Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold154
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: 1945843
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 156 characters in sequence are not A, C, G, or T
File 1 of 12
Found at i:165 original size:15 final size:15
Alignment explanation
Indices: 147--177 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
137 CGAATTTTTT
*
147 AAAATTATATTATAA
1 AAAATTATAATATAA
162 AAAATTATAATATAA
1 AAAATTATAATATAA
177 A
1 A
178 GATTAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (15 bp):
AAAATTATAATATAA
Found at i:466 original size:16 final size:16
Alignment explanation
Indices: 447--477 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
437 TTTTATATAA
*
447 TTTATAATTATTTATT
1 TTTAAAATTATTTATT
463 TTTAAAATTATTTAT
1 TTTAAAATTATTTAT
478 ACTTATTTTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAAAATTATTTATT
Found at i:533 original size:36 final size:35
Alignment explanation
Indices: 482--617 Score: 128
Period size: 32 Copynumber: 4.0 Consensus size: 35
472 ATTTATACTT
* *
482 ATTTTATTAATTT-ATT-TT-TTAATATAAATATA
1 ATTTTAATAATTTAATTATTATTTATATAAATATA
514 ATTTTAATAATTTAATTATTATTTAATATAAATATA
1 ATTTTAATAATTTAATTATTATTT-ATATAAATATA
550 A-TTTAAT-ATTT--TTATTATTTA-ATAAATATA
1 ATTTTAATAATTTAATTATTATTTATATAAATATA
* * *
580 ATGTTAATAAACTTTATTTATT-TATTATATATATATA
1 ATTTTAAT-AA-TTTAATTATTAT-TTATATAAATATA
617 A
1 A
618 ATATTTAAGT
Statistics
Matches: 88, Mismatches: 4, Indels: 19
0.79 0.04 0.17
Matches are distributed among these distances:
30 10 0.11
31 6 0.07
32 21 0.24
33 4 0.05
34 9 0.10
35 9 0.10
36 20 0.23
37 9 0.10
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (35 bp):
ATTTTAATAATTTAATTATTATTTATATAAATATA
Found at i:553 original size:16 final size:16
Alignment explanation
Indices: 499--588 Score: 67
Period size: 16 Copynumber: 5.4 Consensus size: 16
489 TAATTTATTT
499 TTTAATATAAATATAA
1 TTTAATATAAATATAA
* *
515 TTTTAATAATTTAATTATTA
1 -TTTAAT-A--TAAATATAA
535 TTTAATATAAATATAA
1 TTTAATATAAATATAA
*** *
551 TTTAATATTTTTATTA
1 TTTAATATAAATATAA
567 TTT-A-ATAAATATAA
1 TTTAATATAAATATAA
581 TGTTAATA
1 T-TTAATA
589 AACTTTATTT
Statistics
Matches: 55, Mismatches: 12, Indels: 12
0.70 0.15 0.15
Matches are distributed among these distances:
14 7 0.13
15 3 0.05
16 23 0.42
17 7 0.13
18 2 0.04
19 6 0.11
20 7 0.13
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (16 bp):
TTTAATATAAATATAA
Found at i:1072 original size:12 final size:12
Alignment explanation
Indices: 1055--1088 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1045 AGTAATTGCC
1055 TTTTTATTTATT
1 TTTTTATTTATT
*
1067 TTTTTATTAATT
1 TTTTTATTTATT
1079 TTATTTATTT
1 TT-TTTATTT
1089 TTAAATATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
12 13 0.68
13 6 0.32
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTTATTTATT
Found at i:1162 original size:43 final size:45
Alignment explanation
Indices: 1077--1162 Score: 113
Period size: 43 Copynumber: 2.0 Consensus size: 45
1067 TTTTTATTAA
* *
1077 TTTTATTTATTTTTAAATATAAATATAATTTTATTATTTTTAAAT
1 TTTTATTTATTTTTAAATATAAATATAATTTTAATATCTTTAAAT
* * *
1122 TTTTA-TTATTTTT-AATATATATTTTATTTTAATATCTTTAA
1 TTTTATTTATTTTTAAATATAAATATAATTTTAATATCTTTAA
1163 TGATTTTTTA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
43 23 0.64
44 8 0.22
45 5 0.14
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (45 bp):
TTTTATTTATTTTTAAATATAAATATAATTTTAATATCTTTAAAT
Found at i:1897 original size:11 final size:11
Alignment explanation
Indices: 1881--1918 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1871 TTCTTAAAGT
1881 GAAAAAAAAAA
1 GAAAAAAAAAA
**
1892 GAAAAAAAATT
1 GAAAAAAAAAA
1903 GAAAAAAAAAA
1 GAAAAAAAAAA
1914 -AAAAA
1 GAAAAA
1919 GGGACAGAAG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
10 5 0.22
11 18 0.78
ACGTcount: A:0.87, C:0.00, G:0.08, T:0.05
Consensus pattern (11 bp):
GAAAAAAAAAA
Found at i:2045 original size:2 final size:2
Alignment explanation
Indices: 2033--2068 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
2023 ATTCCTTATT
* *
2033 TA TA CA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
2069 AATTGTTTAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
TA
Found at i:2973 original size:31 final size:32
Alignment explanation
Indices: 2910--2983 Score: 96
Period size: 31 Copynumber: 2.3 Consensus size: 32
2900 AACTCAATTC
2910 TTTTTTAAATATATTAAACAAAAAATTCATAA
1 TTTTTTAAATATATTAAACAAAAAATTCATAA
* ** * *
2942 TTTTTTAATTATATTAAA-AGTATATTTATAA
1 TTTTTTAAATATATTAAACAAAAAATTCATAA
2973 TTTTTTAAATA
1 TTTTTTAAATA
2984 AAATATCCAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
31 19 0.53
32 17 0.47
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (32 bp):
TTTTTTAAATATATTAAACAAAAAATTCATAA
Found at i:3129 original size:5 final size:5
Alignment explanation
Indices: 3119--3172 Score: 54
Period size: 5 Copynumber: 10.4 Consensus size: 5
3109 TTTTTAAAAT
* * * *
3119 TTTAA TTTAA TTAAA TTTAAA TTTAAA ATTAA ATTAA ATTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTT-AA TTT-AA TTTAA TTTAA TTTAA TTTAA TTTAA
3171 TT
1 TT
3173 ATACTTAACT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
5 34 0.77
6 10 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (5 bp):
TTTAA
Found at i:3818 original size:22 final size:22
Alignment explanation
Indices: 3758--3819 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
3748 TTATTATAAT
*
3758 ATTTTAAATATTT-ATATGATT
1 ATTTTAAATATTTAATATGATC
* *
3779 ATGTTTAAATAATAAATA-GCATC
1 AT-TTTAAATATTTAATATG-ATC
3802 ATTTTAAATATTTAATAT
1 ATTTTAAATATTTAATAT
3820 TAATATAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
21 2 0.06
22 23 0.72
23 7 0.22
ACGTcount: A:0.44, C:0.03, G:0.05, T:0.48
Consensus pattern (22 bp):
ATTTTAAATATTTAATATGATC
Found at i:3859 original size:14 final size:14
Alignment explanation
Indices: 3836--3877 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
3826 AATATTTTAG
3836 TATT-AAATATTAT
1 TATTAAAATATTAT
*
3849 TATTAAAATATTAA
1 TATTAAAATATTAT
3863 TATTAAAA-ATTAT
1 TATTAAAATATTAT
3876 TA
1 TA
3878 GTTTAATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
13 10 0.38
14 16 0.62
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
TATTAAAATATTAT
Found at i:3960 original size:18 final size:18
Alignment explanation
Indices: 3937--4027 Score: 62
Period size: 18 Copynumber: 4.7 Consensus size: 18
3927 TTTAAAAAAT
3937 ATAAATAATATTTTAATA
1 ATAAATAATATTTTAATA
3955 ATAAAT-ATACTTTTAAAAATTA
1 ATAAATAATA-TTTT---AA-TA
*
3977 ATATAATTGATATTTTAATA
1 ATA-AA-TAATATTTTAATA
3997 ATAAATAGTATTATTTT-A-A
1 ATAAATA--A-TATTTTAATA
4016 ATAAATAATATT
1 ATAAATAATATT
4028 ATTTAAAATG
Statistics
Matches: 61, Mismatches: 1, Indels: 24
0.71 0.01 0.28
Matches are distributed among these distances:
16 4 0.07
17 4 0.07
18 11 0.18
19 10 0.16
20 7 0.11
21 10 0.16
22 5 0.08
23 2 0.03
24 5 0.08
25 3 0.05
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (18 bp):
ATAAATAATATTTTAATA
Found at i:4020 original size:19 final size:19
Alignment explanation
Indices: 3990--4041 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
3980 TAATTGATAT
*
3990 TTTAATAATAAATAGTATTA
1 TTTAA-AATAAATAATATTA
*
4010 TTTTAAATAAATAATATTA
1 TTTAAAATAAATAATATTA
*
4029 TTTAAAATGAATA
1 TTTAAAATAAATA
4042 TTCTATAATA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 24 0.86
20 4 0.14
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (19 bp):
TTTAAAATAAATAATATTA
Found at i:4652 original size:15 final size:14
Alignment explanation
Indices: 4620--4653 Score: 52
Period size: 13 Copynumber: 2.4 Consensus size: 14
4610 AATAAATTAT
4620 TAATATATAAAAAA
1 TAATATATAAAAAA
4634 -AATATATAAAAATA
1 TAATATATAAAAA-A
4648 TAATAT
1 TAATAT
4654 TTTCAATACG
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 12 0.67
14 1 0.06
15 5 0.28
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (14 bp):
TAATATATAAAAAA
Found at i:5439 original size:19 final size:19
Alignment explanation
Indices: 5415--5451 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
5405 TATGTATAAA
5415 AATATACAAAAAAATTATT
1 AATATACAAAAAAATTATT
* *
5434 AATATATAAAAAATTTAT
1 AATATACAAAAAAATTAT
5452 ATAAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (19 bp):
AATATACAAAAAAATTATT
Found at i:5461 original size:21 final size:21
Alignment explanation
Indices: 5409--5480 Score: 60
Period size: 20 Copynumber: 3.5 Consensus size: 21
5399 TACATATATG
*
5409 TATAAAAATATACAAAAAAATTA
1 TATAAAAATAT--AAAAAATTTA
*
5432 T-T-AATATATAAAAAATTTA
1 TATAAAAATATAAAAAATTTA
* *
5451 TATAAAAATAT-AATATTTTA
1 TATAAAAATATAAAAAATTTA
*
5471 AATAAAAATA
1 TATAAAAATA
5481 ACACAACTAT
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
19 10 0.24
20 17 0.41
21 12 0.29
22 1 0.02
23 1 0.02
ACGTcount: A:0.64, C:0.01, G:0.00, T:0.35
Consensus pattern (21 bp):
TATAAAAATATAAAAAATTTA
Found at i:5517 original size:4 final size:4
Alignment explanation
Indices: 5508--5567 Score: 61
Period size: 4 Copynumber: 14.8 Consensus size: 4
5498 TAAATATTTT
* *
5508 TTTC TTTC TTTC TTTT TTTC TTT- TTT- TTCTC TTTTC TTTT TTTC TTTC
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT-TC -TTTC TTTC TTTC TTTC
5556 TTTC TTTTC TTT
1 TTTC -TTTC TTT
5568 TTCGACTGAA
Statistics
Matches: 48, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
3 5 0.10
4 35 0.73
5 6 0.12
6 2 0.04
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (4 bp):
TTTC
Found at i:5525 original size:16 final size:16
Alignment explanation
Indices: 5508--5563 Score: 69
Period size: 16 Copynumber: 3.5 Consensus size: 16
5498 TAAATATTTT
* *
5508 TTTCTTTCTTTCTTTT
1 TTTCTTTTTTTCTTTC
*
5524 TTTCTTTTTTT-TCTC
1 TTTCTTTTTTTCTTTC
5539 TTTTCTTTTTTTCTTTC
1 -TTTCTTTTTTTCTTTC
5556 TTTCTTTT
1 TTTCTTTT
5564 CTTTTTCGAC
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
15 2 0.06
16 29 0.85
17 3 0.09
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTCTTTTTTTCTTTC
Found at i:5552 original size:32 final size:33
Alignment explanation
Indices: 5507--5568 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
5497 ATAAATATTT
*
5507 TTTTCTTTCTTTCTTTTTTTCTTTT-TTTTCTC
1 TTTTCTTTCTTTCTTTCTTTCTTTTCTTTTCTC
*
5539 TTTTCTTTTTTTCTTTCTTTCTTTTCTTTT
1 TTTTCTTTCTTTCTTTCTTTCTTTTCTTTT
5569 TCGACTGAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 23 0.85
33 4 0.15
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (33 bp):
TTTTCTTTCTTTCTTTCTTTCTTTTCTTTTCTC
Found at i:7294 original size:11 final size:10
Alignment explanation
Indices: 7261--7301 Score: 59
Period size: 10 Copynumber: 4.2 Consensus size: 10
7251 TATATTCGTA
7261 AATTATATTT
1 AATTATATTT
7271 --TTATATTT
1 AATTATATTT
7279 AATTATATTAT
1 AATTATATT-T
7290 AATTATATTT
1 AATTATATTT
7300 AA
1 AA
7302 AATAAAATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
8 8 0.29
10 10 0.36
11 10 0.36
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (10 bp):
AATTATATTT
Found at i:7317 original size:22 final size:22
Alignment explanation
Indices: 7265--7322 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
7255 TTCGTAAATT
* * *
7265 ATATTTTTATATTT-AATTATA
1 ATATATTTATATTTAAAATAAA
* *
7286 TTATAATTATATTTAAAATAAA
1 ATATATTTATATTTAAAATAAA
7308 ATATATTTATATTTA
1 ATATATTTATATTTA
7323 TAAGAATTTT
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
21 11 0.38
22 18 0.62
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (22 bp):
ATATATTTATATTTAAAATAAA
Found at i:7342 original size:17 final size:16
Alignment explanation
Indices: 7322--7357 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
7312 ATTTATATTT
*
7322 ATAAGAATTTTAATAAA
1 ATAAGAATTATAA-AAA
7339 ATAAGAATTATAAAAA
1 ATAAGAATTATAAAAA
7355 ATA
1 ATA
7358 TTTATATATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (16 bp):
ATAAGAATTATAAAAA
Found at i:10911 original size:15 final size:17
Alignment explanation
Indices: 10880--10915 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
10870 ATTAATATAT
10880 TAATATTTATATAAATA
1 TAATATTTATATAAATA
10897 TAATATTT-T-TAAATA
1 TAATATTTATATAAATA
10912 TAAT
1 TAAT
10916 TAAAATATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.53
16 1 0.05
17 8 0.42
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TAATATTTATATAAATA
Found at i:11779 original size:17 final size:17
Alignment explanation
Indices: 11741--11797 Score: 57
Period size: 17 Copynumber: 3.4 Consensus size: 17
11731 TATATATTTC
*
11741 AAAATATATAT-AATAT
1 AAAATATATATAAAAAT
11757 ATAAAT-TAT-TAATAAATT
1 A-AAATATATATAA-AAA-T
11775 AAAATATATATAAAAAT
1 AAAATATATATAAAAAT
11792 AAAATA
1 AAAATA
11798 CTTTAAACAT
Statistics
Matches: 34, Mismatches: 1, Indels: 11
0.74 0.02 0.24
Matches are distributed among these distances:
15 1 0.03
16 5 0.15
17 17 0.50
18 8 0.24
19 3 0.09
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATATATATAAAAAT
Found at i:12129 original size:10 final size:10
Alignment explanation
Indices: 12101--12164 Score: 73
Period size: 10 Copynumber: 6.7 Consensus size: 10
12091 TTATCATAAT
12101 TATATTTA-A
1 TATATTTATA
*
12110 TATA-TCATA
1 TATATTTATA
12119 TATATTTATA
1 TATATTTATA
*
12129 TAAATTT-TGA
1 TATATTTAT-A
12139 TATATTTATA
1 TATATTTATA
12149 TATATTTATA
1 TATATTTATA
12159 T-TATTT
1 TATATTT
12165 TTATTATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
8 2 0.04
9 15 0.32
10 29 0.62
11 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (10 bp):
TATATTTATA
Found at i:12324 original size:18 final size:19
Alignment explanation
Indices: 12301--12344 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 19
12291 AATATAATAA
12301 AAATATAAAAATATAT-TT
1 AAATATAAAAATATATATT
* *
12319 AAATAT-ATATTATATATT
1 AAATATAAAAATATATATT
12337 AAATATAA
1 AAATATAA
12345 TTATGACAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 7 0.32
18 14 0.64
19 1 0.05
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
AAATATAAAAATATATATT
Found at i:12703 original size:3 final size:3
Alignment explanation
Indices: 12695--12722 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
12685 CAGTACCCCG
12695 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
12723 GTAGAGAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:13029 original size:21 final size:20
Alignment explanation
Indices: 12991--13032 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
12981 ATTTAATAAT
12991 TAAAATTTAATTATAAAATA
1 TAAAATTTAATTATAAAATA
13011 TAAAATATTAATGTA-AAAATA
1 TAAAAT-TTAAT-TATAAAATA
13032 T
1 T
13033 TTTTTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 6 0.30
21 12 0.60
22 2 0.10
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
TAAAATTTAATTATAAAATA
Found at i:13314 original size:2 final size:2
Alignment explanation
Indices: 13307--13334 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13297 TCCATCTTTG
13307 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13335 TAAATTAGAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:17665 original size:24 final size:24
Alignment explanation
Indices: 17619--17668 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
17609 TTTGGTAAGA
*
17619 TTGATTTTCATTTAACTTGATAAT
1 TTGATTTTCATTTAACTTAATAAT
*
17643 TTGATTTTTATTTATA-TTAATAAT
1 TTGATTTTCATTTA-ACTTAATAAT
17667 TT
1 TT
17669 TGCTTTTATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 22 0.96
25 1 0.04
ACGTcount: A:0.30, C:0.04, G:0.06, T:0.60
Consensus pattern (24 bp):
TTGATTTTCATTTAACTTAATAAT
Found at i:20746 original size:989 final size:989
Alignment explanation
Indices: 18830--20808 Score: 3744
Period size: 989 Copynumber: 2.0 Consensus size: 989
18820 TCGTCAAATG
18830 GCTGTAGGGCAATTGCATATAGCAAATGCGTGTGGAATATGCTCACTTCAAGGGCATCCTACTGA
1 GCTGTAGGGCAATTGCATATAGCAAATGCGTGTGGAATATGCTCACTTCAAGGGCATCCTACTGA
* * * *
18895 TATGTGCCCCATGTTGCAACAAGACTCCACACAAGAAGCTAATGCTGTAGGGGGATTTCCTGGTC
66 TATGTGCCCCACGTTGCAACAAGACTCCACACAAGAAGCCAATGCTGTAGAGGGATTTCCTAGTC
18960 AACCTCAAAGAAAGTATGATCCCTATTCTAATCATTACAATCCTGGATGGAGGGATCATCCTAAT
131 AACCTCAAAGAAAGTATGATCCCTATTCTAATCATTACAATCCTGGATGGAGGGATCATCCTAAT
19025 TTTAGCTATGAAAATCAAGGAGGACAACAAAGGCCACCTCCTCAGGGCTTCCCTAGACCACCTCA
196 TTTAGCTATGAAAATCAAGGAGGACAACAAAGGCCACCTCCTCAGGGCTTCCCTAGACCACCTCA
*
19090 AGTTCCCACACAAACTTAGGCTCCAAATTCAGGTATGTCCTTGGAAGATATTGTTAAAAATCTTG
261 AGTTCCCACACAAACTCAGGCTCCAAATTCAGGTATGTCCTTGGAAGATATTGTTAAAAATCTTG
*
19155 CTAACAATACTCTTCAATTTCAACAGGAAACAAGAGCTAACATTCAGGAAACAAGGACAAGCATC
326 CTAACAATACTCTTCAATTTCAACAGGAAACAAGAGCTAACATTCAAGAAACAAGGACAAGCATC
19220 CAGGATTTAGGCAACCAAATTACTCAATTGGCCACCTCAGTTAGTAAATTGGAAGCTCAAAATTC
391 CAGGATTTAGGCAACCAAATTACTCAATTGGCCACCTCAGTTAGTAAATTGGAAGCTCAAAATTC
19285 TGGTAAGTTGCCTTCACAACCCGAAGTGAACCCAAAAGAGAATTGCAGTGCAATCTTGCTAAGGA
456 TGGTAAGTTGCCTTCACAACCCGAAGTGAACCCAAAAGAGAATTGCAGTGCAATCTTGCTAAGGA
*
19350 GTGGAAAAGAAATACCTTCGGGGTCTACCCTACCAAAAGGAGCTAAAATAGGCAAGGGATATGAG
521 GTGGAAAAGAAATACCTTCGGGGTCTACCCTACCAAAAGGAGCTAAAATAGGCAAAGGATATGAG
* *
19415 GAAGAAGAAGCTCCTTCTCGAATGAAGCGTGGGGTAAAATTCGATCCTCCTTCATCTCTTTCTTC
586 GAAGAAGAAGCTCCCTCTCGAATGAAGCGCGGGGTAAAATTCGATCCTCCTTCATCTCTTTCTTC
*
19480 TTACACTCATACACCTCTTTTTCCTAGCAGGTTAGCTAAACCAAAGGAAAATAAGCAAGAAAAAG
651 TTACACTCATACACCTCCTTTTCCTAGCAGGTTAGCTAAACCAAAGGAAAATAAGCAAGAAAAAG
* *
19545 AGATCCTTGCACGTTTAGAAAAGTGCAAATCAACATTCCTTTGTTGGATGCAGTCAAGCAAATTC
716 AGATCCTTGCACATTTAGAAAAGTACAAATCAACATTCCTTTGTTGGATGCAGTCAAGCAAATTC
19610 CTAAATATGCAAAGTTCTTGAAGGAGCTGTGTACCAACAAGAGGAAAATGAAAGAAAAAGGGAAA
781 CTAAATATGCAAAGTTCTTGAAGGAGCTGTGTACCAACAAGAGGAAAATGAAAGAAAAAGGGAAA
19675 GTTGAGGTAAGTAAGAATGTGTCGGCAATCTTGCAAAAGAATCTGCCAGAAAAATGCAAAGATCC
846 GTTGAGGTAAGTAAGAATGTGTCGGCAATCTTGCAAAAGAATCTGCCAGAAAAATGCAAAGATCC
*
19740 AGGTATGTTTACATTACCTTGTGTGATTGGTGAAAGGAAAGTTGAGAATGCTATGTTAGATTTAG
911 AGGTATGTTTACATTACCTTGTGTGATTGGTGAAAGGAAAGTTGAGAATGCTATGTTAGACTTAG
19805 GAGCTTCAATTAAT
976 GAGCTTCAATTAAT
19819 GCTGTAGGGCAATTGCATATAGCAAATGCGTGTGGAATATGCTCACTTCAAGGGCATCCTACTGA
1 GCTGTAGGGCAATTGCATATAGCAAATGCGTGTGGAATATGCTCACTTCAAGGGCATCCTACTGA
19884 TATGTGCCCCACGTTGCAACAAGACTCCACACAAGAAGCCAATGCTGTAGAGGGATTTCCTAGTC
66 TATGTGCCCCACGTTGCAACAAGACTCCACACAAGAAGCCAATGCTGTAGAGGGATTTCCTAGTC
19949 AACCTCAAAGAAAGTATGATCCCTATTCTAATCATTACAATCCTGGATGGAGGGATCATCCTAAT
131 AACCTCAAAGAAAGTATGATCCCTATTCTAATCATTACAATCCTGGATGGAGGGATCATCCTAAT
*
20014 TTTAGCTATGAAAATCAATGAGGACAACAAAGGCCACCTCCTCAGGGCTTCCCTAGACCACCTCA
196 TTTAGCTATGAAAATCAAGGAGGACAACAAAGGCCACCTCCTCAGGGCTTCCCTAGACCACCTCA
20079 AGTTCCCACACAAACTCAGGCTCCAAATTCAGGTATGTCCTTGGAAGATATTGTTAAAAATCTTG
261 AGTTCCCACACAAACTCAGGCTCCAAATTCAGGTATGTCCTTGGAAGATATTGTTAAAAATCTTG
20144 CTAACAATACTCTTCAATTTCAACAGGAAACAAGAGCTAACATTCAAGAAACAAGGACAAGCATC
326 CTAACAATACTCTTCAATTTCAACAGGAAACAAGAGCTAACATTCAAGAAACAAGGACAAGCATC
*
20209 CAGGATTTAGGCAACCAAATTACTCAATTGGCCACCTTAGTTAGTAAATTGGAAGCTCAAAATTC
391 CAGGATTTAGGCAACCAAATTACTCAATTGGCCACCTCAGTTAGTAAATTGGAAGCTCAAAATTC
*
20274 TGGTAAGTTGCCTTCACAACTCGAAGTGAACCCAAAAGAGAATTGCAGTGCAATCTTGCTAAGGA
456 TGGTAAGTTGCCTTCACAACCCGAAGTGAACCCAAAAGAGAATTGCAGTGCAATCTTGCTAAGGA
*
20339 GTGGAAAAGAAATACCTTCGGGGTCTACCCTACCAAAAGGAGCTGAAATAGGCAAAGGATATGAG
521 GTGGAAAAGAAATACCTTCGGGGTCTACCCTACCAAAAGGAGCTAAAATAGGCAAAGGATATGAG
*
20404 GAAGAAGAAGCTCCCTCTTGAATGAAGCGCGGGGTAAAATTCGATCCTCCTTCATCTCTTTCTTC
586 GAAGAAGAAGCTCCCTCTCGAATGAAGCGCGGGGTAAAATTCGATCCTCCTTCATCTCTTTCTTC
* *
20469 TTACA-TGCCTACACCTCCTTTTCCTAGCAGGTTAGCTAAACCAAAGGAAAATGAGCAAGAAAAA
651 TTACACT-CATACACCTCCTTTTCCTAGCAGGTTAGCTAAACCAAAGGAAAATAAGCAAGAAAAA
*
20533 GAGATCCTTGCACATTTAGAAAAGTACAAATCAACATTCCTTTGTTGGATGCGGTCAAGCAAATT
715 GAGATCCTTGCACATTTAGAAAAGTACAAATCAACATTCCTTTGTTGGATGCAGTCAAGCAAATT
20598 CCTAAATATGCAAAGTTCTTGAAGGAGCTGTGTACCAACAAGAGGAAAATGAAAGAAAAAGGGAA
780 CCTAAATATGCAAAGTTCTTGAAGGAGCTGTGTACCAACAAGAGGAAAATGAAAGAAAAAGGGAA
20663 AGTTGAGGTAAGTAAGAATGTGTCGGCAATCTTGCAAAAGAATCTGCCAGAAAAATGCAAAGATC
845 AGTTGAGGTAAGTAAGAATGTGTCGGCAATCTTGCAAAAGAATCTGCCAGAAAAATGCAAAGATC
*
20728 CAGGTATGTTTACATTACCTTGTGTGATTGGTGAAAGGAAAGTTGAGCATGCTATGTTAGACTTA
910 CAGGTATGTTTACATTACCTTGTGTGATTGGTGAAAGGAAAGTTGAGAATGCTATGTTAGACTTA
20793 GGAGCTTCAATTAAT
975 GGAGCTTCAATTAAT
20808 G
1 G
20809 TCATGCCATT
Statistics
Matches: 967, Mismatches: 22, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
988 1 0.00
989 966 1.00
ACGTcount: A:0.35, C:0.20, G:0.21, T:0.25
Consensus pattern (989 bp):
GCTGTAGGGCAATTGCATATAGCAAATGCGTGTGGAATATGCTCACTTCAAGGGCATCCTACTGA
TATGTGCCCCACGTTGCAACAAGACTCCACACAAGAAGCCAATGCTGTAGAGGGATTTCCTAGTC
AACCTCAAAGAAAGTATGATCCCTATTCTAATCATTACAATCCTGGATGGAGGGATCATCCTAAT
TTTAGCTATGAAAATCAAGGAGGACAACAAAGGCCACCTCCTCAGGGCTTCCCTAGACCACCTCA
AGTTCCCACACAAACTCAGGCTCCAAATTCAGGTATGTCCTTGGAAGATATTGTTAAAAATCTTG
CTAACAATACTCTTCAATTTCAACAGGAAACAAGAGCTAACATTCAAGAAACAAGGACAAGCATC
CAGGATTTAGGCAACCAAATTACTCAATTGGCCACCTCAGTTAGTAAATTGGAAGCTCAAAATTC
TGGTAAGTTGCCTTCACAACCCGAAGTGAACCCAAAAGAGAATTGCAGTGCAATCTTGCTAAGGA
GTGGAAAAGAAATACCTTCGGGGTCTACCCTACCAAAAGGAGCTAAAATAGGCAAAGGATATGAG
GAAGAAGAAGCTCCCTCTCGAATGAAGCGCGGGGTAAAATTCGATCCTCCTTCATCTCTTTCTTC
TTACACTCATACACCTCCTTTTCCTAGCAGGTTAGCTAAACCAAAGGAAAATAAGCAAGAAAAAG
AGATCCTTGCACATTTAGAAAAGTACAAATCAACATTCCTTTGTTGGATGCAGTCAAGCAAATTC
CTAAATATGCAAAGTTCTTGAAGGAGCTGTGTACCAACAAGAGGAAAATGAAAGAAAAAGGGAAA
GTTGAGGTAAGTAAGAATGTGTCGGCAATCTTGCAAAAGAATCTGCCAGAAAAATGCAAAGATCC
AGGTATGTTTACATTACCTTGTGTGATTGGTGAAAGGAAAGTTGAGAATGCTATGTTAGACTTAG
GAGCTTCAATTAAT
Found at i:27292 original size:24 final size:24
Alignment explanation
Indices: 27256--27315 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
27246 TTTGGTAAGA
* *
27256 TTGATTTTCATTTA-ACTTGATAAT
1 TTGATTTTTATTTATA-TTAATAAT
27280 TTGATTTTTATTTATATTAATAAT
1 TTGATTTTTATTTATATTAATAAT
* *
27304 TTTACTTTTATT
1 TTGATTTTTATT
27316 AATCGCTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 30 0.97
25 1 0.03
ACGTcount: A:0.28, C:0.05, G:0.05, T:0.62
Consensus pattern (24 bp):
TTGATTTTTATTTATATTAATAAT
Found at i:27937 original size:33 final size:33
Alignment explanation
Indices: 27900--27963 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
27890 AATTAAATGA
27900 TCAAAA-GTATTAATTGAAATTCA-AAAAAATAAT
1 TCAAAATGTATTAATT-AAATT-ATAAAAAATAAT
*
27933 TCAAAATTTATTAATTAAATTATAAAAAATA
1 TCAAAATGTATTAATTAAATTATAAAAAATA
27964 TTATAAAAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 1 0.04
33 19 0.68
34 8 0.29
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (33 bp):
TCAAAATGTATTAATTAAATTATAAAAAATAAT
Found at i:27973 original size:34 final size:34
Alignment explanation
Indices: 27907--27974 Score: 86
Period size: 34 Copynumber: 2.0 Consensus size: 34
27897 TGATCAAAAG
*
27907 TATTAATTGAAATTCAAAAAAATAATTCAAAATT
1 TATTAATTGAAATTCAAAAAAATAATTAAAAATT
*
27941 TATTAATT-AAATT-ATAAAAAATATTATAAAAATT
1 TATTAATTGAAATTCA-AAAAAATAAT-TAAAAATT
27975 CAATTTAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
32 1 0.03
33 14 0.47
34 15 0.50
ACGTcount: A:0.57, C:0.03, G:0.01, T:0.38
Consensus pattern (34 bp):
TATTAATTGAAATTCAAAAAAATAATTAAAAATT
Found at i:28175 original size:2 final size:2
Alignment explanation
Indices: 28168--28199 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
28158 AAAAGGAATA
28168 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
28200 TACATTGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31685 original size:21 final size:20
Alignment explanation
Indices: 31656--31695 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
31646 GAAATTCCTT
*
31656 TTCTAATATCTAATTTAAAAA
1 TTCTAATATATAA-TTAAAAA
*
31677 TTCTTATATATAATTAAAA
1 TTCTAATATATAATTAAAA
31696 CCCTAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (20 bp):
TTCTAATATATAATTAAAAA
Found at i:32633 original size:19 final size:20
Alignment explanation
Indices: 32611--32648 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
32601 ATAGGTTTTG
*
32611 ATATTTTATTTAT-TTATTC
1 ATATTGTATTTATATTATTC
*
32630 ATATTGTGTTTATATTATT
1 ATATTGTATTTATATTATT
32649 TTTATATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.66
Consensus pattern (20 bp):
ATATTGTATTTATATTATTC
Found at i:33064 original size:17 final size:18
Alignment explanation
Indices: 33039--33072 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
33029 AATTATAAAA
33039 AATAAAATTAAA-GATAT
1 AATAAAATTAAATGATAT
*
33056 AATATAATTAAATGATA
1 AATAAAATTAAATGATA
33073 ATTAATTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.62, C:0.00, G:0.06, T:0.32
Consensus pattern (18 bp):
AATAAAATTAAATGATAT
Found at i:33978 original size:16 final size:15
Alignment explanation
Indices: 33957--34013 Score: 52
Period size: 16 Copynumber: 4.0 Consensus size: 15
33947 AGCAACACAA
33957 AAATTTAAATATATTT
1 AAATTTAAATAT-TTT
*
33973 AAATTTATATATTTT
1 AAATTTAAATATTTT
33988 ATAA-TT-AA-ATTTT
1 A-AATTTAAATATTTT
34001 AAA--TAAATATTTT
1 AAATTTAAATATTTT
34014 TATTAAATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
11 1 0.03
12 4 0.11
13 11 0.31
14 1 0.03
15 6 0.17
16 13 0.36
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
AAATTTAAATATTTT
Found at i:50980 original size:5 final size:5
Alignment explanation
Indices: 50966--51013 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
50956 TATATATTTA
* * *
50966 TAAAT AAAAT TAAA- TAATT TAAAT TAAAT TAAAT TAATT TAAAT TAAA
1 TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAAT TAAA
51014 ATTTTTATTT
Statistics
Matches: 36, Mismatches: 6, Indels: 2
0.82 0.14 0.05
Matches are distributed among these distances:
4 3 0.08
5 33 0.92
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAAAT
Found at i:51003 original size:20 final size:19
Alignment explanation
Indices: 50966--51013 Score: 78
Period size: 20 Copynumber: 2.5 Consensus size: 19
50956 TATATATTTA
*
50966 TAAATAAAATTAAATAATT
1 TAAATTAAATTAAATAATT
50985 TAAATTAAATTAAATTAATT
1 TAAATTAAATTAAA-TAATT
51005 TAAATTAAA
1 TAAATTAAA
51014 ATTTTTATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAATTAAATTAAATAATT
Found at i:51647 original size:18 final size:21
Alignment explanation
Indices: 51624--51668 Score: 55
Period size: 19 Copynumber: 2.4 Consensus size: 21
51614 TAGGGGCGAA
51624 TATT-AATCG-GAG-ATAAAC
1 TATTAAATCGAGAGAATAAAC
51642 TATTAAATCGAGAGAATAAA-
1 TATTAAATCGAGAGAATAAAC
51662 T-TTAAAT
1 TATTAAAT
51669 TTGGTTATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
18 4 0.17
19 11 0.46
20 4 0.17
21 5 0.21
ACGTcount: A:0.49, C:0.07, G:0.13, T:0.31
Consensus pattern (21 bp):
TATTAAATCGAGAGAATAAAC
Found at i:52461 original size:22 final size:21
Alignment explanation
Indices: 52430--52470 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
52420 ATTCAAAAAC
52430 AAAATCAAAATATAAATTTTTA
1 AAAATCAAAATA-AAATTTTTA
*
52452 AAAATTAAAATAAAATTTT
1 AAAATCAAAATAAAATTTT
52471 CATATCTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (21 bp):
AAAATCAAAATAAAATTTTTA
Found at i:52617 original size:15 final size:14
Alignment explanation
Indices: 52562--52659 Score: 62
Period size: 14 Copynumber: 6.9 Consensus size: 14
52552 CCCATATATG
52562 TATATATTTAT-AA
1 TATATATTTATAAA
52575 TATAT-TTT-TAAA
1 TATATATTTATAAA
*
52587 TAT-T-TTAATAAGA
1 TATATATTTATAA-A
52600 TATATATTATATAAA
1 TATATATT-TATAAA
* *
52615 TATATAAATTTACTTCTAT
1 TATAT--ATTTA--T-AAA
*
52634 TATATATATATAAA
1 TATATATTTATAAA
52648 TATATATTTATA
1 TATATATTTATA
52660 CGTTAATATA
Statistics
Matches: 66, Mismatches: 8, Indels: 21
0.69 0.08 0.22
Matches are distributed among these distances:
11 4 0.06
12 11 0.17
13 9 0.14
14 13 0.20
15 9 0.14
16 6 0.09
17 7 0.11
18 1 0.02
19 6 0.09
ACGTcount: A:0.46, C:0.02, G:0.01, T:0.51
Consensus pattern (14 bp):
TATATATTTATAAA
Found at i:53282 original size:5 final size:5
Alignment explanation
Indices: 53274--53303 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
53264 AAATAAAATA
53274 TTTAT TTTAT TATTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT T-TTAT TTTAT TTTAT TTTA
53304 ATAAACAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (5 bp):
TTTAT
Found at i:53289 original size:11 final size:10
Alignment explanation
Indices: 53274--53303 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
53264 AAATAAAATA
53274 TTTATTTTAT
1 TTTATTTTAT
53284 TATTATTTTAT
1 T-TTATTTTAT
53295 TTTATTTTA
1 TTTATTTTA
53304 ATAAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:53418 original size:23 final size:23
Alignment explanation
Indices: 53374--53418 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
53364 AGCCAAATTG
*
53374 TTTTTTTTACTCGAAAGGGTTTT
1 TTTTTTTTACTCGAAAGCGTTTT
*
53397 TTTTTTTTCAGTCGAAA-CGTTT
1 TTTTTTTT-ACTCGAAAGCGTTT
53419 CGGACGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.18, C:0.11, G:0.16, T:0.56
Consensus pattern (23 bp):
TTTTTTTTACTCGAAAGCGTTTT
Found at i:53892 original size:18 final size:18
Alignment explanation
Indices: 53871--53908 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
53861 AATAAATTAA
53871 AATTATATTTTAAAATTT
1 AATTATATTTTAAAATTT
* *
53889 AATTATTTTTTATAATTT
1 AATTATATTTTAAAATTT
53907 AA
1 AA
53909 ATAATTATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
AATTATATTTTAAAATTT
Found at i:55723 original size:90 final size:91
Alignment explanation
Indices: 55625--55800 Score: 327
Period size: 91 Copynumber: 1.9 Consensus size: 91
55615 ATTATTTTTT
*
55625 TAAAATTTTATTAATT-AAAAAATATATAAAATATATATTTTATAAATTATAGATAAATATATAA
1 TAAAATTTTATTAATTAAAAAAATATAAAAAATATATATTTTATAAATTATAGATAAATATATAA
55689 AAACAAAGGGCTAATAAAAAAAGAAA
66 AAACAAAGGGCTAATAAAAAAAGAAA
*
55715 TAAAATTTTATTAATTAAAAAAATATAAAAAATATATATTTTATAAATTATATATAAATATATAA
1 TAAAATTTTATTAATTAAAAAAATATAAAAAATATATATTTTATAAATTATAGATAAATATATAA
55780 AAACAAAGGGCTAATAAAAAA
66 AAACAAAGGGCTAATAAAAAA
55801 GGACATTTCC
Statistics
Matches: 83, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
90 16 0.19
91 67 0.81
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (91 bp):
TAAAATTTTATTAATTAAAAAAATATAAAAAATATATATTTTATAAATTATAGATAAATATATAA
AAACAAAGGGCTAATAAAAAAAGAAA
Found at i:57285 original size:16 final size:16
Alignment explanation
Indices: 57251--57291 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
57241 AACTTTAAAA
57251 AATTTATAT-TTTAAT
1 AATTTATATATTTAAT
*
57266 -ATTTATATATTTTAT
1 AATTTATATATTTAAT
*
57281 AATTTACATAT
1 AATTTATATAT
57292 AAAAAAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
14 8 0.36
15 5 0.23
16 9 0.41
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTTATATATTTAAT
Found at i:57560 original size:3 final size:3
Alignment explanation
Indices: 57552--57581 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
57542 TTTCTCATAA
57552 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
57582 TTCACATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:57941 original size:25 final size:24
Alignment explanation
Indices: 57890--57942 Score: 63
Period size: 25 Copynumber: 2.1 Consensus size: 24
57880 ATAAAAACAT
*
57890 TTAATACTAAAATATTATATTAATA
1 TTAATACTAAAATATCATATT-ATA
57915 TTAATACTTAAAATAATCATATT-TA
1 TTAATAC-TAAAAT-ATCATATTATA
57940 TTA
1 TTA
57943 TTAAAACATT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 12 0.48
26 6 0.24
27 7 0.28
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (24 bp):
TTAATACTAAAATATCATATTATA
Found at i:58617 original size:14 final size:15
Alignment explanation
Indices: 58598--58628 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
58588 TTAATAATTT
58598 TAAATATGAT-TATA
1 TAAATATGATATATA
58612 TAAATATGATATATA
1 TAAATATGATATATA
58627 TA
1 TA
58629 TAAAATAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (15 bp):
TAAATATGATATATA
Found at i:59143 original size:29 final size:29
Alignment explanation
Indices: 59110--59174 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
59100 GCTAAAATAA
*
59110 TAAAAAAAATTTAAATTTTTTTAAT-TTAT
1 TAAAAAAAATTTAAATATTTTTAATATT-T
* **
59139 TAAAATAAATTTTTATATTTTTAATATTT
1 TAAAAAAAATTTAAATATTTTTAATATTT
59168 TAAAAAA
1 TAAAAAA
59175 TATCTTTTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
29 28 0.93
30 2 0.07
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (29 bp):
TAAAAAAAATTTAAATATTTTTAATATTT
Found at i:59190 original size:29 final size:29
Alignment explanation
Indices: 59129--59195 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
59119 TTTAAATTTT
*
59129 TTTAATTTATTAAAATAAATTTTTATATT
1 TTTAATTTATTAAAATAAATTTTTATATG
59158 TTTAATATT-TTAAAA-AATATCTTTTA-ATG
1 TTTAAT-TTATTAAAATAA-AT-TTTTATATG
59187 TTTAATTTA
1 TTTAATTTA
59196 AATTTAAATA
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
28 4 0.12
29 22 0.67
30 7 0.21
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (29 bp):
TTTAATTTATTAAAATAAATTTTTATATG
Found at i:59379 original size:28 final size:27
Alignment explanation
Indices: 59333--59385 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
59323 TTAAAATTTA
*
59333 TTTTATAATTAAATTTAATAAAAATAT
1 TTTTATAATTAAATATAATAAAAATAT
* *
59360 TTTTATTATTAAATAATAATTAAAAT
1 TTTTATAATTAAAT-ATAATAAAAAT
59386 TAAAAAAATA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 13 0.59
28 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (27 bp):
TTTTATAATTAAATATAATAAAAATAT
Found at i:59516 original size:27 final size:27
Alignment explanation
Indices: 59479--59592 Score: 106
Period size: 28 Copynumber: 4.0 Consensus size: 27
59469 TAAAATTTTC
*
59479 ATTTAAAATAAATATAAATA-AAAAATT
1 ATTTAAAAT-AATAAAAATATAAAAATT
*
59506 ATTTAATATAATAAAAATATAAAAAATT
1 ATTTAAAATAATAAAAATAT-AAAAATT
* *
59534 -TATCAAACAAAATATTAAAATAATAAAAATTT
1 AT-TTAAA-ATAATA--AAAAT-ATAAAAA-TT
59566 ATTTAAAATAATAAAAATATAAAAATT
1 ATTTAAAATAATAAAAATATAAAAATT
59593 TATCAAACGG
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
26 9 0.13
27 11 0.15
28 17 0.24
29 10 0.14
31 15 0.21
32 8 0.11
33 1 0.01
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (27 bp):
ATTTAAAATAATAAAAATATAAAAATT
Found at i:59529 original size:26 final size:27
Alignment explanation
Indices: 59479--59592 Score: 83
Period size: 27 Copynumber: 4.0 Consensus size: 27
59469 TAAAATTTTC
*
59479 ATTTAAAATAAATATAAATAAAAAATT
1 ATTTAAAATAAATAAAAATAAAAAATT
*
59506 ATTTAATAT-AATAAAAATATAAAAA--
1 ATTTAAAATAAATAAAAATA-AAAAATT
*
59531 ATTTATCAAACAAAATATTAAAATAATAAAAATTT
1 ATTTA--AAA-TAAATA--AAAAT-A-AAAAA-TT
59566 ATTTAAAAT-AATAAAAATATAAAAATT
1 ATTTAAAATAAATAAAAATA-AAAAATT
59593 TATCAAACGG
Statistics
Matches: 71, Mismatches: 5, Indels: 22
0.72 0.05 0.22
Matches are distributed among these distances:
25 5 0.07
26 9 0.13
27 17 0.24
28 7 0.10
29 9 0.13
31 9 0.13
32 7 0.10
33 3 0.04
35 5 0.07
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (27 bp):
ATTTAAAATAAATAAAAATAAAAAATT
Found at i:59562 original size:31 final size:28
Alignment explanation
Indices: 59515--59600 Score: 102
Period size: 31 Copynumber: 2.9 Consensus size: 28
59505 TATTTAATAT
59515 AATAAAAATATAAAAAATTTATCAAACAA
1 AATAAAAATAT-AAAAATTTATCAAACAA
* *
59544 AATATTAAAATAATAAAAATTTATTTAAA-AT
1 AATA--AAAAT-ATAAAAATTTA-TCAAACAA
59575 AATAAAAATATAAAAATTTATCAAAC
1 AATAAAAATATAAAAATTTATCAAAC
59601 GGTTGAGAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 11
0.78 0.05 0.17
Matches are distributed among these distances:
27 4 0.08
28 11 0.22
29 9 0.18
31 19 0.39
32 6 0.12
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (28 bp):
AATAAAAATATAAAAATTTATCAAACAA
Found at i:61313 original size:115 final size:115
Alignment explanation
Indices: 61184--61531 Score: 354
Period size: 115 Copynumber: 3.0 Consensus size: 115
61174 TAATTAAAAA
* * * *
61184 ATCATAAATTATTTAATTTAAAATTAAGTCTTACAAAAATATATATAGTAGATAAAATAAG-TCC
1 ATCATAAATTATTTAATTTAAAGTCAAGTCTTATAAAAATATATAT--TAGATAAAATAAGTTCA
* * * * *
61248 CAT-GTGCAT-TTTAATTAATTTATTTAAGTCTATTTTGTTTAATTATATTT-G
64 CATAATACATATTTAATTAATTTATTT-AGCCTACTTTATTTAATTAT-TTTAG
* * *
61299 ATCATAAATTATTTAATTTAAGGTCAAGTTTTATAAAAA-ATATATTAGAAAAAATAAGTTTCAC
1 ATCATAAATTATTTAATTTAAAGTCAAGTCTTATAAAAATATATATTAGATAAAATAAG-TTCAC
* *
61363 ATACATACTTATTTAATTAATTTATTTAGCCTACTTTATTTAATTATTTTAT
65 ATA-ATACATATTTAATTAATTTATTTAGCCTACTTTATTTAATTATTTTAG
*
61415 ATCATAAATTATTTAATTTAAAGTCAAGTCTTATAAAAATATACATTAGATAAAATAGAGCTT-A
1 ATCATAAATTATTTAATTTAAAGTCAAGTCTTATAAAAATATATATTAGATAAAATA-AG-TTCA
* * * * * *
61479 CAT-GT--ATATTCAATTAATTTATTTGGGGCTTATTTTATTTAATTATGTTAG
64 CATAATACATATTTAATTAATTTATTT--AGCCTACTTTATTTAATTATTTTAG
61530 AT
1 AT
61532 TAATTTTTAA
Statistics
Matches: 196, Mismatches: 27, Indels: 20
0.81 0.11 0.08
Matches are distributed among these distances:
112 12 0.06
113 17 0.09
114 11 0.06
115 60 0.31
116 57 0.29
117 35 0.18
118 4 0.02
ACGTcount: A:0.40, C:0.07, G:0.08, T:0.45
Consensus pattern (115 bp):
ATCATAAATTATTTAATTTAAAGTCAAGTCTTATAAAAATATATATTAGATAAAATAAGTTCACA
TAATACATATTTAATTAATTTATTTAGCCTACTTTATTTAATTATTTTAG
Found at i:61421 original size:116 final size:118
Alignment explanation
Indices: 61184--61471 Score: 340
Period size: 116 Copynumber: 2.5 Consensus size: 118
61174 TAATTAAAAA
* * * * *
61184 ATCATAAATTATTTAATTTAAAATTAAGTCTTACAAAAATATATATAGTAGATAAAATAAG--TC
1 ATCATAAATTATTTAATTTAAAGTCAAGTCTTATAAAAATATACAT--TAGAAAAAATAAGTTTC
* * * * * * *
61247 CCAT--GTGCAT-TTTAATTAATTTATTTAAGTCTATTTTGTTTAATTATATTTG
64 ACATACATACTTATTTAATTAATTTATTTAAGCCTACTTTATTTAATTATATTTG
* * *
61299 ATCATAAATTATTTAATTTAAGGTCAAGTTTTATAAAAA-ATATATTAGAAAAAATAAGTTTCAC
1 ATCATAAATTATTTAATTTAAAGTCAAGTCTTATAAAAATATACATTAGAAAAAATAAGTTTCAC
*
61363 ATACATACTTATTTAATTAATTTATTT-AGCCTACTTTATTTAATTAT-TTTAT
66 ATACATACTTATTTAATTAATTTATTTAAGCCTACTTTATTTAATTATATTT-G
*
61415 ATCATAAATTATTTAATTTAAAGTCAAGTCTTATAAAAATATACATTAGATAAAATA
1 ATCATAAATTATTTAATTTAAAGTCAAGTCTTATAAAAATATACATTAGAAAAAATA
61472 GAGCTTACAT
Statistics
Matches: 148, Mismatches: 18, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
112 12 0.08
114 11 0.07
115 37 0.25
116 57 0.39
117 31 0.21
ACGTcount: A:0.43, C:0.07, G:0.06, T:0.44
Consensus pattern (118 bp):
ATCATAAATTATTTAATTTAAAGTCAAGTCTTATAAAAATATACATTAGAAAAAATAAGTTTCAC
ATACATACTTATTTAATTAATTTATTTAAGCCTACTTTATTTAATTATATTTG
Found at i:68581 original size:79 final size:78
Alignment explanation
Indices: 68445--68802 Score: 348
Period size: 79 Copynumber: 4.5 Consensus size: 78
68435 ACAACGGGAC
* * * * * *
68445 TGGAGTATCCTCGATTATGGAAAATCGGTGTTTTAGAAATAAAATCAGGGTTTGAGTATCTCCTC
1 TGGAGTATCCCCGATTGT-GAAAATCAGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTC
*
68510 GAAAATAACAGGGT
65 GAAAATAACGGGGT
* * *
68524 TGGAGCATCCCTGATTATAGAAAATCAGTGTTTT-GAAAATAAAATCGGGGTTGGAGTATCCCCT
1 TGGAGTATCCCCGATTGT-GAAAATCAGTGTTTTAG-AAATAAAATCGGGGTTGGAGTATCCCCT
* *
68588 CGAAGATAATGGGGT
64 CGAAAATAACGGGGT
* * * ** * *
68603 TGGAGTATCCTCGATTGTAGAAAATC-GAAGCTTTAGAAATAAGGTCGGGGTTAGAGTATCCCCG
1 TGGAGTATCCCCGATTGT-GAAAATCAG-TGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCT
*
68667 CTAAAATAACGGGGT
64 CGAAAATAACGGGGT
* * * *
68682 TGGAGTATCCCCAATTGTGAGAAATCAATATTTTAGAAAT-AAAGCTGGGGTTGGAGTAT-CCCT
1 TGGAGTATCCCCGATTGTGA-AAATCAGTGTTTTAGAAATAAAATC-GGGGTTGGAGTATCCCCT
68745 -GATGAAATAACGGGGT
64 CGA--AAATAACGGGGT
** *
68761 TGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAA
1 TGGAGTATCCCCGATTGTG-AAAATCAGTGTTTTAGAAATAA
68803 GACCGAGGTT
Statistics
Matches: 227, Mismatches: 42, Indels: 19
0.79 0.15 0.07
Matches are distributed among these distances:
77 1 0.00
78 9 0.04
79 214 0.94
80 3 0.01
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.28
Consensus pattern (78 bp):
TGGAGTATCCCCGATTGTGAAAATCAGTGTTTTAGAAATAAAATCGGGGTTGGAGTATCCCCTCG
AAAATAACGGGGT
Found at i:68800 original size:158 final size:158
Alignment explanation
Indices: 68445--68824 Score: 412
Period size: 158 Copynumber: 2.4 Consensus size: 158
68435 ACAACGGGAC
* * * * * * *
68445 TGGAGTATCCTCGATTATGGAAAATCGGTGTTTTAGAAATAAAATCAGGGTTTGAGTATCTCCTC
1 TGGAGTATCCTCGATTGTGAAAAATCGGTGTTTTAGAAATAAGATCGGGGTTAGAGTATCCCCGC
** * *
68510 GAAAATAACAGGGTTGGAGCATCCCTGATTATAGAAAATCAGTGTTTTGAAAATAAAATCGGGGT
66 GAAAATAACAGGGTTGGAGCATCCCCAATTATAGAAAATCAATATTTTGAAAATAAAATCGGGGT
* *
68575 TGGAGTATCCCCTCGAAGATAATGGGGT
131 TGGAGTATCCCCTCGAAAATAACGGGGT
** * *
68603 TGGAGTATCCTCGATTGT-AGAAAATCGAAGCTTTAGAAATAAGGTCGGGGTTAGAGTATCCCCG
1 TGGAGTATCCTCGATTGTGA-AAAATCGGTGTTTTAGAAATAAGATCGGGGTTAGAGTATCCCCG
* * * * *
68667 CTAAAATAACGGGGTTGGAGTATCCCCAATTGT-GAGAAATCAATATTTT-AGAAAT-AAAGCTG
65 CGAAAATAACAGGGTTGGAGCATCCCCAATTATAGA-AAATCAATATTTTGA-AAATAAAATC-G
68729 GGGTTGGAGTAT-CCCT-GATGAAATAACGGGGT
127 GGGTTGGAGTATCCCCTCGA--AAATAACGGGGT
* * * * * *
68761 TGGAGTATCCCCGATTGTGAAAAATTGGTGTTTTGGAAATAAGACCGAGGTTAGAGTATTCCCG
1 TGGAGTATCCTCGATTGTGAAAAATCGGTGTTTTAGAAATAAGATCGGGGTTAGAGTATCCCCG
68825 AGATGAAAAA
Statistics
Matches: 183, Mismatches: 32, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
156 2 0.01
157 11 0.06
158 169 0.92
159 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.28
Consensus pattern (158 bp):
TGGAGTATCCTCGATTGTGAAAAATCGGTGTTTTAGAAATAAGATCGGGGTTAGAGTATCCCCGC
GAAAATAACAGGGTTGGAGCATCCCCAATTATAGAAAATCAATATTTTGAAAATAAAATCGGGGT
TGGAGTATCCCCTCGAAAATAACGGGGT
Found at i:71001 original size:20 final size:20
Alignment explanation
Indices: 70976--71026 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
70966 TGCCTGAATA
*
70976 TATCGATACATTGCAA-AATG
1 TATCGATACAATG-AACAATG
70996 TATCGATACAATGAACAATG
1 TATCGATACAATGAACAATG
*
71016 TATTGATACAA
1 TATCGATACAA
71027 ATTGTGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 2 0.07
20 26 0.93
ACGTcount: A:0.43, C:0.14, G:0.14, T:0.29
Consensus pattern (20 bp):
TATCGATACAATGAACAATG
Found at i:71767 original size:42 final size:42
Alignment explanation
Indices: 71679--71933 Score: 151
Period size: 42 Copynumber: 5.8 Consensus size: 42
71669 AAAAAGAGTA
* * *
71679 CGTCCTGCT-TTTCGAGGACAAAGGAAAAAAAGGAAAACGAAA-TG
1 CGTCTTGCTCTTT-GAGGACAAA--AGAAAAAGGAAAA-TAAAGTG
*
71723 CGTCTTACTCTTTGAGGACAAAAGAAAAAGGAAAATAAAGTG
1 CGTCTTGCTCTTTGAGGACAAAAGAAAAAGGAAAATAAAGTG
* * * * *
71765 CGTCCTGCTCTTTGAGAACTAGAAGGAAAAAGAAGGAAATGAAGTG
1 CGTCTTGCTCTTTGAGGAC-A-AAAGAAAAAG--GAAAATAAAGTG
* * **
71811 CGTCTTGCTCTTTGAGGTCAAACGAAAAAAGGAAAA-AAAAAG
1 CGTCTTGCTCTTTGAGGACAAAAG-AAAAAGGAAAATAAAGTG
* * *
71853 CATCATGCTCTTTGAAGACAAAAATGAAAAGAAGG-AAATGAAA-TG
1 CGTCTTGCTCTTTGAGGAC-AAAA-G-AAA-AAGGAAAAT-AAAGTG
* * * * *
71898 TGTCCTGCCCTTTGAGGACAAAGGAGAGAAGGAAAA
1 CGTCTTGCTCTTTGAGGACAAAAGA-AAAAGGAAAA
71934 AGCGCCTTGC
Statistics
Matches: 166, Mismatches: 31, Indels: 29
0.73 0.14 0.13
Matches are distributed among these distances:
41 3 0.02
42 53 0.32
43 13 0.08
44 39 0.23
45 29 0.17
46 29 0.17
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (42 bp):
CGTCTTGCTCTTTGAGGACAAAAGAAAAAGGAAAATAAAGTG
Found at i:71814 original size:88 final size:85
Alignment explanation
Indices: 71679--71934 Score: 257
Period size: 88 Copynumber: 2.9 Consensus size: 85
71669 AAAAAGAGTA
* * *
71679 CGTCCTGCT-TTTCGAGGACAAAGGAAAAA-AAGGAAAACGAAATGCGTCTTACTCTTTGAGGAC
1 CGTCCTGCTCTTT-GAGAACAAAGGAAAAAGAAGG-AAATGAAATGCGTCTTGCTCTTTGAGGAC
**
71742 AAAAGAAAAAGGAAAATAAAGTG
64 AAAAGAAAAAGGAAAA-AAAAAG
* *
71765 CGTCCTGCTCTTTGAGAACTAGAAGGAAAAAGAAGGAAATGAAGTGCGTCTTGCTCTTTGAGGTC
1 CGTCCTGCTCTTTGAGAAC-A-AAGGAAAAAGAAGGAAATGAAATGCGTCTTGCTCTTTGAGGAC
*
71830 AAACGAAAAAAGGAAAAAAAAAG
64 AAAAG-AAAAAGGAAAAAAAAAG
* * * * * * *
71853 CATCATGCTCTTTGAAGACAAAAATG-AAAAGAAGGAAATGAAATGTGTCCTGCCCTTTGAGGAC
1 CGTCCTGCTCTTTG-AGA-ACAAAGGAAAAAGAAGGAAATGAAATGCGTCTTGCTCTTTGAGGAC
* *
71917 AAAGGAGAGAAGGAAAAA
64 AAAAGA-AAAAGGAAAAA
71935 GCGCCTTGCT
Statistics
Matches: 143, Mismatches: 19, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
86 15 0.10
87 51 0.36
88 57 0.40
89 19 0.13
90 1 0.01
ACGTcount: A:0.43, C:0.14, G:0.24, T:0.19
Consensus pattern (85 bp):
CGTCCTGCTCTTTGAGAACAAAGGAAAAAGAAGGAAATGAAATGCGTCTTGCTCTTTGAGGACAA
AAGAAAAAGGAAAAAAAAAG
Found at i:72026 original size:61 final size:61
Alignment explanation
Indices: 71926--72452 Score: 822
Period size: 61 Copynumber: 8.6 Consensus size: 61
71916 CAAAGGAGAG
* * *
71926 AAGGAAAAAGCG-CCTTGCTCTTTGAGGACTAAAAAGTGCCACCAACTCGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCC-TGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * * * *
71987 AAGGAAAAGGTGTCATACTCTTTGAGGACTGGAAGGTGCCACCAATTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
*
72048 AAGGAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACT-GAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* *
72110 AAGGAAAAGGCGTCTTGCTCCTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * *
72171 AAGGAAAAGGCGTCCTGCTCCTTGAGGATTGAAAAATGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
72232 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * * *
72293 AAGGAGAAGGCATCCTGCTCTTTGAGGATTGAAAAGTACCACCAACTTGTGTGGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
*
72354 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTATGGGCTTTAA
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
* * *
72415 AAAGAGAAGGCGTCATGCTCTTTGAGGACTGAAAAGTG
1 AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTG
72453 AAAGGAGAAA
Statistics
Matches: 429, Mismatches: 35, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
61 373 0.87
62 56 0.13
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (61 bp):
AAGGAAAAGGCGTCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGTGGGCTTTAA
Found at i:73435 original size:10 final size:8
Alignment explanation
Indices: 73417--73496 Score: 54
Period size: 8 Copynumber: 9.5 Consensus size: 8
73407 AAGCAGGTTC
73417 TTTTCTTT
1 TTTTCTTT
*
73425 TCTCTCTTT
1 T-TTTCTTT
73434 TTTTCTTTT
1 TTTTC-TTT
*
73443 TTTTGTTT
1 TTTTCTTT
*
73451 TTTATTTGTT
1 TTT-TCT-TT
*
73461 TTTTGTTT
1 TTTTCTTT
*
73469 TTTTGTTT
1 TTTTCTTT
73477 TTTT-TTT
1 TTTTCTTT
*
73484 GTTTTGTTT
1 -TTTTCTTT
73493 TTTT
1 TTTT
73497 TAAAAAAAGA
Statistics
Matches: 61, Mismatches: 5, Indels: 12
0.78 0.06 0.15
Matches are distributed among these distances:
7 3 0.05
8 32 0.52
9 21 0.34
10 5 0.08
ACGTcount: A:0.01, C:0.06, G:0.07, T:0.85
Consensus pattern (8 bp):
TTTTCTTT
Found at i:73437 original size:1 final size:1
Alignment explanation
Indices: 73431--73497 Score: 62
Period size: 1 Copynumber: 67.0 Consensus size: 1
73421 CTTTTCTCTC
* * * * * * * *
73431 TTTTTTTCTTTTTTTTGTTTTTTATTTGTTTTTTGTTTTTTTGTTTTTTTTTTGTTTTGTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
73496 TT
1 TT
73498 AAAAAAAGAA
Statistics
Matches: 50, Mismatches: 16, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 50 1.00
ACGTcount: A:0.01, C:0.01, G:0.09, T:0.88
Consensus pattern (1 bp):
T
Found at i:73451 original size:16 final size:15
Alignment explanation
Indices: 73431--73497 Score: 82
Period size: 15 Copynumber: 4.5 Consensus size: 15
73421 CTTTTCTCTC
*
73431 TTTTTTTCTTTTT-T
1 TTTTTTTTTTTTTGT
* *
73445 TTGTTTTTTATTTGT
1 TTTTTTTTTTTTTGT
*
73460 TTTTTGTTTTTTTGT
1 TTTTTTTTTTTTTGT
73475 TTTTTTTTTGTTTTGT
1 TTTTTTTTT-TTTTGT
73491 TTTTTTT
1 TTTTTTT
73498 AAAAAAAGAA
Statistics
Matches: 44, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
14 10 0.23
15 21 0.48
16 13 0.30
ACGTcount: A:0.01, C:0.01, G:0.09, T:0.88
Consensus pattern (15 bp):
TTTTTTTTTTTTTGT
Found at i:73451 original size:26 final size:26
Alignment explanation
Indices: 73434--73497 Score: 87
Period size: 26 Copynumber: 2.5 Consensus size: 26
73424 TTCTCTCTTT
73434 TTTTCT-TTTTTTTGTTTTTTATTTG
1 TTTTCTGTTTTTTTGTTTTTTATTTG
* *
73459 TTTTTTGTTTTTTTGTTTTTTTTTTG
1 TTTTCTGTTTTTTTGTTTTTTATTTG
*
73485 TTTTGT-TTTTTTT
1 TTTTCTGTTTTTTT
73498 AAAAAAAGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
25 12 0.34
26 23 0.66
ACGTcount: A:0.02, C:0.02, G:0.09, T:0.88
Consensus pattern (26 bp):
TTTTCTGTTTTTTTGTTTTTTATTTG
Found at i:75335 original size:32 final size:33
Alignment explanation
Indices: 75297--75372 Score: 109
Period size: 33 Copynumber: 2.3 Consensus size: 33
75287 TCTACGGCTA
75297 TTAACTTTGATCATAGAT-TTATACACTTTTAG
1 TTAACTTTGATCATAGATATTATACACTTTTAG
* * * *
75329 TTAACTTTGATCTTATATATTATACATTTTTGG
1 TTAACTTTGATCATAGATATTATACACTTTTAG
75362 TTAACTTTGAT
1 TTAACTTTGAT
75373 AAAAATTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
32 16 0.41
33 23 0.59
ACGTcount: A:0.29, C:0.11, G:0.09, T:0.51
Consensus pattern (33 bp):
TTAACTTTGATCATAGATATTATACACTTTTAG
Found at i:80076 original size:26 final size:26
Alignment explanation
Indices: 80040--80103 Score: 119
Period size: 26 Copynumber: 2.5 Consensus size: 26
80030 TACTAGCTAT
80040 GTTTTGACTTGACATTGGTTTCATTG
1 GTTTTGACTTGACATTGGTTTCATTG
80066 GTTTTGACTTGACATTGGTTTCATTG
1 GTTTTGACTTGACATTGGTTTCATTG
*
80092 GTTTCGACTTGA
1 GTTTTGACTTGA
80104 TATTAGTTCA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.16, C:0.12, G:0.23, T:0.48
Consensus pattern (26 bp):
GTTTTGACTTGACATTGGTTTCATTG
Found at i:80699 original size:97 final size:97
Alignment explanation
Indices: 80592--80825 Score: 278
Period size: 96 Copynumber: 2.4 Consensus size: 97
80582 TGAAAAACAG
* * *
80592 GGTTGAAGTATCCCTCT-TGATGAATGGGGCTGGAGTGTCCTCAATGATGACAATTTAAATAAGA
1 GGTTGGAGTATCCCTCTCGGAGGAATGGGGCTGGAGTGTCC-CAATGATGACAATTTAAATAAGA
*
80656 ATAAGATTTAAATTTTGATGCTGTTTAAAAG-AA
65 ATAAGATTTAAACTTTGAT-CTGTTTAAAAGTAA
* * * * * *
80689 GGTTGGAGTATCCC-CTCGGAGGAATGGGGTTGGAGTGTTCCGATGGTGACAATTTAAGTGAGAA
1 GGTTGGAGTATCCCTCTCGGAGGAATGGGGCTGGAGTGTCCCAATGATGACAATTTAAATAAGAA
**
80753 TAAGATTTAAACTTTGATCTGTTTAAAAGTGG
66 TAAGATTTAAACTTTGATCTGTTTAAAAGTAA
* * * *
80785 GGTTGGAGTATCTC-CTCGGAGGAATAGGGTTGGAGTATCCC
1 GGTTGGAGTATCCCTCTCGGAGGAATGGGGCTGGAGTGTCCC
80826 GATAAATAAA
Statistics
Matches: 119, Mismatches: 16, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
95 11 0.09
96 76 0.64
97 32 0.27
ACGTcount: A:0.29, C:0.12, G:0.29, T:0.31
Consensus pattern (97 bp):
GGTTGGAGTATCCCTCTCGGAGGAATGGGGCTGGAGTGTCCCAATGATGACAATTTAAATAAGAA
TAAGATTTAAACTTTGATCTGTTTAAAAGTAA
Found at i:80769 original size:96 final size:97
Alignment explanation
Indices: 80613--80820 Score: 294
Period size: 96 Copynumber: 2.2 Consensus size: 97
80603 CCCTCTTGAT
* *
80613 GAATGGGGCTGGAGTGTCCTCAATGATGACAATTTAAATAAGAATAAGATTTAAATTTTGATGCT
1 GAATGGGGTTGGAGTGTCCTCAATGATGACAATTTAAATAAGAATAAGATTTAAACTTTGAT-CT
80678 GTTTAAAAG-AAGGTTGGAGTATCCCCTCGGAG
65 GTTTAAAAGTAAGGTTGGAGTATCCCCTCGGAG
* * * * *
80710 GAATGGGGTTGGAGTGTTC-CGATGGTGACAATTTAAGTGAGAATAAGATTTAAACTTTGATCTG
1 GAATGGGGTTGGAGTGTCCTCAATGATGACAATTTAAATAAGAATAAGATTTAAACTTTGATCTG
** *
80774 TTTAAAAGTGGGGTTGGAGTATCTCCTCGGAG
66 TTTAAAAGTAAGGTTGGAGTATCCCCTCGGAG
*
80806 GAATAGGGTTGGAGT
1 GAATGGGGTTGGAGT
80821 ATCCCGATAA
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
95 11 0.11
96 71 0.72
97 17 0.17
ACGTcount: A:0.30, C:0.10, G:0.30, T:0.31
Consensus pattern (97 bp):
GAATGGGGTTGGAGTGTCCTCAATGATGACAATTTAAATAAGAATAAGATTTAAACTTTGATCTG
TTTAAAAGTAAGGTTGGAGTATCCCCTCGGAG
Found at i:83768 original size:27 final size:27
Alignment explanation
Indices: 83738--84311 Score: 743
Period size: 27 Copynumber: 20.7 Consensus size: 27
83728 GGTAGGTGCT
*
83738 ACGGAGTTGTGGACTTAAAAAGATGCC
1 ACGGAGTTGTGGACTTAAAAGGATGCC
* *
83765 ACGGAGTTATGGACTTTAAAAGGATACC
1 ACGGAGTTGTGGAC-TTAAAAGGATGCC
*
83793 ACGGAGTTATGGACTTAAAAGGATGCC
1 ACGGAGTTGTGGACTTAAAAGGATGCC
** *
83820 ACAAAGTTGTGGACTTAAAAGGATACC
1 ACGGAGTTGTGGACTTAAAAGGATGCC
83847 ACGGGGTTATGGAGTTGTGGACTTAAAAGGATGCC
1 AC--------GGAGTTGTGGACTTAAAAGGATGCC
*
83882 ACGGGGTTGTGGACTTAAAAGGATGCC
1 ACGGAGTTGTGGACTTAAAAGGATGCC
*
83909 ACGGAGTTGTGGACTTTAAAAAGATGCC
1 ACGGAGTTGTGGAC-TTAAAAGGATGCC
* **
83937 ACGAAGTAATGGACTTAAAAGGATGCC
1 ACGGAGTTGTGGACTTAAAAGGATGCC
* *
83964 ATGGAGTTGTGGACTTTAAAGGATGCC
1 ACGGAGTTGTGGACTTAAAAGGATGCC
*
83991 ACGGAGTTGTGGACTTTAAAGGATGCC
1 ACGGAGTTGTGGACTTAAAAGGATGCC
* * *
84018 ACGGAGTTGTGGACTTTAAAGGGTGTC
1 ACGGAGTTGTGGACTTAAAAGGATGCC
* *
84045 ACGGAGTTATGGATTTAAAAGGATGCC
1 ACGGAGTTGTGGACTTAAAAGGATGCC
84072 ACGGAGTTGTGGACTTAAAAGGATGCC
1 ACGGAGTTGTGGACTTAAAAGGATGCC
***
84099 ACGGAGTTGTGGACATTAAAAGGACAAC
1 ACGGAGTTGTGGAC-TTAAAAGGATGCC
* *
84127 ACAGAGTTGTGGACTTAAAAAGATGCC
1 ACGGAGTTGTGGACTTAAAAGGATGCC
*
84154 ACGGAGTTGTAGACTTAAAAGGATGCC
1 ACGGAGTTGTGGACTTAAAAGGATGCC
84181 ACGGAGTTGTGGACTTAAAAAGGATGCC
1 ACGGAGTTGTGGACTT-AAAAGGATGCC
*
84209 ACGGAGTTGTGGACTTAAAAAGATGCC
1 ACGGAGTTGTGGACTTAAAAGGATGCC
*
84236 ACGGAGTTGTGGACTTAAAAAGATGCC
1 ACGGAGTTGTGGACTTAAAAGGATGCC
* *
84263 ACGGAGTTGTGGACTTCAAAAAGATACC
1 ACGGAGTTGTGGACTT-AAAAGGATGCC
*
84291 ACGGAGTTATGGACTTTAAAA
1 ACGGAGTTGTGGAC-TTAAAA
84312 AGAAATACCA
Statistics
Matches: 485, Mismatches: 48, Indels: 27
0.87 0.09 0.05
Matches are distributed among these distances:
27 334 0.69
28 125 0.26
29 2 0.00
35 24 0.05
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.24
Consensus pattern (27 bp):
ACGGAGTTGTGGACTTAAAAGGATGCC
Found at i:83833 original size:55 final size:54
Alignment explanation
Indices: 83738--84311 Score: 743
Period size: 55 Copynumber: 10.4 Consensus size: 54
83728 GGTAGGTGCT
* * *
83738 ACGGAGTTGTGGACTTAAAAAGATGCCACGGAGTTATGGACTTTAAAAGGATACC
1 ACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCC
* ** *
83793 ACGGAGTTATGGACTTAAAAGGATGCCACAAAGTTGTGGACTTAAAAGGATACC
1 ACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCC
*
83847 ACGGGGTTATGGAGTTGTGGACTTAAAAGGATGCCACGGGGTTGTGGACTTAAAAGGATGCC
1 AC--------GGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCC
* * **
83909 ACGGAGTTGTGGACTTTAAAAAGATGCCACGAAGTAATGGACTTAAAAGGATGCC
1 ACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCC
* * *
83964 ATGGAGTTGTGGACTTTAAAGGATGCCACGGAGTTGTGGACTTTAAAGGATGCC
1 ACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCC
* * * * *
84018 ACGGAGTTGTGGACTTTAAAGGGTGTCACGGAGTTATGGATTTAAAAGGATGCC
1 ACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCC
***
84072 ACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACATTAAAAGGACAAC
1 ACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCC
* * *
84127 ACAGAGTTGTGGACTTAAAAAGATGCCACGGAGTTGTAGACTTAAAAGGATGCC
1 ACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCC
*
84181 ACGGAGTTGTGGACTTAAAAAGGATGCCACGGAGTTGTGGACTTAAAAAGATGCC
1 ACGGAGTTGTGGACTT-AAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCC
* * *
84236 ACGGAGTTGTGGACTTAAAAAGATGCCACGGAGTTGTGGACTTCAAAAAGATACC
1 ACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTT-AAAAGGATGCC
*
84291 ACGGAGTTATGGACTTTAAAA
1 ACGGAGTTGTGGAC-TTAAAA
84312 AGAAATACCA
Statistics
Matches: 457, Mismatches: 49, Indels: 25
0.86 0.09 0.05
Matches are distributed among these distances:
54 196 0.43
55 206 0.45
56 6 0.01
62 49 0.11
ACGTcount: A:0.33, C:0.14, G:0.30, T:0.24
Consensus pattern (54 bp):
ACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCC
Found at i:83870 original size:35 final size:35
Alignment explanation
Indices: 83824--83894 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
83814 GATGCCACAA
83824 AGTTGTGGACTTAAAAGGATACCACGGGGTTATGG
1 AGTTGTGGACTTAAAAGGATACCACGGGGTTATGG
* *
83859 AGTTGTGGACTTAAAAGGATGCCACGGGGTTGTGG
1 AGTTGTGGACTTAAAAGGATACCACGGGGTTATGG
83894 A
1 A
83895 CTTAAAAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.27, C:0.11, G:0.37, T:0.25
Consensus pattern (35 bp):
AGTTGTGGACTTAAAAGGATACCACGGGGTTATGG
Found at i:83991 original size:109 final size:108
Alignment explanation
Indices: 83857--84311 Score: 667
Period size: 109 Copynumber: 4.2 Consensus size: 108
83847 ACGGGGTTAT
*
83857 GGAGTTGTGGACTTAAAAGGATGCCACGGGGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGA
1 GGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGA
* * *
83922 CTTTAAAAAGATGCCACGAAGTAATGGACTTAAAAGGATGCCAT
66 C-TTAAAAAGATGCCACGGAGTTATGGACTTAAAAGGATGCCAC
* *
83966 GGAGTTGTGGACTTTAAAGGATGCCACGGAGTTGTGGACTTTAAAGGATGCCACGGAGTTGTGGA
1 GGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGA
* * * * *
84031 CTTTAAAGGGTGTCACGGAGTTATGGATTTAAAAGGATGCCAC
66 CTTAAAAAGATGCCACGGAGTTATGGACTTAAAAGGATGCCAC
*** *
84074 GGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACATTAAAAGGACAACACAGAGTTGTGG
1 GGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGG
* *
84139 ACTTAAAAAGATGCCACGGAGTTGTAGACTTAAAAGGATGCCAC
65 ACTTAAAAAGATGCCACGGAGTTATGGACTTAAAAGGATGCCAC
*
84183 GGAGTTGTGGACTTAAAAAGGATGCCACGGAGTTGTGGACTTAAAAAGATGCCACGGAGTTGTGG
1 GGAGTTGTGGACTT-AAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGG
* * *
84248 ACTTAAAAAGATGCCACGGAGTTGTGGACTTCAAAAAGATACCAC
65 ACTTAAAAAGATGCCACGGAGTTATGGACTT-AAAAGGATGCCAC
*
84293 GGAGTTATGGACTTTAAAA
1 GGAGTTGTGGAC-TTAAAA
84312 AGAAATACCA
Statistics
Matches: 309, Mismatches: 33, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
108 72 0.23
109 184 0.60
110 51 0.17
111 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.31, T:0.24
Consensus pattern (108 bp):
GGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGA
CTTAAAAAGATGCCACGGAGTTATGGACTTAAAAGGATGCCAC
Found at i:84001 original size:82 final size:81
Alignment explanation
Indices: 83857--84311 Score: 649
Period size: 82 Copynumber: 5.6 Consensus size: 81
83847 ACGGGGTTAT
*
83857 GGAGTTGTGGACTTAAAAGGATGCCACGGGGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGA
1 GGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGA
*
83922 CTTTAAAAAGATGCCAC
66 C-TTAAAAGGATGCCAC
* ** * *
83939 GAAGTAATGGACTTAAAAGGATGCCATGGAGTTGTGGACTTTAAAGGATGCCACGGAGTTGTGGA
1 GGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGA
*
84004 CTTTAAAGGATGCCAC
66 CTTAAAAGGATGCCAC
* * * * *
84020 GGAGTTGTGGACTTTAAAGGGTGTCACGGAGTTATGGATTTAAAAGGATGCCACGGAGTTGTGGA
1 GGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGA
84085 CTTAAAAGGATGCCAC
66 CTTAAAAGGATGCCAC
*** * * *
84101 GGAGTTGTGGACATTAAAAGGACAACACAGAGTTGTGGACTTAAAAAGATGCCACGGAGTTGTAG
1 GGAGTTGTGGAC-TTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGG
84166 ACTTAAAAGGATGCCAC
65 ACTTAAAAGGATGCCAC
*
84183 GGAGTTGTGGACTTAAAAAGGATGCCACGGAGTTGTGGACTTAAAAAGATGCCACGGAGTTGTGG
1 GGAGTTGTGGACTT-AAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGG
*
84248 ACTTAAAAAGATGCCAC
65 ACTTAAAAGGATGCCAC
* * *
84265 GGAGTTGTGGACTTCAAAAAGATACCACGGAGTTATGGACTTTAAAA
1 GGAGTTGTGGACTT-AAAAGGATGCCACGGAGTTGTGGAC-TTAAAA
84312 AGAAATACCA
Statistics
Matches: 331, Mismatches: 39, Indels: 5
0.88 0.10 0.01
Matches are distributed among these distances:
81 97 0.29
82 228 0.69
83 6 0.02
ACGTcount: A:0.32, C:0.14, G:0.31, T:0.24
Consensus pattern (81 bp):
GGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGA
CTTAAAAGGATGCCAC
Found at i:85707 original size:21 final size:21
Alignment explanation
Indices: 85673--85712 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
85663 GCTTTTGCAC
* *
85673 TTTTTTTTGTTTTTATTTTCA
1 TTTTTTGTGCTTTTATTTTCA
*
85694 TTTTTTGTGCTTTTGTTTT
1 TTTTTTGTGCTTTTATTTT
85713 TGACTTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.05, C:0.05, G:0.10, T:0.80
Consensus pattern (21 bp):
TTTTTTGTGCTTTTATTTTCA
Found at i:85724 original size:23 final size:22
Alignment explanation
Indices: 85650--85724 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 22
85640 TTGTTGTTCC
* *
85650 CTTTTTT-TATTTTGCTTTTGCA
1 CTTTTTTGTGTTTTGTTTTTG-A
* *
85672 CTTTTTTTTGTTTT-TATTTTCA
1 CTTTTTTGTGTTTTGT-TTTTGA
85694 -TTTTTTGTGCTTTTGTTTTTGA
1 CTTTTTTGTG-TTTTGTTTTTGA
85716 CTTTTTTGT
1 CTTTTTTGT
85725 CATTTTGAAG
Statistics
Matches: 43, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
21 8 0.19
22 17 0.40
23 18 0.42
ACGTcount: A:0.07, C:0.09, G:0.11, T:0.73
Consensus pattern (22 bp):
CTTTTTTGTGTTTTGTTTTTGA
Found at i:90220 original size:25 final size:25
Alignment explanation
Indices: 90192--90239 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
90182 AAATATGTTA
90192 GTATGACAAAAATTGA-AATAAAGTT
1 GTATGA-AAAAATTGACAATAAAGTT
* *
90217 GTATGAAACAATTTACAATAAAG
1 GTATGAAAAAATTGACAATAAAG
90240 AAAATGAGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.52, C:0.06, G:0.15, T:0.27
Consensus pattern (25 bp):
GTATGAAAAAATTGACAATAAAGTT
Found at i:90529 original size:96 final size:97
Alignment explanation
Indices: 90403--90616 Score: 306
Period size: 96 Copynumber: 2.2 Consensus size: 97
90393 ATTTTAATTG
* * * *
90403 AAAAACGGGGTTAGAGTA-CCCCTTAGAAGGAATGAGGTTGAAATGTCCTCGATGATGACAATTT
1 AAAAGCGGGGTTGGAGTATCCTCTCA-AAGGAATGAGGTTGAAATGTCCTCGATGATGACAATTT
*
90467 AAATGAGAATAAGATTTAAACTTTGATGCGTTT
65 AAATGAGAATAAGATTTAAACTTTGATGCGTTC
* * * *
90500 AAAAGC-GGGTTGGAGTATCCTCTCAAAGGAATGGGGTTGGAGTGTCCTCGATGGTGACAATTTA
1 AAAAGCGGGGTTGGAGTATCCTCTCAAAGGAATGAGGTTGAAATGTCCTCGATGATGACAATTTA
* *
90564 AGTGAGAATAAGATTTAAACTTTGATGTGTTC
66 AATGAGAATAAGATTTAAACTTTGATGCGTTC
90596 AAAAGCGGGGTTGGAGTATCC
1 AAAAGCGGGGTTGGAGTATCC
90617 CCTCGGATGA
Statistics
Matches: 104, Mismatches: 11, Indels: 4
0.87 0.09 0.03
Matches are distributed among these distances:
96 80 0.77
97 24 0.23
ACGTcount: A:0.32, C:0.12, G:0.28, T:0.29
Consensus pattern (97 bp):
AAAAGCGGGGTTGGAGTATCCTCTCAAAGGAATGAGGTTGAAATGTCCTCGATGATGACAATTTA
AATGAGAATAAGATTTAAACTTTGATGCGTTC
Found at i:94083 original size:28 final size:27
Alignment explanation
Indices: 94026--94086 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
94016 TCAATAGGTT
*
94026 AAAAATTTGTTTTGGTAATTCTTAATA
1 AAAAAATTGTTTTGGTAATTCTTAATA
94053 AAAAAATTGTTTTGGTAATTCTTAATA
1 AAAAAATTGTTTTGGTAATTCTTAATA
94080 AAAAAAT
1 AAAAAAT
94087 GGGTGTGGCA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.44, C:0.03, G:0.10, T:0.43
Consensus pattern (27 bp):
AAAAAATTGTTTTGGTAATTCTTAATA
Found at i:98807 original size:21 final size:22
Alignment explanation
Indices: 98781--98825 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
98771 TGCGCTTGAC
98781 AAATGC-TGTGGTCCCAATTTT
1 AAATGCTTGTGGTCCCAATTTT
*
98802 AAATGCTTTGTGGTCTCAATTTT
1 AAATGC-TTGTGGTCCCAATTTT
98825 A
1 A
98826 TGCTTGATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
23 15 0.71
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (22 bp):
AAATGCTTGTGGTCCCAATTTT
Found at i:98828 original size:21 final size:22
Alignment explanation
Indices: 98787--98830 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
98777 TGACAAATGC
98787 TGTGGTCCCAATTTTAAATGCTT
1 TGTGGTCCCAATTTT-AATGCTT
*
98810 TGTGGTCTCAATTTT-ATGCTT
1 TGTGGTCCCAATTTTAATGCTT
98831 GATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 6 0.30
23 14 0.70
ACGTcount: A:0.18, C:0.16, G:0.18, T:0.48
Consensus pattern (22 bp):
TGTGGTCCCAATTTTAATGCTT
Found at i:99174 original size:2 final size:2
Alignment explanation
Indices: 99167--99191 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
99157 ATTCTTAAAA
99167 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
99192 ATTCCAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:101198 original size:16 final size:16
Alignment explanation
Indices: 101177--101209 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
101167 ATCACACTAA
101177 TTGACAAGGAAAAACT
1 TTGACAAGGAAAAACT
101193 TTGACAAGGAAAAACT
1 TTGACAAGGAAAAACT
101209 T
1 T
101210 AACTAAACAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.48, C:0.12, G:0.18, T:0.21
Consensus pattern (16 bp):
TTGACAAGGAAAAACT
Found at i:105274 original size:15 final size:17
Alignment explanation
Indices: 105239--105275 Score: 51
Period size: 15 Copynumber: 2.3 Consensus size: 17
105229 TTGAACAATT
*
105239 AACCTAGAAATGACCCA
1 AACCTAGAAATGACACA
105256 AACCTA-AAATGA-ACA
1 AACCTAGAAATGACACA
105271 AACCT
1 AACCT
105276 GATCAACTCG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
15 7 0.37
16 6 0.32
17 6 0.32
ACGTcount: A:0.51, C:0.27, G:0.08, T:0.14
Consensus pattern (17 bp):
AACCTAGAAATGACACA
Found at i:105736 original size:2 final size:2
Alignment explanation
Indices: 105729--105755 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
105719 CTATTTTCTG
105729 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
105756 CAGCCAGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:114538 original size:2 final size:2
Alignment explanation
Indices: 114525--114565 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
114515 TCACTTTGCA
* *
114525 AT AT AC AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
114566 GACAATGATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:117038 original size:24 final size:25
Alignment explanation
Indices: 116974--117038 Score: 68
Period size: 24 Copynumber: 2.8 Consensus size: 25
116964 AAAAAATAAT
*
116974 ATTAATATTTAT-AT-AATTTTATA
1 ATTAATATTTATAATAAATATTATA
116997 ATTAA-ATTTA-AATAAAATATTAT-
1 ATTAATATTTATAAT-AAATATTATA
*
117020 TTTAATATTTATAATAAAT
1 ATTAATATTTATAATAAAT
117039 CAAAAATTAC
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 7 0.20
23 9 0.26
24 16 0.46
25 3 0.09
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
ATTAATATTTATAATAAATATTATA
Found at i:117613 original size:29 final size:30
Alignment explanation
Indices: 117566--117622 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
117556 TAATTAAGGA
*
117566 TTTATTTAGATATAAATAAAAAAATAAAAT
1 TTTATTTAAATATAAATAAAAAAATAAAAT
*
117596 TTTATTTAAATAT-AATAAAAATATAAA
1 TTTATTTAAATATAAATAAAAAAATAAA
117623 GACTTATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 13 0.52
30 12 0.48
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (30 bp):
TTTATTTAAATATAAATAAAAAAATAAAAT
Found at i:117629 original size:29 final size:30
Alignment explanation
Indices: 117567--117632 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 30
117557 AATTAAGGAT
* *
117567 TTATTTAGATATAAATAAAAAAATAAAATT
1 TTATTTAAATATAAATAAAAAAATAAAATC
*
117597 TTATTTAAATAT-AATAAAAATATAAAGA-C
1 TTATTTAAATATAAATAAAAAAATAAA-ATC
117626 TTATTTA
1 TTATTTA
117633 TGAAAAGCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 20 0.62
30 12 0.38
ACGTcount: A:0.56, C:0.02, G:0.03, T:0.39
Consensus pattern (30 bp):
TTATTTAAATATAAATAAAAAAATAAAATC
Found at i:123722 original size:21 final size:22
Alignment explanation
Indices: 123696--123736 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
123686 AAGTGCCATA
123696 CCAT-AATGGGTATTCAAAGTG
1 CCATAAATGGGTATTCAAAGTG
123717 CCATAAATGGGTATTCAAAG
1 CCATAAATGGGTATTCAAAG
123737 AAACAACAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (22 bp):
CCATAAATGGGTATTCAAAGTG
Found at i:125881 original size:26 final size:27
Alignment explanation
Indices: 125834--125889 Score: 78
Period size: 26 Copynumber: 2.1 Consensus size: 27
125824 TATTCGATAT
*
125834 AATTTTTAAAATAAATATAAAAATAAA
1 AATTTTTAAAATAAATAAAAAAATAAA
* *
125861 AATTTTTAAAA-ATATAAAAAAATTAA
1 AATTTTTAAAATAAATAAAAAAATAAA
125887 AAT
1 AAT
125890 AAATTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 15 0.58
27 11 0.42
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (27 bp):
AATTTTTAAAATAAATAAAAAAATAAA
Found at i:126156 original size:21 final size:21
Alignment explanation
Indices: 126118--126157 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
126108 TTTAAATGTG
*
126118 TAATATATATATATATATATT
1 TAATATATATATAAATATATT
* *
126139 TAATATATTTTTAAATATA
1 TAATATATATATAAATATA
126158 ATTATTTAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATATATATATAAATATATT
Found at i:129570 original size:5 final size:5
Alignment explanation
Indices: 129555--129611 Score: 62
Period size: 5 Copynumber: 11.0 Consensus size: 5
129545 ATGTACAATT
* *
129555 ATATAA ATATA ATATA A-ATA AAATA ATTAAA ATATA ATATA ATATA ATATAA
1 ATAT-A ATATA ATATA ATATA ATATA A-TATA ATATA ATATA ATATA ATAT-A
129607 ATATA
1 ATATA
129612 TATTTTAAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
4 4 0.09
5 29 0.64
6 12 0.27
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (5 bp):
ATATA
Found at i:129571 original size:11 final size:11
Alignment explanation
Indices: 129555--129611 Score: 71
Period size: 11 Copynumber: 5.0 Consensus size: 11
129545 ATGTACAATT
129555 ATATAAATATA
1 ATATAAATATA
*
129566 ATATAAATAAA
1 ATATAAATATA
129577 ATAATTAAAATATA
1 AT-A-T-AAATATA
129591 ATAT-AATATA
1 ATATAAATATA
129601 ATATAAATATA
1 ATATAAATATA
129612 TATTTTAAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
10 10 0.25
11 18 0.45
12 2 0.05
13 2 0.05
14 8 0.20
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
ATATAAATATA
Found at i:129602 original size:35 final size:34
Alignment explanation
Indices: 129551--129662 Score: 106
Period size: 35 Copynumber: 3.3 Consensus size: 34
129541 TATTATGTAC
129551 AATT-ATATAAATATAATATAAATAAA-ATAATTAA
1 AATTAATAT-AATATAATATAAATAAATAT-ATTAA
* *
129585 AATATAATATAATATAATATAAATATATATTTTAA
1 AAT-TAATATAATATAATATAAATAAATATATTAA
* * * *
129620 AATTTATATAATATAA-AT-TATTAATATATTTA
1 AATTAATATAATATAATATAAATAAATATATTAA
*
129652 AATTTATATAA
1 AATTAATATAA
129663 ATATTAAATA
Statistics
Matches: 67, Mismatches: 8, Indels: 8
0.81 0.10 0.10
Matches are distributed among these distances:
32 20 0.30
33 2 0.03
34 15 0.22
35 24 0.36
36 6 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (34 bp):
AATTAATATAATATAATATAAATAAATATATTAA
Found at i:129628 original size:18 final size:17
Alignment explanation
Indices: 129607--129682 Score: 59
Period size: 16 Copynumber: 4.4 Consensus size: 17
129597 TATAATATAA
129607 ATATATATTTTAAAATTT
1 ATATATA-TTTAAAATTT
* *
129625 ATATA-ATATAAATTATT
1 ATATATATTTAAAAT-TT
129642 A-ATATATTT-AAATTT
1 ATATATATTTAAAATTT
*
129657 ATATAAATATTAAATATTT
1 ATATATAT-TTAAA-ATTT
*
129676 AAATATA
1 ATATATA
129683 ATTATAATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 11
0.71 0.11 0.17
Matches are distributed among these distances:
15 3 0.07
16 17 0.38
17 9 0.20
18 7 0.16
19 9 0.20
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (17 bp):
ATATATATTTAAAATTT
Found at i:129634 original size:34 final size:34
Alignment explanation
Indices: 129553--129662 Score: 127
Period size: 34 Copynumber: 3.2 Consensus size: 34
129543 TTATGTACAA
* *
129553 TTATATAAATATAATATAAATAAAATAATTAAAAT
1 TTATAT-AATATAATATAAATAATATATTTAAAAT
*
129588 ATAATATAATATAATATAAAT-ATATATTTTAAAAT
1 -TTATATAATATAATATAAATAATATA-TTTAAAAT
* *
129623 TTATATAATATAA-ATTATTAATATATTT-AAAT
1 TTATATAATATAATATAAATAATATATTTAAAAT
129655 TTATATAA
1 TTATATAA
129663 ATATTAAATA
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
32 12 0.18
33 7 0.11
34 21 0.32
35 21 0.32
36 5 0.08
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (34 bp):
TTATATAATATAATATAAATAATATATTTAAAAT
Found at i:129669 original size:17 final size:17
Alignment explanation
Indices: 129619--129671 Score: 60
Period size: 17 Copynumber: 3.2 Consensus size: 17
129609 ATATATTTTA
129619 AAATTTATAT-AATA-T
1 AAATTTATATAAATATT
129634 AAA-TTAT-TAATATATTT
1 AAATTTATATAA-ATA-TT
129651 AAATTTATATAAATATT
1 AAATTTATATAAATATT
129668 AAAT
1 AAAT
129672 ATTTAAATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
13 1 0.03
14 5 0.16
15 6 0.19
17 10 0.31
18 7 0.22
19 3 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
AAATTTATATAAATATT
Found at i:129673 original size:25 final size:27
Alignment explanation
Indices: 129630--129679 Score: 86
Period size: 25 Copynumber: 1.9 Consensus size: 27
129620 AATTTATATA
129630 ATATAAATTATTAATATATTTAAATTT
1 ATATAAATTATTAATATATTTAAATTT
129657 ATATAAA-TATTAA-ATATTTAAAT
1 ATATAAATTATTAATATATTTAAAT
129680 ATAATTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 10 0.43
26 6 0.26
27 7 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (27 bp):
ATATAAATTATTAATATATTTAAATTT
Found at i:133555 original size:19 final size:21
Alignment explanation
Indices: 133524--133575 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
133514 ATTAACCTTA
133524 TATATGA-TTTGATA-ATCTT
1 TATATGATTTTGATAGATCTT
*
133543 T-TATGATTTTGATAGATTTT
1 TATATGATTTTGATAGATCTT
133563 TACTATGATTTTG
1 TA-TATGATTTTG
133576 TCATTTTCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 5 0.18
19 8 0.29
20 5 0.18
22 10 0.36
ACGTcount: A:0.27, C:0.04, G:0.13, T:0.56
Consensus pattern (21 bp):
TATATGATTTTGATAGATCTT
Found at i:133639 original size:21 final size:21
Alignment explanation
Indices: 133615--133676 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 21
133605 ATAACTTCTA
*
133615 ATAATATTTGACATAATTTTG
1 ATAATATTTAACATAATTTTG
* *
133636 ATAATCTTTAATATAATTTTG
1 ATAATATTTAACATAATTTTG
* * *
133657 ATAATCTTTAATAAAATTTT
1 ATAATATTTAACATAATTTT
133677 TCTATACTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 37 1.00
ACGTcount: A:0.40, C:0.05, G:0.05, T:0.50
Consensus pattern (21 bp):
ATAATATTTAACATAATTTTG
Found at i:133779 original size:11 final size:11
Alignment explanation
Indices: 133763--133788 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
133753 TTCTATATAA
133763 TTTTGGTAATC
1 TTTTGGTAATC
133774 TTTTGGTAATC
1 TTTTGGTAATC
133785 TTTT
1 TTTT
133789 ATATAATTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.15, C:0.08, G:0.15, T:0.62
Consensus pattern (11 bp):
TTTTGGTAATC
Found at i:133795 original size:32 final size:31
Alignment explanation
Indices: 133748--133808 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 31
133738 TATATCTTAA
133748 TAATTTTCTATATAATTTTGGTAATCTTTTGG
1 TAATTTTCTATATAA-TTTGGTAATCTTTTGG
*
133780 TAATCTTT-TATATAATTTGGTAATGTTTT
1 TAAT-TTTCTATATAATTTGGTAATCTTTT
133809 ATATGATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 13 0.48
32 11 0.41
33 3 0.11
ACGTcount: A:0.26, C:0.05, G:0.11, T:0.57
Consensus pattern (31 bp):
TAATTTTCTATATAATTTGGTAATCTTTTGG
Found at i:133798 original size:20 final size:20
Alignment explanation
Indices: 133775--133869 Score: 93
Period size: 20 Copynumber: 4.6 Consensus size: 20
133765 TTGGTAATCT
133775 TTTGGTAATCTTTTATATAA
1 TTTGGTAATCTTTTATATAA
* *
133795 TTTGGTAATGTTTTATATGAT
1 TTTGGTAATCTTTTATAT-AA
* *
133816 TTTGGTAATCTTTGAAATAA
1 TTTGGTAATCTTTTATATAA
*
133836 TTTTG-ATATCTTTTAATATAA
1 TTTGGTA-ATCTTTT-ATATAA
*
133857 TTTTGATAATCTT
1 -TTTGGTAATCTT
133870 CATAATACTT
Statistics
Matches: 59, Mismatches: 11, Indels: 8
0.76 0.14 0.10
Matches are distributed among these distances:
19 1 0.02
20 28 0.47
21 21 0.36
22 8 0.14
23 1 0.02
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.55
Consensus pattern (20 bp):
TTTGGTAATCTTTTATATAA
Found at i:133819 original size:41 final size:42
Alignment explanation
Indices: 133774--133869 Score: 115
Period size: 41 Copynumber: 2.3 Consensus size: 42
133764 TTTGGTAATC
* * * *
133774 TTTTGGTAATCTTTTATATAATTTGG-TAATGTTTT-ATATGA
1 TTTTGGTAATCTTTGAAATAATTTGGAT-ATCTTTTAATATAA
*
133815 TTTTGGTAATCTTTGAAATAATTTTGATATCTTTTAATATAA
1 TTTTGGTAATCTTTGAAATAATTTGGATATCTTTTAATATAA
*
133857 TTTTGATAATCTT
1 TTTTGGTAATCTT
133870 CATAATACTT
Statistics
Matches: 47, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 29 0.62
42 18 0.38
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.55
Consensus pattern (42 bp):
TTTTGGTAATCTTTGAAATAATTTGGATATCTTTTAATATAA
Found at i:133821 original size:21 final size:20
Alignment explanation
Indices: 133774--133869 Score: 95
Period size: 21 Copynumber: 4.7 Consensus size: 20
133764 TTTGGTAATC
133774 TTTTGGTAATCTTTTATATA
1 TTTTGGTAATCTTTTATATA
* *
133794 ATTTGGTAATGTTTTATATGA
1 TTTTGGTAATCTTTTATAT-A
* *
133815 TTTTGGTAATCTTTGAAATAA
1 TTTTGGTAATCTTTTATAT-A
*
133836 TTTTGAT-ATCTTTTAATATAA
1 TTTTGGTAATCTTTT-ATAT-A
*
133857 TTTTGATAATCTT
1 TTTTGGTAATCTT
133870 CATAATACTT
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
20 23 0.37
21 35 0.56
22 5 0.08
ACGTcount: A:0.29, C:0.04, G:0.11, T:0.55
Consensus pattern (20 bp):
TTTTGGTAATCTTTTATATA
Found at i:134389 original size:40 final size:38
Alignment explanation
Indices: 134344--134433 Score: 119
Period size: 40 Copynumber: 2.3 Consensus size: 38
134334 ATGTATAACC
134344 TTTTATCTTTTACTTAGGGTAAGA-TAGTAACTCTACAATT
1 TTTTATCTTTTACTTAGGGTAAGATTA-TAACTCTAC--TT
* *
134384 TTTTATCTTTTATTTAGGGTAAGATTATAATTCTACTT
1 TTTTATCTTTTACTTAGGGTAAGATTATAACTCTACTT
134422 TTATTATCTTTT
1 TT-TTATCTTTT
134434 GAGGTTAAGA
Statistics
Matches: 46, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
38 4 0.09
39 9 0.20
40 31 0.67
41 2 0.04
ACGTcount: A:0.27, C:0.10, G:0.10, T:0.53
Consensus pattern (38 bp):
TTTTATCTTTTACTTAGGGTAAGATTATAACTCTACTT
Found at i:134713 original size:62 final size:61
Alignment explanation
Indices: 134616--134737 Score: 172
Period size: 62 Copynumber: 2.0 Consensus size: 61
134606 TTAATTCTCT
* * * * **
134616 ACACAAAATGAACTACTTAAAGATGAATTAATTGAAGGATTTGGCTATAGACTCATTCTTCA
1 ACACAAAATAAACTACTAAAAGATAAAATAATTGAAGGATTCAGCTATAGACTCA-TCTTCA
*
134678 ACACAAAATAAACTACTAAAAGATAAAATAATTGAAGGATTCAGCTGTAGACTCATCTTC
1 ACACAAAATAAACTACTAAAAGATAAAATAATTGAAGGATTCAGCTATAGACTCATCTTC
134738 TTCTTAATTC
Statistics
Matches: 53, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
61 5 0.09
62 48 0.91
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.28
Consensus pattern (61 bp):
ACACAAAATAAACTACTAAAAGATAAAATAATTGAAGGATTCAGCTATAGACTCATCTTCA
Found at i:135296 original size:18 final size:18
Alignment explanation
Indices: 135273--135311 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
135263 TAAGTGGAAA
135273 TATTTAATATGATTTTGG
1 TATTTAATATGATTTTGG
135291 TATTTAATATGATTTTGG
1 TATTTAATATGATTTTGG
135309 TAT
1 TAT
135312 CCTTTTAGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.15, T:0.56
Consensus pattern (18 bp):
TATTTAATATGATTTTGG
Found at i:135400 original size:21 final size:21
Alignment explanation
Indices: 135359--135434 Score: 64
Period size: 21 Copynumber: 3.5 Consensus size: 21
135349 GGTAGCCTGA
*
135359 GATATAATTTTTA-TAATTTTT
1 GATATAA-TTTTAGTAACTTTT
*
135380 GATATAATTTTAGTTACTTTTTTT
1 GATATAATTTTAGTAAC---TTTT
* * *
135404 TATATAATTATGGTAACTTTT
1 GATATAATTTTAGTAACTTTT
135425 GATATAATTT
1 GATATAATTT
135435 ATAAGTAGTC
Statistics
Matches: 43, Mismatches: 8, Indels: 8
0.73 0.14 0.14
Matches are distributed among these distances:
20 5 0.12
21 21 0.49
24 17 0.40
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (21 bp):
GATATAATTTTAGTAACTTTT
Found at i:135422 original size:24 final size:24
Alignment explanation
Indices: 135375--135424 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
135365 ATTTTTATAA
* *
135375 TTTTTGATATAATTTTAGTTACTT
1 TTTTTGATATAATTATAGTAACTT
* *
135399 TTTTTTATATAATTATGGTAACTT
1 TTTTTGATATAATTATAGTAACTT
135423 TT
1 TT
135425 GATATAATTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.26, C:0.04, G:0.08, T:0.62
Consensus pattern (24 bp):
TTTTTGATATAATTATAGTAACTT
Found at i:135629 original size:21 final size:21
Alignment explanation
Indices: 135603--135658 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
135593 TTTGTAGTAA
*
135603 TTTGATAATTTTTTATATAGT
1 TTTGATAATTTTTTATATAAT
*
135624 TTTGATAATTTTTAATATAAT
1 TTTGATAATTTTTTATATAAT
*
135645 TTTGATATTTTTTT
1 TTTGATAATTTTTT
135659 TATTTTTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (21 bp):
TTTGATAATTTTTTATATAAT
Found at i:135672 original size:30 final size:30
Alignment explanation
Indices: 135632--135688 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
135622 GTTTTGATAA
* * *
135632 TTTTTAATATAATTTTGATATTTTTTTTAT
1 TTTTTAATATAAATCTGAAATTTTTTTTAT
*
135662 TTTTTTATATAAATCTGAAATTTTTTT
1 TTTTTAATATAAATCTGAAATTTTTTT
135689 ATATAATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.67
Consensus pattern (30 bp):
TTTTTAATATAAATCTGAAATTTTTTTTAT
Done.