Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: scaffold_1811
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: 27451
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:271 original size:77 final size:78
Alignment explanation
Indices: 36--271 Score: 263
Period size: 77 Copynumber: 3.1 Consensus size: 78
26 AAATTTTTGC
* * * *
36 TTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCCCGGGTCACATGCCGAGGT
1 TTTTCAAAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCA-A-GCTGAGGT
*
101 ATTTTTCAATTTTCTGT
64 ATTTTTCAA-TTTAT-T
* * *
118 TTTTC-----AAAAATCAACTCATAATGCGAGAGGAGAGTTAAGCCTC-AGGTCACGCTGAGGTA
1 TTTTCAAAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGA-GTCAAGCTGAGGTA
*
177 -TTTTCAATTTATG
65 TTTTTCAATTTATT
* *
190 TTTTCAAAAAAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTTAAGCTGAGGTAT
1 TTTTCAAAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCAAGCTGAGGTAT
*
255 TTTTTAATTT-TT
66 TTTTCAATTTATT
267 TTTTC
1 TTTTC
272 TTTCTTCTTT
Statistics
Matches: 130, Mismatches: 16, Indels: 21
0.78 0.10 0.13
Matches are distributed among these distances:
72 5 0.04
73 4 0.03
74 7 0.05
75 8 0.06
77 91 0.70
78 10 0.08
82 5 0.04
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.33
Consensus pattern (78 bp):
TTTTCAAAAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGAGTCAAGCTGAGGTAT
TTTTCAATTTATT
Found at i:646 original size:16 final size:16
Alignment explanation
Indices: 625--657 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
615 AAATTTTGAA
625 AAAAAATAAAAAATAC
1 AAAAAATAAAAAATAC
*
641 AAAAAATAAAAATTAC
1 AAAAAATAAAAAATAC
657 A
1 A
658 TTTTGCCCCC
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:0.79, C:0.06, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAAAATAAAAAATAC
Found at i:1392 original size:10 final size:10
Alignment explanation
Indices: 1369--1444 Score: 70
Period size: 10 Copynumber: 7.9 Consensus size: 10
1359 GTGCGACCCG
* *
1369 AAGAAGAAGG
1 AAGAAAAAGA
*
1379 AAGATAAAGA
1 AAGAAAAAGA
1389 AAGAAAAAG-
1 AAGAAAAAGA
*
1398 GAGAAAAAGA
1 AAGAAAAAGA
1408 AA-AAAAAGGA
1 AAGAAAAA-GA
1418 AAG-AAAA-A
1 AAGAAAAAGA
*
1426 AAGAAAAAAA
1 AAGAAAAAGA
1436 AAGAAAAAG
1 AAGAAAAAG
1445 CAAAATCAAC
Statistics
Matches: 54, Mismatches: 7, Indels: 10
0.76 0.10 0.14
Matches are distributed among these distances:
8 4 0.07
9 17 0.31
10 33 0.61
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.01
Consensus pattern (10 bp):
AAGAAAAAGA
Found at i:1398 original size:20 final size:19
Alignment explanation
Indices: 1369--1433 Score: 73
Period size: 19 Copynumber: 3.4 Consensus size: 19
1359 GTGCGACCCG
*
1369 AAGAAGAAGGAAGATAAAGA
1 AAGAAAAAGGAAGA-AAAGA
1389 AAGAAAAAGG-AGAAAAAGA
1 AAGAAAAAGGAAG-AAAAGA
1408 AA-AAAAAGGAAAGAAAA-A
1 AAGAAAAAGG-AAGAAAAGA
1426 AAGAAAAA
1 AAGAAAAA
1434 AAAAGAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
18 10 0.25
19 18 0.45
20 12 0.30
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.02
Consensus pattern (19 bp):
AAGAAAAAGGAAGAAAAGA
Found at i:1415 original size:18 final size:18
Alignment explanation
Indices: 1384--1449 Score: 64
Period size: 22 Copynumber: 3.4 Consensus size: 18
1374 GAAGGAAGAT
1384 AAAGAAAGAAAAAGGAGAA
1 AAAGAAA-AAAAAGGAGAA
1403 AAAGAAAAAAAAGGAAAGAAAA
1 AAAGAAAAAAAAGG--AG--AA
1425 AAAGAAAAAAAA--AGAA
1 AAAGAAAAAAAAGGAGAA
1441 AAAGCAAAA
1 AAAG-AAAA
1450 TCAACAGTCG
Statistics
Matches: 42, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
16 6 0.14
17 4 0.10
18 9 0.21
19 7 0.17
20 2 0.05
22 14 0.33
ACGTcount: A:0.80, C:0.02, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAAAGGAGAA
Found at i:1419 original size:29 final size:29
Alignment explanation
Indices: 1379--1444 Score: 82
Period size: 29 Copynumber: 2.3 Consensus size: 29
1369 AAGAAGAAGG
* * *
1379 AAGATAAA-GAAAGAAAAAGGAGAAAAAGA
1 AAGAAAAAGGAAAGAAAAA-AAGAAAAAAA
1408 AA-AAAAAGGAAAGAAAAAAAGAAAAAAA
1 AAGAAAAAGGAAAGAAAAAAAGAAAAAAA
1436 AAGAAAAAG
1 AAGAAAAAG
1445 CAAAATCAAC
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
28 14 0.44
29 18 0.56
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.02
Consensus pattern (29 bp):
AAGAAAAAGGAAAGAAAAAAAGAAAAAAA
Found at i:1434 original size:38 final size:38
Alignment explanation
Indices: 1375--1449 Score: 91
Period size: 38 Copynumber: 2.0 Consensus size: 38
1365 CCCGAAGAAG
**
1375 AAGGAAGATAAAGAAAGAAAAAGGAGAAAAAGAAAAAA
1 AAGGAAGATAAAGAAAGAAAAAAAAGAAAAAGAAAAAA
*
1413 AAGGAAAGA-AAA-AAAGAAAAAAAAAGAAAAAGCAAAA
1 AAGG-AAGATAAAGAAAG-AAAAAAAAGAAAAAGAAAAA
1450 TCAACAGTCG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
37 4 0.12
38 24 0.75
39 4 0.12
ACGTcount: A:0.77, C:0.01, G:0.20, T:0.01
Consensus pattern (38 bp):
AAGGAAGATAAAGAAAGAAAAAAAAGAAAAAGAAAAAA
Found at i:1549 original size:17 final size:17
Alignment explanation
Indices: 1529--1568 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
1519 AGCGCCCCAG
*
1529 CAGCAGTTCGGCCCAAA
1 CAGCAGTGCGGCCCAAA
*
1546 CAGCAGTGCGGCCCAAG
1 CAGCAGTGCGGCCCAAA
1563 CAGCAG
1 CAGCAG
1569 AAGAAGAAGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.28, C:0.35, G:0.30, T:0.07
Consensus pattern (17 bp):
CAGCAGTGCGGCCCAAA
Found at i:2070 original size:19 final size:19
Alignment explanation
Indices: 2042--2080 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
2032 AAAATGTTCG
*
2042 AAATTCCTCGTGTTTAAAT
1 AAATTCCTCGCGTTTAAAT
* *
2061 AAATTTCTCGCGTTTTAAT
1 AAATTCCTCGCGTTTAAAT
2080 A
1 A
2081 GAATCCCGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.31, C:0.15, G:0.10, T:0.44
Consensus pattern (19 bp):
AAATTCCTCGCGTTTAAAT
Found at i:2277 original size:17 final size:17
Alignment explanation
Indices: 2255--2297 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
2245 ATAATAATAA
2255 TAAAATTTCCGTGTTTC
1 TAAAATTTCCGTGTTTC
*
2272 TAAAATTTTCGTGTTTC
1 TAAAATTTCCGTGTTTC
*
2289 AAAAATTTC
1 TAAAATTTC
2298 GTTTTAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.30, C:0.14, G:0.09, T:0.47
Consensus pattern (17 bp):
TAAAATTTCCGTGTTTC
Found at i:2297 original size:16 final size:16
Alignment explanation
Indices: 2256--2307 Score: 63
Period size: 16 Copynumber: 3.2 Consensus size: 16
2246 TAATAATAAT
2256 AAAATTTCCGTGTTTCTA
1 AAAATTT-CGTGTTTC-A
*
2274 AAATTTTCGTGTTTCA
1 AAAATTTCGTGTTTCA
2290 AAAATTTCGT-TTT-A
1 AAAATTTCGTGTTTCA
2304 AAAA
1 AAAA
2308 AAATTTTGTG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 5 0.16
15 3 0.09
16 10 0.31
17 8 0.25
18 6 0.19
ACGTcount: A:0.35, C:0.12, G:0.10, T:0.44
Consensus pattern (16 bp):
AAAATTTCGTGTTTCA
Found at i:2339 original size:33 final size:34
Alignment explanation
Indices: 2273--2350 Score: 97
Period size: 33 Copynumber: 2.3 Consensus size: 34
2263 CCGTGTTTCT
* *
2273 AAAATTTTCGTGTTTCAAAAATTTCGTTTTAAAA
1 AAAATTTTCGTGCTTCAAAAATTTCGTTGTAAAA
*
2307 AAAATTTT-GTGCTTCAAAATTCTTCG-TGTAAAA
1 AAAATTTTCGTGCTTCAAAAAT-TTCGTTGTAAAA
*
2340 AAAATTCTCGT
1 AAAATTTTCGT
2351 ATTTTGACGG
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
33 24 0.63
34 14 0.37
ACGTcount: A:0.37, C:0.12, G:0.10, T:0.41
Consensus pattern (34 bp):
AAAATTTTCGTGCTTCAAAAATTTCGTTGTAAAA
Found at i:4721 original size:24 final size:24
Alignment explanation
Indices: 4694--4743 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
4684 TTAAATAAAC
*
4694 TTAAATGGAAA-GTCAATAGTTATG
1 TTAAAT-GAAAGGTCAAGAGTTATG
*
4718 TTAAATGAAAGGTCGAGAGTTATG
1 TTAAATGAAAGGTCAAGAGTTATG
4742 TT
1 TT
4744 TTTAATGGCT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.38, C:0.04, G:0.24, T:0.34
Consensus pattern (24 bp):
TTAAATGAAAGGTCAAGAGTTATG
Found at i:8517 original size:16 final size:16
Alignment explanation
Indices: 8493--8557 Score: 51
Period size: 16 Copynumber: 3.9 Consensus size: 16
8483 CAATAATAAA
*
8493 ACATCAATAAATTAAT
1 ACATGAATAAATTAAT
*
8509 ACATGAATAAAAATAAT
1 ACATGAAT-AAATTAAT
* **
8526 ATGAAAAATAAATTAA-
1 A-CATGAATAAATTAAT
8542 ACATGCAATAAATTAA
1 ACATG-AATAAATTAA
8558 AGCATATAAC
Statistics
Matches: 37, Mismatches: 9, Indels: 6
0.71 0.17 0.12
Matches are distributed among these distances:
15 1 0.03
16 18 0.49
17 14 0.38
18 4 0.11
ACGTcount: A:0.62, C:0.08, G:0.05, T:0.26
Consensus pattern (16 bp):
ACATGAATAAATTAAT
Found at i:8835 original size:8 final size:8
Alignment explanation
Indices: 8824--8860 Score: 51
Period size: 7 Copynumber: 4.8 Consensus size: 8
8814 AATCATTCAA
8824 ATTTTATT
1 ATTTTATT
8832 ATTTTATT
1 ATTTTATT
8840 AATTTTA-T
1 -ATTTTATT
8848 ATTTTATT
1 ATTTTATT
8856 -TTTTA
1 ATTTTA
8861 GTAAATTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
7 11 0.41
8 10 0.37
9 6 0.22
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
ATTTTATT
Found at i:8852 original size:16 final size:17
Alignment explanation
Indices: 8823--8855 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
8813 TAATCATTCA
8823 AATTTTATTATTTTATT
1 AATTTTATTATTTTATT
8840 AATTTTA-TATTTTATT
1 AATTTTATTATTTTATT
8856 TTTTAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (17 bp):
AATTTTATTATTTTATT
Found at i:8872 original size:23 final size:24
Alignment explanation
Indices: 8818--8872 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
8808 TCATTTAATC
* *
8818 ATTCAAATTTTATTATTTTATTAA
1 ATTCATATTTTATTATTTTAGTAA
* *
8842 TTTTATATTTTATT-TTTTAGTAA
1 ATTCATATTTTATTATTTTAGTAA
8865 ATTCATAT
1 ATTCATAT
8873 ATATAATATG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 14 0.56
24 11 0.44
ACGTcount: A:0.33, C:0.04, G:0.02, T:0.62
Consensus pattern (24 bp):
ATTCATATTTTATTATTTTAGTAA
Found at i:8946 original size:61 final size:59
Alignment explanation
Indices: 8872--9066 Score: 146
Period size: 61 Copynumber: 3.2 Consensus size: 59
8862 TAAATTCATA
*
8872 TATATAATATGATTTCAATAATTTTAAATAATAATTATTTTAAATTATATTTTATAGTAAT
1 TATATATTATGATTT-AATAATTTTAAATAATAATTATTTTAAATTA-ATTTTATAGTAAT
* * * * * * *
8933 TATATATTATGATTTAGTAAATTCATTTAAGAATATTTAATATT-AA-GAATTTTAT-TTAAAT
1 TATATATTATGATTTAAT-AATT--TTAAATAATAATT-ATTTTAAATTAATTTTATAGT-AAT
* * * * * *
8994 TATATATTTTTACTAAATTACATTTTTAATAATTATTATTTTAAATTAATATTTATAGT-AT
1 TATATATTATGATTTAA-TA-ATTTTAAATAATAATTATTTTAAATTAAT-TTTATAGTAAT
9055 TATATATTATGA
1 TATATATTATGA
9067 ATTTTAGTAA
Statistics
Matches: 102, Mismatches: 21, Indels: 22
0.70 0.14 0.15
Matches are distributed among these distances:
59 4 0.04
60 15 0.15
61 56 0.55
62 10 0.10
63 13 0.13
64 4 0.04
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (59 bp):
TATATATTATGATTTAATAATTTTAAATAATAATTATTTTAAATTAATTTTATAGTAAT
Found at i:9032 original size:123 final size:117
Alignment explanation
Indices: 8892--9397 Score: 723
Period size: 123 Copynumber: 4.2 Consensus size: 117
8882 GATTTCAATA
*
8892 ATTTTAAATAATAATTATTTTAAATTATATTTTATAGTAATTATATATTATGA-TTTAGTAAATT
1 ATTTTTAATAATAATTATTTTAAATTATATTTTATAGT-ATTATATA-TATGATTTTAGTAAATT
*
8956 CATTTAAGAATATTTAATATTAAGAATTTTATTTAAATTATATATTTTTACTAAATT
64 CATTTAAGAATATTTAATATTAAGAA-TTTA-TTAAATTATATA-TTTTATTAAATT
*
9013 ACATTTTTAATAATTATTATTTTAAATTA-ATATTTATAGTATTATATATTATGAATTTTAGTAA
1 --ATTTTTAATAATAATTATTTTAAATTATAT-TTTATAGTATTATATA-TATG-ATTTTAGTAA
9077 ATTCATTT-AGAATATTTAATATTAAGAATTT-TTAAATTATATATTTTTATTAAATT
61 ATTCATTTAAGAATATTTAATATTAAGAATTTATTAAATTATATA-TTTTATTAAATT
* * *
9133 ATATTTAATAATAAATTATGTTAAAATTATAATTTTATAGTATTATATATATAATTTTAGTAAAT
1 ATTTTTAATAAT-AATTAT-TTTAAATTAT-ATTTTATAGTATTATATATATGATTTTAGTAAAT
9198 TCATTTAAAGAATATTTAAATATTAAGAATTTTATTAAATTGATATATTTTATTAAATT
63 TCATTT-AAGAATATTT-AATATTAAGAA-TTTATTAAATT-ATATATTTTATTAAATT
* *
9257 ATATTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATATGATTTTATTAAATTCA
1 ATTTTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATATGATTTTAGTAAATTCA
*
9322 TATAAGAATATTTAATATTAAGAATTTATTAAATTATATATTTTATTAAATT
66 TTTAAGAATATTTAATATTAAGAATTTATTAAATTATATATTTTATTAAATT
* *
9374 ATATTTAATAATAATTATGTTAAA
1 ATTTTTAATAATAATTATTTTAAA
9398 AATTAAAAAA
Statistics
Matches: 358, Mismatches: 12, Indels: 32
0.89 0.03 0.08
Matches are distributed among these distances:
117 40 0.11
118 22 0.06
119 34 0.09
120 45 0.13
121 62 0.17
122 40 0.11
123 63 0.18
124 47 0.13
125 5 0.01
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (117 bp):
ATTTTTAATAATAATTATTTTAAATTATATTTTATAGTATTATATATATGATTTTAGTAAATTCA
TTTAAGAATATTTAATATTAAGAATTTATTAAATTATATATTTTATTAAATT
Found at i:9034 original size:16 final size:17
Alignment explanation
Indices: 8989--9035 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
8979 GAATTTTATT
*
8989 TAAATTATATATTTTTAC
1 TAAATTAT-TATTTTTAA
*
9007 TAAATTA-CATTTTTAA
1 TAAATTATTATTTTTAA
9023 T-AATTATTATTTT
1 TAAATTATTATTTT
9036 AAATTAATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
15 5 0.20
16 13 0.52
18 7 0.28
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (17 bp):
TAAATTATTATTTTTAA
Found at i:9379 original size:15 final size:17
Alignment explanation
Indices: 9226--9377 Score: 72
Period size: 17 Copynumber: 9.0 Consensus size: 17
9216 AATATTAAGA
9226 ATTTTATTAAATTGATAT
1 ATTTTATTAAATT-ATAT
9244 ATTTTATTAAA-T-TAT
1 ATTTTATTAAATTATAT
*
9259 A-TTTAAT-AA-TA-AT
1 ATTTTATTAAATTATAT
*
9272 -TATT-TTAAATTATAT
1 ATTTTATTAAATTATAT
* *
9287 -TTTATAGTATTATATATAT
1 ATTT-TATTA-AAT-TATAT
9306 GATTTTATTAAATTCATAT
1 -ATTTTATTAAATT-ATAT
*** *
9325 AAGAATATTTAATATTA-AG
1 -ATTTTA-TTAA-ATTATAT
*
9344 AATTTATTAAATTATAT
1 ATTTTATTAAATTATAT
9361 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
9378 TTAATAATAA
Statistics
Matches: 101, Mismatches: 18, Indels: 31
0.67 0.12 0.21
Matches are distributed among these distances:
12 1 0.01
13 9 0.09
14 7 0.07
15 8 0.08
16 5 0.05
17 24 0.24
18 17 0.17
19 15 0.15
20 9 0.09
21 6 0.06
ACGTcount: A:0.43, C:0.01, G:0.03, T:0.53
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:9402 original size:241 final size:241
Alignment explanation
Indices: 8898--9398 Score: 779
Period size: 242 Copynumber: 2.1 Consensus size: 241
8888 AATAATTTTA
* *
8898 AATAATAATTAT-TTTAAATTATATTTTATAGTAATTATATATTATGATTTAGTAAATTCATTTA
1 AATAATAATTATGTTAAAATTATATTTTATAGTAATTATATATTATAATTTAGTAAATTCATTTA
*
8962 AGAATATTTAATATTAAGAATTTTATTTAAATTATATATTTTTACTAAATTACATTTTTAATAAT
66 AGAATATTTAATATTAAGAATTTTATTTAAATTATATATTTTTACTAAATTA-ATATTTAATAAT
* *
9027 TATTATTTTAAATTAATATTTATAGTATTATATATTATGAATTTTAGTAAATTCATTTAGAATAT
130 AATTATTTTAAATTAATATTTATAGTATTATATATTATGAATTTTAGTAAATTCATTAAGAATAT
9092 TTAATATTAAGAATTTTTAAATTATATATTTTTATTAAATTATATTT
195 TTAATATTAAGAATTTTTAAATTATATATTTTTATTAAATTATATTT
9139 AATAATAAATTATGTTAAAATTATAATTTTATAGT-ATTATATA-TATAATTTTAGTAAATTCAT
1 AATAAT-AATTATGTTAAAATTAT-ATTTTATAGTAATTATATATTATAA-TTTAGTAAATTCAT
*
9202 TTAAAGAATATTTAAATATTAAGAATTTTA-TTAAATTGATATA-TTTTATTAAATT-ATATTTA
63 TT-AAGAATATTT-AATATTAAGAATTTTATTTAAATT-ATATATTTTTACTAAATTAATATTTA
*
9264 ATAATAATTATTTTAAATT-ATATTTTATAGTATTATATA-TATG-ATTTTATTAAATTCATATA
125 ATAATAATTATTTTAAATTAATA-TTTATAGTATTATATATTATGAATTTTAGTAAATTCAT-TA
9326 AGAATATTTAATATTAAGAATTTATTAAATTATATA-TTTTATTAAATTATATTT
188 AGAATATTTAATATTAAGAATTT-TTAAATTATATATTTTTATTAAATTATATTT
9380 AATAATAATTATGTTAAAA
1 AATAATAATTATGTTAAAA
9399 ATTAAAAAAA
Statistics
Matches: 243, Mismatches: 7, Indels: 21
0.90 0.03 0.08
Matches are distributed among these distances:
240 28 0.12
241 61 0.25
242 62 0.26
243 33 0.14
244 38 0.16
245 21 0.09
ACGTcount: A:0.44, C:0.01, G:0.04, T:0.51
Consensus pattern (241 bp):
AATAATAATTATGTTAAAATTATATTTTATAGTAATTATATATTATAATTTAGTAAATTCATTTA
AGAATATTTAATATTAAGAATTTTATTTAAATTATATATTTTTACTAAATTAATATTTAATAATA
ATTATTTTAAATTAATATTTATAGTATTATATATTATGAATTTTAGTAAATTCATTAAGAATATT
TAATATTAAGAATTTTTAAATTATATATTTTTATTAAATTATATTT
Found at i:9919 original size:120 final size:121
Alignment explanation
Indices: 9759--10371 Score: 996
Period size: 120 Copynumber: 5.1 Consensus size: 121
9749 TAATCAATAT
*
9759 TTTAACATAATTATTATT-AAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATTATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
* *
9823 TAAATATTC-TATTATGAATTTAATAAAATTCATAATATATAATACTATAAAA-ATAA
66 TAAATATTCTTA-AATGAATTTACTAAAA-TCATAATATATAATACTATAAAATATAA
9879 -TTAAAATAATTATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
1 TTTAAAATAATTATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA-
*
9943 TTAAATATTCTTAAATGAATTTACTAAAATTATAATATATAATACTATAAAATATAA
65 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
10000 TTTAAAATAATTATTATT-AAATATAATTTAAT-AAAATATATAATTTAAATAAAATTCTATAAT
1 TTTAAAATAATTATTATTAAAATATAATTTAATAAAAATATATAATTT-AATAAAATTCT-TAAT
10063 A-TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
64 ATTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
* * *
10120 TTTAAAATAATAATTATTAAAAATGTAATTTAGTAAAAATATATAATTTAAT-AAATTCTTAATA
1 TTTAAAATAATTATTATT-AAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATA
10184 TTAAATATTCTTAAATGAATTTACT-AAATCATAATATATAATACTATAAAATATAA
65 TTAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
*
10240 TTTAAAATAATTATTATTAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTTAATA
1 TTTAAAATAATTATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTC-TTAATA
*
10305 TTAAATA-TCTTATATGAATTTACTAAAATCAATAATATATAATACTATAAAATA-AA
65 TTAAATATTCTTAAATGAATTTACTAAAATC-ATAATATATAATACTATAAAATATAA
10361 TTTAAAATAAT
1 TTTAAAATAAT
10372 AAATTTGAAT
Statistics
Matches: 467, Mismatches: 11, Indels: 29
0.92 0.02 0.06
Matches are distributed among these distances:
119 48 0.10
120 228 0.49
121 115 0.25
122 62 0.13
123 14 0.03
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (121 bp):
TTTAAAATAATTATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATAT
TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAA
Found at i:9940 original size:17 final size:18
Alignment explanation
Indices: 9779--9932 Score: 69
Period size: 18 Copynumber: 8.9 Consensus size: 18
9769 TTATTATTAA
9779 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
9797 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ***
9815 CT-TAATATTAA-ATATTCT
1 ATATAAT-TTAATA-AAAAT
9833 ATTATGAATTTAAT-AAAAT
1 A-TAT-AATTTAATAAAAAT
* * *
9852 -TCATAATAT-ATAATACT
1 AT-ATAATTTAATAAAAAT
** *
9869 ATA-AAAATAATTAAAAT
1 ATATAATTTAATAAAAAT
* *
9886 A-ATTA-TT-AT-TAAA-
1 ATATAATTTAATAAAAAT
9899 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
9917 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
9933 TTCTTAATAT
Statistics
Matches: 99, Mismatches: 21, Indels: 32
0.65 0.14 0.21
Matches are distributed among these distances:
13 1 0.01
14 6 0.06
15 4 0.04
16 10 0.10
17 24 0.24
18 43 0.43
19 3 0.03
20 5 0.05
21 3 0.03
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:10051 original size:26 final size:26
Alignment explanation
Indices: 9992--10055 Score: 76
Period size: 26 Copynumber: 2.4 Consensus size: 26
9982 TAATACTATA
*
9992 AAATATAATTTAAAATAATTATTATT
1 AAATATAATTTAAAATAATTATAATT
10018 AAATATAATTTAATAA-AATATATAATTT
1 AAATATAATTTAA-AATAAT-TATAA-TT
*
10046 AAATAAAATT
1 AAATATAATT
10056 CTATAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
26 16 0.48
27 6 0.18
28 11 0.33
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
AAATATAATTTAAAATAATTATAATT
Found at i:10062 original size:19 final size:18
Alignment explanation
Indices: 10020--10069 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
10010 TTATTATTAA
10020 ATATAATTT-AATAAAAT
1 ATATAATTTAAATAAAAT
10037 ATATAATTTAAATAAAATT
1 ATATAATTTAAATAAAA-T
* *
10056 CTATAATATAAATA
1 ATATAATTTAAATA
10070 TTCTTAAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.31
18 7 0.24
19 13 0.45
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATAATTTAAATAAAAT
Found at i:10190 original size:241 final size:241
Alignment explanation
Indices: 9759--10373 Score: 1014
Period size: 241 Copynumber: 2.6 Consensus size: 241
9749 TAATCAATAT
*
9759 TTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
*
9824 AAATATTC-TATTATGAATTTAATAAAATTCATAATATATAATACTATAAAA-ATAA-TTAAAAT
66 AAATATTCTTA-TATGAATTTACTAAAA-TCATAATATATAATACTATAAAATATAATTTAAAAT
*
9886 AATTATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTTAAATAT
129 AATAATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTTAAATAT
*
9951 TCTTAAATGAATTTACTAAAATTATAATATATAATACTATAAAATATAA
194 TCTTAAATGAATTTACT-AAATCATAATATATAATACTATAAAATATAA
10000 TTTAAAATAATTATTATTAAATATAATTTAAT-AAAATATATAATTTAAATAAAATTCTATAATA
1 TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTT-AATAAAATTCT-TAATA
*
10064 -TAAATATTCTTAAATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAAT
64 TTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAAT
* *
10128 AATAATTATTAAAAATGTAATTTAGTAAAAATATATAATTTAAT-AAATTCTTAATA-TTAAATA
129 AATAATTATT-AAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTTAAATA
10191 TTCTTAAATGAATTTACTAAATCATAATATATAATACTATAAAATATAA
193 TTCTTAAATGAATTTACTAAATCATAATATATAATACTATAAAATATAA
*
10240 TTTAAAATAATTATTATTAAAATATAATTTAGTAAAAATATATAATTTAATAAAATTCTTTAATA
1 TTTAAAATAATTATTATT-AAATATAATTTAATAAAAATATATAATTTAATAAAATTC-TTAATA
10305 TTAAATA-TCTTATATGAATTTACTAAAATCAATAATATATAATACTATAAAATA-AATTTAAAA
64 TTAAATATTCTTATATGAATTTACTAAAATC-ATAATATATAATACTATAAAATATAATTTAAAA
10368 TAATAA
128 TAATAA
10374 ATTTGAATCG
Statistics
Matches: 354, Mismatches: 9, Indels: 22
0.92 0.02 0.06
Matches are distributed among these distances:
240 85 0.24
241 159 0.45
242 79 0.22
243 31 0.09
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.41
Consensus pattern (241 bp):
TTTAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATT
AAATATTCTTATATGAATTTACTAAAATCATAATATATAATACTATAAAATATAATTTAAAATAA
TAATTATTAAAATATAATTTAATAAAAATATATAATTTAATAAAATTCTTAATATTTAAATATTC
TTAAATGAATTTACTAAATCATAATATATAATACTATAAAATATAA
Found at i:10275 original size:15 final size:15
Alignment explanation
Indices: 10229--10295 Score: 52
Period size: 18 Copynumber: 4.5 Consensus size: 15
10219 ATATAATACT
10229 ATAAAATATAATTTA
1 ATAAAATATAATTTA
10244 A-AATAAT-T-A-TTA
1 ATAA-AATATAATTTA
*
10256 TTAAAATATAATTTA
1 ATAAAATATAATTTA
*
10271 GTAAAAATATATAATTTA
1 --ATAAA-ATATAATTTA
10289 ATAAAAT
1 ATAAAAT
10296 TCTTTAATAT
Statistics
Matches: 40, Mismatches: 4, Indels: 16
0.67 0.07 0.27
Matches are distributed among these distances:
12 6 0.15
13 4 0.10
14 4 0.10
15 9 0.22
16 4 0.10
17 3 0.08
18 10 0.25
ACGTcount: A:0.58, C:0.00, G:0.01, T:0.40
Consensus pattern (15 bp):
ATAAAATATAATTTA
Found at i:10720 original size:17 final size:17
Alignment explanation
Indices: 10657--10721 Score: 66
Period size: 17 Copynumber: 3.9 Consensus size: 17
10647 CTTATATGCT
10657 TTAA-TTATTGCATGTA
1 TTAATTTATTGCATGTA
* *
10673 TTAATTTATTTTCATATA
1 TTAATTTA-TTGCATGTA
10691 TT--TTTATAT-CATGTA
1 TTAATTTAT-TGCATGTA
10706 TTAATTTATTGCATGT
1 TTAATTTATTGCATGT
10722 TTGTATTATG
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
15 8 0.20
16 10 0.25
17 13 0.32
18 9 0.22
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (17 bp):
TTAATTTATTGCATGTA
Found at i:14404 original size:24 final size:24
Alignment explanation
Indices: 14377--14426 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
14367 GCCCATTAAA
*
14377 AACATAACTCTCGACCTTT-CATTT
1 AACATAACTATCGA-CTTTCCATTT
*
14401 AACATAACTATTGACTTTCCATTT
1 AACATAACTATCGACTTTCCATTT
14425 AA
1 AA
14427 GTTTATTTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.34, C:0.24, G:0.04, T:0.38
Consensus pattern (24 bp):
AACATAACTATCGACTTTCCATTT
Found at i:16808 original size:16 final size:17
Alignment explanation
Indices: 16777--16826 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 17
16767 ACACGAAGAA
* *
16777 TTTTGAAGCACAAAATT
1 TTTTGAAACACGAAATT
*
16794 TTTTTAAA-ACGAAA-T
1 TTTTGAAACACGAAATT
16809 TTTTGAAACACGAAATT
1 TTTTGAAACACGAAATT
16826 T
1 T
16827 AGAAACACGG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
15 8 0.30
16 11 0.41
17 8 0.30
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.38
Consensus pattern (17 bp):
TTTTGAAACACGAAATT
Found at i:16811 original size:15 final size:16
Alignment explanation
Indices: 16767--16835 Score: 61
Period size: 15 Copynumber: 4.3 Consensus size: 16
16757 ATTTTTTTTT
*
16767 ACACGAAGAATTTTGAA
1 ACACGAA-ATTTTTGAA
* * *
16784 GCACAAAATTTTTTTAA
1 ACACGAAA-TTTTTGAA
16801 A-ACGAAATTTTTGAA
1 ACACGAAATTTTTGAA
*
16816 ACACGAAA-TTTAGAA
1 ACACGAAATTTTTGAA
16831 ACACG
1 ACACG
16836 GGAAATTTTA
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
15 19 0.45
16 12 0.29
17 11 0.26
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (16 bp):
ACACGAAATTTTTGAA
Found at i:16813 original size:32 final size:33
Alignment explanation
Indices: 16759--16826 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
16749 ATACGAGAAT
* * *
16759 TTTTTTTTACACGAAGAATTTTGAAGCACAAAA
1 TTTTTTTAAAACGAAGAATTTTGAAACACAAAA
* *
16792 TTTTTTTAAAACGAA-ATTTTTGAAACACGAAA
1 TTTTTTTAAAACGAAGAATTTTGAAACACAAAA
16824 TTT
1 TTT
16827 AGAAACACGG
Statistics
Matches: 30, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
32 17 0.57
33 13 0.43
ACGTcount: A:0.40, C:0.10, G:0.10, T:0.40
Consensus pattern (33 bp):
TTTTTTTAAAACGAAGAATTTTGAAACACAAAA
Found at i:17668 original size:10 final size:10
Alignment explanation
Indices: 17653--17694 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
17643 TGATTTTTGC
17653 TTTTTCTTTT
1 TTTTTCTTTT
17663 TTTTTCTTTTT
1 TTTTTC-TTTT
*
17674 TTCTTTCCTTT
1 TT-TTTCTTTT
17685 TTTTTCTTTT
1 TTTTTCTTTT
17695 CTCCTTTTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
10 13 0.46
11 11 0.39
12 4 0.14
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:17688 original size:14 final size:14
Alignment explanation
Indices: 17669--17712 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
17659 TTTTTTTTTC
17669 TTTTTTTCTTTCCT
1 TTTTTTTCTTTCCT
*
17683 TTTTTTTCTTTTCT
1 TTTTTTTCTTTCCT
**
17697 CCTTTTTCTTTCCT
1 TTTTTTTCTTTCCT
17711 TT
1 TT
17713 ATCTTCCTTC
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
14 24 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTTTTCTTTCCT
Found at i:17701 original size:22 final size:22
Alignment explanation
Indices: 17655--17701 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
17645 ATTTTTGCTT
* * *
17655 TTTCTTTTTTTTTCTTTTTTTC
1 TTTCCTTTTTTTTCTTTTCTCC
17677 TTTCCTTTTTTTTCTTTTCTCC
1 TTTCCTTTTTTTTCTTTTCTCC
17699 TTT
1 TTT
17702 TTCTTTCCTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTCCTTTTTTTTCTTTTCTCC
Found at i:18451 original size:17 final size:16
Alignment explanation
Indices: 18410--18455 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
18400 GGGGGCAAAA
18410 TGTAATTTTTATTTTT
1 TGTAATTTTTATTTTT
*
18426 TGTATTTTTTATTTTT
1 TGTAATTTTTATTTTT
18442 T-TCAAATTTTTATT
1 TGT--AATTTTTATT
18456 ATGACTATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
15 1 0.04
16 16 0.62
17 9 0.35
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (16 bp):
TGTAATTTTTATTTTT
Found at i:18799 original size:16 final size:17
Alignment explanation
Indices: 18763--18798 Score: 58
Period size: 15 Copynumber: 2.2 Consensus size: 17
18753 TACACCTTTG
18763 AAAAGAAAAGAAAAGAA
1 AAAAGAAAAGAAAAGAA
18780 AAAAG-AAAG-AAAGAA
1 AAAAGAAAAGAAAAGAA
18795 AAAA
1 AAAA
18799 AAATTAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.53
16 4 0.21
17 5 0.26
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (17 bp):
AAAAGAAAAGAAAAGAA
Found at i:19294 original size:143 final size:145
Alignment explanation
Indices: 19006--19280 Score: 305
Period size: 143 Copynumber: 1.9 Consensus size: 145
18996 CTCGCAATAT
* *
19006 GAGTTGATTTTTTTTTTGAAAAGCAAAAATTTAAAAGAATACCACGATCTATTTGTTGACTCGAA
1 GAGTTGATTTTTTTTTTGAAAAGCAAAAATTTAAAAGAAAACCACGATCTATTAGTTGACTCGAA
** ** * * *
19071 GCTCATCACACCTCGCAATATGAGTTGATTTTTTTTAGTAGTAATGTGAAAAAATATTCGGCATT
66 GCTCATCACACCTCGCAATATGAGTTGATTTTTTGAAAAAGAAATGTAAAAAAATACTCGGCATT
19136 GACGAGGTTTACTTCATA
131 GACGAGG--T-CTTCATA
*
19154 GAGTTGA-TTTTTTTTTGAAAA-CAGAAATTT-AAAGAAAACCACGA-C-A-TAG-TGACTCGAA
1 GAGTTGATTTTTTTTTTGAAAAGCAAAAATTTAAAAGAAAACCACGATCTATTAGTTGACTCGAA
* *
19212 GCTCAATCACCCTCTCGCAATATGAGTTGA-TTTTTGAAAAACGGAAATTTAAAAGAAATACCTC
66 GCTC-ATCACAC-CTCGCAATATGAGTTGATTTTTTGAAAAA--GAAATGTAAAA-AAATA-CTC
19276 GGCAT
125 GGCAT
19281 GACCCGAGGC
Statistics
Matches: 109, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
141 13 0.12
142 15 0.14
143 18 0.17
144 9 0.08
145 18 0.17
146 15 0.14
147 14 0.13
148 7 0.06
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.33
Consensus pattern (145 bp):
GAGTTGATTTTTTTTTTGAAAAGCAAAAATTTAAAAGAAAACCACGATCTATTAGTTGACTCGAA
GCTCATCACACCTCGCAATATGAGTTGATTTTTTGAAAAAGAAATGTAAAAAAATACTCGGCATT
GACGAGGTCTTCATA
Found at i:19442 original size:159 final size:154
Alignment explanation
Indices: 19232--19640 Score: 623
Period size: 159 Copynumber: 2.6 Consensus size: 154
19222 CCTCTCGCAA
19232 TATGAGTTGATTTTTG-AAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTTCAA
1 TATGAGTTGATTTTTGAAAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGC-TCAA
* *
19296 CTCACCTCTGTATTATGAGTTGATTTTTGGAAAAACGAAAATTTAAAAGAGAATACCTCGGCATG
65 CTCACCTCTGTATTATGAGTTGATTTTT-GAAAAACGAAAATTTAAAAGAAAACACCTCGGCATG
19361 ACACCGAGGCTCAAACTCACCTCTGTAT
129 AC-CCGAGGCTC-AACTCACCTCTGTAT
19389 TATGAGTTGATTTTTTGAAAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAA
1 TATGAGTTGA-TTTTTGAAAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAA
* * * *
19454 CTCACCTCCTATATTGATGAGTTGATTTTTGAAAAATGGAAATTTGAAAGAAAACACCTCGGCAT
65 CTCACCT-CTGTATT-ATGAGTTGATTTTTGAAAAACGAAAATTTAAAAGAAAACACCTCGGCAT
19519 GACCCGAGGCTCAACTCACCTCTGTAT
128 GACCCGAGGCTCAACTCACCTCTGTAT
* *
19546 TATGAGTTTGA-TTTTGAAAAAAACGGAAATTT-GAAGAAACACCTCGGCATGACCCGAGGCTCA
1 TATGAG-TTGATTTTTG-AAAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCA
19609 ACTCA-CT-TGTATTATGAGTTGA-TTTTGAAAAA
64 ACTCACCTCTGTATTATGAGTTGATTTTTGAAAAA
19641 AGCAGAGATT
Statistics
Matches: 237, Mismatches: 9, Indels: 18
0.90 0.03 0.07
Matches are distributed among these distances:
151 10 0.04
152 9 0.04
153 5 0.02
155 2 0.01
156 39 0.16
157 46 0.19
158 30 0.13
159 82 0.35
160 14 0.06
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (154 bp):
TATGAGTTGATTTTTGAAAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAAC
TCACCTCTGTATTATGAGTTGATTTTTGAAAAACGAAAATTTAAAAGAAAACACCTCGGCATGAC
CCGAGGCTCAACTCACCTCTGTAT
Found at i:19514 original size:79 final size:76
Alignment explanation
Indices: 19232--19640 Score: 603
Period size: 79 Copynumber: 5.3 Consensus size: 76
19222 CCTCTCGCAA
19232 TATGAGTTGATTTTTGAAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTTCAAC
1 TATGAGTTGATTTTTGAAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGC-TCAAC
19297 TCACCTCTGTAT
65 TCACCTCTGTAT
*
19309 TATGAGTTGATTTTTGGAAAAACGAAAATTTAAAAGAGAATACCTCGGCATGACACCGAGGCTCA
1 TATGAGTTGATTTTT-GAAAAACGGAAATTTAAAAGA-AATACCTCGGCATGAC-CCGAGGCTC-
19374 AACTCACCTCTGTAT
62 AACTCACCTCTGTAT
19389 TATGAGTTGATTTTTTGAAAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAA
1 TATGAGTTGA-TTTTTG-AAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAA
*
19454 CTCACCTCCTATAT
64 CTCACCT-CTGTAT
* * *
19468 TGATGAGTTGATTTTTGAAAAATGGAAATTTGAAAGAAAACACCTCGGCATGACCCGAGGCTCAA
1 T-ATGAGTTGATTTTTGAAAAACGGAAATTTAAAAG-AAATACCTCGGCATGACCCGAGGCTCAA
19533 CTCACCTCTGTAT
64 CTCACCTCTGTAT
* *
19546 TATGAGTTTGA-TTTTGAAAAAAACGGAAATTT-GAAGAAACACCTCGGCATGACCCGAGGCTCA
1 TATGAG-TTGATTTTTG--AAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCA
19609 ACTCA-CT-TGTAT
63 ACTCACCTCTGTAT
19621 TATGAGTTGA-TTTTGAAAAA
1 TATGAGTTGATTTTTGAAAAA
19641 AGCAGAGATT
Statistics
Matches: 311, Mismatches: 9, Indels: 29
0.89 0.03 0.08
Matches are distributed among these distances:
72 5 0.02
74 9 0.03
75 11 0.04
76 2 0.01
77 57 0.18
78 59 0.19
79 86 0.28
80 58 0.19
81 24 0.08
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (76 bp):
TATGAGTTGATTTTTGAAAAACGGAAATTTAAAAGAAATACCTCGGCATGACCCGAGGCTCAACT
CACCTCTGTAT
Found at i:27214 original size:17 final size:16
Alignment explanation
Indices: 27192--27239 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
27182 TATTATTATT
*
27192 ATTTTGAAACACGAGAA
1 ATTTTGAAAAACGA-AA
*
27209 ATTTTGAAGAAATGAAA
1 ATTTTGAA-AAACGAAA
*
27226 ATTTTGAAATACGA
1 ATTTTGAAAAACGA
27240 TTTTTTTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 4 0.15
17 18 0.69
18 4 0.15
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (16 bp):
ATTTTGAAAAACGAAA
Done.