Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167971.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_23, whole genome shotgun sequence
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: 19268551
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 68000 characters in sequence are not A, C, G, or T
File 80 of 120
Found at i:10318448 original size:22 final size:21
Alignment explanation
Indices: 10318423--10318484 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
10318413 ATTACCCCTT
10318423 TTTATTATTTTTATATTTTAT
1 TTTATTATTTTTATATTTTAT
*
10318444 ATTTATCATTTTT-TATTATTAT
1 -TTTATTATTTTTATATT-TTAT
*
10318466 TGTCATT-TTTTTATATTTT
1 T-TTATTATTTTTATATTTT
10318485 CATACACATT
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
21 12 0.35
22 22 0.65
ACGTcount: A:0.23, C:0.03, G:0.02, T:0.73
Consensus pattern (21 bp):
TTTATTATTTTTATATTTTAT
Found at i:10318462 original size:19 final size:17
Alignment explanation
Indices: 10318438--10318487 Score: 57
Period size: 16 Copynumber: 2.8 Consensus size: 17
10318428 TATTTTTATA
10318438 TTTTATATTTATCATTTT
1 TTTTATATTT-TCATTTT
*
10318456 TTATTATTATTGTCA-TTT
1 TT-TTA-TATTTTCATTTT
10318474 TTTTATATTTTCAT
1 TTTTATATTTTCAT
10318488 ACACATTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
16 7 0.26
17 3 0.11
18 7 0.26
19 6 0.22
20 4 0.15
ACGTcount: A:0.22, C:0.06, G:0.02, T:0.70
Consensus pattern (17 bp):
TTTTATATTTTCATTTT
Found at i:10318752 original size:3 final size:3
Alignment explanation
Indices: 10318744--10318769 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10318734 AATCGGATTG
10318744 TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TT
10318770 TCTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10319842 original size:28 final size:30
Alignment explanation
Indices: 10319805--10319862 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
10319795 TTTTTATAAT
* *
10319805 AATAATTAATA-AAA-AATGAAAACCAAAA
1 AATAAATAATATAAATAATGAAAAACAAAA
10319833 AATAAATAATATTAAATAATGAAAAACAAA
1 AATAAATAATA-TAAATAATGAAAAACAAA
10319863 GTCTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 10 0.40
30 3 0.12
31 12 0.48
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (30 bp):
AATAAATAATATAAATAATGAAAAACAAAA
Found at i:10321077 original size:12 final size:13
Alignment explanation
Indices: 10321041--10321079 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
10321031 TATTTTTAAT
*
10321041 ATTTAAATATTAA
1 ATTTAAATAATAA
*
10321054 ATTTAAAAAATAA
1 ATTTAAATAATAA
10321067 A-TTAAATAATAA
1 ATTTAAATAATAA
10321079 A
1 A
10321080 AATAAATTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
ATTTAAATAATAA
Found at i:10321772 original size:42 final size:43
Alignment explanation
Indices: 10321711--10321799 Score: 117
Period size: 42 Copynumber: 2.1 Consensus size: 43
10321701 AAGTAGTAGT
* * *
10321711 CCACCAAGCCAACTTTTCTTTC-TTCTCCCTCTCCACCAGAAC
1 CCACCAAGCCAACTCTTCTTCCTTTCTCCCTCTCCACCACAAC
* * *
10321753 CCACCAAGCCAACTCTTCTTCCTTTTTCCCTTTCCACTACAAC
1 CCACCAAGCCAACTCTTCTTCCTTTCTCCCTCTCCACCACAAC
10321796 CCAC
1 CCAC
10321800 ACAAAGCTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
42 20 0.50
43 20 0.50
ACGTcount: A:0.21, C:0.46, G:0.03, T:0.29
Consensus pattern (43 bp):
CCACCAAGCCAACTCTTCTTCCTTTCTCCCTCTCCACCACAAC
Found at i:10323231 original size:14 final size:14
Alignment explanation
Indices: 10323214--10323240 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10323204 GTCTATTTAC
10323214 AAATTATTATTAAA
1 AAATTATTATTAAA
10323228 AAATTATTATTAA
1 AAATTATTATTAA
10323241 GGATGAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATTATTATTAAA
Found at i:10323715 original size:13 final size:14
Alignment explanation
Indices: 10323676--10323712 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
10323666 ATTTATTTCA
10323676 TAAAAAATAATTTT
1 TAAAAAATAATTTT
*
10323690 TGAAAAATAATTTT
1 TAAAAAATAATTTT
10323704 TAAAAAATA
1 TAAAAAATA
10323713 TTTAAAATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
TAAAAAATAATTTT
Found at i:10323777 original size:33 final size:32
Alignment explanation
Indices: 10323730--10323807 Score: 93
Period size: 33 Copynumber: 2.3 Consensus size: 32
10323720 TTTTCAAATT
*
10323730 AAATTTTTTTTGTTATTTGAATAAATTAATGAA
1 AAATATTTTTTGTTATTT-AATAAATTAATGAA
* * *
10323763 AAATATTTTTTGTTATTTAATTATTTTATGAA
1 AAATATTTTTTGTTATTTAATAAATTAATGAA
10323795 AAATCTATTTTTT
1 AAA--TATTTTTT
10323808 TCAAATAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
32 14 0.36
33 17 0.44
34 8 0.21
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.56
Consensus pattern (32 bp):
AAATATTTTTTGTTATTTAATAAATTAATGAA
Found at i:10323857 original size:25 final size:25
Alignment explanation
Indices: 10323828--10323892 Score: 105
Period size: 25 Copynumber: 2.6 Consensus size: 25
10323818 TTAATACAAC
10323828 TATTAAAATATTAAAAATTATTTAT
1 TATTAAAATATTAAAAATTATTTAT
10323853 TATTAAATATATT-AAAATTATTTAT
1 TATTAAA-ATATTAAAAATTATTTAT
10323878 TATTAAAATTATTAA
1 TATTAAAA-TATTAA
10323893 TATTAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
24 1 0.03
25 30 0.81
26 6 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (25 bp):
TATTAAAATATTAAAAATTATTTAT
Found at i:10323860 original size:15 final size:14
Alignment explanation
Indices: 10323842--10323899 Score: 52
Period size: 15 Copynumber: 4.2 Consensus size: 14
10323832 AAAATATTAA
10323842 AAATTATTTATTATT
1 AAATTA-TTATTATT
10323857 AAA-TA-TATTA--
1 AAATTATTATTATT
10323867 AAATTATTTATTATT
1 AAATTA-TTATTATT
*
10323882 AAAATTATTAATATT
1 -AAATTATTATTATT
10323897 AAA
1 AAA
10323900 AAAGTAATTA
Statistics
Matches: 36, Mismatches: 1, Indels: 13
0.72 0.02 0.26
Matches are distributed among these distances:
10 3 0.08
11 2 0.06
12 5 0.14
13 5 0.14
14 5 0.14
15 10 0.28
16 6 0.17
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AAATTATTATTATT
Found at i:10323874 original size:9 final size:9
Alignment explanation
Indices: 10323828--10323897 Score: 53
Period size: 9 Copynumber: 8.2 Consensus size: 9
10323818 TTAATACAAC
10323828 TATTAAAA-
1 TATTAAAAT
10323836 TATTAAAAAT
1 TATT-AAAAT
*
10323846 TATT--TAT
1 TATTAAAAT
10323853 TATT-AAAT
1 TATTAAAAT
10323861 ATATTAAAAT
1 -TATTAAAAT
*
10323871 TATT--TAT
1 TATTAAAAT
10323878 TATTAAAAT
1 TATTAAAAT
*
10323887 TATTAATAT
1 TATTAAAAT
10323896 TA
1 TA
10323898 AAAAAGTAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
7 12 0.24
8 6 0.12
9 24 0.48
10 8 0.16
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
TATTAAAAT
Found at i:10323900 original size:15 final size:16
Alignment explanation
Indices: 10323861--10323900 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
10323851 ATTATTAAAT
10323861 ATATTAAAATTATTTA
1 ATATTAAAATTATTTA
*
10323877 TTATTAAAATTA-TTA
1 ATATTAAAATTATTTA
10323892 ATATTAAAA
1 ATATTAAAA
10323901 AAGTAATTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:10324006 original size:15 final size:15
Alignment explanation
Indices: 10323988--10324153 Score: 92
Period size: 15 Copynumber: 10.6 Consensus size: 15
10323978 TATTATTCTT
10323988 TATATTATTTATTAA
1 TATATTATTTATTAA
*
10324003 TATATTATACTATTATTTAT
1 TATA-T-TA-T-TTA-TTAA
*
10324023 TAATAATATTTATTAA
1 T-ATATTATTTATTAA
* *
10324039 TATATTATATTAATAG
1 TATATTAT-TTATTAA
10324055 TATATTATTTATTAGTAA
1 TATATTATTTA-T--TAA
*
10324073 TATATTATTTATTCA
1 TATATTATTTATTAA
10324088 TATATTA-TTA-TAA
1 TATATTATTTATTAA
*
10324101 TAT-TTATTAATTAAA
1 TATATTATTTATT-AA
*
10324116 TTAATAATATTTA-T--
1 -T-ATATTATTTATTAA
*
10324130 TATATTATTTACTAA
1 TATATTATTTATTAA
*
10324145 TATAATATT
1 TATATTATT
10324154 ATTTATTCAT
Statistics
Matches: 117, Mismatches: 15, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
12 12 0.10
13 9 0.08
14 4 0.03
15 32 0.27
16 19 0.16
17 9 0.08
18 20 0.17
19 5 0.04
20 4 0.03
21 3 0.03
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.55
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:10324067 original size:18 final size:17
Alignment explanation
Indices: 10323988--10324198 Score: 105
Period size: 18 Copynumber: 11.6 Consensus size: 17
10323978 TATTATTCTT
10323988 TATATTATTTATTAATA
1 TATATTATTTATTAATA
*
10324005 TAT-TATACTATTATTTAT-
1 TATAT-TA-T-TTATTAATA
*
10324023 TAATAATATTTATT-A-A
1 T-ATATTATTTATTAATA
10324039 TATATTA--TATTAATA
1 TATATTATTTATTAATA
*
10324054 GTATATTATTTATTAGTAA
1 -TATATTATTTATTAAT-A
10324073 TATATTATTTATTCATATA
1 TATATTATTTATT-A-ATA
10324092 TTATTATAATATTTATTAAT-
1 -TA-TAT--TATTTATTAATA
* * *
10324112 TAAATTAATAATATTTAT-
1 TATATT-AT-TTATTAATA
*
10324130 TATATTATTTACTAATA
1 TATATTATTTATTAATA
10324147 TAATATTATTTATTCATATAA
1 T-ATATTATTTATT-A-AT-A
*
10324168 TATTATTTCTTTATTAATA
1 TA-TA-TTATTTATTAATA
10324187 TAATATTATTTA
1 T-ATATTATTTA
10324199 CAAGTAAAAT
Statistics
Matches: 151, Mismatches: 15, Indels: 55
0.68 0.07 0.25
Matches are distributed among these distances:
13 4 0.03
14 1 0.01
15 6 0.04
16 16 0.11
17 15 0.10
18 52 0.34
19 21 0.14
20 9 0.06
21 10 0.07
22 9 0.06
23 8 0.05
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (17 bp):
TATATTATTTATTAATA
Found at i:10324154 original size:75 final size:72
Alignment explanation
Indices: 10323987--10324186 Score: 207
Period size: 75 Copynumber: 2.8 Consensus size: 72
10323977 TTATTATTCT
* * * *
10323987 TTATATTATTTATTAATATATTA-TA-CTATT-ATTTATTA--ATAATATTTATTAATATATTAT
1 TTATATTATTTATTAATATAATATTATTTATTCATATATTATTATAATATTTATTAATAAATTAT
*
10324047 ATTAATA
66 AATAATA
* *
10324054 GTATATTATTTATTAGTA-ATATATTATTTATTCATATATTATTATAATATTTATTAATTAAATT
1 TTATATTATTTATTAATATA-ATATTATTTATTCATATATTATTATAATATTTATTAA-TAAATT
*
10324118 AATAATATTTA
64 -ATAATA-ATA
* * * *
10324129 TTATATTATTTACTAATATAATATTATTTATTCATATAATATTAT-TTCTTTATTAATA
1 TTATATTATTTATTAATATAATATTATTTATTCATATATTATTATAATATTTATTAATA
10324187 TAATATTATT
Statistics
Matches: 109, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
66 1 0.01
67 18 0.17
68 2 0.02
69 4 0.04
70 7 0.06
72 14 0.13
73 7 0.06
74 14 0.13
75 41 0.38
76 1 0.01
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.56
Consensus pattern (72 bp):
TTATATTATTTATTAATATAATATTATTTATTCATATATTATTATAATATTTATTAATAAATTAT
AATAATA
Found at i:10324180 original size:22 final size:22
Alignment explanation
Indices: 10324127--10324197 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
10324117 TAATAATATT
* *
10324127 TATTATATTATTTACTAATATAA
1 TATTAT-TTCTTTATTAATATAA
*
10324150 TATTA----TTTATTCATATAA
1 TATTATTTCTTTATTAATATAA
10324168 TATTATTTCTTTATTAATATAA
1 TATTATTTCTTTATTAATATAA
10324190 TATTATTT
1 TATTATTT
10324198 ACAAGTAAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
18 16 0.39
22 20 0.49
23 5 0.12
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
TATTATTTCTTTATTAATATAA
Found at i:10325196 original size:16 final size:17
Alignment explanation
Indices: 10325147--10325196 Score: 52
Period size: 16 Copynumber: 3.0 Consensus size: 17
10325137 ATTATGTTAC
10325147 TATTAAAATCA-TAAAAA
1 TATTAAAAT-ATTAAAAA
*
10325164 -ATGAAAATATTATAAAA
1 TATTAAAATATTA-AAAA
10325181 TATTAAAAT-TTAAAAA
1 TATTAAAATATTAAAAA
10325197 AGTGTATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
15 1 0.04
16 13 0.46
17 7 0.25
18 7 0.25
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (17 bp):
TATTAAAATATTAAAAA
Found at i:10325784 original size:8 final size:8
Alignment explanation
Indices: 10325771--10325816 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
10325761 ATGTAAATAA
10325771 AAATAAAC
1 AAATAAAC
*
10325779 AAATAAAT
1 AAATAAAC
*
10325787 AAATAAGC
1 AAATAAAC
*
10325795 AAATCAAC
1 AAATAAAC
10325803 AAATAAA-
1 AAATAAAC
10325810 AAATAAA
1 AAATAAA
10325817 ACTAAAAATT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
7 7 0.22
8 25 0.78
ACGTcount: A:0.74, C:0.09, G:0.02, T:0.15
Consensus pattern (8 bp):
AAATAAAC
Found at i:10325825 original size:27 final size:27
Alignment explanation
Indices: 10325795--10325849 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 27
10325785 ATAAATAAGC
*
10325795 AAATCAACAAATA-AAAAATAAAACTAA
1 AAATCAAAAAATACAAAAATAAAA-TAA
* *
10325822 AAATTAAAAAATACCAAAATAAAATAA
1 AAATCAAAAAATACAAAAATAAAATAA
10325849 A
1 A
10325850 TAATTGATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 15 0.62
28 9 0.38
ACGTcount: A:0.75, C:0.09, G:0.00, T:0.16
Consensus pattern (27 bp):
AAATCAAAAAATACAAAAATAAAATAA
Found at i:10325849 original size:20 final size:19
Alignment explanation
Indices: 10325765--10325849 Score: 64
Period size: 20 Copynumber: 4.0 Consensus size: 19
10325755 ATATGTATGT
10325765 AAATAAAAATAAACAAATAAA
1 AAATAAAAAT-AA-AAATAAA
10325786 TAAATAAGCAAATCAACAAATAAA
1 -AAATAA--AAAT-AA-AAATAAA
*
10325810 AAATAAAACTAAAAATTAAA
1 AAATAAAAATAAAAA-TAAA
10325830 AAATACCAAAAT-AAAATAAA
1 AAATA--AAAATAAAAATAAA
10325850 TAATTGATAT
Statistics
Matches: 55, Mismatches: 3, Indels: 12
0.79 0.04 0.17
Matches are distributed among these distances:
19 3 0.05
20 15 0.27
21 7 0.13
22 10 0.18
23 6 0.11
24 14 0.25
ACGTcount: A:0.74, C:0.08, G:0.01, T:0.16
Consensus pattern (19 bp):
AAATAAAAATAAAAATAAA
Found at i:10333234 original size:20 final size:23
Alignment explanation
Indices: 10333195--10333236 Score: 63
Period size: 20 Copynumber: 2.0 Consensus size: 23
10333185 TTTTATGGAT
10333195 ATTTTTGTTTAGTATTGTTGAGG
1 ATTTTTGTTTAGTATTGTTGAGG
10333218 ATTTTT-TTTA-T-TTGTTGAG
1 ATTTTTGTTTAGTATTGTTGAG
10333237 TAACGCTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.42
21 1 0.05
22 4 0.21
23 6 0.32
ACGTcount: A:0.17, C:0.00, G:0.21, T:0.62
Consensus pattern (23 bp):
ATTTTTGTTTAGTATTGTTGAGG
Found at i:10333470 original size:16 final size:16
Alignment explanation
Indices: 10333451--10333496 Score: 55
Period size: 16 Copynumber: 3.1 Consensus size: 16
10333441 TTTTGTTAAG
10333451 TATTTTTTAGTATTGT
1 TATTTTTTAGTATTGT
10333467 TATTTTTT-G--TTGAT
1 TATTTTTTAGTATTG-T
10333481 T-TTTTTTAGTATTGT
1 TATTTTTTAGTATTGT
10333496 T
1 T
10333497 GAATAATTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
13 9 0.35
14 3 0.12
15 3 0.12
16 11 0.42
ACGTcount: A:0.15, C:0.00, G:0.13, T:0.72
Consensus pattern (16 bp):
TATTTTTTAGTATTGT
Found at i:10333473 original size:29 final size:29
Alignment explanation
Indices: 10333438--10333496 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
10333428 TTTTTGTTGG
10333438 ATTTTTTGTTAAGTATTTTTTAGTATTGTT
1 ATTTTTTGTTAA-TATTTTTTAGTATTGTT
* *
10333468 ATTTTTTGTTGATTTTTTTTAGTATTGTT
1 ATTTTTTGTTAATATTTTTTAGTATTGTT
10333497 GAATAATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 16 0.59
30 11 0.41
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (29 bp):
ATTTTTTGTTAATATTTTTTAGTATTGTT
Found at i:10333539 original size:20 final size:20
Alignment explanation
Indices: 10333502--10333540 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10333492 TTGTTGAATA
*
10333502 ATTTTTTTTATTTGTTTAGT
1 ATTTTTTTGATTTGTTTAGT
10333522 ATTTTTTTAGATTT-TTTAG
1 ATTTTTTT-GATTTGTTTAG
10333541 GTTTTATTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.18, C:0.00, G:0.10, T:0.72
Consensus pattern (20 bp):
ATTTTTTTGATTTGTTTAGT
Found at i:10333552 original size:16 final size:17
Alignment explanation
Indices: 10333533--10333565 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10333523 TTTTTTTAGA
*
10333533 TTTTTTA-GGTTTTATT
1 TTTTTTATGGATTTATT
10333549 TTTTTTATGGATTTATT
1 TTTTTTATGGATTTATT
10333566 AACTTTTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.15, C:0.00, G:0.12, T:0.73
Consensus pattern (17 bp):
TTTTTTATGGATTTATT
Found at i:10337858 original size:13 final size:14
Alignment explanation
Indices: 10337834--10337864 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
10337824 ATGAATACTA
10337834 AAAAATACATAAAT
1 AAAAATACATAAAT
10337848 AAAAATA-ATAAAT
1 AAAAATACATAAAT
10337861 AAAA
1 AAAA
10337865 CATTCCATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.19
Consensus pattern (14 bp):
AAAAATACATAAAT
Found at i:10341111 original size:55 final size:55
Alignment explanation
Indices: 10340988--10341131 Score: 128
Period size: 55 Copynumber: 2.5 Consensus size: 55
10340978 AACAAAAATA
* ** *
10340988 TAACCAAAATC-CAAACAAATTTTAACAAATATAAAACCAACAAAAGCTCAACAAATTGG
1 TAACCAAAA-CACAAACAAATTTCAACAAATA-ATTAGC-A-AAAA-CTCAACAAATTGG
* * * * *
10341047 TAACCAAAACCCAAATAAATTTTAACAAATAATTAGCAAAAACTCAATACATTGG
1 TAACCAAAACACAAACAAATTTCAACAAATAATTAGCAAAAACTCAACAAATTGG
** *
10341102 TAATTAAAACAGAAACAAATTTCAACAAAT
1 TAACCAAAACACAAACAAATTTCAACAAAT
10341132 TTATAACAAA
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
55 35 0.49
56 4 0.06
57 1 0.01
58 4 0.06
59 28 0.39
ACGTcount: A:0.56, C:0.18, G:0.05, T:0.22
Consensus pattern (55 bp):
TAACCAAAACACAAACAAATTTCAACAAATAATTAGCAAAAACTCAACAAATTGG
Found at i:10354967 original size:341 final size:339
Alignment explanation
Indices: 10354370--10355272 Score: 1050
Period size: 341 Copynumber: 2.7 Consensus size: 339
10354360 ACTGCAAATA
* * * *
10354370 ATTGAAGGTATTTTTGGA-AGAAAATGCCTCGAATAATCCCTTTTAAAAAATT-AGAGGGGATTA
1 ATTGAAGGTATTTTTCGATAGAAAATACCTCGAATAATCCC-CTTAAAAAATTGA-AGGAGATTA
** * * *
10354433 TTAAATATATTTTTGGTTAAAAACACCTTTAATAATCCAAGAATTATTCAAGGCATTTTTGGCTA
64 TTAAAGGTATTTTTGGCTAAAAACACCTTCAATAATCCAAGAATTATTCAAGACATTTTTGGCTA
* *** * ***
10354498 GAAATGCCTTCAATAACCCCATTCAATATTTTATTAGGGATTATTCAAGACGTTATCTAAACAAA
129 GAAATGCCTTCAATAA-CCCATTCAATATTTTGTTAGGGATTATTCAAGGTATTTTCTGGGCAAA
* * * ** *
10354563 AATGCGTTCAATAATCTCTTCATAAATGCCTTAAGGTGATTATTTAAGGCGTTTTTGGTCATAAA
193 AATGCCTTCAATAATCTCTTCATAAATGCATGAAGGAAATTATTCAAGGCGTTTTTGGTCATAAA
* * * * * *
10354628 CGCCTTGACTAACTCCAAAGGATTATTCGAGGCATTTTATCACAAAAATGCCTTGAATGATCCTA
258 CGCCTTGACTAACCCCAAAGGATTATTCAAAGCACTTTATCACAAAAATGCCTTAAATGATCCCA
10354693 AAAAA-GAGGAAAAAGATT
323 AAAAATGA-G-AAAAGATT
* *
10354711 ATTGAAGGCATTTTT-GATAGAAAATACCTCGAGTAATCCCCTCTAAAAAATTGAAGGAGATTAT
1 ATTGAAGGTATTTTTCGATAGAAAATACCTCGAATAATCCCCT-TAAAAAATTGAAGGAGATTAT
*
10354775 TGAAGGTATTTTTGGCTAAAAACACCTTCAATAATCCAAGAATTATTCAAGACATTTTTGGCTAG
65 TAAAGGTATTTTTGGCTAAAAACACCTTCAATAATCCAAGAATTATTCAAGACATTTTTGGCTAG
* *
10354840 AAATGCCTTCAATAACTCCATTCAATATTTTGTTAAGGATTATTGAAGGTATTTTCTGGGCAAAA
130 AAATGCCTTCAATAAC-CCATTCAATATTTTGTTAGGGATTATTCAAGGTATTTTCTGGGCAAAA
* *
10354905 ATGCCTTCAATAATCTCCTT-GTAAATGCATGAAGGAAATTATTCAAGGCGTTTTTTGTCATAAA
194 ATGCCTTCAATAATCT-CTTCATAAATGCATGAAGGAAATTATTCAAGGCGTTTTTGGTCATAAA
* *
10354969 TGCCTTGACTAACCCCAATGGATTATTCAAAGCACTTTATCACAAAAATGCCTTAAATGATCCCA
258 CGCCTTGACTAACCCCAAAGGATTATTCAAAGCACTTTATCACAAAAATGCCTTAAATGATCCCA
***
10355034 AAAAATGAGAGGGGATT
323 AAAAATGAGAAAAGATT
* * * *
10355051 ATTGAAGGTATTTTTCG-TATAAAACACCTCGAATAATCCTCTTAAAAAAATTGAA-AAGGATTA
1 ATTGAAGGTATTTTTCGATAGAAAATACCTCGAATAATCCCCTT-AAAAAATTGAAGGA-GATTA
** ** * * ** * * * *
10355114 TTAAAGGCGTTTTTAACCAACAACGTCTTCAATAATCTAGGAATTATTCAA-AGTATTTTTGGCC
64 TTAAAGGTATTTTTGGCTAAAAACACCTTCAATAATCCAAGAATTATTCAAGA-CATTTTTGGCT
* * *
10355178 AGAAATGCCTTTAATAACCCTATTCAATATTTTGTTGGGGATTATTCAAGGTATTTTTTGGGCAA
128 AGAAATGCCTTCAATAACCC-ATTCAATATTTTGTTAGGGATTATTCAAGGTATTTTCTGGGCAA
* * * *
10355243 AAACGCATTGAATAGTCT-TATCATAAATGC
192 AAATGCCTTCAATAATCTCT-TCATAAATGC
10355273 CTTTAGGGGA
Statistics
Matches: 480, Mismatches: 69, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
338 1 0.00
339 6 0.01
340 187 0.39
341 280 0.58
342 6 0.01
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.33
Consensus pattern (339 bp):
ATTGAAGGTATTTTTCGATAGAAAATACCTCGAATAATCCCCTTAAAAAATTGAAGGAGATTATT
AAAGGTATTTTTGGCTAAAAACACCTTCAATAATCCAAGAATTATTCAAGACATTTTTGGCTAGA
AATGCCTTCAATAACCCATTCAATATTTTGTTAGGGATTATTCAAGGTATTTTCTGGGCAAAAAT
GCCTTCAATAATCTCTTCATAAATGCATGAAGGAAATTATTCAAGGCGTTTTTGGTCATAAACGC
CTTGACTAACCCCAAAGGATTATTCAAAGCACTTTATCACAAAAATGCCTTAAATGATCCCAAAA
AATGAGAAAAGATT
Found at i:10355335 original size:64 final size:64
Alignment explanation
Indices: 10355214--10355332 Score: 143
Period size: 64 Copynumber: 1.9 Consensus size: 64
10355204 ATATTTTGTT
* ** ** *
10355214 GGGGATTATTCAAGGTATTTTTTGGGCAAAAACGCATTGAATAGTCTTATCATAAATGCCTTTA
1 GGGGATTATTCAAGGTATTTTATGCACAAAAACGCATTGAATAGTCTTAAAAAAAATGCCTTTA
* *
10355278 GGGGATTATTCAAGGTATTTTAT-CACAAAAATGCCTTGAATTA-TCTTAAAAAAAA
1 GGGGATTATTCAAGGTATTTTATGCACAAAAACGCATTGAA-TAGTCTTAAAAAAAA
10355333 ATGAAAGAGG
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
63 22 0.48
64 24 0.52
ACGTcount: A:0.36, C:0.12, G:0.18, T:0.34
Consensus pattern (64 bp):
GGGGATTATTCAAGGTATTTTATGCACAAAAACGCATTGAATAGTCTTAAAAAAAATGCCTTTA
Found at i:10355409 original size:62 final size:63
Alignment explanation
Indices: 10355340--10355459 Score: 152
Period size: 62 Copynumber: 1.9 Consensus size: 63
10355330 AAAATGAAAG
* * * *
10355340 AGGATTATTGAAGGCATTTTTAACGAAAAATACCTTGAATAATCCCCTC-TAAAAAATTGGAA
1 AGGATTATTGAAAGCATTTTTAACCAAAAACACCTTGAATAATCCACTCATAAAAAATTGGAA
* * * * *
10355402 AGGATTATTTAAAGTATTTTTGACCAAAAACGCCTTGAATAATCTACTCATAAAAAAT
1 AGGATTATTGAAAGCATTTTTAACCAAAAACACCTTGAATAATCCACTCATAAAAAAT
10355460 ATAAGGGGAT
Statistics
Matches: 48, Mismatches: 9, Indels: 1
0.83 0.16 0.02
Matches are distributed among these distances:
62 40 0.83
63 8 0.17
ACGTcount: A:0.42, C:0.14, G:0.12, T:0.31
Consensus pattern (63 bp):
AGGATTATTGAAAGCATTTTTAACCAAAAACACCTTGAATAATCCACTCATAAAAAATTGGAA
Found at i:10360740 original size:25 final size:25
Alignment explanation
Indices: 10360706--10360759 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
10360696 GTGAAAAACG
*
10360706 TTAGAGGTATCAATACGATAATGTT
1 TTAGAGGTATCAATACAATAATGTT
*
10360731 TTAGAGGTATCGATACAATAATGTT
1 TTAGAGGTATCAATACAATAATGTT
10360756 TTAG
1 TTAG
10360760 TTGCTAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.35, C:0.07, G:0.20, T:0.37
Consensus pattern (25 bp):
TTAGAGGTATCAATACAATAATGTT
Found at i:10362610 original size:68 final size:68
Alignment explanation
Indices: 10362497--10362623 Score: 191
Period size: 68 Copynumber: 1.9 Consensus size: 68
10362487 GCATTACACT
* * * * *
10362497 AATGAATAGGATGTTTATAAAATAATTTTTATTGGTATATAAATGGATTATTACCTTCTGCATTT
1 AATGAATAAGATGTTTATAAAATAATTTCTACTGGAATATAAATGGATAATTACCTTCTGCATTT
10362562 ATG
66 ATG
* *
10362565 AATGAATAAGATGTTTATAAAATTATTTCTACTGGAATATGAATGGATAATTACCTTCT
1 AATGAATAAGATGTTTATAAAATAATTTCTACTGGAATATAAATGGATAATTACCTTCT
10362624 TAGCTTTTGT
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
68 52 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (68 bp):
AATGAATAAGATGTTTATAAAATAATTTCTACTGGAATATAAATGGATAATTACCTTCTGCATTT
ATG
Found at i:10363171 original size:15 final size:15
Alignment explanation
Indices: 10363151--10363186 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
10363141 GGTGTAACTC
* *
10363151 TTTATCTATGTTTGT
1 TTTATCGATATTTGT
10363166 TTTATCGATATTTGT
1 TTTATCGATATTTGT
10363181 TTTATC
1 TTTATC
10363187 AAACTTGGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.17, C:0.08, G:0.11, T:0.64
Consensus pattern (15 bp):
TTTATCGATATTTGT
Found at i:10363540 original size:55 final size:55
Alignment explanation
Indices: 10363463--10363596 Score: 169
Period size: 55 Copynumber: 2.4 Consensus size: 55
10363453 AATATAATAA
* *
10363463 AAAATTAAAACATATAAGTCTATACTGACAATATCTAACCGTTAGTAAAGGTAAG
1 AAAATTAAAAAATACAAGTCTATACTGACAATATCTAACCGTTAGTAAAGGTAAG
* * * * * * * * *
10363518 AAAATTAAAATATACAATTCTATACTGATAGTTTCTAACTGTTGGTATATGTAAG
1 AAAATTAAAAAATACAAGTCTATACTGACAATATCTAACCGTTAGTAAAGGTAAG
10363573 AAAATTAAAAAATACAAGTCTATA
1 AAAATTAAAAAATACAAGTCTATA
10363597 TTGATGGATG
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
55 67 1.00
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.31
Consensus pattern (55 bp):
AAAATTAAAAAATACAAGTCTATACTGACAATATCTAACCGTTAGTAAAGGTAAG
Found at i:10363627 original size:55 final size:55
Alignment explanation
Indices: 10363463--10363631 Score: 153
Period size: 55 Copynumber: 3.1 Consensus size: 55
10363453 AATATAATAA
* * * * * * *
10363463 AAAATTAAAACATATAAGTCTATACTGACA-ATATCTAACCGT-TAGTAAAGGTAAG
1 AAAATTAAAAAATACAAGTCTATACTGATAGAT-GCTAACTGTCGA-TATAGGTAAG
* * * * * * *
10363518 AAAATTAAAATATACAATTCTATACTGATAGTTTCTAACTGTTGGTATATGTAAG
1 AAAATTAAAAAATACAAGTCTATACTGATAGATGCTAACTGTCGATATAGGTAAG
* * *
10363573 AAAATTAAAAAATACAAGTCTATATTGATGGATGCTAAGTGTCGATATAGGTAAG
1 AAAATTAAAAAATACAAGTCTATACTGATAGATGCTAACTGTCGATATAGGTAAG
10363628 AAAA
1 AAAA
10363632 ATTATAAGTC
Statistics
Matches: 92, Mismatches: 20, Indels: 4
0.79 0.17 0.03
Matches are distributed among these distances:
55 91 0.99
56 1 0.01
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.31
Consensus pattern (55 bp):
AAAATTAAAAAATACAAGTCTATACTGATAGATGCTAACTGTCGATATAGGTAAG
Found at i:10363780 original size:55 final size:55
Alignment explanation
Indices: 10363665--10363796 Score: 158
Period size: 55 Copynumber: 2.4 Consensus size: 55
10363655 TTAACGATCA
* * *
10363665 GTATAGGTCAAAAAAATTAAATCATATAAGTCTATACTAACGGGCGCTAGCCATAG
1 GTATAGGT-AAAAAAATTAAAACATATAAATCTATACTAAAGGGCGCTAGCCATAG
* * ** **
10363721 GTATATGTAAGAAAATTAAAACATATAAATCTATACTAAAGGGCTTTAAGCGTTA-
1 GTATAGGTAAAAAAATTAAAACATATAAATCTATACTAAAGGGCGCT-AGCCATAG
10363776 GTATAGGTAAAAAAATTAAAA
1 GTATAGGTAAAAAAATTAAAA
10363797 GTCTATACTG
Statistics
Matches: 64, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
55 52 0.81
56 12 0.19
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (55 bp):
GTATAGGTAAAAAAATTAAAACATATAAATCTATACTAAAGGGCGCTAGCCATAG
Found at i:10367992 original size:25 final size:25
Alignment explanation
Indices: 10367937--10368002 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 25
10367927 TCTTAAACCA
**
10367937 AGCTCTTCCCATATCTCGAACTGTC
1 AGCTCTTCCCATATCTCGAACCATC
* * *
10367962 AACTCTTCTCATGTCTCGAACCATC
1 AGCTCTTCCCATATCTCGAACCATC
*
10367987 AGCTCTTCCCACATCT
1 AGCTCTTCCCATATCT
10368003 TGAATCTTCA
Statistics
Matches: 32, Mismatches: 9, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.21, C:0.38, G:0.09, T:0.32
Consensus pattern (25 bp):
AGCTCTTCCCATATCTCGAACCATC
Found at i:10368013 original size:25 final size:25
Alignment explanation
Indices: 10367937--10368042 Score: 70
Period size: 25 Copynumber: 4.2 Consensus size: 25
10367927 TCTTAAACCA
* *
10367937 AGCTCTTCCCATATCTCGAA-CTGTC
1 AGCTCTTCCCACATCTTGAACCT-TC
* * ** * *
10367962 AACTCTTCTCATGTCTCGAACCATC
1 AGCTCTTCCCACATCTTGAACCTTC
*
10367987 AGCTCTTCCCACATCTTGAATCTTC
1 AGCTCTTCCCACATCTTGAACCTTC
* ** * *
10368012 AGCTTTTCTTACGTTTTGAACCTTC
1 AGCTCTTCCCACATCTTGAACCTTC
10368037 AGCTCT
1 AGCTCT
10368043 GATACCACTT
Statistics
Matches: 62, Mismatches: 18, Indels: 2
0.76 0.22 0.02
Matches are distributed among these distances:
25 61 0.98
26 1 0.02
ACGTcount: A:0.20, C:0.33, G:0.10, T:0.37
Consensus pattern (25 bp):
AGCTCTTCCCACATCTTGAACCTTC
Found at i:10371143 original size:19 final size:19
Alignment explanation
Indices: 10371106--10371141 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
10371096 AAAACATTAC
10371106 AATAAAATGATAAATTATA
1 AATAAAATGATAAATTATA
10371125 AATAAAAT-AT-AATTATA
1 AATAAAATGATAAATTATA
10371142 TATGATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
18 2 0.12
19 8 0.47
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AATAAAATGATAAATTATA
Found at i:10371152 original size:21 final size:21
Alignment explanation
Indices: 10371127--10371207 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
10371117 AAATTATAAA
*
10371127 TAAAATATAATTA-TATATGAT
1 TAAAATATAAATATTAT-TGAT
*
10371148 TAAAAAATAAATATTATTGAT
1 TAAAATATAAATATTATTGAT
* * *
10371169 AAAAATATTAACTATTATTGAA
1 TAAAATA-TAAATATTATTGAT
* * *
10371191 GAAATTTTAAATATTAT
1 TAAAATATAAATATTAT
10371208 CGATAATTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
21 29 0.60
22 19 0.40
ACGTcount: A:0.53, C:0.01, G:0.05, T:0.41
Consensus pattern (21 bp):
TAAAATATAAATATTATTGAT
Found at i:10371172 original size:19 final size:21
Alignment explanation
Indices: 10371128--10371189 Score: 65
Period size: 22 Copynumber: 2.9 Consensus size: 21
10371118 AATTATAAAT
*
10371128 AAAATATAATTA-TATATGATTA
1 AAAATATAACTATTAT-TGA-TA
*
10371150 AAAA-ATAAATATTATTGATA
1 AAAATATAACTATTATTGATA
10371170 AAAATATTAACTATTATTGA
1 AAAATA-TAACTATTATTGA
10371190 AGAAATTTTA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 6 0.17
21 10 0.29
22 19 0.54
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.39
Consensus pattern (21 bp):
AAAATATAACTATTATTGATA
Found at i:10371187 original size:22 final size:22
Alignment explanation
Indices: 10371148--10371213 Score: 75
Period size: 21 Copynumber: 3.1 Consensus size: 22
10371138 TATATATGAT
10371148 TAAAAA-A-TAAATATTATTGA
1 TAAAAATATTAAATATTATTGA
*
10371168 TAAAAATATTAACTATTATTGA
1 TAAAAATATTAAATATTATTGA
* * *
10371190 -AGAAATTTTAAATATTATCGA
1 TAAAAATATTAAATATTATTGA
10371211 TAA
1 TAA
10371214 TTTTTTTTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
20 6 0.16
21 18 0.49
22 13 0.35
ACGTcount: A:0.53, C:0.03, G:0.06, T:0.38
Consensus pattern (22 bp):
TAAAAATATTAAATATTATTGA
Found at i:10371924 original size:6 final size:6
Alignment explanation
Indices: 10371909--10371967 Score: 57
Period size: 6 Copynumber: 9.2 Consensus size: 6
10371899 ATTTATTAAT
*
10371909 AATA-A AATATA AATATA AATATA AATATA TAATAATAA AACTTATA ATTATA
1 AATATA AATATA AATATA AATATA AATATA -AAT-AT-A AA--TATA AATATA
10371961 AATATA A
1 AATATA A
10371968 TAATATGTAA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
5 4 0.09
6 29 0.63
7 3 0.07
8 6 0.13
9 3 0.07
10 1 0.02
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (6 bp):
AATATA
Found at i:10371962 original size:35 final size:34
Alignment explanation
Indices: 10371896--10371967 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 34
10371886 AAAAATATAT
*
10371896 TAAATTTATTAATAATAAAATATAAATATAAATA
1 TAAATATATTAATAATAAAATATAAATATAAATA
*
10371930 TAAATATA-TAATAATAAAACTTATAATTATAAATA
1 TAAATATATTAATAATAAAA--TATAAATATAAATA
10371965 TAA
1 TAA
10371968 TAATATGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 11 0.32
34 7 0.21
35 16 0.47
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (34 bp):
TAAATATATTAATAATAAAATATAAATATAAATA
Found at i:10372176 original size:20 final size:19
Alignment explanation
Indices: 10372127--10372176 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
10372117 TAAAAATCAC
* *
10372127 AAAAATATAATTTTTAAATA
1 AAAAATA-AATTTTAAAACA
10372147 AAAAATTAAATTTTAAAACA
1 AAAAA-TAAATTTTAAAACA
10372167 ATAAAATAAA
1 A-AAAATAAA
10372177 GATATTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
20 20 0.77
21 6 0.23
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATAAATTTTAAAACA
Found at i:10373703 original size:21 final size:20
Alignment explanation
Indices: 10373651--10373706 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
10373641 GGGCAATCAA
*
10373651 AATTAATTAATAATTGAATT
1 AATTAATTAATAATTAAATT
*
10373671 AATTATTTTAATAATTAATATT
1 AATTA-ATTAATAATTAA-ATT
10373693 AA-TAATATAATAAT
1 AATTAAT-TAATAAT
10373707 ATTATTTTCA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 6 0.20
21 19 0.63
22 5 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (20 bp):
AATTAATTAATAATTAAATT
Found at i:10373870 original size:23 final size:24
Alignment explanation
Indices: 10373844--10373893 Score: 61
Period size: 22 Copynumber: 2.2 Consensus size: 24
10373834 GTTATGATTT
*
10373844 AATAATAGATATTTTCAATA-TA-A
1 AATAATAAATATTTT-AATAGTATA
10373867 AAT-ATAAATATTTTAATAGTATA
1 AATAATAAATATTTTAATAGTATA
10373890 AATA
1 AATA
10373894 TTTTAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 4 0.17
22 12 0.52
23 7 0.30
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (24 bp):
AATAATAAATATTTTAATAGTATA
Found at i:10373880 original size:22 final size:23
Alignment explanation
Indices: 10373852--10373894 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
10373842 TTAATAATAG
10373852 ATATTTTCAATA-TA-AAATATAA
1 ATATTTT-AATAGTATAAATATAA
10373874 ATATTTTAATAGTATAAATAT
1 ATATTTTAATAGTATAAATAT
10373895 TTTAATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 4 0.21
22 9 0.47
23 6 0.32
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.44
Consensus pattern (23 bp):
ATATTTTAATAGTATAAATATAA
Found at i:10373891 original size:17 final size:16
Alignment explanation
Indices: 10373868--10373910 Score: 70
Period size: 17 Copynumber: 2.7 Consensus size: 16
10373858 TCAATATAAA
10373868 ATATAAATATTTTAAT
1 ATATAAATATTTTAAT
10373884 AGTATAAATATTTTAAT
1 A-TATAAATATTTTAAT
10373901 A-ATAAATATT
1 ATATAAATATT
10373911 ACTATTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 9 0.35
16 1 0.04
17 16 0.62
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
ATATAAATATTTTAAT
Found at i:10373930 original size:39 final size:40
Alignment explanation
Indices: 10373846--10373930 Score: 95
Period size: 38 Copynumber: 2.2 Consensus size: 40
10373836 TATGATTTAA
* *
10373846 TAATAGATATTTTCAATATAAAATATAAATATTTTAATAG
1 TAATAAATATTTTCAATATAAAATATAAATATTTCAATAG
* * *
10373886 T-ATAAATATTTT-AATA-ATAAATATTACTATTTCAATAT
1 TAATAAATATTTTCAATATA-AAATATAAATATTTCAATAG
10373924 TAATAAA
1 TAATAAA
10373931 AATAATATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
37 1 0.03
38 21 0.55
39 15 0.39
40 1 0.03
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.44
Consensus pattern (40 bp):
TAATAAATATTTTCAATATAAAATATAAATATTTCAATAG
Found at i:10374061 original size:20 final size:19
Alignment explanation
Indices: 10374019--10374056 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
10374009 AGTATTGTTT
10374019 ATATTAATATAATATTTTA
1 ATATTAATATAATATTTTA
*
10374038 ATATTAA-ATATTATTTTA
1 ATATTAATATAATATTTTA
10374056 A
1 A
10374057 AATATAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
ATATTAATATAATATTTTA
Found at i:10374576 original size:23 final size:23
Alignment explanation
Indices: 10374544--10374590 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
10374534 ACTGCCGATT
* *
10374544 AAAGATGAAGAAAGTATAGGGAG
1 AAAGAGGAAGAAAGAATAGGGAG
10374567 AAAGAGGAAGAAAGAATAGGGAG
1 AAAGAGGAAGAAAGAATAGGGAG
10374590 A
1 A
10374591 GACAAGGAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.36, T:0.09
Consensus pattern (23 bp):
AAAGAGGAAGAAAGAATAGGGAG
Found at i:10376396 original size:20 final size:20
Alignment explanation
Indices: 10376368--10376405 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
10376358 GAAACATAAT
10376368 CTTTATTAAATAACAAAGTA
1 CTTTATTAAATAACAAAGTA
*
10376388 CTTTTTTAAATAACAAAG
1 CTTTATTAAATAACAAAG
10376406 ATCATGTTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.37
Consensus pattern (20 bp):
CTTTATTAAATAACAAAGTA
Found at i:10377032 original size:18 final size:18
Alignment explanation
Indices: 10377009--10377048 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10376999 TTTAGGGTCC
10377009 TATAAAAATAGTGTTTAA
1 TATAAAAATAGTGTTTAA
* * *
10377027 TATAAACATTGTGTTTGA
1 TATAAAAATAGTGTTTAA
10377045 TATA
1 TATA
10377049 TGTTTCATCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.03, G:0.12, T:0.42
Consensus pattern (18 bp):
TATAAAAATAGTGTTTAA
Found at i:10377214 original size:34 final size:33
Alignment explanation
Indices: 10377114--10377220 Score: 108
Period size: 34 Copynumber: 3.2 Consensus size: 33
10377104 CTTGAAAACC
* * **
10377114 ATTTTTAAGAACTTTGAAAGCTTATTGGAAATCT
1 ATTTTCAAAAACTTTGAAAGCTT-TTGGAAATGA
*
10377148 ATTTTCAAAAACTTTGAAATCTTTTTGGAAATGA
1 ATTTTCAAAAACTTTGAAAGC-TTTTGGAAATGA
* *
10377182 ATTTT-AAAAAGCCTTTTAAAGCTTTTGGAAATGG
1 ATTTTCAAAAA--CTTTGAAAGCTTTTGGAAATGA
10377216 ATTTT
1 ATTTT
10377221 TGAAAGTTTT
Statistics
Matches: 62, Mismatches: 8, Indels: 6
0.82 0.11 0.08
Matches are distributed among these distances:
33 5 0.08
34 47 0.76
35 10 0.16
ACGTcount: A:0.36, C:0.08, G:0.14, T:0.42
Consensus pattern (33 bp):
ATTTTCAAAAACTTTGAAAGCTTTTGGAAATGA
Found at i:10378701 original size:25 final size:25
Alignment explanation
Indices: 10378667--10378717 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
10378657 AACCTAAAAA
10378667 TATGATTGCATAGTGCCCCACTATG
1 TATGATTGCATAGTGCCCCACTATG
* *
10378692 TATGATTGCATATTGTCCCACTATG
1 TATGATTGCATAGTGCCCCACTATG
10378717 T
1 T
10378718 TTGTTGGGAC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.37
Consensus pattern (25 bp):
TATGATTGCATAGTGCCCCACTATG
Found at i:10379539 original size:18 final size:16
Alignment explanation
Indices: 10379506--10379548 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 16
10379496 TGTTAATGTT
*
10379506 AATTTTCTTTTAAATG
1 AATTTTTTTTTAAATG
10379522 AATTTTTTTTTAGTAATG
1 AATTTTTTTTTA--AATG
10379540 ACATTTTTT
1 A-ATTTTTT
10379549 CAATTCTAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 11 0.48
18 5 0.22
19 7 0.30
ACGTcount: A:0.28, C:0.05, G:0.07, T:0.60
Consensus pattern (16 bp):
AATTTTTTTTTAAATG
Found at i:10380430 original size:21 final size:21
Alignment explanation
Indices: 10380406--10380445 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
10380396 TTTATCAAAG
10380406 TTTTTTTT-TAGTTTTTATTTA
1 TTTTTTTTGT-GTTTTTATTTA
10380427 TTTTTTTTGTGTTTTTATT
1 TTTTTTTTGTGTTTTTATT
10380446 GTTCCTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.10, C:0.00, G:0.07, T:0.82
Consensus pattern (21 bp):
TTTTTTTTGTGTTTTTATTTA
Found at i:10382281 original size:18 final size:19
Alignment explanation
Indices: 10382258--10382304 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
10382248 AAAAGGTACT
10382258 AAAAAAATGAAAA-AAAA-G
1 AAAAAAAT-AAAACAAAACG
10382276 AAAAAAATAAAACAAAACG
1 AAAAAAATAAAACAAAACG
*
10382295 AAAATAATAA
1 AAAAAAATAA
10382305 TAATAATAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 4 0.15
18 12 0.46
19 10 0.38
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (19 bp):
AAAAAAATAAAACAAAACG
Found at i:10382292 original size:19 final size:18
Alignment explanation
Indices: 10382258--10382304 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
10382248 AAAAGGTACT
*
10382258 AAAAAAATGAAAAAAAAG
1 AAAAAAATAAAAAAAAAG
*
10382276 AAAAAAATAAAACAAAACG
1 AAAAAAATAAAA-AAAAAG
*
10382295 AAAATAATAA
1 AAAAAAATAA
10382305 TAATAATAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
18 11 0.44
19 14 0.56
ACGTcount: A:0.81, C:0.04, G:0.06, T:0.09
Consensus pattern (18 bp):
AAAAAAATAAAAAAAAAG
Found at i:10382305 original size:3 final size:3
Alignment explanation
Indices: 10382297--10382350 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
10382287 ACAAAACGAA
10382297 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
10382345 AAT AAT
1 AAT AAT
10382351 GGGTGTTTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:10382652 original size:53 final size:52
Alignment explanation
Indices: 10382594--10382732 Score: 151
Period size: 53 Copynumber: 2.7 Consensus size: 52
10382584 GGTTTAACAA
* * *
10382594 TTTTAAAAATCTTTTATCTTGAAAAAAGCTCATCTAGGA-AGACGTTCAATAAC
1 TTTTAAAAAT-TTTCATCTTGAAAAAAGCTCTTCTA-GATACACGTTCAATAAC
* * * *
10382647 TTTTAAAAAAATCTCATCTTGAAAAGAA-CTTTTCTAGATACAGGTTCAATAAC
1 TTTT-AAAAATTTTCATCTTGAAAA-AAGCTCTTCTAGATACACGTTCAATAAC
10382700 -TTT-AAAATTTTCATCTTGAAAAAAGCTCTTCTA
1 TTTTAAAAATTTTCATCTTGAAAAAAGCTCTTCTA
10382733 AGCAGAGGTT
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
49 2 0.03
50 24 0.33
52 5 0.07
53 34 0.47
54 7 0.10
ACGTcount: A:0.40, C:0.15, G:0.09, T:0.36
Consensus pattern (52 bp):
TTTTAAAAATTTTCATCTTGAAAAAAGCTCTTCTAGATACACGTTCAATAAC
Found at i:10382742 original size:50 final size:50
Alignment explanation
Indices: 10382569--10383356 Score: 244
Period size: 50 Copynumber: 16.3 Consensus size: 50
10382559 AATTTGAAAG
* * * * *
10382569 GCTCCTCTAAGTAGAGGTTTAACAATTTTAAAAATCTTTTATCTTGAAAAAA
1 GCTCTTCTAAGCAGAGGTTCAACAACTTT-AAAAT-TTTCATCTTGAAAAAA
* * * * * * *
10382621 GCTCATCTAGGAAGACGTTCAATAACTTTTAAAAAAATCTCATCTTGAAAAGAA
1 GCTCTTCTAAGCAGAGGTTCAACAAC-TTT--AAAATTTTCATCTTGAAAA-AA
* * * *
10382675 -CTTTTCT-AGATACAGGTTCAATAACTTTAAAATTTTCATCTTGAAAAAA
1 GCTCTTCTAAG-CAGAGGTTCAACAACTTTAAAATTTTCATCTTGAAAAAA
* *
10382724 GCTCTTCTAAGCAGAGGTT-------TTTAAAA-TTTCATTTTGAAAAAG
1 GCTCTTCTAAGCAGAGGTTCAACAACTTTAAAATTTTCATCTTGAAAAAA
* * * *
10382766 GCTCTTCTAAGCAAAGGCTCAATAATTTTAAAATTTTCATCTT-AAAAAGA
1 GCTCTTCTAAGCAGAGGTTCAACAACTTTAAAATTTTCATCTTGAAAAA-A
* * * * * *
10382816 GTTCCTCT-AGATAGAAGCTT-AATAACTTTAAAAATTTT-AT-TTTAAAAAA
1 GCTCTTCTAAG-CAG-AGGTTCAACAACTTT-AAAATTTTCATCTTGAAAAAA
* * * *
10382865 -CTCTTTTAGGCAGAGGCTT-AACAACTTAAAAAAAAATCTT-ATCTTGAAAAAA
1 GCTCTTCTAAGCAGAGG-TTCAACAACTT----TAAAATTTTCATCTTGAAAAAA
* * * * *
10382917 GTTCTTCT-AGATAGAAGCTCAACAACTTTAAAAATTTT-ATCTT-AAAAAGG
1 GCTCTTCTAAG-CAGAGGTTCAACAACTTT-AAAATTTTCATCTTGAAAAA-A
* * * * *
10382967 GAT-TCTCTAAGCAGAGGTTTAACAACTTTAAAAATCTCATTTTG-AAAAA
1 GCTCT-TCTAAGCAGAGGTTCAACAACTTTAAAATTTTCATCTTGAAAAAA
* * *
10383016 GGTGCTTCT--------G--C-ACAACTTTAAAAATTTCATCTTGAAAAGA
1 GCT-CTTCTAAGCAGAGGTTCAACAACTTTAAAATTTTCATCTTGAAAAAA
* * * * * * *
10383056 GCTCTT-TTAGACAAAGGCTT-AATAACTTTAAAAATCTCATTTTGAAAAAG
1 GCTCTTCTAAG-CAGAGG-TTCAACAACTTTAAAATTTTCATCTTGAAAAAA
* * * * * *
10383106 GCCCCTCTAAGTATAGACTT-AACAACTTTAAAA-----ATCTT----ATA
1 GCTCTTCTAAGCAGAG-GTTCAACAACTTTAAAATTTTCATCTTGAAAAAA
* * * * * * *
10383147 -TTGTTCTAAGCATAGGTTTAACAACTTTAAAA-TCTGATCTTGAAAAAG
1 GCTCTTCTAAGCAGAGGTTCAACAACTTTAAAATTTTCATCTTGAAAAAA
* * *
10383195 GCT-TCTCTAAGCAGAGGCTCAACAAC-TTAAAAATTTCATCTTGAAAAAG
1 GCTCT-TCTAAGCAGAGGTTCAACAACTTTAAAATTTTCATCTTGAAAAAA
* * * *
10383244 GCTCCTT-TAAGTAAAGGCTCAACCACTTTAAAAATTTT-ATCTTGAAAAAA
1 GCT-CTTCTAAGCAGAGGTTCAACAACTTT-AAAATTTTCATCTTGAAAAAA
* * * *
10383294 GCTCTTCTAAGTAAAGATTCAACAACTTAAAAAATTTT-ATCTTGGAAAAAA
1 GCTCTTCTAAGCAGAGGTTCAACAACTT-TAAAATTTTCATCTT-GAAAAAA
*
10383345 -CTCCTCTAAGCA
1 GCTCTTCTAAGCA
10383357 AAAACTCAAT
Statistics
Matches: 556, Mismatches: 108, Indels: 146
0.69 0.13 0.18
Matches are distributed among these distances:
38 1 0.00
39 26 0.05
40 29 0.05
41 1 0.00
42 32 0.06
43 7 0.01
44 5 0.01
45 4 0.01
47 3 0.01
48 23 0.04
49 89 0.16
50 204 0.37
51 43 0.08
52 33 0.06
53 49 0.09
54 7 0.01
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.33
Consensus pattern (50 bp):
GCTCTTCTAAGCAGAGGTTCAACAACTTTAAAATTTTCATCTTGAAAAAA
Found at i:10383000 original size:101 final size:99
Alignment explanation
Indices: 10382795--10383024 Score: 250
Period size: 101 Copynumber: 2.3 Consensus size: 99
10382785 CAATAATTTT
* * * * *
10382795 AAAATTTTCATCTT-AAAAAGAGTTCCTCTAGATAGAAGCTTAATAACTTTAAAAATTTTATTTT
1 AAAATCTT-ATCTTGAAAAA-AGTTCTTCTAGATAGAAGCTCAACAACTTTAAAAATTTTATCTT
* *
10382859 AAAAAACTCTTTTAGGCAGAGGCTTAACAACTTAAAAA
64 AAAAAACTCTTCTAAGCAGAGGCTTAACAACTT--AAA
10382897 AAAATCTTATCTTGAAAAAAGTTCTTCTAGATAGAAGCTCAACAACTTTAAAAATTTTATCTTAA
1 AAAATCTTATCTTGAAAAAAGTTCTTCTAGATAGAAGCTCAACAACTTTAAAAATTTTATCTTAA
* * *
10382962 AAAGGGATTC-TCTAAGCAGAGGTTTAACAACTT-TA
66 AAA---ACTCTTCTAAGCAGAGGCTTAACAACTTAAA
* * * *
10382997 AAAATCTCATTTTGAAAAAGGTGCTTCT
1 AAAATCTTATCTTGAAAAAAGTTCTTCT
10383025 GCACAACTTT
Statistics
Matches: 110, Mismatches: 14, Indels: 10
0.82 0.10 0.07
Matches are distributed among these distances:
100 25 0.23
101 50 0.45
102 12 0.11
103 20 0.18
104 3 0.03
ACGTcount: A:0.41, C:0.13, G:0.11, T:0.34
Consensus pattern (99 bp):
AAAATCTTATCTTGAAAAAAGTTCTTCTAGATAGAAGCTCAACAACTTTAAAAATTTTATCTTAA
AAAACTCTTCTAAGCAGAGGCTTAACAACTTAAA
Found at i:10383034 original size:89 final size:89
Alignment explanation
Indices: 10382938--10383106 Score: 241
Period size: 89 Copynumber: 1.9 Consensus size: 89
10382928 TAGAAGCTCA
* * * * *
10382938 ACAACTTTAAAAATTTTATCTTAAAAAGGGATTCTCTAAG-CAGAGGTTTAACAACTTTAAAAAT
1 ACAACTTTAAAAATTTCATCTTAAAAAGAG-CTCTCTAAGACAAAGGCTTAACAACTTTAAAAAT
10383002 CTCATTTTGAAAAAGGTGCTTCTGC
65 CTCATTTTGAAAAAGGTGCTTCTGC
* * * *
10383027 ACAACTTTAAAAATTTCATCTTGAAAAGAGCTCTTTTAGACAAAGGCTTAATAACTTTAAAAATC
1 ACAACTTTAAAAATTTCATCTTAAAAAGAGCTCTCTAAGACAAAGGCTTAACAACTTTAAAAATC
10383092 TCATTTTGAAAAAGG
66 TCATTTTGAAAAAGG
10383107 CCCCTCTAAG
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
88 6 0.09
89 64 0.91
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (89 bp):
ACAACTTTAAAAATTTCATCTTAAAAAGAGCTCTCTAAGACAAAGGCTTAACAACTTTAAAAATC
TCATTTTGAAAAAGGTGCTTCTGC
Found at i:10383219 original size:49 final size:49
Alignment explanation
Indices: 10383027--10383439 Score: 222
Period size: 50 Copynumber: 8.4 Consensus size: 49
10383017 GTGCTTCTGC
* * *
10383027 ACAACTTTAAAAATTTCATCTTG-AAAAGAGCT-CTTTTAGACAAAGGCTTA
1 ACAACTTT-AAAATTTCATCTTGAAAAAG-GCTCCTCTAAG-CAAAGGCTCA
* * * * * * * *
10383077 ATAACTTTAAAAATCTCATTTTGAAAAAGGCCCCTCTAAGTATAGACTTA
1 ACAACTTT-AAAATTTCATCTTGAAAAAGGCTCCTCTAAGCAAAGGCTCA
* ** * * *
10383127 ACAACTTTAAAA----ATCTT--ATATTG-T--TCTAAGCATAGGTTTA
1 ACAACTTTAAAATTTCATCTTGAAAAAGGCTCCTCTAAGCAAAGGCTCA
* * * *
10383167 ACAACTTTAAAATCTGATCTTGAAAAAGGCTTCTCTAAGCAGAGGCTCA
1 ACAACTTTAAAATTTCATCTTGAAAAAGGCTCCTCTAAGCAAAGGCTCA
* * *
10383216 ACAACTTAAAAATTTCATCTTGAAAAAGGCTCCTTTAAGTAAAGGCTCA
1 ACAACTTTAAAATTTCATCTTGAAAAAGGCTCCTCTAAGCAAAGGCTCA
* * * * * **
10383265 ACCACTTTAAAAATTTTATCTTGAAAAAAGCTCTTCTAAGTAAAGATTCA
1 ACAACTTT-AAAATTTCATCTTGAAAAAGGCTCCTCTAAGCAAAGGCTCA
* * * **
10383315 ACAACTTAAAAAATTTTATCTTGGAAAAA-ACTCCTCTAAGCAAAAACTCA
1 ACAACTT-TAAAATTTCATCTT-GAAAAAGGCTCCTCTAAGCAAAGGCTCA
** * ** * * * *
10383365 ATGACTTTAAAAAAATTTCATTTTGAAAAAAACTCCTCTAAGTAAAAGTTTA
1 ACAACTTT---AAAATTTCATCTTGAAAAAGGCTCCTCTAAGCAAAGGCTCA
10383417 ACGAA-TTTAAAAATTTCATCTTG
1 AC-AACTTT-AAAATTTCATCTTG
10383440 TCTCGAAATT
Statistics
Matches: 286, Mismatches: 58, Indels: 38
0.75 0.15 0.10
Matches are distributed among these distances:
40 25 0.09
43 3 0.01
44 5 0.02
45 4 0.01
46 3 0.01
47 1 0.00
49 65 0.23
50 125 0.44
51 22 0.08
52 32 0.11
53 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.10, T:0.32
Consensus pattern (49 bp):
ACAACTTTAAAATTTCATCTTGAAAAAGGCTCCTCTAAGCAAAGGCTCA
Found at i:10383374 original size:100 final size:99
Alignment explanation
Indices: 10383170--10383439 Score: 251
Period size: 102 Copynumber: 2.7 Consensus size: 99
10383160 AGGTTTAACA
* * * * * *
10383170 ACTTT-AAAATCTGATCTTGAAAAAGGCT-TCTCTAAGCAGAGGCTCAACAACTTAAAAATTTCA
1 ACTTTAAAAATTTCATCTTGAAAAAAGCTCT-TCTAAGTAAAGACTCAACAACTTAAAAATTTCA
* * * **
10383233 TCTTGAAAAAGGCTCCTTTAAGTAAAGGCTCAACC
65 TCTTGAAAAAGACTCCTCTAAGCAAAAACTCAACC
* * *
10383268 ACTTTAAAAATTTTATCTTGAAAAAAGCTCTTCTAAGTAAAGATTCAACAACTTAAAAAATTTTA
1 ACTTTAAAAATTTCATCTTGAAAAAAGCTCTTCTAAGTAAAGACTCAACAACTT-AAAAATTTCA
**
10383333 TCTTGGAAAAA-ACTCCTCTAAGCAAAAACTCAATG
65 TCTT-GAAAAAGACTCCTCTAAGCAAAAACTCAACC
* * * * * *
10383368 ACTTTAAAAAAATTTCATTTTGAAAAAAACTCCTCTAAGTAAA-AGTTTAACGAATTTAAAAATT
1 ACTTT--AAAAATTTCATCTTGAAAAAAGCTCTTCTAAGTAAAGA-CTCAAC-AACTTAAAAATT
10383432 TCATCTTG
62 TCATCTTG
10383440 TCTCGAAATT
Statistics
Matches: 142, Mismatches: 22, Indels: 13
0.80 0.12 0.07
Matches are distributed among these distances:
98 5 0.04
99 39 0.27
100 36 0.25
101 8 0.06
102 50 0.35
103 4 0.03
ACGTcount: A:0.42, C:0.17, G:0.10, T:0.31
Consensus pattern (99 bp):
ACTTTAAAAATTTCATCTTGAAAAAAGCTCTTCTAAGTAAAGACTCAACAACTTAAAAATTTCAT
CTTGAAAAAGACTCCTCTAAGCAAAAACTCAACC
Found at i:10383429 original size:102 final size:101
Alignment explanation
Indices: 10383213--10383439 Score: 257
Period size: 102 Copynumber: 2.3 Consensus size: 101
10383203 AAGCAGAGGC
* * * **
10383213 TCAACAAC-TTAAAAATTTCATCTT-GAAAAAGGCTCCTTTAAGTAAAGGCTCAACCACTTTAAA
1 TCAACAACTTTAAAAATTTCATCTTGGAAAAAGACTCCTCTAAGCAAAAACTCAACCACTTTAAA
* * *
10383276 AATTTTATCTTGAAAAAAGCTCTTCTAAGTAAAGAT
66 AATTTCATCTTGAAAAAAACTCCTCTAAGTAAAGAT
* * **
10383312 TCAACAACTTAAAAAATTTTATCTTGGAAAAA-ACTCCTCTAAGCAAAAACTCAATGACTTTAAA
1 TCAACAACTTTAAAAATTTCATCTTGGAAAAAGACTCCTCTAAGCAAAAACTCAACCACTTT--A
*
10383376 AAAATTTCATTTTGAAAAAAACTCCTCTAAGTAAA-AGT
64 AAAATTTCATCTTGAAAAAAACTCCTCTAAGTAAAGA-T
*
10383414 TTAACGAA-TTTAAAAATTTCATCTTG
1 TCAAC-AACTTTAAAAATTTCATCTTG
10383440 TCTCGAAATT
Statistics
Matches: 106, Mismatches: 16, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
99 8 0.08
100 36 0.34
101 7 0.07
102 53 0.50
103 2 0.02
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.32
Consensus pattern (101 bp):
TCAACAACTTTAAAAATTTCATCTTGGAAAAAGACTCCTCTAAGCAAAAACTCAACCACTTTAAA
AATTTCATCTTGAAAAAAACTCCTCTAAGTAAAGAT
Found at i:10384840 original size:58 final size:55
Alignment explanation
Indices: 10384744--10385070 Score: 282
Period size: 58 Copynumber: 5.7 Consensus size: 55
10384734 TTTTGTGCAG
* * **
10384744 AGAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTTAAAAATTTTAATCTCGA
1 AGAAAATTGATACTTTCAACTTTTCCTCAAAA-ATTTTTTTAAAAA-TTT-ATTTTTA
* *
10384802 AAAAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTTGAAAATTTATTTTTAA
1 AGAAAATTGATACTTTCAACTTTTCCTCAAAAA-TTTTTTTAAAAATTTATTTTT-A
* * ** * * **
10384859 AGAAAATTGATGC-TTGATTTTTTCC-CAAAAATATTTTTTGAAAACCTTCATTTCGA
1 AGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-TTTTTT-AAAA-ATTTATTTTTA
* * **
10384915 AGAAAATTGATACTTTTAACTTTTCCTCAAAAACCGTTTTAAAAAAATTTATTTTTA
1 AGAAAATTGATACTTTCAACTTTTCCTCAAAAA--TTTTTTTAAAAATTTATTTTTA
* ** * * *
10384972 AGGAAAATTCATACTTTCAACTTTTTTTCAAAAATATTTTTAGACAGTTTATTTTTA
1 A-GAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTA-AAAATTTATTTTTA
10385029 AGGAAAATTGATACTTTCAACTTTTTCC-CAAAAATATTTTTT
1 A-GAAAATTGATACTTTCAAC-TTTTCCTCAAAAAT-TTTTTT
10385071 TTGGATTTTA
Statistics
Matches: 215, Mismatches: 41, Indels: 26
0.76 0.15 0.09
Matches are distributed among these distances:
54 1 0.00
55 12 0.06
56 32 0.15
57 78 0.36
58 88 0.41
59 4 0.02
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.43
Consensus pattern (55 bp):
AGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTAAAAATTTATTTTTA
Found at i:10384944 original size:113 final size:115
Alignment explanation
Indices: 10384764--10384980 Score: 303
Period size: 113 Copynumber: 1.9 Consensus size: 115
10384754 TACTTTCAAC
* **
10384764 TTTTCCCCAAAATATTTTTTTAAAAATTTTAATCTCGAAAAAAATTGATACTTTCAACTTTTCCT
1 TTTTCCCAAAAATATTTTTTTAAAAACCTTAATCTCGAAAAAAATTGATACTTTCAACTTTTCCT
* ***
10384829 CAAAAA-CTTTTTTTGAAAATTTATTTTTAAAGAAAATTGATGCTTGATT
66 CAAAAACCGTTTTAAAAAAATTTATTTTTAAAGAAAATTGATGCTTGATT
* * * * *
10384878 TTTTCCCAAAAATA-TTTTTTGAAAACCTTCATTTCGAAGAAAATTGATACTTTTAACTTTTCCT
1 TTTTCCCAAAAATATTTTTTTAAAAACCTTAATCTCGAAAAAAATTGATACTTTCAACTTTTCCT
*
10384942 CAAAAACCGTTTTAAAAAAATTTATTTTTAAGGAAAATT
66 CAAAAACCGTTTTAAAAAAATTTATTTTTAAAGAAAATT
10384981 CATACTTTCA
Statistics
Matches: 89, Mismatches: 13, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
113 49 0.55
114 40 0.45
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (115 bp):
TTTTCCCAAAAATATTTTTTTAAAAACCTTAATCTCGAAAAAAATTGATACTTTCAACTTTTCCT
CAAAAACCGTTTTAAAAAAATTTATTTTTAAAGAAAATTGATGCTTGATT
Found at i:10385045 original size:57 final size:57
Alignment explanation
Indices: 10384745--10385069 Score: 284
Period size: 57 Copynumber: 5.7 Consensus size: 57
10384735 TTTGTGCAGA
* * * * **
10384745 GAAAATTGATACTTTCAACTTTTCCCCAAAATATTTTTTTA-AAAATTTTAATCTCGAA-
1 GAAAATTGATACTTTCAACTTTTTCTCAAAA-ATATTTTTAGAAAA-TTT-ATTTTTAAG
* * * *
10384803 AAAAATTGATACTTTCAACTTTTCCTCAAAAACT-TTTTTTGAAAATTTATTTTTAAA
1 GAAAATTGATACTTTCAACTTTTTCTCAAAAA-TATTTTTAGAAAATTTATTTTTAAG
* * * * * * **
10384860 GAAAATTGATGC-TT-GATTTTTTCCCAAAAATATTTTTTGAAAACCTTCATTTCGAA-
1 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAGAAAA--TTTATTTTTAAG
* * ** * *
10384916 GAAAATTGATACTTTTAACTTTTCCTCAAAAACCGTTTTAAAAAAATTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTTCTCAAAAA-TATTTTTAGAAAATTTATTTTTAAG
* * * *
10384974 GAAAATTCATACTTTCAACTTTTTTTCAAAAATATTTTTAGACAGTTTATTTTTAAG
1 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAGAAAATTTATTTTTAAG
*
10385031 GAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTT
1 GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTT
10385070 TTTGGATTTT
Statistics
Matches: 216, Mismatches: 41, Indels: 21
0.78 0.15 0.08
Matches are distributed among these distances:
54 1 0.00
55 23 0.11
56 18 0.08
57 92 0.43
58 74 0.34
59 8 0.04
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.43
Consensus pattern (57 bp):
GAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTAGAAAATTTATTTTTAAG
Found at i:10391878 original size:57 final size:57
Alignment explanation
Indices: 10391818--10392142 Score: 431
Period size: 57 Copynumber: 5.7 Consensus size: 57
10391808 TTGTGCAGAG
* *
10391818 AAAATTGATACTTTCAACTTTTCCTCAAAAATCTTTTTTGAAAATTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTTAAGA
* * **
10391875 AAAATTGATACTTTCAACTTTT-CTCCAAAAATATTTTTTGAAAACCTTAATTTCGAGA
1 AAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTGAAAA-TTTATTTTTAAGA
** ** *
10391933 AAAATTGATACTTTCAACTTTTCCTCAAAAATCGTTTTAAAAAATTTATTTTTAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTTAAGA
** * * *
10391990 AAAATTGATACTTTCAACTTTTTTTCAAAAATATTTTTAT-ACAGTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT-TGAAAATTTATTTTTAAGA
*
10392047 AAAATTGATACTTTCAACTTTTTCTCAAAAACT-TTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA-TATTTTTTGAAAATTTATTTTTAAGA
*
10392104 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
10392143 TTTGGATTTT
Statistics
Matches: 231, Mismatches: 30, Indels: 14
0.84 0.11 0.05
Matches are distributed among these distances:
56 4 0.02
57 179 0.77
58 46 0.20
59 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.06, T:0.45
Consensus pattern (57 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTGAAAATTTATTTTTAAGA
Found at i:10392165 original size:5 final size:5
Alignment explanation
Indices: 10392157--10392314 Score: 91
Period size: 5 Copynumber: 31.6 Consensus size: 5
10392147 GATTTTATTT
* *
10392157 AAATA AAATA AAAT- -AATA AAACA AAATA AAAGTGA AAATA AAA-A TAATA
1 AAATA AAATA AAATA AAATA AAATA AAATA AAA-T-A AAATA AAATA AAATA
*
10392206 AAGA-A AAGTAA AAATA AAATAA AAATA AAATA AAGATAA AAATA AAATA
1 AA-ATA AAAT-A AAATA AAAT-A AAATA AAATA AA-AT-A AAATA AAATA
* * * ** *
10392255 ATATT AAATA AACTA ATCTA ATAAT- AAAT- AAATA AAA-A TATATA AAA-A
1 AAATA AAATA AAATA AAATA A-AATA AAATA AAATA AAATA -AAATA AAATA
10392303 AAATA AAA-A AAA
1 AAATA AAATA AAA
10392315 AACTTGGAAC
Statistics
Matches: 121, Mismatches: 16, Indels: 33
0.71 0.09 0.19
Matches are distributed among these distances:
3 3 0.02
4 19 0.16
5 74 0.61
6 18 0.15
7 7 0.06
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (5 bp):
AAATA
Found at i:10392202 original size:6 final size:6
Alignment explanation
Indices: 10392157--10392252 Score: 85
Period size: 6 Copynumber: 16.3 Consensus size: 6
10392147 GATTTTATTT
* *
10392157 AAAT-A AAAT-A AAATAA TAAA-ACA AAATAA AAGTGA AAATAA AAATAA
1 AAATAA AAATAA AAATAA -AAATA-A AAATAA AAATAA AAATAA AAATAA
* * *
10392204 TAAAGAA AAGTAA AAAT-A AAATAA AAAT-A AAATAA AGATAA AAATAA
1 -AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA
10392251 AA
1 AA
10392253 TAATATTAAA
Statistics
Matches: 74, Mismatches: 10, Indels: 13
0.76 0.10 0.13
Matches are distributed among these distances:
5 19 0.26
6 45 0.61
7 10 0.14
ACGTcount: A:0.77, C:0.01, G:0.05, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:10392204 original size:31 final size:30
Alignment explanation
Indices: 10392157--10392316 Score: 125
Period size: 30 Copynumber: 5.3 Consensus size: 30
10392147 GATTTTATTT
10392157 AAATAAAAT-AAAATAATAAA-ACAAAATAA
1 AAATAAAATAAAAATAATAAAGA-AAAATAA
* *
10392186 AAGTGAAAATAAAAATAATAAAGAAAAGTAA
1 AAAT-AAAATAAAAATAATAAAGAAAAATAA
* *
10392217 AAATAAAATAAAAAT-A-AAATAAAGATAA
1 AAATAAAATAAAAATAATAAAGAAAAATAA
* * * *
10392245 AAATAAAATAATATTAAATAAACTAATCTAATAA
1 AAATAAAATAAAAAT-AATAAA-GAA--AAATAA
10392279 TAAAT-AAATAAAAATATATAAA-AAAAATAA
1 -AAATAAAATAAAAATA-ATAAAGAAAAATAA
*
10392309 AAAAAAAA
1 AAATAAAA
10392317 CTTGGAACGG
Statistics
Matches: 105, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
28 22 0.21
29 7 0.07
30 25 0.24
31 23 0.22
32 6 0.06
33 1 0.01
34 17 0.16
35 4 0.04
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (30 bp):
AAATAAAATAAAAATAATAAAGAAAAATAA
Found at i:10392223 original size:16 final size:15
Alignment explanation
Indices: 10392202--10392255 Score: 54
Period size: 17 Copynumber: 3.3 Consensus size: 15
10392192 AAATAAAAAT
*
10392202 AATAAAGAAAAGTAAA
1 AATAAAGAAAAAT-AA
*
10392218 AATAAAATAAAAATAA
1 AAT-AAAGAAAAATAA
10392234 AATAAAGATAAAAATAA
1 AATAAAG--AAAAATAA
10392251 AATAA
1 AATAA
10392256 TATTAAATAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 3 0.09
16 8 0.25
17 21 0.66
ACGTcount: A:0.78, C:0.00, G:0.06, T:0.17
Consensus pattern (15 bp):
AATAAAGAAAAATAA
Found at i:10392230 original size:11 final size:11
Alignment explanation
Indices: 10392157--10392315 Score: 90
Period size: 13 Copynumber: 13.3 Consensus size: 11
10392147 GATTTTATTT
10392157 AAATAAAATAAA
1 AAATAAAAT-AA
*
10392169 ATAATAAAA-CA
1 A-AATAAAATAA
*
10392180 AAATAAAAGTGA
1 AAATAAAA-TAA
10392192 AAATAAAAATAA
1 AAAT-AAAATAA
*
10392204 TAAAGAAAAGTAA
1 -AAATAAAA-TAA
10392217 AAATAAAATAA
1 AAATAAAATAA
10392228 AAATAAAATAA
1 AAATAAAATAA
*
10392239 AGATAAAAATAAA
1 AAAT-AAAAT-AA
10392252 ATAATATTAAATAA
1 A-AATA--AAATAA
**
10392266 ACTAATCTAATAA
1 A--AATAAAATAA
10392279 TAAAT-AAATAA
1 -AAATAAAATAA
*
10392290 AAATATATAAAAA
1 AAATA-A-AATAA
10392303 AAATAAAA-AA
1 AAATAAAATAA
10392313 AAA
1 AAA
10392316 ACTTGGAACG
Statistics
Matches: 120, Mismatches: 11, Indels: 34
0.73 0.07 0.21
Matches are distributed among these distances:
10 16 0.13
11 26 0.22
12 29 0.24
13 35 0.29
14 6 0.05
15 8 0.07
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:10392299 original size:14 final size:13
Alignment explanation
Indices: 10392277--10392316 Score: 55
Period size: 14 Copynumber: 3.1 Consensus size: 13
10392267 CTAATCTAAT
10392277 AATAAATAAATAAA
1 AATAAATAAA-AAA
*
10392291 AATATATAAAAAA
1 AATAAATAAAAAA
10392304 AATAAA-AAAAAA
1 AATAAATAAAAAA
10392316 A
1 A
10392317 CTTGGAACGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 7 0.29
13 8 0.33
14 9 0.38
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (13 bp):
AATAAATAAAAAA
Found at i:10392316 original size:11 final size:11
Alignment explanation
Indices: 10392161--10392316 Score: 69
Period size: 11 Copynumber: 13.4 Consensus size: 11
10392151 TTATTTAAAT
10392161 AAAATAAAATAA
1 AAAATAAAA-AA
* *
10392173 TAAAACAAAATA
1 -AAAATAAAAAA
* *
10392185 AAAGTGAAAATA
1 AAAAT-AAAAAA
10392197 AAAATAATAAAGA
1 AAAATAA-AAA-A
* *
10392210 AAAGTAAAAAT
1 AAAATAAAAAA
*
10392221 AAAATAAAAAT
1 AAAATAAAAAA
*
10392232 AAAATAAAGATA
1 AAAATAAA-AAA
*
10392244 AAAATAAAATA
1 AAAATAAAAAA
* *
10392255 ATATTAAATAAA
1 AAAATAAA-AAA
** * *
10392267 CTAATCTAATAA
1 AAAAT-AAAAAA
*
10392279 TAAATAAATAAA
1 AAAATAAA-AAA
* *
10392291 AATATATAAAA
1 AAAATAAAAAA
10392302 AAAATAAAAAA
1 AAAATAAAAAA
10392313 AAAA
1 AAAA
10392317 CTTGGAACGG
Statistics
Matches: 109, Mismatches: 27, Indels: 16
0.72 0.18 0.11
Matches are distributed among these distances:
11 50 0.46
12 42 0.39
13 17 0.16
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (11 bp):
AAAATAAAAAA
Found at i:10393149 original size:31 final size:29
Alignment explanation
Indices: 10393108--10393191 Score: 82
Period size: 31 Copynumber: 2.8 Consensus size: 29
10393098 CAGTCGAATA
10393108 AATAAATAAAT-AAATCAAATAAAAATATT
1 AATAAATAAATAAAATCAAATAAAAA-ATT
* *
10393137 AATGAAAATAAATCAGAT-AAATCAAAAAATT
1 AAT--AAATAAATAAAATCAAAT-AAAAAATT
*
10393168 AATAGATAAATTAAAATCAAATAA
1 AATAAATAAA-TAAAATCAAATAA
10393192 CAGATAAATT
Statistics
Matches: 45, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
29 9 0.20
30 6 0.13
31 22 0.49
32 8 0.18
ACGTcount: A:0.67, C:0.05, G:0.04, T:0.25
Consensus pattern (29 bp):
AATAAATAAATAAAATCAAATAAAAAATT
Found at i:10393174 original size:20 final size:21
Alignment explanation
Indices: 10393141--10393183 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
10393131 AATATTAATG
10393141 AAAATAAATCAGATAAATCAA
1 AAAATAAATCAGATAAATCAA
* *
10393162 AAAATTAAT-AGATAAATTAA
1 AAAATAAATCAGATAAATCAA
10393182 AA
1 AA
10393184 TCAAATAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 12 0.60
21 8 0.40
ACGTcount: A:0.67, C:0.05, G:0.05, T:0.23
Consensus pattern (21 bp):
AAAATAAATCAGATAAATCAA
Found at i:10393199 original size:22 final size:20
Alignment explanation
Indices: 10393150--10393202 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
10393140 GAAAATAAAT
* *
10393150 CAGATAAATCAAAAAATTAA
1 CAGATAAATTAAAAAAATAA
*
10393170 TAGATAAATTAAAATCAAATAA
1 CAGATAAATTAAAA--AAATAA
10393192 CAGATAAATTA
1 CAGATAAATTA
10393203 TAACATATAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
20 12 0.44
22 15 0.56
ACGTcount: A:0.62, C:0.08, G:0.06, T:0.25
Consensus pattern (20 bp):
CAGATAAATTAAAAAAATAA
Found at i:10393335 original size:41 final size:41
Alignment explanation
Indices: 10393316--10393395 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 41
10393306 AATACATAAG
*
10393316 ATAAAAATAAAAGAAAAATATATATAAAAACAATAATAAAA
1 ATAAAAATAAAAGAAAAATATATATAAAAAAAATAATAAAA
* * *
10393357 ATAAAAATAAAATATAAATATAAAATACAAAAAAA-AATA
1 ATAAAAATAAAAGAAAAATAT-ATATA-AAAAAAATAATA
10393396 GACTTACCTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 19 0.58
42 8 0.24
43 6 0.18
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.20
Consensus pattern (41 bp):
ATAAAAATAAAAGAAAAATATATATAAAAAAAATAATAAAA
Found at i:10393353 original size:18 final size:17
Alignment explanation
Indices: 10393330--10393388 Score: 55
Period size: 18 Copynumber: 3.2 Consensus size: 17
10393320 AAATAAAAGA
10393330 AAAATATATATAAAAAC
1 AAAATATATATAAAAAC
* * *
10393347 AATAATAAAAATAAAAAT
1 AA-AATATATATAAAAAC
10393365 AAAATATAAATATAAAATAC
1 AAAATAT--ATATAAAA-AC
10393385 AAAA
1 AAAA
10393389 AAAAATAGAC
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
17 6 0.19
18 14 0.44
19 7 0.22
20 5 0.16
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.22
Consensus pattern (17 bp):
AAAATATATATAAAAAC
Found at i:10393356 original size:35 final size:36
Alignment explanation
Indices: 10393316--10393395 Score: 105
Period size: 35 Copynumber: 2.2 Consensus size: 36
10393306 AATACATAAG
10393316 ATAAAAATAAAAGA-AAAATAT-ATATAAAA-ACAATA
1 ATAAAAATAAAA-ATAAAATATAATATAAAATACAA-A
10393351 ATAAAAATAAAAATAAAATATAAATATAAAATACAAA
1 ATAAAAATAAAAATAAAATAT-AATATAAAATACAAA
10393388 A-AAAAATA
1 ATAAAAATA
10393396 GACTTACCTA
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
34 1 0.02
35 19 0.46
36 7 0.17
37 10 0.24
38 4 0.10
ACGTcount: A:0.76, C:0.03, G:0.01, T:0.20
Consensus pattern (36 bp):
ATAAAAATAAAAATAAAATATAATATAAAATACAAA
Found at i:10393365 original size:30 final size:29
Alignment explanation
Indices: 10393319--10393395 Score: 77
Period size: 30 Copynumber: 2.6 Consensus size: 29
10393309 ACATAAGATA
* *
10393319 AAAATA-AAAGAAAAATATATATAAAAAC
1 AAAATACAAAAAAAAATAAATATAAAAAC
* *
10393347 AATAATA-AAAATAAAAATAAAATATAAATAT
1 AA-AATACAAAA-AAAAAT-AAATATAAAAAC
10393378 AAAATACAAAAAAAAATA
1 AAAATACAAAAAAAAATA
10393396 GACTTACCTA
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
28 2 0.05
29 8 0.20
30 16 0.39
31 15 0.37
ACGTcount: A:0.77, C:0.03, G:0.01, T:0.19
Consensus pattern (29 bp):
AAAATACAAAAAAAAATAAATATAAAAAC
Found at i:10393382 original size:13 final size:13
Alignment explanation
Indices: 10393350--10393395 Score: 60
Period size: 13 Copynumber: 3.7 Consensus size: 13
10393340 TAAAAACAAT
10393350 AATAAAA-ATAAA
1 AATAAAATATAAA
10393362 AATAAAATATAAA
1 AATAAAATATAAA
* *
10393375 TATAAAATACAAA
1 AATAAAATATAAA
10393388 AA-AAAATA
1 AATAAAATA
10393396 GACTTACCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
12 13 0.43
13 17 0.57
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (13 bp):
AATAAAATATAAA
Found at i:10396963 original size:23 final size:22
Alignment explanation
Indices: 10396912--10396967 Score: 60
Period size: 23 Copynumber: 2.4 Consensus size: 22
10396902 GTGGAATGGC
*
10396912 AAGAAAATGATAAAAAGAAAATTG
1 AAGAAAA--ATAAAAAGAAAACTG
10396936 AAGAAAAATAAAAATGAAAACT-
1 AAGAAAAATAAAAA-GAAAACTG
10396958 ATAGAAAAAT
1 A-AGAAAAAT
10396968 GCAAATGTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
22 8 0.28
23 14 0.48
24 7 0.24
ACGTcount: A:0.70, C:0.02, G:0.12, T:0.16
Consensus pattern (22 bp):
AAGAAAAATAAAAAGAAAACTG
Found at i:10403704 original size:17 final size:18
Alignment explanation
Indices: 10403674--10403707 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
10403664 TTCGAGTTGT
10403674 TTTTTACTTGTTTTTGAC
1 TTTTTACTTGTTTTTGAC
*
10403692 TTTTTA-TTTTTTTTGA
1 TTTTTACTTGTTTTTGA
10403708 AAAAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.12, C:0.06, G:0.09, T:0.74
Consensus pattern (18 bp):
TTTTTACTTGTTTTTGAC
Found at i:10405045 original size:11 final size:11
Alignment explanation
Indices: 10405011--10405047 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
10405001 AGTTTATTCC
10405011 AAATTTTAACA
1 AAATTTTAACA
*
10405022 AAATTATAA-A
1 AAATTTTAACA
10405032 AAATTTTAACA
1 AAATTTTAACA
10405043 AAATT
1 AAATT
10405048 ATGTATTTCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 9 0.39
11 14 0.61
ACGTcount: A:0.59, C:0.05, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATTTTAACA
Found at i:10406551 original size:2 final size:2
Alignment explanation
Indices: 10406544--10406584 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
10406534 TATGACAATC
*
10406544 TA TA TA TA TA TA TA TA TA TA GA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10406585 CTTAACTTCT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:10407178 original size:14 final size:14
Alignment explanation
Indices: 10407155--10407184 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
10407145 AAAAAAGATA
*
10407155 TATATTTAAATTAT
1 TATATCTAAATTAT
10407169 TATATCTAAATTAT
1 TATATCTAAATTAT
10407183 TA
1 TA
10407185 AAAAATTAAT
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:0.43, C:0.03, G:0.00, T:0.53
Consensus pattern (14 bp):
TATATCTAAATTAT
Found at i:10407355 original size:127 final size:128
Alignment explanation
Indices: 10407117--10407366 Score: 373
Period size: 127 Copynumber: 2.0 Consensus size: 128
10407107 AGATATATCT
*
10407117 AAATTATTAAAAATTAATTTTAAAAGATAAAAAAGATATATATTTAAATTATTATATCTAAATTA
1 AAATTATTAAAAATTAATTTTAAAAGATAAAAAAGATAAATATTTAAATTATTATA-CTAAATTA
* * *
10407182 TTAAAAAATTAATTTTGGGTAATTAATAATTTTTAAATACTTTATTTATTTGATAAATCTCATA
65 TTAAAAAATTAATTTTAGATAACTAATAATTTTTAAATACTTTATTTATTTGATAAATCTCATA
*
10407246 AAATTATTAGAAAATTAATTTTAGAAGAT-AAAAAGATAAATATTTAAATTA-TATA-TAAATTA
1 AAATTATTA-AAAATTAATTTTAAAAGATAAAAAAGATAAATATTTAAATTATTATACTAAATTA
* *
10407308 TTAAAAAAATTAATTTTAGATAACTAATAATTTTATACAT-TTTTATTTATTTGATAAAT
65 TT-AAAAAATTAATTTTAGATAACTAATAATTTT-TAAATACTTTATTTATTTGATAAAT
10407367 TTGACAGTTA
Statistics
Matches: 111, Mismatches: 7, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
126 9 0.08
127 46 0.41
128 8 0.07
129 30 0.27
130 18 0.16
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (128 bp):
AAATTATTAAAAATTAATTTTAAAAGATAAAAAAGATAAATATTTAAATTATTATACTAAATTAT
TAAAAAATTAATTTTAGATAACTAATAATTTTTAAATACTTTATTTATTTGATAAATCTCATA
Found at i:10407398 original size:15 final size:15
Alignment explanation
Indices: 10407380--10407411 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
10407370 ACAGTTAAAA
*
10407380 ATATATATTTAAATT
1 ATATATATCTAAATT
10407395 ATATATATCTAAATT
1 ATATATATCTAAATT
10407410 AT
1 AT
10407412 TAAAAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATATCTAAATT
Found at i:10407967 original size:142 final size:141
Alignment explanation
Indices: 10407697--10407983 Score: 452
Period size: 142 Copynumber: 2.0 Consensus size: 141
10407687 ATGTAAAATT
* * * * *
10407697 TTTTTTTGTTTTACATATTTTTTATCATTAATTTTAATAGATCTAAAAGATAAAATTAAATTATT
1 TTTTATTGTTTTACACATTTTTTATCATTAATTTTAATAAATCTAAAAGAAAAAATTAAATCATT
** * *
10407762 TTTTTCATTTTTACTTGTTCTCTCATCTCTTGAATTTATTTAAAATTAAAAATTAAAAAATATAT
66 TTTTAAATTTTTACTTATTCTCTCATCTCTTGAATATATTTAAAATTAAAAATT-AAAAATATAT
10407827 AAAACTAAAAAA
130 AAAACTAAAAAA
*
10407839 TTTTATTGTTTTACACATTTTTTATCATTAATTTTAATAAATTTAAAAGAAAAAATTAAATCA-T
1 TTTTATTGTTTTACACATTTTTTATCATTAATTTTAATAAATCTAAAAGAAAAAATTAAATCATT
10407903 TTTTAAATTTTTACTTATTCTCTCATCTCTTGAATATA-TTAAAATTAAAAATTAAAAATTATAT
66 TTTTAAATTTTTACTTATTCTCTCATCTCTTGAATATATTTAAAATTAAAAATTAAAAA-TATAT
10407967 AAAACTAAAAAA
130 AAAACTAAAAAA
10407979 TTTTA
1 TTTTA
10407984 GACTATATAA
Statistics
Matches: 134, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
139 5 0.04
140 37 0.28
141 35 0.26
142 57 0.43
ACGTcount: A:0.42, C:0.08, G:0.03, T:0.47
Consensus pattern (141 bp):
TTTTATTGTTTTACACATTTTTTATCATTAATTTTAATAAATCTAAAAGAAAAAATTAAATCATT
TTTTAAATTTTTACTTATTCTCTCATCTCTTGAATATATTTAAAATTAAAAATTAAAAATATATA
AAACTAAAAAA
Found at i:10409468 original size:17 final size:17
Alignment explanation
Indices: 10409411--10409468 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
10409401 ATATAAATTT
* *
10409411 ATTTTTTTAATTTTCAA
1 ATTTTTTCAATTTTCAG
** * *
10409428 AAATTTTCATTTTTTAG
1 ATTTTTTCAATTTTCAG
*
10409445 ACTTTTTCAATTTTCAG
1 ATTTTTTCAATTTTCAG
10409462 ATTTTTT
1 ATTTTTT
10409469 TTTTAATTTT
Statistics
Matches: 30, Mismatches: 11, Indels: 0
0.73 0.27 0.00
Matches are distributed among these distances:
17 30 1.00
ACGTcount: A:0.26, C:0.09, G:0.03, T:0.62
Consensus pattern (17 bp):
ATTTTTTCAATTTTCAG
Found at i:10409568 original size:17 final size:16
Alignment explanation
Indices: 10409548--10409589 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 16
10409538 AAAAATTTCA
10409548 TATTTTTTAGATTTTTT
1 TATTTTTTA-ATTTTTT
*
10409565 TATTTTTGAATTTTTT
1 TATTTTTTAATTTTTT
10409581 TATTCTTTT
1 TATT-TTTT
10409590 CGGATTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 11 0.50
17 11 0.50
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (16 bp):
TATTTTTTAATTTTTT
Found at i:10409628 original size:21 final size:20
Alignment explanation
Indices: 10409561--10409630 Score: 60
Period size: 20 Copynumber: 3.6 Consensus size: 20
10409551 TTTTTAGATT
10409561 TTTTTA-TTTTT--GAATT-
1 TTTTTATTTTTTCGGAATTG
10409577 TTTTTATTCTTTTCGG-ATTG
1 TTTTTATT-TTTTCGGAATTG
* *
10409597 TTTTAAATTTTTTGGGAATTG
1 TTTT-TATTTTTTCGGAATTG
*
10409618 TTTTTACTTTTTC
1 TTTTTATTTTTTC
10409631 AAAATTTTTA
Statistics
Matches: 42, Mismatches: 5, Indels: 10
0.74 0.09 0.18
Matches are distributed among these distances:
16 6 0.14
17 1 0.02
18 4 0.10
19 3 0.07
20 17 0.40
21 11 0.26
ACGTcount: A:0.16, C:0.06, G:0.11, T:0.67
Consensus pattern (20 bp):
TTTTTATTTTTTCGGAATTG
Found at i:10410784 original size:8 final size:7
Alignment explanation
Indices: 10410767--10410810 Score: 54
Period size: 7 Copynumber: 6.1 Consensus size: 7
10410757 TTTTCTCAAA
10410767 TAAAAAT
1 TAAAAAT
10410774 TAAAAACT
1 TAAAAA-T
10410782 TAAAAAT
1 TAAAAAT
10410789 ATAAAAA-
1 -TAAAAAT
*
10410796 TAAAACT
1 TAAAAAT
10410803 TAAAAAT
1 TAAAAAT
10410810 T
1 T
10410811 TAGCTGAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 5 0.16
7 14 0.44
8 13 0.41
ACGTcount: A:0.68, C:0.05, G:0.00, T:0.27
Consensus pattern (7 bp):
TAAAAAT
Found at i:10410789 original size:21 final size:21
Alignment explanation
Indices: 10410766--10410809 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 21
10410756 TTTTTCTCAA
10410766 ATAAAAATTAAAAACTTAAAAAT
1 ATAAAAA-T-AAAACTTAAAAAT
10410789 ATAAAAATAAAACTTAAAAAT
1 ATAAAAATAAAACTTAAAAAT
10410810 TTAGCTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 13 0.62
22 1 0.05
23 7 0.33
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
ATAAAAATAAAACTTAAAAAT
Found at i:10413260 original size:21 final size:20
Alignment explanation
Indices: 10413234--10413278 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
10413224 CATGATTAAT
*
10413234 ATATTTATGTGTGATTTATTA
1 ATATTTATGTATGATTT-TTA
* *
10413255 ATATTTTTTTATGATTTTTA
1 ATATTTATGTATGATTTTTA
10413275 ATAT
1 ATAT
10413279 ATTTATTTGT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 7 0.33
21 14 0.67
ACGTcount: A:0.29, C:0.00, G:0.09, T:0.62
Consensus pattern (20 bp):
ATATTTATGTATGATTTTTA
Found at i:10413293 original size:24 final size:24
Alignment explanation
Indices: 10413229--10413361 Score: 90
Period size: 24 Copynumber: 5.8 Consensus size: 24
10413219 GTTTGCATGA
*
10413229 TTAATATATTTA--TGTGTGATTT
1 TTAATATATTTATTTGTATGATTT
10413251 ATT-A-ATATTT-TTT-TATGATTT
1 -TTAATATATTTATTTGTATGATTT
10413272 TTAATATATTTATTTGTATGATTAT
1 TTAATATATTTATTTGTATGATT-T
* *
10413297 ATT--TA-ATTTGATTT-CATGATTA
1 -TTAATATATTT-ATTTGTATGATTT
* *
10413319 TTAATATATTTAATTGCT-TGATTA
1 TTAATATATTTATTTG-TATGATTT
*
10413343 TTAATATATTTATATGTAT
1 TTAATATATTTATTTGTAT
10413362 TTTTTTTCAT
Statistics
Matches: 88, Mismatches: 7, Indels: 29
0.71 0.06 0.23
Matches are distributed among these distances:
20 2 0.02
21 16 0.18
22 8 0.09
23 21 0.24
24 38 0.43
25 1 0.01
26 2 0.02
ACGTcount: A:0.32, C:0.02, G:0.08, T:0.59
Consensus pattern (24 bp):
TTAATATATTTATTTGTATGATTT
Found at i:10413316 original size:47 final size:44
Alignment explanation
Indices: 10413228--10413343 Score: 121
Period size: 47 Copynumber: 2.5 Consensus size: 44
10413218 TGTTTGCATG
* *
10413228 ATTAATATATTTA-TGTGTGATT-TATTAATATTTTTTTATGATT
1 ATTAATATATTTATTGT-TGATTATATTAATATTATTTCATGATT
*
10413271 TTTAATATATTTATTTGTATGATTATATTTAAT-TTGATTTCATGATT
1 ATTAATATATTTA-TTGT-TGATTATA-TTAATATT-ATTTCATGATT
10413318 ATTAATATATTTAATTGCTTGATTAT
1 ATTAATATATTT-ATTG-TTGATTAT
10413344 TAATATATTT
Statistics
Matches: 61, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
43 12 0.20
45 8 0.13
46 4 0.07
47 35 0.57
48 2 0.03
ACGTcount: A:0.31, C:0.02, G:0.09, T:0.59
Consensus pattern (44 bp):
ATTAATATATTTATTGTTGATTATATTAATATTATTTCATGATT
Found at i:10413420 original size:20 final size:22
Alignment explanation
Indices: 10413369--10413420 Score: 54
Period size: 20 Copynumber: 2.4 Consensus size: 22
10413359 TATTTTTTTT
*
10413369 CATGATTTATATATTATTATTTG
1 CATG-TTTATATATTATTAATTG
* *
10413392 AATGATTATATA-T-TTAATTG
1 CATGTTTATATATTATTAATTG
10413412 CATGTTTAT
1 CATGTTTAT
10413421 TTGCATGGTT
Statistics
Matches: 24, Mismatches: 5, Indels: 3
0.75 0.16 0.09
Matches are distributed among these distances:
20 13 0.54
21 1 0.04
22 7 0.29
23 3 0.12
ACGTcount: A:0.33, C:0.04, G:0.10, T:0.54
Consensus pattern (22 bp):
CATGTTTATATATTATTAATTG
Found at i:10413458 original size:22 final size:23
Alignment explanation
Indices: 10413416--10413461 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
10413406 TAATTGCATG
**
10413416 TTTATTTGCATGGTTTATATATT
1 TTTATTTGCATGAATTATATATT
10413439 TTTATTTGCAT-AATTATATATT
1 TTTATTTGCATGAATTATATATT
10413461 T
1 T
10413462 AATTGCTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.61
Consensus pattern (23 bp):
TTTATTTGCATGAATTATATATT
Found at i:10413478 original size:30 final size:29
Alignment explanation
Indices: 10413444--10413501 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
10413434 ATATTTTTAT
*
10413444 TTGCATAATTATATAT-TTAATTGCTATTAA
1 TTGCATAATTACAT-TGTTAATTGC-ATTAA
*
10413474 TTGCATGATTACATTGTTAATTGCATTA
1 TTGCATAATTACATTGTTAATTGCATTA
10413502 TTATTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.48
Consensus pattern (29 bp):
TTGCATAATTACATTGTTAATTGCATTAA
Found at i:10413622 original size:19 final size:19
Alignment explanation
Indices: 10413585--10413623 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
10413575 ATTATTATTA
* *
10413585 TTATTGCATGATTTTATAT
1 TTATTGCATGATATAATAT
10413604 TTATTGCATGATATAATAT
1 TTATTGCATGATATAATAT
10413623 T
1 T
10413624 ATATGTTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.31, C:0.05, G:0.10, T:0.54
Consensus pattern (19 bp):
TTATTGCATGATATAATAT
Found at i:10413625 original size:24 final size:23
Alignment explanation
Indices: 10413598--10413653 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 23
10413588 TTGCATGATT
10413598 TTATATTTATTGCATGATATAATA
1 TTATATTTATTGCATGAT-TAATA
*
10413622 TTATATGTTATTGCCTGATTAATA
1 TTATAT-TTATTGCATGATTAATA
10413646 TTATATTT
1 TTATATTT
10413654 GAATGATATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 2 0.07
24 17 0.57
25 11 0.37
ACGTcount: A:0.32, C:0.05, G:0.09, T:0.54
Consensus pattern (23 bp):
TTATATTTATTGCATGATTAATA
Found at i:10413818 original size:36 final size:36
Alignment explanation
Indices: 10413778--10413851 Score: 105
Period size: 36 Copynumber: 2.1 Consensus size: 36
10413768 GAATAGTTAT
* *
10413778 TAATATATTTGTATTG-TATTTTATATTATTGAATGA
1 TAATATATTTGCA-TGATATTATATATTATTGAATGA
*
10413814 TAATATATTTGCATGATATTATATATTATTGCATGA
1 TAATATATTTGCATGATATTATATATTATTGAATGA
10413850 TA
1 TA
10413852 CTTAATATAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 2 0.06
36 32 0.94
ACGTcount: A:0.35, C:0.03, G:0.11, T:0.51
Consensus pattern (36 bp):
TAATATATTTGCATGATATTATATATTATTGAATGA
Found at i:10413845 original size:20 final size:20
Alignment explanation
Indices: 10413794--10413862 Score: 74
Period size: 20 Copynumber: 3.5 Consensus size: 20
10413784 ATTTGTATTG
* *
10413794 TATTTTATATTATTGAATGA
1 TATTATATATTATTGCATGA
10413814 TA--ATATA-T-TTGCATGA
1 TATTATATATTATTGCATGA
10413830 TATTATATATTATTGCATGA
1 TATTATATATTATTGCATGA
10413850 TACTTAATATATT
1 TA-TT-ATATATT
10413863 TGCATAACAT
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
16 9 0.22
17 1 0.02
18 9 0.22
19 1 0.02
20 12 0.29
21 2 0.05
22 7 0.17
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (20 bp):
TATTATATATTATTGCATGA
Found at i:10417107 original size:16 final size:16
Alignment explanation
Indices: 10417088--10417157 Score: 83
Period size: 16 Copynumber: 4.3 Consensus size: 16
10417078 GGATGAAGTA
10417088 AAAAAAAT-AAAATATG
1 AAAAAAATGAAAA-ATG
10417104 AAAAAAATGAAAAAAATG
1 AAAAAAATG--AAAAATG
10417122 AAAAAAATGAAAAATG
1 AAAAAAATGAAAAATG
10417138 --AAAAATGAAAAAGTG
1 AAAAAAATGAAAAA-TG
10417153 AAAAA
1 AAAAA
10417158 GTGAAAAAAA
Statistics
Matches: 48, Mismatches: 0, Indels: 11
0.81 0.00 0.19
Matches are distributed among these distances:
14 12 0.25
15 2 0.04
16 15 0.31
17 3 0.06
18 12 0.25
19 4 0.08
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (16 bp):
AAAAAAATGAAAAATG
Found at i:10417108 original size:18 final size:17
Alignment explanation
Indices: 10417088--10417188 Score: 70
Period size: 16 Copynumber: 6.1 Consensus size: 17
10417078 GGATGAAGTA
* *
10417088 AAAAAAAT-AAAATATG
1 AAAAAAATGAAAAAAAG
10417104 AAAAAAATGAAAAAAATG
1 AAAAAAATGAAAAAAA-G
*
10417122 AAAAAAATG-AAAAATG
1 AAAAAAATGAAAAAAAG
**
10417138 --AAAAATGAAAAAGTG
1 AAAAAAATGAAAAAAAG
*
10417153 -AAAAAGTGAAAAAAA-
1 AAAAAAATGAAAAAAAG
*
10417168 TAAAAAATGAGAGAAAAAG
1 AAAAAAATGA-A-AAAAAG
10417187 AA
1 AA
10417189 GACTTAAATT
Statistics
Matches: 68, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
14 7 0.10
15 6 0.09
16 28 0.41
17 11 0.16
18 15 0.22
19 1 0.01
ACGTcount: A:0.74, C:0.00, G:0.14, T:0.12
Consensus pattern (17 bp):
AAAAAAATGAAAAAAAG
Found at i:10417116 original size:7 final size:7
Alignment explanation
Indices: 10417115--10417165 Score: 66
Period size: 7 Copynumber: 6.7 Consensus size: 7
10417105 AAAAAATGAA
10417115 AAAAATG
1 AAAAATG
10417122 AAAAAAATG
1 -A-AAAATG
10417131 AAAAATG
1 AAAAATG
10417138 AAAAATG
1 AAAAATG
10417145 AAAAAGTG
1 AAAAA-TG
10417153 AAAAAGTG
1 AAAAA-TG
10417161 AAAAA
1 AAAAA
10417166 AATAAAAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
7 18 0.44
8 17 0.41
9 6 0.15
ACGTcount: A:0.73, C:0.00, G:0.16, T:0.12
Consensus pattern (7 bp):
AAAAATG
Found at i:10417162 original size:23 final size:23
Alignment explanation
Indices: 10417107--10417177 Score: 83
Period size: 25 Copynumber: 3.0 Consensus size: 23
10417097 AAATATGAAA
10417107 AAAATGAAAAAAATGAAAAAAATGA
1 AAAATGAAAAAAATG--AAAAATGA
10417132 AAAATG--AAAAATGAAAAAGTGA
1 AAAATGAAAAAAATGAAAAA-TGA
*
10417154 AAAAGTGAAAAAAATAAAAAATGA
1 AAAA-TGAAAAAAATGAAAAATGA
10417178 GAGAAAAAGA
Statistics
Matches: 41, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
21 5 0.12
22 7 0.17
23 9 0.22
24 3 0.07
25 17 0.41
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.13
Consensus pattern (23 bp):
AAAATGAAAAAAATGAAAAATGA
Found at i:10417172 original size:7 final size:8
Alignment explanation
Indices: 10417089--10417177 Score: 87
Period size: 9 Copynumber: 11.1 Consensus size: 8
10417079 GATGAAGTAA
10417089 AAAAAAT-
1 AAAAAATG
*
10417096 AAAATATG
1 AAAAAATG
10417104 AAAAAAATG
1 -AAAAAATG
10417113 AAAAAAATG
1 -AAAAAATG
10417122 AAAAAAATG
1 -AAAAAATG
10417131 -AAAAATG
1 AAAAAATG
10417138 -AAAAATG
1 AAAAAATG
*
10417145 AAAAAGTG
1 AAAAAATG
*
10417153 AAAAAGTG
1 AAAAAATG
10417161 AAAAAAAT-
1 -AAAAAATG
10417169 AAAAAATG
1 AAAAAATG
10417177 A
1 A
10417178 GAGAAAAAGA
Statistics
Matches: 73, Mismatches: 4, Indels: 9
0.85 0.05 0.10
Matches are distributed among these distances:
7 27 0.37
8 15 0.21
9 31 0.42
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.13
Consensus pattern (8 bp):
AAAAAATG
Found at i:10418365 original size:21 final size:21
Alignment explanation
Indices: 10418335--10418419 Score: 100
Period size: 21 Copynumber: 4.0 Consensus size: 21
10418325 AAAAATGATA
*
10418335 AGAATCTTTGAGTTTTAAATG
1 AGAATATTTGAGTTTTAAATG
*
10418356 AGAATATTTGAGTTTTAAATA
1 AGAATATTTGAGTTTTAAATG
*
10418377 AAAATATTTAAAGAGTTTTAAA-G
1 AGAATATTT---GAGTTTTAAATG
*
10418400 AGAATCTTTGAGTTTTAAAT
1 AGAATATTTGAGTTTTAAAT
10418420 AAAAACCTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
20 10 0.19
21 27 0.50
23 7 0.13
24 10 0.19
ACGTcount: A:0.41, C:0.02, G:0.15, T:0.41
Consensus pattern (21 bp):
AGAATATTTGAGTTTTAAATG
Found at i:10418599 original size:23 final size:23
Alignment explanation
Indices: 10418563--10418615 Score: 88
Period size: 23 Copynumber: 2.3 Consensus size: 23
10418553 GGTTTTGAAA
* *
10418563 TTTTGGATGTGAACCTCTAAATT
1 TTTTGAATGAGAACCTCTAAATT
10418586 TTTTGAATGAGAACCTCTAAATT
1 TTTTGAATGAGAACCTCTAAATT
10418609 TTTTGAA
1 TTTTGAA
10418616 ACTTTAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.30, C:0.11, G:0.15, T:0.43
Consensus pattern (23 bp):
TTTTGAATGAGAACCTCTAAATT
Found at i:10418951 original size:16 final size:16
Alignment explanation
Indices: 10418922--10418958 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
10418912 CTCTTAAATG
* *
10418922 CGAATCTGAGTTCTTA
1 CGAATATGAATTCTTA
10418938 CGAATATGAATTCTTA
1 CGAATATGAATTCTTA
10418954 CGAAT
1 CGAAT
10418959 CTTTGTGTCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (16 bp):
CGAATATGAATTCTTA
Found at i:10420043 original size:115 final size:115
Alignment explanation
Indices: 10419841--10420070 Score: 397
Period size: 115 Copynumber: 2.0 Consensus size: 115
10419831 CAAAAAAAGG
* *
10419841 GGGAAAGATTTATTTTGCTGAAACTTGAAAAGGATTTAATTCTAACTGGGTTGTTGAATTGAAAG
1 GGGAAAGATTTATTTTGCTGAAACTTGAAAAGGATTTAAATCTAACTGGGTTGTTGAATTAAAAG
*
10419906 TATTTTAATTAAAAAATGACTGTGAAAAAAAATTAGTTTGAGAGATGAAT
66 TATTTTAATTAAAAAATGACTGTGAAAAAAAATTAATTTGAGAGATGAAT
* * *
10419956 GGGAAAGATTTATTTTGCTGAAACTTGAAAAGGGTTTAAATCTAATTGTGTTGTTGAATTAAAAG
1 GGGAAAGATTTATTTTGCTGAAACTTGAAAAGGATTTAAATCTAACTGGGTTGTTGAATTAAAAG
*
10420021 TATTTTAATTAAAAAATGACTGTGAAAAAGAATTAATTTGAGAGATGAAT
66 TATTTTAATTAAAAAATGACTGTGAAAAAAAATTAATTTGAGAGATGAAT
10420071 TTGGATTAAA
Statistics
Matches: 108, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
115 108 1.00
ACGTcount: A:0.40, C:0.04, G:0.20, T:0.35
Consensus pattern (115 bp):
GGGAAAGATTTATTTTGCTGAAACTTGAAAAGGATTTAAATCTAACTGGGTTGTTGAATTAAAAG
TATTTTAATTAAAAAATGACTGTGAAAAAAAATTAATTTGAGAGATGAAT
Done.