Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005250.1 Hibiscus syriacus cultivar Beakdansim tig00011874_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: 190534
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
File 1 of 2
Found at i:3141 original size:18 final size:17
Alignment explanation
Indices: 3099--3140 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
3089 AGCAAGAGAA
3099 TGAAAAAATAGGTGAAG
1 TGAAAAAATAGGTGAAG
* *
3116 TGGAAAAATAGGTGACG
1 TGAAAAAATAGGTGAAG
3133 TGAAAAAA
1 TGAAAAAA
3141 AAAAAGGGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.52, C:0.02, G:0.29, T:0.17
Consensus pattern (17 bp):
TGAAAAAATAGGTGAAG
Found at i:3323 original size:39 final size:38
Alignment explanation
Indices: 3279--3522 Score: 151
Period size: 39 Copynumber: 6.3 Consensus size: 38
3269 TACAAAAATG
3279 CCACTAAAGTTATGAGTCTTAACGGCGTTTGTATAAAA-A
1 CCACTAAAG-TAT-AGTCTTAACGGCGTTTGTATAAAACA
* * *
3318 CCACTAAAGTACTAGTCTATAACAGCGTTTTTATAAACACG
1 CCACTAAAGTA-TAGTCT-TAACGGCGTTTGTATAAA-ACA
* ** *
3359 CCACTAAAGTACAGTCTTTGGCGGCGTTTGTATAAAACG
1 CCACTAAAGTATAGTC-TTAACGGCGTTTGTATAAAACA
* * *
3398 CCTCTAAAGTACTAGTCTTTAGCGGCATTTGT-TCAAAA-A
1 CCACTAAAGTA-TAGTC-TTAACGGCGTTTGTAT-AAAACA
* * * *
3437 CGTCACTAAAGTACATTCTTTGA-GGCGTTTG--TAAAACG
1 C--CACTAAAGTATAGTC-TTAACGGCGTTTGTATAAAACA
* ** *
3475 CCACTAAAGT-TAGTCTTTAGCGGCGTTTGTCCAAAACG
1 CCACTAAAGTATAGTC-TTAACGGCGTTTGTATAAAACA
*
3513 CCATTAAAGT
1 CCACTAAAGT
3523 TCAAGTGTTT
Statistics
Matches: 166, Mismatches: 26, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
35 6 0.04
36 17 0.10
37 4 0.02
38 24 0.14
39 48 0.29
40 46 0.28
41 21 0.13
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (38 bp):
CCACTAAAGTATAGTCTTAACGGCGTTTGTATAAAACA
Found at i:3386 original size:40 final size:40
Alignment explanation
Indices: 3197--3556 Score: 216
Period size: 40 Copynumber: 9.2 Consensus size: 40
3187 GTCTGTAAAA
** * * *
3197 AAAACGCCACTAAAGTAAGACTCTATAGC-GCGTTTGTTCT
1 AAAACGCCACTAAAGTACTAGTCTTTAGCGGCGTTT-TTAT
* * *
3237 AAAAACGCCACT-AAGCA-TA--CTATAGC-GCG-TTTTACA
1 -AAAACGCCACTAAAGTACTAGTCTTTAGCGGCGTTTTTA-T
* * *
3273 AAAATGCCACTAAAGTTA-TGAGTC-TTAACGGCGTTTGTAT
1 AAAACGCCACTAAAG-TACT-AGTCTTTAGCGGCGTTTTTAT
* * * *
3313 AAAA-ACCACTAAAGTACTAGTCTATAACAGCGTTTTTAT
1 AAAACGCCACTAAAGTACTAGTCTTTAGCGGCGTTTTTAT
* *
3352 AAACACGCCACTAAAGTAC-AGTCTTTGGCGGCGTTTGTAT
1 AAA-ACGCCACTAAAGTACTAGTCTTTAGCGGCGTTTTTAT
* *
3392 AAAACGCCTCTAAAGTACTAGTCTTTAGCGGCATTTGTTCA-
1 AAAACGCCACTAAAGTACTAGTCTTTAGCGGCGTTT-TT-AT
* * * *
3433 AAAACGTCACTAAAGTAC-ATTCTTT-GAGGCG--TTTGT
1 AAAACGCCACTAAAGTACTAGTCTTTAGCGGCGTTTTTAT
* **
3469 AAAACGCCACTAAAGT--TAGTCTTTAGCGGCGTTTGTCC
1 AAAACGCCACTAAAGTACTAGTCTTTAGCGGCGTTTTTAT
* * * * * *
3507 AAAACGCCATTAAAGTTCAAGTGTTTTGCGGCGTTTGTTCT
1 AAAACGCCACTAAAGTACTAGTCTTTAGCGGCGTTT-TTAT
3548 AAAAACGCC
1 -AAAACGCC
3557 GCTATAAACC
Statistics
Matches: 253, Mismatches: 42, Indels: 47
0.74 0.12 0.14
Matches are distributed among these distances:
35 18 0.07
36 27 0.11
37 13 0.05
38 24 0.09
39 48 0.19
40 68 0.27
41 46 0.18
42 9 0.04
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (40 bp):
AAAACGCCACTAAAGTACTAGTCTTTAGCGGCGTTTTTAT
Found at i:3444 original size:80 final size:79
Alignment explanation
Indices: 3196--3544 Score: 280
Period size: 80 Copynumber: 4.5 Consensus size: 79
3186 CGTCTGTAAA
* * *
3196 AAAAACGCCACTAAAGTA-AGACTCTATAGC-GCGTTTGTTCTAAAAACGCCACT-AAGCA-TA-
1 AAAAACGCCACTAAAGTACAG--TCT-TTGCGGCGTTTG-TAT-AAAACGCCACTAAAGTACTAG
* *
3256 -CTATAGC-GCGTTT-TAC
61 TCTTTAGCGGCGTTTGTTC
* * ** *
3272 AAAAATGCCACTAAAGTTATGAGTCTTAACGGCGTTTGTATAAAA-ACCACTAAAGTACTAGTCT
1 AAAAACGCCACTAAAG-TA-CAGTCTTTGCGGCGTTTGTATAAAACGCCACTAAAGTACTAGTCT
* * *
3336 ATAACAGCGTTT-TT-
64 TTAGCGGCGTTTGTTC
*
3350 ATAAACACGCCACTAAAGTACAGTCTTTGGCGGCGTTTGTATAAAACGCCTCTAAAGTACTAGTC
1 A-AAA-ACGCCACTAAAGTACAGTCTTT-GCGGCGTTTGTATAAAACGCCACTAAAGTACTAGTC
*
3415 TTTAGCGGCATTTGTTC
63 TTTAGCGGCGTTTGTTC
* * *
3432 AAAAACGTCACTAAAGTACATTCTTTGAGGCGTTTG--TAAAACGCCACTAAAGT--TAGTCTTT
1 AAAAACGCCACTAAAGTACAGTCTTTGCGGCGTTTGTATAAAACGCCACTAAAGTACTAGTCTTT
3493 AGCGGCGTTTG-TC
66 AGCGGCGTTTGTTC
* * * *
3506 CAAAACGCCATTAAAGTTCAAGTGTTTTGCGGCGTTTGT
1 AAAAACGCCACTAAAGTAC-AGT-CTTTGCGGCGTTTGT
3545 TCTAAAAACG
Statistics
Matches: 226, Mismatches: 29, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
74 22 0.10
75 28 0.12
76 34 0.15
77 28 0.12
78 13 0.06
79 39 0.17
80 56 0.25
81 5 0.02
82 1 0.00
ACGTcount: A:0.32, C:0.20, G:0.18, T:0.30
Consensus pattern (79 bp):
AAAAACGCCACTAAAGTACAGTCTTTGCGGCGTTTGTATAAAACGCCACTAAAGTACTAGTCTTT
AGCGGCGTTTGTTC
Found at i:4110 original size:37 final size:37
Alignment explanation
Indices: 4057--4160 Score: 147
Period size: 36 Copynumber: 2.8 Consensus size: 37
4047 CCTTTTCGTC
*
4057 CTACTAGGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* * *
4094 TTGCTAGGATTTAAACTCCT-AAAATAGGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
* *
4130 CTACTATGATTTAAACTCCTAAAGATAGGAT
1 CTACTAGGATTTAAACTCCTAAAAATAGGAT
4161 CCACAAGCAC
Statistics
Matches: 58, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
36 32 0.55
37 26 0.45
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.31
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
Found at i:4851 original size:12 final size:11
Alignment explanation
Indices: 4829--4858 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
4819 TCTTTCTTTT
4829 TATTATTCTTG
1 TATTATTCTTG
4840 TATTATTACTTG
1 TATTATT-CTTG
4852 TATTATT
1 TATTATT
4859 TTTTTATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (11 bp):
TATTATTCTTG
Found at i:4880 original size:2 final size:2
Alignment explanation
Indices: 4875--4905 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
4865 TTTATTTTGT
4875 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
4906 GCGTATGTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5097 original size:2 final size:2
Alignment explanation
Indices: 5092--5120 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5082 CATTTACTAT
5092 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5121 TCTACAGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5377 original size:2 final size:2
Alignment explanation
Indices: 5372--5402 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
5362 CTTTTTTCAT
5372 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5403 TATTCGTACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5448 original size:22 final size:21
Alignment explanation
Indices: 5416--5493 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 21
5406 TCGTACTTTG
5416 TTATTATTTTTGTTTTATTTATT
1 TTATT-TTTTT-TTTTATTTATT
* *
5439 TTCTTTTTTTTTTTATATATT
1 TTATTTTTTTTTTTATTTATT
*
5460 TTATTATTTTTTTTTACTTACTT
1 TTATT-TTTTTTTTTATTTA-TT
*
5483 TTATCTTTTTT
1 TTATTTTTTTT
5494 CTTCATTTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 5
0.81 0.10 0.09
Matches are distributed among these distances:
21 14 0.30
22 23 0.49
23 10 0.21
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (21 bp):
TTATTTTTTTTTTTATTTATT
Found at i:5449 original size:23 final size:22
Alignment explanation
Indices: 5416--5493 Score: 77
Period size: 21 Copynumber: 3.5 Consensus size: 22
5406 TCGTACTTTG
*
5416 TTATTATTTTTGTTTTATTTATT
1 TTATT-TTTTTTTTTTATTTATT
* *
5439 TT-CTTTTTTTTTTTATATATT
1 TTATTTTTTTTTTTTATTTATT
* *
5460 TTATTATTTTTTTTTACTTACTT
1 TTATTTTTTTTTTTTATTTA-TT
*
5483 TTATCTTTTTT
1 TTATTTTTTTT
5494 CTTCATTTTA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
21 17 0.39
22 14 0.32
23 13 0.30
ACGTcount: A:0.15, C:0.05, G:0.01, T:0.78
Consensus pattern (22 bp):
TTATTTTTTTTTTTTATTTATT
Found at i:5519 original size:18 final size:18
Alignment explanation
Indices: 5471--5519 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
5461 TATTATTTTT
* *
5471 TTTTACTTACTTTTATCT
1 TTTTACTTAATTTTATCA
* *
5489 TTTTTCTTCATTTTATCA
1 TTTTACTTAATTTTATCA
5507 TTTTACTTAATTT
1 TTTTACTTAATTT
5520 GTTTTCTTTT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.18, C:0.14, G:0.00, T:0.67
Consensus pattern (18 bp):
TTTTACTTAATTTTATCA
Found at i:7292 original size:12 final size:12
Alignment explanation
Indices: 7275--7305 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
7265 TTGAATCGGA
7275 TAATTTAAATTT
1 TAATTTAAATTT
7287 TAATTTAAATTT
1 TAATTTAAATTT
7299 TCAATTT
1 T-AATTT
7306 TCGTAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (12 bp):
TAATTTAAATTT
Found at i:10240 original size:16 final size:15
Alignment explanation
Indices: 10205--10261 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
10195 AGATCCAATC
10205 AAGAACAAAAAAGAA
1 AAGAACAAAAAAGAA
10220 AAGAAGCAAAAAA-AA
1 AAGAA-CAAAAAAGAA
*
10235 AGAGAA-AAAAGAGAAA
1 A-AGAACAAAAAAG-AA
10251 CAAGAACAAAA
1 -AAGAACAAAA
10262 GGAAAAAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 5 0.14
15 8 0.23
16 17 0.49
17 5 0.14
ACGTcount: A:0.77, C:0.07, G:0.16, T:0.00
Consensus pattern (15 bp):
AAGAACAAAAAAGAA
Found at i:10266 original size:25 final size:24
Alignment explanation
Indices: 10204--10268 Score: 64
Period size: 25 Copynumber: 2.8 Consensus size: 24
10194 AAGATCCAAT
* *
10204 CAAGAACAAAA--AAGAAAAGAAG
1 CAAGAACAAAAGGAAAAAAAGAAA
*
10226 CAA-AAAAAAAGAGAAAAAAGAGAAA
1 CAAGAACAAAAG-GAAAAAA-AGAAA
10251 CAAGAACAAAAGGAAAAA
1 CAAGAACAAAAGGAAAAA
10269 GAAATCAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 7
0.76 0.09 0.16
Matches are distributed among these distances:
21 6 0.18
22 3 0.09
24 5 0.15
25 13 0.38
26 7 0.21
ACGTcount: A:0.75, C:0.08, G:0.17, T:0.00
Consensus pattern (24 bp):
CAAGAACAAAAGGAAAAAAAGAAA
Found at i:11827 original size:36 final size:36
Alignment explanation
Indices: 11776--11844 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
11766 TTAAAAGAAG
* *
11776 ATTTTGTCTCGCTTGAGATAGTTTCCCTTGAAACAA
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAA
*
11812 ATTTTGTCTCCCTTGAGACAGTTTCTCTTGAAA
1 ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAA
11845 AATAAACTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (36 bp):
ATTTTGTCTCCCTTGAGACAGTTTCCCTTGAAACAA
Found at i:12305 original size:106 final size:106
Alignment explanation
Indices: 12181--12706 Score: 677
Period size: 106 Copynumber: 5.0 Consensus size: 106
12171 ATCGTGCCAT
* * * *
12181 TCAAGAAAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAATTTCCCAA
1 TCAAGACAACACAAGCTCAACTTCACAACGAAGGGGCGGCTGATTGTCAACAAACAATTTCCCAA
12246 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
66 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
* * * * * * * *
12287 TCAAGACAACACAAGTTCAACTTCACAACAAAGGGACGGCTGGTTGTCAATAAACAATTTTCTAG
1 TCAAGACAACACAAGCTCAACTTCACAACGAAGGGGCGGCTGATTGTCAACAAACAATTTCCCAA
*
12352 TTTCAGAGCCAATTTCAACTTCACTGCGAAGGATATTGGAC
66 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
* * * *
12393 TCAAGACAACACAAGCTCAACTTCACAGCGAAGGGGCGGCTGACTGTCAACAAACAACTTCCTAA
1 TCAAGACAACACAAGCTCAACTTCACAACGAAGGGGCGGCTGATTGTCAACAAACAATTTCCCAA
* *
12458 TTTCATAGCCAATTTCAACTTCCCAGCGAAGGATATTGGAC
66 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
* *
12499 CCAAGACAACACAAGCTCAACTTCACGACGAAGGGGCGGCTGATTGTCAAC-AA-AATTT--C-A
1 TCAAGACAACACAAGCTCAACTTCACAACGAAGGGGCGGCTGATTGTCAACAAACAATTTCCCAA
* * * *
12559 -TTCAGAGTCAATTTCAAATTCACAACGAAGGATATTAGAC
66 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
* * * * * * * * *
12599 TCGAGACAGCACAAGATCAACTTAACAGCGAAGGGGCGACTGACTGTCAACAAATAATTTCCCAG
1 TCAAGACAACACAAGCTCAACTTCACAACGAAGGGGCGGCTGATTGTCAACAAACAATTTCCCAA
* * *
12664 TTCCAGAACCAATTTCAACTTCACAGCGGAGGATATTGGAC
66 TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
12705 TC
1 TC
12707 GGAACAATAC
Statistics
Matches: 365, Mismatches: 49, Indels: 12
0.86 0.12 0.03
Matches are distributed among these distances:
100 76 0.21
101 3 0.01
102 5 0.01
104 5 0.01
105 2 0.01
106 274 0.75
ACGTcount: A:0.36, C:0.24, G:0.18, T:0.22
Consensus pattern (106 bp):
TCAAGACAACACAAGCTCAACTTCACAACGAAGGGGCGGCTGATTGTCAACAAACAATTTCCCAA
TTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGGAC
Found at i:13146 original size:17 final size:18
Alignment explanation
Indices: 13124--13158 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
13114 TTGTCGTTAC
13124 ACGACAAT-GAGCAAAGA
1 ACGACAATAGAGCAAAGA
13141 ACGACAATAGAGCAAAGA
1 ACGACAATAGAGCAAAGA
13159 GGGGCAGCTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.54, C:0.17, G:0.23, T:0.06
Consensus pattern (18 bp):
ACGACAATAGAGCAAAGA
Found at i:14492 original size:5 final size:5
Alignment explanation
Indices: 14482--14513 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
14472 ATTTTGGTCC
14482 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
14514 ATTTTACTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:14611 original size:56 final size:57
Alignment explanation
Indices: 14482--14617 Score: 131
Period size: 56 Copynumber: 2.4 Consensus size: 57
14472 ATTTTGGTCC
* * * *
14482 TTTTATTTTAT-TTTATTTTA--TTTTATTTTATTATTTTACTCTTTTACTAACTTTA
1 TTTTCTTTTATATTTATTTTATTTTTTATTTTATTATATTAATATTTTACT-ACTTTA
** *
14537 TTTTCTTTGGTATCTATTTTATTTTTTATTATTATTATATTAATATTTT-CT-CTTT-
1 TTTTCTTTTATATTTATTTTATTTTTTATT-TTATTATATTAATATTTTACTACTTTA
14592 TTTCTCTTTTATATTTATTTTTATTT
1 TTT-TCTTTTATATTTA-TTTTATTT
14618 ACAATCTAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 10
0.76 0.12 0.12
Matches are distributed among these distances:
55 11 0.17
56 22 0.34
57 8 0.12
58 9 0.14
59 15 0.23
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.71
Consensus pattern (57 bp):
TTTTCTTTTATATTTATTTTATTTTTTATTTTATTATATTAATATTTTACTACTTTA
Found at i:14705 original size:12 final size:12
Alignment explanation
Indices: 14688--14718 Score: 53
Period size: 12 Copynumber: 2.5 Consensus size: 12
14678 TTGAATCGGA
14688 TAATTTAAATTT
1 TAATTTAAATTT
14700 TAATTTAAATTT
1 TAATTTAAATTT
14712 TCAATTT
1 T-AATTT
14719 TCGCAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 13 0.72
13 5 0.28
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (12 bp):
TAATTTAAATTT
Found at i:20095 original size:165 final size:165
Alignment explanation
Indices: 19816--20145 Score: 500
Period size: 165 Copynumber: 2.0 Consensus size: 165
19806 GAAATCAACG
19816 TCGGGTACACCTTAAAGCCACATACAAATATGGTTGAATATAGACCAGATTGCTGAAGATATAGA
1 TCGGGTACACCTTAAAGCCACATACAAATATGGTTGAATATAGACCAGATTGCTGAAGATATAGA
* * ** *
19881 ATCACCCGCTTATGCAAATCTCTCGATGTCATTTTGCGTTGACGAATGCTATGTTCTTCTTCCGG
66 ATCACCCGCTTATGCAAATCTCTCAATGTCATCTTAAGCTGACGAATGCTATGTTCTTCTTCCGG
* *
19946 ACAGAGTTCGATCGAC-AAGATATGAACATTATCGA
131 ACAGAGTTCAATCAACGAA-ATATGAACATTATCGA
* * *
19981 TCGGGTACACCTTAAAGCCACGTACAAATATGGTTGGATATAGACCAGATTGTTGAAGATATAGA
1 TCGGGTACACCTTAAAGCCACATACAAATATGGTTGAATATAGACCAGATTGCTGAAGATATAGA
** * * *
20046 ATCATTCGCTTATGCAGATCTCTCAATGTCATCTTAAGCTGATGAATGCTCTGTTCTTCTTCCGG
66 ATCACCCGCTTATGCAAATCTCTCAATGTCATCTTAAGCTGACGAATGCTATGTTCTTCTTCCGG
*
20111 ACGGAGTTCAATCAACGAAATATGAACATTATCGA
131 ACAGAGTTCAATCAACGAAATATGAACATTATCGA
20146 GGCATAACAT
Statistics
Matches: 148, Mismatches: 16, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
165 146 0.99
166 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (165 bp):
TCGGGTACACCTTAAAGCCACATACAAATATGGTTGAATATAGACCAGATTGCTGAAGATATAGA
ATCACCCGCTTATGCAAATCTCTCAATGTCATCTTAAGCTGACGAATGCTATGTTCTTCTTCCGG
ACAGAGTTCAATCAACGAAATATGAACATTATCGA
Found at i:20448 original size:21 final size:21
Alignment explanation
Indices: 20423--20462 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
20413 GGAAATGTTA
* *
20423 AAAAACATTAATGTTTTAGGT
1 AAAAACAATAATATTTTAGGT
*
20444 AAAAATAATAATATTTTAG
1 AAAAACAATAATATTTTAG
20463 ATAATTTTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.03, G:0.10, T:0.38
Consensus pattern (21 bp):
AAAAACAATAATATTTTAGGT
Found at i:21047 original size:12 final size:12
Alignment explanation
Indices: 21015--21054 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
21005 TTCAAAGAAA
21015 TTAAAA-TTA-T
1 TTAAAATTTATT
*
21025 TT-AAATCTATT
1 TTAAAATTTATT
21036 TTAAAATTTATT
1 TTAAAATTTATT
21048 TTAAAAT
1 TTAAAAT
21055 ATGGATTGAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
9 3 0.12
10 4 0.16
11 3 0.12
12 15 0.60
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (12 bp):
TTAAAATTTATT
Found at i:21066 original size:22 final size:22
Alignment explanation
Indices: 21041--21362 Score: 423
Period size: 22 Copynumber: 14.6 Consensus size: 22
21031 CTATTTTAAA
21041 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
** ***
21063 ATTTTATTTTAAAATAAAGAAAA
1 A-TTTATTTTAAAATATGGATTG
21086 ATTTATTTTAAAATATGGATT-
1 ATTTATTTTAAAATATGGATTG
* *
21107 TTTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATGGATTG
21129 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
21151 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
21173 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATGGATTG
* **
21195 ATTTATTTTAAAATACGGGA-AA
1 ATTTATTTTAAAATA-TGGATTG
21217 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
*
21239 ATTTATTTTAAAATACGGGATTG
1 ATTTATTTTAAAATA-TGGATTG
21262 ATTTATTTTAAAATATGGATTG
1 ATTTATTTTAAAATATGGATTG
* * ***
21284 AATTATTTTAAAATATGAAAAA
1 ATTTATTTTAAAATATGGATTG
* *
21306 ATTTATTTTAAATTATGAATTG
1 ATTTATTTTAAAATATGGATTG
*
21328 ATTTATTTTAAAATATAGATTG
1 ATTTATTTTAAAATATGGATTG
21350 ATTTATTTTAAAA
1 ATTTATTTTAAAA
21363 AATTTATTAT
Statistics
Matches: 259, Mismatches: 36, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
21 22 0.08
22 197 0.76
23 40 0.15
ACGTcount: A:0.41, C:0.01, G:0.11, T:0.48
Consensus pattern (22 bp):
ATTTATTTTAAAATATGGATTG
Found at i:21443 original size:31 final size:31
Alignment explanation
Indices: 21386--21444 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
21376 AGTTGTATGG
*
21386 ATTATTTAAATTTCAGTATTATAAAACTAAA
1 ATTATTTAAATTTCAGTATTACAAAACTAAA
*
21417 ATTATTTAAATTTCAGTATTGCAAAACT
1 ATTATTTAAATTTCAGTATTACAAAACT
21445 CTTTTAAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.44, C:0.08, G:0.05, T:0.42
Consensus pattern (31 bp):
ATTATTTAAATTTCAGTATTACAAAACTAAA
Found at i:23189 original size:5 final size:5
Alignment explanation
Indices: 23179--23203 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
23169 TTAATTACGT
23179 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
23204 TATCCGGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:30650 original size:3 final size:3
Alignment explanation
Indices: 30642--30704 Score: 83
Period size: 3 Copynumber: 20.7 Consensus size: 3
30632 ATTTTATTTA
*
30642 TAT TAT TAT TAT TAT TAT TA- TAT TATT TAT TAT ATAT TTT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT -TAT TAT TAT TAT
*
30688 TAA TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TA
30705 CAAACAGGCC
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
2 2 0.04
3 45 0.85
4 6 0.11
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:30650 original size:12 final size:12
Alignment explanation
Indices: 30635--30700 Score: 64
Period size: 12 Copynumber: 5.4 Consensus size: 12
30625 TGTCCCGATT
30635 TTATTTATATTA
1 TTATTTATATTA
30647 TTA-TTATTATTA
1 TTATTTA-TATTA
30659 TTATATTAT-TTA
1 TTAT-TTATATTA
* *
30671 TTATATATTTTTA
1 TTATTTA-TATTA
*
30684 TTATTAATATTA
1 TTATTTATATTA
30696 TTATT
1 TTATT
30701 ATTACAAACA
Statistics
Matches: 45, Mismatches: 4, Indels: 10
0.76 0.07 0.17
Matches are distributed among these distances:
11 5 0.11
12 28 0.62
13 9 0.20
14 3 0.07
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTATTTATATTA
Found at i:32092 original size:23 final size:24
Alignment explanation
Indices: 32065--32136 Score: 78
Period size: 23 Copynumber: 3.0 Consensus size: 24
32055 TTTTACTTTC
32065 ATTTATTATAGT-TAT-TATTTAAA
1 ATTTATTATA-TATATATATTTAAA
32088 ATTTA-TATATATATATATTTAAA
1 ATTTATTATATATATATATTTAAA
* *
32111 ATATTATTATTATAAATATATATAAA
1 AT-TTATTA-TATATATATATTTAAA
32137 TAATATTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
21 1 0.02
22 7 0.17
23 15 0.36
24 3 0.07
25 2 0.05
26 14 0.33
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.51
Consensus pattern (24 bp):
ATTTATTATATATATATATTTAAA
Found at i:32151 original size:30 final size:29
Alignment explanation
Indices: 32088--32151 Score: 71
Period size: 28 Copynumber: 2.2 Consensus size: 29
32078 ATTATTTAAA
* *
32088 ATTTA-TATATATATATATTTAAAATATT
1 ATTTATTATAAATATATATTAAAAATATT
32116 A-TTATTATAAATATATA-TAAATAATATTT
1 ATTTATTATAAATATATATTAAA-AATA-TT
32145 ATTTATT
1 ATTTATT
32152 TTATTATTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
27 6 0.20
28 16 0.53
29 3 0.10
30 5 0.17
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (29 bp):
ATTTATTATAAATATATATTAAAAATATT
Found at i:34449 original size:8 final size:7
Alignment explanation
Indices: 34425--34466 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
34415 TTTTCATACA
34425 TGCA-TT
1 TGCATTT
34431 TGCATTT
1 TGCATTT
34438 TGCATCTT
1 TGCAT-TT
34446 TGCATTT
1 TGCATTT
* *
34453 TTCATTG
1 TGCATTT
34460 TGCATTT
1 TGCATTT
34467 ATACTTTTAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
6 4 0.13
7 19 0.63
8 7 0.23
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (7 bp):
TGCATTT
Found at i:34449 original size:15 final size:14
Alignment explanation
Indices: 34425--34466 Score: 50
Period size: 15 Copynumber: 3.0 Consensus size: 14
34415 TTTTCATACA
34425 TGCA-TTTGCATTT
1 TGCATTTTGCATTT
34438 TGCATCTTTGCATTT
1 TGCAT-TTTGCATTT
* *
34453 TTCATTGTGCATTT
1 TGCATTTTGCATTT
34467 ATACTTTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 4 0.16
14 8 0.32
15 13 0.52
ACGTcount: A:0.14, C:0.17, G:0.14, T:0.55
Consensus pattern (14 bp):
TGCATTTTGCATTT
Found at i:34562 original size:27 final size:27
Alignment explanation
Indices: 34526--34585 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
34516 CATTCACATA
34526 TTTACATTTGCATTTACATTTGCATTT
1 TTTACATTTGCATTTACATTTGCATTT
* * *
34553 TTTACGTTTGTATTTACATTTTCA-TT
1 TTTACATTTGCATTTACATTTGCATTT
34579 TTTACAT
1 TTTACAT
34586 AATTACATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.13, G:0.07, T:0.58
Consensus pattern (27 bp):
TTTACATTTGCATTTACATTTGCATTT
Found at i:34579 original size:12 final size:12
Alignment explanation
Indices: 34525--34552 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34515 ACATTCACAT
34525 ATTTACATTTGC
1 ATTTACATTTGC
34537 ATTTACATTTGC
1 ATTTACATTTGC
34549 ATTT
1 ATTT
34553 TTTACGTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.14, G:0.07, T:0.54
Consensus pattern (12 bp):
ATTTACATTTGC
Found at i:36207 original size:2 final size:2
Alignment explanation
Indices: 36200--36229 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
36190 ATCCTTTTAA
36200 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
36230 CCTTTGTTGT
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:36551 original size:1 final size:1
Alignment explanation
Indices: 36540--36632 Score: 87
Period size: 1 Copynumber: 93.0 Consensus size: 1
36530 AAGAAGAAGG
* * ** * * * *
36540 AAAAAAGAAAAAAAAATAAAAAGGAAAAAAAAGAAAAAGAAAAAAAAAAAAAGAAAAAAAGAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* * *
36605 AAAGAAAAAAAGAAAAAAAGAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
36633 GGAAAATTAA
Statistics
Matches: 72, Mismatches: 20, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
1 72 1.00
ACGTcount: A:0.88, C:0.00, G:0.11, T:0.01
Consensus pattern (1 bp):
A
Found at i:36568 original size:24 final size:24
Alignment explanation
Indices: 36525--36638 Score: 146
Period size: 24 Copynumber: 4.7 Consensus size: 24
36515 CTCATCCAGC
36525 AAAGAAAGAAGAAGGAAAAAAGAAAA
1 AAAGAAA-AA-AAGGAAAAAAGAAAA
36551 AAA-AATAAAAAGGAAAAAA-AAGAA
1 AAAGAA-AAAAAGGAAAAAAGAA-AA
36575 AAAGAAAAAAA--AAAAAAGAAAA
1 AAAGAAAAAAAGGAAAAAAGAAAA
*
36597 AAAGAAAAAAAGAAAAAAAGAAAA
1 AAAGAAAAAAAGGAAAAAAGAAAA
36621 AAAGAAAAAAAAGGAAAA
1 AAAG-AAAAAAAGGAAAA
36639 TTAAATCAAG
Statistics
Matches: 80, Mismatches: 1, Indels: 15
0.83 0.01 0.16
Matches are distributed among these distances:
22 19 0.24
23 4 0.05
24 35 0.44
25 18 0.22
26 4 0.05
ACGTcount: A:0.84, C:0.00, G:0.15, T:0.01
Consensus pattern (24 bp):
AAAGAAAAAAAGGAAAAAAGAAAA
Found at i:36592 original size:46 final size:46
Alignment explanation
Indices: 36540--36632 Score: 145
Period size: 46 Copynumber: 2.0 Consensus size: 46
36530 AAGAAGAAGG
*
36540 AAAAAAGAAAAAAA-AATAAAAAGGAAAAAAA-AGAAAAAGAAAAAAA
1 AAAAAAGAAAAAAAGAA-AAAAA-GAAAAAAAGAAAAAAAGAAAAAAA
36586 AAAAAAGAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAA
1 AAAAAAGAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAA
36632 A
1 A
36633 GGAAAATTAA
Statistics
Matches: 44, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
45 8 0.18
46 34 0.77
47 2 0.05
ACGTcount: A:0.88, C:0.00, G:0.11, T:0.01
Consensus pattern (46 bp):
AAAAAAGAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAAGAAAAAAA
Found at i:36638 original size:8 final size:8
Alignment explanation
Indices: 36525--36631 Score: 132
Period size: 8 Copynumber: 13.4 Consensus size: 8
36515 CTCATCCAGC
36525 AAAGAAAGA
1 AAAGAAA-A
*
36534 AGAAGGAAA
1 A-AAGAAAA
36543 AAAGAAAA
1 AAAGAAAA
36551 AAA-AATAA
1 AAAGAA-AA
36559 AAAGGAAAA
1 AAA-GAAAA
*
36568 AAA-AGAA
1 AAAGAAAA
36575 AAAG-AAA
1 AAAGAAAA
36582 AAA-AAAA
1 AAAGAAAA
36589 AAAGAAAA
1 AAAGAAAA
36597 AAAGAAAA
1 AAAGAAAA
36605 AAAGAAAA
1 AAAGAAAA
36613 AAAGAAAA
1 AAAGAAAA
36621 AAAGAAAA
1 AAAGAAAA
36629 AAA
1 AAA
36632 AGGAAAATTA
Statistics
Matches: 87, Mismatches: 4, Indels: 15
0.82 0.04 0.14
Matches are distributed among these distances:
7 19 0.22
8 53 0.61
9 8 0.09
10 7 0.08
ACGTcount: A:0.85, C:0.00, G:0.14, T:0.01
Consensus pattern (8 bp):
AAAGAAAA
Found at i:41136 original size:54 final size:53
Alignment explanation
Indices: 41054--41208 Score: 192
Period size: 54 Copynumber: 2.9 Consensus size: 53
41044 TTGAGAAATA
*
41054 TGAGCAGAAGCCATAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATC
1 TGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATG-TTTACGAACATC
* *
41108 TGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAGTGTTT---TACATC
1 TGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGTTTACGAACATC
* * * *
41158 TGAGCAGAAACCACATG-AGATGATGCATGTGTTGTCAAATGTTTTACGAAC
1 TGAGCAGAAGCCACA-GAAAAGGATGAATGTGTTGTCAAATG-TTTACGAAC
41209 CAGTTATTCT
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
50 39 0.45
51 4 0.05
53 3 0.03
54 41 0.47
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.26
Consensus pattern (53 bp):
TGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAATGTTTACGAACATC
Found at i:41188 original size:50 final size:50
Alignment explanation
Indices: 41054--41204 Score: 178
Period size: 50 Copynumber: 2.9 Consensus size: 50
41044 TTGAGAAATA
* * *
41054 TGAGCAGAAGCCATAGAAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATC
1 TGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATG-TTT---TACATC
* *
41108 TGAGCAGAAGCCACAGAAAAGGATGAATGTGTTGTCAAGTGTTTTACATC
1 TGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACATC
* * *
41158 TGAGCAGAAACCACATG-AGATGATGCATGTGTTGTCAAATGTTTTAC
1 TGAGCAGAAACCACA-GAAAAGGATGAATGTGTTGTCAAATGTTTTAC
41205 GAACCAGTTA
Statistics
Matches: 88, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
50 45 0.51
51 1 0.01
53 3 0.03
54 39 0.44
ACGTcount: A:0.34, C:0.15, G:0.25, T:0.26
Consensus pattern (50 bp):
TGAGCAGAAACCACAGAAAAGGATGAATGTGTTGTCAAATGTTTTACATC
Found at i:41616 original size:44 final size:44
Alignment explanation
Indices: 41559--41657 Score: 171
Period size: 44 Copynumber: 2.2 Consensus size: 44
41549 ACTTCTACAT
*
41559 TCTTCAAAGATGATAGATTCTCTTTTTAAAGATGATAGATTCTC
1 TCTTCAAAGATGATAGATTCTCTTTTTAAAGATAATAGATTCTC
*
41603 TCTTCAAATATGATAGATTCTCTTTTTAAAGATAATAGATTCTC
1 TCTTCAAAGATGATAGATTCTCTTTTTAAAGATAATAGATTCTC
*
41647 TTTTCAAAGAT
1 TCTTCAAAGAT
41658 AAAAGCTTTA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.33, C:0.13, G:0.11, T:0.42
Consensus pattern (44 bp):
TCTTCAAAGATGATAGATTCTCTTTTTAAAGATAATAGATTCTC
Found at i:41659 original size:22 final size:22
Alignment explanation
Indices: 41561--41657 Score: 149
Period size: 22 Copynumber: 4.4 Consensus size: 22
41551 TTCTACATTC
41561 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
41583 TTTAAAGATGATAGATTCTCTC
1 TTCAAAGATGATAGATTCTCTT
*
41605 TTCAAATATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
* *
41627 TTTAAAGATAATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
41649 TTCAAAGAT
1 TTCAAAGAT
41658 AAAAGCTTTA
Statistics
Matches: 66, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 66 1.00
ACGTcount: A:0.34, C:0.12, G:0.11, T:0.42
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:42487 original size:165 final size:166
Alignment explanation
Indices: 42174--42499 Score: 512
Period size: 165 Copynumber: 2.0 Consensus size: 166
42164 AAAATGAGCA
42174 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTCAAAAAAAAAATAATGAGAAAA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT---AAAAAAAATAATGAGAAAA
**
42239 CAATTTGCATAGTTTCTCATTTTATCTTTTCTAAAATGAAATTATTGAAAAGTAAGAAAACGATT
63 CAATTTGCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTATTGAAAAGTAAGAAAACGATT
* *
42304 TCCTTAGTTTTTTTACTTAGTAAACTATTTCCAACAGCC
128 TCCATAGTTTTCTTACTTAGTAAACTATTTCCAACAGCC
**
42343 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTT-TGAAAAATAATGAGAAAACAA
1 TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAAAATAATGAGAAAACAA
* * * *
42407 TTTTCATAGTTTCTCATTCAATCTTTTCTAAAAATGAAATTGTTGAATAGTAAGAAAACGATTTT
66 TTTGCATAGTTTCTCATTCAATCTTTTCT-AAAATGAAATTATTGAAAAGTAAGAAAACGATTTC
42472 CATAG-TTTCTTACTTAGTAAACTATTTC
130 CATAGTTTTCTTACTTAGTAAACTATTTC
42500 TCACATCTGT
Statistics
Matches: 146, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
165 67 0.46
166 36 0.25
169 43 0.29
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (166 bp):
TTATCTTGAGATTGGGGCATGTTACCCAATCAACATGTTATTTAAAAAAAATAATGAGAAAACAA
TTTGCATAGTTTCTCATTCAATCTTTTCTAAAATGAAATTATTGAAAAGTAAGAAAACGATTTCC
ATAGTTTTCTTACTTAGTAAACTATTTCCAACAGCC
Found at i:42629 original size:76 final size:76
Alignment explanation
Indices: 42503--42734 Score: 403
Period size: 76 Copynumber: 3.1 Consensus size: 76
42493 CTATTTCTCA
* *
42503 CATCTGTAAGTCCTACAATGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42568 AGCCTTAGGGT
66 AGCCTTAGGGT
* *
42579 CATCTGTAAGTCCTACAGTGCATGATGTTTCTAAAAAGCCTTCGGGAGCTTTTTAATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
42644 AGCCTTAGGGT
66 AGCCTTAGGGT
42655 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
1 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
*
42720 AACCTTCA-GGT
66 AGCCTT-AGGGT
42731 CATC
1 CATC
42735 AGCATTTCCA
Statistics
Matches: 148, Mismatches: 7, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
76 147 0.99
77 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.20, T:0.34
Consensus pattern (76 bp):
CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTTCAA
AGCCTTAGGGT
Found at i:42908 original size:103 final size:103
Alignment explanation
Indices: 42788--43105 Score: 447
Period size: 103 Copynumber: 3.0 Consensus size: 103
42778 AAGGAAGAAT
* * *
42788 AAGTTCATAATGAGAAGAACTTGTTTAACCTTTTGCTTGAATTCATCATTCGATGGATCAACATT
1 AAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCATT
*
42853 ACCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAAG
66 ACCAGGTAGAGTTCATAATAAGAAGAACTCATCTGAAG
*
42891 AAGTTCATAATGAGAAGAACTTATTCAACCTTTCGCTTGAATTCATCATTCGATGGATCAGCATT
1 AAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCATT
42956 ACCAGGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAGAAGAAG
66 ACCAGGTAGAGTTCATAATAAGAAGAACTCATCT--------GAAG
* * * * *
43002 AAGTTCATAATGAGAAGAATTTATTCAACTTTTTGCTCGATTTCATCATTCGATGGATCAGTATT
1 AAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCATT
* **
43067 GCCAGAAAGAGTTCATAATAAGAAGAACTCATCTGAAG
66 ACCAGGTAGAGTTCATAATAAGAAGAACTCATCTGAAG
43105 A
1 A
43106 GGAGAAGAAG
Statistics
Matches: 193, Mismatches: 14, Indels: 16
0.87 0.06 0.07
Matches are distributed among these distances:
103 99 0.51
111 94 0.49
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.30
Consensus pattern (103 bp):
AAGTTCATAATGAGAAGAACTTATTCAACCTTTTGCTTGAATTCATCATTCGATGGATCAGCATT
ACCAGGTAGAGTTCATAATAAGAAGAACTCATCTGAAG
Found at i:43081 original size:111 final size:111
Alignment explanation
Indices: 42887--43148 Score: 425
Period size: 111 Copynumber: 2.4 Consensus size: 111
42877 GAACTCATCT
* * *
42887 GAAGAAGTTCATAATGAGAAGAACTTATTCAACCTTTCGCTTGAATTCATCATTCGATGGATCAG
1 GAAGAAGTTCATAATGAGAAGAATTTATTCAACCTTTTGCTCGAATTCATCATTCGATGGATCAG
**
42952 CATTACCAGGTAGAGTTCATAATAAGAAGAACTCATCTGAAGAGAA
66 CATTACCAGAAAGAGTTCATAATAAGAAGAACTCATCTGAAGAGAA
* *
42998 GAAGAAGTTCATAATGAGAAGAATTTATTCAACTTTTTGCTCGATTTCATCATTCGATGGATCAG
1 GAAGAAGTTCATAATGAGAAGAATTTATTCAACCTTTTGCTCGAATTCATCATTCGATGGATCAG
* * *
43063 TATTGCCAGAAAGAGTTCATAATAAGAAGAACTCATCTGAAGAGGA
66 CATTACCAGAAAGAGTTCATAATAAGAAGAACTCATCTGAAGAGAA
*
43109 GAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
1 GAAGAAGTTCATAATGAGAAGAATTTATTCAACCTTTTGC
43149 ATGACTCTAT
Statistics
Matches: 139, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
111 139 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.29
Consensus pattern (111 bp):
GAAGAAGTTCATAATGAGAAGAATTTATTCAACCTTTTGCTCGAATTCATCATTCGATGGATCAG
CATTACCAGAAAGAGTTCATAATAAGAAGAACTCATCTGAAGAGAA
Found at i:43485 original size:3 final size:3
Alignment explanation
Indices: 43477--43536 Score: 77
Period size: 3 Copynumber: 19.7 Consensus size: 3
43467 GTTTTATTTA
* *
43477 TAT TAT TAT TAT TA- TAT TAT TATT TAT TAT ATAT TTT TAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT -TAT TAT TAT TAT TAT
43523 TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TA
43537 CAAACAGGCC
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
2 2 0.04
3 42 0.84
4 6 0.12
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:44933 original size:2 final size:2
Alignment explanation
Indices: 44926--44979 Score: 53
Period size: 2 Copynumber: 29.0 Consensus size: 2
44916 ATTTAAAATT
* *
44926 TA TA TA TA TA TA TA TA TA TA TA TA TT TA -A AA TA T- TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
44965 T- TA TA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA
44980 AATAATATTT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
1 4 0.09
2 39 0.91
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:45005 original size:44 final size:43
Alignment explanation
Indices: 44957--45043 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 43
44947 ATATTTAAAA
*
44957 TATTATTA-TTATAAA-TATATATAAATAATATTTATT-TATTT
1 TATTATTATTTTTAAACTATATATAAATAAT-TTTATTCTATTT
* *
44998 TATTATTATTTTTAAATCTTTATATAAATTATTTTATTCTATTT
1 TATTATTATTTTTAAA-CTATATATAAATAATTTTATTCTATTT
45042 TA
1 TA
45044 ATTAAAGAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
41 8 0.21
42 6 0.15
43 6 0.15
44 19 0.49
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (43 bp):
TATTATTATTTTTAAACTATATATAAATAATTTTATTCTATTT
Found at i:50745 original size:29 final size:29
Alignment explanation
Indices: 50703--50785 Score: 148
Period size: 29 Copynumber: 2.9 Consensus size: 29
50693 ACAGTGGCTG
50703 TAGGTCGCCATGCACTCCCAGCGACCTCC
1 TAGGTCGCCATGCACTCCCAGCGACCTCC
50732 TAGGTCGCCATGCACTCCCAGCGACCTCC
1 TAGGTCGCCATGCACTCCCAGCGACCTCC
* *
50761 TAGGTCGCCATGCACGCCCGGCGAC
1 TAGGTCGCCATGCACTCCCAGCGAC
50786 AAGGAGGTCG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.17, C:0.43, G:0.24, T:0.16
Consensus pattern (29 bp):
TAGGTCGCCATGCACTCCCAGCGACCTCC
Found at i:51050 original size:185 final size:185
Alignment explanation
Indices: 50835--51207 Score: 728
Period size: 185 Copynumber: 2.0 Consensus size: 185
50825 CAAGCTCGCC
50835 TGCTCGTGACCTTGCCAGGACTCCATGGTGACCTACACATGCACGATCTCCCCATTCTTCCCATG
1 TGCTCGTGACCTTGCCAGGACTCCATGGTGACCTACACATGCACGATCTCCCCATTCTTCCCATG
50900 CATGAACCGATCCTTGGTCGCCCCGAGTGCCCCATGCATGAACCGATCCTTGGTTATCCTTGGTC
66 CATGAACCGATCCTTGGTCGCCCCGAGTGCCCCATGCATGAACCGATCCTTGGTTATCCTTGGTC
* *
50965 GCCTCGAGTGCCCCATGCATGAACCGAGCCCCGAGTGCATGTCACGATCTCCCCA
131 GCCTCGAGTGCCCCATGCATGAACCGAGCCCCGAGTGCATGGCACGATCTCACCA
51020 TGCTCGTGACCTTGCCAGGACTCCATGGTGACCTACACATGCACGATCTCCCCATTCTTCCCATG
1 TGCTCGTGACCTTGCCAGGACTCCATGGTGACCTACACATGCACGATCTCCCCATTCTTCCCATG
51085 CATGAACCGATCCTTGGTCGCCCCGAGTGCCCCATGCATGAACCGATCCTTGGTTATCCTTGGTC
66 CATGAACCGATCCTTGGTCGCCCCGAGTGCCCCATGCATGAACCGATCCTTGGTTATCCTTGGTC
51150 GCCTCGAGTGCCCCATGCATGAACCGAGCCCCGAGTGCATGGCACGATCTCACCA
131 GCCTCGAGTGCCCCATGCATGAACCGAGCCCCGAGTGCATGGCACGATCTCACCA
51205 TGC
1 TGC
51208 ATGAATCCTT
Statistics
Matches: 186, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
185 186 1.00
ACGTcount: A:0.18, C:0.36, G:0.22, T:0.23
Consensus pattern (185 bp):
TGCTCGTGACCTTGCCAGGACTCCATGGTGACCTACACATGCACGATCTCCCCATTCTTCCCATG
CATGAACCGATCCTTGGTCGCCCCGAGTGCCCCATGCATGAACCGATCCTTGGTTATCCTTGGTC
GCCTCGAGTGCCCCATGCATGAACCGAGCCCCGAGTGCATGGCACGATCTCACCA
Found at i:51246 original size:29 final size:29
Alignment explanation
Indices: 51213--51271 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
51203 CATGCATGAA
51213 TCCTTGGTCGCCCCGAGTGCATGGCGACC
1 TCCTTGGTCGCCCCGAGTGCATGGCGACC
** *
51242 TCCTTGGTCGCCGGGCGTGCATGGCGACC
1 TCCTTGGTCGCCCCGAGTGCATGGCGACC
51271 T
1 T
51272 AGGAGGTCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.08, C:0.36, G:0.34, T:0.22
Consensus pattern (29 bp):
TCCTTGGTCGCCCCGAGTGCATGGCGACC
Found at i:51279 original size:29 final size:29
Alignment explanation
Indices: 51227--51301 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 29
51217 TGGTCGCCCC
* **
51227 GAGTGCATGGCGACCTCCTTGGTCGCC-GG
1 GAGTGCATGGCGACCTACGAGGTC-CCTGG
* *
51256 GCGTGCATGGCGACCTAGGAGGTCCCTGG
1 GAGTGCATGGCGACCTACGAGGTCCCTGG
51285 GAGTGCATGGCGACCTA
1 GAGTGCATGGCGACCTA
51302 TGGTTGGGTT
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.05
29 37 0.95
ACGTcount: A:0.15, C:0.28, G:0.39, T:0.19
Consensus pattern (29 bp):
GAGTGCATGGCGACCTACGAGGTCCCTGG
Found at i:54621 original size:16 final size:16
Alignment explanation
Indices: 54591--54620 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
54581 TAATATTGAA
54591 ACTTGAACTCAAAAAG
1 ACTTGAACTCAAAAAG
54607 ACTT-AACTCAAAAA
1 ACTTGAACTCAAAAA
54621 AAAATTAGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (16 bp):
ACTTGAACTCAAAAAG
Found at i:58104 original size:32 final size:32
Alignment explanation
Indices: 58068--58132 Score: 121
Period size: 32 Copynumber: 2.0 Consensus size: 32
58058 TAAGGATTGT
58068 TTGATCCCCTACACAACTTTGAACATGTTTTC
1 TTGATCCCCTACACAACTTTGAACATGTTTTC
*
58100 TTGATCCCCTACACATCTTTGAACATGTTTTC
1 TTGATCCCCTACACAACTTTGAACATGTTTTC
58132 T
1 T
58133 AACAGGACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (32 bp):
TTGATCCCCTACACAACTTTGAACATGTTTTC
Found at i:61494 original size:20 final size:21
Alignment explanation
Indices: 61469--61561 Score: 100
Period size: 21 Copynumber: 4.5 Consensus size: 21
61459 TTTTCCCAAT
*
61469 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
61489 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
*
61510 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
61530 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
61551 TCGCAATGCGA
1 TCGCAATGCGA
61562 TACTTACTAT
Statistics
Matches: 58, Mismatches: 13, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
20 27 0.47
21 31 0.53
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:61514 original size:41 final size:41
Alignment explanation
Indices: 61469--61561 Score: 186
Period size: 41 Copynumber: 2.3 Consensus size: 41
61459 TTTTCCCAAT
61469 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
61510 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
61551 TCGCAATGCGA
1 TCGCAATGCGA
61562 TACTTACTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 52 1.00
ACGTcount: A:0.40, C:0.18, G:0.25, T:0.17
Consensus pattern (41 bp):
TCGCAATGCGAATAAGTAAATCGCAACGCGAATTGGGAAAA
Found at i:61574 original size:41 final size:41
Alignment explanation
Indices: 61488--61622 Score: 148
Period size: 41 Copynumber: 3.3 Consensus size: 41
61478 GAATAAGTAA
** *
61488 ATCGCAACGCGAATTGGGAAAATCGCAATGCGAATAAGTA-A
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCG-ATACTTACT
61529 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
1 ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
* * ** * *
61570 ATCGCAATGCGATAAT-ACAAAATCGCAACGAGATACTTACT
1 ATCGCAACGCGA-ATTGGGAAAATCGCAATGCGATACTTACT
*
61611 TTCGCAACGCGA
1 ATCGCAACGCGA
61623 TACTGACTTT
Statistics
Matches: 81, Mismatches: 11, Indels: 4
0.84 0.11 0.04
Matches are distributed among these distances:
40 5 0.06
41 74 0.91
42 2 0.02
ACGTcount: A:0.38, C:0.21, G:0.21, T:0.20
Consensus pattern (41 bp):
ATCGCAACGCGAATTGGGAAAATCGCAATGCGATACTTACT
Found at i:61575 original size:20 final size:20
Alignment explanation
Indices: 61550--61643 Score: 91
Period size: 20 Copynumber: 4.7 Consensus size: 20
61540 AATTGGGAAA
*
61550 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTTACT
* * *
61570 ATCGCAATGCGATA-ATACAAA
1 ATCGCAACGCGATACTTAC--T
*
61591 ATCGCAACGAGATACTTACT
1 ATCGCAACGCGATACTTACT
* *
61611 TTCGCAACGCGATACTGACT
1 ATCGCAACGCGATACTTACT
*
61631 TTCGCAACGCGAT
1 ATCGCAACGCGAT
61644 TTACATAATC
Statistics
Matches: 62, Mismatches: 9, Indels: 6
0.81 0.12 0.08
Matches are distributed among these distances:
19 3 0.05
20 44 0.71
21 12 0.19
22 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAACGCGATACTTACT
Found at i:61855 original size:22 final size:22
Alignment explanation
Indices: 61827--61870 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
61817 CACTCTCTCA
61827 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
61849 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
61871 TATCTAAATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:62157 original size:20 final size:20
Alignment explanation
Indices: 62132--62169 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
62122 CGATTCTCTC
62132 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
62152 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
62170 AAAAACTATT
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:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:63509 original size:18 final size:18
Alignment explanation
Indices: 63488--63532 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
63478 TCCACTTCGG
* *
63488 GAGCCATCACCTCGCCCA
1 GAGCCATCACCCCACCCA
*
63506 GAGCTATCACCCCACCCA
1 GAGCCATCACCCCACCCA
63524 GAGCCATCA
1 GAGCCATCA
63533 TCTGATCGAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.27, C:0.47, G:0.16, T:0.11
Consensus pattern (18 bp):
GAGCCATCACCCCACCCA
Found at i:64055 original size:19 final size:19
Alignment explanation
Indices: 64002--64056 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
63992 TAGTTTACTT
*
64002 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGACTA
* *
64021 TCGTAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGACTA
*
64041 TCGCAATGCGAAATGA
1 TCGCAACGCGAAATGA
64057 AAATCACAAC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
19 13 0.45
20 16 0.55
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.18
Consensus pattern (19 bp):
TCGCAACGCGAAATGACTA
Found at i:64099 original size:32 final size:32
Alignment explanation
Indices: 64040--64129 Score: 146
Period size: 32 Copynumber: 2.8 Consensus size: 32
64030 GGAAATGGCT
* *
64040 ATCGCAATGCGAAATGAAAATCACAACGACAAA
1 ATCGCAACGCGAAATGAAAATCGCAACGAC-AA
64073 ATCGCAACGCGAAATG-AAATCGCAACGACAA
1 ATCGCAACGCGAAATGAAAATCGCAACGACAA
64104 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAACGCGAAATGAAAATCGCAA
64130 TGCGATTTGT
Statistics
Matches: 54, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
31 18 0.33
32 21 0.39
33 15 0.28
ACGTcount: A:0.48, C:0.23, G:0.18, T:0.11
Consensus pattern (32 bp):
ATCGCAACGCGAAATGAAAATCGCAACGACAA
Found at i:64126 original size:19 final size:19
Alignment explanation
Indices: 64002--64134 Score: 65
Period size: 19 Copynumber: 7.6 Consensus size: 19
63992 TAGTTTACTT
* **
64002 TCGCAACACGAAATGACTA
1 TCGCAACGCGAAATGAAAA
* ***
64021 TCGTAACGCGGAAATGGCTA
1 TCGCAACGC-GAAATGAAAA
*
64041 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
* *
64060 TCACAA--CG--A-CAAAA
1 TCGCAACGCGAAATGAAAA
64074 TCGCAACGCGAAATG-AAA
1 TCGCAACGCGAAATGAAAA
*
64092 TCGCAA--CG--A--CAAA
1 TCGCAACGCGAAATGAAAA
64105 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
64124 TCGCAATGCGA
1 TCGCAACGCGA
64135 TTTGTGTTTC
Statistics
Matches: 87, Mismatches: 14, Indels: 26
0.69 0.11 0.20
Matches are distributed among these distances:
13 9 0.10
14 10 0.11
15 3 0.03
16 4 0.05
17 3 0.03
18 10 0.11
19 32 0.37
20 16 0.18
ACGTcount: A:0.43, C:0.23, G:0.20, T:0.14
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:64165 original size:14 final size:14
Alignment explanation
Indices: 64146--64203 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
64136 TTGTGTTTCG
64146 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
64160 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
64176 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
64192 CGTTGCGATTTT
1 CGTTGCGATTTT
64204 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:64180 original size:32 final size:33
Alignment explanation
Indices: 64141--64211 Score: 135
Period size: 32 Copynumber: 2.2 Consensus size: 33
64131 GCGATTTGTG
64141 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
64173 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
64206 TTTCGC
1 TTTCGC
64212 ATTGTGATAG
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 27 0.71
33 11 0.29
ACGTcount: A:0.08, C:0.20, G:0.24, T:0.48
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:66271 original size:19 final size:19
Alignment explanation
Indices: 66247--66381 Score: 164
Period size: 19 Copynumber: 7.6 Consensus size: 19
66237 AAAACAGACT
* *
66247 ATCGCAACGCGAAATGGAA
1 ATCGCAATGCGAAATGAAA
66266 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
66285 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
66304 ATCGCAA----AGA-GAAA
1 ATCGCAATGCGAAATGAAA
*
66318 ATCGCAATGCGAAATAAAA
1 ATCGCAATGCGAAATGAAA
66337 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
66356 ATCGCAA--CG--A-GAAA
1 ATCGCAATGCGAAATGAAA
66370 ATCGCAATGCGA
1 ATCGCAATGCGA
66382 TTTTCATTTC
Statistics
Matches: 102, Mismatches: 6, Indels: 18
0.81 0.05 0.14
Matches are distributed among these distances:
14 22 0.22
15 3 0.03
16 2 0.02
17 2 0.02
18 2 0.02
19 71 0.70
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:66318 original size:33 final size:33
Alignment explanation
Indices: 66281--66343 Score: 117
Period size: 33 Copynumber: 1.9 Consensus size: 33
66271 AATGCGAAAT
*
66281 GAAAATCGCAATGCGAAATGAAAATCGCAAAGA
1 GAAAATCGCAATGCGAAATAAAAATCGCAAAGA
66314 GAAAATCGCAATGCGAAATAAAAATCGCAA
1 GAAAATCGCAATGCGAAATAAAAATCGCAA
66344 TGCGAAATGA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.52, C:0.16, G:0.19, T:0.13
Consensus pattern (33 bp):
GAAAATCGCAATGCGAAATAAAAATCGCAAAGA
Found at i:66330 original size:52 final size:52
Alignment explanation
Indices: 66264--66381 Score: 218
Period size: 52 Copynumber: 2.3 Consensus size: 52
66254 CGCGAAATGG
*
66264 AAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAAAGAGA
1 AAATCGCAATGCGAAATAAAAATCGCAATGCGAAATGAAAATCGCAAAGAGA
*
66316 AAATCGCAATGCGAAATAAAAATCGCAATGCGAAATGAAAATCGCAACGAGA
1 AAATCGCAATGCGAAATAAAAATCGCAATGCGAAATGAAAATCGCAAAGAGA
66368 AAATCGCAATGCGA
1 AAATCGCAATGCGA
66382 TTTTCATTTC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
52 64 1.00
ACGTcount: A:0.49, C:0.17, G:0.20, T:0.14
Consensus pattern (52 bp):
AAATCGCAATGCGAAATAAAAATCGCAATGCGAAATGAAAATCGCAAAGAGA
Found at i:66371 original size:33 final size:33
Alignment explanation
Indices: 66264--66381 Score: 98
Period size: 33 Copynumber: 3.4 Consensus size: 33
66254 CGCGAAATGG
* *
66264 AAATCGCAATGCGAAATGAAAATCGCAATGCG-
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGA
* * *
66296 AAAT-GAAAAT-CGCAAAGAGAAAATCGCAATGCGAAATAA
1 AAATCG-CAATGCG-AAA-TGAAAATCGCAA--CG--A-GA
66335 AAATCGCAATGCGAAATGAAAATCGCAACGAGA
1 AAATCGCAATGCGAAATGAAAATCGCAACGAGA
66368 AAATCGCAATGCGA
1 AAATCGCAATGCGA
66382 TTTTCATTTC
Statistics
Matches: 67, Mismatches: 8, Indels: 21
0.70 0.08 0.22
Matches are distributed among these distances:
31 3 0.04
32 10 0.15
33 26 0.39
34 1 0.01
35 1 0.01
36 2 0.03
38 11 0.16
39 10 0.15
40 3 0.04
ACGTcount: A:0.49, C:0.17, G:0.20, T:0.14
Consensus pattern (33 bp):
AAATCGCAATGCGAAATGAAAATCGCAACGAGA
Found at i:66457 original size:20 final size:20
Alignment explanation
Indices: 66400--66457 Score: 98
Period size: 20 Copynumber: 2.9 Consensus size: 20
66390 TCACATTGCG
* *
66400 ATTTTCTCGTTGCGATAACC
1 ATTTTCGCGTTGCGATAGCC
66420 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
66440 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
66458 TCAAATGAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:67528 original size:24 final size:24
Alignment explanation
Indices: 67501--67554 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
67491 GTATTCAAAA
* *
67501 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
67525 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
67549 TTTGAT
1 TTTGAT
67555 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:67746 original size:12 final size:12
Alignment explanation
Indices: 67729--67753 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
67719 ATTTAATCCT
67729 GAAGAAGAAAAA
1 GAAGAAGAAAAA
67741 GAAGAAGAAAAA
1 GAAGAAGAAAAA
67753 G
1 G
67754 TCCCTGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:70053 original size:19 final size:19
Alignment explanation
Indices: 70031--70089 Score: 74
Period size: 19 Copynumber: 3.4 Consensus size: 19
70021 GGAAATTACT
70031 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
70050 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
70064 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
70083 ATCGCAA
1 ATCGCAA
70090 CGCTAATTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 10 0.30
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 17 0.52
ACGTcount: A:0.46, C:0.19, G:0.22, T:0.14
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:70054 original size:39 final size:35
Alignment explanation
Indices: 70011--70156 Score: 139
Period size: 33 Copynumber: 4.3 Consensus size: 35
70001 CTTAATGTCC
70011 ATCGCAACGCGGAAATTACTATCGCAATGCGAAATGAAA
1 ATCGCAACGCGG-AA--A-TATCGCAATGCGAAATGAAA
* *
70050 ATCGCAACG-AGAGA-ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGGAAATATCGCAATGCGAAATGAAA
* *
70083 ATCGCAACGC--TAATTTCGCAATGCG-AATGAAA
1 ATCGCAACGCGGAAATATCGCAATGCGAAATGAAA
* *
70115 ATCGCAACGAGG--A-ATCACAATGCGAAATG-AA
1 ATCGCAACGCGGAAATATCGCAATGCGAAATGAAA
70146 ATCGCAACGCG
1 ATCGCAACGCG
70157 AATTTAATTT
Statistics
Matches: 93, Mismatches: 9, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
31 21 0.23
32 22 0.24
33 38 0.41
35 1 0.01
37 1 0.01
38 1 0.01
39 9 0.10
ACGTcount: A:0.41, C:0.21, G:0.22, T:0.16
Consensus pattern (35 bp):
ATCGCAACGCGGAAATATCGCAATGCGAAATGAAA
Found at i:70073 original size:33 final size:33
Alignment explanation
Indices: 70031--70154 Score: 175
Period size: 33 Copynumber: 3.8 Consensus size: 33
70021 GGAAATTACT
70031 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
**
70064 ATCGCAATGCGAAATGAAAATCGCAACGCTA-A
1 ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
70096 TTTCGCAATGCG-AATGAAAATCGCAACGAG-GA
1 -ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
*
70128 ATCACAATGCGAAATG-AAATCGCAACG
1 ATCGCAATGCGAAATGAAAATCGCAACG
70155 CGAATTTAAT
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
31 20 0.25
32 22 0.27
33 39 0.48
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGAGAGA
Found at i:70144 original size:64 final size:65
Alignment explanation
Indices: 70032--70161 Score: 219
Period size: 65 Copynumber: 2.0 Consensus size: 65
70022 GAAATTACTA
* *
70032 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAACGCTAAT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATG-AAATCGCAACGCGAAT
70097 T
65 T
70098 TCGCAATGCG-AATGAAAATCGCAACGAG-GAATCACAATGCGAAATGAAATCGCAACGCGAATT
1 TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAATCGCAACGCGAATT
70161 T
1 T
70162 AATTTCGCGT
Statistics
Matches: 62, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
63 17 0.27
64 17 0.27
65 18 0.29
66 10 0.16
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.17
Consensus pattern (65 bp):
TCGCAATGCGAAATGAAAATCGCAACGAGAGAATCACAATGCGAAATGAAATCGCAACGCGAATT
Found at i:70328 original size:13 final size:14
Alignment explanation
Indices: 70312--70347 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
70302 CATCAATTAA
70312 ACAAATCAAC-TTT
1 ACAAATCAACTTTT
*
70325 ACAAATCACCTTTT
1 ACAAATCAACTTTT
70339 ACAAATCAA
1 ACAAATCAA
70348 TTAAACAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
13 9 0.45
14 11 0.55
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:71782 original size:41 final size:42
Alignment explanation
Indices: 71737--71819 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
71727 CGATGACAGT
* *
71737 GGCCTCTTGAACG-TGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
71778 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
71820 CGAGTCGGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 12 0.33
42 24 0.67
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.22
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:73824 original size:33 final size:33
Alignment explanation
Indices: 73767--73865 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
73757 ACGAGATAAT
*
73767 GAGAATCGCAACGCGGAAATGACTATCGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
*
73801 GAGAATCGCAACGCGAAATGACTATCGCGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
73834 GACAATCGCAACGCGAAATGAAAATCGCAACC
1 GAGAATCGCAACGCGAAATGACTATCGCAACC
73866 GCGAAATAAA
Statistics
Matches: 59, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
33 45 0.76
34 14 0.24
ACGTcount: A:0.39, C:0.26, G:0.23, T:0.11
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:73859 original size:19 final size:19
Alignment explanation
Indices: 73742--73906 Score: 136
Period size: 19 Copynumber: 9.1 Consensus size: 19
73732 TCTTTTGGTT
*
73742 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGC
*
73761 GATAATGAGAATCGCAACGC
1 GA-AATGAAAATCGCAACGC
**
73781 GGAAATGACTATCGCAA--C
1 -GAAATGAAAATCGCAACGC
*
73799 G--A-GAGAATCGCAACGC
1 GAAATGAAAATCGCAACGC
** *
73815 GAAATGACTATCGCGAC-C
1 GAAATGAAAATCGCAACGC
*
73833 ---A-GACAATCGCAACGC
1 GAAATGAAAATCGCAACGC
73848 GAAATGAAAATCGCAACCGC
1 GAAATGAAAATCGCAA-CGC
73868 GAAAT-AAAATCGCAACGC
1 GAAATGAAAATCGCAACGC
*
73886 GAAATGAAAATCGCAATGC
1 GAAATGAAAATCGCAACGC
73905 GA
1 GA
73907 TTTTGGTTTC
Statistics
Matches: 119, Mismatches: 13, Indels: 28
0.74 0.08 0.17
Matches are distributed among these distances:
14 19 0.16
15 3 0.03
16 2 0.02
17 1 0.01
18 12 0.10
19 45 0.38
20 35 0.29
21 2 0.02
ACGTcount: A:0.43, C:0.22, G:0.22, T:0.12
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGC
Found at i:73935 original size:19 final size:19
Alignment explanation
Indices: 73902--73968 Score: 89
Period size: 19 Copynumber: 3.5 Consensus size: 19
73892 AAAATCGCAA
**
73902 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTTATTTCGCGT
73921 TGCGATTTTTATTTCGCGT
1 TGCGATTTTTATTTCGCGT
**
73940 TGCGATAGTTATTTCCGCGT
1 TGCGATTTTTATTT-CGCGT
73960 TGCGATTTT
1 TGCGATTTT
73969 CATTCTCGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
19 29 0.71
20 12 0.29
ACGTcount: A:0.10, C:0.16, G:0.25, T:0.48
Consensus pattern (19 bp):
TGCGATTTTTATTTCGCGT
Found at i:74530 original size:20 final size:20
Alignment explanation
Indices: 74486--74534 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
74476 TATGTAAATC
* *
74486 GCGTTGCGAAAGTCAGTATT
1 GCGTTGCGAAAGTAAATATT
74506 GCGTTGCGAAAGTAAATATCT
1 GCGTTGCGAAAGTAAATAT-T
74527 -CGTTGCGA
1 GCGTTGCGA
74535 TTTTGTATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (20 bp):
GCGTTGCGAAAGTAAATATT
Found at i:74595 original size:41 final size:41
Alignment explanation
Indices: 74545--74657 Score: 129
Period size: 41 Copynumber: 2.8 Consensus size: 41
74535 TTTTGTATTA
* *
74545 TCGCATTGCGATAATAAGTA-TCGCATTGCGATTTTCTCAAT
1 TCGCGTTGCGAT-ATAAGTATTCGCATTGCGATTTTCCCAAT
* * **
74586 TCGTGTTGCGATTTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCGTTGCGATATAAGTATTCGCATTGCGATTTTCCCAAT
* **
74627 TCGCGTTGCGATTTACTTATTCGCATTGCGA
1 TCGCGTTGCGATATAAGTATTCGCATTGCGA
74658 ATTGGGAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
40 4 0.06
41 60 0.94
ACGTcount: A:0.20, C:0.21, G:0.19, T:0.40
Consensus pattern (41 bp):
TCGCGTTGCGATATAAGTATTCGCATTGCGATTTTCCCAAT
Found at i:74614 original size:20 final size:20
Alignment explanation
Indices: 74565--74657 Score: 96
Period size: 21 Copynumber: 4.5 Consensus size: 20
74555 ATAATAAGTA
*
74565 TCGCATTGCGATTTTCTCAAT
1 TCGCATTGCGATTTACT-AAT
** *
74586 TCGTGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
* *
74606 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGA-TTTACTAAT
* *
74627 TCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTACTAAT
74647 TCGCATTGCGA
1 TCGCATTGCGA
74658 ATTGGGAAAA
Statistics
Matches: 57, Mismatches: 14, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
20 27 0.47
21 30 0.53
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (20 bp):
TCGCATTGCGATTTACTAAT
Found at i:81434 original size:61 final size:63
Alignment explanation
Indices: 81339--81463 Score: 236
Period size: 61 Copynumber: 2.0 Consensus size: 63
81329 GCGTTCCGCC
81339 GATGGTCTCCCTCTCCGTTTTAGAGAGAAGGCTGAAAT-G-GAAATGAAAGAAATGGCTCAAT
1 GATGGTCTCCCTCTCCGTTTTAGAGAGAAGGCTGAAATGGAGAAATGAAAGAAATGGCTCAAT
81400 GATGGTCTCCCTCTCCGTTTTAGAGAGAAGGCTGAAATGGAGAAATGAAAGAAATGGCTCAAT
1 GATGGTCTCCCTCTCCGTTTTAGAGAGAAGGCTGAAATGGAGAAATGAAAGAAATGGCTCAAT
81463 G
1 G
81464 GAGCCGGTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
61 38 0.61
62 1 0.02
63 23 0.37
ACGTcount: A:0.33, C:0.16, G:0.27, T:0.24
Consensus pattern (63 bp):
GATGGTCTCCCTCTCCGTTTTAGAGAGAAGGCTGAAATGGAGAAATGAAAGAAATGGCTCAAT
Found at i:82276 original size:2 final size:2
Alignment explanation
Indices: 82269--82312 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
82259 TGTTATTTAA
82269 AT AT AT AT A- AT AT -T 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
82309 AT AT
1 AT AT
82313 CTTTAAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:82856 original size:24 final size:24
Alignment explanation
Indices: 82799--82856 Score: 57
Period size: 24 Copynumber: 2.4 Consensus size: 24
82789 AAATTTTATA
* *
82799 TATACTTATTATTTTCATAGTATT
1 TATATTTATTATTTTCATAATATT
*
82823 TATATATATTATTTT-ATTAATATT
1 TATATTTATTATTTTCA-TAATATT
82847 TCAT-TTTATT
1 T-ATATTTATT
82857 TGCAGTATTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.04
24 25 0.89
25 2 0.07
ACGTcount: A:0.31, C:0.05, G:0.02, T:0.62
Consensus pattern (24 bp):
TATATTTATTATTTTCATAATATT
Found at i:82871 original size:19 final size:18
Alignment explanation
Indices: 82831--82890 Score: 54
Period size: 19 Copynumber: 3.4 Consensus size: 18
82821 TTTATATATA
*
82831 TTATTTTA-TT-AATATT
1 TTATTTTATTTCAGTATT
*
82847 TCATTTTATTTGCAGTATT
1 TTATTTTATTT-CAGTATT
*
82866 TTATTTTTATTTCATTA-T
1 TTA-TTTTATTTCAGTATT
82884 TTATTTT
1 TTATTTT
82891 TCTGTCAGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
16 7 0.19
17 6 0.17
18 4 0.11
19 11 0.31
20 8 0.22
ACGTcount: A:0.23, C:0.05, G:0.03, T:0.68
Consensus pattern (18 bp):
TTATTTTATTTCAGTATT
Found at i:82891 original size:19 final size:20
Alignment explanation
Indices: 82850--82891 Score: 61
Period size: 18 Copynumber: 2.2 Consensus size: 20
82840 TAATATTTCA
82850 TTTTATTTGCAGTATTTTAT
1 TTTTATTTGCAGTATTTTAT
*
82870 TTTTATTT-CATTA-TTTAT
1 TTTTATTTGCAGTATTTTAT
82888 TTTT
1 TTTT
82892 CTGTCAGAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 9 0.43
19 4 0.19
20 8 0.38
ACGTcount: A:0.19, C:0.05, G:0.05, T:0.71
Consensus pattern (20 bp):
TTTTATTTGCAGTATTTTAT
Found at i:87616 original size:9 final size:9
Alignment explanation
Indices: 87592--87625 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
87582 AAACAAAATG
87592 AAAAAAGGA
1 AAAAAAGGA
87601 GAAAAAAGGA
1 -AAAAAAGGA
*
87611 AAAAAAAGA
1 AAAAAAGGA
87620 AAAAAA
1 AAAAAA
87626 ATTGACAGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (9 bp):
AAAAAAGGA
Found at i:87623 original size:10 final size:10
Alignment explanation
Indices: 87592--87626 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
87582 AAACAAAATG
*
87592 AAAAAAGGAG
1 AAAAAAGGAA
87602 AAAAAAGGAA
1 AAAAAAGGAA
87612 AAAAAA-GAA
1 AAAAAAGGAA
87621 AAAAAA
1 AAAAAA
87627 TTGACAGTCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
9 9 0.38
10 15 0.62
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (10 bp):
AAAAAAGGAA
Found at i:92233 original size:22 final size:22
Alignment explanation
Indices: 92205--92259 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
92195 ATCTACATTC
92205 TTCAAAGATGATAAATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
* *
92227 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAAATTCTCTT
92249 TTCAAAGATGA
1 TTCAAAGATGA
92260 AAGCTTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAAATTCTCTT
Found at i:93058 original size:75 final size:75
Alignment explanation
Indices: 92934--93078 Score: 240
Period size: 75 Copynumber: 1.9 Consensus size: 75
92924 CTATTTCCCA
* *
92934 CATCTGTAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATG-TTTCAA
1 CATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
92998 AGCCTTAGGGT
66 A-CCTTAGGGT
93009 CATCTATAAGTCCTACAGTGCATGATGGTTTCC-AAAAGCCTTCGAGAGCTTTTTGATGTTTTCA
1 CATCTATAAGTCCTACAGTGCATGAT-GTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCA
93073 AACCTT
65 AACCTT
93079 CGAGTCAGCT
Statistics
Matches: 66, Mismatches: 2, Indels: 4
0.92 0.03 0.06
Matches are distributed among these distances:
75 53 0.80
76 13 0.20
ACGTcount: A:0.25, C:0.21, G:0.20, T:0.34
Consensus pattern (75 bp):
CATCTATAAGTCCTACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTTCAA
ACCTTAGGGT
Found at i:93099 original size:75 final size:75
Alignment explanation
Indices: 92945--93104 Score: 225
Period size: 75 Copynumber: 2.1 Consensus size: 75
92935 ATCTGTAAGT
* *
92945 CCTACAGTGCATGATGTTTCCAAAAAGCCTTCGGGAGCTTTTTGATGTTTCAAAGCCTTAGGGTC
1 CCTACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTCAAAGCCTTAGAGTC
* **
93010 ATCTATAAGT
66 AGCTATAAAC
*
93020 CCTACAGTGCATGATGGTTTCC-AAAAGCCTTCGAGAGCTTTTTGATGTTTTCAAA-CCTTCGAG
1 CCTACAGTGCATGAT-GTTTCCAAAAAGCCTTCGAGAGCTTTTTGATG-TTTCAAAGCCTTAGAG
*
93083 TCAGCTGTAAAC
64 TCAGCTATAAAC
93095 CCTACAGTGC
1 CCTACAGTGC
93105 GGAATGTTTT
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
75 63 0.83
76 13 0.17
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.32
Consensus pattern (75 bp):
CCTACAGTGCATGATGTTTCCAAAAAGCCTTCGAGAGCTTTTTGATGTTTCAAAGCCTTAGAGTC
AGCTATAAAC
Found at i:93428 original size:113 final size:112
Alignment explanation
Indices: 93122--93541 Score: 521
Period size: 112 Copynumber: 3.8 Consensus size: 112
93112 TTTTTTAAAA
* * * *
93122 CATTTCCAGA-AGAGTTCATAATGAGAAGAACTCATCTAAAGAAAAAGAATAAGTTCATAATTAG
1 CATTGCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATTAG
* *
93186 AAGAACTTGTTCAA-CTTTTCGCTTAAATTCATCATTCGATGGATCAG
66 AAGAATTTGTTCAACCTTTT-GCTTAAATTCATCAATCGATGGATCAG
*
93233 CATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCTGAA-AAGGAAGAAGAAGTTCATAATTA
1 CATTGCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATTA
* ** *
93297 GAAGAATTTATTCAACCTTTTGCTCGAATTCATCAATCGGTGGATCAG
65 GAAGAATTTGTTCAACCTTTTGCTTAAATTCATCAATCGATGGATCAG
* * * * *
93345 CAGTGCCAGTTAGAGTTCATAATAAGAAGAACTTATCTGAAGAAGGAAGAAGAAGTTCATAATAA
1 CATTGCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAA-GAAGAAGAAGTTCATAATTA
* * * *
93410 GAAGAATTTGTTCAACCTTTCGCTTTAATTCATCACTCGATGGATTAG
65 GAAGAATTTGTTCAACCTTTTGCTTAAATTCATCAATCGATGGATCAG
* * * * * *
93458 CTTTTCCAGAGAAAGTTCATAATGAGAAGAACTTATCTGAAG-AGAAAAAGAAGTT-ATAA-T-G
1 CATTGCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATTAG
*
93519 AAGAATTTGTTCAACTTTTTGCT
66 AAGAATTTGTTCAACCTTTTGCT
93542 AGATTACTTC
Statistics
Matches: 271, Mismatches: 34, Indels: 11
0.86 0.11 0.03
Matches are distributed among these distances:
108 22 0.08
110 4 0.01
111 21 0.08
112 121 0.45
113 103 0.38
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (112 bp):
CATTGCCAGATAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAGAAGAAGTTCATAATTAG
AAGAATTTGTTCAACCTTTTGCTTAAATTCATCAATCGATGGATCAG
Found at i:93783 original size:18 final size:17
Alignment explanation
Indices: 93761--93808 Score: 51
Period size: 18 Copynumber: 2.8 Consensus size: 17
93751 CATTTGTTTC
*
93761 ATTTATTAGTATTATTT
1 ATTTATTAATATTATTT
* * *
93778 ATTTTAATATTATTTTTT
1 A-TTTATTAATATTATTT
93796 ATTTATTAATATT
1 ATTTATTAATATT
93809 TTAATATTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
ATTTATTAATATTATTT
Found at i:93877 original size:14 final size:14
Alignment explanation
Indices: 93853--93886 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
93843 GGCCCGATTA
93853 CAAACCAGACTGGCC
1 CAAA-CAGACTGGCC
93868 CAAACAGACTGGCC
1 CAAACAGACTGGCC
93882 CAAAC
1 CAAAC
93887 CTAATAACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 15 0.79
15 4 0.21
ACGTcount: A:0.38, C:0.38, G:0.18, T:0.06
Consensus pattern (14 bp):
CAAACAGACTGGCC
Found at i:94269 original size:98 final size:97
Alignment explanation
Indices: 94078--94272 Score: 381
Period size: 98 Copynumber: 2.0 Consensus size: 97
94068 ATGCCGCCCC
94078 TCGTCGAAGATTCCAGCGGCTGCCATGACCTCTCCACACGTCAATGCCAAGGGGTGAGTCACCAC
1 TCGTCGAAGATTCCAGCGGCTGCCATGACCTCTCCACACGTCAATGCCAAGGGGTGAGTCACCAC
94143 AAGTTCGGTGACTCACCGAAAACTTCCCTTTG
66 AAGTTCGGTGACTCACCGAAAACTTCCCTTTG
94175 TCGTCGAAGATTCCAGCGGCTGCCATGACCTCTCCACACGTCAATGCCCAAGGGGTGAGTCACCA
1 TCGTCGAAGATTCCAGCGGCTGCCATGACCTCTCCACACGTCAATG-CCAAGGGGTGAGTCACCA
94240 CAAGTTCGGTGACTCACCGAAAACTTCCCTTTG
65 CAAGTTCGGTGACTCACCGAAAACTTCCCTTTG
94273 GACCGGTTCG
Statistics
Matches: 97, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
97 46 0.47
98 51 0.53
ACGTcount: A:0.24, C:0.32, G:0.23, T:0.22
Consensus pattern (97 bp):
TCGTCGAAGATTCCAGCGGCTGCCATGACCTCTCCACACGTCAATGCCAAGGGGTGAGTCACCAC
AAGTTCGGTGACTCACCGAAAACTTCCCTTTG
Found at i:95168 original size:15 final size:14
Alignment explanation
Indices: 95140--95182 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
95130 TAACACTATA
95140 TTTTTAAT-TTATT
1 TTTTTAATATTATT
95153 TTTTTAATCATTATT
1 TTTTTAAT-ATTATT
*
95168 TATTTACATATTATT
1 TTTTTA-ATATTATT
95183 ACTTTTATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 8 0.31
15 16 0.62
16 2 0.08
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTAATATTATT
Found at i:95496 original size:104 final size:106
Alignment explanation
Indices: 95323--95513 Score: 287
Period size: 104 Copynumber: 1.8 Consensus size: 106
95313 TATGTTTTAG
*
95323 TTATTTATTTATTTTTAAATATTGAAGGAAAGAGCTGTCTTAAAACAACTAGAAGCCCTTTTCTA
1 TTATTTATTTATTTTTAAATATTCAA-GAAAGAGCTGTCTTAAAACAACTAGAAGCCCTTTTCTA
*
95388 ATATTTTTAAATAAATAAATATCTTACTATATTAAAATAATT
65 ATATTTCTAAATAAATAAATATCTTACTATATTAAAATAATT
* ** * * *
95430 TTATTTATTTATTTTTTAATA-TCAA-AAAGAGCTGTCTTAAAGTACCTAGAAGCTCTTTTCTGA
1 TTATTTATTTATTTTTAAATATTCAAGAAAGAGCTGTCTTAAAACAACTAGAAGCCCTTTTCTAA
95493 TATTTCTAAATAAATAAATAT
66 TATTTCTAAATAAATAAATAT
95514 GTTATTTAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
104 53 0.70
106 3 0.04
107 20 0.26
ACGTcount: A:0.39, C:0.10, G:0.08, T:0.43
Consensus pattern (106 bp):
TTATTTATTTATTTTTAAATATTCAAGAAAGAGCTGTCTTAAAACAACTAGAAGCCCTTTTCTAA
TATTTCTAAATAAATAAATATCTTACTATATTAAAATAATT
Found at i:95530 original size:2 final size:2
Alignment explanation
Indices: 95523--95577 Score: 103
Period size: 2 Copynumber: 28.0 Consensus size: 2
95513 TGTTATTTAA
95523 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T 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
95564 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
95578 TCTTTAAATT
Statistics
Matches: 52, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 51 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:105255 original size:19 final size:21
Alignment explanation
Indices: 105221--105262 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 21
105211 ATTCTTATGC
*
105221 TATTTTATATTAAAATTAATA
1 TATTTTATATTAAAATAAATA
105242 TATTTT-TA-TAAAATAAATA
1 TATTTTATATTAAAATAAATA
105261 TA
1 TA
105263 ATTAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
20 2 0.10
21 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TATTTTATATTAAAATAAATA
Found at i:112699 original size:45 final size:44
Alignment explanation
Indices: 112635--112724 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 44
112625 TGCTTAAGCT
112635 TCTTGCCATATGTAGCTAAGATAATCATAGTTTGTCAACATAAAA
1 TCTTGCCATATGTAGCTAAGATAATCATAG-TTGTCAACATAAAA
112680 TCTTGCCATATGTAGCTAAGATAATCATAGTTGTCAACATAAAA
1 TCTTGCCATATGTAGCTAAGATAATCATAGTTGTCAACATAAAA
112724 T
1 T
112725 AAAGTTTGAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 15 0.33
45 30 0.67
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (44 bp):
TCTTGCCATATGTAGCTAAGATAATCATAGTTGTCAACATAAAA
Found at i:114956 original size:15 final size:14
Alignment explanation
Indices: 114927--114974 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
114917 AAAAATAAAA
*
114927 TATTTATTTAATAT
1 TATTTATTCAATAT
114941 TATTTATGTCAATAT
1 TATTTAT-TCAATAT
*
114956 TA-TTATTAAAATAT
1 TATTTATT-CAATAT
114970 TATTT
1 TATTT
114975 CTATAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
13 1 0.03
14 18 0.62
15 10 0.34
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (14 bp):
TATTTATTCAATAT
Found at i:115243 original size:11 final size:11
Alignment explanation
Indices: 115229--115265 Score: 56
Period size: 11 Copynumber: 3.2 Consensus size: 11
115219 AAAAAAAATA
115229 TAATATATTAT
1 TAATATATTAT
115240 TAATATAATATAT
1 TAATAT-AT-TAT
115253 TAATATATTAT
1 TAATATATTAT
115264 TA
1 TA
115266 TAATATCAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.46
12 4 0.17
13 9 0.38
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
TAATATATTAT
Found at i:115249 original size:21 final size:21
Alignment explanation
Indices: 115225--115271 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
115215 AAATAAAAAA
115225 AATATAAT-ATATTATTAATAT
1 AATATAATAATA-TATTAATAT
* *
115246 AATATATTAATATATTATTAT
1 AATATAATAATATATTAATAT
115267 AATAT
1 AATAT
115272 CAAACCGTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (21 bp):
AATATAATAATATATTAATAT
Found at i:115267 original size:16 final size:16
Alignment explanation
Indices: 115225--115257 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
115215 AAATAAAAAA
*
115225 AATATAATATATTATT
1 AATATAATATATTAAT
115241 AATATAATATATTAAT
1 AATATAATATATTAAT
115257 A
1 A
115258 TATTATTATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AATATAATATATTAAT
Found at i:115269 original size:13 final size:12
Alignment explanation
Indices: 115226--115271 Score: 58
Period size: 13 Copynumber: 3.8 Consensus size: 12
115216 AATAAAAAAA
115226 ATATAATATATT
1 ATATAATATATT
*
115238 AT-TAATATAAT
1 ATATAATATATT
115249 ATATTAATATATT
1 ATA-TAATATATT
115262 ATTATAATAT
1 A-TATAATAT
115272 CAAACCGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
11 10 0.34
12 2 0.07
13 15 0.52
14 2 0.07
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
ATATAATATATT
Found at i:115671 original size:16 final size:15
Alignment explanation
Indices: 115643--115685 Score: 52
Period size: 16 Copynumber: 2.8 Consensus size: 15
115633 ATTGTCTTTT
115643 TCTTTTTTGTATTGTA
1 TCTTTTTT-TATTGTA
*
115659 TCTTTATTTTATTTTA
1 TCTTT-TTTTATTGTA
115675 T-TTTTTTTATT
1 TCTTTTTTTATT
115686 TTCAATAAGT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 7 0.28
15 3 0.12
16 12 0.48
17 3 0.12
ACGTcount: A:0.14, C:0.05, G:0.05, T:0.77
Consensus pattern (15 bp):
TCTTTTTTTATTGTA
Found at i:116753 original size:41 final size:41
Alignment explanation
Indices: 116708--116915 Score: 247
Period size: 41 Copynumber: 4.9 Consensus size: 41
116698 ATTCACGTTG
* *
116708 CATTTCGCATTGCGATAGTTGAAAATCGCGTTGCGTTTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
***
116749 CATTTCGCGTTGCGATAGTTG-AAATCGCAACGCGATCTCCACTATC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT-T----T-TC
* *
116795 GCAAATTCGCGTTACGATAGTTGAAAATCGCGTTGCGATTTTC
1 -C-ATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
*
116838 CATTTCGCGTTGCGATAGTTGAAATTCGCGTTGCGATTTTC
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
* *
116879 CATTTCGCGTTGCGATAGTTGAAATTCGCATTGCGAT
1 CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGAT
116916 AGTTGAAATT
Statistics
Matches: 144, Mismatches: 14, Indels: 18
0.82 0.08 0.10
Matches are distributed among these distances:
40 11 0.08
41 94 0.65
42 1 0.01
43 2 0.01
44 1 0.01
45 1 0.01
46 2 0.01
47 1 0.01
48 19 0.13
49 12 0.08
ACGTcount: A:0.22, C:0.21, G:0.23, T:0.35
Consensus pattern (41 bp):
CATTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTC
Found at i:116776 original size:20 final size:20
Alignment explanation
Indices: 116712--116776 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
116702 ACGTTGCATT
*
116712 TCGCATTGCGATAGTTGAAAA
1 TCGCGTTGCGATAGTTG-AAA
** * **
116733 TCGCGTTGCG-TTTTTCCATT
1 TCGCGTTGCGATAGTT-GAAA
116753 TCGCGTTGCGATAGTTGAAA
1 TCGCGTTGCGATAGTTGAAA
116773 TCGC
1 TCGC
116777 AACGCGATCT
Statistics
Matches: 31, Mismatches: 11, Indels: 5
0.66 0.23 0.11
Matches are distributed among these distances:
20 19 0.61
21 12 0.39
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (20 bp):
TCGCGTTGCGATAGTTGAAA
Found at i:116825 original size:21 final size:21
Alignment explanation
Indices: 116797--116926 Score: 147
Period size: 21 Copynumber: 6.3 Consensus size: 21
116787 CCACTATCGC
*
116797 AAATTCGCGTTACGATAGTTG
1 AAATTCGCGTTGCGATAGTTG
* * *
116818 AAAATCGCGTTGCGAT-TTTC
1 AAATTCGCGTTGCGATAGTTG
* *
116838 CATTTCGCGTTGCGATAGTTG
1 AAATTCGCGTTGCGATAGTTG
* *
116859 AAATTCGCGTTGCGAT-TTTC
1 AAATTCGCGTTGCGATAGTTG
* *
116879 CATTTCGCGTTGCGATAGTTG
1 AAATTCGCGTTGCGATAGTTG
*
116900 AAATTCGCATTGCGATAGTTG
1 AAATTCGCGTTGCGATAGTTG
116921 AAATTC
1 AAATTC
116927 TTAAGAAACA
Statistics
Matches: 87, Mismatches: 20, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
20 31 0.36
21 56 0.64
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (21 bp):
AAATTCGCGTTGCGATAGTTG
Found at i:116847 original size:20 final size:20
Alignment explanation
Indices: 116822--116894 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
116812 TAGTTGAAAA
116822 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* ** *
116842 TCGCGTTGCGATAGTTGAAAT
1 TCGCGTTGCGAT-TTTCCATT
116863 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
116883 TCGCGTTGCGAT
1 TCGCGTTGCGAT
116895 AGTTGAAATT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.14, C:0.22, G:0.25, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:116974 original size:19 final size:19
Alignment explanation
Indices: 116950--117015 Score: 78
Period size: 19 Copynumber: 3.3 Consensus size: 19
116940 TCTTTTTTTT
116950 CAACGAATTTAGAAAATCG
1 CAACGAATTTAGAAAATCG
* **
116969 CAACGACAACTGTAGACTATCG
1 CAACG--AA-TTTAGAAAATCG
116991 CAACGAATTTAGAAAATCG
1 CAACGAATTTAGAAAATCG
117010 CAACGA
1 CAACGA
117016 CAACTGTAGA
Statistics
Matches: 38, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
19 20 0.53
20 2 0.05
21 2 0.05
22 14 0.37
ACGTcount: A:0.44, C:0.21, G:0.17, T:0.18
Consensus pattern (19 bp):
CAACGAATTTAGAAAATCG
Found at i:116990 original size:22 final size:22
Alignment explanation
Indices: 116965--117036 Score: 96
Period size: 22 Copynumber: 3.4 Consensus size: 22
116955 AATTTAGAAA
116965 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
* **
116987 ATCGCAACG--AA-TTTAGAAA
1 ATCGCAACGACAACTGTAGACT
117006 ATCGCAACGACAACTGTAGACT
1 ATCGCAACGACAACTGTAGACT
117028 ATCGCAACG
1 ATCGCAACG
117037 CGAAATGGAA
Statistics
Matches: 41, Mismatches: 6, Indels: 6
0.77 0.11 0.11
Matches are distributed among these distances:
19 14 0.34
20 2 0.05
21 2 0.05
22 23 0.56
ACGTcount: A:0.39, C:0.25, G:0.18, T:0.18
Consensus pattern (22 bp):
ATCGCAACGACAACTGTAGACT
Found at i:117007 original size:41 final size:41
Alignment explanation
Indices: 116950--117036 Score: 174
Period size: 41 Copynumber: 2.1 Consensus size: 41
116940 TCTTTTTTTT
116950 CAACGAATTTAGAAAATCGCAACGACAACTGTAGACTATCG
1 CAACGAATTTAGAAAATCGCAACGACAACTGTAGACTATCG
116991 CAACGAATTTAGAAAATCGCAACGACAACTGTAGACTATCG
1 CAACGAATTTAGAAAATCGCAACGACAACTGTAGACTATCG
117032 CAACG
1 CAACG
117037 CGAAATGGAA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.18
Consensus pattern (41 bp):
CAACGAATTTAGAAAATCGCAACGACAACTGTAGACTATCG
Done.