Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold413
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: 166130
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
File 1 of 2
Found at i:1032 original size:22 final size:22
Alignment explanation
Indices: 1004--1045 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
994 TTAAATAAAA
1004 TTTAAAAGAACAAT-ATAATATT
1 TTTAAAA-AACAATAATAATATT
*
1026 TTTAAAAAATAATAATAATA
1 TTTAAAAAACAATAATAATA
1046 AGTTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
TTTAAAAAACAATAATAATATT
Found at i:1194 original size:20 final size:21
Alignment explanation
Indices: 1166--1211 Score: 67
Period size: 20 Copynumber: 2.2 Consensus size: 21
1156 AAATGCTTTT
* *
1166 ATTTTATTTTATTTTTATA-A
1 ATTTAATTTAATTTTTATATA
1186 ATTTAATTTAATTTTTATATA
1 ATTTAATTTAATTTTTATATA
1207 ATTTA
1 ATTTA
1212 CTCAATCGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
ATTTAATTTAATTTTTATATA
Found at i:1884 original size:203 final size:204
Alignment explanation
Indices: 1653--2034 Score: 622
Period size: 204 Copynumber: 1.9 Consensus size: 204
1643 TTGATTCGTT
1653 CAATTATTAAATCTAGTAAAAATCTTATGTCAATAACAAATATTATAATAAA-AAATAAATTAAA
1 CAATTATTAAATCTAGTAAAAATCTTATGTCAATAACAAATATTATAATAAATAAATAAATTAAA
* * * * * * * *
1717 AGTAAATTTTTCCATCGAGGTTATATGTATGTTAAATAGACTTTTTAAAATTAAAGATTTAAAAA
66 AATAAATTTTTCAATCAAGCTGATATGTATGTTAAACAGACTCTTTAAAATTAAAAATTTAAAAA
* * *
1782 AATTTAAATATATAATATAAAATTTAAATGAATTAAATAGATAAAAATTTGATTTAATAACAAAT
131 AATTTAAATATATAACATAAAATTTAAATAAATTAAATAAATAAAAATTTGATTTAATAACAAAT
1847 TGATCTGTC
196 TGATCTGTC
* *
1856 CAATTATTAAATCTAGTAGAAATCTTATGTCAATAATAAATATTATAATAAATAAATAAATTAAA
1 CAATTATTAAATCTAGTAAAAATCTTATGTCAATAACAAATATTATAATAAATAAATAAATTAAA
* *
1921 AATTAATTTTTCAATCAAGCTGATATGTATGTTAAACGGACTCTTTAAAATTAAAAATTTAAAAA
66 AATAAATTTTTCAATCAAGCTGATATGTATGTTAAACAGACTCTTTAAAATTAAAAATTTAAAAA
1986 AATTTAAATATATAACATAAAATTTAAATAAATTAAATAAATAAAAATT
131 AATTTAAATATATAACATAAAATTTAAATAAATTAAATAAATAAAAATT
2035 AAAAATTTCA
Statistics
Matches: 163, Mismatches: 15, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
203 50 0.31
204 113 0.69
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.36
Consensus pattern (204 bp):
CAATTATTAAATCTAGTAAAAATCTTATGTCAATAACAAATATTATAATAAATAAATAAATTAAA
AATAAATTTTTCAATCAAGCTGATATGTATGTTAAACAGACTCTTTAAAATTAAAAATTTAAAAA
AATTTAAATATATAACATAAAATTTAAATAAATTAAATAAATAAAAATTTGATTTAATAACAAAT
TGATCTGTC
Found at i:2025 original size:20 final size:20
Alignment explanation
Indices: 1966--2026 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
1956 ACGGACTCTT
*
1966 TAAAA-TTAAA-AATTTAAA
1 TAAAATTTAAATAAATTAAA
*
1984 -AAAATTTAAATATA-TAACA
1 TAAAATTTAAATAAATTAA-A
2003 TAAAATTTAAATAAATTAAA
1 TAAAATTTAAATAAATTAAA
2023 TAAA
1 TAAA
2027 TAAAAATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
17 4 0.11
18 8 0.23
19 2 0.06
20 18 0.51
21 3 0.09
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAATTTAAATAAATTAAA
Found at i:2286 original size:17 final size:17
Alignment explanation
Indices: 2259--2301 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
2249 TAATAAATTT
*
2259 AAATTAGAAATTAATC-A
1 AAATTA-AAAATAATCTA
*
2276 CAATTAAAAATAATCTA
1 AAATTAAAAATAATCTA
2293 AAATTAAAA
1 AAATTAAAA
2302 TTGATCGAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
16 8 0.36
17 14 0.64
ACGTcount: A:0.63, C:0.07, G:0.02, T:0.28
Consensus pattern (17 bp):
AAATTAAAAATAATCTA
Found at i:2362 original size:24 final size:25
Alignment explanation
Indices: 2330--2376 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
2320 ATTAAAACCT
* *
2330 AAAATTACTTAAAT-AATTAATTTA
1 AAAAATACTTAAATCAATAAATTTA
2354 AAAAATACTTAAATCAATAAATT
1 AAAAATACTTAAATCAATAAATT
2377 CAAATGTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 13 0.65
25 7 0.35
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.36
Consensus pattern (25 bp):
AAAAATACTTAAATCAATAAATTTA
Found at i:2407 original size:15 final size:15
Alignment explanation
Indices: 2383--2423 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
2373 AATTCAAATG
*
2383 TTAAACTTAATTAAC
1 TTAAAATTAATTAAC
*
2398 TTAAAATTAATTAAT
1 TTAAAATTAATTAAC
2413 TTAAATATTAA
1 TTAAA-ATTAA
2424 AACTAATTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 18 0.78
16 5 0.22
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (15 bp):
TTAAAATTAATTAAC
Found at i:2558 original size:17 final size:16
Alignment explanation
Indices: 2503--2566 Score: 78
Period size: 16 Copynumber: 4.1 Consensus size: 16
2493 TTTAATTAAT
2503 TTAAAAT-ATTTAAAA
1 TTAAAATAATTTAAAA
* *
2518 TCAAAATAATCTAAAA
1 TTAAAATAATTTAAAA
*
2534 TTAAAATAATTTAAAC
1 TTAAAATAATTTAAAA
2550 TTAAAAATAA-TTAAAA
1 TT-AAAATAATTTAAAA
2566 T
1 T
2567 GATTTGAAAT
Statistics
Matches: 41, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
15 6 0.15
16 28 0.68
17 7 0.17
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (16 bp):
TTAAAATAATTTAAAA
Found at i:2565 original size:32 final size:30
Alignment explanation
Indices: 2495--2566 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 30
2485 GTGTTAAATT
* *
2495 TAATT-AATTTAAAATATTTAAAATCAAAA
1 TAATTAAAATTAAAATATTTAAAATAAAAA
*
2524 TAATCTAAAATTAAAATAATTTAAACTTAAAAA
1 TAAT-TAAAATTAAAAT-ATTTAAA-ATAAAAA
2557 TAATTAAAAT
1 TAATTAAAAT
2567 GATTTGAAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
29 4 0.11
30 1 0.03
31 9 0.25
32 13 0.36
33 9 0.25
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (30 bp):
TAATTAAAATTAAAATATTTAAAATAAAAA
Found at i:3184 original size:2 final size:2
Alignment explanation
Indices: 3177--3210 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3167 GGATGAACGC
3177 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
3211 ACTGACGAAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4065 original size:12 final size:12
Alignment explanation
Indices: 4034--4067 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
4024 CTACAAAACT
4034 ATATAAAAATTA
1 ATATAAAAATTA
4046 ATA-AAAAATTA
1 ATATAAAAATTA
*
4057 ATATTAAAATT
1 ATATAAAAATT
4068 TTAATTTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
ATATAAAAATTA
Found at i:4944 original size:13 final size:11
Alignment explanation
Indices: 4856--4936 Score: 62
Period size: 11 Copynumber: 7.5 Consensus size: 11
4846 TGATAATTCG
4856 TATATTTATA-
1 TATATTTATAT
*
4866 TATTTTTATAT
1 TATATTTATAT
*
4877 TATAATTATAT
1 TATATTTATAT
* *
4888 TAAAAAATTTATAA
1 T---ATATTTATAT
4902 TAT-TTTA-AT
1 TATATTTATAT
*
4911 TAT-TTTTTAT
1 TATATTTATAT
4921 TATATTTATAT
1 TATATTTATAT
4932 TATAT
1 TATAT
4937 AATTATATCA
Statistics
Matches: 55, Mismatches: 10, Indels: 11
0.72 0.13 0.14
Matches are distributed among these distances:
9 7 0.13
10 18 0.33
11 22 0.40
14 8 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TATATTTATAT
Found at i:5414 original size:28 final size:28
Alignment explanation
Indices: 5381--5465 Score: 86
Period size: 28 Copynumber: 3.0 Consensus size: 28
5371 AATAAGGTTT
*
5381 TATTTTTATCTATGATTTTTAAAAATTA
1 TATTTTTATCTATAATTTTTAAAAATTA
**
5409 TATTTTTTATC-ATAATTTTTATTAA-TA
1 TA-TTTTTATCTATAATTTTTAAAAATTA
*
5436 T-TTCATTTATCTATAACTTTTAAAAATTA
1 TATT--TTTATCTATAATTTTTAAAAATTA
5465 T
1 T
5466 GTATACAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
25 2 0.04
27 9 0.20
28 24 0.52
29 11 0.24
ACGTcount: A:0.35, C:0.06, G:0.01, T:0.58
Consensus pattern (28 bp):
TATTTTTATCTATAATTTTTAAAAATTA
Found at i:6557 original size:19 final size:21
Alignment explanation
Indices: 6533--6574 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
6523 TAAAAAATAT
6533 TAATA-TATA-ATTTTTATAA
1 TAATATTATATATTTTTATAA
6552 TAATATTTATATATTTTTATAA
1 TAATA-TTATATATTTTTATAA
6574 T
1 T
6575 TAAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
21 4 0.20
22 11 0.55
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TAATATTATATATTTTTATAA
Found at i:8922 original size:95 final size:96
Alignment explanation
Indices: 8809--9032 Score: 294
Period size: 95 Copynumber: 2.3 Consensus size: 96
8799 TTAATTATTT
* **
8809 TAAATATATTATTTAAAAATAAAATAAAATAAAT-ATTTTTTGAGCGATTTAAATATAAATATTA
1 TAAATATATTATTCAAAAATAAAATAAAATAAATAATTTTTCAAGCGATTTAAATATAAATATTA
*
8873 AATTGA-TTCACCAGTGAACATACGGGCCAAA
66 AATTGACTT-ACCAATGAACATACGGGCCAAA
* * * * *
8904 TAAATATATTATACAAAAATTAAAA-ATAA-AAATAATTTTTCAAGCGATTTGAGTATGAATATT
1 TAAATATATTATTCAAAAA-TAAAATAAAATAAATAATTTTTCAAGCGATTTAAATATAAATATT
* *
8967 AAATTGACTTACCAATTAACATACGGGTCAAA
65 AAATTGACTTACCAATGAACATACGGGCCAAA
8999 TAAATATATTATTCAAAAATAAAATTAAAATAAA
1 TAAATATATTATTCAAAAATAAAA-TAAAATAAA
9033 AACTTTTATA
Statistics
Matches: 110, Mismatches: 13, Indels: 10
0.83 0.10 0.08
Matches are distributed among these distances:
94 9 0.08
95 88 0.80
96 10 0.09
97 3 0.03
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (96 bp):
TAAATATATTATTCAAAAATAAAATAAAATAAATAATTTTTCAAGCGATTTAAATATAAATATTA
AATTGACTTACCAATGAACATACGGGCCAAA
Found at i:9808 original size:20 final size:20
Alignment explanation
Indices: 9727--9809 Score: 53
Period size: 20 Copynumber: 4.0 Consensus size: 20
9717 TGAAAGGAAG
* * *
9727 ATTATATTTATAAAAAGATTA
1 ATTATTTTTTTAAAAA-AATA
9748 A-TATTTTTTTAAAAAAA-A
1 ATTATTTTTTTAAAAAAATA
* * **
9766 GTTCAATAGTTTTTAAATGAATA
1 ATT--AT-TTTTTTAAAAAAATA
9789 ATTATTTTTTTAAAAAAATA
1 ATTATTTTTTTAAAAAAATA
9809 A
1 A
9810 AAAAAATTAT
Statistics
Matches: 46, Mismatches: 11, Indels: 11
0.68 0.16 0.16
Matches are distributed among these distances:
18 1 0.02
19 2 0.04
20 25 0.54
21 5 0.11
22 10 0.22
23 3 0.07
ACGTcount: A:0.49, C:0.01, G:0.05, T:0.45
Consensus pattern (20 bp):
ATTATTTTTTTAAAAAAATA
Found at i:9972 original size:16 final size:18
Alignment explanation
Indices: 9951--9983 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
9941 CATTAATTCA
9951 ATAAAA-TATT-TTATTT
1 ATAAAATTATTATTATTT
9967 ATAAAATTATTATTATT
1 ATAAAATTATTATTATT
9984 ATTATTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 4 0.27
18 5 0.33
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
ATAAAATTATTATTATTT
Found at i:10363 original size:12 final size:11
Alignment explanation
Indices: 10346--10385 Score: 55
Period size: 12 Copynumber: 3.5 Consensus size: 11
10336 TATCTTTATT
10346 TAAAATTAATTA
1 TAAAATTAA-TA
10358 TAAAATT-ATA
1 TAAAATTAATA
10368 TAAATATTAATA
1 TAAA-ATTAATA
10380 TAAAAT
1 TAAAAT
10386 AATTTTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
10 6 0.23
11 6 0.23
12 14 0.54
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TAAAATTAATA
Found at i:10366 original size:22 final size:22
Alignment explanation
Indices: 10341--10390 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 22
10331 AAAAGTATCT
10341 TTATTTAAA-ATTAATTATAAAA
1 TTATTTAAATATTAA-TATAAAA
*
10363 TTATATAAATATTAATATAAAA
1 TTATTTAAATATTAATATAAAA
*
10385 TAATTT
1 TTATTT
10391 TTTATATTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
TTATTTAAATATTAATATAAAA
Found at i:11074 original size:20 final size:20
Alignment explanation
Indices: 11046--11120 Score: 78
Period size: 20 Copynumber: 3.8 Consensus size: 20
11036 TTTTACCTTG
11046 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * * *
11066 ATATATCGATATATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
11086 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTTTTCA
11106 ATGTATCGATACATT
1 ATGTATCGATACATT
11121 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:14961 original size:4 final size:4
Alignment explanation
Indices: 14952--14998 Score: 51
Period size: 4 Copynumber: 11.2 Consensus size: 4
14942 AAATTTGTTT
*
14952 AATA AATA AA-A AATT AATA TAATA AATA TAATA TAATA AATA AATA A
1 AATA AATA AATA AATA AATA -AATA AATA -AATA -AATA AATA AATA A
14999 TTATTTTATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
3 3 0.08
4 22 0.58
5 13 0.34
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (4 bp):
AATA
Found at i:14985 original size:14 final size:14
Alignment explanation
Indices: 14953--14997 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
14943 AATTTGTTTA
*
14953 ATAA-ATAAAAAAT
1 ATAATATAATAAAT
14966 -TAATATAATAAAT
1 ATAATATAATAAAT
14979 ATAATATAATAAAT
1 ATAATATAATAAAT
14993 A-AATA
1 ATAATA
14998 ATTATTTTAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 3 0.10
13 12 0.41
14 14 0.48
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
ATAATATAATAAAT
Found at i:18634 original size:101 final size:103
Alignment explanation
Indices: 18479--18684 Score: 328
Period size: 101 Copynumber: 2.0 Consensus size: 103
18469 ATATTGTAAC
18479 TTTAATTTAAATTTTTAAGTAAATTTATGAATTAAAATTAATTAACTTGTGATATTGATTCAAAA
1 TTTAATTTAAATTTTTAAGTAAATTTATGAATTAAAATTAATTAACTTGTGATATTGATTCAAAA
* *
18544 ACAATCATCTTTAAAATATTTGGAAG-AATTTTTTTAT
66 ACAATCATCTTTAAAATATTTGAAAGAAAATTTTTTAT
18581 TTTAATTT-AATTTTTAAGTAAATTTATGAATTAAAATTAATTAA-TTCGTGATATTGATTCAAA
1 TTTAATTTAAATTTTTAAGTAAATTTATGAATTAAAATTAATTAACTT-GTGATATTGATTCAAA
* ** *
18644 AATAATTGTCTTTAAAATATTTTAAAGAAAATTTTTTAT
65 AACAATCATCTTTAAAATATTTGAAAGAAAATTTTTTAT
18683 TT
1 TT
18685 ATTTTTAATT
Statistics
Matches: 96, Mismatches: 6, Indels: 4
0.91 0.06 0.04
Matches are distributed among these distances:
100 2 0.02
101 74 0.77
102 20 0.21
ACGTcount: A:0.41, C:0.04, G:0.07, T:0.48
Consensus pattern (103 bp):
TTTAATTTAAATTTTTAAGTAAATTTATGAATTAAAATTAATTAACTTGTGATATTGATTCAAAA
ACAATCATCTTTAAAATATTTGAAAGAAAATTTTTTAT
Found at i:19671 original size:2 final size:2
Alignment explanation
Indices: 19658--19692 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
19648 AACCTTAATT
*
19658 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
19693 TTCAAGATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19932 original size:31 final size:32
Alignment explanation
Indices: 19869--19939 Score: 94
Period size: 31 Copynumber: 2.2 Consensus size: 32
19859 TAAATTGATA
19869 AAAAATTATATTTTATTATTTATTATATTATT
1 AAAAATTATATTTTATTATTTATTATATTATT
19901 AAAAATTAT-TTTTA-TATTAATATTATA-TATT
1 AAAAATTATATTTTATTATT--TATTATATTATT
*
19932 AATAATTA
1 AAAAATTA
19940 AAATTAAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
30 4 0.11
31 16 0.44
32 16 0.44
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (32 bp):
AAAAATTATATTTTATTATTTATTATATTATT
Found at i:21119 original size:47 final size:45
Alignment explanation
Indices: 21050--21140 Score: 164
Period size: 47 Copynumber: 2.0 Consensus size: 45
21040 AAGTAAACCC
21050 TAATTGATCAAACAATGATTGATCTTGATGAGATTTCATGCAAGGAG
1 TAATTGATCAAACAATGATTGATCTTGATGAG--TTCATGCAAGGAG
21097 TAATTGATCAAACAATGATTGATCTTGATGAGTTCATGCAAGGA
1 TAATTGATCAAACAATGATTGATCTTGATGAGTTCATGCAAGGA
21141 CAGAACTCAT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 12 0.27
47 32 0.73
ACGTcount: A:0.36, C:0.11, G:0.21, T:0.32
Consensus pattern (45 bp):
TAATTGATCAAACAATGATTGATCTTGATGAGTTCATGCAAGGAG
Found at i:21488 original size:19 final size:18
Alignment explanation
Indices: 21466--21508 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
21456 TTTTATTAAA
21466 TTTAATAATTTATATTATT
1 TTTAATAATTTA-ATTATT
*
21485 TTTATATATTTTAATTATT
1 TTTA-ATAATTTAATTATT
21504 TTTAA
1 TTTAA
21509 AATATTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 14 0.64
20 7 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TTTAATAATTTAATTATT
Found at i:21497 original size:37 final size:38
Alignment explanation
Indices: 21456--21557 Score: 97
Period size: 35 Copynumber: 2.8 Consensus size: 38
21446 ATTTGAGTAT
* *
21456 TTTTATTAAATTTAATAATTTATATTATTTTTATAT-A
1 TTTTATTAAATTTAATAATTTATATTATATTTAAATAA
** *
21493 TTTTAATTATTTTTAA-AA--TATTTTATATTTAAATAA
1 TTTT-ATTAAATTTAATAATTTATATTATATTTAAATAA
* *
21529 ATTTAATAAA-TTAATAATTTATATTATAT
1 TTTTATTAAATTTAATAATTTATATTATAT
21558 AGATTTATAT
Statistics
Matches: 50, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
34 4 0.08
35 18 0.36
36 4 0.08
37 15 0.30
38 9 0.18
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (38 bp):
TTTTATTAAATTTAATAATTTATATTATATTTAAATAA
Found at i:23082 original size:29 final size:28
Alignment explanation
Indices: 23024--23084 Score: 79
Period size: 29 Copynumber: 2.1 Consensus size: 28
23014 TTAGTAATTT
*
23024 TAATGAATTTATTATTTATTTAATAAAA
1 TAATAAATTTATTATTTATTTAATAAAA
*
23052 TAATAAATTT-TTATTTAAATTTAATATAA
1 TAATAAATTTATTATTT--ATTTAATAAAA
23081 TAAT
1 TAAT
23085 TTTTTAATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
27 6 0.21
28 9 0.31
29 14 0.48
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (28 bp):
TAATAAATTTATTATTTATTTAATAAAA
Found at i:23088 original size:26 final size:24
Alignment explanation
Indices: 23049--23110 Score: 72
Period size: 26 Copynumber: 2.5 Consensus size: 24
23039 TTATTTAATA
*
23049 AAATAATAAATTTTT-ATTTAAATTT
1 AAATAATAATTTTTTAATTT--ATTT
*
23074 AATATAATAATTTTTTAATTTTTTT
1 AA-ATAATAATTTTTTAATTTATTT
23099 AAATAATAATTT
1 AAATAATAATTT
23111 AAATTTTTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
24 10 0.30
25 7 0.21
26 12 0.36
27 4 0.12
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
AAATAATAATTTTTTAATTTATTT
Found at i:23104 original size:24 final size:24
Alignment explanation
Indices: 23038--23110 Score: 78
Period size: 24 Copynumber: 3.0 Consensus size: 24
23028 GAATTTATTA
* *
23038 TTTATTTAA-TAAAATAATAAATT
1 TTTATTTAATTTAAATAATAATTT
23061 TTTATTTAAATTTAATATAATAATTT
1 TTTATTT-AATTTAA-ATAATAATTT
*
23087 TTTAATTT-TTTTAAATAATAATTT
1 TTT-ATTTAATTTAAATAATAATTT
23111 AAATTTTTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
23 7 0.16
24 12 0.28
25 8 0.19
26 12 0.28
27 4 0.09
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
TTTATTTAATTTAAATAATAATTT
Found at i:28409 original size:106 final size:104
Alignment explanation
Indices: 28289--28485 Score: 313
Period size: 104 Copynumber: 1.9 Consensus size: 104
28279 TATTAAGGGC
28289 TCAGTAAATCAAGTTGAGCTAAAAATAAATTTAAATAAAAAATATCAAAATATTTTTAAGTTAAT
1 TCAGTAAATCAAGTTGAGCTAAAAATAAATTTAAAT-AAAAATAT-AAAATATTTTTAAGTTAAT
* *
28354 CTGATTTAATTTAAATAAAAAATTATACTTTCATTAAAAGT
64 ATGATCTAATTTAAATAAAAAATTATACTTTCATTAAAAGT
* * * * *
28395 TCAGTGAATTAAGTTGAGTTAAAAATAAATTTAAATAAAAATATTAAATTTTTTTAAGTTAATAT
1 TCAGTAAATCAAGTTGAGCTAAAAATAAATTTAAATAAAAATATAAAATATTTTTAAGTTAATAT
28460 GATCTAATTTAAATAAAAAATTATAC
66 GATCTAATTTAAATAAAAAATTATAC
28486 CGGGGTTCAG
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
104 43 0.51
105 8 0.10
106 33 0.39
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (104 bp):
TCAGTAAATCAAGTTGAGCTAAAAATAAATTTAAATAAAAATATAAAATATTTTTAAGTTAATAT
GATCTAATTTAAATAAAAAATTATACTTTCATTAAAAGT
Found at i:29916 original size:18 final size:18
Alignment explanation
Indices: 29893--29936 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
29883 TTAATTTTAT
29893 ATATTAATATAAAAAATA
1 ATATTAATATAAAAAATA
* * * *
29911 ATATTATTTTAAACACTA
1 ATATTAATATAAAAAATA
29929 ATATTAAT
1 ATATTAAT
29937 TTTTGGTCGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (18 bp):
ATATTAATATAAAAAATA
Found at i:30015 original size:21 final size:21
Alignment explanation
Indices: 29991--30033 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
29981 TTAAAGATTA
*
29991 TTTA-ATTATCATTTTATAAAT
1 TTTATATTAT-ATTTAATAAAT
*
30012 TTTATTTTATATTTAATAAAT
1 TTTATATTATATTTAATAAAT
30033 T
1 T
30034 ATTTTTACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (21 bp):
TTTATATTATATTTAATAAAT
Found at i:30039 original size:20 final size:22
Alignment explanation
Indices: 29996--30040 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
29986 GATTATTTAA
* *
29996 TTATCATTTTATAAATTTTATT
1 TTATCATTTAATAAATTATATT
30018 TTAT-ATTTAATAAATTAT-TT
1 TTATCATTTAATAAATTATATT
30038 TTA
1 TTA
30041 CTAAATTCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 12 0.57
22 4 0.19
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
TTATCATTTAATAAATTATATT
Found at i:30103 original size:15 final size:14
Alignment explanation
Indices: 30065--30106 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
30055 AACAAATACA
30065 TTAATT-ATATTTT
1 TTAATTAATATTTT
*
30078 TTATATAAATATTATT
1 TTA-ATTAATATT-TT
30094 TTAATTAATATTT
1 TTAATTAATATTT
30107 ATAATTATCG
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
13 3 0.12
14 3 0.12
15 13 0.54
16 5 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTAATTAATATTTT
Found at i:33526 original size:24 final size:24
Alignment explanation
Indices: 33499--33548 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
33489 TTGAAGAGAA
*
33499 AGATTGTTTAGATGTATAAGGAAT
1 AGATTGTTTAGATGTACAAGGAAT
* *
33523 AGATTGTTTATATGTACAAGTAAT
1 AGATTGTTTAGATGTACAAGGAAT
33547 AG
1 AG
33549 GATCTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.02, G:0.22, T:0.38
Consensus pattern (24 bp):
AGATTGTTTAGATGTACAAGGAAT
Found at i:37289 original size:82 final size:82
Alignment explanation
Indices: 37143--37301 Score: 221
Period size: 82 Copynumber: 1.9 Consensus size: 82
37133 AACACAGTTA
* * * *
37143 GGGATTTAAATAGCAGCTACAATATGACGTTACAGTTGCTATTTTGCGATCTCTACTCTATCTGC
1 GGGATTTAAATAACAACTACAACATGACGTTACAGCTGCTATTTTGCGATCTCTACTCTATCTGC
37208 AGTCAATATTCATGACT
66 AGTCAATATTCATGACT
* * * *
37225 GGGATTTAAATAACAACTGCAACATGACGTTACAGCTGCTATTTTGTGATTTC-AGCTCTCTCTG
1 GGGATTTAAATAACAACTACAACATGACGTTACAGCTGCTATTTTGCGATCTCTA-CTCTATCTG
*
37289 CCGTCAATATTCA
65 CAGTCAATATTCA
37302 CGATCAAGAT
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
81 1 0.01
82 66 0.99
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.35
Consensus pattern (82 bp):
GGGATTTAAATAACAACTACAACATGACGTTACAGCTGCTATTTTGCGATCTCTACTCTATCTGC
AGTCAATATTCATGACT
Found at i:37318 original size:82 final size:82
Alignment explanation
Indices: 37166--37318 Score: 193
Period size: 82 Copynumber: 1.9 Consensus size: 82
37156 CAGCTACAAT
* * **
37166 ATGACGTTACAGTTGCTATTTTGCGATCTCTACTCTATCTGCAGTCAATATTCATGACTGGGATT
1 ATGACGTTACAGCTGCTATTTTGCGATCTCTACTCTATCTGCAGTCAATATTCACGACTAAGATT
*
37231 TAAATAACAACTGCAAC
66 CAAATAACAACTGCAAC
* * * *
37248 ATGACGTTACAGCTGCTATTTTGTGATTTC-AGCTCTCTCTGCCGTCAATATTCACGA-TCAAGA
1 ATGACGTTACAGCTGCTATTTTGCGATCTCTA-CTCTATCTGCAGTCAATATTCACGACT-AAGA
37311 TTCAAATA
64 TTCAAATA
37319 GCAGCTGCCT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
81 2 0.03
82 58 0.97
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.35
Consensus pattern (82 bp):
ATGACGTTACAGCTGCTATTTTGCGATCTCTACTCTATCTGCAGTCAATATTCACGACTAAGATT
CAAATAACAACTGCAAC
Found at i:37364 original size:86 final size:87
Alignment explanation
Indices: 37241--37557 Score: 353
Period size: 86 Copynumber: 3.7 Consensus size: 87
37231 TAAATAACAA
* ** * *
37241 CTGCAACATGACGTTACAGCTGCTATTTTG-TGATTTCAGCTCTCTCTGCCGTCAATATTCACGA
1 CTGCAACATGATGTTAGGGCTGCTATTTTGCAG-TTTCAGCTCTCTCTGCCATCAATATTCACGA
37305 TC-AAGATTCAAATAGCAGCTGC
65 TCAAAGATTCAAATAGCAGCTGC
* * * * * *
37327 CTGCAACATGATATTAGGGCTGCTACTTTGCAGTTTCAGCTTTCTCCGCCATCAATATTCATGAC
1 CTGCAACATGATGTTAGGGCTGCTATTTTGCAGTTTCAGCTCTCTCTGCCATCAATATTCACGAT
*
37392 CGAA-ATTCAAATAGCAGCTGC
66 CAAAGATTCAAATAGCAGCTGC
* * * * *
37413 CTGCAACATGATGTTAAGGTTGCTATTTTGCAGTTTCGGCTCTCTTTGCCATCAATATTCACGGT
1 CTGCAACATGATGTTAGGGCTGCTATTTTGCAGTTTCAGCTCTCTCTGCCATCAATATTCACGAT
* *
37478 CAAAGATTTAAATAGTA---G-
66 CAAAGATTCAAATAGCAGCTGC
* * * *
37496 CTGCAACATAATGTTAGGACTGCTATTTTGCAGTTTCGGCTCACT-TCGCCATCAATATTCAC
1 CTGCAACATGATGTTAGGGCTGCTATTTTGCAGTTTCAGCTCTCTCT-GCCATCAATATTCAC
37558 AACTTATTTT
Statistics
Matches: 197, Mismatches: 30, Indels: 11
0.83 0.13 0.05
Matches are distributed among these distances:
82 1 0.01
83 55 0.28
84 1 0.01
86 127 0.64
87 13 0.07
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.33
Consensus pattern (87 bp):
CTGCAACATGATGTTAGGGCTGCTATTTTGCAGTTTCAGCTCTCTCTGCCATCAATATTCACGAT
CAAAGATTCAAATAGCAGCTGC
Found at i:37457 original size:172 final size:169
Alignment explanation
Indices: 37241--37556 Score: 404
Period size: 172 Copynumber: 1.9 Consensus size: 169
37231 TAAATAACAA
* *
37241 CTGCAACATGACGTTACAGCTGCTATTTTGTGATTTCAGCTCTCTCTGCCGTCAATATTCACGAT
1 CTGCAACATGACGTTACAGCTGCTATTTTGAGATTTCAGCTCTCTCTGCCATCAATATTCACGAT
* * **
37306 C-AAGATTCAAATAGCAGCTGCCTGCAACATGATATTAGGGCTGCTACTTTGCAGTTTCAGCTTT
66 CAAAGATTCAAATAGCA---G-CTGCAACATAATATTAGGACTGCTACTTTGCAGTTTCAGCTCA
37370 CTCCGCCATCAATATTCATGACCGAAATTCAAATAGCAGCTGC
127 CTCCGCCATCAATATTCATGACCGAAATTCAAATAGCAGCTGC
* * * *
37413 CTGCAACATGATGTTA-AGGTTGCTATTTTGCAG-TTTCGGCTCTCTTTGCCATCAATATTCACG
1 CTGCAACATGACGTTACA-GCTGCTATTTTG-AGATTTCAGCTCTCTCTGCCATCAATATTCACG
* * * * * *
37476 GTCAAAGATTTAAATAGTAGCTGCAACATAATGTTAGGACTGCTATTTTGCAGTTTCGGCTCACT
64 ATCAAAGATTCAAATAGCAGCTGCAACATAATATTAGGACTGCTACTTTGCAGTTTCAGCTCACT
*
37541 TCGCCATCAATATTCA
129 CCGCCATCAATATTCA
37557 CAACTTATTT
Statistics
Matches: 124, Mismatches: 17, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
169 53 0.43
170 1 0.01
171 1 0.01
172 55 0.44
173 14 0.11
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (169 bp):
CTGCAACATGACGTTACAGCTGCTATTTTGAGATTTCAGCTCTCTCTGCCATCAATATTCACGAT
CAAAGATTCAAATAGCAGCTGCAACATAATATTAGGACTGCTACTTTGCAGTTTCAGCTCACTCC
GCCATCAATATTCATGACCGAAATTCAAATAGCAGCTGC
Found at i:38417 original size:20 final size:21
Alignment explanation
Indices: 38389--38428 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
38379 ATTTATAAAT
38389 AAATAATTAAAATT-TATTTA
1 AAATAATTAAAATTATATTTA
* *
38409 AAATTATTAATATTATATTT
1 AAATAATTAAAATTATATTT
38429 TTTATTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
AAATAATTAAAATTATATTTA
Found at i:39756 original size:188 final size:188
Alignment explanation
Indices: 39416--39766 Score: 419
Period size: 188 Copynumber: 1.9 Consensus size: 188
39406 AATATAATTA
*
39416 AATATAAATATTTCAAAAAAAATAAAAAATCAAAATAACATAAAATTAAATATCCAATCCAATCA
1 AATATAAATATTTCAAAAAAAATAAAAAATCAAAATAACATAAAATCAAATATCCAATCCAATCA
** * * * * *
39481 AAACTTATTTTACTTGGATCCTATTGTGAGGTTGAACATAGTCATGTTTAATTCTTTTAAGATTT
66 AAACTTATTTTACTTGGATCCTAACGTGAGATTAAACAAAATCATATTTAATTCTTTTAAGATTT
* * *
39546 TTGTGTTTAAAAAATCTTTAAAAAATTATATCTATAAACCCATGCTTTGATATGCATCG
131 TTATG-TCAAAAAATCTTTAAAAAATCATATCTATAAACCCATGCTTTGATATGCATCG
* * *
39605 AATATAAATATTT-AAAAAAAATAAAAAGTCAAAATACCATAAAATCAAGTA-CCTAA-CTCAAT
1 AATATAAATATTTCAAAAAAAATAAAAAATCAAAATAACATAAAATCAAATATCC-AATC-CAAT
*
39667 CAAAACTTATTTTACTTGGAT-TTCAACGTGAGTATTAAACACAAAT-ATATTTAATAT-TTTTA
64 CAAAACTTATTTTACTTGGATCCT-AACGTGAG-ATTAAACA-AAATCATATTTAAT-TCTTTTA
* * *
39729 AGATTTTTATG-CACGAAAATTTTTAAAAGATCATATCT
125 AGATTTTTATGTCA-AAAAATCTTTAAAAAATCATATCT
39767 TTATACCTAT
Statistics
Matches: 137, Mismatches: 18, Indels: 15
0.81 0.11 0.09
Matches are distributed among these distances:
187 5 0.04
188 87 0.64
189 42 0.31
190 3 0.02
ACGTcount: A:0.45, C:0.12, G:0.08, T:0.36
Consensus pattern (188 bp):
AATATAAATATTTCAAAAAAAATAAAAAATCAAAATAACATAAAATCAAATATCCAATCCAATCA
AAACTTATTTTACTTGGATCCTAACGTGAGATTAAACAAAATCATATTTAATTCTTTTAAGATTT
TTATGTCAAAAAATCTTTAAAAAATCATATCTATAAACCCATGCTTTGATATGCATCG
Found at i:44904 original size:44 final size:44
Alignment explanation
Indices: 44856--45021 Score: 118
Period size: 44 Copynumber: 3.6 Consensus size: 44
44846 TATATAATCA
* * * *
44856 TTTATATTCATATTTTTTTATTATATTATATTTTAAATAATTTT
1 TTTATATTCATATTATGTAATTATATCATATTTTAAATAATTTT
* * *
44900 TTTATATTTATGTTATGTAATTATATCATATTTTAAATTATTTT
1 TTTATATTCATATTATGTAATTATATCATATTTTAAATAATTTT
* * * * *
44944 AACTTAATTTATGTTATGTTATGTAATTATATTATATTTTAAATTATTTT
1 ---TT--TATAT-TCATATTATGTAATTATATCATATTTTAAATAATTTT
* * *
44994 AATTTAT-TTTATTTTATATAATTATATC
1 --TTTATATTCATATTATGTAATTATATC
45022 TTAAATACGA
Statistics
Matches: 102, Mismatches: 14, Indels: 11
0.80 0.11 0.09
Matches are distributed among these distances:
44 37 0.36
45 17 0.17
46 1 0.01
47 4 0.04
49 7 0.07
50 36 0.35
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.61
Consensus pattern (44 bp):
TTTATATTCATATTATGTAATTATATCATATTTTAAATAATTTT
Found at i:44969 original size:50 final size:50
Alignment explanation
Indices: 44907--45010 Score: 172
Period size: 50 Copynumber: 2.1 Consensus size: 50
44897 TTTTTTATAT
44907 TTATGTTATGTAATTATATCATATTTTAAATTATTTTAACTTAATTTATG
1 TTATGTTATGTAATTATATCATATTTTAAATTATTTTAACTTAATTTATG
* * * *
44957 TTATGTTATGTAATTATATTATATTTTAAATTATTTTAATTTATTTTATT
1 TTATGTTATGTAATTATATCATATTTTAAATTATTTTAACTTAATTTATG
45007 TTAT
1 TTAT
45011 ATAATTATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.61
Consensus pattern (50 bp):
TTATGTTATGTAATTATATCATATTTTAAATTATTTTAACTTAATTTATG
Found at i:45365 original size:21 final size:19
Alignment explanation
Indices: 45324--45379 Score: 69
Period size: 21 Copynumber: 2.9 Consensus size: 19
45314 AAAAAAGATA
*
45324 ATAATGATAAAATT-AATT
1 ATAATAATAAAATTAAATT
45342 ATAATAATAAAATTAAATAAT
1 ATAATAATAAAATTAAAT--T
*
45363 ATAATAATAAAAATAAA
1 ATAATAATAAAATTAAA
45380 ATCAATGATA
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
18 13 0.39
19 3 0.09
21 17 0.52
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
ATAATAATAAAATTAAATT
Found at i:45366 original size:18 final size:18
Alignment explanation
Indices: 45321--45369 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
45311 TAAAAAAAAG
*
45321 ATAATAATGATAAAATTA
1 ATAATAATAATAAAATTA
*
45339 ATTATAATAATAAAATTAA
1 ATAATAATAATAAAATT-A
45358 ATAAT-ATAATAA
1 ATAATAATAATAA
45370 TAAAAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (18 bp):
ATAATAATAATAAAATTA
Found at i:45390 original size:21 final size:21
Alignment explanation
Indices: 45311--45390 Score: 54
Period size: 21 Copynumber: 3.7 Consensus size: 21
45301 TCGATAAGAT
* **
45311 TAAAA-AAAAGATAATAATGA
1 TAAAATAAATGATAATAAAAA
* *
45331 TAAAATTAATTATAATAATAAAA
1 TAAAATAAATGATAAT-A-AAAA
* *
45354 TTAAATAATATAATAATAAAAA
1 TAAAATAA-ATGATAATAAAAA
*
45376 TAAAATCAATGATAA
1 TAAAATAAATGATAA
45391 GATATTTTAC
Statistics
Matches: 45, Mismatches: 11, Indels: 7
0.71 0.17 0.11
Matches are distributed among these distances:
20 5 0.11
21 13 0.29
22 11 0.24
23 9 0.20
24 7 0.16
ACGTcount: A:0.66, C:0.01, G:0.04, T:0.29
Consensus pattern (21 bp):
TAAAATAAATGATAATAAAAA
Found at i:47330 original size:16 final size:15
Alignment explanation
Indices: 47296--47335 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
47286 TATAATAAAT
*
47296 TATTAAAATTATATA
1 TATTAAAAATATATA
*
47311 TATTAAATAATATTTA
1 TATTAAA-AATATATA
47327 TATTAAAAA
1 TATTAAAAA
47336 CCAAATTGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
15 9 0.41
16 13 0.59
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTAAAAATATATA
Found at i:47681 original size:22 final size:23
Alignment explanation
Indices: 47627--47722 Score: 65
Period size: 22 Copynumber: 4.2 Consensus size: 23
47617 TAATTTAATG
* *
47627 TAAAATTAAAATTTTTATTTATTA
1 TAAAATT-AAATTTATATTTATAA
*
47651 TCAAA-TAAATTTATATTTA-AA
1 TAAAATTAAATTTATATTTATAA
* *
47672 TAAAATTAAAATTTTTACTTATAAA
1 TAAAATT-AAATTTATATTTAT-AA
** *
47697 TTGAA-TAAATTT-TATTAATAA
1 TAAAATTAAATTTATATTTATAA
47718 TAAAA
1 TAAAA
47723 AATATTTATA
Statistics
Matches: 56, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
21 10 0.18
22 18 0.32
23 18 0.32
24 5 0.09
25 5 0.09
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (23 bp):
TAAAATTAAATTTATATTTATAA
Found at i:47706 original size:46 final size:45
Alignment explanation
Indices: 47627--47722 Score: 122
Period size: 45 Copynumber: 2.1 Consensus size: 45
47617 TAATTTAATG
* * *
47627 TAAAATTAAAATTTTTATTTATTATCAAATAAATTTATATTTA-AA
1 TAAAATTAAAATTTTTACTTATAATCAAATAAATTT-TATTAATAA
**
47672 TAAAATTAAAATTTTTACTTATAAATTGAATAAATTTTATTAATAA
1 TAAAATTAAAATTTTTACTTAT-AATCAAATAAATTTTATTAATAA
47718 TAAAA
1 TAAAA
47723 AATATTTATA
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
45 26 0.59
46 18 0.41
ACGTcount: A:0.51, C:0.02, G:0.01, T:0.46
Consensus pattern (45 bp):
TAAAATTAAAATTTTTACTTATAATCAAATAAATTTTATTAATAA
Found at i:48499 original size:13 final size:15
Alignment explanation
Indices: 48463--48499 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
48453 GATTTAAGTA
48463 TTATATTTTATATAGT
1 TTATA-TTTATATAGT
48479 TTATATTTATATA-T
1 TTATATTTATATAGT
48493 TTA-ATTT
1 TTATATTT
48500 GATTTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 4 0.19
14 4 0.19
15 8 0.38
16 5 0.24
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (15 bp):
TTATATTTATATAGT
Found at i:48674 original size:50 final size:53
Alignment explanation
Indices: 48617--48719 Score: 185
Period size: 50 Copynumber: 2.0 Consensus size: 53
48607 TATATGTATA
48617 TTTTATATGATAAAAATTACTTA-T-TATAAAAATAT-AAATTATTATATATT
1 TTTTATATGATAAAAATTACTTATTATATAAAAATATAAAATTATTATATATT
48667 TTTTATATGATAAAAATTACTTATTATATAAAAATATAAAATTATTATATATT
1 TTTTATATGATAAAAATTACTTATTATATAAAAATATAAAATTATTATATATT
48720 ATATAATTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
50 23 0.46
51 1 0.02
52 11 0.22
53 15 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (53 bp):
TTTTATATGATAAAAATTACTTATTATATAAAAATATAAAATTATTATATATT
Found at i:48697 original size:18 final size:18
Alignment explanation
Indices: 48626--48701 Score: 56
Period size: 18 Copynumber: 4.4 Consensus size: 18
48616 ATTTTATATG
48626 ATAAAAATTACTTATTAT
1 ATAAAAATTACTTATTAT
* *
48644 A-AAAATATAAATTATTAT
1 ATAAAA-ATTACTTATTAT
**
48662 AT----ATTTTTTA-TAT
1 ATAAAAATTACTTATTAT
48675 GATAAAAATTACTTATTAT
1 -ATAAAAATTACTTATTAT
48694 ATAAAAAT
1 ATAAAAAT
48702 ATAAAATTAT
Statistics
Matches: 43, Mismatches: 7, Indels: 16
0.65 0.11 0.24
Matches are distributed among these distances:
13 3 0.07
14 7 0.16
17 4 0.09
18 26 0.60
19 3 0.07
ACGTcount: A:0.51, C:0.03, G:0.01, T:0.45
Consensus pattern (18 bp):
ATAAAAATTACTTATTAT
Found at i:49476 original size:27 final size:29
Alignment explanation
Indices: 49427--49480 Score: 85
Period size: 27 Copynumber: 1.9 Consensus size: 29
49417 ATTCATAATT
*
49427 TATAACAAATATTTTTTTATTTATTAAAA
1 TATAACAAATATTTTTTAATTTATTAAAA
49456 TATAA-AAATA-TTTTTAATTTATTAA
1 TATAACAAATATTTTTTAATTTATTAA
49481 TATTTTTGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 14 0.58
28 5 0.21
29 5 0.21
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (29 bp):
TATAACAAATATTTTTTAATTTATTAAAA
Found at i:50272 original size:2 final size:2
Alignment explanation
Indices: 50265--50317 Score: 54
Period size: 2 Copynumber: 26.5 Consensus size: 2
50255 TGGGTCCAAA
* * *
50265 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AA AG AT AT ACT -T
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T AT
*
50307 AT AT TT AT AT A
1 AT AT AT AT AT A
50318 AAATTAAATT
Statistics
Matches: 42, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
1 1 0.02
2 40 0.95
3 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (2 bp):
AT
Found at i:50293 original size:22 final size:22
Alignment explanation
Indices: 50265--50319 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
50255 TGGGTCCAAA
*
50265 ATATATATAAATATATA-TATAT
1 ATATATATAAAGATATACT-TAT
50287 ATATATATAAAGATATACTTAT
1 ATATATATAAAGATATACTTAT
*
50309 ATTTATATAAA
1 ATATATATAAA
50320 ATTAAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (22 bp):
ATATATATAAAGATATACTTAT
Found at i:51794 original size:15 final size:15
Alignment explanation
Indices: 51776--51831 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
51766 TATTTTTATT
51776 ATAATTATAAATATA
1 ATAATTATAAATATA
*
51791 ATAATTAT-TATCATA
1 ATAATTATAAAT-ATA
* *
51806 TTAATTATGAATATTA
1 ATAATTATAAATA-TA
51822 ATAA-TATAAA
1 ATAATTATAAA
51832 ATATTAAAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
14 2 0.06
15 24 0.73
16 7 0.21
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (15 bp):
ATAATTATAAATATA
Found at i:52201 original size:24 final size:22
Alignment explanation
Indices: 52137--52219 Score: 80
Period size: 23 Copynumber: 3.8 Consensus size: 22
52127 TGATTATATA
*
52137 AATTTAATTTATTTTT--AAGT
1 AATTTAATTTATTTTTAAAATT
*** *
52157 AATTTAAAAAAATTTTAAAATCT
1 AATTTAATTTATTTTTAAAAT-T
*
52180 AATTTATTTTTATTTTTAAAATT
1 AATTTA-ATTTATTTTTAAAATT
52203 AATTTAATTTATTTTTA
1 AATTTAATTTATTTTTA
52220 TGAAATTTAT
Statistics
Matches: 48, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
20 12 0.25
22 12 0.25
23 14 0.29
24 10 0.21
ACGTcount: A:0.41, C:0.01, G:0.01, T:0.57
Consensus pattern (22 bp):
AATTTAATTTATTTTTAAAATT
Found at i:52218 original size:23 final size:22
Alignment explanation
Indices: 52169--52239 Score: 72
Period size: 24 Copynumber: 3.1 Consensus size: 22
52159 TTTAAAAAAA
*
52169 TTTTAAAATCTAATTTATTTTTAT
1 TTTTAAAAT-TAATTTATTTAT-T
52193 TTTTAAAATTAATTTAATTTATT
1 TTTTAAAATTAATTT-ATTTATT
* *
52216 TTTATGAAATTTATTT-TTTATT
1 TTT-TAAAATTAATTTATTTATT
52238 TT
1 TT
52240 ATTATATATA
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
22 8 0.19
23 10 0.24
24 24 0.57
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (22 bp):
TTTTAAAATTAATTTATTTATT
Found at i:52419 original size:26 final size:24
Alignment explanation
Indices: 52390--52441 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
52380 AGTTATTATT
52390 TTTTATAAAAATAATATTTAATTAAA
1 TTTTATAAAAATAATA-TTAA-TAAA
* *
52416 TTTTATAAAATTTATATTAATAAA
1 TTTTATAAAAATAATATTAATAAA
52440 TT
1 TT
52442 AAAATATTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 6 0.25
25 4 0.17
26 14 0.58
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (24 bp):
TTTTATAAAAATAATATTAATAAA
Found at i:52530 original size:120 final size:123
Alignment explanation
Indices: 52394--52700 Score: 360
Period size: 120 Copynumber: 2.5 Consensus size: 123
52384 ATTATTTTTT
* *
52394 ATAAAAATAATATTTAATTAAATTTTATAAAATTTATATTAATAAATTAAAATATTAACTATTTT
1 ATAAAAATAATATTTAATTAAATTTTAAAAAATTTATATTAACAAATTAAAATATTAA-TATTTT
* ***
52459 T-TAAAAATAAAAAA-TT-AAATTAAAAAGAGTTAA-TTATTATTAT-TTTTTAATAAA
65 TATAAAAATAAAAAATTTAAAATAAAAAAGAAAAAAGTTATTATTATATTTTTAATAAA
* *
52513 ATTAAAAATAATATTTAATTAAGTTTTAAAAAAATTATATTAACAAATTAAAAAATTAATTATTA
1 A-TAAAAATAATATTTAATTAAATTTTAAAAAATTTATATTAACAAATT--AAAA-T-ATTA--A
* *
52578 TATTTTTATAAAAATAAAAAATTTAAAATAAAAAATAAAAAAGTTTTTTATTATAATTTTTAATA
59 TATTTTTATAAAAATAAAAAATTTAAAATAAAAAAGAAAAAAG-TTATTATTAT-ATTTTTAATA
52643 AA
122 AA
* *
52645 AT-AAAA-AATATTTAATT-AAGTTTAAAAAATTTACATTAACAAATTAAAATATTAAT
1 ATAAAAATAATATTTAATTAAATTTTAAAAAATTTATATTAACAAATTAAAATATTAAT
52701 TATTATGTTT
Statistics
Matches: 160, Mismatches: 14, Indels: 25
0.80 0.07 0.13
Matches are distributed among these distances:
119 1 0.01
120 43 0.27
122 6 0.04
123 1 0.01
124 8 0.05
125 8 0.05
126 18 0.11
127 2 0.01
128 36 0.22
129 11 0.07
130 13 0.08
131 1 0.01
132 12 0.08
ACGTcount: A:0.56, C:0.01, G:0.02, T:0.41
Consensus pattern (123 bp):
ATAAAAATAATATTTAATTAAATTTTAAAAAATTTATATTAACAAATTAAAATATTAATATTTTT
ATAAAAATAAAAAATTTAAAATAAAAAAGAAAAAAGTTATTATTATATTTTTAATAAA
Found at i:52598 original size:54 final size:54
Alignment explanation
Indices: 52539--52652 Score: 135
Period size: 53 Copynumber: 2.1 Consensus size: 54
52529 AATTAAGTTT
* * *
52539 TAAAAAAATTATATTAACAAATTAAAAAA-TTAATTATTAT-ATTTTT-ATAAAAA
1 TAAAAAAATTAAAATAA-AAAATAAAAAAGTTAATTATTATAATTTTTAAT-AAAA
* **
52592 TAAAAAATTTAAAATAAAAAATAAAAAAGTTTTTTATTATAATTTTTAATAAAA
1 TAAAAAAATTAAAATAAAAAATAAAAAAGTTAATTATTATAATTTTTAATAAAA
52646 TAAAAAA
1 TAAAAAA
52653 TATTTAATTA
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
52 10 0.19
53 23 0.44
54 17 0.33
55 2 0.04
ACGTcount: A:0.61, C:0.01, G:0.01, T:0.38
Consensus pattern (54 bp):
TAAAAAAATTAAAATAAAAAATAAAAAAGTTAATTATTATAATTTTTAATAAAA
Found at i:52766 original size:128 final size:132
Alignment explanation
Indices: 52492--52735 Score: 365
Period size: 128 Copynumber: 1.9 Consensus size: 132
52482 AAAGAGTTAA
*
52492 TTATTATTATTTTTTAATAAAATTAAAAATAATATTTAATTAAGTTTTAAAAAAATTATATTAAC
1 TTATTA-TATTTTTTAATAAAATTAAAAATAATATTTAATTAAGTTTTAAAAAAATTACATTAAC
52557 AAATTAAAAAATTAATTATTATATTTTTATAAAAATAAAAAATTTAAAATAAAAAATAAAAAAGT
65 AAATTAAAAAATTAATTATTATATTTTTATAAAAATAAAAAATTTAAAATAAAAAATAAAAAAGT
52622 TTT
130 TTT
* *
52625 TTATTATAATTTTTAATAAAA-T-AAAA-AATATTTAATTAAG-TTTAAAAAATTTACATTAACA
1 TTATTATATTTTTTAATAAAATTAAAAATAATATTTAATTAAGTTTTAAAAAAATTACATTAACA
* * * * *
52686 AATTAAAATATTAATTATTATGTTTTTA-AAACA-AAAAATTTTAAATTAAA
66 AATTAAAAAATTAATTATTATATTTTTATAAAAATAAAAAATTTAAAATAAA
52736 GTTTTATTAA
Statistics
Matches: 103, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
126 15 0.15
127 4 0.04
128 45 0.44
129 14 0.14
130 4 0.04
131 1 0.01
132 14 0.14
133 6 0.06
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (132 bp):
TTATTATATTTTTTAATAAAATTAAAAATAATATTTAATTAAGTTTTAAAAAAATTACATTAACA
AATTAAAAAATTAATTATTATATTTTTATAAAAATAAAAAATTTAAAATAAAAAATAAAAAAGTT
TT
Found at i:56512 original size:22 final size:22
Alignment explanation
Indices: 56484--56538 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
56474 TGGACATGTT
56484 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
56506 AAAAATGCATGAAACATAATAA
1 AAAAATGCATGAAACATAATAA
56528 AAAAATGCATG
1 AAAAATGCATG
56539 GTCAAAGGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.62, C:0.09, G:0.11, T:0.18
Consensus pattern (22 bp):
AAAAATGCATGAAACATAATAA
Found at i:57501 original size:20 final size:20
Alignment explanation
Indices: 57478--57525 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
57468 TAGAATATAT
* *
57478 CGATACATTCATACATGTAG
1 CGATACATTCAAAAATGTAG
* * *
57498 CGATATATTGAAAAATGTAT
1 CGATACATTCAAAAATGTAG
57518 CGATACAT
1 CGATACAT
57526 CAAGGTAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.31
Consensus pattern (20 bp):
CGATACATTCAAAAATGTAG
Found at i:57519 original size:40 final size:39
Alignment explanation
Indices: 57448--57525 Score: 102
Period size: 40 Copynumber: 2.0 Consensus size: 39
57438 GGTAAAAAGA
* * *
57448 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTAGCGATACATTGAAAAATATATCGATACATT
* *
57487 CATACATGTAGCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTAGCGATACATTGAAAAATATATCGATACAT
57526 CAAGGTAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (39 bp):
CATAATGTAGCGATACATTGAAAAATATATCGATACATT
Found at i:58800 original size:12 final size:12
Alignment explanation
Indices: 58783--58816 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
58773 TCTCAGCAAT
58783 GATGATGAAGAC
1 GATGATGAAGAC
* *
58795 GATGATTAAGAT
1 GATGATGAAGAC
58807 GATGATGAAG
1 GATGATGAAG
58817 CCATTGATCG
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:0.41, C:0.03, G:0.32, T:0.24
Consensus pattern (12 bp):
GATGATGAAGAC
Found at i:60012 original size:26 final size:26
Alignment explanation
Indices: 59983--60055 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 26
59973 ATTAATATTT
*
59983 TAAATTT-ATATATAATAAAATAAAAA
1 TAAATTTCATA-AAAATAAAATAAAAA
*
60009 TAAATTTCATAAAAAT-AAAT-TAAA
1 TAAATTTCATAAAAATAAAATAAAAA
*
60033 TTAATTT--TAAAAATAAAAATAAA
1 TAAATTTCATAAAAAT-AAAATAAA
60056 TTAGATTTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
22 7 0.18
24 13 0.33
25 5 0.13
26 11 0.28
27 3 0.08
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.34
Consensus pattern (26 bp):
TAAATTTCATAAAAATAAAATAAAAA
Found at i:60038 original size:24 final size:23
Alignment explanation
Indices: 60018--60068 Score: 77
Period size: 23 Copynumber: 2.2 Consensus size: 23
60008 ATAAATTTCA
*
60018 TAAAAAT-AAATTAAATTAATTT
1 TAAAAATAAAAATAAATTAATTT
60040 TAAAAATAAAAATAAATTAGATTT
1 TAAAAATAAAAATAAATTA-ATTT
60064 TAAAA
1 TAAAA
60069 TTTTTTAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 7 0.27
23 10 0.38
24 9 0.35
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (23 bp):
TAAAAATAAAAATAAATTAATTT
Found at i:60863 original size:25 final size:26
Alignment explanation
Indices: 60791--60866 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 26
60781 AATTATTATT
*
60791 TAATAATAAATTTTTAATTTAAATTAA
1 TAATAATAAA-TTTTAATTTATATTAA
60818 TAATAA-AAATTTATAA---ATATTAA
1 TAATAATAAATTT-TAATTTATATTAA
*
60841 T-ATAATAAATTTTAATTTTTATTAA
1 TAATAATAAATTTTAATTTATATTAA
60866 T
1 T
60867 TTACAAATAG
Statistics
Matches: 42, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
22 7 0.17
23 13 0.31
25 10 0.24
26 6 0.14
27 6 0.14
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (26 bp):
TAATAATAAATTTTAATTTATATTAA
Found at i:62922 original size:2 final size:2
Alignment explanation
Indices: 62880--62912 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
62870 TTCCAAAATT
62880 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
62913 CGAATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:65561 original size:20 final size:20
Alignment explanation
Indices: 65522--65566 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
65512 TAAAAAATTT
*
65522 AATATTAAATAAATATTAAA
1 AATATTAAATAAATAATAAA
* * *
65542 TATATTAAATTATTAATAAA
1 AATATTAAATAAATAATAAA
65562 AATAT
1 AATAT
65567 ACATTTAGTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
AATATTAAATAAATAATAAA
Found at i:68511 original size:31 final size:33
Alignment explanation
Indices: 68476--68546 Score: 101
Period size: 31 Copynumber: 2.2 Consensus size: 33
68466 AAAGTATTTT
* *
68476 TTATTTTAAATTTAATAGT-TT-AAGATAAATA
1 TTATTTTAAATTTAATAATATTAAAAATAAATA
*
68507 TTATTTTAAATTTAATAATATTAAAAATAAATG
1 TTATTTTAAATTTAATAATATTAAAAATAAATA
68540 TTATTTT
1 TTATTTT
68547 TAAAAAATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
31 18 0.51
32 2 0.06
33 15 0.43
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (33 bp):
TTATTTTAAATTTAATAATATTAAAAATAAATA
Found at i:68622 original size:22 final size:21
Alignment explanation
Indices: 68593--68633 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
68583 TATTCATGGT
68593 TAAAATTTTTAAAAATAAAAA
1 TAAAATTTTTAAAAATAAAAA
*
68614 TAAATATTTTTAAAGATAAA
1 TAAA-ATTTTTAAAAATAAA
68634 TATTTTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (21 bp):
TAAAATTTTTAAAAATAAAAA
Found at i:68649 original size:199 final size:200
Alignment explanation
Indices: 68434--68802 Score: 474
Period size: 200 Copynumber: 1.9 Consensus size: 200
68424 TATAAAAAAT
* ** * *
68434 ATATTTTTAAATATAAAACAAAAAATTATTTAAAAGTA-TTTTTTATTTTAAATTTAATAGTTTA
1 ATATTTTTAAATATAAAACAAAAAATAATCAAAAAATATTTTTTTATTTTAAATTTAAAAGTTTA
* *
68498 AGATAAATATTATTTTAAATTTAATAATATTAAAAATAAATGTTATTTTTAAAAAATTTTAAAGA
66 AGATAAATATTATTTTAAATTTAATAATATTAAAAATAAATATCATTTTTAAAAAATTTTAAAGA
* * **
68563 AGATAA-TCGTTA-ATAATAGTTATTCATGGTTAAAATTTTTAAAAATAAAAATAAATATTTTTA
131 AGATAACT-ATTAGAT-ATAATTATTCATCATTAAAATTTTTAAAAATAAAAATAAATATTTTTA
68626 AAGATAA
194 AAGATAA
* * *
68633 ATATTTTTACATATAAAATAAAAAATAATCAAAAAATATTTTTTTATTTTGAATTTAAAAGTTTA
1 ATATTTTTAAATATAAAACAAAAAATAATCAAAAAATATTTTTTTATTTTAAATTTAAAAGTTTA
* * * * * * * * **
68698 AGATGAATGTTGTTTTTAGTTTAATAGTATTATAAATAAATATCGTTTTTAAAATTTTTTAAAGA
66 AGATAAATATTATTTTAAATTTAATAATATTAAAAATAAATATCATTTTTAAAAAATTTTAAAGA
*
68763 CGATAACTATTAGATATAATTATTCATCATTAAAATTTTT
131 AGATAACTATTAGATATAATTATTCATCATTAAAATTTTT
68803 TAAATTTTTT
Statistics
Matches: 142, Mismatches: 25, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
199 32 0.23
200 107 0.75
201 3 0.02
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (200 bp):
ATATTTTTAAATATAAAACAAAAAATAATCAAAAAATATTTTTTTATTTTAAATTTAAAAGTTTA
AGATAAATATTATTTTAAATTTAATAATATTAAAAATAAATATCATTTTTAAAAAATTTTAAAGA
AGATAACTATTAGATATAATTATTCATCATTAAAATTTTTAAAAATAAAAATAAATATTTTTAAA
GATAA
Found at i:68652 original size:17 final size:16
Alignment explanation
Indices: 68608--68641 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
68598 TTTTTAAAAA
*
68608 TAAAAATAAATATTTT
1 TAAAGATAAATATTTT
68624 TAAAGATAAATATTTT
1 TAAAGATAAATATTTT
68640 TA
1 TA
68642 CATATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (16 bp):
TAAAGATAAATATTTT
Found at i:68918 original size:8 final size:9
Alignment explanation
Indices: 68905--68973 Score: 50
Period size: 10 Copynumber: 7.1 Consensus size: 9
68895 AAATAAAATA
68905 TAAATA-AT
1 TAAATATAT
68913 TAAATATAT
1 TAAATATAT
*
68922 TAAAAATAT
1 TAAATATAT
*
68931 ATAATATAAAT
1 -TAA-ATATAT
68942 TATCAATATAT
1 TA--AATATAT
*
68953 TATAATTTATT
1 TA-AATATA-T
68964 TAAATATAT
1 TAAATATAT
68973 T
1 T
68974 GCCTTACTTA
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
8 6 0.12
9 12 0.25
10 15 0.31
11 14 0.29
12 1 0.02
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (9 bp):
TAAATATAT
Found at i:69375 original size:14 final size:14
Alignment explanation
Indices: 69353--69409 Score: 51
Period size: 14 Copynumber: 3.8 Consensus size: 14
69343 AATATAATAT
* *
69353 AAATATATATCTTA
1 AAATTTATATATTA
69367 AAATTTATATAATATAA
1 AAATTTATAT-AT-T-A
*
69384 ATAATTAATATATTA
1 A-AATTTATATATTA
69399 AAATTTATATA
1 AAATTTATATA
69410 AGTATGAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
14 18 0.51
15 3 0.09
16 2 0.06
17 4 0.11
18 8 0.23
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (14 bp):
AAATTTATATATTA
Found at i:69389 original size:18 final size:17
Alignment explanation
Indices: 69366--69420 Score: 53
Period size: 18 Copynumber: 3.3 Consensus size: 17
69356 TATATATCTT
69366 AAAATTTATATAATATA
1 AAAATTTATATAATATA
*
69383 AATAA-TTA-AT-ATATT
1 AA-AATTTATATAATATA
*
69398 AAAATTTATATAAGTATG
1 AAAATTTATATAA-TATA
69416 AAAAT
1 AAAAT
69421 ATTTTAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 2 0.06
15 9 0.29
16 4 0.13
17 6 0.19
18 10 0.32
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (17 bp):
AAAATTTATATAATATA
Found at i:69405 original size:32 final size:34
Alignment explanation
Indices: 69336--69410 Score: 109
Period size: 32 Copynumber: 2.2 Consensus size: 34
69326 TTAAATATAA
*
69336 TTATATAAATATAATATAAATATATATCTTAAAAT
1 TTATAT-AATATAATATAAATATATATATTAAAAT
*
69371 TTATATAATATAA-ATAATTA-ATATATTAAAAT
1 TTATATAATATAATATAAATATATATATTAAAAT
69403 TTATATAA
1 TTATATAA
69411 GTATGAAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
32 19 0.50
33 6 0.16
34 7 0.18
35 6 0.16
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (34 bp):
TTATATAATATAATATAAATATATATATTAAAAT
Found at i:69593 original size:3 final size:3
Alignment explanation
Indices: 69585--69622 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
69575 TCATTCAAAT
69585 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
69623 ATAAATTAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 32 0.94
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:70002 original size:28 final size:29
Alignment explanation
Indices: 69922--70049 Score: 93
Period size: 29 Copynumber: 4.4 Consensus size: 29
69912 TAATTAGATA
* * *
69922 AATATGATATAAAAAAATAATTAAAATAT
1 AATATAATATAAATAAATAATTTAAATAT
* * *
69951 AATATGATATATATAAATATTTTAAATAT
1 AATATAATATAAATAAATAATTTAAATAT
* * *
69980 -ATATAATATAAATTATTAATTT--ATCAA
1 AATATAATATAAATAAATAATTTAAAT-AT
* *
70007 AAT-TTATATAAATAAAAATATTTTAAATAT
1 AATATAATATAAAT--AAATAATTTAAATAT
70037 AATTATAATATAA
1 AA-TATAATATAA
70050 TAAGATATAT
Statistics
Matches: 75, Mismatches: 16, Indels: 13
0.72 0.15 0.12
Matches are distributed among these distances:
26 2 0.03
27 10 0.13
28 19 0.25
29 31 0.41
30 3 0.04
31 3 0.04
32 7 0.09
ACGTcount: A:0.57, C:0.01, G:0.02, T:0.41
Consensus pattern (29 bp):
AATATAATATAAATAAATAATTTAAATAT
Found at i:71305 original size:2 final size:2
Alignment explanation
Indices: 71292--71327 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
71282 TCAATTGGAA
*
71292 AT AT AT AC AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
71328 ATGCTCCTAC
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:72064 original size:42 final size:43
Alignment explanation
Indices: 72017--72132 Score: 175
Period size: 42 Copynumber: 2.8 Consensus size: 43
72007 CTTCATATTC
72017 ATTTATTGATTTAAGTATCGAAAAATACGATTTAA-TTTTTTT
1 ATTTATTGATTTAAGTATCGAAAAATACGATTTAATTTTTTTT
* * *
72059 ATTTATTGATTTAAGTAT-TAAAAATATGACTTAATTTTTTTT
1 ATTTATTGATTTAAGTATCGAAAAATACGATTTAATTTTTTTT
*
72101 ATTTATTGATTTAAGTATCGAATAATAC-ATTT
1 ATTTATTGATTTAAGTATCGAAAAATACGATTT
72133 GAGTCATTGT
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
41 13 0.20
42 46 0.71
43 6 0.09
ACGTcount: A:0.36, C:0.04, G:0.09, T:0.51
Consensus pattern (43 bp):
ATTTATTGATTTAAGTATCGAAAAATACGATTTAATTTTTTTT
Found at i:74313 original size:38 final size:34
Alignment explanation
Indices: 74270--74398 Score: 91
Period size: 38 Copynumber: 3.6 Consensus size: 34
74260 TGTATATAAA
*
74270 ATATAAAATATATAATATGAATATATATTTTAAAATTT
1 ATAT-AAATATA-AATAT-AATA-ATATATTAAAATTT
* *
74308 ATAT-AATATAAAT-TATTAATATATTAATATTT
1 ATATAAATATAAATATAATAATATATTAAAATTT
** * *
74340 ATATAAATATAAAATATTTTAAATATAATTATAATATA
1 ATATAAATAT-AAATATAAT-AATAT-ATTAAAAT-TT
*
74378 ATAAAATATATAAATATAATA
1 ATATAA-ATATAAATATAATA
74399 TAAAATATAA
Statistics
Matches: 74, Mismatches: 10, Indels: 15
0.75 0.10 0.15
Matches are distributed among these distances:
32 16 0.22
33 8 0.11
34 5 0.07
35 6 0.08
36 11 0.15
37 7 0.09
38 17 0.23
39 4 0.05
ACGTcount: A:0.56, C:0.00, G:0.01, T:0.43
Consensus pattern (34 bp):
ATATAAATATAAATATAATAATATATTAAAATTT
Found at i:74334 original size:8 final size:7
Alignment explanation
Indices: 74263--74407 Score: 72
Period size: 7 Copynumber: 20.7 Consensus size: 7
74253 AAGGTAATGT
*
74263 ATATAAA
1 ATATATA
*
74270 ATATAAA
1 ATATATA
74277 ATATATA
1 ATATATA
*
74284 ATAT-GA
1 ATATATA
74290 ATATATA
1 ATATATA
* * *
74297 TTTTAAA
1 ATATATA
74304 ATTTATATA
1 A--TATATA
74313 ATATA-A
1 ATATATA
74319 AT-TATTA
1 ATATA-TA
74326 ATATATTA
1 ATATA-TA
*
74334 ATAT-TT
1 ATATATA
74340 ATATA-A
1 ATATATA
*
74346 ATATAAA
1 ATATATA
*
74353 ATATTTTA
1 ATA-TATA
74361 A-ATATA
1 ATATATA
74367 AT-TATA
1 ATATATA
74373 ATATAATAAA
1 ATAT-AT--A
74383 ATATATA
1 ATATATA
74390 A-ATATA
1 ATATATA
*
74396 ATATAAA
1 ATATATA
74403 ATATA
1 ATATA
74408 AAAATTACGT
Statistics
Matches: 108, Mismatches: 15, Indels: 30
0.71 0.10 0.20
Matches are distributed among these distances:
5 2 0.02
6 34 0.31
7 46 0.43
8 14 0.13
9 7 0.06
10 5 0.05
ACGTcount: A:0.57, C:0.00, G:0.01, T:0.42
Consensus pattern (7 bp):
ATATATA
Found at i:74345 original size:32 final size:30
Alignment explanation
Indices: 74278--74357 Score: 90
Period size: 32 Copynumber: 2.6 Consensus size: 30
74268 AAATATAAAA
* *
74278 TATATAATATGAATA-TATATTTTAAAATT
1 TATATAATATAAATATTATATATTAAAATT
*
74307 TATATAATATAAATTATTAATATATTAATATT
1 TATATAATATAAA-TATT-ATATATTAAAATT
74339 TATATAAATATAAAATATT
1 TATAT-AATAT-AAATATT
74358 TTAAATATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
29 12 0.28
30 2 0.05
31 1 0.02
32 16 0.37
33 9 0.21
34 3 0.07
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.47
Consensus pattern (30 bp):
TATATAATATAAATATTATATATTAAAATT
Found at i:74360 original size:20 final size:18
Alignment explanation
Indices: 74333--74410 Score: 61
Period size: 20 Copynumber: 4.1 Consensus size: 18
74323 TTAATATATT
74333 AATATTTATATAAATATAA
1 AATATTTATA-AAATATAA
74352 AATATTT-T-AAATATAA
1 AATATTTATAAAATATAA
* *
74368 TTATAATATAATAAAATATATA
1 -AAT-AT-TTATAAAATATA-A
*
74390 AATATAATATAAAATATAA
1 AATAT-TTATAAAATATAA
74409 AA
1 AA
74411 ATTACGTGAA
Statistics
Matches: 48, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
16 8 0.17
17 2 0.04
18 3 0.06
19 11 0.23
20 14 0.29
21 9 0.19
22 1 0.02
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AATATTTATAAAATATAA
Found at i:74651 original size:18 final size:19
Alignment explanation
Indices: 74628--74669 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
74618 TTAAATAATT
74628 TAAAATTTAAAATA-AAAA
1 TAAAATTTAAAATACAAAA
*
74646 TAAAA-TTAAAATACAAGA
1 TAAAATTTAAAATACAAAA
74664 TAAAAT
1 TAAAAT
74670 ATTACATCAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 8 0.38
18 13 0.62
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (19 bp):
TAAAATTTAAAATACAAAA
Found at i:75144 original size:6 final size:6
Alignment explanation
Indices: 75119--75179 Score: 52
Period size: 6 Copynumber: 9.3 Consensus size: 6
75109 TTAAAATTTT
*
75119 TATAAA TATATAA TATTAAA TATAAA TAT-AA TATTAATA TATAACGT
1 TATAAA TATA-AA TA-TAAA TATAAA TATAAA TA-TAA-A TATAA--A
75166 TATAAA TATAAA TA
1 TATAAA TATAAA TA
75180 CGATATTAAT
Statistics
Matches: 46, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
5 4 0.09
6 20 0.43
7 12 0.26
8 10 0.22
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (6 bp):
TATAAA
Found at i:75149 original size:18 final size:19
Alignment explanation
Indices: 75126--75162 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
75116 TTTTATAAAT
75126 ATATAATATTAA-ATATAA
1 ATATAATATTAATATATAA
75144 ATATAATATTAATATATAA
1 ATATAATATTAATATATAA
75163 CGTTATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
ATATAATATTAATATATAA
Found at i:76883 original size:18 final size:19
Alignment explanation
Indices: 76860--76896 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
76850 GGTAAAATTG
76860 TTTATTTAA-ATTTGAAAA
1 TTTATTTAATATTTGAAAA
*
76878 TTTATTTAATATTTTAAAA
1 TTTATTTAATATTTGAAAA
76897 AAATTAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TTTATTTAATATTTGAAAA
Found at i:82631 original size:20 final size:19
Alignment explanation
Indices: 82632--82688 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 19
82622 TGTATCGATA
*
82632 CATTGTATCGATACATTGCT
1 CATTGTATCGATACATT-TT
82652 CATTGTATCGATACATTTT
1 CATTGTATCGATACATTTT
*
82671 ACAATGTATCGATACATT
1 -CATTGTATCGATACATT
82689 CAAGCATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
19 1 0.03
20 33 0.97
ACGTcount: A:0.30, C:0.18, G:0.12, T:0.40
Consensus pattern (19 bp):
CATTGTATCGATACATTTT
Found at i:82645 original size:33 final size:33
Alignment explanation
Indices: 82602--82668 Score: 100
Period size: 33 Copynumber: 2.0 Consensus size: 33
82592 TTTACCTATA
* *
82602 TGTATTGATACATT-TTGCATTGTATCGATACAT
1 TGTATCGATACATTGCT-CATTGTATCGATACAT
82635 TGTATCGATACATTGCTCATTGTATCGATACAT
1 TGTATCGATACATTGCTCATTGTATCGATACAT
82668 T
1 T
82669 TTACAATGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
33 30 0.97
34 1 0.03
ACGTcount: A:0.27, C:0.15, G:0.15, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATTGCTCATTGTATCGATACAT
Found at i:82668 original size:13 final size:13
Alignment explanation
Indices: 82619--82649 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
82609 ATACATTTTG
82619 CATTGTATCGATA
1 CATTGTATCGATA
82632 CATTGTATCGATA
1 CATTGTATCGATA
82645 CATTG
1 CATTG
82650 CTCATTGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (13 bp):
CATTGTATCGATA
Found at i:85211 original size:130 final size:130
Alignment explanation
Indices: 85015--85332 Score: 315
Period size: 130 Copynumber: 2.5 Consensus size: 130
85005 CAAAACGTCA
** * * * * * **
85015 ATTTTTCACAATTGGGGATACTCTAACCCCATTATTTTCACGGGGATACTTCAATCCCGATTTTA
1 ATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTTCAACCCCGACCTTA
* * * * * * * * *
85080 TTTTTGAAA-CATCTA-TTTTCTATAATTGGGGACACTTCAACCCTTGCCTT-A-TTTCTAAATC
66 TTTCT-AAATAATCGATTTTTC-ACAATCGGGGACACTCCAACCC-CGACTTCATTTTCAAAAT-
*
85141 ATCG
127 ACCG
* *
85145 ATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGGGAATACTTCAACCCCGGCCTTA
1 ATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTTCAACCCCGACCTTA
* *
85210 TTTCTAAATAATCGATTTTTCACAATCGGGGATACTCCAACCCCGATTTCATTTTCAAAATACCG
66 TTTCTAAATAATCGATTTTTCACAATCGGGGACACTCCAACCCCGACTTCATTTTCAAAATACCG
* * * *
85275 ATTTTT-ATAATCAGGGATACTCCAA-CCTGTTATTTCCGAGGGGATACTCCAACCCCGA
1 ATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTTCAACCCCGA
85333 TTTTAGTTCT
Statistics
Matches: 155, Mismatches: 29, Indels: 10
0.80 0.15 0.05
Matches are distributed among these distances:
128 28 0.18
129 24 0.15
130 90 0.58
131 13 0.08
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (130 bp):
ATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGGGGATACTTCAACCCCGACCTTA
TTTCTAAATAATCGATTTTTCACAATCGGGGACACTCCAACCCCGACTTCATTTTCAAAATACCG
Found at i:85356 original size:128 final size:130
Alignment explanation
Indices: 85143--85382 Score: 306
Period size: 128 Copynumber: 1.9 Consensus size: 130
85133 TCTAAATCAT
* *
85143 CGATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGGGAATACTTCAACCCCGGCCT
1 CGATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGGGAATACTCCAACCCCGACCT
* * * *
85208 TATTTCTAAATAATCGATTTTTCACAATCGGGGATACTCCAACCCCGATTTCATTTTCAAAATAC
66 TAGTTCTAAATAACCAATTTTCCACAATCGGGGATACTCCAACCCCGATTTCATTTTCAAAATAC
* * * * **
85273 CGATTTTT-ATAATCAGGGATACTCCAA-CCTGTTATTTCCGAGGGGATACTCCAACCCCGATTT
1 CGATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGGGAATACTCCAACCCCGACCT
* * * *
85336 TAGTTCTGGAA-CACCAATTTTCCATAATCGGGGATACTCCAGCCCCG
66 TAGTTCT-AAATAACCAATTTTCCACAATCGGGGATACTCCAACCCCG
85383 TTGTTATCTC
Statistics
Matches: 93, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
128 65 0.70
129 20 0.22
130 8 0.09
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.30
Consensus pattern (130 bp):
CGATTTTTCACAATCAGGGATACTCCAACCCCGTTATTTCCAAGGGAATACTCCAACCCCGACCT
TAGTTCTAAATAACCAATTTTCCACAATCGGGGATACTCCAACCCCGATTTCATTTTCAAAATAC
Found at i:85838 original size:21 final size:21
Alignment explanation
Indices: 85805--85847 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
85795 CTAAGTAAAA
85805 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
85826 ATAC-TATTGGTATTAATACAT
1 ATACGTATT-GTATCAATACAT
85847 A
1 A
85848 AGGTTGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.40
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:85910 original size:20 final size:19
Alignment explanation
Indices: 85885--85955 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
85875 ACCCTGAAAA
85885 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
85905 GTATCGATACAGATTGCAT
1 GTATCGATACACATTAAAT
**
85924 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
85945 GTATCGATACA
1 GTATCGATACA
85956 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:86008 original size:53 final size:53
Alignment explanation
Indices: 85925--86061 Score: 238
Period size: 53 Copynumber: 2.6 Consensus size: 53
85915 AGATTGCATA
*
85925 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAAATT
*
85979 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAAATT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAAATT
*
86032 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
86062 TTGGTAGTAG
Statistics
Matches: 80, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
53 66 0.82
54 14 0.17
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAAATT
Found at i:86048 original size:18 final size:19
Alignment explanation
Indices: 86025--86061 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
86015 TGGCAGTAGC
86025 CAAAAT-TGTATCGATACA
1 CAAAATATGTATCGATACA
86043 CAAAATATGTATCGATACA
1 CAAAATATGTATCGATACA
86062 TTGGTAGTAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.46, C:0.16, G:0.11, T:0.27
Consensus pattern (19 bp):
CAAAATATGTATCGATACA
Found at i:86104 original size:10 final size:10
Alignment explanation
Indices: 86085--86145 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
86075 AATCTCATTT
86085 TCACTGTTCA
1 TCACTGTTCA
*
86095 TCACTATTCA
1 TCACTGTTCA
86105 TCACTGTTCA
1 TCACTGTTCA
* *
86115 TGTA-TCGATACA
1 T-CACT-G-TTCA
86127 TCACTGTTCA
1 TCACTGTTCA
86137 -CACTGTTCA
1 TCACTGTTCA
86146 CACCATTTAA
Statistics
Matches: 41, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
9 9 0.22
10 23 0.56
11 4 0.10
12 5 0.12
ACGTcount: A:0.25, C:0.28, G:0.10, T:0.38
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:87720 original size:19 final size:18
Alignment explanation
Indices: 87678--87729 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
87668 AAATGAAAGC
**
87678 AATAAACAATTATAATAA
1 AATAAACAAAAATAATAA
87696 ATATAAACAAAAATAATAA
1 A-ATAAACAAAAATAATAA
*
87715 TAAT-AATAAAAATAA
1 -AATAAACAAAAATAA
87730 AGTAAGAGGC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 11 0.38
19 17 0.59
20 1 0.03
ACGTcount: A:0.71, C:0.04, G:0.00, T:0.25
Consensus pattern (18 bp):
AATAAACAAAAATAATAA
Found at i:88329 original size:20 final size:20
Alignment explanation
Indices: 88301--88375 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 20
88291 TTTTACTCAG
88301 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTTTTCA
* * * *
88321 ATATATCGATACATGTATGA
1 ATGTATCGATACATTTTTCA
* * *
88341 ATGTATCGATATATTCTGCA
1 ATGTATCGATACATTTTTCA
88361 ATGTATCGATACATT
1 ATGTATCGATACATT
88376 ATGTCTTTTT
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (20 bp):
ATGTATCGATACATTTTTCA
Found at i:88368 original size:40 final size:39
Alignment explanation
Indices: 88301--88378 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
88291 TTTTACTCAG
* *
88301 ATGTATCGATACATTTTTCAATATATCGATACATGTATGA
1 ATGTATCGATACATTCTGCAATATATCGATACAT-TATGA
* *
88341 ATGTATCGATATATTCTGCAATGTATCGATACATTATG
1 ATGTATCGATACATTCTGCAATATATCGATACATTATG
88379 TCTTTTTACC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (39 bp):
ATGTATCGATACATTCTGCAATATATCGATACATTATGA
Found at i:102323 original size:25 final size:26
Alignment explanation
Indices: 102295--102343 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
102285 GTCCTTTACA
102295 CCAA-AAAAAAAAAACAAAAAAAAAC
1 CCAAGAAAAAAAAAACAAAAAAAAAC
* *
102320 CCAAGAAAAAAATAGCAAAAAAAA
1 CCAAGAAAAAAAAAACAAAAAAAA
102344 GAGAAGGGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.80, C:0.14, G:0.04, T:0.02
Consensus pattern (26 bp):
CCAAGAAAAAAAAAACAAAAAAAAAC
Found at i:103599 original size:29 final size:29
Alignment explanation
Indices: 103558--104445 Score: 1130
Period size: 29 Copynumber: 30.5 Consensus size: 29
103548 TTTTCATCCC
103558 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
103587 TTTCAAAGGCCACAAGTCAATGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
103616 TTTCAAAGCCTACACGAGTTAGTGGCACTCC
1 TTTCAAAGCC--CACAAGTCAGTGGCACTCT
103647 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
103676 TTCCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
103705 TTCCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
103734 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
103763 TTTCAAAGCTCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
103792 TTTCAAAGCCCACAAGTTAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
103820 TTTCAAAGCCCATAATTCAGTGGCACT-T
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
103848 TTTCAAAGCCCACAAGTCAGTGGCACTTT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
103877 TTTCAAAGCCCACAAGTCAGTAGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
103905 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
**
103934 TTTCAAAGCCCACACGAGTTGGTGGCTACT-T
1 TTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
* *
103965 CTTTCAAAGCCCACAAGTTAGTGGCAC-CC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
103994 TTTCAAAGCCCACAAGTCAGCGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
104023 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
104052 TTTCAAAGCTCACAAGTCAGTGGCATTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
104081 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
104110 TTTCAAAGCCCACAAGTCAGTGGTAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
104138 TTTCAAAGCCCACAATTTAGTGGTACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
104167 TTTTAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
104195 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
** *
104224 TTTCAAAGCCCACACGAGTTGGTGGCAACTCC
1 TTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
*
104256 TTTCAAAGCCCACGTAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCAC--AAGTCAGTGGCACTCT
* *
104286 TTTCAAAGCCCACAAGTTAGTGGCACTAT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
104315 TTTCAGAGCCCACAAGTAAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
104343 TTTCAAAGCCTACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
104371 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
** * *
104400 TTTCAAAGCCCACACGAGTTGGTGGCAATTTT
1 TTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
104432 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
104446 CAAGTTAGTG
Statistics
Matches: 756, Mismatches: 80, Indels: 43
0.86 0.09 0.05
Matches are distributed among these distances:
28 210 0.28
29 409 0.54
30 24 0.03
31 53 0.07
32 59 0.08
34 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:103881 original size:57 final size:58
Alignment explanation
Indices: 103558--104445 Score: 1130
Period size: 57 Copynumber: 15.2 Consensus size: 58
103548 TTTTCATCCC
* *
103558 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGGCCACAAGTCAATGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
103616 TTTCAAAGCCTACACGAGTTAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCC--CACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
103676 TTCCAAAGCCCACAAGTCAGTGGCACTCTTTCCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
103734 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCTCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* * * *
103792 TTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCATAATTCAGTGGCACT-T
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
103848 TTTCAAAGCCCACAAGTCAGTGGCACTTTTTTCAAAGCCCACAAGTCAGTAGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
**
103905 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGTGGCTACT-T
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
* * * *
103965 CTTTCAAAGCCCACAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGCGGCACTCC
1 -TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
104023 TTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCTCACAAGTCAGTGGCATTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
104081 TTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGTAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* * * * *
104138 TTTCAAAGCCCACAATTTAGTGGTACTCTTTTTAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* ** *
104195 TTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGTGGCAACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
* * *
104256 TTTCAAAGCCCACGTAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACTAT
1 TTTCAAAGCCCAC--AAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* * * *
104315 TTTCAGAGCCCACAAGTAAGTGGCAC-CTTTTCAAAGCCTACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
** * *
104371 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGTGGCAATTTT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
104432 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
104446 CAAGTTAGTG
Statistics
Matches: 726, Mismatches: 82, Indels: 41
0.86 0.10 0.05
Matches are distributed among these distances:
56 50 0.07
57 264 0.36
58 212 0.29
59 38 0.05
60 81 0.11
61 54 0.07
62 15 0.02
63 12 0.02
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (58 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:103990 original size:290 final size:289
Alignment explanation
Indices: 103555--104413 Score: 1248
Period size: 290 Copynumber: 3.0 Consensus size: 289
103545 GAATTTTCAT
* * * *
103555 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGGCCACAAGTCAATGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTTTTTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTC
* * **
103620 AAAGCCTACACGAGTTAGTGGCACTCCTTTCAAAGCCCACA--AGTCAGTGGCAC-TCTTTCCAA
65 AAAGCC--CACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTCTTT-CAA
*
103682 AGCCCACAAGTCAGTGGCACTCTTTCCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCAC
127 AGCCCACAAGTCAGTGGCACCCTTT-CAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCAC
* * * *
103747 AAATCAGTGGCACTCTTTTCAAAGCTCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAG
191 AAGTAAGTGGCACTCTTTTCAAAGCTCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAG
* * *
103812 TGGCAC-CCTTTCAAAGCCCATAATTCAGTGGCA
256 TGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
** *
103845 CTTTTTCAAAGCCCACAAGTCAGTGGCACTTTTTTCAAAGCCCACAAGTCAGTAGCACCCTTTCA
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTTTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
*
103910 AAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGTGGCTACTTCTTTCAAAGC
66 AAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGTGGC-ACTTCTTTCAAAGC
* * * *
103975 CCACAAGTTAGTGGCACCCTTTCAAAGCCCACAAGTCAGCGGCACTCCTTTCAAAGCCCACAAGT
130 CCACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGT
* * *
104040 TAGTGGCACTCTTTTCAAAGCTCACAAGTCAGTGGCATTCTTTTCAAAGCCCACAAATCAGTGGC
195 AAGTGGCACTCTTTTCAAAGCTCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGC
*
104105 ACTCTTTTCAAAGCCCACAAGTCAGTGGTA
260 ACTCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
104135 CCCTTTCAAAGCCCACAATTTAGTGGTACTCTTTTT-AAAGCCCACAAGTCAGTGGCACCCTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACT-TTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTC
*
104199 AAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGTGGCAACTCCTTTCAAAG
65 AAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGTGGC-ACTTCTTTCAAAG
* *
104264 CCCACGTAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTATTTTCAGAGCCCACA
129 CCCAC--AAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACA
*
104329 AGTAAGTGGCAC-CTTTTCAAAGC-CTACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTCAG
192 AGTAAGTGGCACTCTTTTCAAAGCTC-ACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAG
104391 TGGCACTCTTTTCAAAGCCCACA
256 TGGCACTCTTTTCAAAGCCCACA
104414 CGAGTTGGTG
Statistics
Matches: 514, Mismatches: 46, Indels: 18
0.89 0.08 0.03
Matches are distributed among these distances:
287 30 0.06
289 120 0.23
290 266 0.52
291 35 0.07
292 63 0.12
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.24
Consensus pattern (289 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTTTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCA
AAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGTGGCACTTCTTTCAAAGCC
CACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAGTA
AGTGGCACTCTTTTCAAAGCTCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCA
CTCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:105003 original size:20 final size:20
Alignment explanation
Indices: 104975--105051 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
104965 TTTTACCTAG
*
104975 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTATTCA
* *
104995 ATATATCGATATATGTATT-A
1 ATGTATCGATACAT-TATTCA
* * *
105015 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTATTCA
105035 ATGTATCGATACATTAT
1 ATGTATCGATACATTAT
105052 GTCTTTTTAC
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.89
21 3 0.06
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTATTCA
Found at i:119046 original size:9 final size:9
Alignment explanation
Indices: 119032--119070 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
119022 TTTATACCCA
119032 AAAAAAACT
1 AAAAAAACT
*
119041 AAAAAAAAT
1 AAAAAAACT
119050 AAAAAAA-T
1 AAAAAAACT
119058 AAAAAAAC-
1 AAAAAAACT
119066 AAAAA
1 AAAAA
119071 CCCAAGAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 13 0.46
9 15 0.54
ACGTcount: A:0.87, C:0.05, G:0.00, T:0.08
Consensus pattern (9 bp):
AAAAAAACT
Found at i:119053 original size:7 final size:8
Alignment explanation
Indices: 119032--119070 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
119022 TTTATACCCA
119032 AAAAAAACT
1 AAAAAAA-T
119041 AAAAAAAAT
1 -AAAAAAAT
119050 AAAAAAAT
1 AAAAAAAT
*
119058 AAAAAAAC
1 AAAAAAAT
119066 AAAAA
1 AAAAA
119071 CCCAAGAAGA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
8 20 0.71
9 1 0.04
10 7 0.25
ACGTcount: A:0.87, C:0.05, G:0.00, T:0.08
Consensus pattern (8 bp):
AAAAAAAT
Found at i:120362 original size:29 final size:29
Alignment explanation
Indices: 120304--121190 Score: 1025
Period size: 29 Copynumber: 30.8 Consensus size: 29
120294 TTTTCATCCC
120304 TTTCAAAGCCCACAAGTCAGTGGCAACTCT
1 TTTCAAAGCCCACAAGTCAGTGGC-ACTCT
* *
120334 TTTCAAAGGCCACAAGTCAATGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
120363 TTTCAAAGCCTACACAGTTAGTGGCACTCC
1 TTTCAAAGCCCACA-AGTCAGTGGCACTCT
120393 TTTCAAAGCCCACAAGTCAGTGGCACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
120421 TTTCAAAGCCCACAAGTCAGTGGCAC-C-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
120448 TTTCAAAGCCCACAA---AGTGGCACGCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
120474 TTTCAAAGCCCACAAATCAGTGGCAC-CTT
1 TTTCAAAGCCCACAAGTCAGTGGCACTC-T
* *
120503 TTTCAAAGCTCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
120532 TTTCAAAGCCCACAAGTTAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
120560 TTTCAAAGCCCA-AA-TGCAGTGGCACT-T
1 TTTCAAAGCCCACAAGT-CAGTGGCACTCT
120587 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
120616 TTTCAAAGCCCACAAGTTAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
120644 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* **
120673 TTTCAAAGCCACACGAGTTGGTGGCTACT-T
1 TTTCAAAGCC-CACAAGTCAGTGGC-ACTCT
* *
120703 CTTTCAAAG-CCACGTAAGTTAGTGGCAC-CC
1 -TTTCAAAGCCCAC--AAGTCAGTGGCACTCT
* *
120733 TTTCAAAGCCCACAAGTCAGCGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
120762 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
120791 TTCCAAAGCTCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
120820 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
120849 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
120877 TTTCAAAGCCCACAATTCAGTGGTACTC-
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
120905 TTT-AAAGCCCACAAGT---TGTCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
120929 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
** *
120958 TTTCAAAGCCCACAACGAGTTGGTGGCAACTCC
1 TTTCAAAGCCCAC-A--AGTCAGTGGC-ACTCT
*
120991 TTTCAAAGCCCACGTAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCAC--AAGTCAGTGGCACTCT
* *
121021 TTTCAAAGCCCACAAGTTAGTGGTACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
121050 TTTCAGAGCCCACAAGTCAGTGGCAAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGC-ACTCT
* *
121079 TTT-AAAGCCTACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
121106 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
** *
121135 TTTCAAAGCCCACACGAGTTGGTGGCAACTTT
1 TTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
*
121167 TTTCAAAGCCACACAAGTTAGTGG
1 TTTCAAAGCC-CACAAGTCAGTGG
121191 TACCATTTTT
Statistics
Matches: 748, Mismatches: 67, Indels: 83
0.83 0.07 0.09
Matches are distributed among these distances:
23 1 0.00
24 15 0.02
25 14 0.02
26 16 0.02
27 56 0.07
28 171 0.23
29 299 0.40
30 85 0.11
31 39 0.05
32 30 0.04
33 21 0.03
34 1 0.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:135714 original size:16 final size:16
Alignment explanation
Indices: 135693--135747 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
135683 TCCTTTACAC
135693 CAAAAAAAAAACAAAA
1 CAAAAAAAAAACAAAA
**
135709 CAAAAAAAAAACCCAA
1 CAAAAAAAAAACAAAA
* * *
135725 GAAAAAAATAGCAAAA
1 CAAAAAAAAAACAAAA
135741 -AAAAAAA
1 CAAAAAAA
135748 GAAAAGGGTC
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
15 7 0.22
16 25 0.78
ACGTcount: A:0.82, C:0.13, G:0.04, T:0.02
Consensus pattern (16 bp):
CAAAAAAAAAACAAAA
Found at i:135743 original size:14 final size:13
Alignment explanation
Indices: 135696--135747 Score: 50
Period size: 14 Copynumber: 3.8 Consensus size: 13
135686 TTTACACCAA
135696 AAAAAAAACAAAAC
1 AAAAAAAA-AAAAC
**
135710 AAAAAAAAAACCC
1 AAAAAAAAAAAAC
* *
135723 AAGAAAAAAATAGC
1 AA-AAAAAAAAAAC
135737 AAAAAAAAAAA
1 AAAAAAAAAAA
135748 GAAAAGGGTC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
13 13 0.42
14 18 0.58
ACGTcount: A:0.83, C:0.12, G:0.04, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:137003 original size:29 final size:29
Alignment explanation
Indices: 136962--137822 Score: 1130
Period size: 29 Copynumber: 29.5 Consensus size: 29
136952 TTTTCATCCC
136962 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
136991 TTTCAAAGGCCACAAGTCAATGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
137020 TTTCAAAGCCTACACAAGTTAGTGGCACTCC
1 TTTCAAAGCC--CACAAGTCAGTGGCACTCT
137051 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
137080 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
137109 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
137138 TTTCAAAGCTCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
137167 TTTCAAAGCCCACAAGTTAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
137195 TTTCAAAGCCCACAATTCAGTGGCACT-T
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
137223 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
137252 TTTCAAAGCCCACAAGTTAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
137280 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
**
137309 TTTCAAAGCCCACACGAGTTGGTGGCTACT-T
1 TTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
* *
137340 CTTTCAAAGCCCACGTAAGTTAGTGGCAC-CC
1 -TTTCAAAGCCCAC--AAGTCAGTGGCACTCT
* *
137371 TTTCAAAGCCCACAAGTCAGCGGCACTCC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
137400 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
137429 TTCCAAAGCTCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
137458 TTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
137487 TTTCAAAGCCCACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
137515 TTTCAAAGCCCACAATTCAGTGGTACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
137544 TTTCAAAGCCCACAAGTCAGTGTCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
137572 TTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
** *
137601 TTTCAAAGCCCACACGAGTTGGTGGCAACTCC
1 TTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
*
137633 TTTCAAAGCCCACGTAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCAC--AAGTCAGTGGCACTCT
* *
137663 TTTCAAAGCCCACAAGTTAGTGGTACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
137692 TTTCAGAGCCCACAAGTCAGTGGCAC-CT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
137720 TTTTAAAGCCTACAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
*
137748 TTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAAGTCAGTGGCACTCT
** *
137777 TTTCAAAGCCCACACGAGTTGGTGGCAACTTT
1 TTTCAAAGCCCACA--AGTCAGTGGC-ACTCT
137809 TTTCAAAGCCCACA
1 TTTCAAAGCCCACA
137823 CAAGTTAGTG
Statistics
Matches: 736, Mismatches: 71, Indels: 47
0.86 0.08 0.06
Matches are distributed among these distances:
28 199 0.27
29 383 0.52
30 28 0.04
31 56 0.08
32 68 0.09
34 2 0.00
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (29 bp):
TTTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:137256 original size:57 final size:58
Alignment explanation
Indices: 136962--137822 Score: 1036
Period size: 57 Copynumber: 14.7 Consensus size: 58
136952 TTTTCATCCC
* * *
136962 TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGGCCACAAGTCAATGGCACTCT
1 TTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
*
137020 TTTCAAAGCCTACACAAGTT-AGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCC--CACAA-TTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
*
137080 TTTCAAAGCCCACAAGTT-AGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAA-TTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* * * *
137138 TTTCAAAGCTCACAAATCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCAC-CC
1 TTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
137195 TTTCAAAGCCCACAATTCAGTGGCACT-TTTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
*
137252 TTTCAAAGCCCACAAGTT-AGTGGCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAA-TTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
137309 TTTCAAAGCCCACACGAGTT-GGTGGCTACT-TCTTTCAAAGCCCACGTAAGTTAGTGGCAC-CC
1 TTTCAAAGCCCACA--A-TTCAGTGGC-ACTCT-TTTCAAAGCCCAC--AAGTCAGTGGCACTCT
* * * *
137371 TTTCAAAGCCCACAAGTCAGCGGCACTCCTTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* * * *
137429 TTCCAAAGCTCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCT
1 TTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* * * *
137487 TTTCAAAGCCCACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAATTCAGTGGTACTCT
1 TTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
137544 TTTCAAAGCCCACAAGTCAGTGTCAC-CCTTTCAAAGCCCACAAGTCAGTGGCACTCT
1 TTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* * *
137601 TTTCAAAGCCCACACGAGTT-GGTGGCAACTCCTTTCAAAGCCCACGTAAGTCAGTGGCAC-CC
1 TTTCAAAGCCCACA--A-TTCAGTGGC-ACTCTTTTCAAAGCCCAC--AAGTCAGTGGCACTCT
* *
137663 TTTCAAAGCCCACAAGTT-AGTGGTACTCTTTTCAGAGCCCACAAGTCAGTGGCAC-CT
1 TTTCAAAGCCCACAA-TTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* * * * *
137720 TTTTAAAGCCTACAAGTCAGTGGCAC-CCTTTCAAAGCCCACAAGTTAGTGGCACTCT
1 TTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
* *
137777 TTTCAAAGCCCACACGAGTT-GGTGGCAACTTTTTTCAAAGCCCACA
1 TTTCAAAGCCCACA--A-TTCAGTGGC-ACTCTTTTCAAAGCCCACA
137823 CAAGTTAGTG
Statistics
Matches: 711, Mismatches: 61, Indels: 59
0.86 0.07 0.07
Matches are distributed among these distances:
56 52 0.07
57 251 0.35
58 184 0.26
59 53 0.07
60 73 0.10
61 43 0.06
62 30 0.04
63 25 0.04
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (58 bp):
TTTCAAAGCCCACAATTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCT
Found at i:137578 original size:320 final size:314
Alignment explanation
Indices: 136959--137822 Score: 1239
Period size: 320 Copynumber: 2.7 Consensus size: 314
136949 GAATTTTCAT
* *
136959 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGGCCACAAGTCAATGGCACTCTTTTC
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTC-TTTC
137024 AAAGCCTACACAAGTTAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
65 AAAGCC--CACAAGTTAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGC
* *
137089 CCACAAGTTAGTGGCACTCTTTTCAAAGCCCACAAATCAGTGGCACTCTTTTCAAAGCTCACAAA
128 CCACAAGTTAGTGGCACTC-TTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAA
*
137154 TCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCACCCTTTCAAAGCCCACAATTCAGTGGC
192 TCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAATTCAGTGGC
* *
137219 ACTTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTTAGTGGCA
257 ACTTTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
**
137277 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACACGAGTTGGTGGCTACTTCT
1 CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA--AGTCAGTGGC-AC-TCT
* *
137342 TTCAAAGCCCACGTAAGTTAGTGGCAC-CCTTTCAAAGCCCACAAGTCAGCGGCACTCCTTTCAA
62 TTCAAAGCCCAC--AAGTTAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
*
137406 AGCCCACAAGTTAGTGGCACTCTTTCCAAAGCTCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC
125 AGCCCACAAGTTAGTGGCACTCTTT-CAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCAC
137471 AAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAATTCAGT
189 AAATCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAATTCAGT
* *
137536 GGTACTCTTTTCAAAGCCCACAAGTCAGTGTCAC-CCTTTCAAAGCCCACAAGTCAGTGGCA
254 GGCACT-TTTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
* ** * *
137597 CTCTTTTCAAAGCCCACACGAGTTGGTGGCAACTCCTTTCAAAGCCCACGTAAGTCAGTGGCACC
1 C-CCTTTCAAAGCCCACA--AGTCAGTGGC-ACTCTTTTCAAAGCCCAC--AAGTCAGTGGCACT
* * * *
137662 CTTTCAAAGCCCACAAGTTAGTGGTACTCTTTTCAGAGCCCACAAGTCAGTGGCAC-CTTTTTAA
60 CTTTCAAAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAA
* * * *
137726 AGCCTACAAGTCAGTGGCACCCTTTCAAAGCCCACAAGTTAGTGGCACTCTTTTCAAAGCCCACA
125 AGCCCACAAGTTAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACA
* ** *
137791 CGAGTTGGTGGCAACTTTTTTCAAAGCCCACA
190 --AATCAGTGGC-ACTCTTTTCAAAGCCCACA
137823 CAAGTTAGTG
Statistics
Matches: 492, Mismatches: 36, Indels: 32
0.88 0.06 0.06
Matches are distributed among these distances:
318 45 0.09
319 44 0.09
320 235 0.48
321 98 0.20
322 34 0.07
323 10 0.02
324 25 0.05
326 1 0.00
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (314 bp):
CCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACTCTTTCA
AAGCCCACAAGTTAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCA
CAAGTTAGTGGCACTCTTTCAAAGCCCACAAGTCAGTGGCACTCTTTTCAAAGCCCACAAATCAG
TGGCACTCTTTTCAAAGCCCACAAGTCAGTGGCACCCTTTCAAAGCCCACAATTCAGTGGCACTT
TTTCAAAGCCCACAAGTCAGTGGCACTCCTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:138380 original size:20 final size:20
Alignment explanation
Indices: 138352--138428 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 20
138342 TTTTACCTAG
*
138352 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATTATTCA
* *
138372 ATATATCGATATATGTATT-A
1 ATGTATCGATACAT-TATTCA
* * *
138392 ATGTATCGATATATTCTACA
1 ATGTATCGATACATTATTCA
138412 ATGTATCGATACATTAT
1 ATGTATCGATACATTAT
138429 GTCTTTTTAC
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
19 2 0.04
20 42 0.89
21 3 0.06
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.43
Consensus pattern (20 bp):
ATGTATCGATACATTATTCA
Done.