Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold496
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: 765014
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
File 1 of 7
Found at i:109 original size:24 final size:24
Alignment explanation
Indices: 82--134 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
72 TTAATATTAT
* *
82 TTTTTATAAGTATTTTAAAAAATA
1 TTTTTAAAAGTATTATAAAAAATA
* **
106 TTTTTAAAATTATTATGTAAAATA
1 TTTTTAAAAGTATTATAAAAAATA
130 TTTTT
1 TTTTT
135 TCATCTAACG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.55
Consensus pattern (24 bp):
TTTTTAAAAGTATTATAAAAAATA
Found at i:339 original size:183 final size:187
Alignment explanation
Indices: 3--354 Score: 524
Period size: 183 Copynumber: 1.9 Consensus size: 187
1 TT
*
3 AAAAAAATAAAAGATATATAATTTTAAATAAAAAAATTTATAGATATTAAATTCGAACTTTAAAA
1 AAAAAAATAAAAGATATACAATTTTAAATAAAAAAATTTATAGATATTAAATTCGAACTTTAAAA
*
68 TTTATTAATATTATTTTTTATAAGTATTTTAAAAAATATTTTTAAAATTATTATGTAAAATATTT
66 TTTATTAATATTATTTTTTATAAGTATTTTAAAAAATATTTTAAAAATTATTATGTAAAATATTT
*
133 TTTCATCTAACGTGTTAAAAATAATGAATAATAGTTCCACATTGCAAAAAATTTTTA
131 ATTCATCTAACGTGTTAAAAATAATGAATAATAGTTCCACATTGCAAAAAATTTTTA
* *
190 AAAAAAAT-AAAGATGTACAA-TTTAAATAAAAAACTTTA-AGATATTAAAATTCGAAC-TT-AA
1 AAAAAAATAAAAGATATACAATTTTAAATAAAAAAATTTATAGATATT-AAATTCGAACTTTAAA
* *
250 ATTTATTAA-ATTATTTTTTATAAGTATTTT-AAACATATTTTAAAAAAATTATTATGTCTATAA
65 ATTTATTAATATTATTTTTTATAAGTATTTTAAAAAATATTTT--AAAAATTATTATG--TAAAA
*
313 TA-TTATTCATCTAACGTGTT-AAAATAATGAATAATCGTTCCA
126 TATTTATTCATCTAACGTGTTAAAAATAATGAATAATAGTTCCA
355 AGCATGCAAA
Statistics
Matches: 152, Mismatches: 8, Indels: 14
0.87 0.05 0.08
Matches are distributed among these distances:
181 10 0.07
182 21 0.14
183 44 0.29
184 26 0.17
185 33 0.22
186 10 0.07
187 8 0.05
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.41
Consensus pattern (187 bp):
AAAAAAATAAAAGATATACAATTTTAAATAAAAAAATTTATAGATATTAAATTCGAACTTTAAAA
TTTATTAATATTATTTTTTATAAGTATTTTAAAAAATATTTTAAAAATTATTATGTAAAATATTT
ATTCATCTAACGTGTTAAAAATAATGAATAATAGTTCCACATTGCAAAAAATTTTTA
Found at i:1034 original size:21 final size:21
Alignment explanation
Indices: 1010--1061 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 21
1000 CAAATCAAGT
1010 TAAATTAAATATAAA-TTTAAA
1 TAAATTAAAT-TAAATTTTAAA
1031 TAAATT-AATTAAATTTTTAAA
1 TAAATTAAATTAAA-TTTTAAA
1052 TCAAATTAAA
1 T-AAATTAAA
1062 ATAGTAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
19 4 0.15
20 3 0.11
21 13 0.48
22 5 0.19
23 2 0.07
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (21 bp):
TAAATTAAATTAAATTTTAAA
Found at i:7654 original size:29 final size:30
Alignment explanation
Indices: 7604--7660 Score: 71
Period size: 29 Copynumber: 1.9 Consensus size: 30
7594 ATTGTATTTA
* **
7604 TTTATTAAAATTTACATTTAATATATTATT
1 TTTATTAAAATTTAAAAATAATATATTATT
*
7634 TTTATT-AAATTTAAAAATAATTTATTA
1 TTTATTAAAATTTAAAAATAATATATTA
7661 ATTAATTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
29 17 0.74
30 6 0.26
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (30 bp):
TTTATTAAAATTTAAAAATAATATATTATT
Found at i:8125 original size:12 final size:13
Alignment explanation
Indices: 8102--8134 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
8092 TTCTTCTTAG
8102 TATAGTATTAGA-T
1 TATAG-ATTAGATT
8115 TATAGATTAGATT
1 TATAGATTAGATT
8128 TATAGAT
1 TATAGAT
8135 GAGGAGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 6 0.32
13 13 0.68
ACGTcount: A:0.39, C:0.00, G:0.15, T:0.45
Consensus pattern (13 bp):
TATAGATTAGATT
Found at i:8940 original size:15 final size:16
Alignment explanation
Indices: 8920--8949 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
8910 TCTTTGATCG
8920 TATTATA-AAAATTAA
1 TATTATATAAAATTAA
8935 TATTATATAAAATTA
1 TATTATATAAAATTA
8950 TAATTACTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTATATAAAATTAA
Found at i:9245 original size:12 final size:12
Alignment explanation
Indices: 9224--9256 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
9214 TTATATTGCT
*
9224 TGTATGTATGTA
1 TGTATATATGTA
9236 TGTATATATGTA
1 TGTATATATGTA
9248 TGTATATAT
1 TGTATATAT
9257 ATATACATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.18, T:0.52
Consensus pattern (12 bp):
TGTATATATGTA
Found at i:9257 original size:4 final size:4
Alignment explanation
Indices: 9238--9288 Score: 57
Period size: 4 Copynumber: 12.8 Consensus size: 4
9228 TGTATGTATG
* * * * *
9238 TATA TATG TATG TATA TATA TATA CATA TACA TACA TATA TATA TATA
1 TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA TATA
9286 TAT
1 TAT
9289 GTGTGTGTGT
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 41 1.00
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (4 bp):
TATA
Found at i:9261 original size:6 final size:6
Alignment explanation
Indices: 9238--9288 Score: 57
Period size: 6 Copynumber: 8.5 Consensus size: 6
9228 TGTATGTATG
* * * * *
9238 TATATA TGTATG TATATA TATATA CATATA CATACA TATATA TATATA
1 TATATA TATATA TATATA TATATA TATATA TATATA TATATA TATATA
9286 TAT
1 TAT
9289 GTGTGTGTGT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
6 37 1.00
ACGTcount: A:0.45, C:0.06, G:0.04, T:0.45
Consensus pattern (6 bp):
TATATA
Found at i:9266 original size:10 final size:10
Alignment explanation
Indices: 9253--9288 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
9243 ATGTATGTAT
9253 ATATATATAC
1 ATATATATAC
*
9263 ATATACATAC
1 ATATATATAC
*
9273 ATATATATAT
1 ATATATATAC
9283 ATATAT
1 ATATAT
9289 GTGTGTGTGT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (10 bp):
ATATATATAC
Found at i:9314 original size:4 final size:4
Alignment explanation
Indices: 9307--9339 Score: 66
Period size: 4 Copynumber: 8.2 Consensus size: 4
9297 GTAAGAGGAG
9307 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA T
9340 AGTCCAGCTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (4 bp):
TGTA
Found at i:9766 original size:2 final size:2
Alignment explanation
Indices: 9759--9807 Score: 98
Period size: 2 Copynumber: 24.5 Consensus size: 2
9749 GTAGAAATTA
9759 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
9801 AT AT AT A
1 AT AT AT A
9808 CACACACATT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 47 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10434 original size:3 final size:3
Alignment explanation
Indices: 10426--10462 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
10416 ACCAAAACAT
10426 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
10463 CTTTTTGACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10688 original size:39 final size:38
Alignment explanation
Indices: 10645--10725 Score: 94
Period size: 39 Copynumber: 2.1 Consensus size: 38
10635 TTTTTAAAAT
10645 TAATATATTGAGTTTAAT--AATAATTAAAAGATAAATATA
1 TAATATATTGA-TTTAATAGAAT-ATTAAAAGATAAATA-A
* * *
10684 TAATATATTTATTTGATAGAATATTAAAATATAAATAA
1 TAATATATTGATTTAATAGAATATTAAAAGATAAATAA
10722 TAAT
1 TAAT
10726 GCATTAAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
38 10 0.27
39 24 0.65
40 3 0.08
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (38 bp):
TAATATATTGATTTAATAGAATATTAAAAGATAAATAA
Found at i:11960 original size:16 final size:17
Alignment explanation
Indices: 11933--11965 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11923 ATATGTCTAT
*
11933 ATGTATTTATATTTTTA
1 ATGTATTTATATATTTA
11950 ATGTA-TTATATATTTA
1 ATGTATTTATATATTTA
11966 TCTTTTACTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.33, C:0.00, G:0.06, T:0.61
Consensus pattern (17 bp):
ATGTATTTATATATTTA
Found at i:14370 original size:10 final size:10
Alignment explanation
Indices: 14355--14385 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
14345 AAAATATAAA
14355 ATATATTTTT
1 ATATATTTTT
14365 ATATATTTTTT
1 ATATA-TTTTT
14376 ATATATTTTT
1 ATATATTTTT
14386 TTTAACAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
ATATATTTTT
Found at i:14389 original size:13 final size:11
Alignment explanation
Indices: 14355--14386 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
14345 AAAATATAAA
14355 ATATA-TTTTT
1 ATATATTTTTT
14365 ATATATTTTTT
1 ATATATTTTTT
14376 ATATATTTTTT
1 ATATATTTTTT
14387 TTAACAAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
ATATATTTTTT
Found at i:15185 original size:22 final size:25
Alignment explanation
Indices: 15141--15187 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
15131 TTAAATATTA
*
15141 AATAAATTATTTTAATATTAAATAT
1 AATAAATTATTTTAATATAAAATAT
15166 AATAAA-TA-TTTAATA-AAAATAT
1 AATAAATTATTTTAATATAAAATAT
15188 GTTTTAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 7 0.33
24 2 0.10
25 6 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (25 bp):
AATAAATTATTTTAATATAAAATAT
Found at i:15631 original size:3 final size:3
Alignment explanation
Indices: 15623--15665 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
15613 CATGTTTCAC
15623 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
15666 GAACAAAAGC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:16291 original size:19 final size:19
Alignment explanation
Indices: 16265--16315 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
16255 TATATTATTA
*
16265 TATAAATTATTAAAAAACT
1 TATAAATTATTAAAAAAAT
* *
16284 TTTAAATTTAATAAAAAAAT
1 TATAAA-TTATTAAAAAAAT
16304 TATAAA-TATTAA
1 TATAAATTATTAA
16316 TATAAAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
18 5 0.19
19 5 0.19
20 16 0.62
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (19 bp):
TATAAATTATTAAAAAAAT
Found at i:16302 original size:21 final size:21
Alignment explanation
Indices: 16261--16329 Score: 70
Period size: 21 Copynumber: 3.3 Consensus size: 21
16251 AATTTATATT
*
16261 ATTATATAA-ATTATTAAAAAA
1 ATTATA-AATATTAATAAAAAA
* *
16282 CTTTTAAAT-TTAATAAAAAA
1 ATTATAAATATTAATAAAAAA
*
16302 ATTATAAATATTAATATAAAA
1 ATTATAAATATTAATAAAAAA
*
16323 ATAATAA
1 ATTATAA
16330 TTTTAAAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
20 19 0.49
21 20 0.51
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.38
Consensus pattern (21 bp):
ATTATAAATATTAATAAAAAA
Found at i:16392 original size:16 final size:16
Alignment explanation
Indices: 16366--16405 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
16356 AATAAATTAC
*
16366 TAAATTAATTTAAATT
1 TAAAATAATTTAAATT
*
16382 TAATATAATTTAAATT
1 TAAAATAATTTAAATT
16398 TAAAATAA
1 TAAAATAA
16406 AAAATTATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TAAAATAATTTAAATT
Found at i:17315 original size:23 final size:23
Alignment explanation
Indices: 17263--17312 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
17253 AACTCAATTG
17263 ATTTTTAAAATTTATTTATTTTT
1 ATTTTTAAAATTTATTTATTTTT
*
17286 ATCTTTAAAATTTA-TT-TTTTT
1 ATTTTTAAAATTTATTTATTTTT
17307 ATTTTT
1 ATTTTT
17313 TTATCTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.40
22 2 0.08
23 13 0.52
ACGTcount: A:0.28, C:0.02, G:0.00, T:0.70
Consensus pattern (23 bp):
ATTTTTAAAATTTATTTATTTTT
Found at i:17576 original size:22 final size:22
Alignment explanation
Indices: 17551--17594 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
17541 ACTCGAAATT
17551 CTATATAATTAACAATAATTAA
1 CTATATAATTAACAATAATTAA
17573 CTATATAATTAACAATAATTAA
1 CTATATAATTAACAATAATTAA
17595 GATTATATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.55, C:0.09, G:0.00, T:0.36
Consensus pattern (22 bp):
CTATATAATTAACAATAATTAA
Found at i:17582 original size:12 final size:10
Alignment explanation
Indices: 17555--17594 Score: 62
Period size: 10 Copynumber: 3.8 Consensus size: 10
17545 GAAATTCTAT
17555 ATAATTAACA
1 ATAATTAACA
17565 ATAATTAACTA
1 ATAATTAAC-A
17576 TATAATTAACA
1 -ATAATTAACA
17587 ATAATTAA
1 ATAATTAA
17595 GATTATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 17 0.61
11 2 0.07
12 9 0.32
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.35
Consensus pattern (10 bp):
ATAATTAACA
Found at i:20259 original size:6 final size:6
Alignment explanation
Indices: 20257--20291 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
20247 AATATATTCA
20257 TATATT TATA-T TATATT TATA-T TATATT TATATT T
1 TATATT TATATT TATATT TATATT TATATT TATATT T
20292 TTATCATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 10 0.37
6 17 0.63
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATATT
Found at i:20273 original size:11 final size:11
Alignment explanation
Indices: 20257--20290 Score: 68
Period size: 11 Copynumber: 3.1 Consensus size: 11
20247 AATATATTCA
20257 TATATTTATAT
1 TATATTTATAT
20268 TATATTTATAT
1 TATATTTATAT
20279 TATATTTATAT
1 TATATTTATAT
20290 T
1 T
20291 TTTATCATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (11 bp):
TATATTTATAT
Found at i:20279 original size:17 final size:17
Alignment explanation
Indices: 20257--20302 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
20247 AATATATTCA
20257 TATATT-TATATTATATT
1 TATATTATAT-TTATATT
20274 TATATTATATTTATATT
1 TATATTATATTTATATT
* *
20291 TTTATCATATTT
1 TATATTATATTT
20303 TAATTATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 23 0.88
18 3 0.12
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (17 bp):
TATATTATATTTATATT
Found at i:20300 original size:22 final size:20
Alignment explanation
Indices: 20257--20317 Score: 59
Period size: 22 Copynumber: 2.8 Consensus size: 20
20247 AATATATTCA
20257 TATATTTATATTATATTTATAT
1 TATATTTATATT-T-TTTATAT
20279 TATATTTATATTTTTATCATAT
1 TATATTTATATTTTT-T-ATAT
* *
20301 TTTAATTATTATTTTTT
1 TATATTTA-TATTTTTT
20318 GATAATTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
20 2 0.06
21 2 0.06
22 23 0.68
23 7 0.21
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TATATTTATATTTTTTATAT
Found at i:20737 original size:7 final size:7
Alignment explanation
Indices: 20715--20765 Score: 59
Period size: 7 Copynumber: 7.0 Consensus size: 7
20705 TTGTTCAGTT
*
20715 GAAAAAT
1 GAAAAAA
20722 GAAAGAAA
1 GAAA-AAA
20730 GAAAAAA
1 GAAAAAA
20737 G-AAAAA
1 GAAAAAA
20743 GAAAAAA
1 GAAAAAA
20750 TGAAAAAAA
1 -G-AAAAAA
20759 GAAAAAA
1 GAAAAAA
20766 ATTTAAGGAT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
6 6 0.15
7 19 0.49
8 8 0.21
9 6 0.15
ACGTcount: A:0.80, C:0.00, G:0.16, T:0.04
Consensus pattern (7 bp):
GAAAAAA
Found at i:20742 original size:8 final size:8
Alignment explanation
Indices: 20723--20766 Score: 54
Period size: 8 Copynumber: 5.4 Consensus size: 8
20713 TTGAAAAATG
20723 AAAGAAAGA
1 AAAGAAA-A
20732 AAA-AAGAA
1 AAAGAA-AA
20740 AAAGAAAA
1 AAAGAAAA
*
20748 AATGAAAA
1 AAAGAAAA
20756 AAAGAAAA
1 AAAGAAAA
20764 AAA
1 AAA
20767 TTTAAGGATC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
8 25 0.81
9 6 0.19
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (8 bp):
AAAGAAAA
Found at i:20745 original size:13 final size:14
Alignment explanation
Indices: 20716--20756 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
20706 TGTTCAGTTG
20716 AAAAATGAAAGAAAGA
1 AAAAATG-AA-AAAGA
20732 AAAAA-GAAAAAGA
1 AAAAATGAAAAAGA
20745 AAAAATGAAAAA
1 AAAAATGAAAAA
20757 AAGAAAAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 10 0.42
14 8 0.33
15 1 0.04
16 5 0.21
ACGTcount: A:0.80, C:0.00, G:0.15, T:0.05
Consensus pattern (14 bp):
AAAAATGAAAAAGA
Found at i:20767 original size:17 final size:16
Alignment explanation
Indices: 20716--20765 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
20706 TGTTCAGTTG
*
20716 AAAAATGAAAGAAAGA
1 AAAAATGAAAAAAAGA
20732 AAAAA-G--AAAAAGA
1 AAAAATGAAAAAAAGA
20745 AAAAATGAAAAAAAGA
1 AAAAATGAAAAAAAGA
20761 AAAAA
1 AAAAA
20766 ATTTAAGGAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
13 11 0.37
14 1 0.03
15 1 0.03
16 17 0.57
ACGTcount: A:0.82, C:0.00, G:0.14, T:0.04
Consensus pattern (16 bp):
AAAAATGAAAAAAAGA
Found at i:20810 original size:23 final size:23
Alignment explanation
Indices: 20783--20850 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 23
20773 GATCCGTATT
20783 TTTATTATTTTTATATTTAA-AA
1 TTTATTATTTTTATATTTAATAA
20805 TATTA-TATTTTTATATATTAATAA
1 T-TTATTATTTTTATAT-TTAATAA
20829 TTTATTTTATTTTATATATTTA
1 TTTA--TTATTTT-TATATTTA
20851 TATGTATATA
Statistics
Matches: 39, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
22 12 0.31
23 10 0.26
24 3 0.08
26 9 0.23
27 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TTTATTATTTTTATATTTAATAA
Found at i:20816 original size:22 final size:24
Alignment explanation
Indices: 20788--20850 Score: 76
Period size: 26 Copynumber: 2.6 Consensus size: 24
20778 GTATTTTTAT
20788 TATTTTTATATTTAA-AA-TATTA
1 TATTTTTATATTTAATAATTATTA
*
20810 TATTTTTATATATTAATAATTTATTT
1 TATTTTTATAT-TTAATAA-TTATTA
20836 TATTTTATATATTTA
1 TATTTT-TATATTTA
20851 TATGTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
22 11 0.31
23 4 0.11
24 2 0.06
26 13 0.37
27 5 0.14
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (24 bp):
TATTTTTATATTTAATAATTATTA
Found at i:20864 original size:25 final size:26
Alignment explanation
Indices: 20791--20865 Score: 72
Period size: 25 Copynumber: 3.1 Consensus size: 26
20781 TTTTTATTAT
*
20791 TTTTATAT-TTAA-AATAT-TATAT-
1 TTTTATATATTAATAATGTATATATA
* *
20813 TTTTATATATTAATAATTTAT-TTTA
1 TTTTATATATTAATAATGTATATATA
*
20838 TTTTATATATTTAT-ATGTATATATA
1 TTTTATATATTAATAATGTATATATA
20863 TTT
1 TTT
20866 GTATTATGTG
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
22 8 0.19
23 4 0.09
24 11 0.26
25 20 0.47
ACGTcount: A:0.36, C:0.00, G:0.01, T:0.63
Consensus pattern (26 bp):
TTTTATATATTAATAATGTATATATA
Found at i:20871 original size:62 final size:63
Alignment explanation
Indices: 20805--20947 Score: 143
Period size: 62 Copynumber: 2.3 Consensus size: 63
20795 ATATTTAAAA
*
20805 TATTATATTTTTATATATTAATAATT-TATTTTATT-T-TATATATTTATATGTATATATATT-T
1 TATTATATTTTTAT-TATT-ATAATTGTATTTTATTATCTATATATTTATATCTATATATATTAT
* * * * * *
20866 GTATTAT-GTGTTATTATTATTATTGTTTTTTATTATCTATTTATTTATATCTATATTTATTAT
1 -TATTATATTTTTATTATTATAATTGTATTTTATTATCTATATATTTATATCTATATATATTAT
20929 TATTATTATTTTTTATTAT
1 TATTA-TA-TTTTTATTAT
20948 CTATCTATCT
Statistics
Matches: 65, Mismatches: 9, Indels: 11
0.76 0.11 0.13
Matches are distributed among these distances:
59 5 0.08
60 12 0.18
61 6 0.09
62 32 0.49
63 2 0.03
65 8 0.12
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.66
Consensus pattern (63 bp):
TATTATATTTTTATTATTATAATTGTATTTTATTATCTATATATTTATATCTATATATATTAT
Found at i:20880 original size:16 final size:14
Alignment explanation
Indices: 20861--20947 Score: 54
Period size: 16 Copynumber: 5.8 Consensus size: 14
20851 TATGTATATA
20861 TATTTGTATTATGTGT
1 TATTT-TATTAT-TGT
20877 TATTATTATTATTGT
1 TATT-TTATTATTGT
*
20892 T-TTTTATTATCTATT
1 TATTTTATTAT-T-GT
20907 TATTTATATCTATAT-T
1 TATTT-TAT-TAT-TGT
*
20923 TATTATTATTATTAT
1 TATT-TTATTATTGT
20938 T-TTTTATTAT
1 TATTTTATTAT
20948 CTATCTATCT
Statistics
Matches: 61, Mismatches: 2, Indels: 19
0.74 0.02 0.23
Matches are distributed among these distances:
13 14 0.23
14 6 0.10
15 11 0.18
16 21 0.34
17 5 0.08
18 4 0.07
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (14 bp):
TATTTTATTATTGT
Found at i:20926 original size:46 final size:46
Alignment explanation
Indices: 20876--20965 Score: 144
Period size: 46 Copynumber: 2.0 Consensus size: 46
20866 GTATTATGTG
* * * *
20876 TTATTATTATTATTGTTTTTTATTATCTATTTATTTATATCTATAT
1 TTATTATTATTATTATTTTTTATTATCTATCTATCTATACCTATAT
20922 TTATTATTATTATTATTTTTTATTATCTATCTATCTATACCTAT
1 TTATTATTATTATTATTTTTTATTATCTATCTATCTATACCTAT
20966 CTAACATGTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.27, C:0.08, G:0.01, T:0.64
Consensus pattern (46 bp):
TTATTATTATTATTATTTTTTATTATCTATCTATCTATACCTATAT
Found at i:21998 original size:23 final size:23
Alignment explanation
Indices: 21971--22015 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
21961 AAAATTTACA
**
21971 TATTTATGTTTTTTATTATTTAT
1 TATTTATAATTTTTATTATTTAT
21994 TATTTATAATTTTTATTATTTA
1 TATTTATAATTTTTATTATTTA
22016 AAATATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (23 bp):
TATTTATAATTTTTATTATTTAT
Found at i:22073 original size:12 final size:13
Alignment explanation
Indices: 22056--22084 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
22046 AAATTTTATG
22056 TTTTTATA-TTTA
1 TTTTTATATTTTA
22068 TTTTTATATTTTA
1 TTTTTATATTTTA
22081 TTTT
1 TTTT
22085 AATTAATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 8 0.50
13 8 0.50
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (13 bp):
TTTTTATATTTTA
Found at i:22192 original size:24 final size:26
Alignment explanation
Indices: 22158--22213 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 26
22148 TTTGTACATA
*
22158 TTAAT-TATTTATTTA-T-ATATTTT
1 TTAATATATTTATATATTCATATTTT
22181 TTAATATATTTATATATTCATATTTT
1 TTAATATATTTATATATTCATATTTT
*
22207 TTTATAT
1 TTAATAT
22214 TATGTTTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 5 0.18
24 9 0.32
25 1 0.04
26 13 0.46
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (26 bp):
TTAATATATTTATATATTCATATTTT
Found at i:23173 original size:13 final size:13
Alignment explanation
Indices: 23155--23179 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
23145 AAAAACTTCA
23155 TATTTTTTATTTG
1 TATTTTTTATTTG
23168 TATTTTTTATTT
1 TATTTTTTATTT
23180 TTTAATTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.00, G:0.04, T:0.80
Consensus pattern (13 bp):
TATTTTTTATTTG
Found at i:23194 original size:19 final size:20
Alignment explanation
Indices: 23172--23215 Score: 63
Period size: 19 Copynumber: 2.2 Consensus size: 20
23162 TATTTGTATT
* *
23172 TTTTATTTTTTAATTTTA-A
1 TTTTATTTTTAAATTATATA
23191 TTTTATTTTTAAATTATATA
1 TTTTATTTTTAAATTATATA
23211 TTTTA
1 TTTTA
23216 ATGTTAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 16 0.73
20 6 0.27
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTTATTTTTAAATTATATA
Found at i:23195 original size:32 final size:32
Alignment explanation
Indices: 23159--23225 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 32
23149 ACTTCATATT
** * * *
23159 TTTTATTTGTATTTTTTATTTTTTAATTTTAA
1 TTTTATTTGTAAATTATATATTTTAATGTTAA
*
23191 TTTTATTTTTAAATTATATATTTTAATGTTAA
1 TTTTATTTGTAAATTATATATTTTAATGTTAA
23223 TTT
1 TTT
23226 GCATTGTCGT
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (32 bp):
TTTTATTTGTAAATTATATATTTTAATGTTAA
Found at i:24465 original size:50 final size:50
Alignment explanation
Indices: 24397--24652 Score: 368
Period size: 50 Copynumber: 5.1 Consensus size: 50
24387 AGTTGCTTAG
* * *
24397 AGTCAACAATTATAGCCACCTCTCTCTATTGTCAAAGGTTGGTGAAAAAT
1 AGTCAACAATTATGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
* * *
24447 AGTTAACAATTATGGCCACCTTTTTCGATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
* * *
24497 AGTCAACAATAACGGCCACCTCTCTCGATTGTCAAAGGTTAGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
* * *
24547 AGTCAACAATTATGACCACTTCTCTCAATTGTCAAAGGTTGGTGAAGAAT
1 AGTCAACAATTATGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
* * * *
24597 ATTCAACAATTACGGTCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAC
1 AGTCAACAATTATGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
24647 AGTCAA
1 AGTCAA
24653 ATCACTTTGC
Statistics
Matches: 180, Mismatches: 26, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 180 1.00
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (50 bp):
AGTCAACAATTATGGCCACCTCTCTCGATTGTCAAAGGTTGGTGAAGAAT
Found at i:29087 original size:50 final size:50
Alignment explanation
Indices: 29028--29259 Score: 254
Period size: 50 Copynumber: 4.7 Consensus size: 50
29018 ACTTAGAGTT
* * * *
29028 AACAATTACGATAACCTCTCTCTATTGCCAAAGGTTTGTGAAGAATAGAC
1 AACAATTACGATCACCTCTCTCGATTGTCAAAGGTTAGTGAAGAATAGAC
*
29078 AACAATTACGA-CTACCTCTCTCGATTGTCAAAGGTTAGTGAAGAATAGTC
1 AACAATTACGATC-ACCTCTCTCGATTGTCAAAGGTTAGTGAAGAATAGAC
* * *
29128 AACAATAACGGTCACCTCTCTCGATTGTCAAAGGTTAGTAAAGAATA-ATC
1 AACAATTACGATCACCTCTCTCGATTGTCAAAGGTTAGTGAAGAATAGA-C
* ** * * **
29178 AACAATTATGGGCACCTC-CTCGATTGTGAAAGGTTGGTGAAGAATAGTT
1 AACAATTACGATCACCTCTCTCGATTGTCAAAGGTTAGTGAAGAATAGAC
* * * *
29227 AACAATTATGACCACCTCTCTCGGTTGTTAAAG
1 AACAATTACGATCACCTCTCTCGATTGTCAAAG
29260 ATCGATAAAG
Statistics
Matches: 156, Mismatches: 21, Indels: 10
0.83 0.11 0.05
Matches are distributed among these distances:
49 41 0.26
50 114 0.73
51 1 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (50 bp):
AACAATTACGATCACCTCTCTCGATTGTCAAAGGTTAGTGAAGAATAGAC
Found at i:29243 original size:99 final size:100
Alignment explanation
Indices: 29024--29278 Score: 293
Period size: 99 Copynumber: 2.6 Consensus size: 100
29014 AGTTACTTAG
* * * * *
29024 AGTTAACAATTACGATAACCTCTCTCTATTGCCAAAGGTTTGTGAAGAATAGA-CAACAATTACG
1 AGTTAACAATTACGATCACCTCTCTCGATTGTCAAAGGTTAGTAAAGAATA-ATCAACAATTACG
29088 ACTACCTCTCTCGATTGTCAAAGGTTAGTGAAGAAT
65 ACTACCTCTCTCGATTGTCAAAGGTTAGTGAAGAAT
* * * *
29124 AGTCAACAATAACGGTCACCTCTCTCGATTGTCAAAGGTTAGTAAAGAATAATCAACAATTATGG
1 AGTTAACAATTACGATCACCTCTCTCGATTGTCAAAGGTTAGTAAAGAATAATCAACAATTA-CG
* * *
29189 GC-ACCTC-CTCGATTGTGAAAGGTTGGTGAAGAAT
65 ACTACCTCTCTCGATTGTCAAAGGTTAGTGAAGAAT
* * * * * *
29223 AGTTAACAATTATGACCACCTCTCTCGGTTGTTAAA-GATCGATAAAGAATAATCAA
1 AGTTAACAATTACGATCACCTCTCTCGATTGTCAAAGGTTAG-TAAAGAATAATCAA
29279 ATCACTTTGC
Statistics
Matches: 131, Mismatches: 21, Indels: 7
0.82 0.13 0.04
Matches are distributed among these distances:
98 3 0.02
99 69 0.53
100 57 0.44
101 2 0.02
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (100 bp):
AGTTAACAATTACGATCACCTCTCTCGATTGTCAAAGGTTAGTAAAGAATAATCAACAATTACGA
CTACCTCTCTCGATTGTCAAAGGTTAGTGAAGAAT
Found at i:29432 original size:2 final size:2
Alignment explanation
Indices: 29427--29480 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
29417 CTCCATCTTT
29427 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
29469 TA TA TA TA TA TA
1 TA TA TA TA TA TA
29481 AACCAAAAAC
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30456 original size:18 final size:19
Alignment explanation
Indices: 30427--30479 Score: 65
Period size: 18 Copynumber: 2.8 Consensus size: 19
30417 TTTCACTTTC
30427 ACATATTTATATTATTTTTA
1 ACATA-TTATATTATTTTTA
*
30447 A-ATATTATATTATATTTA
1 ACATATTATATTATTTTTA
*
30465 ACATGTTATA-TATTT
1 ACATATTATATTATTT
30480 ATATAAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
18 18 0.62
19 10 0.34
20 1 0.03
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.57
Consensus pattern (19 bp):
ACATATTATATTATTTTTA
Found at i:30566 original size:28 final size:27
Alignment explanation
Indices: 30534--30586 Score: 70
Period size: 28 Copynumber: 1.9 Consensus size: 27
30524 GATATGTTCA
*
30534 TATATTTGTATTGTATTTATATTATTTT
1 TATATTTGTATTATATTTA-ATTATTTT
* *
30562 TATATTTTTATTATGTTTAATTATT
1 TATATTTGTATTATATTTAATTATT
30587 GTTTTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 6 0.27
28 16 0.73
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (27 bp):
TATATTTGTATTATATTTAATTATTTT
Found at i:30567 original size:17 final size:17
Alignment explanation
Indices: 30547--30601 Score: 51
Period size: 17 Copynumber: 3.3 Consensus size: 17
30537 ATTTGTATTG
30547 TATTTATATTATTTTTA
1 TATTTATATTATTTTTA
* *
30564 TATTTTTATTATGTTTA
1 TATTTATATTATTTTTA
* *
30581 -A-TTATTGTTTTTTTTA
1 TATTTA-TATTATTTTTA
30597 TATTT
1 TATTT
30602 GAATAAATTG
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
15 2 0.07
16 9 0.31
17 16 0.55
18 2 0.07
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.73
Consensus pattern (17 bp):
TATTTATATTATTTTTA
Found at i:33321 original size:21 final size:23
Alignment explanation
Indices: 33291--33332 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
33281 AATTACTCTA
*
33291 AAAAAGATTTTTGAA-AAAATTT
1 AAAAAGATTTATGAATAAAATTT
33313 AAAAA-ATTTATGAATAAAAT
1 AAAAAGATTTATGAATAAAAT
33333 CAATATGAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.60, C:0.00, G:0.07, T:0.33
Consensus pattern (23 bp):
AAAAAGATTTATGAATAAAATTT
Found at i:33846 original size:27 final size:27
Alignment explanation
Indices: 33822--33879 Score: 75
Period size: 27 Copynumber: 2.1 Consensus size: 27
33812 AAAATTATTT
*
33822 TTAAA-TTAATATTATATATTTTTATAA
1 TTAAATTTAA-ATTAAATATTTTTATAA
33849 TTAAATTTAAATTAAATATTATTT-TAA
1 TTAAATTTAAATTAAATATT-TTTATAA
33876 TTAA
1 TTAA
33880 TAAATAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
27 21 0.75
28 7 0.25
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
TTAAATTTAAATTAAATATTTTTATAA
Found at i:34249 original size:2 final size:2
Alignment explanation
Indices: 34238--34282 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
34228 ATGTTTCTTT
*
34238 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34279 TA TA
1 TA TA
34283 GTATTAGGCA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:39594 original size:2 final size:2
Alignment explanation
Indices: 39587--39645 Score: 91
Period size: 2 Copynumber: 29.5 Consensus size: 2
39577 CGCTTGTTCG
* * *
39587 AT AT AT AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AC AT AA
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
39629 AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT A
39646 CATAAGATTA
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:39844 original size:19 final size:19
Alignment explanation
Indices: 39820--39856 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
39810 AATTATAATT
* *
39820 TTTTTTTAAAAATTAATAG
1 TTTTTTAAAAAATAAATAG
39839 TTTTTTAAAAAATAAATA
1 TTTTTTAAAAAATAAATA
39857 AGTAATAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (19 bp):
TTTTTTAAAAAATAAATAG
Found at i:39855 original size:23 final size:25
Alignment explanation
Indices: 39829--39878 Score: 59
Period size: 26 Copynumber: 2.0 Consensus size: 25
39819 TTTTTTTTAA
*
39829 AAAT-TAATAGTTTTTTAAA-AAAT
1 AAATATAATAATTTTTTAAATAAAT
39852 AAATAAGTAATAATTTTTTAAATAAAT
1 AAAT-A-TAATAATTTTTTAAATAAAT
39879 GTTAGTAGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 4 0.18
26 14 0.64
27 4 0.18
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (25 bp):
AAATATAATAATTTTTTAAATAAAT
Found at i:40123 original size:18 final size:18
Alignment explanation
Indices: 40088--40146 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
40078 CAATGAATGA
*
40088 AATAATAAATAATTAAAT
1 AATAATAAATAATAAAAT
40106 AATATATAAA-AATAAAAT
1 AATA-ATAAATAATAAAAT
* *
40124 -AT-TTAAATAAAAAAAT
1 AATAATAAATAATAAAAT
*
40140 AAAAATA
1 AATAATA
40147 CTAAAAACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
15 4 0.12
16 7 0.22
17 3 0.09
18 13 0.41
19 5 0.16
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAATAAATAATAAAAT
Found at i:40329 original size:15 final size:15
Alignment explanation
Indices: 40309--40362 Score: 53
Period size: 15 Copynumber: 3.9 Consensus size: 15
40299 CCAATGAATG
40309 AAATAATAAATAATT
1 AAATAATAAATAATT
*
40324 AAATAATATATAA--
1 AAATAATAAATAATT
*
40337 AAAT-A-AAATATTT
1 AAATAATAAATAATT
*
40350 AAATAAAAAATAA
1 AAATAATAAATAA
40363 AAATACTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
11 4 0.13
12 1 0.03
13 8 0.26
14 1 0.03
15 17 0.55
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATAATAAATAATT
Found at i:40345 original size:18 final size:18
Alignment explanation
Indices: 40310--40367 Score: 52
Period size: 18 Copynumber: 3.4 Consensus size: 18
40300 CAATGAATGA
*
40310 AATAATAAATAATTAAAT
1 AATAATAAATAATAAAAT
40328 AATATATAAA-AATAAAAT
1 AATA-ATAAATAATAAAAT
*
40346 -AT-TTAAATAA-AAAAT
1 AATAATAAATAATAAAAT
*
40361 AAAAATA
1 AATAATA
40368 CTAAAAAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 9
0.71 0.09 0.20
Matches are distributed among these distances:
15 9 0.28
16 3 0.09
17 4 0.12
18 11 0.34
19 5 0.16
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
AATAATAAATAATAAAAT
Found at i:40351 original size:26 final size:26
Alignment explanation
Indices: 40316--40367 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
40306 ATGAAATAAT
* *
40316 AAATAATTAAATAATATATAAAAATA
1 AAATAATTAAATAAAAAATAAAAATA
*
40342 AAATATTTAAATAAAAAATAAAAATA
1 AAATAATTAAATAAAAAATAAAAATA
40368 CTAAAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (26 bp):
AAATAATTAAATAAAAAATAAAAATA
Found at i:40446 original size:221 final size:220
Alignment explanation
Indices: 40060--40504 Score: 829
Period size: 221 Copynumber: 2.0 Consensus size: 220
40050 TTACTTTACT
40060 TAATAAGTCTTATGTACACAATGAATGAAATAATAAATAATTAAATAATATATAAAAATAAAATA
1 TAATAAGTCTTATGTACACAATGAATGAAATAATAAATAATTAAATAATATATAAAAATAAAATA
*
40125 TTTAAATAAAAAAATAAAAATACTAAAAACTTCTTAAAAAATTTATAAGCTTCAGTTTTTAATAT
66 TTTAAATAAAAAAATAAAAATACTAAAAAATTCTTAAAAAATTTATAAGCTTCAGTTTTTAATAT
*
40190 TTATAGTTTTTTTTATCTCAGATCAAAATTTTATTTATACTAAAAAAGAATATGGTAAAATGTCC
131 TTATAGTTTTTTTTATCTCAGATCAAAACTTTATTTATACT-AAAAAGAATATGGTAAAATGTCC
40255 ATTTATATTAGTACTATTGATAATAAA
195 ATTTATATTAGTACTATTGAT-ATAAA
*
40282 TAATAAGTCTTATGTACCCAATGAATGAAATAATAAATAATTAAATAATATATAAAAATAAAATA
1 TAATAAGTCTTATGTACACAATGAATGAAATAATAAATAATTAAATAATATATAAAAATAAAATA
40347 TTTAAAT-AAAAAATAAAAATACTAAAAAATTCTTAAAAAATTTATAAGCTTCAGTTTTTAATAT
66 TTTAAATAAAAAAATAAAAATACTAAAAAATTCTTAAAAAATTTATAAGCTTCAGTTTTTAATAT
40411 TTATAGTTTTTTTTATCTCAGATCAAAACTTTATTTATACTAAAAAGAATATGGTAAAATGTCCA
131 TTATAGTTTTTTTTATCTCAGATCAAAACTTTATTTATACTAAAAAGAATATGGTAAAATGTCCA
*
40476 TTTATATTAGTACTATTGATATAGA
196 TTTATATTAGTACTATTGATATAAA
40501 TAAT
1 TAAT
40505 GAATTGAAAG
Statistics
Matches: 219, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
219 8 0.04
220 44 0.20
221 96 0.44
222 71 0.32
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.38
Consensus pattern (220 bp):
TAATAAGTCTTATGTACACAATGAATGAAATAATAAATAATTAAATAATATATAAAAATAAAATA
TTTAAATAAAAAAATAAAAATACTAAAAAATTCTTAAAAAATTTATAAGCTTCAGTTTTTAATAT
TTATAGTTTTTTTTATCTCAGATCAAAACTTTATTTATACTAAAAAGAATATGGTAAAATGTCCA
TTTATATTAGTACTATTGATATAAA
Found at i:41660 original size:43 final size:41
Alignment explanation
Indices: 41612--41762 Score: 116
Period size: 43 Copynumber: 3.7 Consensus size: 41
41602 TTTCAATATG
41612 ATATAAATATAATATTATAAAAATTATTAAAATATATTATAAA
1 ATATAAATATAATATTATAAAAATTATTAAAATATATT-T-AA
* * * **
41655 ATATAAA-ATAATTATCAAAAAATATTTTTAATTTA-ATTTAA
1 ATATAAATATAA-TATTATAAAA-ATTATTAAAATATATTTAA
* *
41696 ATAT--ATA-AATA-TATTAAAATTTATAAAAATATATTTTAA
1 ATATAAATATAATATTA-TAAAAATTATTAAAATATA-TTTAA
* *
41735 ATATAAATATAAATATGATATAAATTAT
1 ATATAAATAT-AATATTATAAAAATTAT
41763 AATTTTAGAG
Statistics
Matches: 82, Mismatches: 15, Indels: 22
0.69 0.13 0.18
Matches are distributed among these distances:
37 8 0.10
38 7 0.09
39 12 0.15
40 1 0.01
41 9 0.11
42 5 0.06
43 30 0.37
44 10 0.12
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.42
Consensus pattern (41 bp):
ATATAAATATAATATTATAAAAATTATTAAAATATATTTAA
Found at i:41944 original size:29 final size:29
Alignment explanation
Indices: 41902--41957 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
41892 AGATGGATAT
41902 ATATAATTAATTAAATAATTGTAAAATAC
1 ATATAATTAATTAAATAATTGTAAAATAC
41931 ATATAATTAATTAAATAATTGTAAAAT
1 ATATAATTAATTAAATAATTGTAAAAT
41958 TTAAAATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.39
Consensus pattern (29 bp):
ATATAATTAATTAAATAATTGTAAAATAC
Found at i:42797 original size:3 final size:3
Alignment explanation
Indices: 42791--42823 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
42781 TCATCATCAT
42791 CAG CAG CAG CAG CAG CAG CAG CAG CA- CAG CAG C
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG C
42824 TTGGTTTGCC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.33, C:0.36, G:0.30, T:0.00
Consensus pattern (3 bp):
CAG
Found at i:44190 original size:21 final size:20
Alignment explanation
Indices: 44166--44210 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
44156 TTTTATTTGG
*
44166 TTAAACTATTAAAAATTTTTT
1 TTAAA-TATTAAAAATTTATT
* *
44187 TTAAATTTTATAAATTTATT
1 TTAAATATTAAAAATTTATT
44207 TTAA
1 TTAA
44211 TAAAAATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 16 0.76
21 5 0.24
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (20 bp):
TTAAATATTAAAAATTTATT
Found at i:44893 original size:21 final size:21
Alignment explanation
Indices: 44869--44908 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
44859 CTTTAAAAAT
44869 TATTTTAT-ATTAATATTTATA
1 TATTTTATAATTAA-ATTTATA
44890 TATTTTATAATTAAATTTA
1 TATTTTATAATTAAATTTA
44909 AATAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (21 bp):
TATTTTATAATTAAATTTATA
Found at i:45949 original size:53 final size:53
Alignment explanation
Indices: 45868--46026 Score: 300
Period size: 53 Copynumber: 3.0 Consensus size: 53
45858 CTTTTCTCTG
* *
45868 GATCTCAGATCTGGTTCCGATTCAAATTTGTTCAAACTATTATAGATTGAGAA
1 GATCTCAGATCTGCTTCCGATTCTAATTTGTTCAAACTATTATAGATTGAGAA
45921 GATCTCAGATCTGCTTCCGATTCTAATTTGTTCAAACTATTATAGATTGAGAA
1 GATCTCAGATCTGCTTCCGATTCTAATTTGTTCAAACTATTATAGATTGAGAA
45974 GATCTCAGATCTGCTTCCGATTCTAATTTGTTCAAACTATTATAGATTGAGAA
1 GATCTCAGATCTGCTTCCGATTCTAATTTGTTCAAACTATTATAGATTGAGAA
46027 TTGAAAGAAA
Statistics
Matches: 104, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 104 1.00
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (53 bp):
GATCTCAGATCTGCTTCCGATTCTAATTTGTTCAAACTATTATAGATTGAGAA
Found at i:47047 original size:2 final size:2
Alignment explanation
Indices: 47028--47087 Score: 57
Period size: 2 Copynumber: 30.0 Consensus size: 2
47018 CCACAGATTG
* * * * *
47028 AT AT AA AT AT AT AA AT AT AT AA AT AT AT AA AC 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
* *
47070 AT AT TT AT AT AT TT AT AT
1 AT AT AT AT AT AT AT AT AT
47088 TGTCACTCAA
Statistics
Matches: 45, Mismatches: 13, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:47073 original size:8 final size:8
Alignment explanation
Indices: 47028--47072 Score: 72
Period size: 8 Copynumber: 5.6 Consensus size: 8
47018 CCACAGATTG
47028 ATATAAAT
1 ATATAAAT
47036 ATATAAAT
1 ATATAAAT
47044 ATATAAAT
1 ATATAAAT
*
47052 ATATAAAC
1 ATATAAAT
*
47060 ATATATAT
1 ATATAAAT
47068 ATATA
1 ATATA
47073 TTTATATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 34 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:47434 original size:15 final size:14
Alignment explanation
Indices: 47409--47445 Score: 65
Period size: 15 Copynumber: 2.6 Consensus size: 14
47399 AACAAAGAAT
47409 TTTAAATTCATAAA
1 TTTAAATTCATAAA
47423 TTTAAATATCATAAA
1 TTTAAAT-TCATAAA
47438 TTTAAATT
1 TTTAAATT
47446 TAAAATTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 8 0.36
15 14 0.64
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (14 bp):
TTTAAATTCATAAA
Found at i:49547 original size:16 final size:16
Alignment explanation
Indices: 49497--49570 Score: 69
Period size: 16 Copynumber: 4.6 Consensus size: 16
49487 GAAACTGATC
49497 GATCTGAACCCGAAAAT
1 GATCTGAACCCG-AAAT
* *
49514 GATCTGAACTCGATAT
1 GATCTGAACCCGAAAT
49530 GA-CATGAACCCGAAAT
1 GATC-TGAACCCGAAAT
** *
49546 GATCCAAACCCAAAAT
1 GATCTGAACCCGAAAT
*
49562 AATCTGAAC
1 GATCTGAAC
49571 AATTAACCCA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
15 1 0.02
16 32 0.71
17 12 0.27
ACGTcount: A:0.42, C:0.24, G:0.15, T:0.19
Consensus pattern (16 bp):
GATCTGAACCCGAAAT
Found at i:51168 original size:22 final size:22
Alignment explanation
Indices: 51143--51184 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
51133 AATTTTTATT
51143 TAAAT-TTAATTATAAAAATATA
1 TAAATATTAA-TATAAAAATATA
51165 TAAATATTAATATAAAAATA
1 TAAATATTAATATAAAAATA
51185 ATTTTTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATATTAATATAAAAATATA
Found at i:51207 original size:17 final size:17
Alignment explanation
Indices: 51171--51218 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
51161 TATATAAATA
* *
51171 TTAATATAAAAATAATTT
1 TTAAAATAATAAT-ATTT
*
51189 TTAAAATATTAATATTT
1 TTAAAATAATAATATTT
*
51206 TTTAAATAATAAT
1 TTAAAATAATAAT
51219 TCAAATTTAC
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
17 15 0.60
18 10 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TTAAAATAATAATATTT
Found at i:53721 original size:15 final size:14
Alignment explanation
Indices: 53693--53751 Score: 57
Period size: 15 Copynumber: 4.1 Consensus size: 14
53683 TTTTTTAAAA
*
53693 ATATTATTTAAATT
1 ATATTAATTAAATT
53707 CA-ATTAATATAAATT
1 -ATATTAAT-TAAATT
53722 ATATTAATTAAATTT
1 ATATTAATTAAA-TT
* *
53737 AAATTTATTAAATT
1 ATATTAATTAAATT
53751 A
1 A
53752 AATAAATAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
14 13 0.34
15 25 0.66
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (14 bp):
ATATTAATTAAATT
Found at i:53741 original size:20 final size:20
Alignment explanation
Indices: 53716--53754 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
53706 TCAATTAATA
53716 TAAATTATATT-AATTAAATT
1 TAAATT-TATTAAATTAAATT
53736 TAAATTTATTAAATTAAAT
1 TAAATTTATTAAATTAAAT
53755 AAATAGTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
TAAATTTATTAAATTAAATT
Found at i:54021 original size:15 final size:14
Alignment explanation
Indices: 53992--54034 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
53982 CCGAAATCAT
* *
53992 TAATTTAGATTTAA
1 TAATTTAAATATAA
54006 TAATTTTAAATATAA
1 TAA-TTTAAATATAA
*
54021 TTATTTAAATATAA
1 TAATTTAAATATAA
54035 ATTATTAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 14 0.56
15 11 0.44
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (14 bp):
TAATTTAAATATAA
Found at i:54027 original size:14 final size:15
Alignment explanation
Indices: 54010--54045 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
54000 ATTTAATAAT
54010 TTTAAATAT-AATTA
1 TTTAAATATAAATTA
54024 TTTAAATATAAATTA
1 TTTAAATATAAATTA
*
54039 TTAAAAT
1 TTTAAAT
54046 TATTAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 9 0.45
15 11 0.55
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
TTTAAATATAAATTA
Found at i:54068 original size:24 final size:24
Alignment explanation
Indices: 54019--54069 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
54009 TTTTAAATAT
* * *
54019 AATTATTTAAATATAAATTATTAA
1 AATTATTAAAATATAAATAATAAA
54043 AATTATTAAAATAT-AATAAATAAA
1 AATTATTAAAATATAAAT-AATAAA
54067 AAT
1 AAT
54070 ATACAATTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 3 0.13
24 20 0.87
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AATTATTAAAATATAAATAATAAA
Found at i:54295 original size:8 final size:9
Alignment explanation
Indices: 54284--54372 Score: 54
Period size: 8 Copynumber: 10.8 Consensus size: 9
54274 AAATATTAAA
54284 ATATTT-TT
1 ATATTTATT
54292 ATATTTATT
1 ATATTTATT
54301 AT-TTTA-T
1 ATATTTATT
**
54308 ATACATATT
1 ATATTTATT
54317 A-ATTT-TT
1 ATATTTATT
54324 -TATTATATT
1 ATATT-TATT
54333 ATA-TT-TT
1 ATATTTATT
*
54340 ATAATATATT
1 AT-ATTTATT
*
54350 ATAATTATT
1 ATATTTATT
54359 -T-TTTATT
1 ATATTTATT
54366 ATATTTA
1 ATATTTA
54373 ATATCACTTA
Statistics
Matches: 61, Mismatches: 8, Indels: 23
0.66 0.09 0.25
Matches are distributed among these distances:
7 17 0.28
8 19 0.31
9 19 0.31
10 6 0.10
ACGTcount: A:0.35, C:0.01, G:0.00, T:0.64
Consensus pattern (9 bp):
ATATTTATT
Found at i:54333 original size:32 final size:31
Alignment explanation
Indices: 54286--54346 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 31
54276 ATATTAAAAT
54286 ATTTTTATATTTATTAT-TTTATATACATATTA
1 ATTTTTATATTTATTATATTT-TATA-ATATTA
54318 ATTTTT-TATTATATTATATTTTATAATAT
1 ATTTTTATATT-TATTATATTTTATAATAT
54347 ATTATAATTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
31 8 0.30
32 16 0.59
33 3 0.11
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (31 bp):
ATTTTTATATTTATTATATTTTATAATATTA
Found at i:54362 original size:23 final size:22
Alignment explanation
Indices: 54324--54369 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
54314 ATTAATTTTT
54324 TATTATATTATATTTTATAATA
1 TATTATATTATATTTTATAATA
* *
54346 TATTATAATTATTTTTTATTATA
1 TATTAT-ATTATATTTTATAATA
54369 T
1 T
54370 TTAATATCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 6 0.29
23 15 0.71
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (22 bp):
TATTATATTATATTTTATAATA
Found at i:54366 original size:33 final size:33
Alignment explanation
Indices: 54276--54376 Score: 100
Period size: 35 Copynumber: 3.0 Consensus size: 33
54266 TTTAATAAAA
*
54276 ATATTA-AAATATTTTTATATTTATTATTTTATAT
1 ATATTATAATTATTTTTATA-TTA-TATTTTATAT
* *
54310 ACA-TATTAATTTTTTATTATATTATATTTTATAAT
1 ATATTA-TAATTATTT-TTATATTATATTTTAT-AT
*
54345 ATATTATAATTATTTTT-TATTATATTTAATAT
1 ATATTATAATTATTTTTATATTATATTTTATAT
54377 CACTTATTCA
Statistics
Matches: 56, Mismatches: 6, Indels: 12
0.76 0.08 0.16
Matches are distributed among these distances:
32 2 0.04
33 14 0.25
34 12 0.21
35 21 0.38
36 7 0.12
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (33 bp):
ATATTATAATTATTTTTATATTATATTTTATAT
Found at i:54480 original size:2 final size:2
Alignment explanation
Indices: 54473--54506 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
54463 TCCCCCTTAC
54473 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
54507 ATCTTTGCCG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58614 original size:8 final size:8
Alignment explanation
Indices: 58601--58630 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
58591 AGTGTAACCC
58601 TTTTTTAT
1 TTTTTTAT
58609 TTTTTTAT
1 TTTTTTAT
58617 TTTTTTAT
1 TTTTTTAT
58625 TTTTTT
1 TTTTTT
58631 TGGCGAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (8 bp):
TTTTTTAT
Found at i:58984 original size:19 final size:19
Alignment explanation
Indices: 58960--58999 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
58950 AGTACATTTC
* * *
58960 ATATTTTAAAATTTTTTAT
1 ATATTTAAAAAATTATTAT
58979 ATATTTAAAAAATTATTAT
1 ATATTTAAAAAATTATTAT
58998 AT
1 AT
59000 TCGAATATAT
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:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
ATATTTAAAAAATTATTAT
Found at i:62621 original size:16 final size:16
Alignment explanation
Indices: 62574--62621 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
62564 ATCTAGGTTT
62574 TTAAAATTTT-TATTA
1 TTAAAATTTTATATTA
* *
62589 TTAAAAATATTAAATTA
1 TT-AAAATTTTATATTA
62606 TTAAAATTTTATATTA
1 TTAAAATTTTATATTA
62622 ATATTTATAT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 2 0.07
16 19 0.70
17 6 0.22
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAAAATTTTATATTA
Found at i:62621 original size:21 final size:20
Alignment explanation
Indices: 62595--62649 Score: 58
Period size: 21 Copynumber: 2.6 Consensus size: 20
62585 ATTATTAAAA
62595 ATATTAAA-TTATTAAAATTTT
1 ATATTAAATTTA-TAAAA-TTT
*
62616 ATATTAATATTTATATAATTT
1 ATATTAA-ATTTATAAAATTT
62637 ATAATTAAATTTA
1 AT-ATTAAATTTA
62650 AATTAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
21 17 0.57
22 10 0.33
23 3 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
ATATTAAATTTATAAAATTT
Found at i:62930 original size:11 final size:11
Alignment explanation
Indices: 62886--62927 Score: 50
Period size: 10 Copynumber: 3.7 Consensus size: 11
62876 ATTAAAATTT
62886 TAAAAAATCAA
1 TAAAAAATCAA
62897 T-AAAAATCAA
1 TAAAAAATCAA
*
62907 TTTAAAAAATTAA
1 --TAAAAAATCAA
62920 TAAAAAAT
1 TAAAAAAT
62928 TAAAAATTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
10 9 0.33
11 9 0.33
12 1 0.04
13 8 0.30
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (11 bp):
TAAAAAATCAA
Found at i:63093 original size:21 final size:19
Alignment explanation
Indices: 63048--63123 Score: 61
Period size: 19 Copynumber: 4.1 Consensus size: 19
63038 TATATATTTT
63048 TATTAAAATTTTTATTTAA
1 TATTAAAATTTTTATTTAA
63067 TATTAAAATTATTTAATTT-A
1 TATTAAAATT-TTT-ATTTAA
** *
63087 T-TTTTAA--TTTCTTTAA
1 TATTAAAATTTTTATTTAA
*
63103 TATTAAATAATTTTATTTAA
1 TATTAAA-ATTTTTATTTAA
63123 T
1 T
63124 TAAACCAATA
Statistics
Matches: 44, Mismatches: 6, Indels: 13
0.70 0.10 0.21
Matches are distributed among these distances:
15 3 0.07
16 5 0.11
17 3 0.07
18 1 0.02
19 14 0.32
20 14 0.32
21 4 0.09
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (19 bp):
TATTAAAATTTTTATTTAA
Found at i:63121 original size:20 final size:20
Alignment explanation
Indices: 63048--63123 Score: 56
Period size: 20 Copynumber: 4.0 Consensus size: 20
63038 TATATATTTT
*
63048 TATTAAA-ATTTTTATTTAA
1 TATTAAATAATTTTATTTAA
* *
63067 TATTAAAATTATTTAATTT-A
1 TATT-AAATAATTTTATTTAA
* *
63087 T-TT--TTAA-TTTCTTTAA
1 TATTAAATAATTTTATTTAA
63103 TATTAAATAATTTTATTTAA
1 TATTAAATAATTTTATTTAA
63123 T
1 T
63124 TAAACCAATA
Statistics
Matches: 41, Mismatches: 9, Indels: 13
0.65 0.14 0.21
Matches are distributed among these distances:
15 5 0.12
16 4 0.10
17 2 0.05
19 9 0.22
20 14 0.34
21 7 0.17
ACGTcount: A:0.39, C:0.01, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTAAATAATTTTATTTAA
Found at i:64305 original size:73 final size:74
Alignment explanation
Indices: 64214--64428 Score: 343
Period size: 73 Copynumber: 3.0 Consensus size: 74
64204 AATTTTTATT
64214 AAAAGCATGCTCAAAGAACAAATTGAACTCTTTGGTTTGGTTTGGCTTGTGGAATTACCCCATTC
1 AAAAGCATGCTCAAAGAACAAATTGAACTCTTTGGTTTGGTTTGGCTTGTGGAATTACCCCATTC
64279 CGGTTAGGG
66 CGGTTAGGG
64288 -AAAGCATGCTCAAAGAACAAATTGAACTCTTTGGTTTGGTTTGGCTTGTGGAATTACCCCATTC
1 AAAAGCATGCTCAAAGAACAAATTGAACTCTTTGGTTTGGTTTGGCTTGTGGAATTACCCCATTC
*
64352 TGGTT-GGG
66 CGGTTAGGG
* ** *
64360 AAAAGCATGCTCAAAAAACAAATCAAACTCTTTGGTTTGGTTT-G-TTG-AG-ATTACCCCATTC
1 AAAAGCATGCTCAAAGAACAAATTGAACTCTTTGGTTTGGTTTGGCTTGTGGAATTACCCCATTC
64421 CGGTTAGG
66 CGGTTAGG
64429 TTCAATTATG
Statistics
Matches: 133, Mismatches: 6, Indels: 8
0.90 0.04 0.05
Matches are distributed among these distances:
69 16 0.12
70 3 0.02
71 3 0.02
72 4 0.03
73 107 0.80
ACGTcount: A:0.28, C:0.18, G:0.23, T:0.32
Consensus pattern (74 bp):
AAAAGCATGCTCAAAGAACAAATTGAACTCTTTGGTTTGGTTTGGCTTGTGGAATTACCCCATTC
CGGTTAGGG
Found at i:67012 original size:43 final size:42
Alignment explanation
Indices: 66965--67046 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 42
66955 TTATTAATTT
66965 TAAATATAA-AAAAATATATAAATATTA-TTAATTATATTAGAAA
1 TAAATA-AATAAAAATA-AT-AATATTATTTAATTATATTAGAAA
*
67008 TAAATAAATTACAAATAATAATATTATTTAATTATATTA
1 TAAATAAA-TAAAAATAATAATATTATTTAATTATATTA
67047 TAATTTAATA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
42 9 0.26
43 20 0.57
44 6 0.17
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.40
Consensus pattern (42 bp):
TAAATAAATAAAAATAATAATATTATTTAATTATATTAGAAA
Found at i:67748 original size:25 final size:24
Alignment explanation
Indices: 67698--67748 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
67688 AATTGAGTAA
* *
67698 AAATATTTTAAAAATTTACATGTT
1 AAATATTTTAAAAAATTACATATT
67722 AAATATTTTTAAAAAAATTA-ATATT
1 AAATA-TTTT-AAAAAATTACATATT
67747 AA
1 AA
67749 TATAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
24 5 0.22
25 10 0.43
26 8 0.35
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
AAATATTTTAAAAAATTACATATT
Found at i:67771 original size:20 final size:20
Alignment explanation
Indices: 67731--67770 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
67721 TAAATATTTT
67731 TAAAAAAATTAATATTAATA
1 TAAAAAAATTAATATTAATA
*
67751 TAAATAAATT-ATATT-ATA
1 TAAAAAAATTAATATTAATA
67769 TA
1 TA
67771 TGATATAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 5 0.26
19 5 0.26
20 9 0.47
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAAAAAATTAATATTAATA
Found at i:68535 original size:20 final size:20
Alignment explanation
Indices: 68510--68558 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
68500 GCTAAAAGGA
68510 AAAAGAAATG-CAAAGCAAAG
1 AAAAGAAATGACAAAG-AAAG
* *
68530 AAAAGAAAAGACCAAGAAAG
1 AAAAGAAATGACAAAGAAAG
68550 AAAAGAAAT
1 AAAAGAAAT
68559 TTCAACAAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 21 0.84
21 4 0.16
ACGTcount: A:0.69, C:0.08, G:0.18, T:0.04
Consensus pattern (20 bp):
AAAAGAAATGACAAAGAAAG
Found at i:70056 original size:15 final size:15
Alignment explanation
Indices: 70036--70065 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
70026 GTTTTCTTAG
70036 TTCTTTTATTTATTT
1 TTCTTTTATTTATTT
70051 TTCTTTTATTTATTT
1 TTCTTTTATTTATTT
70066 ACTGGTGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (15 bp):
TTCTTTTATTTATTT
Found at i:71959 original size:13 final size:13
Alignment explanation
Indices: 71941--71965 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
71931 TTTTGAACAT
71941 ACTCATATCCGAC
1 ACTCATATCCGAC
71954 ACTCATATCCGA
1 ACTCATATCCGA
71966 GTCCGAGTAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.36, G:0.08, T:0.24
Consensus pattern (13 bp):
ACTCATATCCGAC
Found at i:73718 original size:21 final size:21
Alignment explanation
Indices: 73665--73721 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
73655 TGTCGTGTGC
* *
73665 TTACATCAAGAGTATTATCTT
1 TTACATCAAAAGTGTTATCTT
*
73686 TTACATCGAAAGTGTTATCTT
1 TTACATCAAAAGTGTTATCTT
73707 TTACATCAAAAGTGT
1 TTACATCAAAAGTGT
73722 GTTTTCAACC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.40
Consensus pattern (21 bp):
TTACATCAAAAGTGTTATCTT
Found at i:75139 original size:15 final size:15
Alignment explanation
Indices: 75121--75186 Score: 60
Period size: 16 Copynumber: 4.1 Consensus size: 15
75111 TTTATTTAAA
75121 ATAATTTATATTTTT
1 ATAATTTATATTTTT
*
75136 ATAATTTTTAATATTTTA
1 ATAA--TTT-ATATTTTT
*
75154 ATAATTTATATTATAT
1 ATAATTTATATT-TTT
* *
75170 AAAATTTATATATTT
1 ATAATTTATATTTTT
75185 AT
1 AT
75187 GTCACGTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
15 12 0.30
16 14 0.35
17 3 0.08
18 11 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
ATAATTTATATTTTT
Found at i:75183 original size:33 final size:33
Alignment explanation
Indices: 75120--75184 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
75110 TTTTATTTAA
* * *
75120 AATAATTTATATTTTTATAATTTTTAATATTTT
1 AATAATTTATATTTATAAAATTTATAATATTTT
75153 AATAATTTATATTATATAAAATTTAT-ATATTT
1 AATAATTTATATT-TATAAAATTTATAATATTT
75185 ATGTCACGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 19 0.68
34 9 0.32
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (33 bp):
AATAATTTATATTTATAAAATTTATAATATTTT
Found at i:75853 original size:16 final size:16
Alignment explanation
Indices: 75834--75887 Score: 60
Period size: 17 Copynumber: 3.4 Consensus size: 16
75824 ATATATATTT
75834 TAAAATTTATATAATA
1 TAAAATTTATATAATA
75850 T-AAA-TTAT-TAATA
1 TAAAATTTATATAATA
75863 TAATAAATTTATATAAATA
1 T-A-AAATTTATAT-AATA
75882 TAAAAT
1 TAAAAT
75888 ATCTTAAATA
Statistics
Matches: 32, Mismatches: 0, Indels: 11
0.74 0.00 0.26
Matches are distributed among these distances:
13 6 0.19
14 4 0.12
15 3 0.09
16 4 0.12
17 8 0.25
18 2 0.06
19 5 0.16
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
TAAAATTTATATAATA
Found at i:75932 original size:13 final size:13
Alignment explanation
Indices: 75914--75941 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
75904 TGATATGAAA
75914 AATATAAAAATAT
1 AATATAAAAATAT
75927 AATATAAAAATAT
1 AATATAAAAATAT
75940 AA
1 AA
75942 ATTGTCAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (13 bp):
AATATAAAAATAT
Found at i:75999 original size:11 final size:11
Alignment explanation
Indices: 75983--76007 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
75973 AAAGTTAATT
75983 TATTTAATATA
1 TATTTAATATA
75994 TATTTAATATA
1 TATTTAATATA
76005 TAT
1 TAT
76008 ACACGTTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (11 bp):
TATTTAATATA
Found at i:76215 original size:19 final size:19
Alignment explanation
Indices: 76163--76225 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 19
76153 AACCTATCTA
* *
76163 AATATTTGT-TATAATATT
1 AATATTTATATATTATATT
* *
76181 AAAATATTA-ATTTTATATT
1 AATAT-TTATATATTATATT
76200 AATATTTATATATTATAATT
1 AATATTTATATATTAT-ATT
76220 AA-ATTT
1 AATATTT
76226 TAATAAAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 7
0.73 0.12 0.15
Matches are distributed among these distances:
18 7 0.20
19 23 0.66
20 5 0.14
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (19 bp):
AATATTTATATATTATATT
Found at i:76658 original size:17 final size:17
Alignment explanation
Indices: 76624--76673 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 17
76614 TCATATTTAT
76624 TTTAATA-AAAT-T-TA
1 TTTAATATAAATATATA
76638 TTT-ATATTAAATATATA
1 TTTAATA-TAAATATATA
76655 TTTAATATAAATATA-A
1 TTTAATATAAATATATA
76671 TTT
1 TTT
76674 TTTATATTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
13 3 0.10
14 3 0.10
15 4 0.13
16 5 0.16
17 13 0.42
18 3 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTTAATATAAATATATA
Found at i:77106 original size:19 final size:21
Alignment explanation
Indices: 77048--77120 Score: 75
Period size: 20 Copynumber: 3.7 Consensus size: 21
77038 AAATATTTCA
* *
77048 ATAAATTA-ATAATTAGTATA
1 ATAAAATATATAATTAGTATT
* *
77068 ATAAAAT-TACAATTATTATT
1 ATAAAATATATAATTAGTATT
77088 A-AAAATATATAATTA-TATT
1 ATAAAATATATAATTAGTATT
77107 ATAAAATATA-AATT
1 ATAAAATATATAATT
77121 TTATAATTAA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
19 14 0.31
20 31 0.69
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (21 bp):
ATAAAATATATAATTAGTATT
Found at i:77131 original size:20 final size:20
Alignment explanation
Indices: 77047--77132 Score: 72
Period size: 20 Copynumber: 4.3 Consensus size: 20
77037 AAAATATTTC
*
77047 AATAAATTA-ATAATTAGTAT
1 AATAAAATATATAATTA-TAT
*
77067 AATAAAAT-TACAATTAT-T
1 AATAAAATATATAATTATAT
*
77085 ATTAAAAATATATAATTATAT
1 AAT-AAAATATATAATTATAT
* *
77106 TATAAAATATA-AATTTTAT
1 AATAAAATATATAATTATAT
77125 AATTAAAA
1 AA-TAAAA
77133 ATTTTATACG
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
18 3 0.06
19 14 0.26
20 34 0.64
21 2 0.04
ACGTcount: A:0.57, C:0.01, G:0.01, T:0.41
Consensus pattern (20 bp):
AATAAAATATATAATTATAT
Found at i:77276 original size:19 final size:18
Alignment explanation
Indices: 77254--77290 Score: 65
Period size: 19 Copynumber: 2.0 Consensus size: 18
77244 TATTTTTATT
77254 TAAATTTTAAAATATTAAA
1 TAAATTTTAAAAT-TTAAA
77273 TAAATTTTAAAATTTAAA
1 TAAATTTTAAAATTTAAA
77291 CAACTTGTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TAAATTTTAAAATTTAAA
Found at i:78513 original size:14 final size:14
Alignment explanation
Indices: 78496--78522 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
78486 TTCTTATAAA
78496 ATAATTTTTTTAAT
1 ATAATTTTTTTAAT
78510 ATAATTTTTTTAA
1 ATAATTTTTTTAA
78523 AAAAATAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (14 bp):
ATAATTTTTTTAAT
Found at i:78659 original size:23 final size:23
Alignment explanation
Indices: 78633--78679 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
78623 AATTCAATCG
*
78633 ATATTTAATTTAAATAAATAAAA
1 ATATTCAATTTAAATAAATAAAA
*
78656 ATATTCAATTTAAATAATTAAAA
1 ATATTCAATTTAAATAAATAAAA
78679 A
1 A
78680 AAAAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (23 bp):
ATATTCAATTTAAATAAATAAAA
Found at i:80513 original size:1 final size:1
Alignment explanation
Indices: 80507--80531 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
80497 TGTCCTCCAA
80507 CCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCC
80532 AATTCTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:1.00, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:89002 original size:13 final size:14
Alignment explanation
Indices: 88977--89009 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
88967 ATTTTAAAAA
88977 TTATATCTTAATAT
1 TTATATCTTAATAT
88991 TTATAT-TTAATAT
1 TTATATCTTAATAT
*
89004 ATATAT
1 TTATAT
89010 AAATAATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 12 0.67
14 6 0.33
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (14 bp):
TTATATCTTAATAT
Found at i:90487 original size:19 final size:16
Alignment explanation
Indices: 90439--90483 Score: 72
Period size: 16 Copynumber: 2.8 Consensus size: 16
90429 AACAGCAACA
*
90439 GCAACAGCAACAATTG
1 GCAACAGCAACAATCG
90455 GCAACAGCAACAATCG
1 GCAACAGCAACAATCG
*
90471 GCAACAGTAACAA
1 GCAACAGCAACAA
90484 CAATAAGTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.47, C:0.27, G:0.18, T:0.09
Consensus pattern (16 bp):
GCAACAGCAACAATCG
Found at i:90651 original size:17 final size:17
Alignment explanation
Indices: 90625--90667 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
90615 GTTTCAACTA
* *
90625 CAAACCAGAAGTAGAAT
1 CAAACTAGAAGCAGAAT
*
90642 CAAACTAGAAGCATAAT
1 CAAACTAGAAGCAGAAT
*
90659 TAAACTAGA
1 CAAACTAGA
90668 GGCAAAAGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.53, C:0.16, G:0.14, T:0.16
Consensus pattern (17 bp):
CAAACTAGAAGCAGAAT
Found at i:90872 original size:52 final size:52
Alignment explanation
Indices: 90795--90898 Score: 199
Period size: 52 Copynumber: 2.0 Consensus size: 52
90785 AGTCTCAATC
90795 ATAGCATTTATAAAATGATTAAGAAAAAGAAATGGTTCTCTTATGAATTCAT
1 ATAGCATTTATAAAATGATTAAGAAAAAGAAATGGTTCTCTTATGAATTCAT
*
90847 ATAGCATTTATAAAATGATTGAGAAAAAGAAATGGTTCTCTTATGAATTCAT
1 ATAGCATTTATAAAATGATTAAGAAAAAGAAATGGTTCTCTTATGAATTCAT
90899 TGTTGGAATA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
52 51 1.00
ACGTcount: A:0.43, C:0.08, G:0.14, T:0.35
Consensus pattern (52 bp):
ATAGCATTTATAAAATGATTAAGAAAAAGAAATGGTTCTCTTATGAATTCAT
Found at i:92280 original size:16 final size:16
Alignment explanation
Indices: 92259--92297 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
92249 TTCTGTGTTA
*
92259 TATATTGTATCCATAT
1 TATATTATATCCATAT
*
92275 TATATTATATTCATAT
1 TATATTATATCCATAT
92291 TA-ATTAT
1 TATATTAT
92298 CTAATTTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.36, C:0.08, G:0.03, T:0.54
Consensus pattern (16 bp):
TATATTATATCCATAT
Found at i:92502 original size:17 final size:17
Alignment explanation
Indices: 92472--92511 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
92462 TCAAGCATAA
92472 ATATTAAATATAAATAT
1 ATATTAAATATAAATAT
* *
92489 ATATTTAATTTAAATAT
1 ATATTAAATATAAATAT
92506 AT-TTAA
1 ATATTAA
92512 TATTTACTAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTAAATATAAATAT
Found at i:95095 original size:13 final size:12
Alignment explanation
Indices: 95061--95096 Score: 56
Period size: 11 Copynumber: 3.0 Consensus size: 12
95051 AAAAATTTAG
95061 ATTTTAATT-AA
1 ATTTTAATTAAA
95072 ATTTTAATTAAA
1 ATTTTAATTAAA
95084 ATTTTCAATTAAA
1 ATTTT-AATTAAA
95097 TGCTCCGATT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 9 0.39
12 7 0.30
13 7 0.30
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
ATTTTAATTAAA
Done.