATAA
1 ATATAAAATA-AA
*
10977 ATATAATAT-AA
1 ATATAAAATAAA
10988 ATA-AAAATA
1 ATATAAAATA
10997 TGAAAACAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
10 4 0.11
11 11 0.31
12 17 0.47
13 4 0.11
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
ATATAAAATAAA
Found at i:10963 original size:17 final size:17
Alignment explanation
Indices: 10943--10997 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 17
10933 TTTAATATAT
10943 ATATAATAAAATATAAA
1 ATATAATAAAATATAAA
10960 ATATAATAAAA-ATATAA
1 ATATAATAAAATATA-AA
10977 ATATAATATAAATA-AAA
1 ATATAATA-AAATATAAA
10994 ATAT
1 ATAT
10998 GAAAACAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
16 3 0.09
17 27 0.77
18 4 0.11
19 1 0.03
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
ATATAATAAAATATAAA
Found at i:10973 original size:11 final size:12
Alignment explanation
Indices: 10936--10993 Score: 61
Period size: 11 Copynumber: 5.2 Consensus size: 12
10926 ATTTTTATTT
*
10936 AATAT-ATATAT
1 AATATAATATAA
*
10947 AATAAAATATAA
1 AATATAATATAA
10959 AATATAATA-AA
1 AATATAATATAA
*
10970 AATATAA-ATAT
1 AATATAATATAA
10981 AATATAA-ATAA
1 AATATAATATAA
10992 AA
1 AA
10994 ATATGAAAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
10 1 0.03
11 26 0.65
12 13 0.32
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AATATAATATAA
Found at i:10990 original size:23 final size:24
Alignment explanation
Indices: 10947--10997 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
10937 ATATATATAT
10947 AATA-AAATATAAAATATAATAAA
1 AATATAAATATAAAATATAATAAA
*
10970 AATATAAATATAATATA-AATAAA
1 AATATAAATATAAAATATAATAAA
10993 AATAT
1 AATAT
10998 GAAAACAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (24 bp):
AATATAAATATAAAATATAATAAA
Found at i:11220 original size:22 final size:23
Alignment explanation
Indices: 11195--11245 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
11185 ATAATTTAAA
11195 TTATATAAATTTTAAA-ATATAT
1 TTATATAAATTTTAAATATATAT
*
11217 TTATAT-TATTTTAAATATATAT
1 TTATATAAATTTTAAATATATAT
11239 TTATATA
1 TTATATA
11246 TTTATATTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 8 0.31
22 18 0.69
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTATATAAATTTTAAATATATAT
Found at i:11234 original size:12 final size:13
Alignment explanation
Indices: 11219--11263 Score: 51
Period size: 12 Copynumber: 3.6 Consensus size: 13
11209 AAATATATTT
11219 ATATTAT-TTTAA
1 ATATTATATTTAA
*
11231 ATA-TATATTTAT
1 ATATTATATTTAA
11243 ATATTTATATTT-A
1 ATA-TTATATTTAA
11256 ATATTATA
1 ATATTATA
11264 ATATCTAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
11 3 0.11
12 15 0.54
13 3 0.11
14 7 0.25
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (13 bp):
ATATTATATTTAA
Found at i:11249 original size:20 final size:21
Alignment explanation
Indices: 11203--11248 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
11193 AATTATATAA
11203 ATTTTAAAATATATTTATATT
1 ATTTTAAAATATATTTATATT
11224 ATTTTAAATATATATTTATA-T
1 ATTTTAAA-ATATATTTATATT
11245 ATTT
1 ATTT
11249 ATATTTAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
ATTTTAAAATATATTTATATT
Found at i:14979 original size:2 final size:2
Alignment explanation
Indices: 14974--15001 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14964 TATATAAGTC
14974 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
15002 TACCTAAGTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:15435 original size:22 final size:23
Alignment explanation
Indices: 15393--15438 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
15383 GGTTCCAAGT
15393 TAATATGTTATTTAAATAAAAAA
1 TAATATGTTATTTAAATAAAAAA
15416 TAATATGTTATTT-AATAAAAAA
1 TAATATGTTATTTAAATAAAAAA
15438 T
1 T
15439 GATCCAAGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 10 0.43
23 13 0.57
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (23 bp):
TAATATGTTATTTAAATAAAAAA
Found at i:15594 original size:20 final size:20
Alignment explanation
Indices: 15569--15609 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
15559 AATTTATTTT
15569 TTAAAATATGA-ATAAATTCA
1 TTAAAATATGATA-AAATTCA
15589 TTAAAATATGATAAAATTCA
1 TTAAAATATGATAAAATTCA
15609 T
1 T
15610 GATTACAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 19 0.95
21 1 0.05
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.37
Consensus pattern (20 bp):
TTAAAATATGATAAAATTCA
Found at i:16513 original size:20 final size:21
Alignment explanation
Indices: 16490--16529 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
16480 ATATCTTATT
*
16490 TATATTATAT-ATAAAAAAAC
1 TATACTATATAATAAAAAAAC
16510 TATACTATATAATAAAAAAA
1 TATACTATATAATAAAAAAA
16530 TCTGAGTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (21 bp):
TATACTATATAATAAAAAAAC
Found at i:22006 original size:15 final size:15
Alignment explanation
Indices: 21956--22006 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
21946 AATTTAATTT
*
21956 TATT-TATTTTTAATA
1 TATTATATTTATAA-A
* *
21971 TATAATATTTATTAA
1 TATTATATTTATAAA
*
21986 TTTTATATTTATAAA
1 TATTATATTTATAAA
22001 TATTAT
1 TATTAT
22007 GTAATTTTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
15 21 0.75
16 7 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATATTTATAAA
Found at i:22025 original size:25 final size:25
Alignment explanation
Indices: 21954--22026 Score: 80
Period size: 24 Copynumber: 3.0 Consensus size: 25
21944 TAAATTTAAT
* *
21954 TTTATTTATTTTTAATATAT-AATA
1 TTTATTAATTTTTATTATATAAATA
21978 TTTATTAATTTTATATT-TATAAATA
1 TTTATTAATTTT-TATTATATAAATA
*
22003 -TTATGTAATTTTTATTATTTAAAT
1 TTTAT-TAATTTTTATTATATAAAT
22027 TATAAGTAAT
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
24 22 0.52
25 20 0.48
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.62
Consensus pattern (25 bp):
TTTATTAATTTTTATTATATAAATA
Found at i:22115 original size:26 final size:25
Alignment explanation
Indices: 22082--22162 Score: 78
Period size: 24 Copynumber: 3.3 Consensus size: 25
22072 AGTTATTTAT
*
22082 ATTT-AAAAATTTA-TTAAAAATTAA
1 ATTTAAAAAATATATTTAAAAA-TAA
*
22106 ATTTTAAAAAACATATTTAAAAATAA
1 A-TTTAAAAAATATATTTAAAAATAA
* **
22132 ATTTAAAAAATATA-ATATGAATAA
1 ATTTAAAAAATATATTTAAAAATAA
22156 ATTTAAA
1 ATTTAAA
22163 TGATTTGAAC
Statistics
Matches: 48, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
24 15 0.31
25 15 0.31
26 11 0.23
27 7 0.15
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (25 bp):
ATTTAAAAAATATATTTAAAAATAA
Found at i:22135 original size:12 final size:12
Alignment explanation
Indices: 22082--22140 Score: 50
Period size: 12 Copynumber: 4.8 Consensus size: 12
22072 AGTTATTTAT
**
22082 ATTTAAAAATTT
1 ATTTAAAAATAA
22094 A-TTAAAAATTAA
1 ATTTAAAAA-TAA
22106 ATTTTAAAAA-ACA
1 A-TTTAAAAATA-A
22119 TATTTAAAAATAA
1 -ATTTAAAAATAA
22132 ATTTAAAAA
1 ATTTAAAAA
22141 ATATAATATG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
11 7 0.18
12 13 0.33
13 10 0.26
14 9 0.23
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (12 bp):
ATTTAAAAATAA
Found at i:22142 original size:13 final size:13
Alignment explanation
Indices: 22095--22143 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
22085 TAAAAATTTA
*
22095 TTAAAAATTAAATT
1 TTAAAAAATAAA-T
* *
22109 TTAAAAAACATAT
1 TTAAAAAATAAAT
22122 TT-AAAAATAAAT
1 TTAAAAAATAAAT
22134 TTAAAAAATA
1 TTAAAAAATA
22144 TAATATGAAT
Statistics
Matches: 29, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
12 10 0.34
13 10 0.34
14 9 0.31
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (13 bp):
TTAAAAAATAAAT
Found at i:27945 original size:17 final size:16
Alignment explanation
Indices: 27899--27960 Score: 67
Period size: 17 Copynumber: 3.9 Consensus size: 16
27889 TACATCATAA
27899 TTAT-ATTTAAAATATT
1 TTATAATTTAAAAT-TT
*
27915 TTTTAA-TT-AAATTT
1 TTATAATTTAAAATTT
27929 TTATCAATTTAAAATTT
1 TTAT-AATTTAAAATTT
27946 TTATAACTTTAAAAT
1 TTATAA-TTTAAAAT
27961 AAAATAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
14 5 0.13
15 6 0.15
16 9 0.23
17 19 0.49
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (16 bp):
TTATAATTTAAAATTT
Found at i:27988 original size:15 final size:16
Alignment explanation
Indices: 27948--27986 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
27938 TAAAATTTTT
*
27948 ATAACTTTAAAATAAA
1 ATAATTTTAAAATAAA
27964 ATAATTTTAAAA-AAA
1 ATAATTTTAAAATAAA
27979 ATTAATTT
1 A-TAATTT
27987 AACTAATCGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.59, C:0.03, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAATTTTAAAATAAA
Found at i:30602 original size:28 final size:30
Alignment explanation
Indices: 30571--30626 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
30561 TAAATAATAA
*
30571 TAATTAATT-AATT-AAAATTAAAATATTT
1 TAATAAATTCAATTCAAAATTAAAATATTT
* *
30599 TAATAAATTCATTTCAAAATTAATATAT
1 TAATAAATTCAATTCAAAATTAAAATAT
30627 AATTAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 8 0.35
29 3 0.13
30 12 0.52
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.45
Consensus pattern (30 bp):
TAATAAATTCAATTCAAAATTAAAATATTT
Found at i:32551 original size:15 final size:15
Alignment explanation
Indices: 32504--32567 Score: 58
Period size: 16 Copynumber: 4.1 Consensus size: 15
32494 TTTTATATCA
*
32504 ATTTATATATATTTTT
1 ATTTAAATA-ATTTTT
* *
32520 ATTT-TATAATTAATT
1 ATTTAAATAATT-TTT
32535 ATTTAAATATATTTTAT
1 ATTTAAATA-ATTTT-T
32552 ATTTAAATAATTTTT
1 ATTTAAATAATTTTT
32567 A
1 A
32568 ATATATATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
14 3 0.07
15 12 0.29
16 13 0.32
17 13 0.32
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
ATTTAAATAATTTTT
Found at i:32563 original size:29 final size:31
Alignment explanation
Indices: 32504--32577 Score: 93
Period size: 31 Copynumber: 2.5 Consensus size: 31
32494 TTTTATATCA
*
32504 ATTTATATATATTTTTATTTTATAATTAATT
1 ATTTAAATATATTTTTATTTTATAATTAATT
32535 ATTTAAATATA-TTTTATATTTA-AA-TAATT
1 ATTTAAATATATTTTTAT-TTTATAATTAATT
32564 -TTTAATATATATTT
1 ATTTAA-ATATATTT
32578 ACGTCCTATA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
28 5 0.13
29 10 0.26
30 10 0.26
31 14 0.36
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (31 bp):
ATTTAAATATATTTTTATTTTATAATTAATT
Found at i:32567 original size:17 final size:17
Alignment explanation
Indices: 32534--32565 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
32524 TATAATTAAT
32534 TATTTAAATATATTTTA
1 TATTTAAATATATTTTA
32551 TATTTAAATA-ATTTT
1 TATTTAAATATATTTT
32566 TAATATATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTAAATATATTTTA
Found at i:33161 original size:16 final size:17
Alignment explanation
Indices: 33140--33172 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
33130 ATAATAAATA
33140 TATTAT-ATTTATCTTT
1 TATTATCATTTATCTTT
33156 TATTATCGATTTATCTT
1 TATTATC-ATTTATCTT
33173 AATATATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.09, G:0.03, T:0.64
Consensus pattern (17 bp):
TATTATCATTTATCTTT
Found at i:33357 original size:4 final size:4
Alignment explanation
Indices: 33348--33373 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
33338 AATGAATATT
33348 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
33374 GTCAAATATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:33613 original size:21 final size:23
Alignment explanation
Indices: 33586--33636 Score: 79
Period size: 22 Copynumber: 2.3 Consensus size: 23
33576 AATTAAATAC
*
33586 TATATATA-AAATATATGATCTA
1 TATATATACAAATATATGATATA
33608 -ATATATACAAATATATGATATA
1 TATATATACAAATATATGATATA
33630 TATATAT
1 TATATAT
33637 GATATTAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 7 0.27
22 13 0.50
23 6 0.23
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (23 bp):
TATATATACAAATATATGATATA
Found at i:33629 original size:36 final size:36
Alignment explanation
Indices: 33580--33650 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 36
33570 TGATTAAATT
33580 AAATACTATATATAAAATATATGAT-CTAATATATAC
1 AAATACTATATAT-AAATATATGATACTAATATATAC
* *
33616 AAATA-TATGATATATATATATGATATTAATATATA
1 AAATACTAT-ATATAAATATATGATACTAATATATA
33651 TCTAAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
35 13 0.42
36 18 0.58
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (36 bp):
AAATACTATATATAAATATATGATACTAATATATAC
Found at i:33636 original size:13 final size:15
Alignment explanation
Indices: 33618--33651 Score: 54
Period size: 13 Copynumber: 2.4 Consensus size: 15
33608 ATATATACAA
33618 ATATATGATA-T-AT
1 ATATATGATATTAAT
33631 ATATATGATATTAAT
1 ATATATGATATTAAT
33646 ATATAT
1 ATATAT
33652 CTAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.53
14 1 0.05
15 8 0.42
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
ATATATGATATTAAT
Found at i:33668 original size:23 final size:21
Alignment explanation
Indices: 33639--33701 Score: 67
Period size: 22 Copynumber: 3.0 Consensus size: 21
33629 ATATATATGA
33639 TATTAATATATATCTAAAAATT
1 TATTAATATATAT-TAAAAATT
**
33661 TATATAATATGA-ATTATTAATT
1 TAT-TAATAT-ATATTAAAAATT
33683 TATTAATATATA-TAAAAAT
1 TATTAATATATATTAAAAAT
33702 ATAAAATATT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
20 6 0.18
21 7 0.21
22 12 0.35
23 8 0.24
24 1 0.03
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (21 bp):
TATTAATATATATTAAAAATT
Found at i:36850 original size:38 final size:38
Alignment explanation
Indices: 36798--36874 Score: 111
Period size: 38 Copynumber: 2.0 Consensus size: 38
36788 CTGAAATATG
* *
36798 AAAAGCCTGAGGGCCAAACG-AGAAAAGAAGTTCATAGA
1 AAAAGCCAGAGGGCCAAACGAAG-AAAGAAGTTCAGAGA
*
36836 AAAAGCCAGTGGGCCAAACGAAGAAAGAAGTTCAGAGA
1 AAAAGCCAGAGGGCCAAACGAAGAAAGAAGTTCAGAGA
36874 A
1 A
36875 CTTGTCTATC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
38 33 0.94
39 2 0.06
ACGTcount: A:0.48, C:0.16, G:0.27, T:0.09
Consensus pattern (38 bp):
AAAAGCCAGAGGGCCAAACGAAGAAAGAAGTTCAGAGA
Found at i:37417 original size:18 final size:19
Alignment explanation
Indices: 37396--37432 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
37386 TTAAATATAT
*
37396 TTAATTTAATTTT-AATAA
1 TTAATATAATTTTCAATAA
37414 TTAATATAATTTTCAATAA
1 TTAATATAATTTTCAATAA
37433 GTTTTTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (19 bp):
TTAATATAATTTTCAATAA
Found at i:37553 original size:20 final size:21
Alignment explanation
Indices: 37512--37563 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
37502 ATAACTGAAA
* *
37512 ATCAAAT-TATTATTATTCTT
1 ATCAAATATATAATTATTATT
37532 ATCAAATATATAATTA-TATT
1 ATCAAATATATAATTATTATT
*
37552 AT-AAAAATATAA
1 ATCAAATATATAA
37564 ACTTTTGTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
19 9 0.32
20 12 0.43
21 7 0.25
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (21 bp):
ATCAAATATATAATTATTATT
Found at i:38029 original size:21 final size:18
Alignment explanation
Indices: 38011--38046 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
38001 GTAAAATTAT
38011 TTATA-TAATAAATATAA
1 TTATATTAATAAATATAA
*
38028 TTATATTAATAAATTTAA
1 TTATATTAATAAATATAA
38046 T
1 T
38047 ATAAATTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
TTATATTAATAAATATAA
Found at i:38047 original size:23 final size:23
Alignment explanation
Indices: 38021--38075 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
38011 TTATATAATA
38021 AATATAATTATATTAATAA-ATT-T
1 AATATAATT-TATT-ATAATATTAT
38044 AATATAAATTTATTATAATATTAAT
1 AATAT-AATTTATTATAATATT-AT
38069 AATATAA
1 AATATAA
38076 AAATTATAAA
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
22 4 0.14
23 12 0.43
24 6 0.21
25 6 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
AATATAATTTATTATAATATTAT
Found at i:38049 original size:32 final size:33
Alignment explanation
Indices: 37976--38050 Score: 86
Period size: 32 Copynumber: 2.3 Consensus size: 33
37966 ATATTTTTGA
37976 TTAATATAATAAAAATATAATTAATGTAAAATTAT
1 TTAATATAAT-AAAATATAATTAATGTAAAA-TAT
38011 TT-ATATAAT-AAATATAATTATAT-TAATAA-AT
1 TTAATATAATAAAATATAATTA-ATGTAA-AATAT
38042 TTAATATAA
1 TTAATATAA
38051 ATTTATTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
31 4 0.11
32 20 0.54
33 4 0.11
34 7 0.19
35 2 0.05
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (33 bp):
TTAATATAATAAAATATAATTAATGTAAAATAT
Found at i:39351 original size:17 final size:17
Alignment explanation
Indices: 39329--39376 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
39319 GATATGTTTA
39329 ATTTAATTTAAATTATT
1 ATTTAATTTAAATTATT
* *
39346 ATTTAATTAAAAATATT
1 ATTTAATTTAAATTATT
*
39363 -TTAAATTT-AATTAT
1 ATTTAATTTAAATTAT
39377 AAAAATATAT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
15 5 0.19
16 6 0.23
17 15 0.58
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTAATTTAAATTATT
Found at i:39370 original size:21 final size:21
Alignment explanation
Indices: 39346--39402 Score: 62
Period size: 23 Copynumber: 2.6 Consensus size: 21
39336 TTAAATTATT
*
39346 ATTTAATT-AAAAATATTTTAA
1 ATTTAATTAAAAAATA-TATAA
39367 ATTTAATTATAAAAATATATAA
1 ATTTAATTA-AAAAATATATAA
39389 ATATTAATATAAAA
1 AT-TTAAT-TAAAA
39403 TAATTTTTAA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
21 8 0.26
22 6 0.19
23 15 0.48
24 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTAATTAAAAAATATATAA
Found at i:39383 original size:23 final size:21
Alignment explanation
Indices: 39346--39402 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 21
39336 TTAAATTATT
*
39346 ATTTAAT-TAAAAATATTTTAA
1 ATTTAATATAAAAATA-TATAA
39367 ATTTAATTATAAAAATATATAA
1 ATTTAA-TATAAAAATATATAA
39389 ATATTAATATAAAA
1 AT-TTAATATAAAA
39403 TAATTTTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
21 6 0.19
22 14 0.44
23 12 0.38
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
ATTTAATATAAAAATATATAA
Found at i:40257 original size:20 final size:21
Alignment explanation
Indices: 40234--40308 Score: 56
Period size: 20 Copynumber: 3.8 Consensus size: 21
40224 AAAATTATTA
40234 AAAT-TTAATTATAAATATAT
1 AAATATTAATTATAAATATAT
*
40254 AAATATTAA-TATTAATATCA-
1 AAATATTAATTATAAATAT-AT
*
40274 AAATATT--TTTTAAATA-AT
1 AAATATTAATTATAAATATAT
*
40292 AAAT-TAAATTTATAAAT
1 AAATATTAA-TTATAAAT
40309 TAAATTAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
17 2 0.05
18 4 0.09
19 6 0.14
20 26 0.60
21 5 0.12
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATATTAATTATAAATATAT
Found at i:40303 original size:18 final size:17
Alignment explanation
Indices: 40283--40344 Score: 53
Period size: 13 Copynumber: 3.8 Consensus size: 17
40273 AAAATATTTT
40283 TTAAATAATAAATTAAA
1 TTAAATAATAAATTAAA
40300 TT---T-ATAAATTAAA
1 TTAAATAATAAATTAAA
*
40313 TTAAATCAA-AATTTAAA
1 TTAAAT-AATAAATTAAA
*
40330 TTTAAATAAAAAATT
1 -TTAAATAATAAATT
40345 TTAAAAATTT
Statistics
Matches: 36, Mismatches: 2, Indels: 13
0.71 0.04 0.25
Matches are distributed among these distances:
13 12 0.33
14 1 0.03
16 1 0.03
17 11 0.31
18 11 0.31
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
TTAAATAATAAATTAAA
Found at i:40330 original size:17 final size:17
Alignment explanation
Indices: 40282--40340 Score: 56
Period size: 17 Copynumber: 3.6 Consensus size: 17
40272 CAAAATATTT
*
40282 TTTAAATAATAAATTAAA
1 TTTAAATAA-AATTTAAA
40300 TTT--AT-AAA-TTAAA
1 TTTAAATAAAATTTAAA
40313 -TTAAATCAAAATTTAAA
1 TTTAAAT-AAAATTTAAA
40330 TTTAAATAAAA
1 TTTAAATAAAA
40341 AATTTTAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 13
0.73 0.00 0.27
Matches are distributed among these distances:
12 2 0.06
13 5 0.14
14 4 0.11
15 1 0.03
16 5 0.14
17 9 0.26
18 9 0.26
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
TTTAAATAAAATTTAAA
Found at i:40927 original size:19 final size:20
Alignment explanation
Indices: 40900--40944 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
40890 ATGGTCACAT
*
40900 TATTATTTAACA-TTAAAAA
1 TATTTTTTAACATTTAAAAA
* *
40919 TATTTTTTAATATTTAAAAT
1 TATTTTTTAACATTTAAAAA
40939 TATTTT
1 TATTTT
40945 AATTTAAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 10 0.45
20 12 0.55
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTTTTTAACATTTAAAAA
Found at i:41338 original size:22 final size:21
Alignment explanation
Indices: 41307--41349 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
41297 AAAATTTATT
* *
41307 TAAATTTAATTTTAAAATATA
1 TAAATTTAATATAAAAATATA
41328 TAAATATTAATATAAAAATATA
1 TAAAT-TTAATATAAAAATATA
41350 ATTTTTAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAATTTAATATAAAAATATA
Found at i:41686 original size:53 final size:53
Alignment explanation
Indices: 41628--41733 Score: 142
Period size: 53 Copynumber: 2.0 Consensus size: 53
41618 GTTTTATAAA
* *
41628 AAAATAAT-TTTTTTAGAAAATATGGGTAATATTTTAAAAAAAATAATTTTTTT
1 AAAATAATATTTTTAAG-AAATATGAGTAATATTTTAAAAAAAATAATTTTTTT
** * *
41681 AAAATAATATTTTTAAGAAATATGAGTGGTCTTTTAAAAAAGATAATTTTTTT
1 AAAATAATATTTTTAAGAAATATGAGTAATATTTTAAAAAAAATAATTTTTTT
41734 TAAGTTTACA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
53 39 0.85
54 7 0.15
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.44
Consensus pattern (53 bp):
AAAATAATATTTTTAAGAAATATGAGTAATATTTTAAAAAAAATAATTTTTTT
Found at i:41703 original size:13 final size:14
Alignment explanation
Indices: 41667--41696 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
41657 TATTTTAAAA
*
41667 AAAATAATTTTTTT
1 AAAATAATATTTTT
41681 AAAATAATATTTTT
1 AAAATAATATTTTT
41695 AA
1 AA
41697 GAAATATGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAAATAATATTTTT
Found at i:42848 original size:13 final size:13
Alignment explanation
Indices: 42830--42857 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
42820 CATTATTCAA
42830 TGTATCGATACAT
1 TGTATCGATACAT
42843 TGTATCGATACAT
1 TGTATCGATACAT
42856 TG
1 TG
42858 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:42852 original size:33 final size:33
Alignment explanation
Indices: 42810--42875 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
42800 GCCAAGGAAA
42810 TGTATCGATACATT-ATTCAATGTATCGATACAT
1 TGTATCGATACATTGA-TCAATGTATCGATACAT
**
42843 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAATGTATCGATACAT
42876 CTGGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.30, C:0.15, G:0.14, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGATCAATGTATCGATACAT
Found at i:46571 original size:50 final size:50
Alignment explanation
Indices: 46536--46732 Score: 295
Period size: 50 Copynumber: 3.9 Consensus size: 50
46526 ACTTTTTTCT
* *
46536 ATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACAACCACCTCTCTCA
1 ATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACGACCACCTCTCTCG
* * *
46586 ATTGTTAAAGGTTGGTGAGGAATAGTCAATAATTACGACCACCTCTCTCG
1 ATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACGACCACCTCTCTCG
* * * *
46636 ATTGTCAAAGGTTTGTGAGAAAATAGTCAACAATTATGGCCACCTCTCTCG
1 ATTGTCAAAGGTTGGTGA-AGAATAGTCAACAATTACGACCACCTCTCTCG
*
46687 ATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTATGACCACCTCT
1 ATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACGACCACCTCT
46733 TTCTCACCCA
Statistics
Matches: 131, Mismatches: 15, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
50 87 0.66
51 44 0.34
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (50 bp):
ATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACGACCACCTCTCTCG
Found at i:46691 original size:101 final size:100
Alignment explanation
Indices: 46536--46732 Score: 295
Period size: 101 Copynumber: 2.0 Consensus size: 100
46526 ACTTTTTTCT
* *
46536 ATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACAACCACCTCTCTCAATTGTTAAAGGTTGG
1 ATTGTCAAAGGTTGGTGAAAAATAGTCAACAATTACAACCACCTCTCTCAATTGTCAAAGGTTGG
* *
46601 TGAGGAATAGTCAATAATTACGACCACCTCTCTCG
66 TGAAGAATAGTCAACAATTACGACCACCTCTCTCG
* *** *
46636 ATTGTCAAAGGTTTGTGAGAAAATAGTCAACAATTATGGCCACCTCTCTCGATTGTCAAAGGTTG
1 ATTGTCAAAGGTTGGTGA-AAAATAGTCAACAATTACAACCACCTCTCTCAATTGTCAAAGGTTG
*
46701 GTGAAGAATAGTCAACAATTATGACCACCTCT
65 GTGAAGAATAGTCAACAATTACGACCACCTCT
46733 TTCTCACCCA
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
100 17 0.20
101 69 0.80
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.28
Consensus pattern (100 bp):
ATTGTCAAAGGTTGGTGAAAAATAGTCAACAATTACAACCACCTCTCTCAATTGTCAAAGGTTGG
TGAAGAATAGTCAACAATTACGACCACCTCTCTCG
Found at i:51112 original size:50 final size:50
Alignment explanation
Indices: 51051--51354 Score: 279
Period size: 50 Copynumber: 6.3 Consensus size: 50
51041 AGATGCTTAG
* * *
51051 AGTCAACAATTACGGTCACATTTCTCTATTATCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCTATTATCAAAGGTTGGTGAAGAAT
* * * *
51101 AGTCAATAATTACGACCACCTCTCTCAATTATCAAAGGTTGATGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCTATTATCAAAGGTTGGTGAAGAAT
* * * * * * *
51151 AGTCAACAATTACAGCC-CTTCTTTTTATTGTCAAAGGTTTGTGAGGAAT
1 AGTCAACAATTACGGCCACCTCTCTCTATTATCAAAGGTTGGTGAAGAAT
* * *
51200 AGTCAACAATTACGTCCACCTCTCT-TA--A--ATA--TTGGTAAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCTATTATCAAAGGTTGGTGAAGAAT
** *
51243 AGTCAACAATTACGGCCACCTCTCT-TGATCGTCAAAGATTGGTGAAGAAT
1 AGTCAACAATTACGGCCACCTCTCTCT-ATTATCAAAGGTTGGTGAAGAAT
* * * * *
51293 AGTCAACAATTACGG-CACCTCTCT-TAATTGTCAAATGTTAGTAAAAAAT
1 AGTCAACAATTACGGCCACCTCTCTCT-ATTATCAAAGGTTGGTGAAGAAT
*
51342 AGTTAACAATTAC
1 AGTCAACAATTAC
51355 AATTACCTCT
Statistics
Matches: 207, Mismatches: 39, Indels: 17
0.79 0.15 0.06
Matches are distributed among these distances:
43 34 0.16
44 1 0.00
45 2 0.01
48 2 0.01
49 80 0.39
50 88 0.43
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.31
Consensus pattern (50 bp):
AGTCAACAATTACGGCCACCTCTCTCTATTATCAAAGGTTGGTGAAGAAT
Found at i:51223 original size:99 final size:98
Alignment explanation
Indices: 51051--51355 Score: 311
Period size: 99 Copynumber: 3.1 Consensus size: 98
51041 AGATGCTTAG
* * * * * * *
51051 AGTCAACAATTACGGTCACATTTCTCTATTATCAAAGGTTGGTGAAGAATAGTCAATAATTACGA
1 AGTCAACAATTACAGCCACCTCTCTTTATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACG-
* *
51116 CCACCTCTCTCAATTATCAAAGGTTGATGAAGAAT
65 CCACCTCTCTTAATTATCAAA-GTTGATAAAGAAT
* * * *
51151 AGTCAACAATTACAGCC-CTTCTTTTTATTGTCAAAGGTTTGTGAGGAATAGTCAACAATTACGT
1 AGTCAACAATTACAGCCACCTCTCTTTATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACG-
*
51215 CCACCTCTCTTAA--AT---A-TTGGTAAAGAAT
65 CCACCTCTCTTAATTATCAAAGTTGATAAAGAAT
* * * * *
51243 AGTCAACAATTACGGCCACCTCTCTTGATCGTCAAAGATTGGTGAAGAATAGTCAACAATTACGG
1 AGTCAACAATTACAGCCACCTCTCTTTATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACGC
* *
51308 CACCTCTCTTAATTGTCAAATGTT-AGTAAAAAAT
66 CACCTCTCTTAATTATCAAA-GTTGA-TAAAGAAT
*
51342 AGTTAACAATTACA
1 AGTCAACAATTACA
51356 ATTACCTCTT
Statistics
Matches: 168, Mismatches: 28, Indels: 19
0.78 0.13 0.09
Matches are distributed among these distances:
92 38 0.23
93 39 0.23
94 2 0.01
97 3 0.02
99 71 0.42
100 15 0.09
ACGTcount: A:0.35, C:0.19, G:0.15, T:0.30
Consensus pattern (98 bp):
AGTCAACAATTACAGCCACCTCTCTTTATTGTCAAAGGTTGGTGAAGAATAGTCAACAATTACGC
CACCTCTCTTAATTATCAAAGTTGATAAAGAAT
Found at i:51289 original size:142 final size:142
Alignment explanation
Indices: 51089--51354 Score: 354
Period size: 142 Copynumber: 1.9 Consensus size: 142
51079 TTATCAAAGG
* * * *
51089 TTGGTGAAGAATAGTCAATAATTACGACCACCTCTCTCAATTATCAAAGGTTGATGAAGAATAGT
1 TTGGTAAAGAATAGTCAACAATTACGACCACCTCTCTCAATCATCAAAGATTGATGAAGAATAGT
* * * * **
51154 CAACAATTACAGC-CCTTCTTTTTATTGTCAAAGGTTTGTGAGGAATAGTCAACAATTACGTCCA
66 CAACAATTACAGCACC-TCTCTTAATTGTCAAAGGTTAGTAAAAAATAGTCAACAATTACGTCCA
51218 CCTCTCTTAAATA
130 CCTCTCTTAAATA
* ** * *
51231 TTGGTAAAGAATAGTCAACAATTACGGCCACCTCTCTTGATCGTCAAAGATTGGTGAAGAATAGT
1 TTGGTAAAGAATAGTCAACAATTACGACCACCTCTCTCAATCATCAAAGATTGATGAAGAATAGT
* * *
51296 CAACAATTACGGCACCTCTCTTAATTGTCAAATGTTAGTAAAAAATAGTTAACAATTAC
66 CAACAATTACAGCACCTCTCTTAATTGTCAAAGGTTAGTAAAAAATAGTCAACAATTAC
51355 AATTACCTCT
Statistics
Matches: 105, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
142 103 0.98
143 2 0.02
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.30
Consensus pattern (142 bp):
TTGGTAAAGAATAGTCAACAATTACGACCACCTCTCTCAATCATCAAAGATTGATGAAGAATAGT
CAACAATTACAGCACCTCTCTTAATTGTCAAAGGTTAGTAAAAAATAGTCAACAATTACGTCCAC
CTCTCTTAAATA
Found at i:52657 original size:20 final size:21
Alignment explanation
Indices: 52619--52658 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
52609 AAAAAAATAT
*
52619 TTTTTTTAATTAATTATTTATA
1 TTTTTATAATTAA-TATTTATA
52641 TTTTTATAATTAA-ATTTA
1 TTTTTATAATTAATATTTA
52659 AATAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
22 12 0.71
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTATAATTAATATTTATA
Found at i:52669 original size:18 final size:17
Alignment explanation
Indices: 52648--52694 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
52638 ATATTTTTAT
52648 AATTAAATTTAAATAAAA
1 AATT-AATTTAAATAAAA
* *
52666 AATTATTTTAAATAATA
1 AATTAATTTAAATAAAA
*
52683 AA-TAATCTAAAT
1 AATTAATTTAAAT
52695 TTAACCAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 8 0.32
17 13 0.52
18 4 0.16
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (17 bp):
AATTAATTTAAATAAAA
Found at i:53361 original size:22 final size:22
Alignment explanation
Indices: 53324--53367 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
53314 TTAGTTTTAT
*
53324 TTAATTTATTTAAATTATTAAA
1 TTAATTTATTTAAATTAATAAA
53346 TTAA-TTATTTATAATTAATAAA
1 TTAATTTATTTA-AATTAATAAA
53368 AAATTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTAATTTATTTAAATTAATAAA
Found at i:53372 original size:21 final size:21
Alignment explanation
Indices: 53329--53374 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
53319 TTTATTTAAT
* *
53329 TTATTTAAATTATTAAATTAA
1 TTATTTAAATTAATAAATAAA
53350 TTATTTATAATTAATAAA-AAA
1 TTATTTA-AATTAATAAATAAA
53371 TTAT
1 TTAT
53375 AATTTATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 13 0.59
22 9 0.41
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTATTTAAATTAATAAATAAA
Found at i:53438 original size:21 final size:20
Alignment explanation
Indices: 53389--53477 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 20
53379 TATTTTTATA
*
53389 TTAATATTAATATAATTTATAAT
1 TTAAT-TTAA-ATAAATTA-AAT
*
53412 TAAATTTAAATAAATTAAAT
1 TTAATTTAAATAAATTAAAT
* *
53432 ATTAATTCAAATCAAACT-AAT
1 -TTAATTTAAAT-AAATTAAAT
* *
53453 TTAAATTTAAAAAAATTATAT
1 TT-AATTTAAATAAATTAAAT
53474 TTAA
1 TTAA
53478 AATTTAACTT
Statistics
Matches: 53, Mismatches: 9, Indels: 11
0.73 0.12 0.15
Matches are distributed among these distances:
20 11 0.21
21 30 0.57
22 8 0.15
23 4 0.08
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (20 bp):
TTAATTTAAATAAATTAAAT
Found at i:53478 original size:21 final size:21
Alignment explanation
Indices: 53405--53484 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
53395 TTAATATAAT
* *
53405 TTATAATTAAATTTAAATAAA
1 TTATATTTAAATTTAAAAAAA
* * *
53426 TTAAATATT-AATTCAAATCAAA
1 TTATAT-TTAAATTTAAA-AAAA
*
53448 CTA-ATTTAAATTTAAAAAAA
1 TTATATTTAAATTTAAAAAAA
53468 TTATATTTAAAATTTAA
1 TTATATTT-AAATTTAA
53485 CTTAATAAAT
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
20 7 0.15
21 24 0.52
22 15 0.33
ACGTcount: A:0.55, C:0.04, G:0.00, T:0.41
Consensus pattern (21 bp):
TTATATTTAAATTTAAAAAAA
Found at i:53521 original size:26 final size:25
Alignment explanation
Indices: 53492--53544 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
53482 TAACTTAATA
*
53492 AATTAAATTTATCAAATTAAATAAAT
1 AATTAAATTTAT-AAATAAAATAAAT
** *
53518 AATTTGATTTATAAATAAAATTAAT
1 AATTAAATTTATAAATAAAATAAAT
53543 AA
1 AA
53545 AAAAATTAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
AATTAAATTTATAAATAAAATAAAT
Found at i:55404 original size:13 final size:13
Alignment explanation
Indices: 55386--55439 Score: 60
Period size: 13 Copynumber: 4.2 Consensus size: 13
55376 ATATTTATTA
55386 TAATTATAAATAT
1 TAATTATAAATAT
55399 TAATTATAAATAT
1 TAATTATAAATAT
*
55412 T-ATTAATAAAAAT
1 TAATT-ATAAATAT
55425 T-ATTA-AAATTAT
1 TAATTATAAA-TAT
55437 TAA
1 TAA
55440 ATGATAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
11 3 0.08
12 7 0.19
13 26 0.72
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TAATTATAAATAT
Found at i:55413 original size:22 final size:21
Alignment explanation
Indices: 55388--55459 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 21
55378 ATTTATTATA
55388 ATTATAAATATTAATTATAAAT
1 ATTATAAATA-TAATTATAAAT
* *
55410 ATTATTAATAAAAATTATTAAA-
1 ATTATAAAT-ATAATTA-TAAAT
*
55432 ATTATTAAATGATAATCAT-AAT
1 ATTA-TAAAT-ATAATTATAAAT
55454 ATTATA
1 ATTATA
55460 TTATGAATAT
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
21 4 0.10
22 22 0.55
23 14 0.35
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (21 bp):
ATTATAAATATAATTATAAAT
Found at i:55880 original size:32 final size:32
Alignment explanation
Indices: 55810--55882 Score: 82
Period size: 32 Copynumber: 2.3 Consensus size: 32
55800 TTAAATTACT
*
55810 TTTTAA-A-TAATAAAAATATTTTTATTTAAA
1 TTTTAATATTAATAAAAATATATTTATTTAAA
*
55840 TTTAAATATTAATATAAAATA-ATTT-TTTAATA
1 TTTTAATATTAATA-AAAATATATTTATTTAA-A
55872 TTTTAATATTA
1 TTTTAATATTA
55883 TTTTAAATAG
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 5 0.14
31 6 0.17
32 19 0.53
33 6 0.17
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (32 bp):
TTTTAATATTAATAAAAATATATTTATTTAAA
Found at i:64698 original size:21 final size:21
Alignment explanation
Indices: 64659--64698 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
64649 ATTTAAAAAT
*
64659 TATTTTATATTAATTTTTATA
1 TATTTTATATTAATATTTATA
64680 TATTTTATAATTAA-ATTTA
1 TATTTTAT-ATTAATATTTA
64699 AATAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTATATTAATATTTATA
Found at i:64914 original size:239 final size:245
Alignment explanation
Indices: 64522--65132 Score: 1059
Period size: 239 Copynumber: 2.5 Consensus size: 245
64512 ATTGTGTGTT
64522 ATAAA-TAGATCATGATATACTCAATTAAAAAAATATAAAAATAAATAAATTAAACTGTTATACA
1 ATAAATTAGATCATGATATACTCAATTAAAAAAATATAAAAATAAATAAATTAAACTG-T-TACA
64586 CA-AAAGAGAAAATAATTTATGATTAAAGTTTC-AAAATTATAATTATTTAAAAAT-AAAATAAA
64 CATAAAGAGAAAATAATTTATGATTAAAGTTTCAAAAATTATAATTATTTAAAAATAAAAATAAA
64648 TATTTAAAAATTATTTTATATTAATTTTTATATATTTTATAATTAAATTTAAATAAAATATAA-T
129 TATTTAAAAATTATTTTATATTAATTTTTATATATTTTATAATTAAATTTAAATAAAATATAATT
64712 TTTT-TTATTATAGTAAATCGAATTGAATTGCTATTGTTTTCAAATT-AAAAA
194 TTTTATTA-TATAGTAAATCGAATTGAATTGCTATTGTTTTCAAATTAAAAAA
64763 ATAAATTAGATCATGATATACTCAATTAAAAAAATATAAAAA-AAA-AAATTAAACTG-TACACA
1 ATAAATTAGATCATGATATACTCAATTAAAAAAATATAAAAATAAATAAATTAAACTGTTACACA
64825 TAAA-AGAAAATAATTTATGATTAAAGTTTCAAAAATTATAATTATTTAAAAATAAAAATAAATA
66 TAAAGAGAAAATAATTTATGATTAAAGTTTCAAAAATTATAATTATTTAAAAATAAAAATAAATA
64889 TTTAAAAATTATTTTATATTAATTTTTATATATTTTATAATTAAATTTAAATAAAATATAATTTT
131 TTTAAAAATTATTTTATATTAATTTTTATATATTTTATAATTAAATTTAAATAAAATATAATTTT
64954 TTATTATATAGTAAATCGAATTGAATTGCTATTGTTTTCAAATTAAAAAA
196 TTATTATATAGTAAATCGAATTGAATTGCTATTGTTTTCAAATTAAAAAA
65004 ATAAATTAGATCATGATATACTCAATTAAAAAAATATAAAAATAAATAAATTAAACTGTTATACA
1 ATAAATTAGATCATGATATACTCAATTAAAAAAATATAAAAATAAATAAATTAAACTG-T-TACA
* *
65069 CATAAAAGAGAAAATAATTTATGATTAAAGTTTCAAAAAGTA-CA-TATTTAAAAATAAAAATAA
64 CAT-AAAGAGAAAATAATTTATGATTAAAGTTTCAAAAATTATAATTATTTAAAAATAAAAATAA
65132 A
128 A
65133 AATAAAAAAT
Statistics
Matches: 354, Mismatches: 2, Indels: 23
0.93 0.01 0.06
Matches are distributed among these distances:
237 32 0.09
238 25 0.07
239 71 0.20
240 54 0.15
241 58 0.16
242 39 0.11
243 11 0.03
246 27 0.08
247 4 0.01
248 33 0.09
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.38
Consensus pattern (245 bp):
ATAAATTAGATCATGATATACTCAATTAAAAAAATATAAAAATAAATAAATTAAACTGTTACACA
TAAAGAGAAAATAATTTATGATTAAAGTTTCAAAAATTATAATTATTTAAAAATAAAAATAAATA
TTTAAAAATTATTTTATATTAATTTTTATATATTTTATAATTAAATTTAAATAAAATATAATTTT
TTATTATATAGTAAATCGAATTGAATTGCTATTGTTTTCAAATTAAAAAA
Found at i:64937 original size:21 final size:21
Alignment explanation
Indices: 64898--64937 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
64888 ATTTAAAAAT
*
64898 TATTTTATATTAATTTTTATA
1 TATTTTATATTAATATTTATA
64919 TATTTTATAATTAA-ATTTA
1 TATTTTAT-ATTAATATTTA
64938 AATAAAATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTTTATATTAATATTTATA
Found at i:65134 original size:12 final size:13
Alignment explanation
Indices: 65117--65145 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
65107 AGTACATATT
65117 TAAAAAT-AAAAA
1 TAAAAATAAAAAA
65129 TAAAAATAAAAAA
1 TAAAAATAAAAAA
65142 TAAA
1 TAAA
65146 TATTGTATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 7 0.44
13 9 0.56
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
TAAAAATAAAAAA
Found at i:65530 original size:26 final size:26
Alignment explanation
Indices: 65501--65550 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
65491 AATCTTTTAG
65501 TTTTAAAAAATATATTT-TAAAATTAC
1 TTTTAAAAAAT-TATTTATAAAATTAC
**
65527 TTTTAAATCATTATTTATAAAATT
1 TTTTAAAAAATTATTTATAAAATT
65551 GAAATTTTCA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 5 0.24
26 16 0.76
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (26 bp):
TTTTAAAAAATTATTTATAAAATTAC
Found at i:65614 original size:2 final size:2
Alignment explanation
Indices: 65609--65646 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
65599 TTTACTAGTC
65609 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA -A TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
65647 ATTTTTTGAC
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:66275 original size:25 final size:22
Alignment explanation
Indices: 66247--66294 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 22
66237 AATATATTTT
*
66247 TATTTAAATTAAATAAATATATAAA
1 TATTTAAA-AAAATAAA-ATA-AAA
66272 TATTTAAAAAAATAAAATAAAA
1 TATTTAAAAAAATAAAATAAAA
66294 T
1 T
66295 TTTTTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 4 0.18
23 3 0.14
24 7 0.32
25 8 0.36
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TATTTAAAAAAATAAAATAAAA
Found at i:66324 original size:13 final size:14
Alignment explanation
Indices: 66300--66328 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
66290 AAAATTTTTT
66300 ATTAATTATGAATA
1 ATTAATTATGAATA
66314 ATTAA-TATGAATA
1 ATTAATTATGAATA
66327 AT
1 AT
66329 CTCAAAACGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
ATTAATTATGAATA
Found at i:66925 original size:252 final size:251
Alignment explanation
Indices: 66569--67072 Score: 705
Period size: 252 Copynumber: 2.0 Consensus size: 251
66559 CGACGTCGTT
* *
66569 CTCGACACAAATGTTTCTGTCTTATTTCTTTTTATTTTGTTATATAATAATATATTTTTGAAATA
1 CTCGACAAAAATGTTTATGTCTTATTTCTTTTTATTTTGTTATATAATAATATATTTTTGAAATA
* * * *
66634 GGTTATTGTTGTTAATAAAATTATTTAAGAGACAAATTAAATCAGATTACAATAAAAAAATTAAT
66 GGTTATTGTTGGTAATAAAAATATTTAAGAGAAAAATTAAATCAAATTACAATAAAAAAATT--T
* * * *
66699 T-TTTTTTATTTAAGCTTAGTCT-TGAATCGATTTGAAAAA-ATAAATTATTGTTCTTAAAATAA
129 TATTTTTTATGTAAACTTA--CTGTGAATCAATTT-AAAAATATAAATTACTGTTCTTAAAATAA
* *
66761 TAAAATACTTAAAAATTATCTTATACTAATTTTTATATATTTTATAATTAAATTTAAGTAAA
191 TAAAATACTTAAAAA-TATCTTATACTAATTTTTATATATTATATAATTAAATTTAAATAAA
66823 CTCGACAAAAATGTTTATGTCTTATTT-TTTTTATTTT-TTATATAATAATATATTTTTGAAATA
1 CTCGACAAAAATGTTTATGTCTTATTTCTTTTTATTTTGTTATATAATAATATATTTTTGAAATA
* * *
66886 GGCTT-TTGTTGGTACTAAAAATATTTATGAGAAAAATTAAATCAAATTATAATAAAAAAATTTT
66 GG-TTATTGTTGGTAATAAAAATATTTAAGAGAAAAATTAAATCAAATTACAATAAAAAAATTTT
* * *
66950 AATTTTTTATGTAAATTTACTGTGAATCAATTTAAAAATATGAATTACTGTTCTTAAAGTAATAA
130 -ATTTTTTATGTAAACTTACTGTGAATCAATTTAAAAATATAAATTACTGTTCTTAAAATAATAA
* * *
67015 AATATTTAAAAATATTTTATATTAATTTTTATATATTATATAATTAAATTTAAATAAA
194 AATACTTAAAAATATCTTATACTAATTTTTATATATTATATAATTAAATTTAAATAAA
67073 AAATATTTTT
Statistics
Matches: 224, Mismatches: 21, Indels: 14
0.86 0.08 0.05
Matches are distributed among these distances:
250 51 0.23
251 44 0.20
252 92 0.41
253 12 0.05
254 25 0.11
ACGTcount: A:0.42, C:0.06, G:0.07, T:0.46
Consensus pattern (251 bp):
CTCGACAAAAATGTTTATGTCTTATTTCTTTTTATTTTGTTATATAATAATATATTTTTGAAATA
GGTTATTGTTGGTAATAAAAATATTTAAGAGAAAAATTAAATCAAATTACAATAAAAAAATTTTA
TTTTTTATGTAAACTTACTGTGAATCAATTTAAAAATATAAATTACTGTTCTTAAAATAATAAAA
TACTTAAAAATATCTTATACTAATTTTTATATATTATATAATTAAATTTAAATAAA
Found at i:67457 original size:20 final size:18
Alignment explanation
Indices: 67426--67477 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 18
67416 TTATTTGATG
67426 TATTTTTTAAAAATATATT
1 TATTTTTTAAAAAT-TATT
67445 TATTTTTTAAAAATTATT
1 TATTTTTTAAAAATTATT
*
67463 CACTTCTTTTAAAAA
1 TA-TT-TTTTAAAAA
67478 AACTACTACA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 5 0.17
19 16 0.53
20 9 0.30
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.54
Consensus pattern (18 bp):
TATTTTTTAAAAATTATT
Found at i:69566 original size:17 final size:16
Alignment explanation
Indices: 69544--69585 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
69534 TATTCGATAC
69544 TTAAATATTTTAAAAT
1 TTAAATATTTTAAAAT
69560 ATTAAATA-TTTAAAAT
1 -TTAAATATTTTAAAAT
*
69576 TTAAAAATTT
1 TTAAATATTT
69586 ATATTTACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
15 6 0.26
16 10 0.43
17 7 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
TTAAATATTTTAAAAT
Found at i:69585 original size:15 final size:16
Alignment explanation
Indices: 69552--69586 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
69542 ACTTAAATAT
*
69552 TTTAAAATATTAAATA
1 TTTAAAATATTAAAAA
69568 TTTAAAAT-TTAAAAA
1 TTTAAAATATTAAAAA
69583 TTTA
1 TTTA
69587 TATTTACATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.56
16 8 0.44
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
TTTAAAATATTAAAAA
Found at i:84053 original size:23 final size:24
Alignment explanation
Indices: 84022--84082 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 24
84012 TTCATCGACT
84022 TATAA-TAAATTATATTTAT-ATA
1 TATAATTAAATTATATTTATGATA
* *
84044 TATATTTAAA-TGTATTTATGATA
1 TATAATTAAATTATATTTATGATA
*
84067 TATAATTAATTTATAT
1 TATAATTAAATTATAT
84083 AAATAACTTT
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
22 12 0.39
23 15 0.48
24 4 0.13
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.52
Consensus pattern (24 bp):
TATAATTAAATTATATTTATGATA
Found at i:85010 original size:23 final size:22
Alignment explanation
Indices: 84977--85019 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
84967 AAAAATTAAA
84977 ATATTTTTAT-ATTAATATTTCT
1 ATATTTTTATAATTAA-ATTTCT
84999 ATATATTTTATAATTAAATTT
1 ATAT-TTTTATAATTAAATTT
85020 AAATAAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 4 0.21
23 10 0.53
24 5 0.26
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTTTATAATTAAATTTCT
Found at i:85411 original size:7 final size:7
Alignment explanation
Indices: 85399--85423 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
85389 AGCCTCCGGG
85399 GTCACGA
1 GTCACGA
85406 GTCACGA
1 GTCACGA
85413 GTCACGA
1 GTCACGA
85420 GTCA
1 GTCA
85424 TATTTGTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (7 bp):
GTCACGA
Found at i:85972 original size:20 final size:21
Alignment explanation
Indices: 85935--85973 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
85925 TTTAAAATTT
85935 TATTTTTAATTAATATTTATA
1 TATTTTTAATTAATATTTATA
85956 TATTTTATAA-TAA-ATTTA
1 TATTTT-TAATTAATATTTA
85974 AATAAAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.29
21 9 0.53
22 3 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TATTTTTAATTAATATTTATA
Found at i:86421 original size:2 final size:2
Alignment explanation
Indices: 86414--86458 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
86404 ATAGCTGCTT
86414 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
86456 TA T
1 TA T
86459 TCAACTTTTG
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:87391 original size:2 final size:2
Alignment explanation
Indices: 87384--87409 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
87374 TCAACATAAC
87384 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
87410 GGTTGAGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:87804 original size:20 final size:19
Alignment explanation
Indices: 87781--87825 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
87771 GTTAAAATTT
* *
87781 ATATAATACAGTTATTATTA
1 ATATAATAAAATTATTA-TA
*
87801 ATATATTAAAATTATTATA
1 ATATAATAAAATTATTATA
87820 ATATAA
1 ATATAA
87826 ATATTATATA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (19 bp):
ATATAATAAAATTATTATA
Found at i:87823 original size:17 final size:19
Alignment explanation
Indices: 87793--87842 Score: 63
Period size: 17 Copynumber: 2.8 Consensus size: 19
87783 ATAATACAGT
87793 TATTATTA-ATATATTAAA
1 TATTATTATATATATTAAA
87811 -ATTATTATA-ATA-TAAA
1 TATTATTATATATATTAAA
87827 TATTATATATATATAT
1 TATTAT-TATATATAT
87843 ATATGCATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 8
0.77 0.00 0.23
Matches are distributed among these distances:
16 4 0.15
17 15 0.56
18 5 0.19
19 3 0.11
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTATTATATATATTAAA
Found at i:88320 original size:14 final size:14
Alignment explanation
Indices: 88301--88397 Score: 63
Period size: 14 Copynumber: 6.6 Consensus size: 14
88291 TTTCTTTATT
88301 AATTAAATATATAA
1 AATTAAATATATAA
* *
88315 AATTAATTTCTATAA
1 AATTAA-ATATATAA
88330 AATTAATTATATATAA
1 AATTAA--ATATATAA
* *
88346 AAGTAAATAGAT-A
1 AATTAAATATATAA
* *
88359 AATACAAAAATA-AA
1 AAT-TAAATATATAA
*
88373 AATAAAATATATAA
1 AATTAAATATATAA
88387 TAATATAAATA
1 -AAT-TAAATA
88398 AATTAGTAAA
Statistics
Matches: 63, Mismatches: 13, Indels: 12
0.72 0.15 0.14
Matches are distributed among these distances:
13 9 0.14
14 22 0.35
15 15 0.24
16 17 0.27
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (14 bp):
AATTAAATATATAA
Found at i:88330 original size:15 final size:16
Alignment explanation
Indices: 88307--88347 Score: 66
Period size: 15 Copynumber: 2.6 Consensus size: 16
88297 TATTAATTAA
88307 ATATATAAAATTAATT
1 ATATATAAAATTAATT
*
88323 -TCTATAAAATTAATT
1 ATATATAAAATTAATT
88338 ATATATAAAA
1 ATATATAAAA
88348 GTAAATAGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 14 0.64
16 8 0.36
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
ATATATAAAATTAATT
Found at i:88573 original size:27 final size:27
Alignment explanation
Indices: 88522--88574 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
88512 TTACGTAAAT
*
88522 ATATAATAATTATATATATATATTTTA
1 ATATAATAATTATATATATAAATTTTA
88549 ATATAAT-ATCTATA-ATAGTAAATTTT
1 ATATAATAAT-TATATATA-TAAATTTT
88575 CATTCTTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
26 5 0.22
27 18 0.78
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (27 bp):
ATATAATAATTATATATATAAATTTTA
Found at i:89002 original size:3 final size:3
Alignment explanation
Indices: 88994--89031 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
88984 TAATTTGGAT
88994 ATA ATA ATA ATA ATA ATA AT- ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
89032 TAAGGTGTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:89015 original size:20 final size:20
Alignment explanation
Indices: 88992--89031 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
88982 CTTAATTTGG
88992 ATATAATAATAATAATAATA
1 ATATAATAATAATAATAATA
89012 ATATAATAATAATAATAATA
1 ATATAATAATAATAATAATA
89032 TAAGGTGTTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
ATATAATAATAATAATAATA
Found at i:89017 original size:17 final size:17
Alignment explanation
Indices: 88997--89034 Score: 76
Period size: 17 Copynumber: 2.2 Consensus size: 17
88987 TTTGGATATA
88997 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
89014 ATAATAATAATAATAAT
1 ATAATAATAATAATAAT
89031 ATAA
1 ATAA
89035 GGTGTTGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (17 bp):
ATAATAATAATAATAAT
Found at i:89304 original size:5 final size:6
Alignment explanation
Indices: 89287--89311 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
89277 TATGGACGAA
89287 TATTTT TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT TATTTT T
89312 TTGAGATTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TATTTT
Found at i:89541 original size:22 final size:21
Alignment explanation
Indices: 89513--89579 Score: 64
Period size: 22 Copynumber: 3.0 Consensus size: 21
89503 TCGAATCAGA
89513 TTAAATTATAATTTAAATTTT
1 TTAAATTATAATTTAAATTTT
* *
89534 TTAAAATTTTATATTTAAGTTTAT
1 TT-AAATTATA-ATTTAAATTT-T
*
89558 ATTAAATTA-AATTTAAAATTT
1 -TTAAATTATAATTTAAATTTT
89579 T
1 T
89580 ATTTTATTAT
Statistics
Matches: 37, Mismatches: 5, Indels: 9
0.73 0.10 0.18
Matches are distributed among these distances:
20 1 0.03
21 3 0.08
22 15 0.41
23 10 0.27
24 6 0.16
25 2 0.05
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (21 bp):
TTAAATTATAATTTAAATTTT
Found at i:89558 original size:36 final size:34
Alignment explanation
Indices: 89525--89617 Score: 88
Period size: 34 Copynumber: 2.8 Consensus size: 34
89515 AAATTATAAT
*
89525 TTAAATT-TTTTAAAATTTTATATTTAAGTTTATA
1 TTAAATTAATTTAAAATTTTAT-TTTAAGTTTATA
*
89559 TTAAATTAAATTTAAAATTTTATTTT-A-TTATTTA
1 TTAAATT-AATTTAAAATTTTATTTTAAGTT-TATA
* *
89593 TTATATT-A-TTAAAATATTATTTTAA
1 TTAAATTAATTTAAAATTTTATTTTAA
89618 TATTAATATT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
31 14 0.27
32 2 0.04
33 2 0.04
34 17 0.33
35 3 0.06
36 13 0.25
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.58
Consensus pattern (34 bp):
TTAAATTAATTTAAAATTTTATTTTAAGTTTATA
Found at i:89632 original size:23 final size:22
Alignment explanation
Indices: 89606--89674 Score: 70
Period size: 23 Copynumber: 3.1 Consensus size: 22
89596 TATTATTAAA
89606 ATATTATTTTAATATTAATATTT
1 ATATTATTTTAATATTAA-ATTT
**
89629 ATA-TATTTTTTTTATTAAATTT
1 ATATTA-TTTTAATATTAAATTT
* *
89651 AAATTAATTTAAT-TTAAATTT
1 ATATTATTTTAATATTAAATTT
89672 ATA
1 ATA
89675 AAAATTTTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
21 10 0.27
22 12 0.32
23 15 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
ATATTATTTTAATATTAAATTT
Found at i:89689 original size:21 final size:20
Alignment explanation
Indices: 89638--89695 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
89628 TATATATTTT
*
89638 TTTTATTAAATTTAAATTAA
1 TTTTATTAAATTTAAATAAA
*
89658 TTTAATTTAAATTTATAA-AAA
1 TTTTA-TTAAATTTA-AATAAA
89679 TTTTATCTAAAATTTAA
1 TTTTAT-T-AAATTTAA
89696 TTAATACAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 5 0.16
21 17 0.55
22 9 0.29
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TTTTATTAAATTTAAATAAA
Found at i:91337 original size:10 final size:11
Alignment explanation
Indices: 91311--91348 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
91301 ATAAAAATTG
*
91311 ATTTTATATTA
1 ATTTTTTATTA
91322 ATTTTTTATT-
1 ATTTTTTATTA
91332 A-TTTTTATTA
1 ATTTTTTATTA
91342 ATTTTTT
1 ATTTTTT
91349 TAAATAATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
9 8 0.33
10 2 0.08
11 14 0.58
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (11 bp):
ATTTTTTATTA
Found at i:91338 original size:9 final size:10
Alignment explanation
Indices: 91311--91351 Score: 50
Period size: 9 Copynumber: 4.1 Consensus size: 10
91301 ATAAAAATTG
91311 ATTTTATATTA
1 ATTTT-TATTA
91322 ATTTTTTATT-
1 A-TTTTTATTA
91332 ATTTTTATTA
1 ATTTTTATTA
91342 ATTTTT-TTA
1 ATTTTTATTA
91351 A
1 A
91352 ATAATAAGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 12 0.43
10 7 0.25
11 5 0.18
12 4 0.14
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:91426 original size:23 final size:23
Alignment explanation
Indices: 91400--91462 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 23
91390 TAAAGACATA
91400 TAATAAAATAAATTATATATTTT
1 TAATAAAATAAATTATATATTTT
*
91423 TAAT-AAAT--ATTAT-TATATT
1 TAATAAAATAAATTATATATTTT
**
91442 TAATATTA-AAATTATATATTT
1 TAATAAAATAAATTATATATTT
91463 AAATTTTAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
19 9 0.28
20 6 0.19
21 5 0.16
22 8 0.25
23 4 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TAATAAAATAAATTATATATTTT
Found at i:91461 original size:20 final size:20
Alignment explanation
Indices: 91409--91464 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
91399 ATAATAAAAT
*
91409 AAATTATATATTT-TTAATA
1 AAATTATATATTTAATAATA
*
91428 AATATTATTATATTTAATATTA
1 AA-ATTA-TATATTTAATAATA
91450 AAATTATATATTTAA
1 AAATTATATATTTAA
91465 ATTTTAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
19 2 0.06
20 13 0.41
21 11 0.34
22 6 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AAATTATATATTTAATAATA
Found at i:92082 original size:20 final size:18
Alignment explanation
Indices: 92057--92102 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 18
92047 AAAAATTTTA
92057 ATAATTTATATATTTATATT
1 ATAA-TTATATATTT-TATT
92077 ATAATTATATATTTTATT
1 ATAATTATATATTTTATT
92095 AT-ATTATA
1 ATAATTATA
92103 ATTATATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.23
18 6 0.23
19 10 0.38
20 4 0.15
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATAATTATATATTTTATT
Found at i:92084 original size:11 final size:11
Alignment explanation
Indices: 92057--92145 Score: 60
Period size: 11 Copynumber: 8.3 Consensus size: 11
92047 AAAAATTTTA
92057 ATAATT-TA-T
1 ATAATTATATT
*
92066 ATATTTATATT
1 ATAATTATATT
92077 ATAATTATATAT
1 ATAATTATAT-T
* *
92089 TTTATTATATT
1 ATAATTATATT
92100 ATAATTATATT
1 ATAATTATATT
*
92111 TTAA--ATATT
1 ATAATTATATT
* * *
92120 TTATTTATAAT
1 ATAATTATATT
*
92131 AAAATTATAATT
1 ATAATTAT-ATT
92143 ATA
1 ATA
92146 TATAAAATTT
Statistics
Matches: 60, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
9 13 0.22
10 2 0.03
11 32 0.53
12 13 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
ATAATTATATT
Found at i:92150 original size:18 final size:18
Alignment explanation
Indices: 92097--92154 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
92087 ATTTTATTAT
*
92097 ATTATAATTATATTTTAAA
1 ATTATAATTATA-TATAAA
* *
92116 TATTTTATTTATA-ATAAA
1 -ATTATAATTATATATAAA
92134 ATTATAATTATATATAAA
1 ATTATAATTATATATAAA
92152 ATT
1 ATT
92155 TCAAAATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
17 10 0.31
18 12 0.38
20 10 0.31
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
ATTATAATTATATATAAA
Done.