Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold356
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: 432500
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
File 1 of 4
Found at i:31 original size:6 final size:6
Alignment explanation
Indices: 15--77 Score: 60
Period size: 6 Copynumber: 10.7 Consensus size: 6
5 CACCACACCA
* * *
15 CACCCC C-CCCC CACCCC C-CCCAC CACCAC C-TCCC CACCAC CACCCCC
1 CACCCC CACCCC CACCCC CACCC-C CACCCC CACCCC CACCCC CA-CCCC
62 CACCCC CACCCC CACC
1 CACCCC CACCCC CACC
78 TATTCTCCTG
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
5 11 0.24
6 28 0.61
7 7 0.15
ACGTcount: A:0.17, C:0.81, G:0.00, T:0.02
Consensus pattern (6 bp):
CACCCC
Found at i:54 original size:17 final size:15
Alignment explanation
Indices: 10--74 Score: 68
Period size: 13 Copynumber: 4.7 Consensus size: 15
1 ACCTCACCA
*
10 CACCACACCCCCC-C
1 CACCACCCCCCCCAC
24 C-CCACCCCCCCCAC
1 CACCACCCCCCCCAC
*
38 CACCA-CCTCCCCAC
1 CACCACCCCCCCCAC
52 CACCA--CCCCCCAC
1 CACCACCCCCCCCAC
*
65 CCCCACCCCC
1 CACCACCCCC
75 ACCTATTCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
13 21 0.49
14 16 0.37
15 6 0.14
ACGTcount: A:0.18, C:0.80, G:0.00, T:0.02
Consensus pattern (15 bp):
CACCACCCCCCCCAC
Found at i:214 original size:1 final size:1
Alignment explanation
Indices: 208--503 Score: 349
Period size: 1 Copynumber: 296.0 Consensus size: 1
198 GAGATATCCG
*** *
208 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCGTTCCCCCCCCCCCCCCCCCCCCCCCCCCCTC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* * * *
273 CCCCCTCCCCCCCCCTCCCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCACCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* * * ** * **** * * **
338 CCCCCCCCCCCCCCCGCCTCCACTGCACTTTACCCACCCCCCCCCCCCCCCTCCTTCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* ** *
403 CCTCCCCTACCCCCCCCCCCCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
*
468 CCCCCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
504 GTGCTGCCCT
Statistics
Matches: 253, Mismatches: 42, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
1 253 1.00
ACGTcount: A:0.02, C:0.91, G:0.01, T:0.06
Consensus pattern (1 bp):
C
Found at i:1069 original size:25 final size:25
Alignment explanation
Indices: 1035--1092 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
1025 TTTTTTTTTT
* * *
1035 CCCCCCCCCCGCCTGGTCGTCGCCC
1 CCCCCCCCCCCCCCGGTCGACGCCC
*
1060 CCCCCCCCCCCCCCGGTTGACGCCC
1 CCCCCCCCCCCCCCGGTCGACGCCC
1085 CCCCCCCC
1 CCCCCCCC
1093 GTTTTTTCTT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.02, C:0.74, G:0.16, T:0.09
Consensus pattern (25 bp):
CCCCCCCCCCCCCCGGTCGACGCCC
Found at i:1752 original size:9 final size:10
Alignment explanation
Indices: 1725--1762 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
1715 AATATCTTCT
*
1725 AAATATATAA
1 AAATATTTAA
1735 AAATATTTAA
1 AAATATTTAA
1745 AAAT-TTTAA
1 AAATATTTAA
*
1754 ATATATTTA
1 AAATATTTA
1763 TATTCAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
AAATATTTAA
Found at i:2117 original size:2 final size:2
Alignment explanation
Indices: 2110--2136 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
2100 TCATTGATAA
2110 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
2137 GGATTGCATC
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3249 original size:21 final size:22
Alignment explanation
Indices: 3216--3258 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
3206 TTATTTACCC
* *
3216 TTTTTTCGTATTTTTTTTAAAA
1 TTTTTTCGAATTTTATTTAAAA
3238 TTTTTTC-AATTTTATTTAAAA
1 TTTTTTCGAATTTTATTTAAAA
3259 ATAAAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (22 bp):
TTTTTTCGAATTTTATTTAAAA
Found at i:3259 original size:22 final size:22
Alignment explanation
Indices: 3216--3260 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
3206 TTATTTACCC
* *
3216 TTTTTTCGTATTTTTTTTAAAA
1 TTTTTTCGAATTTTTTTAAAAA
3238 TTTTTTC-AATTTTATTTAAAAA
1 TTTTTTCGAATTTT-TTTAAAAA
3260 T
1 T
3261 AAAAAAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.64
Consensus pattern (22 bp):
TTTTTTCGAATTTTTTTAAAAA
Found at i:3760 original size:17 final size:17
Alignment explanation
Indices: 3734--3777 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 17
3724 AACTTAAATA
* *
3734 TTAAACATATAATTTTT
1 TTAAAAATATAAATTTT
3751 TTAAAAATATAAATTTT
1 TTAAAAATATAAATTTT
3768 TTAAAAATAT
1 TTAAAAATAT
3778 TTTTTATTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAAAATATAAATTTT
Found at i:3859 original size:25 final size:26
Alignment explanation
Indices: 3830--3879 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
3820 AATTAAGAAT
*
3830 TATTTCC-TTTGTTATATTATTTTTG
1 TATTTCCATTTGTTATATGATTTTTG
* *
3855 TATTTCCATTTTTTCTATGATTTTT
1 TATTTCCATTTGTTATATGATTTTT
3880 TTTATTATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.16, C:0.10, G:0.06, T:0.68
Consensus pattern (26 bp):
TATTTCCATTTGTTATATGATTTTTG
Found at i:4593 original size:12 final size:13
Alignment explanation
Indices: 4569--4602 Score: 61
Period size: 12 Copynumber: 2.7 Consensus size: 13
4559 GATATTTTTT
4569 TTAAAATATTAAA
1 TTAAAATATTAAA
4582 TTAAAA-ATTAAA
1 TTAAAATATTAAA
4594 TTAAAATAT
1 TTAAAATAT
4603 AATGACAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 12 0.60
13 8 0.40
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (13 bp):
TTAAAATATTAAA
Found at i:7148 original size:11 final size:11
Alignment explanation
Indices: 7132--7180 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
7122 ATGTTTTCTG
7132 TTTTTCTTTTT
1 TTTTTCTTTTT
7143 TTTTTCTTTTT
1 TTTTTCTTTTT
* *
7154 CTTTTCCTCTTT
1 -TTTTTCTTTTT
*
7166 ATTTTCTTTTAT
1 TTTTTCTTTT-T
7178 TTT
1 TTT
7181 ATTAGAATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
11 18 0.60
12 12 0.40
ACGTcount: A:0.04, C:0.14, G:0.00, T:0.82
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:7207 original size:3 final size:3
Alignment explanation
Indices: 7199--7245 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
7189 AACTGGAATG
7199 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7246 ATTATTTATT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:7363 original size:8 final size:9
Alignment explanation
Indices: 7350--7384 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
7340 ATTTAGATAA
7350 TTTTT-ATT
1 TTTTTAATT
7358 TTTTTAATT
1 TTTTTAATT
7367 TTTTTAATT
1 TTTTTAATT
7376 TTTTTAATT
1 TTTTTAATT
7385 AAAATTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 5 0.19
9 21 0.81
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (9 bp):
TTTTTAATT
Found at i:7896 original size:27 final size:28
Alignment explanation
Indices: 7846--7913 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 28
7836 TTCGGTATGA
*
7846 ATATATTTAATATATTAAACTTTT-T-TT
1 ATATATTTAA-ATAATAAACTTTTATGTT
*
7873 ATATATTTAAATAATAATATTTTTATGTT
1 ATATATTTAAATAATAA-ACTTTTATGTT
*
7902 -TTTATTTAAATA
1 ATATATTTAAATA
7914 TATATTAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 6 0.17
27 15 0.43
28 12 0.34
29 2 0.06
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.57
Consensus pattern (28 bp):
ATATATTTAAATAATAAACTTTTATGTT
Found at i:8775 original size:20 final size:21
Alignment explanation
Indices: 8752--8798 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
8742 ATTTAATTTA
* *
8752 ATTTATAAATTTA-TATTATT
1 ATTTAAAAAATTACTATTATT
8772 ATTTAAAAAATTACTATTATT
1 ATTTAAAAAATTACTATTATT
8793 -TTTAAA
1 ATTTAAA
8799 TTAATATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 17 0.71
21 7 0.29
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTTAAAAAATTACTATTATT
Found at i:9958 original size:12 final size:12
Alignment explanation
Indices: 9926--9964 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
9916 TGATACAAAC
9926 ATAACATAAAAA
1 ATAACATAAAAA
* *
9938 ATAA-TTAAAAT
1 ATAACATAAAAA
9949 ATAACATAAAAA
1 ATAACATAAAAA
9961 ATAA
1 ATAA
9965 TATGAATATG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 9 0.41
12 13 0.59
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (12 bp):
ATAACATAAAAA
Found at i:10619 original size:2 final size:2
Alignment explanation
Indices: 10612--10642 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
10602 GATTGTATTC
10612 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 T
10643 TACAAAAGGA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:12961 original size:36 final size:36
Alignment explanation
Indices: 12914--12987 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
12904 TTTGTAGAGC
12914 ATACTAATTGTTACTCATCAGTAAATGTTGACTGCT
1 ATACTAATTGTTACTCATCAGTAAATGTTGACTGCT
12950 ATACTAATTGTTACTCATCAGTAAATGTTGACTGCT
1 ATACTAATTGTTACTCATCAGTAAATGTTGACTGCT
12986 AT
1 AT
12988 GATTCTATTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (36 bp):
ATACTAATTGTTACTCATCAGTAAATGTTGACTGCT
Found at i:19318 original size:13 final size:12
Alignment explanation
Indices: 19290--19332 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
19280 TTATATAAAT
*
19290 ATAAATATTATT
1 ATAAATATTATA
*
19302 ATAATTAATTATA
1 ATAAAT-ATTATA
19315 ATAAATATTAATA
1 ATAAATATT-ATA
19328 ATAAA
1 ATAAA
19333 AAATAAAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
12 8 0.31
13 18 0.69
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
ATAAATATTATA
Found at i:19326 original size:16 final size:16
Alignment explanation
Indices: 19305--19348 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
19295 TATTATTATA
*
19305 ATTAATTATAATAAAT
1 ATTAATTATAAAAAAT
*
19321 ATTAATAATAAAAAAT
1 ATTAATTATAAAAAAT
*
19337 A-AAATTATAAAA
1 ATTAATTATAAAA
19349 TATCTGTCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATTAATTATAAAAAAT
Found at i:25534 original size:27 final size:27
Alignment explanation
Indices: 25479--25531 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
25469 AAAAGTTATA
*
25479 TAATTAAATTAAATATTTTTTATTAAT
1 TAATTAAATTAAATATTTTTTAATAAT
* *
25506 TAATTATATTTAATATTTATTTAATA
1 TAATTAAATTAAATATTT-TTTAATA
25532 TTAGAAATCA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 16 0.73
28 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TAATTAAATTAAATATTTTTTAATAAT
Found at i:25890 original size:12 final size:12
Alignment explanation
Indices: 25873--25897 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
25863 ACCTATATTA
25873 ATTTAATTTTTT
1 ATTTAATTTTTT
25885 ATTTAATTTTTT
1 ATTTAATTTTTT
25897 A
1 A
25898 ATAATAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
ATTTAATTTTTT
Found at i:31049 original size:20 final size:21
Alignment explanation
Indices: 31024--31064 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
31014 ATATTTATTA
31024 TTTAAC-ATTAAAAGTATTTT
1 TTTAACGATTAAAAGTATTTT
* *
31044 TTTAACGTTTAAAATTATTTT
1 TTTAACGATTAAAAGTATTTT
31065 AATTTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.37, C:0.05, G:0.05, T:0.54
Consensus pattern (21 bp):
TTTAACGATTAAAAGTATTTT
Found at i:33090 original size:21 final size:22
Alignment explanation
Indices: 33066--33109 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
33056 TTAGTTTGGG
33066 TTTAAATAAA-AATAATTTTTT
1 TTTAAATAAATAATAATTTTTT
* *
33087 TTTAATTAAATATTAATTTTTT
1 TTTAAATAAATAATAATTTTTT
33109 T
1 T
33110 GGTTAAGCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTTAAATAAATAATAATTTTTT
Found at i:33535 original size:13 final size:14
Alignment explanation
Indices: 33510--33543 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
33500 AACTCTTCAT
33510 TTTA-ATTTAAATA
1 TTTATATTTAAATA
33523 TTTATATTT-AATA
1 TTTATATTTAAATA
33536 TTTATATT
1 TTTATATT
33544 AAAAATATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 16 0.80
14 4 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTATATTTAAATA
Found at i:34719 original size:19 final size:18
Alignment explanation
Indices: 34692--34730 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
34682 TTAATTTTTT
*
34692 AAATTTATATTATTTAATA
1 AAATATATATT-TTTAATA
*
34711 AAATATATATTTTTATTA
1 AAATATATATTTTTAATA
34729 AA
1 AA
34731 TATTTAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
AAATATATATTTTTAATA
Found at i:34731 original size:17 final size:17
Alignment explanation
Indices: 34686--34733 Score: 53
Period size: 17 Copynumber: 2.8 Consensus size: 17
34676 AAATTTTTAA
*
34686 TTTT-TTAAATTTATAT
1 TTTTATTAAATATATAT
*
34702 TATTTAATAAAATATATAT
1 T-TTT-ATTAAATATATAT
34721 TTTTATTAAATAT
1 TTTTATTAAATAT
34734 TTAATATTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 1 0.04
17 11 0.42
18 3 0.12
19 11 0.42
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTTATTAAATATATAT
Found at i:34743 original size:14 final size:14
Alignment explanation
Indices: 34724--34772 Score: 53
Period size: 14 Copynumber: 3.3 Consensus size: 14
34714 TATATATTTT
34724 TATTAAATATTTAA
1 TATTAAATATTTAA
34738 TATTAAATTATTATTAA
1 TATTAAA-TA-T-TTAA
* *
34755 AATTATATATTTAA
1 TATTAAATATTTAA
34769 TATT
1 TATT
34773 TATAATTTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
14 14 0.48
15 3 0.10
16 3 0.10
17 9 0.31
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTAAATATTTAA
Found at i:37328 original size:34 final size:34
Alignment explanation
Indices: 37264--37446 Score: 242
Period size: 34 Copynumber: 5.4 Consensus size: 34
37254 ATTCTTGATC
* *
37264 TGTTGATTAAAT-GGTGATTTGGTAGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* *
37297 TGTTGACTAAATGGGAAATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
**
37331 TGTTGATTAAAAAGGAGATTTGGTAGCTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * * *
37365 TATTGATTAAATGGGTGATTTGGTGGTTTACCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
* * *
37399 TGTTGACTAAATGGGAGATTTGGTAGGTTGCCAT
1 TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
37433 TGTTGATTAAATGG
1 TGTTGATTAAATGG
37447 TGGTTTTTAC
Statistics
Matches: 128, Mismatches: 21, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
33 11 0.09
34 117 0.91
ACGTcount: A:0.27, C:0.08, G:0.26, T:0.39
Consensus pattern (34 bp):
TGTTGATTAAATGGGAGATTTGGTAGCTTACCAT
Found at i:37803 original size:19 final size:19
Alignment explanation
Indices: 37747--37809 Score: 90
Period size: 19 Copynumber: 3.3 Consensus size: 19
37737 TGGTTGTCGA
**
37747 GGTACTATTCACGTATATA
1 GGTACTATTCACGTATACG
37766 GGTACTATTCACGTATACG
1 GGTACTATTCACGTATACG
*
37785 GGTACTATTCAAGTATACG
1 GGTACTATTCACGTATACG
*
37804 GTTACT
1 GGTACT
37810 GTACACGTGA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 40 1.00
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (19 bp):
GGTACTATTCACGTATACG
Found at i:41941 original size:34 final size:34
Alignment explanation
Indices: 41875--42059 Score: 255
Period size: 34 Copynumber: 5.5 Consensus size: 34
41865 AAGTGGGAGA
* *
41875 ATTGTTGATTAAAT-GGTGATTTGGTAGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* *
41908 ATTGTTGACTAAATGGGAAATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
*
41942 ATTGTTGATTAAAAGGGAGATTTGGTAGCTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * * *
41976 ATTATTGATTAAATGGGTGATTTGGTGGTTTACC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
* * *
42010 ATTGTTGACTAAATGGGAGATTTGGTAGGTTGCC
1 ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
42044 ATTGTTGATTAAATGG
1 ATTGTTGATTAAATGG
42060 TGGTTTTTAC
Statistics
Matches: 132, Mismatches: 19, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
33 13 0.10
34 119 0.90
ACGTcount: A:0.26, C:0.08, G:0.26, T:0.39
Consensus pattern (34 bp):
ATTGTTGATTAAATGGGAGATTTGGTAGCTTACC
Found at i:43917 original size:2 final size:2
Alignment explanation
Indices: 43910--43934 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
43900 CTCAATCTTT
43910 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
43935 TGTTGGGTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:44698 original size:20 final size:20
Alignment explanation
Indices: 44631--44697 Score: 62
Period size: 20 Copynumber: 3.0 Consensus size: 20
44621 ATTTTGTCAT
44631 AATTATAATATTAAATAATTTAAA
1 AATTATAAT-TT-AAT-ATTT-AA
* *
44655 ATATTTTAATTTAATGTTTAA
1 A-ATTATAATTTAATATTTAA
44676 AATTATAATTTAATATCTTAA
1 AATTATAATTTAATAT-TTAA
44697 A
1 A
44698 TAAAATAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
20 13 0.35
21 8 0.22
22 3 0.08
23 3 0.08
24 3 0.08
25 7 0.19
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (20 bp):
AATTATAATTTAATATTTAA
Found at i:44982 original size:23 final size:23
Alignment explanation
Indices: 44941--44986 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
44931 GATCTAATTG
44941 ATTTTTAATTATAATATATATTA
1 ATTTTTAATTATAATATATATTA
*
44964 ATTTTATATTTATAA-ATATATTA
1 ATTTT-TAATTATAATATATATTA
44987 TGTAATTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 13 0.62
24 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTTTAATTATAATATATATTA
Found at i:44984 original size:27 final size:28
Alignment explanation
Indices: 44954--45036 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 28
44944 TTTAATTATA
44954 ATATATAT-TAATTTTATATTTATAAAT
1 ATATATATATAATTTTATATTTATAAAT
* *
44981 ATAT-TATGTAA-TTTATATTTCATAAAG
1 ATATATATATAATTTTATATTT-ATAAAT
* * *
45008 ATAAATATATAATATTATA-TTATTAAT
1 ATATATATATAATTTTATATTTATAAAT
45035 AT
1 AT
45037 TAAAAATAAA
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
26 12 0.26
27 21 0.46
28 8 0.17
29 5 0.11
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (28 bp):
ATATATATATAATTTTATATTTATAAAT
Found at i:46444 original size:17 final size:16
Alignment explanation
Indices: 46424--46474 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
46414 TAATTTTTTA
46424 TATTATTTGATTTAAAT
1 TATTATTT-ATTTAAAT
*
46441 TATTATTTATTAATAAAA
1 TATTATTTATT--TAAAT
46459 TATT-TTTATTTAAAT
1 TATTATTTATTTAAAT
46474 T
1 T
46475 TAATTATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
15 5 0.17
16 3 0.10
17 14 0.47
18 8 0.27
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (16 bp):
TATTATTTATTTAAAT
Found at i:47351 original size:9 final size:9
Alignment explanation
Indices: 47337--47362 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
47327 ATAAAAATAT
47337 TTTTTAAAA
1 TTTTTAAAA
47346 TTTTTAAAA
1 TTTTTAAAA
47355 TTTTTAAA
1 TTTTTAAA
47363 TAATAATTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:47671 original size:21 final size:21
Alignment explanation
Indices: 47647--47690 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
47637 AAAATCATAG
* *
47647 ATAATTAATAATTATTTATAA
1 ATAATAAAAAATTATTTATAA
*
47668 ATAATAAAAAATTATTTTTAA
1 ATAATAAAAAATTATTTATAA
47689 AT
1 AT
47691 GTTTTAAAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (21 bp):
ATAATAAAAAATTATTTATAA
Found at i:47808 original size:33 final size:33
Alignment explanation
Indices: 47757--47819 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
47747 AAATTTTGAT
47757 AATGATATTCATTCTTAATATTATTAAATTAAA
1 AATGATATTCATTCTTAATATTATTAAATTAAA
*
47790 AATGATATTTA-TCTTTAATATTATTAAATT
1 AATGATATTCATTC-TTAATATTATTAAATT
47820 CAAGATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 2 0.07
33 26 0.93
ACGTcount: A:0.43, C:0.05, G:0.03, T:0.49
Consensus pattern (33 bp):
AATGATATTCATTCTTAATATTATTAAATTAAA
Found at i:47956 original size:15 final size:17
Alignment explanation
Indices: 47928--47960 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
47918 ATCAAAATTT
47928 ATATAAATATAATTATA
1 ATATAAATATAATTATA
47945 ATATAAA-A-AATTATA
1 ATATAAATATAATTATA
47960 A
1 A
47961 ACTAACAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 1 0.06
17 7 0.44
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATATAAATATAATTATA
Found at i:48393 original size:3 final size:3
Alignment explanation
Indices: 48385--48411 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
48375 TCTTAGTTGT
48385 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
48412 CTTTCTTGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:48596 original size:9 final size:9
Alignment explanation
Indices: 48573--48606 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
48563 AAAAAAGTCG
*
48573 TATTTAAAA
1 TATTAAAAA
48582 -ATTAAAAA
1 TATTAAAAA
48590 TATTAAAAA
1 TATTAAAAA
48599 TATTAAAA
1 TATTAAAA
48607 TTAAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
8 7 0.30
9 16 0.70
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (9 bp):
TATTAAAAA
Found at i:48598 original size:17 final size:18
Alignment explanation
Indices: 48573--48606 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
48563 AAAAAAGTCG
*
48573 TATTTAAAA-ATTAAAAA
1 TATTAAAAATATTAAAAA
48590 TATTAAAAATATTAAAA
1 TATTAAAAATATTAAAA
48607 TTAAAATTAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (18 bp):
TATTAAAAATATTAAAAA
Found at i:48821 original size:19 final size:19
Alignment explanation
Indices: 48784--48834 Score: 50
Period size: 19 Copynumber: 2.7 Consensus size: 19
48774 GAATCAAGTA
* **
48784 TTAAATATAATTTTTTAAT
1 TTAAATATTATTTAATAAT
48803 TTAAATATTATTTAATAAT
1 TTAAATATTATTTAATAAT
**
48822 AAAAATATT-TTTA
1 TTAAATATTATTTA
48835 TTTAATTTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
18 4 0.15
19 23 0.85
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TTAAATATTATTTAATAAT
Found at i:48828 original size:38 final size:36
Alignment explanation
Indices: 48786--48870 Score: 86
Period size: 38 Copynumber: 2.3 Consensus size: 36
48776 ATCAAGTATT
*
48786 AAATATAATTTTTTAATTTAAATATTATTTAATAATA-A
1 AAATATAATTTTTTAATTT-AA-ATTA-TAAATAATATA
* *
48824 AAATAT-TTTTATTTAATTTTAATTATAAATAATATA
1 AAATATAATTT-TTTAATTTAAATTATAAATAATATA
48860 AAA-ATAATTTT
1 AAATATAATTTT
48871 ATAAATTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
35 11 0.28
36 11 0.28
37 4 0.10
38 14 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (36 bp):
AAATATAATTTTTTAATTTAAATTATAAATAATATA
Found at i:49630 original size:15 final size:16
Alignment explanation
Indices: 49582--49641 Score: 52
Period size: 16 Copynumber: 3.8 Consensus size: 16
49572 TTAAAATATA
*
49582 TAAT-TATATCAAAAT
1 TAATATATATAAAAAT
* *
49597 TTATATATATAAATTAT
1 TAATATATATAAA-AAT
49614 TAATATA-ATAAAAAT
1 TAATATATATAAAAAT
*
49629 TATACATATATAA
1 TA-ATATATATAA
49642 TATTTTAAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
15 7 0.20
16 16 0.46
17 12 0.34
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TAATATATATAAAAAT
Found at i:49638 original size:31 final size:34
Alignment explanation
Indices: 49576--49696 Score: 87
Period size: 33 Copynumber: 3.7 Consensus size: 34
49566 AACGTCTTAA
* * *
49576 AATATA-TAATTAT-ATCAAAATT-TATATATAT
1 AATATATTAAATATAATAAAAATTATACATATAT
49607 AA-ATTATT-AATATAATAAAAATTATACATATAT
1 AATA-TATTAAATATAATAAAAATTATACATATAT
* * * * *
49640 AATATTTTAAATATAATTATAA-TATAAAAATAT
1 AATATATTAAATATAATAAAAATTATACATATAT
*
49673 TATATA-TAAATAT-ATAAATAATTA
1 AATATATTAAATATAATAAA-AATTA
49697 AATTTAATTA
Statistics
Matches: 70, Mismatches: 12, Indels: 14
0.73 0.12 0.15
Matches are distributed among these distances:
30 1 0.01
31 11 0.16
32 18 0.26
33 28 0.40
34 12 0.17
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (34 bp):
AATATATTAAATATAATAAAAATTATACATATAT
Found at i:49691 original size:40 final size:43
Alignment explanation
Indices: 49583--49692 Score: 111
Period size: 45 Copynumber: 2.5 Consensus size: 43
49573 TAAAATATAT
* *
49583 AATTATATCA-AAATTTATATATATAAATTATTAATATAATAAA
1 AATTATAT-ATAAATATATAAATATAAATTATTAATATAATAAA
*
49626 AATTATACATATATAATATTTTAAATAT-AATTA-TAATATAA-AAA
1 AATTAT--ATATA-AATA-TATAAATATAAATTATTAATATAATAAA
*
49670 TATTATATATAAATATATAAATA
1 AATTATATATAAATATATAAATA
49693 ATTAAATTTA
Statistics
Matches: 57, Mismatches: 5, Indels: 13
0.76 0.07 0.17
Matches are distributed among these distances:
40 7 0.12
41 4 0.07
42 5 0.09
43 6 0.11
44 9 0.16
45 11 0.19
46 8 0.14
47 7 0.12
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (43 bp):
AATTATATATAAATATATAAATATAAATTATTAATATAATAAA
Found at i:50052 original size:47 final size:48
Alignment explanation
Indices: 49961--50053 Score: 118
Period size: 47 Copynumber: 2.0 Consensus size: 48
49951 AATAATATTA
* ***
49961 AAATAATAATTTTATAATTAAATTTTTATAAAATTATTTTTAATTAAT
1 AAATAATAATTTTATAATTAAATTATTATAAAATTATAAATAATTAAT
*
50009 AAATCATAATTTTA-AATTAAATTAATT-TAAAATTATAAATAATTA
1 AAATAATAATTTTATAATTAAATT-ATTATAAAATTATAAATAATTA
50054 TATTTAAATT
Statistics
Matches: 39, Mismatches: 5, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
47 24 0.62
48 15 0.38
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (48 bp):
AAATAATAATTTTATAATTAAATTATTATAAAATTATAAATAATTAAT
Found at i:50595 original size:14 final size:14
Alignment explanation
Indices: 50578--50614 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
50568 TAAAAAATAT
50578 AAAATAAATGAAAC
1 AAAATAAATGAAAC
* *
50592 AAAAAAAATGAAAT
1 AAAATAAATGAAAC
50606 AAAATAAAT
1 AAAATAAAT
50615 CATGTCAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (14 bp):
AAAATAAATGAAAC
Found at i:51280 original size:18 final size:19
Alignment explanation
Indices: 51253--51305 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
51243 GAAACTAGAG
51253 ATAA-TTGAAATTATT-AA
1 ATAACTTGAAATTATTGAA
51270 ATAACTTGAAATTATTTGAA
1 ATAACTTGAAATTA-TTGAA
*
51290 AAAAC-TGAAATTATTG
1 ATAACTTGAAATTATTG
51306 CAGGATTTTA
Statistics
Matches: 32, Mismatches: 1, Indels: 5
0.84 0.03 0.13
Matches are distributed among these distances:
17 4 0.12
18 12 0.38
19 10 0.31
20 6 0.19
ACGTcount: A:0.49, C:0.04, G:0.09, T:0.38
Consensus pattern (19 bp):
ATAACTTGAAATTATTGAA
Found at i:51300 original size:19 final size:19
Alignment explanation
Indices: 51257--51304 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
51247 CTAGAGATAA
*
51257 TTGAAATTA-TTAAATAAC
1 TTGAAATTATTTAAAAAAC
51275 TTGAAATTATTTGAAAAAAC
1 TTGAAATTATTT-AAAAAAC
51295 -TGAAATTATT
1 TTGAAATTATT
51305 GCAGGATTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 9 0.33
19 12 0.44
20 6 0.22
ACGTcount: A:0.48, C:0.04, G:0.08, T:0.40
Consensus pattern (19 bp):
TTGAAATTATTTAAAAAAC
Found at i:51446 original size:44 final size:44
Alignment explanation
Indices: 51383--51473 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
51373 TGAAAGTTCA
* * * *
51383 TTTGCTTAGTTTTTCAGTGCTTCCTGGGACATTGTTAGGAGCAG
1 TTTGCATAGTTTTTCAGTGCCTCCTGAGACATTGGTAGGAGCAG
51427 TTTGCATAGTTTTTCAGTGCCTCCTGAGACATTGGTAGGAGCAG
1 TTTGCATAGTTTTTCAGTGCCTCCTGAGACATTGGTAGGAGCAG
51471 TTT
1 TTT
51474 CGATAACCTG
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.18, C:0.16, G:0.26, T:0.40
Consensus pattern (44 bp):
TTTGCATAGTTTTTCAGTGCCTCCTGAGACATTGGTAGGAGCAG
Found at i:67033 original size:66 final size:66
Alignment explanation
Indices: 66960--67632 Score: 987
Period size: 66 Copynumber: 10.2 Consensus size: 66
66950 GTTCATGAGC
66960 ATGCTCCACATCTCTGTTAGTATCAATGGCAGAGGCAGA-TAGAGTGCCCAAATTCTGTTCATCA
1 ATGCTCCACATCTCTGTTAGTATCAATGGCAGAGGCAGACT-GAGTGCCCAAATTCTGTTCATCA
67024 AT
65 AT
* * * *
67026 ATGCTCCACATCTCTGTTAGTATCAATGGCAGAGGCCGACTGATTGTCCAAATTCTGTTCATCAG
1 ATGCTCCACATCTCTGTTAGTATCAATGGCAGAGGCAGACTGAGTGCCCAAATTCTGTTCATCAA
67091 T
66 T
* * * * *
67092 AGGCTCCACATCTCTGTTAGCATCAATGGTAGAGGCAGACTGAGCGCTCAAATTCTGTTCATCAA
1 ATGCTCCACATCTCTGTTAGTATCAATGGCAGAGGCAGACTGAGTGCCCAAATTCTGTTCATCAA
67157 T
66 T
* *
67158 ATGCTCCACATCTCTGTTAGCATCAATGGCGGAGGCAGACTGAGTGCCCAAATTCTGTTCATCAA
1 ATGCTCCACATCTCTGTTAGTATCAATGGCAGAGGCAGACTGAGTGCCCAAATTCTGTTCATCAA
67223 T
66 T
* * * * * *
67224 ATGGTCCACATCCCTGTTAGGATCAATAGCACAGGCAGA-TAGAGTGCCCAAATTCTTTTCATCA
1 ATGCTCCACATCTCTGTTAGTATCAATGGCAGAGGCAGACT-GAGTGCCCAAATTCTGTTCATCA
67288 AT
65 AT
*
67290 ATACTCCACATCTCTGTTAGTATCAATGGCAGAGGCAGACTGAGTGCCCAAATTCTGTTCATCAA
1 ATGCTCCACATCTCTGTTAGTATCAATGGCAGAGGCAGACTGAGTGCCCAAATTCTGTTCATCAA
67355 T
66 T
* * * *
67356 ATGCTCCACATCCCTGTTAGTATCAATAGCACAGGCAGA-TAGAGTGCCCAAATTCTTTTCATCA
1 ATGCTCCACATCTCTGTTAGTATCAATGGCAGAGGCAGACT-GAGTGCCCAAATTCTGTTCATCA
67420 AT
65 AT
* *
67422 A-GACTCCACATTTCTGTTAGTATCAATGGCGGAGGCAGACTGAGTGCCCAAATTCTGTTCATCA
1 ATG-CTCCACATCTCTGTTAGTATCAATGGCAGAGGCAGACTGAGTGCCCAAATTCTGTTCATCA
67486 AT
65 AT
* * ** *
67488 ATGCTCCACATCCCTGTTACTATCAACAGCAGAGGCAGA-TAGAGTGCCCAAATTCTTTTCATCA
1 ATGCTCCACATCTCTGTTAGTATCAATGGCAGAGGCAGACT-GAGTGCCCAAATTCTGTTCATCA
67552 AT
65 AT
* *
67554 ATGCTCCACATTTCTGTTAGTATCAATGGCAGAGGCTGACTGAGTGCCCAAATTCTGTTCATCAA
1 ATGCTCCACATCTCTGTTAGTATCAATGGCAGAGGCAGACTGAGTGCCCAAATTCTGTTCATCAA
67619 T
66 T
67620 ATGCTCCACATCT
1 ATGCTCCACATCT
67633 ACCCTAGTGT
Statistics
Matches: 540, Mismatches: 58, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
65 4 0.01
66 531 0.98
67 5 0.01
ACGTcount: A:0.28, C:0.25, G:0.19, T:0.29
Consensus pattern (66 bp):
ATGCTCCACATCTCTGTTAGTATCAATGGCAGAGGCAGACTGAGTGCCCAAATTCTGTTCATCAA
T
Found at i:71689 original size:19 final size:19
Alignment explanation
Indices: 71665--71709 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
71655 CAATCGAGAT
* *
71665 TATTTTTTTATAATATTTA
1 TATTTTTTAATAATAGTTA
*
71684 TATTTTATAATAATAGTTA
1 TATTTTTTAATAATAGTTA
*
71703 TAATTTT
1 TATTTTT
71710 ATTTTATTAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
TATTTTTTAATAATAGTTA
Found at i:71710 original size:20 final size:19
Alignment explanation
Indices: 71674--71711 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
71664 TTATTTTTTT
*
71674 ATAATATTTATATTTTATA
1 ATAATAGTTATATTTTATA
71693 ATAATAGTTATAATTTTAT
1 ATAATAGTTAT-ATTTTAT
71712 TTTATTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (19 bp):
ATAATAGTTATATTTTATA
Found at i:72595 original size:22 final size:21
Alignment explanation
Indices: 72557--72598 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
72547 AATTTTTATT
72557 TAAATTTAATTATAAAATATA
1 TAAATTTAATTATAAAATATA
72578 TAAATATTAA-TATAAAA-ATA
1 TAAAT-TTAATTATAAAATATA
72598 T
1 T
72599 TTTTTAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTTAATTATAAAATATA
Found at i:72891 original size:2 final size:2
Alignment explanation
Indices: 72884--72921 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
72874 AACATAGGAA
72884 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72922 GCAAGTTTTG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:78335 original size:30 final size:30
Alignment explanation
Indices: 78299--78359 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
78289 CCGATTCCAA
78299 GTAACATAAGAGTGAAATATACACAAACAG
1 GTAACATAAGAGTGAAATATACACAAACAG
78329 GTAACATAAGAGTGAAATATACACAAACAG
1 GTAACATAAGAGTGAAATATACACAAACAG
78359 G
1 G
78360 CACGGTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.52, C:0.13, G:0.18, T:0.16
Consensus pattern (30 bp):
GTAACATAAGAGTGAAATATACACAAACAG
Found at i:78992 original size:19 final size:20
Alignment explanation
Indices: 78965--79007 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
78955 CTCCATAGGG
78965 AAAAAGAAATACA-A-AATCC
1 AAAAAGAAATA-ATAGAATCC
*
78984 AAAACGAAATAATAGAATCC
1 AAAAAGAAATAATAGAATCC
79004 AAAA
1 AAAA
79008 TTAGAACATA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 1 0.05
19 11 0.52
20 9 0.43
ACGTcount: A:0.67, C:0.14, G:0.07, T:0.12
Consensus pattern (20 bp):
AAAAAGAAATAATAGAATCC
Found at i:81209 original size:3 final size:3
Alignment explanation
Indices: 81125--81194 Score: 140
Period size: 3 Copynumber: 23.3 Consensus size: 3
81115 TATTCAAGTT
81125 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
81173 TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA T
81195 CCATAAGTAT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 67 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:81252 original size:19 final size:20
Alignment explanation
Indices: 81228--81266 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
81218 TCCATTTTAG
*
81228 CAAAAATTAT-TACAATTTT
1 CAAAAAATATATACAATTTT
*
81247 CAAAAAATATATATAATTTT
1 CAAAAAATATATACAATTTT
81267 AGTGATTAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.51, C:0.08, G:0.00, T:0.41
Consensus pattern (20 bp):
CAAAAAATATATACAATTTT
Found at i:82431 original size:14 final size:14
Alignment explanation
Indices: 82409--82440 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
82399 TAATTTAAAC
82409 ATAAT-AAAATTAT
1 ATAATAAAAATTAT
82422 ATAATAAAAATTAT
1 ATAATAAAAATTAT
82436 -TAATA
1 ATAATA
82441 TATTAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
ATAATAAAAATTAT
Found at i:82464 original size:17 final size:16
Alignment explanation
Indices: 82412--82466 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 16
82402 TTTAAACATA
82412 ATAAAATTATA-TAAT
1 ATAAAATTATATTAAT
*
82427 A-AAAATTAT-TAATAT
1 ATAAAATTATATTA-AT
82442 ATTAAAATTTATATTAAT
1 A-TAAAA-TTATATTAAT
82460 ATAAAAT
1 ATAAAAT
82467 ATTTACGACA
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
14 9 0.28
15 4 0.12
16 1 0.03
17 9 0.28
18 7 0.22
19 2 0.06
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATAAAATTATATTAAT
Found at i:82581 original size:6 final size:6
Alignment explanation
Indices: 82563--82592 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
82553 CCAAAAAAAC
82563 TTTAAA TTTTAAA TTTAAA TTTAAA TTTAA
1 TTTAAA -TTTAAA TTTAAA TTTAAA TTTAA
82593 CTCAGTTTCG
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:83814 original size:18 final size:19
Alignment explanation
Indices: 83783--83818 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
83773 TATTTAATTT
83783 TTATATTGAGTTTATTCAA
1 TTATATTGAGTTTATTCAA
83802 TTATATTGA-TTTATTCA
1 TTATATTGAGTTTATTCA
83819 TTTGTTGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (19 bp):
TTATATTGAGTTTATTCAA
Found at i:85227 original size:2 final size:2
Alignment explanation
Indices: 85220--85251 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
85210 ACAATACAAC
85220 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
85252 GCAATAAAAG
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):
TA
Found at i:88831 original size:14 final size:14
Alignment explanation
Indices: 88812--88842 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
88802 TTAATAAAAA
*
88812 ATTAATATTTTTAT
1 ATTAATATTTATAT
88826 ATTAATATTTATAT
1 ATTAATATTTATAT
88840 ATT
1 ATT
88843 TTATAATTCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (14 bp):
ATTAATATTTATAT
Found at i:88856 original size:21 final size:19
Alignment explanation
Indices: 88810--88857 Score: 51
Period size: 21 Copynumber: 2.4 Consensus size: 19
88800 AATTAATAAA
*
88810 AAATTAATATTTTTATATT
1 AAATTTATATTTTTATATT
88829 AATATTTATATATTTTATAATT
1 AA-ATTTATAT-TTTTAT-ATT
*
88851 CAATTTA
1 AAATTTA
88858 AATAAAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
19 2 0.08
20 7 0.29
21 11 0.46
22 4 0.17
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (19 bp):
AAATTTATATTTTTATATT
Found at i:90261 original size:30 final size:28
Alignment explanation
Indices: 90218--90277 Score: 84
Period size: 30 Copynumber: 2.1 Consensus size: 28
90208 TTAAATTGAA
90218 TTTTATTTTTAATTCGATTCAATTTAAT
1 TTTTATTTTTAATTCGATTCAATTTAAT
* *
90246 TTTTATATATTTAATTTGATTTAATTTAAT
1 TTTTAT-T-TTTAATTCGATTCAATTTAAT
90276 TT
1 TT
90278 AATTTAATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 6 0.21
29 1 0.04
30 21 0.75
ACGTcount: A:0.30, C:0.03, G:0.03, T:0.63
Consensus pattern (28 bp):
TTTTATTTTTAATTCGATTCAATTTAAT
Found at i:90262 original size:5 final size:5
Alignment explanation
Indices: 90254--90287 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
90244 ATTTTTATAT
*
90254 ATTTA ATTTG ATTTA ATTTA ATTTA ATTTA ATTT
1 ATTTA ATTTA ATTTA ATTTA ATTTA ATTTA ATTT
90288 TTATATAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (5 bp):
ATTTA
Found at i:90272 original size:15 final size:15
Alignment explanation
Indices: 90225--90287 Score: 67
Period size: 15 Copynumber: 4.2 Consensus size: 15
90215 GAATTTTATT
* *
90225 TTTAATTCGATTCAA
1 TTTAATTTGATTTAA
90240 TTTAATTT--TTATATA
1 TTTAATTTGATT-TA-A
90255 TTTAATTTGATTTAA
1 TTTAATTTGATTTAA
*
90270 TTTAATTTAATTTAA
1 TTTAATTTGATTTAA
90285 TTT
1 TTT
90288 TTATATAAAT
Statistics
Matches: 41, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
13 2 0.05
14 1 0.02
15 34 0.83
16 2 0.05
17 2 0.05
ACGTcount: A:0.33, C:0.03, G:0.03, T:0.60
Consensus pattern (15 bp):
TTTAATTTGATTTAA
Found at i:90318 original size:40 final size:38
Alignment explanation
Indices: 90225--90321 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 38
90215 GAATTTTATT
* *
90225 TTTAATTCGATTCAATTTAATTTTTATATATTTAATTTGA
1 TTTAATTTGATTTAATTTAATTTTTATATA--TAATTTGA
*
90265 TTTAATTTAATTTAATTTAATTTTTATATA-AA-TTGAA
1 TTTAATTTGATTTAATTTAATTTTTATATATAATTTG-A
90302 TTATAATGTTTGATTTAATT
1 TT-TAA--TTTGATTTAATT
90322 CGATTTTAAT
Statistics
Matches: 49, Mismatches: 4, Indels: 8
0.80 0.07 0.13
Matches are distributed among these distances:
36 3 0.06
37 5 0.10
38 3 0.06
40 38 0.78
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (38 bp):
TTTAATTTGATTTAATTTAATTTTTATATATAATTTGA
Found at i:92686 original size:18 final size:18
Alignment explanation
Indices: 92643--92693 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 18
92633 TTAATTTTAG
* * *
92643 ATATAACAACAAAAAAAA
1 ATATAAAAACATAATAAA
*
92661 ATCT-AAAACATAATAAA
1 ATATAAAAACATAATAAA
*
92678 ATATAAAAAAATAATA
1 ATATAAAAACATAATA
92694 TGAATACGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
17 13 0.50
18 13 0.50
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.20
Consensus pattern (18 bp):
ATATAAAAACATAATAAA
Found at i:92770 original size:14 final size:14
Alignment explanation
Indices: 92729--92808 Score: 53
Period size: 13 Copynumber: 5.9 Consensus size: 14
92719 AAAATTTATA
*
92729 TAATA-AAAATGAT
1 TAATATAAAATAAT
*
92742 TAATATTTAAA-AAT
1 TAATA-TAAAATAAT
*
92756 TTATATAAAATAAT
1 TAATATAAAATAAT
92770 TAATATAAAA-AAT
1 TAATATAAAATAAT
*
92783 ATGAT-TAAAAT-AT
1 -TAATATAAAATAAT
* *
92796 AAATATAATATAA
1 TAATATAAAATAA
92809 ATATAATATG
Statistics
Matches: 51, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
12 2 0.04
13 24 0.47
14 22 0.43
15 3 0.06
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (14 bp):
TAATATAAAATAAT
Found at i:92801 original size:17 final size:18
Alignment explanation
Indices: 92779--92822 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
92769 TTAATATAAA
*
92779 AAATATGATTA-AAATAT
1 AAATATGAATATAAATAT
92796 AAATAT-AATATAAATAT
1 AAATATGAATATAAATAT
92813 -AATATGAATA
1 AAATATGAATA
92823 CTACCTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 8 0.33
17 16 0.67
ACGTcount: A:0.61, C:0.00, G:0.05, T:0.34
Consensus pattern (18 bp):
AAATATGAATATAAATAT
Found at i:92805 original size:11 final size:11
Alignment explanation
Indices: 92758--92822 Score: 57
Period size: 11 Copynumber: 6.3 Consensus size: 11
92748 TTAAAAATTT
*
92758 ATATAAAAT-A
1 ATATAATATAA
92768 AT-TAATATAA
1 ATATAATATAA
*
92778 A-A-AATATGA
1 ATATAATATAA
* *
92787 TTAAAATATAA
1 ATATAATATAA
92798 ATATAATATAA
1 ATATAATATAA
*
92809 ATATAATATGA
1 ATATAATATAA
92820 ATA
1 ATA
92823 CTACCTAAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
9 11 0.25
10 5 0.11
11 28 0.64
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (11 bp):
ATATAATATAA
Found at i:92815 original size:46 final size:46
Alignment explanation
Indices: 92721--92815 Score: 113
Period size: 46 Copynumber: 2.1 Consensus size: 46
92711 TATAGATTAA
* * * *
92721 AATTTATATAATAAAAATGATTAATATTTAAAAATTTATATAAAAT
1 AATTAATATAATAAAAATGATTAAAATATAAAAATTAATATAAAAT
*
92767 AATTAATATAA-AAAATATGATTAAAATATAAATA-TAATATAAATAT
1 AATTAATATAATAAAA-ATGATTAAAATATAAAAATTAATATAAA-AT
92813 AAT
1 AAT
92816 ATGAATACTA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
45 12 0.29
46 30 0.71
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (46 bp):
AATTAATATAATAAAAATGATTAAAATATAAAAATTAATATAAAAT
Found at i:93380 original size:19 final size:19
Alignment explanation
Indices: 93356--93394 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
93346 ATAATATTTT
* *
93356 AAATATAATTATGATATAA
1 AAATATAAATATAATATAA
93375 AAATATAAATATAATATAA
1 AAATATAAATATAATATAA
93394 A
1 A
93395 CACATGAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (19 bp):
AAATATAAATATAATATAA
Found at i:93675 original size:2 final size:2
Alignment explanation
Indices: 93668--93715 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
93658 TTCAAGAATA
** *
93668 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CC AT AT AT AG AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
93710 AT AT AT
1 AT AT AT
93716 CAAATAAAGT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.48, C:0.04, G:0.02, T:0.46
Consensus pattern (2 bp):
AT
Found at i:95201 original size:38 final size:39
Alignment explanation
Indices: 95124--95205 Score: 139
Period size: 41 Copynumber: 2.1 Consensus size: 39
95114 ATTGTAAATG
95124 GATAAATGTAGGAGTCAAAGACTCGCGAGATGTTTGATACA
1 GATAAATGTAGGAGTCAAAGACT--CGAGATGTTTGATACA
95165 GATAAATGTAGGAGTCAAAGACT-GAGATGTTTGATACA
1 GATAAATGTAGGAGTCAAAGACTCGAGATGTTTGATACA
95203 GAT
1 GAT
95206 TGAGCCGGTT
Statistics
Matches: 41, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
38 18 0.44
41 23 0.56
ACGTcount: A:0.38, C:0.10, G:0.27, T:0.26
Consensus pattern (39 bp):
GATAAATGTAGGAGTCAAAGACTCGAGATGTTTGATACA
Found at i:95701 original size:2 final size:2
Alignment explanation
Indices: 95694--95721 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
95684 ATGTTATACA
95694 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
95722 CAAAAAAGAA
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:99014 original size:6 final size:6
Alignment explanation
Indices: 99005--99038 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
98995 AAAAAAAAAA
* *
99005 AACATG AACATG AACAAG AACAAG AACAAG AACA
1 AACAAG AACAAG AACAAG AACAAG AACAAG AACA
99039 GAATCAGAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.62, C:0.18, G:0.15, T:0.06
Consensus pattern (6 bp):
AACAAG
Found at i:100261 original size:5 final size:5
Alignment explanation
Indices: 100251--100303 Score: 56
Period size: 5 Copynumber: 10.4 Consensus size: 5
100241 TTAATTTTTT
*
100251 AATTA AATTA AATTA ATTTA AATTTA AATTTA AATTTA AATT- AATT-
1 AATTA AATTA AATTA AATTA AA-TTA AA-TTA AA-TTA AATTA AATTA
100297 AATTA AA
1 AATTA AA
100304 ATTTTTGAGT
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
4 8 0.18
5 19 0.43
6 17 0.39
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (5 bp):
AATTA
Found at i:100306 original size:6 final size:6
Alignment explanation
Indices: 100253--100292 Score: 59
Period size: 6 Copynumber: 7.2 Consensus size: 6
100243 AATTTTTTAA
100253 TTAAA- TTAAA- TT-AAT TTAAAT TTAAAT TTAAAT TTAAAT T
1 TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT TTAAAT T
100293 AATTAATTAA
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
4 2 0.06
5 9 0.27
6 22 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
TTAAAT
Found at i:109418 original size:68 final size:68
Alignment explanation
Indices: 109339--109481 Score: 279
Period size: 68 Copynumber: 2.1 Consensus size: 68
109329 TTAACCTTTA
109339 TAATT-ATGCAAAGAATTACCTTGTGAGAAAATTTATAAATTTTTTCATTAACAATATTAATTTA
1 TAATTAATGCAAAGAATTACCTTGTGAGAAAATTTATAAATTTTTTCATTAACAATATTAATTTA
109403 TTT
66 TTT
109406 TAATTAATGCAAAGAATTACCTTGTGAGAAAATTTATAAATTTTTTCATTAACAATATTAATTTA
1 TAATTAATGCAAAGAATTACCTTGTGAGAAAATTTATAAATTTTTTCATTAACAATATTAATTTA
109471 TTT
66 TTT
109474 TAATTAAT
1 TAATTAAT
109482 TTAGCTATAT
Statistics
Matches: 75, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
67 5 0.07
68 70 0.93
ACGTcount: A:0.41, C:0.07, G:0.07, T:0.45
Consensus pattern (68 bp):
TAATTAATGCAAAGAATTACCTTGTGAGAAAATTTATAAATTTTTTCATTAACAATATTAATTTA
TTT
Found at i:109675 original size:12 final size:12
Alignment explanation
Indices: 109660--109714 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
109650 TTTATATTAC
109660 TATTTAAAATAA
1 TATTTAAAATAA
*
109672 TATTAAAAAT-A
1 TATTTAAAATAA
* * *
109683 TTTTTATATTAA
1 TATTTAAAATAA
109695 TATTTATAAATAA
1 TATTTA-AAATAA
109708 -ATTTAAA
1 TATTTAAA
109715 TAAAAATTTT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
11 9 0.27
12 20 0.61
13 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TATTTAAAATAA
Found at i:111316 original size:2 final size:2
Alignment explanation
Indices: 111309--111345 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
111299 TATTTCTATT
111309 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
111346 ATATATATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:111350 original size:2 final size:2
Alignment explanation
Indices: 111345--111380 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
111335 TCTCTCTCTC
111345 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
111381 ATAGTTTGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:119764 original size:9 final size:9
Alignment explanation
Indices: 119750--119807 Score: 50
Period size: 9 Copynumber: 6.4 Consensus size: 9
119740 TTCTCGACTT
119750 ATTATTTAA
1 ATTATTTAA
119759 ATTATTT-A
1 ATTATTTAA
119767 ATT-TTTATA
1 ATTATTTA-A
*
119776 ATTTATTT-T
1 A-TTATTTAA
119785 ATTATTTAA
1 ATTATTTAA
*
119794 ATTTTTTATA
1 ATTATTTA-A
119804 ATTA
1 ATTA
119808 AAATTAAATA
Statistics
Matches: 39, Mismatches: 4, Indels: 11
0.72 0.07 0.20
Matches are distributed among these distances:
7 3 0.08
8 10 0.26
9 17 0.44
10 6 0.15
11 3 0.08
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTATTTAA
Found at i:119783 original size:18 final size:18
Alignment explanation
Indices: 119750--119807 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
119740 TTCTCGACTT
119750 ATTATTTAAA-TTATTTA
1 ATTATTTAAATTTATTTA
*
119767 ATT-TTTATAATTTATTTT
1 ATTATTTA-AATTTATTTA
*
119785 ATTATTTAAATTTTTTATA
1 ATTATTTAAATTTATT-TA
119804 ATTA
1 ATTA
119808 AAATTAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 4 0.12
17 5 0.15
18 16 0.47
19 9 0.26
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTATTTAAATTTATTTA
Found at i:120133 original size:17 final size:17
Alignment explanation
Indices: 120093--120137 Score: 56
Period size: 17 Copynumber: 2.7 Consensus size: 17
120083 TACGAAATTT
120093 ATAAAAATAT-ATAATA
1 ATAAAAATATAATAATA
** *
120109 ATTTAAATATAATTATA
1 ATAAAAATATAATAATA
120126 ATAAAAATATAA
1 ATAAAAATATAA
120138 AGTTTAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
16 8 0.35
17 15 0.65
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (17 bp):
ATAAAAATATAATAATA
Found at i:120137 original size:41 final size:41
Alignment explanation
Indices: 120037--120138 Score: 104
Period size: 41 Copynumber: 2.5 Consensus size: 41
120027 AATGTATTAA
*
120037 ATTAAT-T-ATAAATATATAAAAATTTATATAATATAAATT
1 ATTAATATAATAAATATATAAAAATATATATAATATAAATT
** * *
120076 ATTAATATACGAAATTTATAAAAATATATAATAATTTAAA-T
1 ATTAATATAATAAATATATAAAAATATAT-ATAATATAAATT
*
120117 A-TAATTATAATAAAAATATAAA
1 ATTAA-TATAATAAATATATAAA
120139 GTTTAATTTT
Statistics
Matches: 50, Mismatches: 9, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
39 6 0.12
40 4 0.08
41 31 0.62
42 9 0.18
ACGTcount: A:0.59, C:0.01, G:0.01, T:0.39
Consensus pattern (41 bp):
ATTAATATAATAAATATATAAAAATATATATAATATAAATT
Found at i:123232 original size:14 final size:14
Alignment explanation
Indices: 123213--123246 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
123203 TTTTAAAAAA
*
123213 TTATATTTTTATAT
1 TTATATCTTTATAT
123227 TTATATCTTTATAT
1 TTATATCTTTATAT
*
123241 ATATAT
1 TTATAT
123247 ATATTAAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (14 bp):
TTATATCTTTATAT
Found at i:123605 original size:9 final size:9
Alignment explanation
Indices: 123593--123751 Score: 58
Period size: 9 Copynumber: 16.6 Consensus size: 9
123583 CAAAAGTGCA
123593 AAAAAATTT
1 AAAAAATTT
*
123602 AAAAAATAT
1 AAAAAATTT
*
123611 ATAAAAATTCAA
1 A-AAAAATT--T
*
123623 AATAAAATTCA
1 AA-AAAATT-T
123634 AAATAAAATTT
1 AAA--AAATTT
123645 AAAAAATTT
1 AAAAAATTT
*
123654 AAAAAATCT
1 AAAAAATTT
* *
123663 AAATAATTC
1 AAAAAATTT
123672 AAAATAATTTTTTT
1 AAAA-AA----TTT
* *
123686 AAAATACTT
1 AAAAAATTT
123695 AAAATAATTTT
1 AAAA-AA-TTT
123706 AAAAAA-TT
1 AAAAAATTT
*
123714 CAAAAATTAT
1 AAAAAATT-T
*
123724 ATAAAA--T
1 AAAAAATTT
123731 AAAAAA--T
1 AAAAAATTT
123738 AAAAAATTT
1 AAAAAATTT
123747 AAAAA
1 AAAAA
123752 TATAACAAAA
Statistics
Matches: 114, Mismatches: 19, Indels: 34
0.68 0.11 0.20
Matches are distributed among these distances:
7 13 0.11
8 7 0.06
9 45 0.39
10 17 0.15
11 13 0.11
12 12 0.11
13 1 0.01
14 6 0.05
ACGTcount: A:0.65, C:0.04, G:0.00, T:0.31
Consensus pattern (9 bp):
AAAAAATTT
Found at i:123629 original size:12 final size:12
Alignment explanation
Indices: 123614--123648 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
123604 AAAATATATA
123614 AAAATTCAAAAT
1 AAAATTCAAAAT
123626 AAAATTCAAAAT
1 AAAATTCAAAAT
*
123638 AAAATTTAAAA
1 AAAATTCAAAA
123649 AATTTAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.26
Consensus pattern (12 bp):
AAAATTCAAAAT
Found at i:123781 original size:28 final size:28
Alignment explanation
Indices: 123748--123807 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
123738 AAAAAATTTA
*
123748 AAAATATAACAAAATGTTGATAAATTAT
1 AAAATATAACAAAATATTGATAAATTAT
123776 AAAATATAACAAAATATTGATAAATTAT
1 AAAATATAACAAAATATTGATAAATTAT
123804 AAAA
1 AAAA
123808 ATTAATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (28 bp):
AAAATATAACAAAATATTGATAAATTAT
Found at i:126722 original size:3 final size:3
Alignment explanation
Indices: 126714--126755 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
126704 CTATGAACAT
* *
126714 CCA CCA CCA CCG TCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
1 CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA CCA
126756 TCATCATCAT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.31, C:0.64, G:0.02, T:0.02
Consensus pattern (3 bp):
CCA
Found at i:126782 original size:3 final size:3
Alignment explanation
Indices: 126776--126809 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
126766 CATCATCATC
126776 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
126810 AATTTCCAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:127378 original size:17 final size:16
Alignment explanation
Indices: 127337--127379 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 16
127327 TTCTCGCTCT
127337 CTTTCTTTCACTTCCC
1 CTTTCTTTCACTTCCC
* *
127353 CTTCGCTTTCAGTTTCCC
1 CTT-TCTTTCA-CTTCCC
127371 CTTTCTTTC
1 CTTTCTTTC
127380 CAAGCAGCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
16 3 0.14
17 11 0.50
18 8 0.36
ACGTcount: A:0.05, C:0.40, G:0.05, T:0.51
Consensus pattern (16 bp):
CTTTCTTTCACTTCCC
Found at i:128246 original size:13 final size:13
Alignment explanation
Indices: 128228--128264 Score: 65
Period size: 13 Copynumber: 2.8 Consensus size: 13
128218 TTTATTGTAT
128228 ATTAATTAAATTG
1 ATTAATTAAATTG
128241 ATTAATTAAATTG
1 ATTAATTAAATTG
128254 ATTAAATTAAA
1 ATT-AATTAAA
128265 AATTAATGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.43
Consensus pattern (13 bp):
ATTAATTAAATTG
Found at i:130556 original size:2 final size:2
Alignment explanation
Indices: 130549--130606 Score: 109
Period size: 2 Copynumber: 29.5 Consensus size: 2
130539 TTTCTTTTCT
130549 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
130591 TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA T
130607 CAGATTATCT
Statistics
Matches: 55, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 54 0.98
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:131119 original size:23 final size:23
Alignment explanation
Indices: 131091--131173 Score: 77
Period size: 23 Copynumber: 3.7 Consensus size: 23
131081 ATAATTTCTC
131091 TTAAATTATAATATTTAATAAAT
1 TTAAATTATAATATTTAATAAAT
131114 TTAAATT-TAA-A-TTAA-AAAT
1 TTAAATTATAATATTTAATAAAT
* **
131133 TTAATATTTATAATATTT-TTATTTT
1 TTAA-A-TTATAATATTTAATA-AAT
131158 TTAAATTATAATATTT
1 TTAAATTATAATATTT
131174 TTTATTAAGA
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
19 8 0.16
20 5 0.10
21 3 0.06
22 6 0.12
23 19 0.38
24 4 0.08
25 5 0.10
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (23 bp):
TTAAATTATAATATTTAATAAAT
Found at i:131141 original size:20 final size:20
Alignment explanation
Indices: 131091--131142 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
131081 ATAATTTCTC
131091 TTAAATTATAATATTTAATAAAT
1 TTAAATT-TAA-A-TTAATAAAT
131114 TTAAATTTAAATTAA-AAAT
1 TTAAATTTAAATTAATAAAT
131133 TTAATATTTA
1 TTAA-ATTTA
131143 TAATATTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 8 0.29
20 9 0.32
21 1 0.04
22 3 0.11
23 7 0.25
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
TTAAATTTAAATTAATAAAT
Found at i:131489 original size:24 final size:25
Alignment explanation
Indices: 131452--131507 Score: 73
Period size: 24 Copynumber: 2.3 Consensus size: 25
131442 AGTTATAAAA
131452 AATAAA-ACATTTTTAATAAAT-AT
1 AATAAATACATTTTTAATAAATAAT
*
131475 AATTAAATACA-TTTTATTAAATAAT
1 AA-TAAATACATTTTTAATAAATAAT
131500 AATAAATA
1 AATAAATA
131508 TAATTAAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
23 2 0.07
24 20 0.69
25 7 0.24
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (25 bp):
AATAAATACATTTTTAATAAATAAT
Found at i:131504 original size:34 final size:33
Alignment explanation
Indices: 131465--131537 Score: 121
Period size: 34 Copynumber: 2.2 Consensus size: 33
131455 AAAACATTTT
131465 TAATAAATATAATTAAATACATTTTATTAAATAA
1 TAATAAATATAATTAAATACATTTTATTAAA-AA
*
131499 TAATAAATATAATTAAATATATTTTATTAAAAA
1 TAATAAATATAATTAAATACATTTTATTAAAAA
131532 T-ATAAA
1 TAATAAA
131538 CAATAATCAA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
32 5 0.13
33 3 0.08
34 30 0.79
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (33 bp):
TAATAAATATAATTAAATACATTTTATTAAAAA
Found at i:133208 original size:20 final size:20
Alignment explanation
Indices: 133162--133213 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 20
133152 TTAATAAATT
* *
133162 ATTTTTATATTAATATTTAT
1 ATTTTTATATTAATATTAAA
133182 ATATTTTATAATTAAT-TTAAA
1 AT-TTTTAT-ATTAATATTAAA
133203 ATTTTTA-ATTA
1 ATTTTTATATTA
133214 TTAAATATCA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 4 0.14
20 7 0.25
21 11 0.39
22 6 0.21
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (20 bp):
ATTTTTATATTAATATTAAA
Found at i:133713 original size:9 final size:8
Alignment explanation
Indices: 133676--133716 Score: 52
Period size: 7 Copynumber: 5.4 Consensus size: 8
133666 AGATAAAAAA
133676 ATTTAAAT
1 ATTTAAAT
133684 A-TTAAAT
1 ATTTAAAT
133691 -TTTAAAT
1 ATTTAAAT
133698 -TTTAAAT
1 ATTTAAAT
133705 ATATTAAAT
1 AT-TTAAAT
133714 ATT
1 ATT
133717 AATTAATTAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
7 19 0.63
8 3 0.10
9 8 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (8 bp):
ATTTAAAT
Found at i:134054 original size:22 final size:23
Alignment explanation
Indices: 134029--134078 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
134019 TAAAAAATTT
* *
134029 AAAATAATTAATAATTAT-CTTCA
1 AAAATAATAAAAAATTATCCTT-A
134052 AAAA-AATAAAAAATTATCCTTA
1 AAAATAATAAAAAATTATCCTTA
134074 AAAAT
1 AAAAT
134079 TTTAAAAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
22 16 0.70
23 7 0.30
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (23 bp):
AAAATAATAAAAAATTATCCTTA
Found at i:134395 original size:16 final size:17
Alignment explanation
Indices: 134374--134425 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
134364 TTTTCCTATT
134374 ATTAATAT-TTATTATA
1 ATTAATATATTATTATA
* *
134390 ATTAAT-TATAATAATA
1 ATTAATATATTATTATA
134406 ATTAATATATT-TTATA
1 ATTAATATATTATTATA
134422 ATTA
1 ATTA
134426 TAATAAATAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
15 1 0.03
16 26 0.87
17 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
ATTAATATATTATTATA
Found at i:135188 original size:2 final size:2
Alignment explanation
Indices: 135181--135211 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
135171 AGGGAATCAA
135181 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
135212 AGAAAAGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:136788 original size:19 final size:20
Alignment explanation
Indices: 136752--136790 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
136742 AGAAATCTCT
*
136752 TAAATTATATTGAAAAATAA
1 TAAATTATATTCAAAAATAA
136772 TAAATTA-ATTCAAAAATAA
1 TAAATTATATTCAAAAATAA
136791 AATATATCAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
TAAATTATATTCAAAAATAA
Found at i:137084 original size:15 final size:17
Alignment explanation
Indices: 137051--137086 Score: 58
Period size: 16 Copynumber: 2.2 Consensus size: 17
137041 TTCATAAATC
137051 ATAATCATATTTTTGAT
1 ATAATCATATTTTTGAT
137068 ATAAT-ATATTTTT-AT
1 ATAATCATATTTTTGAT
137083 ATAA
1 ATAA
137087 ATTTGATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.32
16 8 0.42
17 5 0.26
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (17 bp):
ATAATCATATTTTTGAT
Found at i:137150 original size:11 final size:11
Alignment explanation
Indices: 137133--137189 Score: 62
Period size: 12 Copynumber: 5.1 Consensus size: 11
137123 AATGTATTTA
137133 TATATTTATAT
1 TATATTTATAT
*
137144 CATATTTATAT
1 TATATTTATAT
*
137155 TATTTTTTATAT
1 TA-TATTTATAT
137167 TAT-TTTATAT
1 TATATTTATAT
*
137177 TTTATATTATAT
1 TATAT-TTATAT
137189 T
1 T
137190 TTAATTTGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
10 9 0.23
11 13 0.33
12 17 0.44
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (11 bp):
TATATTTATAT
Found at i:137166 original size:29 final size:30
Alignment explanation
Indices: 137127--137196 Score: 83
Period size: 29 Copynumber: 2.4 Consensus size: 30
137117 AATTTTAATG
137127 TATTTATATATTTATATCATA-TTTATATTA
1 TATTT-TATATTTATATCATATTTTATATTA
* * *
137157 TTTTTTATA-TTATTTTATATTTTATATTA
1 TATTTTATATTTATATCATATTTTATATTA
137186 TATTTTA-ATTT
1 TATTTTATATTT
137197 GTTATGTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
28 9 0.26
29 21 0.62
30 4 0.12
ACGTcount: A:0.31, C:0.01, G:0.00, T:0.67
Consensus pattern (30 bp):
TATTTTATATTTATATCATATTTTATATTA
Found at i:137169 original size:17 final size:17
Alignment explanation
Indices: 137129--137189 Score: 65
Period size: 17 Copynumber: 3.8 Consensus size: 17
137119 TTTTAATGTA
137129 TTTATA-TAT-TTATAT
1 TTTATATTATATTATAT
** *
137144 CATAT-TTATATTATTT
1 TTTATATTATATTATAT
*
137160 TTTATATTATTTTATAT
1 TTTATATTATATTATAT
137177 TTTATATTATATT
1 TTTATATTATATT
137190 TTAATTTGTT
Statistics
Matches: 35, Mismatches: 8, Indels: 4
0.74 0.17 0.09
Matches are distributed among these distances:
15 6 0.17
16 8 0.23
17 21 0.60
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTATATTATATTATAT
Found at i:138151 original size:18 final size:18
Alignment explanation
Indices: 138125--138163 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
138115 AAATAAATAA
*
138125 AATATGTATGATTTTATT
1 AATACGTATGATTTTATT
138143 AATACGTATGATTTTATT
1 AATACGTATGATTTTATT
138161 AAT
1 AAT
138164 CTCGTTTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.03, G:0.10, T:0.51
Consensus pattern (18 bp):
AATACGTATGATTTTATT
Found at i:143710 original size:145 final size:147
Alignment explanation
Indices: 143551--143824 Score: 480
Period size: 145 Copynumber: 1.9 Consensus size: 147
143541 GATTAATTTG
143551 GTTGGTTTGATTTTAAAATTTAATATGTTAAATAAATTAAATAAATTTAGAGAATTAATTGAAAT
1 GTTGGTTTGATTTTAAAATTTAATATGTTAAATAAATTAAATAAATTTAGAGAATTAATTGAAAT
* * *
143616 ATTAGTGAAAATTAAATTAACCGAATGAAAGTAAATTGGTTCA-TT-GGTCAATTATTTTGATTT
66 ACTAGTAAAAATTAAATTAACCGAATGAAAGTAAATTGGTTCAGTTCGATCAATTATTTTGATTT
143679 TGTATGTTTATATTAAT
131 TGTATGTTTATATTAAT
*
143696 GTTGGTTTGGTTTTAAAATTTAATATGTTAAATAAATTAAATAAATTTAGAGAATTAATTGAAAT
1 GTTGGTTTGATTTTAAAATTTAATATGTTAAATAAATTAAATAAATTTAGAGAATTAATTGAAAT
* *
143761 ACTAGTAAAAATTAAATTAACTGAATGAAAGTAAATTGGTTCAGTTCGATTAATTATTTTGATT
66 ACTAGTAAAAATTAAATTAACCGAATGAAAGTAAATTGGTTCAGTTCGATCAATTATTTTGATT
143825 CTACACATTT
Statistics
Matches: 121, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
145 104 0.86
146 2 0.02
147 15 0.12
ACGTcount: A:0.41, C:0.03, G:0.14, T:0.42
Consensus pattern (147 bp):
GTTGGTTTGATTTTAAAATTTAATATGTTAAATAAATTAAATAAATTTAGAGAATTAATTGAAAT
ACTAGTAAAAATTAAATTAACCGAATGAAAGTAAATTGGTTCAGTTCGATCAATTATTTTGATTT
TGTATGTTTATATTAAT
Found at i:144870 original size:2 final size:2
Alignment explanation
Indices: 144863--144900 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
144853 CTATGAGCGA
*
144863 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
144901 GGAATAAGGA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Done.