Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2200
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: 114701
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.37
File 1 of 2
Found at i:2843 original size:19 final size:19
Alignment explanation
Indices: 2818--2875 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
2808 GGTGTTGATC
2818 TTAAATATAATAT-AATTA
1 TTAAATATAATATAAATTA
* **
2836 TCTAAATATGATATAAAAAA
1 T-TAAATATAATATAAATTA
2856 TTAAATATAATATAAATTA
1 TTAAATATAATATAAATTA
2875 T
1 T
2876 ATAACTATTT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
18 1 0.03
19 27 0.84
20 4 0.12
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (19 bp):
TTAAATATAATATAAATTA
Found at i:2901 original size:32 final size:31
Alignment explanation
Indices: 2860--2933 Score: 89
Period size: 32 Copynumber: 2.4 Consensus size: 31
2850 AAAAAATTAA
* *
2860 ATATAATATAAATTATATAACTATTTTAAA-AT
1 ATATAATATAAATAAT-TAA-TAATTTAAATAT
*
2892 ATATAATATAAATAATTAATAATTTAAATTT
1 ATATAATATAAATAATTAATAATTTAAATAT
2923 ATATAA-ATAAA
1 ATATAATATAAA
2934 AAATATTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
30 13 0.34
31 10 0.26
32 15 0.39
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (31 bp):
ATATAATATAAATAATTAATAATTTAAATAT
Found at i:2918 original size:30 final size:33
Alignment explanation
Indices: 2860--2939 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 33
2850 AAAAAATTAA
* *
2860 ATATAATATAAATTATATAACTATTTTAAA-AT
1 ATATAATATAAATAATATAACTAATTTAAATAT
*
2892 ATATAATATAAATAAT-TAA-TAATTTAAATTT
1 ATATAATATAAATAATATAACTAATTTAAATAT
*
2923 ATATAA-ATAAAAAATAT
1 ATATAATATAAATAATAT
2940 TTTAAACGTA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 16 0.38
31 11 0.26
32 15 0.36
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (33 bp):
ATATAATATAAATAATATAACTAATTTAAATAT
Found at i:3923 original size:17 final size:17
Alignment explanation
Indices: 3886--3929 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
3876 AATCTTTAAG
*
3886 ATTTAAAAATAAATAAT
1 ATTTAATAATAAATAAT
*
3903 ATTTTATAATAAAT-AT
1 ATTTAATAATAAATAAT
3919 AATTTAATAAT
1 -ATTTAATAAT
3930 TTTTATATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
16 2 0.09
17 21 0.91
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
ATTTAATAATAAATAAT
Found at i:3954 original size:25 final size:27
Alignment explanation
Indices: 3891--3957 Score: 77
Period size: 25 Copynumber: 2.6 Consensus size: 27
3881 TTAAGATTTA
3891 AAAATA-AATAATATTTTATAATAAAT
1 AAAATATAATAATATTTTATAATAAAT
* * *
3917 ATAATTTAATAAT-TTTTAT-ATTAAT
1 AAAATATAATAATATTTTATAATAAAT
*
3942 AAAATATATTAATATT
1 AAAATATAATAATATT
3958 AAACATATCT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 15 0.45
26 12 0.36
27 6 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (27 bp):
AAAATATAATAATATTTTATAATAAAT
Found at i:5556 original size:2 final size:2
Alignment explanation
Indices: 5549--5585 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
5539 TAGTTTCTTT
* *
5549 TA TA TA TA TA TA TA TA TA TA TA AA TA TA TA AA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5586 GCATGTATTG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:7362 original size:16 final size:16
Alignment explanation
Indices: 7332--7424 Score: 73
Period size: 16 Copynumber: 5.8 Consensus size: 16
7322 GATAATAAAT
7332 TTAAATTTAAAAATAAC
1 TTAAATTT-AAAATAAC
* *
7349 TTAAACTTAAAATAAT
1 TTAAATTTAAAATAAC
* **
7365 TTAAATTTATAAT-GT
1 TTAAATTTAAAATAAC
7380 TCTAAATTTAAAATAAC
1 T-TAAATTTAAAATAAC
* *
7397 TTAATTTTGAAATAA-
1 TTAAATTTAAAATAAC
*
7412 TATAAACTTAAAA
1 T-TAAATTTAAAA
7425 GGCCTAACAA
Statistics
Matches: 60, Mismatches: 13, Indels: 7
0.75 0.16 0.09
Matches are distributed among these distances:
15 3 0.05
16 49 0.82
17 8 0.13
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (16 bp):
TTAAATTTAAAATAAC
Found at i:7695 original size:8 final size:8
Alignment explanation
Indices: 7682--7707 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
7672 TAAATTTAAA
7682 AAAAATTT
1 AAAAATTT
7690 AAAAATTT
1 AAAAATTT
7698 AAAAATTT
1 AAAAATTT
7706 AA
1 AA
7708 TTTAAATTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (8 bp):
AAAAATTT
Found at i:9177 original size:25 final size:25
Alignment explanation
Indices: 9134--9191 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
9124 TTTTTTATCG
*
9134 ATTAAAA-TAAATTTTTTAATT-TA
1 ATTAAAATTAAATTTATTAATTATA
9157 ATTAAAATTAAAATTTATTAATTATA
1 ATTAAAATT-AAATTTATTAATTATA
*
9183 AGTAAAATT
1 ATTAAAATT
9192 TTGATAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
23 7 0.23
24 1 0.03
25 12 0.40
26 10 0.33
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.47
Consensus pattern (25 bp):
ATTAAAATTAAATTTATTAATTATA
Found at i:9179 original size:20 final size:20
Alignment explanation
Indices: 9154--9192 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9144 ATTTTTTAAT
*
9154 TTAATTAAAATTAAAATTTA
1 TTAATTAAAAGTAAAATTTA
*
9174 TTAATTATAAGTAAAATTT
1 TTAATTAAAAGTAAAATTT
9193 TGATAAATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (20 bp):
TTAATTAAAAGTAAAATTTA
Found at i:9234 original size:107 final size:108
Alignment explanation
Indices: 9058--9281 Score: 252
Period size: 107 Copynumber: 2.1 Consensus size: 108
9048 TGATTAACTC
* * * ** *
9058 AAAATGTTATTAATTAAAAATAAAATTTTTAAAAATATATAATCGATTTTTATTAGTTCAATATG
1 AAAAT-TTATTAATTAAAAATAAAATTTTGAAAAATATATAATCAATTTTTATTAATAAAATATA
* * *
9123 ATTTTTTATCGATTAAAATAAATTTT-TTAATTTAATTAAAATT
65 ATTTTTAATCAATTAAAATAAATTTTATTAATTTAACTAAAATT
* * * * *
9166 AAAATTTATTAATTATAAGTAAAATTTTGATAAATATGTAATCAATTTTTATTAATAAAATTTAA
1 AAAATTTATTAATTAAAAATAAAATTTTGAAAAATATATAATCAATTTTTATTAATAAAATATAA
* * * * *
9231 TTTTTAATTAATTAAATTAATTTTTATTGATTTAACTAATATT
66 TTTTTAATCAATTAAAATAAATTTTATTAATTTAACTAAAATT
*
9274 AAATTTTA
1 AAAATTTA
9282 ATAACTGGAC
Statistics
Matches: 95, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
107 69 0.73
108 26 0.27
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (108 bp):
AAAATTTATTAATTAAAAATAAAATTTTGAAAAATATATAATCAATTTTTATTAATAAAATATAA
TTTTTAATCAATTAAAATAAATTTTATTAATTTAACTAAAATT
Found at i:9265 original size:20 final size:20
Alignment explanation
Indices: 9209--9258 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
9199 ATATGTAATC
*
9209 AATTTTTATTAATAAAATTT
1 AATTTTTATTAATTAAATTT
9229 AATTTTTAATTAATTAAA-TT
1 AATTTTT-ATTAATTAAATTT
9249 AATTTTTATT
1 AATTTTTATT
9259 GATTTAACTA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 3 0.11
20 16 0.57
21 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AATTTTTATTAATTAAATTT
Found at i:9270 original size:19 final size:20
Alignment explanation
Indices: 9209--9270 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
9199 ATATGTAATC
* *
9209 AATTTTT-ATTAATAAAATTT
1 AATTTTTAATTAATTAAA-CT
*
9229 AATTTTTAATTAATTAAATT
1 AATTTTTAATTAATTAAACT
* *
9249 AATTTTT-ATTGATTTAACT
1 AATTTTTAATTAATTAAACT
9268 AAT
1 AAT
9271 ATTAAATTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
19 12 0.32
20 16 0.43
21 9 0.24
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (20 bp):
AATTTTTAATTAATTAAACT
Found at i:9499 original size:26 final size:24
Alignment explanation
Indices: 9440--9503 Score: 74
Period size: 26 Copynumber: 2.5 Consensus size: 24
9430 GTTATGATTG
**
9440 TTTTATTATATTATTTTTAATGAA
1 TTTTATTATATTATTTTTAAAAAA
9464 TTTATCATTATATTATTTTTTAAAAAAA
1 TTT-T-ATTATATTA-TTTTT-AAAAAA
9492 TTTTATTATATT
1 TTTTATTATATT
9504 TTTAATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 3 0.09
25 1 0.03
26 17 0.50
27 6 0.18
28 7 0.21
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTTATTATATTATTTTTAAAAAA
Found at i:9500 original size:21 final size:21
Alignment explanation
Indices: 9474--9528 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
9464 TTTATCATTA
9474 TATTATTTTTTAAAAAAATTT
1 TATTATTTTTTAAAAAAATTT
**
9495 TATTATATTTTT-AATTAATTT
1 TATTAT-TTTTTAAAAAAATTT
9516 T-TTA-TTTTTAAAA
1 TATTATTTTTTAAAA
9529 TTTATTAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
18 5 0.17
19 2 0.07
20 3 0.10
21 14 0.48
22 5 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TATTATTTTTTAAAAAAATTT
Found at i:9540 original size:18 final size:18
Alignment explanation
Indices: 9488--9540 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
9478 ATTTTTTAAA
9488 AAAATTTTATTATATTTTT
1 AAAA-TTTATTATATTTTT
9507 AATTAATTT-TT-TATTTTT
1 AA--AATTTATTATATTTTT
*
9525 AAAATTTATTAAATTT
1 AAAATTTATTATATTT
9541 AGGTTAATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
16 5 0.17
17 2 0.07
18 13 0.45
19 4 0.14
20 3 0.10
21 2 0.07
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
AAAATTTATTATATTTTT
Found at i:10934 original size:16 final size:16
Alignment explanation
Indices: 10915--10956 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
10905 TTATTCATTA
10915 ATTTTTTTA-AAAATAT
1 ATTTTTTTATAAAAT-T
**
10931 ATTTTTAAATAAAATT
1 ATTTTTTTATAAAATT
10947 ATTTTTTTAT
1 ATTTTTTTAT
10957 TTATATAATG
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATTTTTTTATAAAATT
Found at i:15331 original size:18 final size:18
Alignment explanation
Indices: 15275--15332 Score: 64
Period size: 18 Copynumber: 3.1 Consensus size: 18
15265 AAGTTTGACT
15275 TAAAATATTATATAATT-A
1 TAAAA-ATTATATAATTAA
*
15293 TAAAAATATATAAATATTAA
1 TAAAAAT-TATATA-ATTAA
*
15313 TAAAAATTATTTAATTAA
1 TAAAAATTATATAATTAA
15331 TA
1 TA
15333 TTTAAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 2 0.06
18 17 0.50
19 7 0.21
20 8 0.24
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TAAAAATTATATAATTAA
Found at i:15363 original size:22 final size:22
Alignment explanation
Indices: 15313--15366 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
15303 TAAATATTAA
15313 TAAA-AATTATTTAATTAATATT
1 TAAATAATT-TTTAATTAATATT
15335 TAAATAATTTTTAA-TAAT-TT
1 TAAATAATTTTTAATTAATATT
15355 TAATCATAATTT
1 TAA--ATAATTT
15367 GAATTTACAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
20 5 0.17
21 4 0.14
22 16 0.55
23 4 0.14
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (22 bp):
TAAATAATTTTTAATTAATATT
Found at i:17776 original size:2 final size:2
Alignment explanation
Indices: 17769--17798 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
17759 TTCAAATTAA
17769 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
17799 GTATTCAGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19984 original size:6 final size:6
Alignment explanation
Indices: 19973--20012 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
19963 GTAGACTCAG
19973 AAAATA AAAAT- AAAATA AAAATA AAAATAA CAAAATA AAA
1 AAAATA AAAATA AAAATA AAAATA AAAAT-A -AAAATA AAA
20013 CTTAAATCTT
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
5 5 0.16
6 19 0.61
7 2 0.06
8 5 0.16
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAATA
Found at i:19989 original size:11 final size:11
Alignment explanation
Indices: 19973--20012 Score: 53
Period size: 11 Copynumber: 3.4 Consensus size: 11
19963 GTAGACTCAG
19973 AAAATAAAAAT
1 AAAATAAAAAT
19984 AAAATAAAAAT
1 AAAATAAAAAT
19995 AAAAATAACAAAAT
1 -AAAAT-A-AAAAT
20009 AAAA
1 AAAA
20013 CTTAAATCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 11 0.42
12 5 0.19
13 5 0.19
14 5 0.19
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:20974 original size:21 final size:24
Alignment explanation
Indices: 20945--20989 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 24
20935 TAACGTTCAT
20945 GTAATAATAACA-ATA-ATATATA
1 GTAATAATAACATATATATATATA
*
20967 GTAA-AATAAGATATATATATATA
1 GTAATAATAACATATATATATATA
20990 TGTATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 7 0.35
23 7 0.35
ACGTcount: A:0.58, C:0.02, G:0.07, T:0.33
Consensus pattern (24 bp):
GTAATAATAACATATATATATATA
Found at i:20997 original size:12 final size:12
Alignment explanation
Indices: 20980--21004 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20970 AAATAAGATA
20980 TATATATATATG
1 TATATATATATG
20992 TATATATATATG
1 TATATATATATG
21004 T
1 T
21005 TTGCTTTAAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.08, T:0.52
Consensus pattern (12 bp):
TATATATATATG
Found at i:21330 original size:29 final size:30
Alignment explanation
Indices: 21268--21331 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 30
21258 TTATATAGCT
* * *
21268 TTTAACTTTTAATTTTTAGGTAAATAAACT
1 TTTAACCTTTAATTTATAGGTAAATAAACC
* *
21298 TTTAACCTTTAATTTATA-TTAAATAAGCC
1 TTTAACCTTTAATTTATAGGTAAATAAACC
21327 TTTAA
1 TTTAA
21332 TTTAAATTAG
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (30 bp):
TTTAACCTTTAATTTATAGGTAAATAAACC
Found at i:23924 original size:22 final size:22
Alignment explanation
Indices: 23899--23943 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 22
23889 AATTTCAAGT
23899 TCGAGTCAATT-AAGTTTAATAC
1 TCGAGTCAATTGAA-TTTAATAC
*
23921 TCGAGTTAATTGAATTTAATAC
1 TCGAGTCAATTGAATTTAATAC
23943 T
1 T
23944 TGAACTAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 19 0.90
23 2 0.10
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (22 bp):
TCGAGTCAATTGAATTTAATAC
Found at i:25713 original size:19 final size:18
Alignment explanation
Indices: 25656--25716 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
25646 AATAATAAAA
25656 ATTTAAAA-TTATTTTAT
1 ATTTAAAATTTATTTTAT
* * *
25673 A-TTAATATTTATAATTAA
1 ATTTAAAATTTAT-TTTAT
25691 ATTTAAAATTTATTTTATT
1 ATTTAAAATTTATTTTA-T
25710 ATTTAAA
1 ATTTAAA
25717 TAATAATTTA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 5 0.15
17 5 0.15
18 7 0.21
19 17 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
ATTTAAAATTTATTTTAT
Found at i:25713 original size:31 final size:31
Alignment explanation
Indices: 25668--25727 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
25658 TTAAAATTAT
*
25668 TTTATATTAATATTTATAATTA-AATTTAAAA
1 TTTATATTAATATTTA-AATAATAATTTAAAA
* *
25699 TTTATTTTATTATTTAAATAATAATTTAA
1 TTTATATTAATATTTAAATAATAATTTAA
25728 CTAAATCAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 4 0.16
31 21 0.84
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (31 bp):
TTTATATTAATATTTAAATAATAATTTAAAA
Found at i:25723 original size:36 final size:33
Alignment explanation
Indices: 25645--25724 Score: 92
Period size: 36 Copynumber: 2.3 Consensus size: 33
25635 CTATTCAAAA
25645 AAATAATAA--AAATTTAAAATTATTTTATATT
1 AAATAATAATTAAATTTAAAATTATTTTATATT
*
25676 AATATTTATAATTAAATTTAAAATTTATTTTATTATTT
1 AA-A-TAATAATTAAATTTAAAA-TTATTTTA-TA-TT
25714 AAATAATAATT
1 AAATAATAATT
25725 TAACTAAATC
Statistics
Matches: 40, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
31 2 0.05
32 1 0.03
33 5 0.12
35 10 0.25
36 15 0.38
37 3 0.08
38 4 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (33 bp):
AAATAATAATTAAATTTAAAATTATTTTATATT
Found at i:25762 original size:30 final size:31
Alignment explanation
Indices: 25712--25779 Score: 79
Period size: 30 Copynumber: 2.2 Consensus size: 31
25702 ATTTTATTAT
25712 TTAAATAATAATTTAACTAAA-TCAATTCAA
1 TTAAATAATAATTTAACTAAATTCAATTCAA
*
25742 TTAAA-AA-AATTTATACCTAAATTCAATTTAA
1 TTAAATAATAATTTA-A-CTAAATTCAATTCAA
25773 TATAAAT
1 T-TAAAT
25780 TAAATATCAA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
28 6 0.19
29 3 0.09
30 10 0.31
31 9 0.28
32 4 0.12
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (31 bp):
TTAAATAATAATTTAACTAAATTCAATTCAA
Found at i:29126 original size:16 final size:16
Alignment explanation
Indices: 29105--29140 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
29095 ATTCAAATTG
* *
29105 AAATAATTTAAATTTA
1 AAATAATCTAAACTTA
29121 AAATAATCTAAACTTA
1 AAATAATCTAAACTTA
29137 AAAT
1 AAAT
29141 GATTCAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.36
Consensus pattern (16 bp):
AAATAATCTAAACTTA
Found at i:31618 original size:12 final size:12
Alignment explanation
Indices: 31562--31625 Score: 50
Period size: 11 Copynumber: 5.8 Consensus size: 12
31552 TTAATTATAA
31562 AATAT-ATAAAT
1 AATATAATAAAT
*
31573 -ATA-AAT-ATT
1 AATATAATAAAT
31582 AATATAA-AAAT
1 AATATAATAAAT
* *
31593 AATA-ATTTAAT
1 AATATAATAAAT
31604 AATATAATAAAT
1 AATATAATAAAT
*
31616 AATAAAATAA
1 AATATAATAA
31626 TCTTTCGAGT
Statistics
Matches: 40, Mismatches: 7, Indels: 11
0.69 0.12 0.19
Matches are distributed among these distances:
9 2 0.05
10 9 0.22
11 15 0.38
12 14 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AATATAATAAAT
Found at i:31624 original size:20 final size:20
Alignment explanation
Indices: 31562--31626 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 20
31552 TTAATTATAA
31562 AATAT-ATAAAT-ATAAATATT
1 AATATAATAAATAATAAA-A-T
31582 AATATAA-AAATAATAATTTAAT
1 AATATAATAAATAATAA---AAT
31604 AATATAATAAATAATAAAAT
1 AATATAATAAATAATAAAAT
31624 AAT
1 AAT
31627 CTTTCGAGTC
Statistics
Matches: 39, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
20 15 0.38
21 5 0.13
22 8 0.21
23 10 0.26
24 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
AATATAATAAATAATAAAAT
Found at i:32972 original size:18 final size:17
Alignment explanation
Indices: 32949--32984 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
32939 TGTTAATTTA
32949 AAAATAAAAATATATAAT
1 AAAATAAAAATATA-AAT
32967 AAAATAAAAATATAAAT
1 AAAATAAAAATATAAAT
32984 A
1 A
32985 CTAAATTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAATAAAAATATAAAT
Found at i:33017 original size:12 final size:12
Alignment explanation
Indices: 33002--33045 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
32992 AATAATATTT
33002 TTAAATATTAAA
1 TTAAATATTAAA
*
33014 TTAAAAATTAAA
1 TTAAATATTAAA
*
33026 TTAAAGTATAAAA
1 TTAAA-TATTAAA
33039 TTCAAAT
1 TT-AAAT
33046 GAGAATTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
12 16 0.59
13 8 0.30
14 3 0.11
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (12 bp):
TTAAATATTAAA
Found at i:33508 original size:24 final size:24
Alignment explanation
Indices: 33480--33538 Score: 84
Period size: 24 Copynumber: 2.4 Consensus size: 24
33470 ATTTGATTTC
33480 TTTTTAGATAATTTATAAATAT-ATA
1 TTTTTA-ATAATTT-TAAATATAATA
33505 TTTTTAATAATTTTAAATATAATA
1 TTTTTAATAATTTTAAATATAATA
*
33529 TATTTAATAA
1 TTTTTAATAA
33539 ATATAAAAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
23 7 0.22
24 19 0.59
25 6 0.19
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (24 bp):
TTTTTAATAATTTTAAATATAATA
Found at i:33545 original size:24 final size:23
Alignment explanation
Indices: 33493--33550 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 23
33483 TTAGATAATT
* *
33493 TATAAATATATATTTTTAATAAT
1 TATAAATATATATATTTAATAAA
*
33516 TTTAAATATAATATATTTAATAAA
1 TATAAATAT-ATATATTTAATAAA
*
33540 TATAAAAATAT
1 TATAAATATAT
33551 TAAAAATAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (23 bp):
TATAAATATATATATTTAATAAA
Found at i:33553 original size:18 final size:18
Alignment explanation
Indices: 33518--33578 Score: 54
Period size: 18 Copynumber: 3.3 Consensus size: 18
33508 TTAATAATTT
*
33518 TAAATATAATATATTTAA
1 TAAATATAAAATATTTAA
33536 TAAATATAAAA-ATATTAA
1 TAAATATAAAATAT-TTAA
*
33554 -AAATAAAATAATTAATTTAA
1 TAAATATAA-AA-T-ATTTAA
33574 TAAAT
1 TAAAT
33579 TATTAAATGC
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
17 9 0.26
18 16 0.46
20 4 0.11
21 6 0.17
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
TAAATATAAAATATTTAA
Found at i:34189 original size:27 final size:25
Alignment explanation
Indices: 34148--34213 Score: 80
Period size: 25 Copynumber: 2.5 Consensus size: 25
34138 TTTATTATGT
34148 AATATTTATTATAATT-ATTAATAAAATA
1 AATA-TTATTATAATTAATT-AT-AAA-A
34176 AATATTATTATAATTAATTATAAAA
1 AATATTATTATAATTAATTATAAAA
*
34201 AATATAATTATAA
1 AATATTATTATAA
34214 AAAAATAAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
25 13 0.36
26 3 0.08
27 13 0.36
28 7 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (25 bp):
AATATTATTATAATTAATTATAAAA
Found at i:34208 original size:19 final size:19
Alignment explanation
Indices: 34184--34236 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
34174 TAAATATTAT
34184 TATAATTAATTATAAAAAA
1 TATAATTAATTATAAAAAA
34203 TATAATT-A-TA-AAAAAA
1 TATAATTAATTATAAAAAA
34219 TA-AATTAAAATTATAAAA
1 TATAATT--AATTATAAAA
34237 TAATGAATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
15 4 0.14
16 8 0.28
17 2 0.07
18 2 0.07
19 9 0.31
20 4 0.14
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TATAATTAATTATAAAAAA
Found at i:34225 original size:15 final size:15
Alignment explanation
Indices: 34190--34221 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
34180 TTATTATAAT
34190 TAATTATAAAAAATA
1 TAATTATAAAAAATA
34205 TAATTATAAAAAA-A
1 TAATTATAAAAAATA
34219 TAA
1 TAA
34222 ATTAAAATTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.24
15 13 0.76
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TAATTATAAAAAATA
Found at i:34231 original size:21 final size:22
Alignment explanation
Indices: 34206--34254 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
34196 TAAAAAATAT
34206 AATTATAAAAAAAT-AAATTAA
1 AATTATAAAAAAATGAAATTAA
* * *
34227 AATTATAAAATAATGAATTTAT
1 AATTATAAAAAAATGAAATTAA
34249 AATTAT
1 AATTAT
34255 TATTTAACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 13 0.54
22 11 0.46
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
AATTATAAAAAAATGAAATTAA
Found at i:34283 original size:10 final size:10
Alignment explanation
Indices: 34268--34298 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
34258 TTAACTCTTT
34268 ACAGAGAGAG
1 ACAGAGAGAG
34278 ACAGAGAGAG
1 ACAGAGAGAG
*
34288 AGAGAGAGAG
1 ACAGAGAGAG
34298 A
1 A
34299 TCGCTCTTAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.52, C:0.06, G:0.42, T:0.00
Consensus pattern (10 bp):
ACAGAGAGAG
Found at i:35368 original size:16 final size:17
Alignment explanation
Indices: 35347--35384 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
35337 ATATTATACT
*
35347 AATTAAATTAA-TATTC
1 AATTAAATTAATTATTA
*
35363 AATTAATTTAATTATTA
1 AATTAAATTAATTATTA
35380 AATTA
1 AATTA
35385 TTGATTAATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 10 0.53
17 9 0.47
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
AATTAAATTAATTATTA
Found at i:37806 original size:97 final size:96
Alignment explanation
Indices: 37626--37859 Score: 283
Period size: 97 Copynumber: 2.4 Consensus size: 96
37616 ATTTCTCCGA
* * * *
37626 AGGGATACTCCAACCCTATTCTTCCGAGAGGATACTCCAACCTCGCTTTTAAAGACATCAAAGTT
1 AGGGATACTCTAACCCCATTCTTCCGAGGGGATACTCCAACCTCGCTTTTAAAGACATAAAAGTT
* *
37691 TAAATCTTCTTCTCACTTAAATTGTCACCATT
66 CAAATCTTATTCTCACTTAAATTGTCACCA-T
* * *
37723 AGGGATACTTTAACCCCATTCCTCCGAGGGGATACTCCAACCTCGCTTTTAAACG-TATAAAAGT
1 AGGGATACTCTAACCCCATTCTTCCGAGGGGATACTCCAACCTCGCTTTTAAA-GACATAAAAGT
* * * *
37787 TCAAATTTTATTTTTACTTAAATTGTCATCAT
65 TCAAATCTTATTCTCACTTAAATTGTCACCAT
* * *
37819 CGGAGACACTCTAA-CTCATTCTTCCGAGGGGATACTCCAAC
1 AGG-GATACTCTAACCCCATTCTTCCGAGGGGATACTCCAAC
37860 TCCATTTTTA
Statistics
Matches: 117, Mismatches: 18, Indels: 5
0.84 0.13 0.04
Matches are distributed among these distances:
96 28 0.24
97 88 0.75
98 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.13, T:0.32
Consensus pattern (96 bp):
AGGGATACTCTAACCCCATTCTTCCGAGGGGATACTCCAACCTCGCTTTTAAAGACATAAAAGTT
CAAATCTTATTCTCACTTAAATTGTCACCAT
Found at i:45454 original size:32 final size:34
Alignment explanation
Indices: 45401--45464 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 34
45391 AAAACATGGC
* *
45401 ATGAATATATGAATGTCTC-AAATTTATATAATA
1 ATGAATATATGAATGTATCAAAATTAATATAATA
*
45434 ATGAAT-TATTAATGTATCAAAATTAATATAA
1 ATGAATATATGAATGTATCAAAATTAATATAA
45465 ATATAAAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 10 0.37
33 17 0.63
ACGTcount: A:0.48, C:0.05, G:0.08, T:0.39
Consensus pattern (34 bp):
ATGAATATATGAATGTATCAAAATTAATATAATA
Found at i:48473 original size:21 final size:22
Alignment explanation
Indices: 48429--48483 Score: 62
Period size: 21 Copynumber: 2.6 Consensus size: 22
48419 ATTATAAGAT
48429 ATTATTTT-A-TTAAAAATAAA
1 ATTATTTTAATTTAAAAATAAA
*
48449 ATTATTTTAATTTTAAAAT-AA
1 ATTATTTTAATTTAAAAATAAA
**
48470 ATTAAATTAATTTA
1 ATTATTTTAATTTA
48484 TATAATTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 8 0.28
21 14 0.48
22 7 0.24
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
ATTATTTTAATTTAAAAATAAA
Found at i:49969 original size:3 final size:3
Alignment explanation
Indices: 49961--50013 Score: 97
Period size: 3 Copynumber: 17.7 Consensus size: 3
49951 GTATATTTTG
*
49961 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
50009 ATA AT
1 ATA AT
50014 CCCTTCCAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:50192 original size:20 final size:20
Alignment explanation
Indices: 50169--50260 Score: 56
Period size: 21 Copynumber: 4.7 Consensus size: 20
50159 TATCAAAATT
50169 TATATAAAATAAATTATTAA
1 TATATAAAATAAATTATTAA
50189 TATATTAAAAT---TTA-TAA
1 TATA-TAAAATAAATTATTAA
*
50206 TATTTTAAATATAAATTAATT-A
1 TA-TATAAA-ATAAATT-ATTAA
*
50228 TA-AT-AAATAAAAATATATAA
1 TATATAAAAT-AAATTAT-TAA
50248 -ATATAAAATAAAT
1 TATATAAAATAAAT
50261 ACATAAATTT
Statistics
Matches: 55, Mismatches: 4, Indels: 26
0.65 0.05 0.31
Matches are distributed among these distances:
17 9 0.16
18 10 0.18
19 8 0.15
20 11 0.20
21 12 0.22
22 4 0.07
23 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TATATAAAATAAATTATTAA
Found at i:50474 original size:17 final size:18
Alignment explanation
Indices: 50442--50475 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
50432 CCAAATAATC
50442 AAAAAAAATTTAATTTAG
1 AAAAAAAATTTAATTTAG
*
50460 AAAAATAATTT-ATTTA
1 AAAAAAAATTTAATTTA
50476 TTTTTAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
AAAAAAAATTTAATTTAG
Found at i:51421 original size:6 final size:6
Alignment explanation
Indices: 51407--51480 Score: 57
Period size: 6 Copynumber: 12.5 Consensus size: 6
51397 ATATTATTTG
* * *
51407 TATAAA TATAGA TAT-AA TATAAA TATTAAA TAT-AT TA-AAA TTTTAAA
1 TATAAA TATAAA TATAAA TATAAA TA-TAAA TATAAA TATAAA -TATAAA
*
51454 TATAAA TA-AAA TATATA TATTAAA TAT
1 TATAAA TATAAA TATAAA TA-TAAA TAT
51481 CTTTCGTTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 14
0.71 0.11 0.19
Matches are distributed among these distances:
5 13 0.25
6 26 0.49
7 14 0.26
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (6 bp):
TATAAA
Found at i:51476 original size:24 final size:23
Alignment explanation
Indices: 51407--51480 Score: 69
Period size: 24 Copynumber: 3.1 Consensus size: 23
51397 ATATTATTTG
*
51407 TATAAATATAGATATAATA-TAAA
1 TATAAATA-AAATATAATATTAAA
* * * *
51430 TATTAAATATATTAAAATTTTAAA
1 TA-TAAATAAAATATAATATTAAA
51454 TATAAATAAAATATATATATTAAA
1 TATAAATAAAATATA-ATATTAAA
51478 TAT
1 TAT
51481 CTTTCGTTTA
Statistics
Matches: 39, Mismatches: 9, Indels: 5
0.74 0.17 0.09
Matches are distributed among these distances:
23 17 0.44
24 22 0.56
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.41
Consensus pattern (23 bp):
TATAAATAAAATATAATATTAAA
Found at i:52559 original size:23 final size:24
Alignment explanation
Indices: 52515--52567 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
52505 TTTAAAATAA
**
52515 TATTAAATAAACTTTTTTATATATT
1 TATT-AATAAACTTTTAAATATATT
*
52540 TATTAATAAA-TTTTAAATATTTT
1 TATTAATAAACTTTTAAATATATT
52563 TATTA
1 TATTA
52568 TTTAAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 15 0.60
24 6 0.24
25 4 0.16
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (24 bp):
TATTAATAAACTTTTAAATATATT
Found at i:53136 original size:2 final size:2
Alignment explanation
Indices: 53129--53170 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
53119 CCATTTTGTG
53129 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
53171 GATAGGTAAG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:53626 original size:22 final size:22
Alignment explanation
Indices: 53601--53667 Score: 66
Period size: 22 Copynumber: 2.9 Consensus size: 22
53591 AACTAAATAA
53601 ATATTTTTATTAAATATTTATT
1 ATATTTTTATTAAATATTTATT
*
53623 ATATTTAATATTAAAATTATTT-TT
1 ATATTT-TTATT-AAA-TATTTATT
53647 AT-TTTTTAATTAAATAATTTA
1 ATATTTTT-ATTAAAT-ATTTA
53668 ACTCAACGAG
Statistics
Matches: 37, Mismatches: 2, Indels: 11
0.74 0.04 0.22
Matches are distributed among these distances:
21 1 0.03
22 14 0.38
23 10 0.27
24 7 0.19
25 5 0.14
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (22 bp):
ATATTTTTATTAAATATTTATT
Found at i:53636 original size:23 final size:23
Alignment explanation
Indices: 53608--53667 Score: 61
Period size: 24 Copynumber: 2.6 Consensus size: 23
53598 TAAATATTTT
53608 TATTAAATATTTATTATATTTAA
1 TATTAAATATTTATTATATTTAA
* *
53631 TATTAAAATTATTT-TTATTTTTTA
1 TATT-AAA-TATTTATTATATTTAA
53655 -ATTAAATAATTTA
1 TATTAAAT-ATTTA
53668 ACTCAACGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
21 1 0.03
22 7 0.23
23 7 0.23
24 11 0.35
25 5 0.16
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TATTAAATATTTATTATATTTAA
Found at i:54232 original size:14 final size:14
Alignment explanation
Indices: 54213--54240 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
54203 TAATTATAAA
54213 AATATAAAAATATT
1 AATATAAAAATATT
54227 AATATAAAAATATT
1 AATATAAAAATATT
54241 TTTAATATTT
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:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATAAAAATATT
Found at i:55270 original size:19 final size:19
Alignment explanation
Indices: 55246--55412 Score: 65
Period size: 19 Copynumber: 9.2 Consensus size: 19
55236 AGATTCATCG
55246 TATATTTATATTATATTTA
1 TATATTTATATTATATTTA
* *
55265 TATATTT-TATTGTATGATAA
1 TATATTTATATTATAT--TTA
55285 TTATATTTA-A-TATATTT-
1 -TATATTTATATTATATTTA
* *
55302 TAT-TTTAT-TTAAAATTA
1 TATATTTATATTATATTTA
* *
55319 AATATTT-TA-TA-AATT-
1 TATATTTATATTATATTTA
*
55334 TATA-TTATATGAT-TTTGA
1 TATATTTATATTATATTT-A
* *
55352 AATATTTATA-TATTTTTA
1 TATATTTATATTATATTTA
* *
55370 TAATATTATATATTATTTTTT
1 T-ATATT-TATATTATATTTA
*
55391 TATATTT-TAATTATTTTTA
1 TATATTTAT-ATTATATTTA
55410 TAT
1 TAT
55413 CATATTTTTA
Statistics
Matches: 113, Mismatches: 15, Indels: 40
0.67 0.09 0.24
Matches are distributed among these distances:
14 2 0.02
15 9 0.08
16 15 0.13
17 5 0.04
18 18 0.16
19 33 0.29
20 15 0.13
21 16 0.14
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TATATTTATATTATATTTA
Found at i:55366 original size:18 final size:18
Alignment explanation
Indices: 55335--55383 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
55325 TTATAAATTT
55335 ATATTATATGATTTTGA-A
1 ATATTATAT-ATTTTGATA
*
55353 ATATTTATATATTTTTATA
1 ATA-TTATATATTTTGATA
55372 ATATTATATATT
1 ATATTATATATT
55384 ATTTTTTTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 18 0.64
19 10 0.36
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (18 bp):
ATATTATATATTTTGATA
Found at i:55369 original size:10 final size:10
Alignment explanation
Indices: 55356--55412 Score: 55
Period size: 10 Copynumber: 5.7 Consensus size: 10
55346 TTTTGAAATA
55356 TTTATATATT
1 TTTATATATT
55366 TTTATA-ATAT
1 TTTATATAT-T
*
55376 TATATATTATT
1 TTTATA-TATT
*
55387 TTTTTATATT
1 TTTATATATT
*
55397 TTAAT-TATT
1 TTTATATATT
55406 TTTATAT
1 TTTATAT
55413 CATATTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
9 10 0.27
10 20 0.54
11 5 0.14
12 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTATATATT
Found at i:55417 original size:22 final size:21
Alignment explanation
Indices: 55362--55426 Score: 73
Period size: 22 Copynumber: 3.1 Consensus size: 21
55352 AATATTTATA
*
55362 TATTTTTATA-ATATTATATAT
1 TATTTTTATATATATTTTA-AT
55383 TATTTTT-T-TATATTTTAAT
1 TATTTTTATATATATTTTAAT
*
55402 TATTTTTATATCATATTTTTAT
1 TATTTTTATAT-ATATTTTAAT
55424 TAT
1 TAT
55427 ATAAATATAT
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 9 0.24
21 8 0.21
22 12 0.32
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTTTTATATATATTTTAAT
Found at i:55590 original size:15 final size:15
Alignment explanation
Indices: 55562--55595 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
55552 TTATATTTAT
55562 TTAAAATTTAATATA
1 TTAAAATTTAATATA
55577 TTAATAATTTATATATA
1 TTAA-AATTTA-ATATA
55594 TT
1 TT
55596 TATATTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 6 0.35
17 7 0.41
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAAAATTTAATATA
Found at i:55610 original size:11 final size:11
Alignment explanation
Indices: 55584--55639 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
55574 ATATTAATAA
*
55584 TTTATA-TATA
1 TTTATATTATT
55594 TTTATATTATT
1 TTTATATTATT
*
55605 TTTATATTTTAT
1 TTTATATTAT-T
55617 TTTA-ATTATTT
1 TTTATATTA-TT
*
55628 TTTATAATATT
1 TTTATATTATT
55639 T
1 T
55640 ATACAGTATA
Statistics
Matches: 38, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 6 0.16
11 23 0.61
12 9 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (11 bp):
TTTATATTATT
Found at i:55610 original size:21 final size:21
Alignment explanation
Indices: 55584--55642 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
55574 ATATTAATAA
55584 TTTATATATATTTATATTATT
1 TTTATATATATTTATATTATT
*
55605 TTTATATTTTATTT-TAATTATT
1 TTTATA-TATATTTAT-ATTATT
55627 TTT-TATAATATTTATA
1 TTTATAT-ATATTTATA
55643 CAGTATATTA
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
20 1 0.03
21 15 0.47
22 16 0.50
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTATATATATTTATATTATT
Found at i:58165 original size:91 final size:91
Alignment explanation
Indices: 58061--58241 Score: 292
Period size: 91 Copynumber: 2.0 Consensus size: 91
58051 AGAAGAAAAA
* * * *
58061 AAGAAAAAACACAATAATCTCC-AAACTTTAAAGTGTTTGTGAAGTTCTATTAGTTTGAGACTTT
1 AAGAAAAAACACAATAATCTCCAAAAC-TTAAAGTGTTTGTCAAGCTCTATTAGTGTGAGACTGT
58125 GAGTCCCTGATTTATTCCCATTGCAAG
65 GAGTCCCTGATTTATTCCCATTGCAAG
*
58152 AAGAAAAAACACAATAATCTCCAAAACTTAAAGTGTTTGTCAGGCTCTATTAGTGTGAGACTGTG
1 AAGAAAAAACACAATAATCTCCAAAACTTAAAGTGTTTGTCAAGCTCTATTAGTGTGAGACTGTG
*
58217 AGTCCCTGATTTATTCCCGTTGCAA
66 AGTCCCTGATTTATTCCCATTGCAA
58242 TCACTAACCT
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
91 79 0.95
92 4 0.05
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.32
Consensus pattern (91 bp):
AAGAAAAAACACAATAATCTCCAAAACTTAAAGTGTTTGTCAAGCTCTATTAGTGTGAGACTGTG
AGTCCCTGATTTATTCCCATTGCAAG
Found at i:63149 original size:101 final size:101
Alignment explanation
Indices: 63004--63202 Score: 344
Period size: 101 Copynumber: 2.0 Consensus size: 101
62994 AAATATACTA
*
63004 AGTTGAATATGAGAGATATTGTATAAACTTCAAGGTTATGTCAAAAGGCATACTTTCGTTCTACA
1 AGTTGAATATGAGAGATATTGTATAAACTTCAAGGTTATGTCAAAAGGCATACTTTCATTCTACA
*
63069 TTTTGACAATATTTACGTATCTATGTTACTTGGACT
66 TTTTGACAATATTTACGTATCTATATTACTTGGACT
* * * *
63105 AGTTGAATGTGAGGGATATTGTATAAACTTCAAGGTTATTTCAAAAGTCATACTTTCATTCTACA
1 AGTTGAATATGAGAGATATTGTATAAACTTCAAGGTTATGTCAAAAGGCATACTTTCATTCTACA
63170 TTTTGACAATATTTACGTATCTATATTACTTGG
66 TTTTGACAATATTTACGTATCTATATTACTTGG
63203 GACTCCTTGC
Statistics
Matches: 92, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
101 92 1.00
ACGTcount: A:0.32, C:0.13, G:0.16, T:0.40
Consensus pattern (101 bp):
AGTTGAATATGAGAGATATTGTATAAACTTCAAGGTTATGTCAAAAGGCATACTTTCATTCTACA
TTTTGACAATATTTACGTATCTATATTACTTGGACT
Found at i:63921 original size:10 final size:10
Alignment explanation
Indices: 63889--63957 Score: 65
Period size: 10 Copynumber: 7.0 Consensus size: 10
63879 TATAATTTTT
63889 TAAATATAAA
1 TAAATATAAA
*
63899 -AAATAAAAAA
1 TAAAT-ATAAA
63909 TAAATATAAA
1 TAAATATAAA
63919 TAAATATAAA
1 TAAATATAAA
63929 TTAAATA-AAA
1 -TAAATATAAA
*
63939 -AATTATAAA
1 TAAATATAAA
63948 -AATATATAAA
1 TAA-ATATAAA
63958 GTTAATTAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
8 4 0.08
9 9 0.18
10 27 0.54
11 10 0.20
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (10 bp):
TAAATATAAA
Found at i:64483 original size:17 final size:17
Alignment explanation
Indices: 64463--64508 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
64453 ATAAAATACA
64463 TATTTTTATTAAATATT
1 TATTTTTATTAAATATT
* *
64480 TA-TTATATTTAATATT
1 TATTTTTATTAAATATT
64496 TATTTATTATTAA
1 TATTT-TTATTAA
64509 TTTTACATAT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
16 14 0.61
17 4 0.17
18 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (17 bp):
TATTTTTATTAAATATT
Found at i:64901 original size:12 final size:12
Alignment explanation
Indices: 64877--64910 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
64867 AAGCTCTCAC
*
64877 TCGCAGTCCCGG
1 TCGCAGTCGCGG
*
64889 TCGCGGTCGCGG
1 TCGCAGTCGCGG
64901 TCGCAGTCGC
1 TCGCAGTCGC
64911 AGTTGCATCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.38, G:0.38, T:0.18
Consensus pattern (12 bp):
TCGCAGTCGCGG
Found at i:65597 original size:2 final size:2
Alignment explanation
Indices: 65590--65630 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
65580 TAAAGAAGTA
65590 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
65631 AATACACTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:65718 original size:23 final size:22
Alignment explanation
Indices: 65677--65719 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
65667 CTTAATCTTG
*
65677 TAAATAAAAATATATATATATT
1 TAAATAAAAATATAAATATATT
*
65699 TAAATAAAAAATTTAAATATA
1 TAAAT-AAAAATATAAATATA
65720 AATACTACAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 5 0.28
23 13 0.72
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TAAATAAAAATATAAATATATT
Found at i:65938 original size:11 final size:11
Alignment explanation
Indices: 65922--65959 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
65912 TTGTACTAGC
65922 TTATTTATTTA
1 TTATTTATTTA
65933 TTATTTATTTA
1 TTATTTATTTA
*
65944 ATATATTATTT-
1 TTAT-TTATTTA
65955 TTATT
1 TTATT
65960 AAATTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 1 0.04
11 17 0.71
12 6 0.25
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
TTATTTATTTA
Found at i:66540 original size:38 final size:38
Alignment explanation
Indices: 66432--66595 Score: 152
Period size: 38 Copynumber: 4.3 Consensus size: 38
66422 ATTCACGTTG
* * *
66432 GAATTCTCCTAGACACCAGCCACCAGTCAATTCCAAATT
1 GAATTCT-CTAGTCATCAGCCACCAGCCAATTCCAAATT
* * *
66471 AAATTCTCTAGT--TGCTAGCCACCGGCCAATTCGAAATT
1 GAATTCTCTAGTCAT-C-AGCCACCAGCCAATTCCAAATT
* *
66509 GAATTCTCTAGTCATCAGCCGCCAGCTAATTCCAAATT
1 GAATTCTCTAGTCATCAGCCACCAGCCAATTCCAAATT
* ** * * *
66547 GAATTCTTTAACCAGTCAGCCGCTAGCCAATTTCAAATT
1 GAATTCTCTAGTCA-TCAGCCACCAGCCAATTCCAAATT
66586 GAATTCTCTA
1 GAATTCTCTA
66596 ACCGTCAGTC
Statistics
Matches: 102, Mismatches: 18, Indels: 10
0.78 0.14 0.08
Matches are distributed among these distances:
37 1 0.01
38 63 0.62
39 37 0.36
40 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.13, T:0.29
Consensus pattern (38 bp):
GAATTCTCTAGTCATCAGCCACCAGCCAATTCCAAATT
Found at i:66584 original size:39 final size:39
Alignment explanation
Indices: 66495--66603 Score: 134
Period size: 39 Copynumber: 2.8 Consensus size: 39
66485 CTAGCCACCG
**
66495 GCCAA-TTCGAAATTGAATTCTCTAGTCA-TCAGCCGCCA
1 GCCAATTTC-AAATTGAATTCTCTAACCAGTCAGCCGCCA
* * * *
66533 GCTAATTCCAAATTGAATTCTTTAACCAGTCAGCCGCTA
1 GCCAATTTCAAATTGAATTCTCTAACCAGTCAGCCGCCA
66572 GCCAATTTCAAATTGAATTCTCTAACC-GTCAG
1 GCCAATTTCAAATTGAATTCTCTAACCAGTCAG
66604 TCAATTTAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
38 25 0.42
39 35 0.58
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (39 bp):
GCCAATTTCAAATTGAATTCTCTAACCAGTCAGCCGCCA
Found at i:71134 original size:38 final size:37
Alignment explanation
Indices: 71092--71171 Score: 115
Period size: 38 Copynumber: 2.1 Consensus size: 37
71082 ATTCATGTTA
71092 GAATTCCCTAGCCACCAGTCACCAGTCAATTCCAAATT
1 GAATTCCCTAGCCACCAGTCACCAGTCAATT-CAAATT
* ** *
71130 GAATTCTCTAGTTACTAGTCACCAGTCAATTCAAATT
1 GAATTCCCTAGCCACCAGTCACCAGTCAATTCAAATT
71167 GAATT
1 GAATT
71172 TTCTAATCCT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
37 11 0.29
38 27 0.71
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.30
Consensus pattern (37 bp):
GAATTCCCTAGCCACCAGTCACCAGTCAATTCAAATT
Found at i:71195 original size:30 final size:29
Alignment explanation
Indices: 71153--71209 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
71143 ACTAGTCACC
* *
71153 AGTCAATTCAAATTGAATTTTCTAATCCT
1 AGTCAATTCAAATTAAATTCTCTAATCCT
71182 AGTCAATTTCAAATTAAATTCTCTAATC
1 AGTCAA-TTCAAATTAAATTCTCTAATC
71210 GTCAACCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 6 0.24
30 19 0.76
ACGTcount: A:0.37, C:0.18, G:0.05, T:0.40
Consensus pattern (29 bp):
AGTCAATTCAAATTAAATTCTCTAATCCT
Found at i:71223 original size:30 final size:29
Alignment explanation
Indices: 71156--71223 Score: 73
Period size: 30 Copynumber: 2.3 Consensus size: 29
71146 AGTCACCAGT
* * **
71156 CAATTCAAATTGAATTTTCTAATCCTAGT
1 CAATTCAAATTAAATTCTCTAATCCTAAC
*
71185 CAATTTCAAATTAAATTCTCTAATCGTCAAC
1 CAA-TTCAAATTAAATTCTCTAATCCT-AAC
71216 CAATTCAA
1 CAATTCAA
71224 TTTGAATTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 3 0.09
30 25 0.78
31 4 0.12
ACGTcount: A:0.38, C:0.21, G:0.04, T:0.37
Consensus pattern (29 bp):
CAATTCAAATTAAATTCTCTAATCCTAAC
Found at i:71438 original size:21 final size:23
Alignment explanation
Indices: 71399--71446 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
71389 AAAATTTCTT
71399 TTAA-AATTAATATTTTAATAAA
1 TTAATAATTAATATTTTAATAAA
71421 TTAATAATTAA-A-TTTAATAAA
1 TTAATAATTAATATTTTAATAAA
*
71442 ATAAT
1 TTAAT
71447 TATTTTTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 13 0.54
22 5 0.21
23 6 0.25
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (23 bp):
TTAATAATTAATATTTTAATAAA
Found at i:71645 original size:10 final size:11
Alignment explanation
Indices: 71600--71648 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
71590 CATCACCTAC
71600 ATAAATAAA-AT
1 ATAAA-AAATAT
* *
71611 ATAAAATATAA
1 ATAAAAAATAT
71622 ATAAAAAATAT
1 ATAAAAAATAT
71633 ATAAAAAAT-T
1 ATAAAAAATAT
71643 ATAAAA
1 ATAAAA
71649 TTCAACTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
10 9 0.27
11 24 0.73
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
ATAAAAAATAT
Found at i:71692 original size:21 final size:21
Alignment explanation
Indices: 71667--71706 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
71657 GATCATATAT
* * *
71667 ATATATATATATATATAATAA
1 ATATAAATAAATAAATAATAA
71688 ATATAAATAAATAAATAAT
1 ATATAAATAAATAAATAAT
71707 CATAATAGAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATATAAATAAATAAATAATAA
Found at i:71926 original size:14 final size:14
Alignment explanation
Indices: 71907--71949 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
71897 ATTTTTTAGG
*
71907 AAAAAATATATAGA-
1 AAAAAATAAATA-AT
71921 AAAAAATAAATAAT
1 AAAAAATAAATAAT
*
71935 AAAAAATAAAAAAT
1 AAAAAATAAATAAT
71949 A
1 A
71950 CATCAAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 1 0.04
14 25 0.96
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (14 bp):
AAAAAATAAATAAT
Found at i:73372 original size:30 final size:28
Alignment explanation
Indices: 73312--73372 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 28
73302 AAAAAGTATC
* *
73312 ATATATTTTATTTTTTAATATTTTTAAA
1 ATATATATTATTTTTTAATATTTTCAAA
73340 ATATATATTATTTTATTAAT-TTATTCATAA
1 ATATATATTATTTT-TTAATATT-TTCA-AA
73370 ATA
1 ATA
73373 AAAAAACTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
28 15 0.54
29 8 0.29
30 5 0.18
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (28 bp):
ATATATATTATTTTTTAATATTTTCAAA
Found at i:73573 original size:20 final size:21
Alignment explanation
Indices: 73536--73574 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
73526 ATTATTTAAA
73536 AATTTTACTATAAAATAATTT
1 AATTTTACTATAAAATAATTT
*
73557 AATTTTATTAT-AAATAAT
1 AATTTTACTATAAAATAAT
73575 AACCATGAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (21 bp):
AATTTTACTATAAAATAATTT
Found at i:75054 original size:34 final size:35
Alignment explanation
Indices: 74974--75054 Score: 87
Period size: 34 Copynumber: 2.4 Consensus size: 35
74964 ATATATTTTT
* *
74974 ATTTAAATTT-AA-TTATAAAATATATAAATATTA
1 ATTTAAATTTAAATTTATAAAATAAATAAATAATA
* ** *
75007 ATATAAAAATAAATTTTTAAAA-AAATAAATAATA
1 ATTTAAATTTAAATTTATAAAATAAATAAATAATA
75041 ATTTAAATTTAAAT
1 ATTTAAATTTAAAT
75055 AAATAAAACA
Statistics
Matches: 37, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
33 7 0.19
34 23 0.62
35 7 0.19
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (35 bp):
ATTTAAATTTAAATTTATAAAATAAATAAATAATA
Found at i:75244 original size:2 final size:2
Alignment explanation
Indices: 75237--75264 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
75227 CATTAGCAAA
75237 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
75265 TACAGTACCT
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:76708 original size:14 final size:15
Alignment explanation
Indices: 76689--76727 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
76679 ATGATGATAT
76689 TAAATATAATTTG-A
1 TAAATATAATTTGAA
*
76703 TAAATATAATATGAA
1 TAAATATAATTTGAA
76718 TAAA-ATAATT
1 TAAATATAATT
76728 AAAATATGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 17 0.77
15 5 0.23
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (15 bp):
TAAATATAATTTGAA
Found at i:76768 original size:34 final size:32
Alignment explanation
Indices: 76730--76797 Score: 91
Period size: 32 Copynumber: 2.1 Consensus size: 32
76720 AAATAATTAA
*
76730 AATATGACATGAATATATATTTTAAAATTTATAT
1 AATATGA-ATGAATAT-TATATTAAAATTTATAT
* *
76764 AATATGAATTATTATTATATTAAAATTTATAT
1 AATATGAATGAATATTATATTAAAATTTATAT
76796 AA
1 AA
76798 ATATAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
32 18 0.58
33 6 0.19
34 7 0.23
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.46
Consensus pattern (32 bp):
AATATGAATGAATATTATATTAAAATTTATAT
Found at i:76825 original size:18 final size:17
Alignment explanation
Indices: 76752--76825 Score: 57
Period size: 18 Copynumber: 4.4 Consensus size: 17
76742 ATATATATTT
76752 TAAAATTTATAT-AATA
1 TAAAATTTATATAAATA
* * *
76768 TGAATTATTAT-TATAT-
1 TAAAAT-TTATATAAATA
76784 TAAAATTTATATAAATA
1 TAAAATTTATATAAATA
76801 TAAAAATTT-TATAATATGA
1 T-AAAATTTATATAA-AT-A
76820 TAAAAT
1 TAAAAT
76826 ATACGAATTG
Statistics
Matches: 45, Mismatches: 6, Indels: 12
0.71 0.10 0.19
Matches are distributed among these distances:
15 4 0.09
16 13 0.29
17 12 0.27
18 14 0.31
19 2 0.04
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.45
Consensus pattern (17 bp):
TAAAATTTATATAAATA
Found at i:77463 original size:15 final size:15
Alignment explanation
Indices: 77431--77473 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 15
77421 TTAAACACGT
* *
77431 AAAATAATATTTTTTA
1 AAAATAA-ATTATATA
77447 AAAATAAATTATATA
1 AAAATAAATTATATA
77462 AAAATTAAATTA
1 AAAA-TAAATTA
77474 AACTTTGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 10 0.42
16 14 0.58
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (15 bp):
AAAATAAATTATATA
Found at i:78647 original size:19 final size:20
Alignment explanation
Indices: 78607--78654 Score: 71
Period size: 19 Copynumber: 2.4 Consensus size: 20
78597 TCAAAAAAAA
*
78607 TAAATTTAATTTAATCATTAT
1 TAAATTAAATTTAA-CATTAT
78628 TAAATTAAATTTAA-ATTAT
1 TAAATTAAATTTAACATTAT
78647 TAAATTAA
1 TAAATTAA
78655 GAATTTATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 13 0.50
21 13 0.50
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TAAATTAAATTTAACATTAT
Found at i:78703 original size:15 final size:15
Alignment explanation
Indices: 78683--78716 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
78673 ATATTAATAT
78683 TAAAATTAAATTAAA
1 TAAAATTAAATTAAA
* *
78698 TAAAATTTATTTAAA
1 TAAAATTAAATTAAA
78713 TAAA
1 TAAA
78717 TAATCATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TAAAATTAAATTAAA
Found at i:79043 original size:15 final size:15
Alignment explanation
Indices: 79019--79072 Score: 54
Period size: 15 Copynumber: 3.4 Consensus size: 15
79009 ATTTAATATT
*
79019 TTTTATTTATTTAAA
1 TTTTAATTATTTAAA
79034 TTTTAATTATATTAATA
1 TTTTAATTAT-TTAA-A
* *
79051 ATTTATATTATATAAA
1 TTTTA-ATTATTTAAA
79067 TTTTAA
1 TTTTAA
79073 AATATATATA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
15 10 0.31
16 9 0.28
17 8 0.25
18 5 0.16
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTTTAATTATTTAAA
Found at i:79058 original size:13 final size:14
Alignment explanation
Indices: 79040--79116 Score: 52
Period size: 13 Copynumber: 5.5 Consensus size: 14
79030 TAAATTTTAA
79040 TTATATTA-ATAAT
1 TTATATTATATAAT
79053 TTATATTATATAAATT
1 TTATATTATAT-AA-T
* *
79069 TTAAAATATATATAT
1 TTATATTATATA-AT
** *
79084 TTATATCGTATCAT
1 TTATATTATATAAT
*
79098 TTAT-TTA-ATATT
1 TTATATTATATAAT
79110 TTATATT
1 TTATATT
79117 TATTATATTT
Statistics
Matches: 48, Mismatches: 11, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
12 7 0.15
13 11 0.23
14 8 0.17
15 11 0.23
16 11 0.23
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (14 bp):
TTATATTATATAAT
Found at i:79060 original size:18 final size:18
Alignment explanation
Indices: 78978--79063 Score: 52
Period size: 18 Copynumber: 4.6 Consensus size: 18
78968 CTAATATATA
*
78978 TATATTGTAGTTACATAATT
1 TATATTATA-TTA-ATAATT
*
78998 TATTATGTCATATTTAATATTT
1 TA-TAT-T-ATA-TTAATAATT
* *
79020 TTTATT-TATTTA-AATT
1 TATATTATATTAATAATT
79036 T-TAATTATATTAATAATT
1 TAT-ATTATATTAATAATT
79054 TATATTATAT
1 TATATTATAT
79064 AAATTTTAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 16
0.69 0.09 0.21
Matches are distributed among these distances:
15 1 0.02
16 7 0.13
17 8 0.15
18 14 0.27
19 1 0.02
20 3 0.06
21 6 0.12
22 7 0.13
23 5 0.10
ACGTcount: A:0.36, C:0.02, G:0.03, T:0.58
Consensus pattern (18 bp):
TATATTATATTAATAATT
Found at i:79117 original size:18 final size:18
Alignment explanation
Indices: 79008--79155 Score: 80
Period size: 18 Copynumber: 8.1 Consensus size: 18
78998 TATTATGTCA
*
79008 TATTTAATATTTTTTATT
1 TATTTAATATTTTATATT
79026 TATTTAA-ATTTTA-A-T
1 TATTTAATATTTTATATT
*
79041 TATATTAATAATTTATA-T
1 TAT-TTAATATTTTATATT
*
79059 TATATAA-ATTTTAAAATATAT
1 TATTTAATATTTT---ATAT-T
**
79080 ATATTT-ATATCGTATCATT
1 -TATTTAATATTTTAT-ATT
79099 TATTTAATATTTTATATT
1 TATTTAATATTTTATATT
79117 TA-TT-ATATTTGTATAATTT
1 TATTTAATATTT-TAT-A-TT
*
79136 TATTTAAAATTATTA-ATT
1 TATTTAATATT-TTATATT
79154 TA
1 TA
79156 CTTTTTTTGA
Statistics
Matches: 102, Mismatches: 10, Indels: 36
0.69 0.07 0.24
Matches are distributed among these distances:
15 4 0.04
16 15 0.15
17 18 0.18
18 27 0.26
19 18 0.18
20 4 0.04
21 8 0.08
22 8 0.08
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.59
Consensus pattern (18 bp):
TATTTAATATTTTATATT
Found at i:79293 original size:8 final size:8
Alignment explanation
Indices: 79280--79306 Score: 54
Period size: 8 Copynumber: 3.4 Consensus size: 8
79270 ATGATACAGC
79280 TATATAAA
1 TATATAAA
79288 TATATAAA
1 TATATAAA
79296 TATATAAA
1 TATATAAA
79304 TAT
1 TAT
79307 GTTAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (8 bp):
TATATAAA
Found at i:79326 original size:33 final size:33
Alignment explanation
Indices: 79289--79353 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
79279 CTATATAAAT
*
79289 ATATAAATATATAAATATGTT-AAAATTTATATC
1 ATATAAAT-TATAAATATATTAAAAATTTATATC
* * *
79322 ATATAAGTTATTAATTTATTAAAAATTTATAT
1 ATATAAATTATAAATATATTAAAAATTTATAT
79354 AAAAAATATA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
32 9 0.33
33 18 0.67
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (33 bp):
ATATAAATTATAAATATATTAAAAATTTATATC
Found at i:80345 original size:30 final size:29
Alignment explanation
Indices: 80311--80367 Score: 80
Period size: 28 Copynumber: 1.9 Consensus size: 29
80301 TAATTTCAAA
80311 TTATATTAAAATATTAAAAAT-ATTTTATAT
1 TTATATT-AAA-ATTAAAAATAATTTTATAT
*
80341 TTATATTTAAATTAAAAATAATTTTAT
1 TTATATTAAAATTAAAAATAATTTTAT
80368 TACATAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 9 0.36
29 9 0.36
30 7 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TTATATTAAAATTAAAAATAATTTTATAT
Found at i:80842 original size:10 final size:10
Alignment explanation
Indices: 80824--80857 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
80814 AGTTAAATTT
*
80824 TTTATTTAAA
1 TTTAATTAAA
80834 TTTAATTAAA
1 TTTAATTAAA
80844 TTTAATTTAAA
1 TTTAA-TTAAA
80855 TTT
1 TTT
80858 TAAAAAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 14 0.64
11 8 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
TTTAATTAAA
Found at i:80865 original size:21 final size:21
Alignment explanation
Indices: 80827--80867 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
80817 TAAATTTTTT
*
80827 ATTTAAATTTAATTAAATTTA
1 ATTTAAATTTAATAAAATTTA
80848 ATTTAAATTTTAA-AAAATTT
1 ATTTAAA-TTTAATAAAATTT
80868 TATATATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
ATTTAAATTTAATAAAATTTA
Found at i:81067 original size:6 final size:6
Alignment explanation
Indices: 81056--81082 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
81046 TTTTAAAGTT
81056 TATTTA TATTTA TATTTA TATTTA TAT
1 TATTTA TATTTA TATTTA TATTTA TAT
81083 ATTTTACAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
TATTTA
Found at i:81563 original size:9 final size:9
Alignment explanation
Indices: 81549--81582 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
81539 TTAAATAGAT
81549 AAAAATTAA
1 AAAAATTAA
81558 AAAAATTAA
1 AAAAATTAA
81567 TTAAAAATTAA
1 --AAAAATTAA
81578 AAAAA
1 AAAAA
81583 GGTGTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
9 14 0.61
11 9 0.39
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAATTAA
Found at i:82134 original size:21 final size:22
Alignment explanation
Indices: 82105--82147 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
82095 TTATTTTATT
*
82105 TTTATAAAT-AAAAAATTATAA
1 TTTAAAAATAAAAAAATTATAA
82126 TTTAAAAATAAAAAAATTATAA
1 TTTAAAAATAAAAAAATTATAA
82148 ATACAGATCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 8 0.40
22 12 0.60
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAAATAAAAAAATTATAA
Found at i:83816 original size:18 final size:17
Alignment explanation
Indices: 83786--83836 Score: 54
Period size: 18 Copynumber: 3.0 Consensus size: 17
83776 TATATATTAA
83786 AAATTATATTATTTAATT
1 AAATTATATTATTT-ATT
83804 AAATGTATA-TATTTATT
1 AAAT-TATATTATTTATT
83821 AAA-TAT-TTATTATATT
1 AAATTATATTATT-TATT
83837 TAATGTTTAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
15 7 0.23
16 4 0.13
17 6 0.20
18 9 0.30
19 4 0.13
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (17 bp):
AAATTATATTATTTATT
Found at i:83823 original size:17 final size:18
Alignment explanation
Indices: 83786--83824 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
83776 TATATATTAA
83786 AAATTATATTATTTAATT
1 AAATTATATTATTTAATT
83804 AAATGTATA-TATTT-ATT
1 AAAT-TATATTATTTAATT
83821 AAAT
1 AAAT
83825 ATTTATTATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 9 0.45
19 4 0.20
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (18 bp):
AAATTATATTATTTAATT
Found at i:83839 original size:17 final size:17
Alignment explanation
Indices: 83817--83863 Score: 60
Period size: 16 Copynumber: 2.8 Consensus size: 17
83807 TGTATATATT
* *
83817 TATTAAATATTTATTA-
1 TATTTAATATTTAATAC
*
83833 TATTTAATGTTTAATAC
1 TATTTAATATTTAATAC
83850 TATTTAATATTTAA
1 TATTTAATATTTAA
83864 ATTTATTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
16 13 0.50
17 13 0.50
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
TATTTAATATTTAATAC
Found at i:83870 original size:17 final size:16
Alignment explanation
Indices: 83814--83871 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 16
83804 AAATGTATAT
*
83814 ATTTATTAAATATTT-
1 ATTTATTTAATATTTA
*
83829 ATTATATTTAATGTTTA
1 ATT-TATTTAATATTTA
*
83846 ATACTATTTAATATTTAA
1 AT-TTATTTAATATTT-A
83864 ATTTATTT
1 ATTTATTT
83872 TAATTAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 3 0.09
16 10 0.29
17 18 0.53
18 3 0.09
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (16 bp):
ATTTATTTAATATTTA
Found at i:86247 original size:16 final size:16
Alignment explanation
Indices: 86222--86263 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
86212 TATTTGATAT
*
86222 TTAAAAATTTTAAATG
1 TTAAAAATTTAAAATG
*
86238 TTAAATATTTAAAAT-
1 TTAAAAATTTAAAATG
*
86253 TCAAAAATTTA
1 TTAAAAATTTA
86264 TATTTGAATA
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.43
Consensus pattern (16 bp):
TTAAAAATTTAAAATG
Found at i:86792 original size:5 final size:5
Alignment explanation
Indices: 86782--86822 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
86772 TTTATGTATT
*
86782 TTATA TTATA TT-TA -TATA TTTTA TTATA TTATAA TTATA TT
1 TTATA TTATA TTATA TTATA TTATA TTATA TTAT-A TTATA TT
86823 TAAAATATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
3 1 0.03
4 4 0.13
5 21 0.68
6 5 0.16
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
TTATA
Found at i:86818 original size:29 final size:30
Alignment explanation
Indices: 86767--86835 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
86757 TGATTTGATC
* *
86767 AATAATTTATGTATTTTATATTATATTT-A
1 AATATTTTATGTATATTATATTATATTTAA
*
86796 TATATTTTAT-TATATTATAATTATATTTAA
1 AATATTTTATGTATATTAT-ATTATATTTAA
86826 AATATTTTAT
1 AATATTTTAT
86836 ATTAATATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
28 7 0.21
29 17 0.50
30 10 0.29
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.59
Consensus pattern (30 bp):
AATATTTTATGTATATTATATTATATTTAA
Found at i:91387 original size:19 final size:19
Alignment explanation
Indices: 91363--91405 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
91353 GTTTAATAAA
*
91363 ATATTTTCATATTTATATC
1 ATATTTTCATATTCATATC
*
91382 ATATTTTTATATTCATATC
1 ATATTTTCATATTCATATC
*
91401 GTATT
1 ATATT
91406 ACTAATTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.58
Consensus pattern (19 bp):
ATATTTTCATATTCATATC
Found at i:91631 original size:28 final size:28
Alignment explanation
Indices: 91618--91673 Score: 80
Period size: 26 Copynumber: 2.1 Consensus size: 28
91608 ATATTCATTT
91618 TTTATTTTTTATATTATATTATATTATA
1 TTTATTTTTTATATTATATTATATTATA
* *
91646 TTTA-TTTTTAT-TTATTTTATTTTATA
1 TTTATTTTTTATATTATATTATATTATA
91672 TT
1 TT
91674 ATAATACTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
26 15 0.58
27 7 0.27
28 4 0.15
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (28 bp):
TTTATTTTTTATATTATATTATATTATA
Found at i:91634 original size:5 final size:5
Alignment explanation
Indices: 91626--91676 Score: 56
Period size: 5 Copynumber: 11.0 Consensus size: 5
91616 TTTTTATTTT
* *
91626 TTATA TTATA TTATA TTATA TT-TA TT-T- TTAT- TTATT TTATT TTATA
1 TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA TTATA
91672 TTATA
1 TTATA
91677 ATACTATCAT
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
3 2 0.05
4 10 0.23
5 31 0.72
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (5 bp):
TTATA
Found at i:91675 original size:10 final size:10
Alignment explanation
Indices: 91592--91675 Score: 66
Period size: 10 Copynumber: 8.2 Consensus size: 10
91582 TATTATATAA
91592 ATTTTA-ATAT
1 ATTTTATAT-T
91602 ATTTATATATT
1 ATTT-TATATT
*
91613 CATTTTTTATT
1 -ATTTTATATT
91624 -TTTTATATT
1 ATTTTATATT
*
91633 ATATTATATT
1 ATTTTATATT
91643 ATATTTAT-TT
1 AT-TTTATATT
* *
91653 TTATTTATTTT
1 AT-TTTATATT
91664 ATTTTATATT
1 ATTTTATATT
91674 AT
1 AT
91676 AATACTATCA
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
9 8 0.13
10 32 0.52
11 15 0.25
12 6 0.10
ACGTcount: A:0.30, C:0.01, G:0.00, T:0.69
Consensus pattern (10 bp):
ATTTTATATT
Found at i:91997 original size:26 final size:23
Alignment explanation
Indices: 91968--92028 Score: 59
Period size: 27 Copynumber: 2.4 Consensus size: 23
91958 TCATAATCAT
91968 ATTTAAAATATCATATATTTATAAAA
1 ATTTAAAATATCA-ATATTT-T-AAA
* *
91994 ATTTTAATATATTAATATTTTAAA
1 A-TTTAAAATATCAATATTTTAAA
92018 ATTTATAAATA
1 ATTTA-AAATA
92029 CTATGTTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 4 0.13
24 8 0.27
25 1 0.03
26 7 0.23
27 10 0.33
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
ATTTAAAATATCAATATTTTAAA
Found at i:92060 original size:17 final size:17
Alignment explanation
Indices: 92043--92091 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
92033 GTTCATATAT
*
92043 TTATATTTTA-TTCTTA
1 TTATATTTTATTTATTA
*
92059 TTATTTTTTATTTATTA
1 TTATATTTTATTTATTA
*
92076 TTATATTTTAATTATT
1 TTATATTTTATTTATT
92092 TTTTGTATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATATTTTATTTATTA
Found at i:92065 original size:14 final size:13
Alignment explanation
Indices: 92042--92093 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 13
92032 TGTTCATATA
92042 TTTA-TATTTTAT
1 TTTATTATTTTAT
*
92054 TCTTATTATTTTTT
1 T-TTATTATTTTAT
*
92068 ATTTATTATTATAT
1 -TTTATTATTTTAT
92082 TTTAATTATTTT
1 TTT-ATTATTTT
92094 TTGTATGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
12 1 0.03
13 6 0.19
14 24 0.75
15 1 0.03
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTATTATTTTAT
Found at i:92082 original size:28 final size:27
Alignment explanation
Indices: 92040--92095 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
92030 TATGTTCATA
*
92040 TATTTATATTTTATTCTT-ATTATTTTT
1 TATTTATATTATATT-TTAATTATTTTT
92067 TATTTATTATTATATTTTAATTATTTTT
1 TATTTA-TATTATATTTTAATTATTTTT
92095 T
1 T
92096 GTATGAAATT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 8 0.31
28 18 0.69
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (27 bp):
TATTTATATTATATTTTAATTATTTTT
Found at i:93910 original size:2 final size:2
Alignment explanation
Indices: 93876--93900 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
93866 AATTATCATT
93876 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
93901 CTCAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94514 original size:24 final size:23
Alignment explanation
Indices: 94487--94532 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
94477 TAAAATTTAA
*
94487 ATTTTA-ATCTACAACCTTTCTTTT
1 ATTTTAGAT-TACAAAC-TTCTTTT
94511 ATTTTAGATTACAAACTTCTTT
1 ATTTTAGATTACAAACTTCTTT
94533 ATATCGAAGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
23 6 0.30
24 12 0.60
25 2 0.10
ACGTcount: A:0.28, C:0.17, G:0.02, T:0.52
Consensus pattern (23 bp):
ATTTTAGATTACAAACTTCTTTT
Done.