Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007845.1 Hibiscus syriacus cultivar Beakdansim tig00110201_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2731752
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 1 of 13
Found at i:5945 original size:84 final size:84
Alignment explanation
Indices: 5645--6249 Score: 1119
Period size: 84 Copynumber: 7.2 Consensus size: 84
5635 TGTGATATCT
5645 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
5710 GTTATCTGATCTGATTTGG
66 GTTATCTGATCTGATTTGG
5729 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGG-AGTGTTCTTTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
5793 GTTATCTGATCTGA-TTGG
66 GTTATCTGATCTGATTTGG
5811 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
* *
5876 CTTATTTGATCTGATTTGG
66 GTTATCTGATCTGATTTGG
5895 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
5960 GTTATCTGATCTGATTTGG
66 GTTATCTGATCTGATTTGG
5979 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
6044 GTTATCTGATCTGATTTGG
66 GTTATCTGATCTGATTTGG
6063 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
6128 GTTATCTGATCTGATTTGG
66 GTTATCTGATCTGATTTGG
6147 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTC-TTGA
1 CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
* *
6211 GTTATCTAATCTG-GTTGG
66 GTTATCTGATCTGATTTGG
*
6229 ACAGAACCAATCGTTGGAATT
1 -CAGAACCAATCATT-GAATT
6250 AAAAGATGAA
Statistics
Matches: 510, Mismatches: 7, Indels: 8
0.97 0.01 0.02
Matches are distributed among these distances:
82 60 0.12
83 79 0.15
84 371 0.73
ACGTcount: A:0.28, C:0.15, G:0.21, T:0.36
Consensus pattern (84 bp):
CAGAACCAATCATTGAATTTGGAAGATGAATTTGCTCAATAGCATCTTCTGGAAGTGTTCTTTGA
GTTATCTGATCTGATTTGG
Found at i:7281 original size:109 final size:111
Alignment explanation
Indices: 6951--7488 Score: 780
Period size: 109 Copynumber: 4.9 Consensus size: 111
6941 TCAAATCTTC
* * *
6951 TTGATGGATCATTCATTGCCAGATAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAAAGAA
1 TTGATGGATCA-ACATTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAA
7016 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
65 GTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
7063 TTGATGGATCAACATTGCCAGAGAAGGTTCATAATGAGAAGAA--C-TCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGA
7125 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
64 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
*
7173 TTGATGGATCAACATTGCCAGAGAATTTCATAATGAGAAGAACTCATCTGAAGAA-G-GAAGAAG
1 TTGATGGATCAACATTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAG
7236 TTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
66 TTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
7282 TTGATGGATCAACATTGCCAGAGAAAGTTCATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAG
1 TTGATGGATCAACATTGCCAGAG-AAGTTCAT-AATGAGAAGAACTCATCTGAAGAAGG-AGAAG
* * * *
7347 AAGTTCATAATGA-AAGAATTTGTTCAACCTTTTG-TTGAATTCATCAC
63 AAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
*** *
7394 TTGAT---T-ATTTTTGTCAGAGAAGGTTCATAAT--GAAGAACTCATCTGAAGAAGGAAGAAGA
1 TTGATGGATCAACATTGCCAGAGAA-GTTCATAATGAGAAGAACTCATCTGAAGAAGG-AGAAGA
* *
7453 AGTTCATAATGAGAAGAGCTTGTTCAAC-CTTTGTTT
64 AGTTCATAATGAGAAGAACTTGTTCAACTTTTTGTTT
7489 GATACTATCA
Statistics
Matches: 397, Mismatches: 16, Indels: 32
0.89 0.04 0.07
Matches are distributed among these distances:
105 44 0.11
106 15 0.04
107 5 0.01
108 15 0.04
109 104 0.26
110 86 0.22
111 38 0.10
112 54 0.14
113 19 0.05
114 17 0.04
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (111 bp):
TTGATGGATCAACATTGCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAGAAGAAG
TTCATAATGAGAAGAACTTGTTCAACTTTTTGTTTAAATTCATCAT
Found at i:7454 original size:219 final size:219
Alignment explanation
Indices: 6964--7488 Score: 782
Period size: 219 Copynumber: 2.4 Consensus size: 219
6954 ATGGATCATT
*
6964 CATTGCCAGATAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAA-AAGAAGTTCATAATGAG
1 CATTGCCAGAGAAGTTCATAAT-AGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
*
7028 AAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCCAGAGAAGGTTC
65 AAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCCAGAGAAAGTTC
*
7093 ATAATGAGAAGAACTCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTT
130 ATAATGAGAAGAACTCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT
*
7158 GTTTAAATTCATCATTTGATGGATCAA
195 GTTTAAATTCATCACTTGAT-G-TCAA
*
7185 CATTGCCAGAGAATTTCATAATGAGAAGAACTCATCTGAAGAA-G--GAAGAAGTTCATAATGAG
1 CATTGCCAGAGAAGTTCATAAT-AGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
7247 AAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCCAGAGAAAGTTC
65 AAGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCCAGAGAAAGTTC
*
7312 ATGAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGA-AAGAATTTGTTCAACC
130 AT-AATGAGAAGAA--C-TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACC
* *
7376 TTTTG-TTGAATTCATCACTTGAT-T-AT
191 TTTTGTTTAAATTCATCACTTGATGTCAA
** *
7402 TTTTGTCAGAGAAGGTTCATAAT-GAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
1 CATTGCCAGAGAA-GTTCATAATAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
* *
7466 AAGAGCTTGTTCAAC-CTTTGTTT
65 AAGAACTTGTTCAACTTTTTGTTT
7489 GATACTATCA
Statistics
Matches: 281, Mismatches: 14, Indels: 21
0.89 0.04 0.07
Matches are distributed among these distances:
216 19 0.07
217 12 0.04
218 16 0.06
219 115 0.41
220 12 0.04
221 57 0.20
222 20 0.07
223 30 0.11
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (219 bp):
CATTGCCAGAGAAGTTCATAATAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAACTTGTTCAACTTTTTGTTTAAATTCATCATTTGATGGATCAACATTGCCAGAGAAAGTTCA
TAATGAGAAGAACTCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTG
TTTAAATTCATCACTTGATGTCAA
Found at i:7807 original size:3 final size:3
Alignment explanation
Indices: 7801--7880 Score: 142
Period size: 3 Copynumber: 26.7 Consensus size: 3
7791 TTTTTATCCA
*
7801 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
*
7849 TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
7881 AATATATATT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 73 1.00
ACGTcount: A:0.34, C:0.01, G:0.01, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:8393 original size:22 final size:22
Alignment explanation
Indices: 8350--8393 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
8340 AAAAGGACAG
* * * *
8350 AGACAGAGAACGGAGAAGAAAA
1 AGACAGAGAAAGAAAAAAAAAA
8372 AGACAGAGAAAGAAAAAAAAAA
1 AGACAGAGAAAGAAAAAAAAAA
8394 CAAACTAGTA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.68, C:0.07, G:0.25, T:0.00
Consensus pattern (22 bp):
AGACAGAGAAAGAAAAAAAAAA
Found at i:9301 original size:20 final size:21
Alignment explanation
Indices: 9255--9301 Score: 53
Period size: 20 Copynumber: 2.3 Consensus size: 21
9245 CTGCTTTTAA
*
9255 ATATATCGTTCTAATTGTATT
1 ATATATTGTTCTAATTGTATT
* *
9276 -TTTATTGTTTTAATTGT-TT
1 ATATATTGTTCTAATTGTATT
9295 ATATATT
1 ATATATT
9302 TAAATATTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 3
0.75 0.14 0.11
Matches are distributed among these distances:
19 2 0.10
20 19 0.90
ACGTcount: A:0.26, C:0.04, G:0.09, T:0.62
Consensus pattern (21 bp):
ATATATTGTTCTAATTGTATT
Found at i:9370 original size:25 final size:24
Alignment explanation
Indices: 9343--9393 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
9333 ATATATATGA
9343 TAAAT-AA-TAATTT-ATATTTTT
1 TAAATAAATTAATTTAATATTTTT
*
9364 TAAATAAATTATTTTAATATTTTT
1 TAAATAAATTAATTTAATATTTTT
*
9388 TCAATA
1 TAAATA
9394 TCGAAGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 5 0.20
22 2 0.08
23 5 0.20
24 13 0.52
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (24 bp):
TAAATAAATTAATTTAATATTTTT
Found at i:10568 original size:13 final size:13
Alignment explanation
Indices: 10550--10580 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
10540 TATCACCCAC
10550 CTACAAAGAAACA
1 CTACAAAGAAACA
*
10563 CTACAAAGAAATA
1 CTACAAAGAAACA
10576 CTACA
1 CTACA
10581 CCACTGCTGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.58, C:0.23, G:0.06, T:0.13
Consensus pattern (13 bp):
CTACAAAGAAACA
Found at i:18306 original size:51 final size:51
Alignment explanation
Indices: 18080--18498 Score: 446
Period size: 51 Copynumber: 8.0 Consensus size: 51
18070 CAAATGGCGG
* *
18080 GTCTGCTCCCTATTCTTTCATG-GAGTATAAGACTCGAACAATCTTCAGTAAAA-GT
1 GTCTGCTCCCTATTCCTTCA-GAGAGTATAAGACTCG----ATCTTCA-AAAAACGT
* * **
18135 GTCTGCTCCCTATTCATTCAGGGAGTATAAGACTCGAATAATCTTCAGTAAACGT
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCG----ATCTTCAAAAAACGT
* * *
18190 GTCTGCTCCCTATTCGTTCAGGGAGTATAAGACTCGAACAATCTTCAAAAAACGG
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCG----ATCTTCAAAAAACGT
* *
18245 GTCTGCTCCCTATTCCTTCAGAGAGTATAAGGCTCGATCTTCAAAAAACGA
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAAAAAACGT
*
18296 GTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAATAAACGT
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAAAAAACGT
* * * * ** *
18347 GTCCGCTCTCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACGAACTT
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAAAAAACGT
* * * * *
18398 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACTT
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAAAAAACGT
* * * *
18449 GTCCGCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACG
1 GTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAAAAAACG
18499 AGTTTGCTTC
Statistics
Matches: 336, Mismatches: 26, Indels: 8
0.91 0.07 0.02
Matches are distributed among these distances:
51 204 0.61
54 4 0.01
55 128 0.38
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (51 bp):
GTCTGCTCCCTATTCCTTCAGAGAGTATAAGACTCGATCTTCAAAAAACGT
Found at i:19919 original size:45 final size:45
Alignment explanation
Indices: 19838--19952 Score: 112
Period size: 43 Copynumber: 2.5 Consensus size: 45
19828 CCTCCTTTTA
* *
19838 TTTCTCTTTTTTCATTTT-TTTTCTTTTTCTTCCA-TTTTCCATT
1 TTTCTCTTTTTTCTTTTTCTTTTCTTTTTCATCCATTTTTCCATT
* *
19881 TTTCTCTTTTTT-TTTTTCTTTTCGTTTTTTCCAT-CATTTTTTCTTT
1 TTTCTCTTTTTTCTTTTTCTTTTC--TTTTT-CATCCATTTTTCCATT
19927 TTTCTCATTTTTCTTCTTTTTCTTTT
1 TTTCTC--TTTT-TTCTTTTTCTTTT
19953 ATTTATTCTT
Statistics
Matches: 59, Mismatches: 4, Indels: 11
0.80 0.05 0.15
Matches are distributed among these distances:
42 4 0.07
43 17 0.29
45 7 0.12
46 15 0.25
48 4 0.07
49 2 0.03
50 10 0.17
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.75
Consensus pattern (45 bp):
TTTCTCTTTTTTCTTTTTCTTTTCTTTTTCATCCATTTTTCCATT
Found at i:19922 original size:20 final size:17
Alignment explanation
Indices: 19838--19938 Score: 64
Period size: 17 Copynumber: 5.7 Consensus size: 17
19828 CCTCCTTTTA
19838 TTTCTC-TTTTTTCATTT
1 TTTCTCATTTTTTC-TTT
* * **
19855 TTTTTCTTTTTCTTCCAT
1 TTTCTCATTTT-TTCTTT
19873 TTTC-CATTTTTCTCTTT
1 TTTCTCATTTTT-TCTTT
**
19890 TTT-TTTTTCTTTTCGTTT
1 TTTCTCATT-TTTTC-TTT
19908 TTTCCATCATTTTTTCTTT
1 TTT-C-TCATTTTTTCTTT
19927 TTTCTCATTTTT
1 TTTCTCATTTTT
19939 CTTCTTTTTC
Statistics
Matches: 64, Mismatches: 11, Indels: 18
0.69 0.12 0.19
Matches are distributed among these distances:
16 1 0.02
17 28 0.44
18 18 0.28
19 9 0.14
20 5 0.08
21 3 0.05
ACGTcount: A:0.06, C:0.19, G:0.01, T:0.74
Consensus pattern (17 bp):
TTTCTCATTTTTTCTTT
Found at i:19943 original size:19 final size:19
Alignment explanation
Indices: 19838--19947 Score: 69
Period size: 18 Copynumber: 6.1 Consensus size: 19
19828 CCTCCTTTTA
* *
19838 TTTCTCTTTTTTCAT-TTT
1 TTTCTCATTTTTCTTCTTT
**
19856 TTT-TC-TTTTTCTTCCAT
1 TTTCTCATTTTTCTTCTTT
19873 TTTC-CATTTTTC-TCTTT
1 TTTCTCATTTTTCTTCTTT
*
19890 TTT-T--TTTTCTTTTCGTTT
1 TTTCTCATTTT-TCTTC-TTT
19908 TTTC-CATCATTTT-TTCTTT
1 TTTCTCAT--TTTTCTTCTTT
19927 TTTCTCATTTTTCTTCTTT
1 TTTCTCATTTTTCTTCTTT
19946 TT
1 TT
19948 CTTTTATTTA
Statistics
Matches: 72, Mismatches: 6, Indels: 27
0.69 0.06 0.26
Matches are distributed among these distances:
15 4 0.06
16 8 0.11
17 15 0.21
18 19 0.26
19 15 0.21
20 7 0.10
21 1 0.01
22 3 0.04
ACGTcount: A:0.05, C:0.19, G:0.01, T:0.75
Consensus pattern (19 bp):
TTTCTCATTTTTCTTCTTT
Found at i:29646 original size:48 final size:48
Alignment explanation
Indices: 29583--29688 Score: 153
Period size: 48 Copynumber: 2.2 Consensus size: 48
29573 TGTTATCCAC
* *
29583 AAAAAGAAATCCTAACCGCATGATATCTAGTTCGCATGCATTTATTC-AA
1 AAAAATAAATCCTAACCACATGATATCTAGTTCGCATGC--TTATTCGAA
*
29632 AAAAATAAA-CCTAACCACATGATATCTAGTTCGCATGCTTGTTCGAA
1 AAAAATAAATCCTAACCACATGATATCTAGTTCGCATGCTTATTCGAA
29679 AAAAATAAAT
1 AAAAATAAAT
29689 GACTCAAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
46 5 0.10
47 11 0.21
48 28 0.54
49 8 0.15
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.27
Consensus pattern (48 bp):
AAAAATAAATCCTAACCACATGATATCTAGTTCGCATGCTTATTCGAA
Found at i:36978 original size:37 final size:36
Alignment explanation
Indices: 36903--36978 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
36893 TTTTTATATT
*
36903 TTTAATTTTGTAAAAAAATTATATAAATATTATGAA
1 TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
* *
36939 TTTAATTTTTTAAAGAAAA-TATATAAATATTTTACAA
1 TTTAATTTTGTAAA-AAAATTATATAAATATTAT-CAA
36976 TTT
1 TTT
36979 GTAATATTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
36 26 0.74
37 9 0.26
ACGTcount: A:0.47, C:0.01, G:0.04, T:0.47
Consensus pattern (36 bp):
TTTAATTTTGTAAAAAAATTATATAAATATTATCAA
Found at i:37157 original size:20 final size:20
Alignment explanation
Indices: 37121--37158 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
37111 ATCCTATTCC
**
37121 CTGGTAATCTTTTATTCCCA
1 CTGGTAATCTTACATTCCCA
37141 CTGGTAATCTTACATTCC
1 CTGGTAATCTTACATTCC
37159 GTGAACCAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.26, G:0.11, T:0.42
Consensus pattern (20 bp):
CTGGTAATCTTACATTCCCA
Found at i:41247 original size:47 final size:48
Alignment explanation
Indices: 41184--41281 Score: 162
Period size: 47 Copynumber: 2.1 Consensus size: 48
41174 TTTATTTTCA
41184 TTTTTTGAACAAGCATGCGAACTAGATATCATGCGGTTAGG-TTTATT
1 TTTTTTGAACAAGCATGCGAACTAGATATCATGCGGTTAGGATTTATT
* * *
41231 TTTTTTGAATAAGCATGCGAATTAGATATCATGCGGTTAGGATTTCTT
1 TTTTTTGAACAAGCATGCGAACTAGATATCATGCGGTTAGGATTTATT
41279 TTT
1 TTT
41282 GTGGATAACA
Statistics
Matches: 47, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 39 0.83
48 8 0.17
ACGTcount: A:0.27, C:0.11, G:0.20, T:0.42
Consensus pattern (48 bp):
TTTTTTGAACAAGCATGCGAACTAGATATCATGCGGTTAGGATTTATT
Found at i:50967 original size:19 final size:18
Alignment explanation
Indices: 50943--51059 Score: 63
Period size: 19 Copynumber: 6.7 Consensus size: 18
50933 AAGAAGAAAT
50943 AAAAGAGAAAAAATGAGAA
1 AAAAGAGAAAAAATG-GAA
*
50962 AAAAGA-AAAATGATGGAA
1 AAAAGAGAAAA-AATGGAA
* *
50980 AAAA-CG--AAAA-GAAA
1 AAAAGAGAAAAAATGGAA
50994 AAAAGAAGAAAAAATGGAA
1 AAAAG-AGAAAAAATGGAA
**
51013 AAGGGAAGAAAAAAT-GAA
1 AAAAG-AGAAAAAATGGAA
*
51031 AAATGA-AAAAAA-GAGAA
1 AAAAGAGAAAAAATG-GAA
*
51048 AAATGA-AAAAAA
1 AAAAGAGAAAAAA
51060 AAAGAGAAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 20
0.72 0.09 0.18
Matches are distributed among these distances:
14 7 0.09
15 1 0.01
16 9 0.11
17 16 0.20
18 21 0.27
19 25 0.32
ACGTcount: A:0.74, C:0.01, G:0.20, T:0.06
Consensus pattern (18 bp):
AAAAGAGAAAAAATGGAA
Found at i:50968 original size:17 final size:17
Alignment explanation
Indices: 50943--51058 Score: 75
Period size: 17 Copynumber: 6.8 Consensus size: 17
50933 AAGAAGAAAT
*
50943 AAAAGAGAAAAAATGAG
1 AAAAAAGAAAAAATGAG
50960 AAAAAAG-AAAAATGATGG
1 AAAAAAGAAAAAATGA--G
50978 AAAAAACGAAAAGAA--A-
1 AAAAAA-GAAAA-AATGAG
50994 AAAAGAAGAAAAAATG-G
1 AAAA-AAGAAAAAATGAG
51011 AAAAGGGAAGAAAAAAT--G
1 AAAA---AAGAAAAAATGAG
* *
51029 AAAAATGAAAAAAAGAG
1 AAAAAAGAAAAAATGAG
*
51046 AAAAATGAAAAAA
1 AAAAAAGAAAAAA
51059 AAAAGAGAAA
Statistics
Matches: 83, Mismatches: 3, Indels: 26
0.74 0.03 0.23
Matches are distributed among these distances:
15 10 0.12
16 17 0.20
17 26 0.31
18 12 0.14
19 13 0.16
20 3 0.04
21 2 0.02
ACGTcount: A:0.73, C:0.01, G:0.20, T:0.06
Consensus pattern (17 bp):
AAAAAAGAAAAAATGAG
Found at i:51007 original size:43 final size:43
Alignment explanation
Indices: 50943--51057 Score: 105
Period size: 43 Copynumber: 2.7 Consensus size: 43
50933 AAGAAGAAAT
* * *
50943 AAAAGAGAAAAAATGAG-AAAAA-AGAAAAATGATGGAAAAAACG
1 AAAA-AGAAAAAAAGAGAAAAAATAGAAAAAGGA-AGAAAAAACG
* * *
50986 -AAAAGAAAAAAAGAAGAAAAAATGGAAAAGGGAAGAAAAAATG
1 AAAAAGAAAAAAAG-AGAAAAAATAGAAAAAGGAAGAAAAAACG
51029 AAAAATGAAAAAAAGAG-AAAAAT-GAAAAA
1 AAAAA-GAAAAAAAGAGAAAAAATAGAAAAA
51058 AAAAAGAGAA
Statistics
Matches: 60, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
41 9 0.15
42 10 0.17
43 19 0.32
44 13 0.22
45 9 0.15
ACGTcount: A:0.73, C:0.01, G:0.20, T:0.06
Consensus pattern (43 bp):
AAAAAGAAAAAAAGAGAAAAAATAGAAAAAGGAAGAAAAAACG
Found at i:51073 original size:17 final size:17
Alignment explanation
Indices: 51021--51073 Score: 61
Period size: 17 Copynumber: 3.1 Consensus size: 17
51011 AAAAGGGAAG
* *
51021 AAAAAATGAAAAATGAA
1 AAAAAAAGAAAAATAAA
*
51038 AAAAAGAGAAAAATGAAA
1 AAAAAAAGAAAAAT-AAA
*
51056 AAAAAAAGAGAAATAAA
1 AAAAAAAGAAAAATAAA
51073 A
1 A
51074 GGAGGGTTCA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
17 16 0.53
18 14 0.47
ACGTcount: A:0.79, C:0.00, G:0.13, T:0.08
Consensus pattern (17 bp):
AAAAAAAGAAAAATAAA
Found at i:52625 original size:55 final size:55
Alignment explanation
Indices: 52422--53017 Score: 760
Period size: 55 Copynumber: 11.1 Consensus size: 55
52412 GAAGCAAACT
* *
52422 CGTTTGTTGAAGA---TT-GAGTCCTATACTCTCTGA-AGGAATAGGGAGCGGACA
1 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGATA-GAATAGGGAGCGGACC
* * * * * *
52473 AGTTCGTTGAAGA---TT-GAGTCCTATACTCTCTGAAAAAATAGGGAGCGTACC
1 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGATAGAATAGGGAGCGGACC
*
52524 CGTTTGTTGAAGA---TT-GAGTCCTATACTCTCTGATAGAATAGGGAGCGGACC
1 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGATAGAATAGGGAGCGGACC
*
52575 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGATAGAATAGAGAGCGGACC
1 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGATAGAATAGGGAGCGGACC
*
52630 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGATAGAATAGAGAGCGGACC
1 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGATAGAATAGGGAGCGGACC
* *
52685 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTAATAGAATAGGGAGCGAACC
1 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGATAGAATAGGGAGCGGACC
*
52740 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGATAGAATAGGGAGCGGACT
1 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGATAGAATAGGGAGCGGACC
*
52795 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCCCTGA-ACGAATAGGGAGCGGACC
1 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGATA-GAATAGGGAGCGGACC
* * * *
52850 CATTTATTGAAGATTGTTCGAGTTCTATACTCTTTGATAGAATAGAGAGCGGACC
1 CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGATAGAATAGGGAGCGGACC
* * * * *
52905 CGTTTGCTGAAGATTGTTCGAG-TCTTATACTCCCT-AAACGAATAGGGAGCAGACA
1 CGTTTGTTGAAGATTGTTCGAGTTC-TATACTCTCTGATA-GAATAGGGAGCGGACC
* * * *
52960 CATTTGCTGAAGATTGTTCGAG-TCTTATACTCCCTGA-AGGAATATGGAGCGGACC
1 CGTTTGTTGAAGATTGTTCGAGTTC-TATACTCTCTGATA-GAATAGGGAGCGGACC
53015 CGT
1 CGT
53018 CATCCGAAGC
Statistics
Matches: 495, Mismatches: 40, Indels: 16
0.90 0.07 0.03
Matches are distributed among these distances:
51 103 0.21
52 1 0.00
54 7 0.01
55 382 0.77
56 2 0.00
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (55 bp):
CGTTTGTTGAAGATTGTTCGAGTTCTATACTCTCTGATAGAATAGGGAGCGGACC
Found at i:72812 original size:23 final size:23
Alignment explanation
Indices: 72786--72850 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
72776 CACCACAGCT
72786 CGTATAAATGCACCGAAGTGCCA
1 CGTATAAATGCACCGAAGTGCCA
* * * * *
72809 CGTAGAATTACACCGTAGTGCCG
1 CGTATAAATGCACCGAAGTGCCA
72832 CGTATAAATGCACCGAAGT
1 CGTATAAATGCACCGAAGT
72851 ACCATATAAG
Statistics
Matches: 33, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (23 bp):
CGTATAAATGCACCGAAGTGCCA
Found at i:76256 original size:65 final size:64
Alignment explanation
Indices: 76170--76312 Score: 141
Period size: 64 Copynumber: 2.2 Consensus size: 64
76160 TTTGTTGAAG
* * *
76170 GTGCATCGATGTACTCATTTAAATTA-ATGAACATCAAAT-GCCATTAATGCATCGATGCATAAG
1 GTGCATCGATGCACTCATTTAAAATACA--AACATCAAATAG-CATTAATGCACCGATGCAT-AG
76233 G-A
62 GTA
* * * * *
76235 GTGCATCGATGCACAT-GTTTAAAATACAAACATCGAATAGGATTTATGCACCGATGCATGGGTA
1 GTGCATCGATGCAC-TCATTTAAAATACAAACATCAAATAGCATTAATGCACCGATGCATAGGTA
76299 GTGCATCGATGCAC
1 GTGCATCGATGCAC
76313 CTGTCAAGGG
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
63 2 0.03
64 40 0.61
65 22 0.33
66 2 0.03
ACGTcount: A:0.34, C:0.18, G:0.20, T:0.27
Consensus pattern (64 bp):
GTGCATCGATGCACTCATTTAAAATACAAACATCAAATAGCATTAATGCACCGATGCATAGGTA
Found at i:77893 original size:19 final size:19
Alignment explanation
Indices: 77869--77907 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
77859 TGGTTTATGG
77869 TTGGTGAAGATGTTACTAA
1 TTGGTGAAGATGTTACTAA
77888 TTGGTGAAGATGTTACTAA
1 TTGGTGAAGATGTTACTAA
77907 T
1 T
77908 GCTGTCAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.31, C:0.05, G:0.26, T:0.38
Consensus pattern (19 bp):
TTGGTGAAGATGTTACTAA
Found at i:81771 original size:24 final size:24
Alignment explanation
Indices: 81737--81784 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
81727 AAATTGTAAC
81737 TGGTTGACTTTATCTTTACCTTTT
1 TGGTTGACTTTATCTTTACCTTTT
* * *
81761 TGGTTGGCTTTATTTTTATCTTTT
1 TGGTTGACTTTATCTTTACCTTTT
81785 AGAGTTCAAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.10, C:0.12, G:0.15, T:0.62
Consensus pattern (24 bp):
TGGTTGACTTTATCTTTACCTTTT
Found at i:94003 original size:23 final size:23
Alignment explanation
Indices: 93969--94037 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
93959 CACCACAACT
*
93969 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
93992 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
*
94015 CGTAGAAATGCACTGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
94038 TATAAGATGT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.30, C:0.25, G:0.26, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:94320 original size:30 final size:29
Alignment explanation
Indices: 94267--94325 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
94257 TGTAAACATA
* *
94267 TCACATATTCATATAAACTCGTAGCTTCAT
1 TCACATATACATATAAACACGTAG-TTCAT
* *
94297 TCACATATACATGTAATCACGTAGTTCAT
1 TCACATATACATATAAACACGTAGTTCAT
94326 GTAATACATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 5 0.20
30 20 0.80
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (29 bp):
TCACATATACATATAAACACGTAGTTCAT
Found at i:94834 original size:22 final size:21
Alignment explanation
Indices: 94783--94835 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
94773 TGTACTCATT
94783 TTCCTATAATTGATACATTAA
1 TTCCTATAATTGATACATTAA
* * **
94804 TGCCATATAATTTATATTTCTAA
1 TTCC-TATAATTGATACAT-TAA
94827 TTCCTATAA
1 TTCCTATAA
94836 CATCCTCACG
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
21 3 0.12
22 16 0.64
23 6 0.24
ACGTcount: A:0.36, C:0.15, G:0.04, T:0.45
Consensus pattern (21 bp):
TTCCTATAATTGATACATTAA
Found at i:95085 original size:11 final size:11
Alignment explanation
Indices: 95069--95098 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
95059 ATATTCAAAT
*
95069 AATCTTATTTG
1 AATCTTATTTA
95080 AATCTTATTTA
1 AATCTTATTTA
95091 AATCTTAT
1 AATCTTAT
95099 AGGTAATTGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.33, C:0.10, G:0.03, T:0.53
Consensus pattern (11 bp):
AATCTTATTTA
Found at i:95816 original size:24 final size:24
Alignment explanation
Indices: 95784--95837 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
95774 ACAATGTATG
*
95784 GATGCATTCCTTAACGGGTGCATC
1 GATGCATTCCTTAACGGGTGCACC
95808 GATGCATTCCTTAACGGGTGCACC
1 GATGCATTCCTTAACGGGTGCACC
95832 GATGCA
1 GATGCA
95838 CTACCTGTGC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.22, C:0.26, G:0.26, T:0.26
Consensus pattern (24 bp):
GATGCATTCCTTAACGGGTGCACC
Found at i:98087 original size:19 final size:19
Alignment explanation
Indices: 98048--98087 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
98038 AAAAGCCTGA
***
98048 GTGCATCGATGCATGGTAT
1 GTGCATCGATGCATCAAAT
98067 GTGCATCGATGCATCAAAT
1 GTGCATCGATGCATCAAAT
98086 GT
1 GT
98088 ATTCGATGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.17, G:0.28, T:0.30
Consensus pattern (19 bp):
GTGCATCGATGCATCAAAT
Found at i:104227 original size:23 final size:23
Alignment explanation
Indices: 104193--104283 Score: 121
Period size: 23 Copynumber: 4.0 Consensus size: 23
104183 CACCACAGCT
*
104193 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
104216 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
* *
104239 CGTAGAAATGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
104262 CGTAGAAATG-ACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
104284 TATAATAATG
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
22 10 0.16
23 51 0.84
ACGTcount: A:0.30, C:0.25, G:0.27, T:0.18
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:105483 original size:21 final size:21
Alignment explanation
Indices: 105453--105497 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
105443 TTTTATTCGT
* *
105453 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
105474 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
105495 TTG
1 TTG
105498 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:107549 original size:96 final size:93
Alignment explanation
Indices: 107367--107552 Score: 320
Period size: 96 Copynumber: 2.0 Consensus size: 93
107357 TTTTTAATAC
107367 AAAACTAAACAAAATCAATAATAAAAAGAGAAAAGTATCTAAATTCTACCATCACATCGTGTAGT
1 AAAACTAAACAAAA-CAATAATAAAAAGAGAAAAGTATCTAAATTCTACCATCACATCGTGTAGT
107432 GGCATCGAGAAAAAAATAAATAAATAACA
65 GGCATCGAGAAAAAAATAAATAAATAACA
107461 AAAACTAAACAAAA-AATAATAAGAAAAGAGAAAAAGTATCTAAATTCTACCATCACAATCGTGT
1 AAAACTAAACAAAACAATAAT-A-AAAAGAG-AAAAGTATCTAAATTCTACCATCAC-ATCGTGT
107525 AGTGGCATCGAGAAAAAAATAAATAAAT
62 AGTGGCATCGAGAAAAAAATAAATAAAT
107553 TTAAGTTGAA
Statistics
Matches: 88, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
92 6 0.07
93 1 0.01
94 21 0.24
95 25 0.28
96 35 0.40
ACGTcount: A:0.56, C:0.13, G:0.11, T:0.20
Consensus pattern (93 bp):
AAAACTAAACAAAACAATAATAAAAAGAGAAAAGTATCTAAATTCTACCATCACATCGTGTAGTG
GCATCGAGAAAAAAATAAATAAATAACA
Found at i:109408 original size:172 final size:172
Alignment explanation
Indices: 109111--109455 Score: 654
Period size: 172 Copynumber: 2.0 Consensus size: 172
109101 CCATCTGGGC
*
109111 ACCGCCTTATCTTTTCTCTCATCTTTTCTCCAAGGACGTCCAAGTTCGATTCCTGGTAATGTCTC
1 ACCGCCTTATCTTTTCTCTCATCTTTTCTCCAAGGACGCCCAAGTTCGATTCCTGGTAATGTCTC
*
109176 CTATAAGGAGATTTTTCCTTTGTTATATTTCTAATATGGTCGTAACATATGTCGCATTCTTATTG
66 CTATAAGGAGATTTTTCCTTTGTTATATTTCTAATATGGTCGTAACATATGTCACATTCTTATTG
109241 GTTGAATAAAATTAATTAAATAATAATATAAATAATAATTTT
131 GTTGAATAAAATTAATTAAATAATAATATAAATAATAATTTT
109283 ACCGCCTTATCTTTTCTCTCATCTTTTCTCCAAGGACGCCCAAGTTCGATTCCTGGTAATGTCTC
1 ACCGCCTTATCTTTTCTCTCATCTTTTCTCCAAGGACGCCCAAGTTCGATTCCTGGTAATGTCTC
* *
109348 CTATAAGGAGATTTTTCCTTTGTTCTATTTCTAATATGGTCGTAACATGTGTCACATTCTTATTG
66 CTATAAGGAGATTTTTCCTTTGTTATATTTCTAATATGGTCGTAACATATGTCACATTCTTATTG
109413 GTTGAATAAAATTAATTAAATAATAATATAAATAATAATTTT
131 GTTGAATAAAATTAATTAAATAATAATATAAATAATAATTTT
109455 A
1 A
109456 AAATTAAGAT
Statistics
Matches: 169, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
172 169 1.00
ACGTcount: A:0.29, C:0.17, G:0.12, T:0.41
Consensus pattern (172 bp):
ACCGCCTTATCTTTTCTCTCATCTTTTCTCCAAGGACGCCCAAGTTCGATTCCTGGTAATGTCTC
CTATAAGGAGATTTTTCCTTTGTTATATTTCTAATATGGTCGTAACATATGTCACATTCTTATTG
GTTGAATAAAATTAATTAAATAATAATATAAATAATAATTTT
Found at i:113516 original size:2 final size:2
Alignment explanation
Indices: 113509--113546 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
113499 GGACCTCAGC
113509 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
113547 TTGTATTTTG
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:122337 original size:21 final size:21
Alignment explanation
Indices: 122313--122356 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
122303 ATAATACTTA
*
122313 CATGTTATCA-TAAAATAATGT
1 CATGTCATCATTAAAA-AATGT
122334 CATGTCATCATTAAAAAATGT
1 CATGTCATCATTAAAAAATGT
122355 CA
1 CA
122357 AATCAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 16 0.76
22 5 0.24
ACGTcount: A:0.43, C:0.14, G:0.09, T:0.34
Consensus pattern (21 bp):
CATGTCATCATTAAAAAATGT
Found at i:127494 original size:24 final size:23
Alignment explanation
Indices: 127467--127537 Score: 97
Period size: 24 Copynumber: 3.0 Consensus size: 23
127457 TAATTTAGGT
127467 GATCAGAATCCATGTCATGTATCA
1 GATCAGAATCCATGTCA-GTATCA
* *
127491 GATCATAATTCATGTCAGTATCA
1 GATCAGAATCCATGTCAGTATCA
*
127514 GATCAGAATCCAGGTCAGGTATCA
1 GATCAGAATCCATGTCA-GTATCA
127538 TAACATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
23 20 0.49
24 21 0.51
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.28
Consensus pattern (23 bp):
GATCAGAATCCATGTCAGTATCA
Found at i:129337 original size:22 final size:21
Alignment explanation
Indices: 129312--129371 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
129302 CAGAACTCGT
*
129312 AATTTAATTTTAACAATCCCTC
1 AATTT-ATTATAACAATCCCTC
* *
129334 AATTTCTTATAATAATCCCTC
1 AATTTATTATAACAATCCCTC
* *
129355 AATTTCTTATAATAATC
1 AATTTATTATAACAATC
129372 ATCCGAATCG
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
21 30 0.86
22 5 0.14
ACGTcount: A:0.37, C:0.20, G:0.00, T:0.43
Consensus pattern (21 bp):
AATTTATTATAACAATCCCTC
Found at i:129375 original size:24 final size:21
Alignment explanation
Indices: 129326--129371 Score: 92
Period size: 21 Copynumber: 2.2 Consensus size: 21
129316 TAATTTTAAC
129326 AATCCCTCAATTTCTTATAAT
1 AATCCCTCAATTTCTTATAAT
129347 AATCCCTCAATTTCTTATAAT
1 AATCCCTCAATTTCTTATAAT
129368 AATC
1 AATC
129372 ATCCGAATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (21 bp):
AATCCCTCAATTTCTTATAAT
Found at i:129858 original size:18 final size:17
Alignment explanation
Indices: 129828--129863 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
129818 TAGTCAACGC
129828 CGGTCAACGGGTCGGGT
1 CGGTCAACGGGTCGGGT
129845 CGGTCAATCGGGTCGGGT
1 CGGTCAA-CGGGTCGGGT
129863 C
1 C
129864 AGGCTGGTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.11, C:0.25, G:0.44, T:0.19
Consensus pattern (17 bp):
CGGTCAACGGGTCGGGT
Found at i:132049 original size:113 final size:113
Alignment explanation
Indices: 131851--132077 Score: 427
Period size: 113 Copynumber: 2.0 Consensus size: 113
131841 ACAAACAAAT
131851 ACAAATATAATTTTATTTGTTCAAATTCGATTATTTTACACACCTACTTCCTACACAAATCCGTT
1 ACAAATATAATTTTATTTGTTCAAATTCGATTATTTTACACACCTACTTCCTACACAAATCCGTT
131916 CCTTAAAATTCGGCAAAACTTCCACGTTAATGCAAATGGGAATGTTTA
66 CCTTAAAATTCGGCAAAACTTCCACGTTAATGCAAATGGGAATGTTTA
* *
131964 ACAAATATAATTTTATTTGTTTAAATTCGATTATTTTACACACCTACTTCCTTCACAAATCCGTT
1 ACAAATATAATTTTATTTGTTCAAATTCGATTATTTTACACACCTACTTCCTACACAAATCCGTT
*
132029 CCTTAAACTTCGGCAAAACTTCCACGTTAATGCAAATGGGAATGTTTA
66 CCTTAAAATTCGGCAAAACTTCCACGTTAATGCAAATGGGAATGTTTA
132077 A
1 A
132078 TTCCCAAAAT
Statistics
Matches: 111, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
113 111 1.00
ACGTcount: A:0.34, C:0.20, G:0.10, T:0.36
Consensus pattern (113 bp):
ACAAATATAATTTTATTTGTTCAAATTCGATTATTTTACACACCTACTTCCTACACAAATCCGTT
CCTTAAAATTCGGCAAAACTTCCACGTTAATGCAAATGGGAATGTTTA
Found at i:132247 original size:25 final size:27
Alignment explanation
Indices: 132213--132274 Score: 74
Period size: 30 Copynumber: 2.3 Consensus size: 27
132203 CTTCAACTTA
132213 GTCTTCATTT-C-TTGGATATCTAGAC
1 GTCTTCATTTGCTTTGGATATCTAGAC
*
132238 GTCTTCATTTGCTATGTTGGATATCTAGGC
1 GTCTTCATTTGC--T-TTGGATATCTAGAC
132268 GTCTTCA
1 GTCTTCA
132275 ATGCAAACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
25 10 0.32
26 1 0.03
30 20 0.65
ACGTcount: A:0.18, C:0.19, G:0.19, T:0.44
Consensus pattern (27 bp):
GTCTTCATTTGCTTTGGATATCTAGAC
Found at i:134861 original size:23 final size:23
Alignment explanation
Indices: 134831--134875 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
134821 AACATAGCAA
134831 ATGAAGACGCCTAGATATCCAAC
1 ATGAAGACGCCTAGATATCCAAC
134854 ATGAAGACGCCTAGATATCCAA
1 ATGAAGACGCCTAGATATCCAA
134876 GAAATGAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (23 bp):
ATGAAGACGCCTAGATATCCAAC
Found at i:135257 original size:21 final size:21
Alignment explanation
Indices: 135231--135408 Score: 227
Period size: 21 Copynumber: 8.5 Consensus size: 21
135221 GTTTCCAGAT
* *
135231 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
135252 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
135273 TCGCAATGCGAA-TATGTA-AA
1 TCGCAATGCGAACT-TGGACTA
* * *
135293 TCTCAATGCGATA-GTCGACTA
1 TCGCAATGCGA-ACTTGGACTA
*
135314 TCGCAATGCAAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
* *
135335 TCGCAACGCGAACTTCGACTA
1 TCGCAATGCGAACTTGGACTA
135356 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
135377 TCGCAATGCGAACTTGGACTA
1 TCGCAATGCGAACTTGGACTA
135398 TCGCAATGCGA
1 TCGCAATGCGA
135409 CGACTATCGC
Statistics
Matches: 135, Mismatches: 18, Indels: 8
0.84 0.11 0.05
Matches are distributed among these distances:
20 15 0.11
21 120 0.89
ACGTcount: A:0.30, C:0.25, G:0.21, T:0.23
Consensus pattern (21 bp):
TCGCAATGCGAACTTGGACTA
Found at i:136259 original size:19 final size:19
Alignment explanation
Indices: 136199--136375 Score: 151
Period size: 19 Copynumber: 8.7 Consensus size: 19
136189 CGTTGCAATT
136199 TTGGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
*
136218 TTGGAATAAATCGCAACACGAAC
1 TTGGACT--ATCGC-A-ACGAAC
*
136241 TTCGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
*
136260 TTGGACTATCGCAACGAAT
1 TTGGACTATCGCAACGAAC
*
136279 TTGGAATAAATCGCAACGCGAAC
1 TTGGACT--ATCGCAA--CGAAC
* *
136302 TTCGATTATCGCAACGAAC
1 TTGGACTATCGCAACGAAC
136321 TTGGACTATCGCAATGCGAA-
1 TTGGACTATCGCAA--CGAAC
* *
136341 TATGTA-AATCGCAACGCGAAC
1 T-TGGACTATCGCAA--CGAAC
136362 TTGGACTATCGCAA
1 TTGGACTATCGCAA
136376 TACGAATATG
Statistics
Matches: 129, Mismatches: 16, Indels: 24
0.76 0.09 0.14
Matches are distributed among these distances:
19 52 0.40
20 17 0.13
21 39 0.30
22 1 0.01
23 20 0.16
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (19 bp):
TTGGACTATCGCAACGAAC
Found at i:136294 original size:61 final size:61
Alignment explanation
Indices: 136199--136375 Score: 270
Period size: 61 Copynumber: 2.9 Consensus size: 61
136189 CGTTGCAATT
* *
136199 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACACGAACTTCGACTATCGCAACGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
*
136260 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGATTATCGCAACGAAC
1 TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
* *
136321 TTGGACTATCGCAATGCGAATAT-G--TAAATCGCAACGCGAACTTGGACTATCGCAA
1 TTGGACTATCGCAA--CGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA
136376 TACGAATATG
Statistics
Matches: 108, Mismatches: 6, Indels: 5
0.91 0.05 0.04
Matches are distributed among these distances:
60 29 0.27
61 72 0.67
62 1 0.01
63 6 0.06
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.22
Consensus pattern (61 bp):
TTGGACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAACGAAC
Found at i:136301 original size:42 final size:40
Alignment explanation
Indices: 136248--136325 Score: 111
Period size: 42 Copynumber: 1.9 Consensus size: 40
136238 AACTTCGACT
* *
136248 ATCGCAACGAACTTGGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGAACTTCGACTATCGCAACGAACTTGGAATAA
*
136288 ATCGCAACGCGAACTTCGATTATCGCAACGAACTTGGA
1 ATCGCAA--CGAACTTCGACTATCGCAACGAACTTGGA
136326 CTATCGCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 7 0.21
42 26 0.79
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.22
Consensus pattern (40 bp):
ATCGCAACGAACTTCGACTATCGCAACGAACTTGGAATAA
Found at i:136353 original size:20 final size:20
Alignment explanation
Indices: 136328--136400 Score: 76
Period size: 20 Copynumber: 3.6 Consensus size: 20
136318 AACTTGGACT
136328 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
* * *
136348 ATCGCAACGCGAACT-TGGACT
1 ATCGCAATGCGAA-TATGTA-A
*
136369 ATCGCAATACGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
136389 ATCGTAATGCGA
1 ATCGCAATGCGA
136401 TAGTCGAAGT
Statistics
Matches: 41, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
20 26 0.63
21 15 0.37
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:136368 original size:41 final size:39
Alignment explanation
Indices: 136309--136392 Score: 141
Period size: 41 Copynumber: 2.1 Consensus size: 39
136299 AACTTCGATT
*
136309 ATCGCAACGAACTTGGACTATCGCAATGCGAATATGTAA
1 ATCGCAACGAACTTGGACTATCGCAATACGAATATGTAA
136348 ATCGCAACGCGAACTTGGACTATCGCAATACGAATATGTAA
1 ATCGCAA--CGAACTTGGACTATCGCAATACGAATATGTAA
136389 ATCG
1 ATCG
136393 TAATGCGATA
Statistics
Matches: 42, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
39 7 0.17
41 35 0.83
ACGTcount: A:0.36, C:0.21, G:0.20, T:0.23
Consensus pattern (39 bp):
ATCGCAACGAACTTGGACTATCGCAATACGAATATGTAA
Found at i:136423 original size:41 final size:41
Alignment explanation
Indices: 136309--136423 Score: 110
Period size: 41 Copynumber: 2.9 Consensus size: 41
136299 AACTTCGATT
* *
136309 ATCGCAA--CGAACTTGGACTATCGCAATGCGAATATGTAA
1 ATCGCAACGCGAACTCGAACTATCGCAATGCGAATATGTAA
* * *
136348 ATCGCAACGCGAACTTGGACTATCGCAATACGAATATGTAA
1 ATCGCAACGCGAACTCGAACTATCGCAATGCGAATATGTAA
* * * * *
136389 ATCGTAATGCGATAGTCGAAGT-TCGCATTGCGAAT
1 ATCGCAACGCGA-ACTCGAACTATCGCAATGCGAAT
136424 CTGGAAACTG
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
39 7 0.11
41 52 0.81
42 5 0.08
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.24
Consensus pattern (41 bp):
ATCGCAACGCGAACTCGAACTATCGCAATGCGAATATGTAA
Found at i:145626 original size:3 final size:3
Alignment explanation
Indices: 145612--145645 Score: 50
Period size: 3 Copynumber: 10.7 Consensus size: 3
145602 GCAATTGAAT
145612 TAA TATA TAA TAA TAA TAA TAA TAA TAAA TAA TA
1 TAA TA-A TAA TAA TAA TAA TAA TAA T-AA TAA TA
145646 TCACAAAGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
3 23 0.79
4 6 0.21
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:149459 original size:19 final size:19
Alignment explanation
Indices: 149435--149473 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
149425 GGCTATCAAC
149435 GTCATTGTTTCTTTGTACA
1 GTCATTGTTTCTTTGTACA
149454 GTCATTGTTTCTTTGTACA
1 GTCATTGTTTCTTTGTACA
149473 G
1 G
149474 CTTTTACTCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.15, G:0.18, T:0.51
Consensus pattern (19 bp):
GTCATTGTTTCTTTGTACA
Found at i:157934 original size:5 final size:5
Alignment explanation
Indices: 157924--157951 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
157914 ACCATGTTCC
157924 ATCCA ATCCA ATCCA ATCCA ATCCA ATC
1 ATCCA ATCCA ATCCA ATCCA ATCCA ATC
157952 AAATAATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.39, C:0.39, G:0.00, T:0.21
Consensus pattern (5 bp):
ATCCA
Found at i:162351 original size:22 final size:22
Alignment explanation
Indices: 162323--162364 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
162313 GATTTTTAAC
162323 TAATTTATAA-TTATACGTTTAG
1 TAATTTATAATTTA-ACGTTTAG
162345 TAATTTATAATTTAACGTTT
1 TAATTTATAATTTAACGTTT
162365 TATAAATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.36, C:0.05, G:0.07, T:0.52
Consensus pattern (22 bp):
TAATTTATAATTTAACGTTTAG
Found at i:162404 original size:16 final size:16
Alignment explanation
Indices: 162385--162421 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
162375 TTTAATGATA
162385 CTCATAATTAACGGTG
1 CTCATAATTAACGGTG
*
162401 CTCATAATTAATGGTG
1 CTCATAATTAACGGTG
*
162417 TTCAT
1 CTCAT
162422 CTGTGCTCGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.30, C:0.16, G:0.16, T:0.38
Consensus pattern (16 bp):
CTCATAATTAACGGTG
Found at i:163354 original size:62 final size:60
Alignment explanation
Indices: 163205--163400 Score: 207
Period size: 62 Copynumber: 3.2 Consensus size: 60
163195 TTTGGATGAA
* * * * * *
163205 TTTGGGGATAAAATTGGAAGATTCAAAAGTGTT-GGGACCAATTTAAAATGAGGGTCATAG
1 TTTGGGGATGAAATTAGAATATTCAAAAGT-TTAAGGACTAATTTAAAATGAGAGTCATAG
* * * *
163265 TTTGAGCGATGAAATTAAAATGTTCAAAAGTTTAAGGACTAATTTATAGAATGAGAGTCATTG
1 TTTG-GGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTA-A-AATGAGAGTCATAG
* * * *
163328 TTTGGGGATGAAATTAGAATATTCAAAATTTTAAGGAATAATTTAAAATAATAGTCATAG
1 TTTGGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAATGAGAGTCATAG
*
163388 TTTAGGGAT-AAAT
1 TTTGGGGATGAAAT
163401 AATGCAGTTA
Statistics
Matches: 113, Mismatches: 19, Indels: 9
0.80 0.13 0.06
Matches are distributed among these distances:
59 4 0.04
60 25 0.22
61 31 0.27
62 37 0.33
63 16 0.14
ACGTcount: A:0.40, C:0.05, G:0.22, T:0.33
Consensus pattern (60 bp):
TTTGGGGATGAAATTAGAATATTCAAAAGTTTAAGGACTAATTTAAAATGAGAGTCATAG
Found at i:175459 original size:20 final size:19
Alignment explanation
Indices: 175411--175446 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
175401 ATGTCATATT
175411 AAAATAAC-ATAAAAATAA
1 AAAATAACTATAAAAATAA
*
175429 AAAATATCTATAAAAATA
1 AAAATAACTATAAAAATA
175447 CACAACTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAATAACTATAAAAATAA
Found at i:185371 original size:17 final size:17
Alignment explanation
Indices: 185351--185392 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
185341 ATATATACAT
*
185351 ATAATAATAATACATGA
1 ATAATAATAATAAATGA
*
185368 ATAATAAAAATAAATGA
1 ATAATAATAATAAATGA
185385 ATAA-AATA
1 ATAATAATA
185393 TCCATATAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
16 3 0.14
17 19 0.86
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.26
Consensus pattern (17 bp):
ATAATAATAATAAATGA
Found at i:186672 original size:105 final size:105
Alignment explanation
Indices: 186385--187639 Score: 1987
Period size: 105 Copynumber: 12.0 Consensus size: 105
186375 CATTGTTCCA
* * ** *
186385 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTG-GAACCGGGAAATTGTTTGTTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAG-ATTGGGAAGTTG-TTGTTGACAA
* * * *
186449 CCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** * *
186491 AGT-CAATATCCTTCGTTGTGAAGTTGAAATTGAATCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
186550 AGCGGTCCATTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
186590 AGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTGGGATTGGGAAGTTGTTGTTGACAAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
186655 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
186695 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGA-A-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
186755 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
186795 AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
186860 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
186900 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
186965 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
187005 AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
187070 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
187110 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
187175 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
187215 AGTCCAATATCCTCCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGAAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
*
187280 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCATTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
187320 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
187385 AGCGGT-CCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
187424 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTGTTTATTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGG-AAGTTG-TTGTTGACAA
187489 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
187531 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTG-TTGTTGACAAC
* * * *
187596 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
187637 AGT
1 AGT
187640 GCCACGATAT
Statistics
Matches: 1076, Mismatches: 58, Indels: 30
0.92 0.05 0.03
Matches are distributed among these distances:
99 49 0.05
100 121 0.11
101 13 0.01
102 2 0.00
103 1 0.00
104 89 0.08
105 646 0.60
106 76 0.07
107 79 0.07
ACGTcount: A:0.22, C:0.18, G:0.27, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:188451 original size:67 final size:67
Alignment explanation
Indices: 188379--188537 Score: 241
Period size: 67 Copynumber: 2.4 Consensus size: 67
188369 GAAACGAAAT
* *
188379 TTTGTTTTAAGGGAGATA-AAT-TCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCATAGGAGAC
1 TTTGTTTCAAGGGA-A-ACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAAGGAGAC
188442 AAAA
64 AAAA
*
188446 TTTGTTTCGAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAAGGAGACAA
1 TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAAGGAGACAA
188511 AA
66 AA
**
188513 TTTGTTTCAAGGGAAATTATCTCAA
1 TTTGTTTCAAGGGAAACAATCTCAA
188538 GAAAGACGAA
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
65 1 0.01
66 4 0.05
67 79 0.94
ACGTcount: A:0.36, C:0.11, G:0.20, T:0.32
Consensus pattern (67 bp):
TTTGTTTCAAGGGAAACAATCTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAAAGGAGACAA
AA
Found at i:188462 original size:36 final size:35
Alignment explanation
Indices: 188412--188582 Score: 145
Period size: 36 Copynumber: 4.9 Consensus size: 35
188402 AAAGATTTTG
*
188412 TGTTTCAAGAGAAACTGTCTCATAGGAGACAAAATT
1 TGTTTCAAGGGAAACTGTCTCA-AGGAGACAAAATT
* ** **
188448 TGTTTCGAGGGAAACAATCTCAA--AG---ATTTT
1 TGTTTCAAGGGAAACTGTCTCAAGGAGACAAAATT
*
188478 GTGTTTCAAGAGAAACTGTCTCAAAGGAGACAAAATT
1 -TGTTTCAAGGGAAACTGTCTC-AAGGAGACAAAATT
* * * *
188515 TGTTTCAAGGGAAATTATCTCAAGAAAGACGAAATT
1 TGTTTCAAGGGAAACTGTCTCAAG-GAGACAAAATT
**
188551 CATTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGGGAAACTGTCTCAAG-GAGACAA
188583 TGGTGAGCAC
Statistics
Matches: 104, Mismatches: 23, Indels: 16
0.73 0.16 0.11
Matches are distributed among these distances:
30 3 0.03
31 17 0.16
32 2 0.02
33 2 0.02
34 2 0.02
35 4 0.04
36 71 0.68
37 3 0.03
ACGTcount: A:0.39, C:0.14, G:0.20, T:0.26
Consensus pattern (35 bp):
TGTTTCAAGGGAAACTGTCTCAAGGAGACAAAATT
Found at i:189052 original size:18 final size:18
Alignment explanation
Indices: 189025--189060 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
189015 TGATGAATCC
* *
189025 CCAAAGATGCCTCAATAT
1 CCAAAAATGCCCCAATAT
189043 CCAAAAATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
189061 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:189540 original size:22 final size:22
Alignment explanation
Indices: 189469--189538 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 22
189459 ATTGGTTTGG
*
189469 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
*
189491 TCAAAGGTTTAACATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
* *
189513 TTAAAGG-TTGACATTGGATGC
1 TCAAAGGTTTGACATTTGATGC
189534 TCAAA
1 TCAAA
189539 AGATTGATGG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
21 16 0.38
22 26 0.62
ACGTcount: A:0.30, C:0.13, G:0.23, T:0.34
Consensus pattern (22 bp):
TCAAAGGTTTGACATTTGATGC
Found at i:189545 original size:22 final size:22
Alignment explanation
Indices: 189481--189545 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
189471 AAAGGTTTGG
* * *
189481 CATTTGATGCTCAAAGGTTTAA
1 CATTTGATGCTCAAAAGATTGA
* *
189503 CATTTGATGCT-TAAAGGTTGA
1 CATTTGATGCTCAAAAGATTGA
*
189524 CATTGGATGCTCAAAAGATTGA
1 CATTTGATGCTCAAAAGATTGA
189546 TGGGGTAGCT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
21 16 0.46
22 19 0.54
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.34
Consensus pattern (22 bp):
CATTTGATGCTCAAAAGATTGA
Found at i:190247 original size:16 final size:17
Alignment explanation
Indices: 190178--190251 Score: 64
Period size: 17 Copynumber: 4.4 Consensus size: 17
190168 TTCTTTTTGA
190178 TTTTTGCTCTTTTTTCCT
1 TTTTTGCT-TTTTTTCCT
*
190196 TTTGTT-C-TTGTTTCTCT
1 TTT-TTGCTTTTTTTC-CT
* *
190213 TTTTTGTTTTTTTTGCT
1 TTTTTGCTTTTTTTCCT
*
190230 TTTTTGCTTCTTTT-CT
1 TTTTTGCTTTTTTTCCT
190246 TTTTTG
1 TTTTTG
190252 TCTTGATTAG
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
16 16 0.35
17 19 0.41
18 9 0.20
19 2 0.04
ACGTcount: A:0.00, C:0.15, G:0.09, T:0.76
Consensus pattern (17 bp):
TTTTTGCTTTTTTTCCT
Found at i:190255 original size:9 final size:9
Alignment explanation
Indices: 190178--190255 Score: 58
Period size: 8 Copynumber: 9.1 Consensus size: 9
190168 TTCTTTTTGA
190178 TTTTTGCTCT
1 TTTTTG-TCT
*
190188 TTTTT-CCT
1 TTTTTGTCT
*
190196 TTTGT-TCT
1 TTTTTGTCT
* *
190204 TGTTTCTCT
1 TTTTTGTCT
*
190213 TTTTTGTTT
1 TTTTTGTCT
190222 TTTTTG-CT
1 TTTTTGTCT
190230 TTTTTG-CT
1 TTTTTGTCT
*
190238 TCTTT-TCT
1 TTTTTGTCT
190246 TTTTTGTCT
1 TTTTTGTCT
190255 T
1 T
190256 GATTAGATCT
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
8 30 0.56
9 19 0.35
10 5 0.09
ACGTcount: A:0.00, C:0.15, G:0.09, T:0.76
Consensus pattern (9 bp):
TTTTTGTCT
Found at i:193530 original size:18 final size:18
Alignment explanation
Indices: 193509--193547 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
193499 ATAATAATGA
193509 ATAAAAAAAAATGA-AAAT
1 ATAAAAAAAAAT-ATAAAT
*
193527 ATAAAAAATAATATAAAT
1 ATAAAAAAAAATATAAAT
193545 ATA
1 ATA
193548 TAAAGTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (18 bp):
ATAAAAAAAAATATAAAT
Found at i:193536 original size:25 final size:27
Alignment explanation
Indices: 193486--193537 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
193476 AGGTTTTTTT
193486 AAAAAATAATAATATAATAATGAATAAA
1 AAAAAATAATAATATAATAA-GAATAAA
193514 AAAAAATGAA-AATATAA-AA-AATAA
1 AAAAAAT-AATAATATAATAAGAATAA
193538 TATAAATATA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
25 5 0.22
27 2 0.09
28 14 0.61
29 2 0.09
ACGTcount: A:0.75, C:0.00, G:0.04, T:0.21
Consensus pattern (27 bp):
AAAAAATAATAATATAATAAGAATAAA
Found at i:193804 original size:17 final size:17
Alignment explanation
Indices: 193730--193822 Score: 54
Period size: 17 Copynumber: 5.6 Consensus size: 17
193720 GAATATATAT
193730 AATAATAATAATAAA--
1 AATAATAATAATAAATG
* *
193745 ATATAGTAAAAATCAAATG
1 A-ATAATAATAAT-AAATG
* *
193764 AA-AATAAT-TTAATATAC
1 AATAATAATAATAA-AT-G
*
193781 AAT-ATAATAATACATG
1 AATAATAATAATAAATG
*
193797 AATAATAAAAATAAATG
1 AATAATAATAATAAATG
193814 AATAA-AATA
1 AATAATAATA
193823 TCCATATAAT
Statistics
Matches: 57, Mismatches: 12, Indels: 17
0.66 0.14 0.20
Matches are distributed among these distances:
15 3 0.05
16 18 0.32
17 32 0.56
18 3 0.05
19 1 0.02
ACGTcount: A:0.65, C:0.03, G:0.04, T:0.28
Consensus pattern (17 bp):
AATAATAATAATAAATG
Found at i:194837 original size:75 final size:75
Alignment explanation
Indices: 194752--194901 Score: 264
Period size: 75 Copynumber: 2.0 Consensus size: 75
194742 TATGATGTTA
* *
194752 AACGATTTTATTAAAATATATCTATAAAATATCATATGTTTAATATAAGAAGTGATCATACGGCT
1 AACGATTTTATTAAAATATATCTATAAAATATCATATGCTTAAAATAAGAAGTGATCATACGGCT
194817 CAACTCAATC
66 CAACTCAATC
* *
194827 AACGATTTTATTAAAATATATCTATGAAATATCATCTGCTTAAAATAAGAAGTGATCATACGGCT
1 AACGATTTTATTAAAATATATCTATAAAATATCATATGCTTAAAATAAGAAGTGATCATACGGCT
194892 CAACTCAATC
66 CAACTCAATC
194902 TTTATCTATC
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
75 71 1.00
ACGTcount: A:0.42, C:0.15, G:0.10, T:0.33
Consensus pattern (75 bp):
AACGATTTTATTAAAATATATCTATAAAATATCATATGCTTAAAATAAGAAGTGATCATACGGCT
CAACTCAATC
Found at i:196831 original size:39 final size:40
Alignment explanation
Indices: 196755--196867 Score: 104
Period size: 40 Copynumber: 2.8 Consensus size: 40
196745 CTTTAAACAT
** * * *
196755 ATAGCGGCGTTTACATAGAAAACGCCACAAAATGTTAA-CT
1 ATAGCGGCGTTTTTATA-AAAACGCCGCAAAAGGTTAAGCC
* *
196795 TTAGCGGCGTTTTTATAAAAACGCCGCAATAGGTTAAGCC
1 ATAGCGGCGTTTTTATAAAAACGCCGCAAAAGGTTAAGCC
* *
196835 ATAGTGGCGTTTTT-TAAACAAACGCCGCTAAAG
1 ATAGCGGCGTTTTTAT-AA-AAACGCCGCAAAAG
196868 ACACGTACTT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
39 18 0.31
40 29 0.49
41 12 0.20
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (40 bp):
ATAGCGGCGTTTTTATAAAAACGCCGCAAAAGGTTAAGCC
Found at i:196933 original size:84 final size:82
Alignment explanation
Indices: 196836--197149 Score: 346
Period size: 84 Copynumber: 3.8 Consensus size: 82
196826 GGTTAAGCCA
* *
196836 TAGTGGCGTTTTTTAAACAAACGCCGCTAAAGACACGTACTTTAGTGGCATTTTTTTAAACAAAC
1 TAGTGGCG-TTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGC-TTTTTTT-AACAAAC
*
196901 GGCGCTAAAGACTCATACTT
63 GACGCTAAAGACTCATACTT
* *
196921 TAGTGGCGTTTTTATACAAACGCTGCTAAAGACTCGTACTTTAGTGGC-GTTTTTATACAAACGA
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCTTTTTTTA-ACAAACGA
*
196985 AGCTAAAGACTCATACTT
65 CGCTAAAGACTCATACTT
* * * * * *
197003 TAGTGGCATTTTTATACAAACACCGCTATACACTTGTACTTTAGTGGCGTTTGTGTTT-AGAAAC
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGC-TTT-T-TTTAACAAAC
*
197067 GCCGCTAAAGACTCATACTT
63 GACGCTAAAGACTCATACTT
* * * * * ** *
197087 TAGTGGAGTTTATATACAAACGTCGCTATACACTTATACTTTAGTGGC-GTTTTTATACAAACG
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCTTTTTTTA-ACAAACG
197150 TCACTATACA
Statistics
Matches: 198, Mismatches: 24, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
80 3 0.02
81 2 0.01
82 78 0.39
84 103 0.52
85 9 0.05
86 3 0.02
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (82 bp):
TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCGTACTTTAGTGGCTTTTTTTAACAAACGAC
GCTAAAGACTCATACTT
Found at i:197014 original size:125 final size:127
Alignment explanation
Indices: 196836--197140 Score: 366
Period size: 125 Copynumber: 2.4 Consensus size: 127
196826 GGTTAAGCCA
* * * *
196836 TAGTGGCGTTTTTTAAACAAACGCCGCTAAAGACACGTACTTTAGTGGCATTTTTTTAAACAAAC
1 TAGTGGCG-TTTTTATACAAACGACGCTAAAGACTCATACTTTAGTGGCATTTTTTTAAACAAAC
** * * *
196901 GGCGCTAAAGACTCATACTTTAGTGGCGTTT-T-TATACAAACGCTGCTAAAGACTCGTACTT
65 ACCGCTAAACACTCATACTTTAGTGGCGTTTGTGTATACAAACGCCGCTAAAGACTCATACTT
* *
196962 TAGTGGCGTTTTTATACAAACGAAGCTAAAGACTCATACTTTAGTGGCA--TTTTTATACAAACA
1 TAGTGGCGTTTTTATACAAACGACGCTAAAGACTCATACTTTAGTGGCATTTTTTTAAACAAACA
* ** * *
197025 CCGCTATACACTTGTACTTTAGTGGCGTTTGTGTTTAGAAACGCCGCTAAAGACTCATACTT
66 CCGCTAAACACTCATACTTTAGTGGCGTTTGTGTATACAAACGCCGCTAAAGACTCATACTT
* * * * * * *
197087 TAGTGGAGTTTATATACAAACGTCGCTATACACTTATACTTTAGTGGCGTTTTT
1 TAGTGGCGTTTTTATACAAACGACGCTAAAGACTCATACTTTAGTGGCATTTTT
197141 ATACAAACGT
Statistics
Matches: 151, Mismatches: 24, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
123 37 0.25
124 1 0.01
125 102 0.68
126 8 0.05
127 3 0.02
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (127 bp):
TAGTGGCGTTTTTATACAAACGACGCTAAAGACTCATACTTTAGTGGCATTTTTTTAAACAAACA
CCGCTAAACACTCATACTTTAGTGGCGTTTGTGTATACAAACGCCGCTAAAGACTCATACTT
Found at i:197151 original size:41 final size:41
Alignment explanation
Indices: 196836--197149 Score: 367
Period size: 41 Copynumber: 7.5 Consensus size: 41
196826 GGTTAAGCCA
* * *
196836 TAGTGGCGTTTTTTAAACAAACGCCGCTAAAGACACGTACTT
1 TAGTGGCG-TTTTTATACAAACGCCGCTAAAGACTCATACTT
* * *
196878 TAGTGGCATTTTTTTAAACAAACGGCGCTAAAGACTCATACTT
1 TAGTGGC--GTTTTTATACAAACGCCGCTAAAGACTCATACTT
* *
196921 TAGTGGCGTTTTTATACAAACGCTGCTAAAGACTCGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATACTT
**
196962 TAGTGGCGTTTTTATACAAACGAAGCTAAAGACTCATACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATACTT
* * * * **
197003 TAGTGGCATTTTTATACAAACACCGCTATACACTTGTACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATACTT
* *
197044 TAGTGGCGTTTGTGTTTAGAAACGCCGCTAAAGACTCATACTT
1 TAGTGGCGTTT-T-TATACAAACGCCGCTAAAGACTCATACTT
* * * * * *
197087 TAGTGGAGTTTATATACAAACGTCGCTATACACTTATACTT
1 TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATACTT
197128 TAGTGGCGTTTTTATACAAACG
1 TAGTGGCGTTTTTATACAAACG
197150 TCACTATACA
Statistics
Matches: 230, Mismatches: 38, Indels: 9
0.83 0.14 0.03
Matches are distributed among these distances:
41 153 0.67
42 8 0.03
43 69 0.30
ACGTcount: A:0.30, C:0.19, G:0.18, T:0.33
Consensus pattern (41 bp):
TAGTGGCGTTTTTATACAAACGCCGCTAAAGACTCATACTT
Found at i:197395 original size:41 final size:41
Alignment explanation
Indices: 197350--197464 Score: 144
Period size: 41 Copynumber: 2.8 Consensus size: 41
197340 AACATATAAG
* *
197350 TACTTTATTGGCATTTTAAAACAAACGCCGCAAAAAAATCC
1 TACTTTAGTGGCATTTTAAAACAAACGCCGCAAAAAAATCA
* *
197391 TACTTTAGTGGCATTTCT-AAACAAACGTCGCAAAAGAATCA
1 TACTTTAGTGGCATTT-TAAAACAAACGCCGCAAAAAAATCA
* *
197432 TTCTTTAGTGGC-GTTTATAAACAAACGCCGCAA
1 TACTTTAGTGGCATTTTA-AAACAAACGCCGCAA
197465 TAGAGTACAT
Statistics
Matches: 64, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
39 1 0.02
40 2 0.03
41 60 0.94
42 1 0.02
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.28
Consensus pattern (41 bp):
TACTTTAGTGGCATTTTAAAACAAACGCCGCAAAAAAATCA
Found at i:199382 original size:21 final size:21
Alignment explanation
Indices: 199358--199400 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
199348 ATGAACCAAT
199358 ACTTAGGAATTATCTATGAAG
1 ACTTAGGAATTATCTATGAAG
199379 ACTTAGGAATTATCTATGAAG
1 ACTTAGGAATTATCTATGAAG
199400 A
1 A
199401 GGCAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.33
Consensus pattern (21 bp):
ACTTAGGAATTATCTATGAAG
Found at i:199573 original size:21 final size:21
Alignment explanation
Indices: 199548--199590 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
199538 ATGAACCAAT
199548 ACTTAGGAATTATCTATGAAG
1 ACTTAGGAATTATCTATGAAG
199569 ACTTAGGAATTATCTATGAAG
1 ACTTAGGAATTATCTATGAAG
199590 A
1 A
199591 GGCAAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.09, G:0.19, T:0.33
Consensus pattern (21 bp):
ACTTAGGAATTATCTATGAAG
Found at i:206252 original size:21 final size:20
Alignment explanation
Indices: 206205--206270 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 20
206195 AGCGGAAAAT
*
206205 GAAGCAAGGGAAGCCGAGAGA
1 GAAGC-AGGGAAGCAGAGAGA
* *
206226 GCAGCAGCGGAAGCAGAGAGC
1 GAAGCAG-GGAAGCAGAGAGA
* *
206247 GAAGCAGTGGCAGCACAGAGA
1 GAAGCAG-GGAAGCAGAGAGA
206268 GAA
1 GAA
206271 TCAACATATC
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
20 2 0.06
21 34 0.94
ACGTcount: A:0.39, C:0.18, G:0.41, T:0.02
Consensus pattern (20 bp):
GAAGCAGGGAAGCAGAGAGA
Found at i:206672 original size:44 final size:41
Alignment explanation
Indices: 206590--206702 Score: 111
Period size: 43 Copynumber: 2.7 Consensus size: 41
206580 ATTTTGTGTT
* ** * *
206590 ATTTAGCGGCGTTTGTAACAAAAACGCC-GTAATATACCATAC
1 ATTTAGCAGCGTTTGTATTAAAAATGCCACT-ATATACCA-AC
*
206632 ATTTAGCAGCGTTTGTATCATAAAAATGCCACTATATACCAAT
1 ATTTAGCAGCGTTTGTAT--TAAAAATGCCACTATATACCAAC
* *
206675 TTTTAGCGGCGTTTGTATTAAAAATGCC
1 ATTTAGCAGCGTTTGTATTAAAAATGCC
206703 GCTAAACCTC
Statistics
Matches: 60, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
41 10 0.17
42 16 0.27
43 17 0.28
44 16 0.27
45 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.32
Consensus pattern (41 bp):
ATTTAGCAGCGTTTGTATTAAAAATGCCACTATATACCAAC
Found at i:206689 original size:43 final size:43
Alignment explanation
Indices: 206590--206707 Score: 127
Period size: 42 Copynumber: 2.8 Consensus size: 43
206580 ATTTTGTGTT
* * *
206590 ATTTAGCGGCGTTTGTA-ACAAAAACGCCGTAATATACCATAC
1 ATTTAGCGGCGTTTGTATATAAAAATGCCCTAATATACCATAC
* *
206632 ATTTAGCAGCGTTTGTATCATAAAAATGCCACT-ATATACCA-AT
1 ATTTAGCGGCGTTTGTAT-ATAAAAATGCC-CTAATATACCATAC
*
206675 TTTTAGCGGCGTTTGTAT-TAAAAATGCCGCTAA
1 ATTTAGCGGCGTTTGTATATAAAAATGCC-CTAA
206708 ACCTCAACGC
Statistics
Matches: 64, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
41 12 0.19
42 17 0.27
43 17 0.27
44 17 0.27
45 1 0.02
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (43 bp):
ATTTAGCGGCGTTTGTATATAAAAATGCCCTAATATACCATAC
Found at i:206757 original size:43 final size:43
Alignment explanation
Indices: 206693--206808 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
206683 GCGTTTGTAT
* * * **
206693 TAAAAATGCCGCTAAACCTCAACGCCTATTGTGGCATTTTAGC
1 TAAAAATGCCGCTAAATCTCAACACATATTACGGCATTTTAGC
* * *
206736 TAAAAATGTCGCTAAATCTCAACACATATTACGGCGTTTTCGC
1 TAAAAATGCCGCTAAATCTCAACACATATTACGGCATTTTAGC
* *
206779 TAAAAACGCCGCTAAATCTCAAGACATATT
1 TAAAAATGCCGCTAAATCTCAACACATATT
206809 GCAGCTTTTG
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (43 bp):
TAAAAATGCCGCTAAATCTCAACACATATTACGGCATTTTAGC
Found at i:206828 original size:43 final size:43
Alignment explanation
Indices: 206781--206889 Score: 139
Period size: 43 Copynumber: 2.5 Consensus size: 43
206771 GTTTTCGCTA
* * *
206781 AAAACGCCGCTAAATCTCAAGACATATTGCAGCTTTTGTGAAG
1 AAAACGCCGCTAAATCTCAAAACATACTGCAGCGTTTGTGAAG
* *
206824 AAAACGCCGCTAAA-CATCAAAACCTACTGCGGCGTTTGTGAAG
1 AAAACGCCGCTAAATC-TCAAAACATACTGCAGCGTTTGTGAAG
* *
206867 AAAACGCCACTAAATATCAAAAC
1 AAAACGCCGCTAAATCTCAAAAC
206890 TTTTGCGGCG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
42 1 0.02
43 56 0.98
ACGTcount: A:0.39, C:0.24, G:0.17, T:0.20
Consensus pattern (43 bp):
AAAACGCCGCTAAATCTCAAAACATACTGCAGCGTTTGTGAAG
Found at i:207667 original size:24 final size:23
Alignment explanation
Indices: 207640--207693 Score: 63
Period size: 24 Copynumber: 2.3 Consensus size: 23
207630 CGTTCATTTA
207640 CGTTCGTGAACGTTCGGTTATGTT
1 CGTTCGT-AACGTTCGGTTATGTT
* * *
207664 CGTTCAGTTATGTTCGTTTATGTT
1 CGTTC-GTAACGTTCGGTTATGTT
207688 CGTTCG
1 CGTTCG
207694 ATTATGTTTG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
23 1 0.04
24 23 0.88
25 2 0.08
ACGTcount: A:0.11, C:0.17, G:0.26, T:0.46
Consensus pattern (23 bp):
CGTTCGTAACGTTCGGTTATGTT
Found at i:207673 original size:14 final size:14
Alignment explanation
Indices: 207650--207681 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
207640 CGTTCGTGAA
*
207650 CGTTCGGTTATGTT
1 CGTTCAGTTATGTT
207664 CGTTCAGTTATGTT
1 CGTTCAGTTATGTT
207678 CGTT
1 CGTT
207682 TATGTTCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.16, G:0.25, T:0.50
Consensus pattern (14 bp):
CGTTCAGTTATGTT
Found at i:207698 original size:24 final size:24
Alignment explanation
Indices: 207651--207725 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
207641 GTTCGTGAAC
*
207651 GTTCGGTTATGTTCGTTCAGTTAT
1 GTTCGTTTATGTTCGTTCAGTTAT
207675 GTTCGTTTATGTTCGTTC-GATTAT
1 GTTCGTTTATGTTCGTTCAG-TTAT
* * *
207699 GTTTGTTTATGTTCATTCATTTAT
1 GTTCGTTTATGTTCGTTCAGTTAT
207723 GTT
1 GTT
207726 TAACCCAATC
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
23 1 0.02
24 44 0.98
ACGTcount: A:0.13, C:0.11, G:0.20, T:0.56
Consensus pattern (24 bp):
GTTCGTTTATGTTCGTTCAGTTAT
Found at i:208455 original size:10 final size:10
Alignment explanation
Indices: 208440--208514 Score: 61
Period size: 10 Copynumber: 7.7 Consensus size: 10
208430 GGGTCTCCAA
208440 CGTTTATGTT
1 CGTTTATGTT
208450 CGTTTATGTT
1 CGTTTATGTT
208460 CGTGTTCAT-TT
1 CGT-TT-ATGTT
* **
208471 ATGTTCGTGTT
1 -CGTTTATGTT
208482 CGTTTATGTT
1 CGTTTATGTT
208492 CG----TGTT
1 CGTTTATGTT
208498 CGTTTATGTT
1 CGTTTATGTT
208508 CGTTTAT
1 CGTTTAT
208515 TTATTAAATG
Statistics
Matches: 51, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
6 6 0.12
10 34 0.67
11 7 0.14
12 4 0.08
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:208471 original size:16 final size:16
Alignment explanation
Indices: 208446--208510 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
208436 CCAACGTTTA
208446 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
*
208462 TGTTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
208478 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
208494 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
208510 T
1 T
208511 TTATTTATTA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.08, C:0.12, G:0.23, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:208601 original size:16 final size:16
Alignment explanation
Indices: 208580--208612 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
208570 AAAAAAATTT
208580 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
208596 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
208612 T
1 T
208613 CTATTTATTA
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:0.06, C:0.12, G:0.24, T:0.58
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:212337 original size:2 final size:2
Alignment explanation
Indices: 212330--212374 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
212320 TAATTTACCC
212330 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
212372 AT A
1 AT A
212375 AACTCTACAC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:213125 original size:21 final size:22
Alignment explanation
Indices: 213083--213127 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
213073 TTTTGTTTTC
** *
213083 TTCTACATATATTTTTATTTGA
1 TTCTACATATATTAATAATTGA
213105 TTCTA-ATATATTAATAATTGA
1 TTCTACATATATTAATAATTGA
213126 TT
1 TT
213128 AAATAATTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 15 0.75
22 5 0.25
ACGTcount: A:0.33, C:0.07, G:0.04, T:0.56
Consensus pattern (22 bp):
TTCTACATATATTAATAATTGA
Found at i:213169 original size:27 final size:27
Alignment explanation
Indices: 213139--213190 Score: 63
Period size: 27 Copynumber: 1.9 Consensus size: 27
213129 AATAATTAAA
213139 TTAACATAAATTAGAAA-AA-TGAATAGC
1 TTAA-ATAAATTA-AAATAACTGAATAGC
*
213166 TTAATTAAATTAAAATAACTGAATA
1 TTAAATAAATTAAAATAACTGAATA
213191 AACTGAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
25 3 0.14
26 9 0.41
27 10 0.45
ACGTcount: A:0.56, C:0.06, G:0.08, T:0.31
Consensus pattern (27 bp):
TTAAATAAATTAAAATAACTGAATAGC
Found at i:215621 original size:3 final size:3
Alignment explanation
Indices: 215589--215651 Score: 71
Period size: 3 Copynumber: 21.7 Consensus size: 3
215579 AACGGAAAAA
*
215589 AAT AA- AAT AA- AAT AAGT AAT AA- AA- AAT AAT AAT AAAT AAT GAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT -AAT AAT AAT
215632 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
215652 ATATAAAAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
2 8 0.15
3 39 0.74
4 6 0.11
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:215657 original size:9 final size:10
Alignment explanation
Indices: 215593--215654 Score: 76
Period size: 10 Copynumber: 6.5 Consensus size: 10
215583 GAAAAAAATA
215593 AAATAA-AAT
1 AAATAATAAT
* *
215602 AAGTAATAAA
1 AAATAATAAT
215612 AAATAATAAT
1 AAATAATAAT
*
215622 AAATAATGAT
1 AAATAATAAT
215632 -AATAATAAT
1 AAATAATAAT
215641 -AATAATAAT
1 AAATAATAAT
215650 AAATA
1 AAATA
215655 TAAAAACTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
9 22 0.49
10 23 0.51
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (10 bp):
AAATAATAAT
Found at i:215757 original size:32 final size:33
Alignment explanation
Indices: 215709--215774 Score: 107
Period size: 32 Copynumber: 2.0 Consensus size: 33
215699 AAAAAAAACA
*
215709 TTTTAAAAATCTATATAATTTTCAAAAATGTTT
1 TTTTAAAAATCCATATAATTTTCAAAAATGTTT
*
215742 TTTTAAAAA-CCATATAATTTTTAAAAATGTTT
1 TTTTAAAAATCCATATAATTTTCAAAAATGTTT
215774 T
1 T
215775 AAAAATTACA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 22 0.71
33 9 0.29
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.48
Consensus pattern (33 bp):
TTTTAAAAATCCATATAATTTTCAAAAATGTTT
Found at i:215897 original size:37 final size:36
Alignment explanation
Indices: 215753--216015 Score: 248
Period size: 37 Copynumber: 7.2 Consensus size: 36
215743 TTTAAAAACC
* * *
215753 ATATA-AT-TTTTAAAAATGTTTTAAAAATTACATA
1 ATATATATATTTTCAAAATGTTTTAAAAACTATATA
* ** *
215787 TTATATATGCTTTCAAAATGTTTTTCAAAAAATTATATA
1 ATATATATATTTTCAAAATG-TTTT--AAAAACTATATA
* *
215826 TTATATATTTATTTTCAAAACGTTTTAAAAACTATATA
1 --ATATATATATTTTCAAAATGTTTTAAAAACTATATA
*
215864 ATATATATATTTTCAAAAATGTTTTGAAAACTATATA
1 ATATATATATTTTC-AAAATGTTTTAAAAACTATATA
* * *
215901 TTATATATCTTTTCAAAAACGTTTT-AAAACTATATA
1 ATATATATATTTTC-AAAATGTTTTAAAAACTATATA
* *
215937 ATATATAAATGTTTTTAAAATGTTTTAAAAACTATAT-
1 ATATAT--ATATTTTCAAAATGTTTTAAAAACTATATA
* * *
215974 AT-CATATATTTTCAAAATGTTTTCAAAATTATATA
1 ATATATATATTTTCAAAATGTTTTAAAAACTATATA
216009 ATATATA
1 ATATATA
216016 AATAAAAAAA
Statistics
Matches: 190, Mismatches: 26, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
34 29 0.15
35 4 0.02
36 43 0.23
37 57 0.30
38 27 0.14
39 11 0.06
40 4 0.02
41 15 0.08
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.45
Consensus pattern (36 bp):
ATATATATATTTTCAAAATGTTTTAAAAACTATATA
Found at i:217020 original size:165 final size:165
Alignment explanation
Indices: 216634--217809 Score: 1799
Period size: 165 Copynumber: 7.1 Consensus size: 165
216624 AAGTTGAATA
** * * **
216634 TAATCGAACTCGAAGGTCTTTAGCAGATAGCCATTCTCGACTTAAGCTAGGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTG
* * *
216699 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTTGTTGGCAGACAACCCTTCTAGACTTAAG
66 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
* * * *
216764 TTGTGCTGCAAATGATATGCCCT-GGAGCTGAGCG
131 TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
* *
216798 TAGTCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGCTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTG
* * ** * * *
216863 TCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTTTTTTGG-TCACAGATAACCCTTCTAGCCTTG
66 -CCTTGGAGCTGAGCGTAGTCGAACTCAAAGG-TCTTTGGTTGGCAGATAACCCTTCTCGACTTA
*
216926 AGTTATGCTGTAAATGATGTGCCCTCGAAGCTGAGTG
129 AGTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
*
216963 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTTTCGACTTAAGCTATACTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTG
217028 CCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAA
66 CC-TTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAA
*
217092 GTTATGCTGCAAATGATGTGCCCTCGAAGCTAAGTG
130 GTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
* *
217128 TAATCGAACTCGGGGGTCTTTGGCAGATAACCCTTTTCGACTTAAGCTATACTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTG
217193 CCGTT-GAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAA
66 CC-TTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAA
217257 GTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
130 GTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
*
217293 TAATTGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTG
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTG
* *
217358 CCTTGGAGCTGAGCGTAGTCGAACTCGAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAT
66 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
217423 TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
131 TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
*
217458 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTT
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTG
* *
217523 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGACAACCCTTCTAGACTTAAG
66 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
* * * *
217588 TTGTGCTGTAAATGATATACCCTCGAAGCTGAGTG
131 TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
* ** *
217623 TAATCGAACTCGAGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATGTTGCAAATGATGTA
1 TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTG
*
217688 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTAGGTT-GCAGATAACCATTCTCGACTTAA
66 CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTT-GGTTGGCAGATAACCCTTCTCGACTTAA
* * * * *
217752 GCTATGCTGCAAATGAAGTGCCTTAG-AGCTGAGCG
130 GTTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
* * **
217787 TAGTCAAACTCGAAGGTCTTTGG
1 TAATCGAACTCGGGGGTCTTTGG
217810 TTGGCAGATA
Statistics
Matches: 938, Mismatches: 67, Indels: 14
0.92 0.07 0.01
Matches are distributed among these distances:
164 163 0.17
165 771 0.82
166 4 0.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (165 bp):
TAATCGAACTCGGGGGTCTTTGGCAGATAGCCCTTCTCGACTTAAGCTATACTGCAAATGATGTG
CCTTGGAGCTGAGCGTAGTCGAACTCAAAGGTCTTTGGTTGGCAGATAACCCTTCTCGACTTAAG
TTATGCTGCAAATGATGTGCCCTCGAAGCTGAGTG
Found at i:221162 original size:18 final size:19
Alignment explanation
Indices: 221122--221166 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
221112 AGTTAATGTG
*
221122 AATGCAAATAAAATAACAA
1 AATGCAAAGAAAATAACAA
221141 AATGCAAAGAAAATAA-AA
1 AATGCAAAGAAAATAACAA
221159 AATGCAAA
1 AATGCAAA
221167 ATGTCTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 10 0.40
19 15 0.60
ACGTcount: A:0.69, C:0.09, G:0.09, T:0.13
Consensus pattern (19 bp):
AATGCAAAGAAAATAACAA
Found at i:222926 original size:9 final size:9
Alignment explanation
Indices: 222912--222936 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
222902 ATAATAAACA
222912 AAAATAAAG
1 AAAATAAAG
222921 AAAATAAAG
1 AAAATAAAG
222930 AAAATAA
1 AAAATAA
222937 GAGGAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (9 bp):
AAAATAAAG
Found at i:224116 original size:3 final size:3
Alignment explanation
Indices: 224084--224146 Score: 71
Period size: 3 Copynumber: 21.7 Consensus size: 3
224074 AACGGGAAAA
*
224084 AAT AA- AAT AA- AAT AAGT AAT AA- AA- AAT AAT AAT AAAT AAT GAT
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT -AAT AAT AAT
224127 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
224147 ATATAAAACT
Statistics
Matches: 53, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
2 8 0.15
3 39 0.74
4 6 0.11
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:224152 original size:9 final size:10
Alignment explanation
Indices: 224088--224149 Score: 76
Period size: 10 Copynumber: 6.5 Consensus size: 10
224078 GGAAAAAATA
224088 AAATAA-AAT
1 AAATAATAAT
* *
224097 AAGTAATAAA
1 AAATAATAAT
224107 AAATAATAAT
1 AAATAATAAT
*
224117 AAATAATGAT
1 AAATAATAAT
224127 -AATAATAAT
1 AAATAATAAT
224136 -AATAATAAT
1 AAATAATAAT
224145 AAATA
1 AAATA
224150 TAAAACTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
9 22 0.49
10 23 0.51
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (10 bp):
AAATAATAAT
Found at i:224344 original size:42 final size:40
Alignment explanation
Indices: 224267--224344 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
224257 AAAATGTTTT
* *
224267 AAAAATTACATATTATATATGCTTTCAAAATGTTTTTTCA
1 AAAAATTACATATTATATATACTTTCAAAACGTTTTTTCA
* *
224307 AAAAATTATATATTATATATTTATTTTCAAAACGTTTT
1 AAAAATTACATATTATATA--TACTTTCAAAACGTTTT
224345 AAAAACTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
40 18 0.56
42 14 0.44
ACGTcount: A:0.41, C:0.08, G:0.04, T:0.47
Consensus pattern (40 bp):
AAAAATTACATATTATATATACTTTCAAAACGTTTTTTCA
Found at i:224349 original size:38 final size:36
Alignment explanation
Indices: 224245--224508 Score: 204
Period size: 37 Copynumber: 7.1 Consensus size: 36
224235 TTTTTAAACC
* *
224245 ATATATT-TTTTAAAAATGTTTTAAAAATTACATAT
1 ATATATTATTTTCAAAATGTTTTAAAAATTATATAT
224280 -TATA-TATGCTTTCAAAATGTTTTTTCAAAAAATTATATATT
1 ATATATTAT--TTTCAAAATG--TTTT--AAAAATTATATA-T
* *
224321 ATATATTTATTTTCAAAACGTTTTAAAAACTATATA-
1 ATATA-TTATTTTCAAAATGTTTTAAAAATTATATAT
* * *
224357 ATATATATATATTCAAAAATGTTTTGAAAACTATATAT
1 ATATAT-TATTTTC-AAAATGTTTTAAAAATTATATAT
* * *
224395 -TATATTTCTTTTCAAAAACGTTTTAAAACTATATAATAT
1 ATATA-TTATTTTC-AAAATGTTTTAAAAAT-TAT-ATAT
*
224434 ATAAATGT-TTTT-AAAATGTTTTAAAAATTATATAT
1 ATATAT-TATTTTCAAAATGTTTTAAAAATTATATAT
* *
224469 -CATA-TATTTTCAAAATGTTTTCAAAATTATATAAT
1 ATATATTATTTTCAAAATGTTTTAAAAATTATAT-AT
224504 ATATA
1 ATATA
224509 AATAAAAAAA
Statistics
Matches: 186, Mismatches: 20, Indels: 45
0.74 0.08 0.18
Matches are distributed among these distances:
32 1 0.01
33 5 0.03
34 27 0.15
35 7 0.04
36 26 0.14
37 56 0.30
38 19 0.10
39 9 0.05
40 19 0.10
41 1 0.01
42 13 0.07
44 3 0.02
ACGTcount: A:0.44, C:0.06, G:0.04, T:0.46
Consensus pattern (36 bp):
ATATATTATTTTCAAAATGTTTTAAAAATTATATAT
Found at i:224423 original size:73 final size:74
Alignment explanation
Indices: 224307--224511 Score: 256
Period size: 74 Copynumber: 2.8 Consensus size: 74
224297 TGTTTTTTCA
*
224307 AAAAATTATATATTATATATTTATTTTCAAAACGTTTTAAAAACTATATAATATATATAT-ATTC
1 AAAAATTATATA-T-TATATTTATTTTCAAAACGTTTTAAAAACTATATAATATATAAATGATTC
224371 AAAAATGTTTT
64 AAAAATGTTTT
* * * * **
224382 GAAAACTATATATTATATTTCTTTTCAAAAACGTTTT-AAAACTATATAATATATAAATGTTTTT
1 AAAAATTATATATTATATTTATTTTC-AAAACGTTTTAAAAACTATATAATATATAAATGATTCA
224446 AAAATGTTTT
65 AAAATGTTTT
* * * *
224456 AAAAATTATATATCATA--TATTTTCAAAATGTTTTCAAAATTATATAATATATAAAT
1 AAAAATTATATATTATATTTATTTTCAAAACGTTTTAAAAACTATATAATATATAAAT
224512 AAAAAAACAA
Statistics
Matches: 114, Mismatches: 13, Indels: 9
0.84 0.10 0.07
Matches are distributed among these distances:
71 9 0.08
72 26 0.23
73 32 0.28
74 37 0.32
75 10 0.09
ACGTcount: A:0.46, C:0.06, G:0.03, T:0.45
Consensus pattern (74 bp):
AAAAATTATATATTATATTTATTTTCAAAACGTTTTAAAAACTATATAATATATAAATGATTCAA
AAATGTTTT
Found at i:224770 original size:2 final size:2
Alignment explanation
Indices: 224763--224799 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
224753 ATTAAAAGGG
224763 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
224800 GGTAATTTAT
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:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:226261 original size:18 final size:17
Alignment explanation
Indices: 226234--226272 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
226224 CCATTTTTTA
*
226234 TTTAGATAAACTATACG
1 TTTAGATAAACTATAAG
*
226251 TTTAGGATAAATTATAAG
1 TTTA-GATAAACTATAAG
226269 TTTA
1 TTTA
226273 ATATCTAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.41, C:0.05, G:0.13, T:0.41
Consensus pattern (17 bp):
TTTAGATAAACTATAAG
Found at i:227221 original size:60 final size:60
Alignment explanation
Indices: 227101--227243 Score: 157
Period size: 60 Copynumber: 2.4 Consensus size: 60
227091 GTATGTACAA
* * * * *
227101 ATAGTTTGGGATGACATTGTAATGTTCAAAAAGTTTAGGGATCCATTTGGAATGAAAGTC
1 ATAGTTTGGGATGAAATTGAAATGTTCAAAAAGTTTAGGGATCAATTTAGAATCAAAGTC
* *
227161 ATGGTTTGGGGATGAAATTGAAATGTTC-AAAAGTTT-GAGGA-CTAATTTAGAATCATAGTC
1 ATAGTTT-GGGATGAAATTGAAATGTTCAAAAAGTTTAG-GGATC-AATTTAGAATCAAAGTC
*
227221 ATAGTTTAGGAATGAAATTGAAA
1 ATAGTTT-GGGATGAAATTGAAA
227244 CATTTATAAG
Statistics
Matches: 70, Mismatches: 10, Indels: 6
0.81 0.12 0.07
Matches are distributed among these distances:
59 2 0.03
60 50 0.71
61 18 0.26
ACGTcount: A:0.36, C:0.06, G:0.24, T:0.33
Consensus pattern (60 bp):
ATAGTTTGGGATGAAATTGAAATGTTCAAAAAGTTTAGGGATCAATTTAGAATCAAAGTC
Found at i:227255 original size:60 final size:60
Alignment explanation
Indices: 227129--227269 Score: 140
Period size: 60 Copynumber: 2.4 Consensus size: 60
227119 GTAATGTTCA
* * * * * * * * * **
227129 AAAAGTTTAGGGATCCATTTGGAATGAAAGTCATGGTTTGGGGATGAAATTGAAATGTTC
1 AAAAGTTTAAGGAACAATTTAGAATCATAGTCATAGTTTAGGAATGAAATTGAAACATTC
* *
227189 AAAAGTTTGAGG-ACTAATTTAGAATCATAGTCATAGTTTAGGAATGAAATTGAAACATTT
1 AAAAGTTTAAGGAAC-AATTTAGAATCATAGTCATAGTTTAGGAATGAAATTGAAACATTC
*
227249 ATAAGTTTAAGGAACAATTTA
1 AAAAGTTTAAGGAACAATTTA
227270 AAATGAGTGT
Statistics
Matches: 64, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
59 1 0.02
60 61 0.95
61 2 0.03
ACGTcount: A:0.39, C:0.06, G:0.22, T:0.33
Consensus pattern (60 bp):
AAAAGTTTAAGGAACAATTTAGAATCATAGTCATAGTTTAGGAATGAAATTGAAACATTC
Found at i:229486 original size:21 final size:21
Alignment explanation
Indices: 229446--229488 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
229436 ATTTTATCGT
* * *
229446 AAAATAAAATGTTAAGGATTA
1 AAAATAAAACGTGAAAGATTA
229467 AAAATAAAACGTGAAAGATTA
1 AAAATAAAACGTGAAAGATTA
229488 A
1 A
229489 TGTTTGATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.60, C:0.02, G:0.14, T:0.23
Consensus pattern (21 bp):
AAAATAAAACGTGAAAGATTA
Found at i:232638 original size:15 final size:15
Alignment explanation
Indices: 232597--232639 Score: 59
Period size: 17 Copynumber: 2.7 Consensus size: 15
232587 ACAAGTAAAA
232597 ACAAAGATTGTTCAT
1 ACAAAGATTGTTCAT
*
232612 GCAAGCAGATTGTTCAT
1 ACAA--AGATTGTTCAT
232629 ACAAAGATTGT
1 ACAAAGATTGT
232640 CACTGTTAGG
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
15 10 0.42
17 14 0.58
ACGTcount: A:0.37, C:0.14, G:0.19, T:0.30
Consensus pattern (15 bp):
ACAAAGATTGTTCAT
Found at i:245190 original size:79 final size:79
Alignment explanation
Indices: 245057--245214 Score: 280
Period size: 79 Copynumber: 2.0 Consensus size: 79
245047 TCATTTTCCC
**
245057 CCTTTTGCTTCTTTTGGTGCTGAAATGTGAATGAGTTCCAAGGTAGATTGTTTTGTAGAAATCAG
1 CCTTTTGCTTCTTTTGGTGCTGAAATGTGAATGAGTTCCAAGGTAGATAATTTTGTAGAAATCAG
245122 TTTACAGTGGCCAA
66 TTTACAGTGGCCAA
* *
245136 CCTTTTGCTTCTTTTGGTGCTGAAATGTGAATGAGTTCCAAGGTAGATAATTTTGTTGAGATCAG
1 CCTTTTGCTTCTTTTGGTGCTGAAATGTGAATGAGTTCCAAGGTAGATAATTTTGTAGAAATCAG
245201 TTTACAGTGGCCAA
66 TTTACAGTGGCCAA
245215 AAGTTCTTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 75 1.00
ACGTcount: A:0.24, C:0.14, G:0.24, T:0.38
Consensus pattern (79 bp):
CCTTTTGCTTCTTTTGGTGCTGAAATGTGAATGAGTTCCAAGGTAGATAATTTTGTAGAAATCAG
TTTACAGTGGCCAA
Found at i:246372 original size:413 final size:413
Alignment explanation
Indices: 245592--246404 Score: 1536
Period size: 413 Copynumber: 2.0 Consensus size: 413
245582 TGTGCTATGC
245592 AGAATCAAGTGACCTGCCAAGGCTAGTAACTCCTTGAACTATTTTTTCAGTAACAACTGTTGGGG
1 AGAATCAAGTGACCTGCCAAGGCTAGTAACTCCTTGAACTATTTTTTCAGTAACAACTGTTGGGG
*
245657 GTAAGGTCCTATAACTCTGGGTCAAGTGCTACTCATTGGTATTAATCTAATATGGGTTTTCAATA
66 GTAAGGTCCTATAACTCTGGGTCAAGTGCTACTCATTGGTATTAATCTAACATGGGTTTTCAATA
245722 TTTTTGAAGTTTCTACATATATTTCATTTAAGAGATCACTTAGGTGCTTTAGGTAAATGAAGAGT
131 TTTTTGAAGTTTCTACATATATTTCATTTAAGAGATCACTTAGGTGCTTTAGGTAAATGAAGAGT
245787 CCAGGTAACACAAATAGGATGTGAGGATTTTTTTGCAGTTCTAATGGTCAGTTGAAAGTTTCAGT
196 CCAGGTAACACAAATAGGATGTGAGGATTTTTTTGCAGTTCTAATGGTCAGTTGAAAGTTTCAGT
*
245852 CTGGCATCTTTATGAAAGGCTAAATCATGAAAAGTTACGTTATAAGATTGCATTTTATCCGTAAA
261 CTGGCATCTTTATGAAAGGCTAAATCATGAAAAGTTACGTTATAAGATTGCATTTTATCCATAAA
*
245917 CATATTTTGTAAGACATTCAATTTCTCCCTGATTTCGTCTTAAGAATAGTCATTAAAATATTCAC
326 CATATTTTGTAAGACATTCAATTTCTCCATGATTTCGTCTTAAGAATAGTCATTAAAATATTCAC
245982 GTTTCAATAGGTTGTAGATGAAA
391 GTTTCAATAGGTTGTAGATGAAA
246005 AGAATCAAGTGACCTGCCAAGGCTAGTAACTCCTTGAACTATTTTTTCAGTAACAACTGTTGGGG
1 AGAATCAAGTGACCTGCCAAGGCTAGTAACTCCTTGAACTATTTTTTCAGTAACAACTGTTGGGG
* *
246070 GTAGGGTCCTGTAACTCTGGGTCAAGTGCTACTCATTGGTATTAATCTAACATGGGTTTTCAATA
66 GTAAGGTCCTATAACTCTGGGTCAAGTGCTACTCATTGGTATTAATCTAACATGGGTTTTCAATA
246135 TTTTTGAAGTTTCTACATATATTTCATTTAAGAGATCACTTAGGTGCTTTAGGTAAATGAAGAGT
131 TTTTTGAAGTTTCTACATATATTTCATTTAAGAGATCACTTAGGTGCTTTAGGTAAATGAAGAGT
* *
246200 CTAGGTAACACATATAGGATGTGAGGATTTTTTTGCAGTTCTAATGGTCAGTTGAAAGTTTCAGT
196 CCAGGTAACACAAATAGGATGTGAGGATTTTTTTGCAGTTCTAATGGTCAGTTGAAAGTTTCAGT
* *
246265 CTGGCATCTTTATGGAAGGCTAAATCATGAAAAGTTACGTTATAAGATTGCATTTTATCTATAAA
261 CTGGCATCTTTATGAAAGGCTAAATCATGAAAAGTTACGTTATAAGATTGCATTTTATCCATAAA
*
246330 CATATTTTGTAAGACATTCAATTTCTCCATGATTTTGTCTTAAGAATAGTCATTAAAATATTCAC
326 CATATTTTGTAAGACATTCAATTTCTCCATGATTTCGTCTTAAGAATAGTCATTAAAATATTCAC
246395 GTTTCAATAG
391 GTTTCAATAG
246405 TCATTTTATT
Statistics
Matches: 390, Mismatches: 10, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
413 390 1.00
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.36
Consensus pattern (413 bp):
AGAATCAAGTGACCTGCCAAGGCTAGTAACTCCTTGAACTATTTTTTCAGTAACAACTGTTGGGG
GTAAGGTCCTATAACTCTGGGTCAAGTGCTACTCATTGGTATTAATCTAACATGGGTTTTCAATA
TTTTTGAAGTTTCTACATATATTTCATTTAAGAGATCACTTAGGTGCTTTAGGTAAATGAAGAGT
CCAGGTAACACAAATAGGATGTGAGGATTTTTTTGCAGTTCTAATGGTCAGTTGAAAGTTTCAGT
CTGGCATCTTTATGAAAGGCTAAATCATGAAAAGTTACGTTATAAGATTGCATTTTATCCATAAA
CATATTTTGTAAGACATTCAATTTCTCCATGATTTCGTCTTAAGAATAGTCATTAAAATATTCAC
GTTTCAATAGGTTGTAGATGAAA
Found at i:246456 original size:19 final size:21
Alignment explanation
Indices: 246397--246456 Score: 74
Period size: 19 Copynumber: 3.0 Consensus size: 21
246387 ATATTCACGT
246397 TTCAATAGTCA-TTTTATT-TG
1 TTCAATA-TCATTTTTATTGTG
*
246417 TTTAATATCATTTTTATTGTG
1 TTCAATATCATTTTTATTGTG
246438 TTCAAT-T-ATTTTTATTGTG
1 TTCAATATCATTTTTATTGTG
246457 ATGACAAACA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
19 15 0.42
20 14 0.39
21 7 0.19
ACGTcount: A:0.23, C:0.07, G:0.10, T:0.60
Consensus pattern (21 bp):
TTCAATATCATTTTTATTGTG
Found at i:250726 original size:24 final size:25
Alignment explanation
Indices: 250678--250726 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
250668 GTATTTATTA
** *
250678 TTATTTTTTAATTTTTATCAGATTT
1 TTATTTTTTAATTTTTAAAAAATTT
250703 TTATTTTTT-ATTTTTAAAAAATTT
1 TTATTTTTTAATTTTTAAAAAATTT
250727 ACCTTTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (25 bp):
TTATTTTTTAATTTTTAAAAAATTT
Found at i:251420 original size:7 final size:7
Alignment explanation
Indices: 251408--251438 Score: 53
Period size: 7 Copynumber: 4.3 Consensus size: 7
251398 CGACCTTTCT
251408 TTAAATA
1 TTAAATA
251415 TTAAATA
1 TTAAATA
251422 TTAAATA
1 TTAAATA
251429 TTAAACTA
1 TTAAA-TA
251437 TT
1 TT
251439 TCAAATAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 19 0.83
8 4 0.17
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (7 bp):
TTAAATA
Found at i:257870 original size:2 final size:2
Alignment explanation
Indices: 257863--257890 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
257853 TGCTTATTTG
257863 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
257891 GTACATGTGT
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:261806 original size:33 final size:30
Alignment explanation
Indices: 261777--261833 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
261767 TTTACCTTAA
261777 TAATATATAAGAAACCAACAGCAGATACCT
1 TAATATATAAGAAACCAACAGCAGATACCT
* *
261807 TGATATATAAGAAACTAACAGCAGATA
1 TAATATATAAGAAACCAACAGCAGATA
261834 AGACCTTGAC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.51, C:0.16, G:0.12, T:0.21
Consensus pattern (30 bp):
TAATATATAAGAAACCAACAGCAGATACCT
Found at i:270600 original size:23 final size:23
Alignment explanation
Indices: 270571--270634 Score: 92
Period size: 23 Copynumber: 2.8 Consensus size: 23
270561 ACCAGCTCGT
270571 AAATGCACCGAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
* * **
270594 AATTGCACCGTAGTGCCGTGTAG
1 AAATGCACCGAAGTGCCACGTAG
270617 AAATGCACCGAAGTGCCA
1 AAATGCACCGAAGTGCCA
270635 TATAAGGTTG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.31, C:0.25, G:0.27, T:0.17
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:275588 original size:2 final size:2
Alignment explanation
Indices: 275583--275612 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
275573 CACATATGCA
275583 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
275613 CATTACATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:275955 original size:23 final size:23
Alignment explanation
Indices: 275929--275997 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
275919 CACCACAGCT
*
275929 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
275952 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
275975 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
275998 TATAAGGTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Done.