Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold429
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: 134018
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.36
File 1 of 2
Found at i:4454 original size:17 final size:19
Alignment explanation
Indices: 4426--4466 Score: 68
Period size: 18 Copynumber: 2.3 Consensus size: 19
4416 ACATAAAAAT
4426 ATTTAAATTAAAAAAT-AA
1 ATTTAAATTAAAAAATAAA
4444 ATTTAAA-TAAAAAATAAA
1 ATTTAAATTAAAAAATAAA
4462 ATTTA
1 ATTTA
4467 TTTAAAAGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.36
18 14 0.64
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTTAAATTAAAAAATAAA
Found at i:4472 original size:18 final size:17
Alignment explanation
Indices: 4426--4473 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
4416 ACATAAAAAT
4426 ATTTAAATTAAAAAATAA
1 ATTT-AATTAAAAAATAA
*
4444 ATTTAAATAAAAAATAAA
1 ATTTAATTAAAAAAT-AA
*
4462 ATTTATTTAAAA
1 ATTTAATTAAAA
4474 GTTAAATTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
17 10 0.38
18 16 0.62
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
ATTTAATTAAAAAATAA
Found at i:4523 original size:15 final size:15
Alignment explanation
Indices: 4503--4536 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
4493 AATGTTAGGA
4503 TAAAAATATTAAGAT
1 TAAAAATATTAAGAT
*
4518 TAAAAATATTAAGGT
1 TAAAAATATTAAGAT
4533 TAAA
1 TAAA
4537 TTTTAGCTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (15 bp):
TAAAAATATTAAGAT
Found at i:6099 original size:7 final size:8
Alignment explanation
Indices: 6080--6131 Score: 90
Period size: 8 Copynumber: 6.8 Consensus size: 8
6070 TCGTAACAAT
6080 TTTTTTAA
1 TTTTTTAA
6088 TTTTTTAA
1 TTTTTTAA
6096 -TTTTTAA
1 TTTTTTAA
6103 TTTTTTAA
1 TTTTTTAA
6111 -TTTTTAA
1 TTTTTTAA
6118 TTTTTTAA
1 TTTTTTAA
6126 TTTTTT
1 TTTTTT
6132 TATGATGATA
Statistics
Matches: 42, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
7 14 0.33
8 28 0.67
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTTAA
Found at i:6101 original size:15 final size:15
Alignment explanation
Indices: 6081--6130 Score: 100
Period size: 15 Copynumber: 3.3 Consensus size: 15
6071 CGTAACAATT
6081 TTTTTAATTTTTTAA
1 TTTTTAATTTTTTAA
6096 TTTTTAATTTTTTAA
1 TTTTTAATTTTTTAA
6111 TTTTTAATTTTTTAA
1 TTTTTAATTTTTTAA
6126 TTTTT
1 TTTTT
6131 TTATGATGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 35 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTTTAATTTTTTAA
Found at i:6110 original size:23 final size:23
Alignment explanation
Indices: 6081--6130 Score: 77
Period size: 22 Copynumber: 2.2 Consensus size: 23
6071 CGTAACAATT
6081 TTTTTAATTTTTTAATT-TTTAA
1 TTTTTAATTTTTTAATTTTTTAA
6103 TTTTTTAA-TTTTTAATTTTTTAA
1 -TTTTTAATTTTTTAATTTTTTAA
6126 TTTTT
1 TTTTT
6131 TTATGATGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTAATTTTTTAATTTTTTAA
Found at i:6305 original size:18 final size:18
Alignment explanation
Indices: 6267--6302 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
6257 TTTTAAGTAC
6267 AAAATTAAAAATCAAATT
1 AAAATTAAAAATCAAATT
6285 AAAATATAAAAATCAAAT
1 AAAAT-TAAAAATCAAAT
6303 AAATATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (18 bp):
AAAATTAAAAATCAAATT
Found at i:7357 original size:15 final size:15
Alignment explanation
Indices: 7339--7373 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7329 TTTTAATTTA
*
7339 ATATAATTAATAAAT
1 ATATAATCAATAAAT
*
7354 ATATTATCAATAAAT
1 ATATAATCAATAAAT
7369 ATATA
1 ATATA
7374 TTTTACTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (15 bp):
ATATAATCAATAAAT
Found at i:7448 original size:17 final size:15
Alignment explanation
Indices: 7425--7472 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 15
7415 AATATTTACT
7425 TTTTTAATTTTTTTGA
1 TTTTTAATTTTTTT-A
*
7441 TCTTTTAATTCTTTTA
1 T-TTTTAATTTTTTTA
7457 TTTATTAATTTATTTT
1 TTT-TTAATTT-TTTT
7473 TTAAATATAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 2 0.07
16 9 0.33
17 16 0.59
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (15 bp):
TTTTTAATTTTTTTA
Found at i:9197 original size:37 final size:36
Alignment explanation
Indices: 9124--9219 Score: 90
Period size: 36 Copynumber: 2.7 Consensus size: 36
9114 TAAGACTAAG
* *
9124 TAATTTATAAATTTATATTTTATTCTTATATTATAT
1 TAATTTATAAATTTATAGTTTATTCTTATATCATAT
* *
9160 TAATTTTTAAATTTTTAAGTTTATAT-TTATATCATAT
1 TAATTTATAAATTTAT-AGTTTAT-TCTTATATCATAT
* *
9197 T-ATATTAT-ATTTTATATTTTATT
1 TAAT-TTATAAATTTATAGTTTATT
9220 TTAATTAATA
Statistics
Matches: 49, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
34 1 0.02
35 6 0.12
36 21 0.43
37 20 0.41
38 1 0.02
ACGTcount: A:0.34, C:0.02, G:0.01, T:0.62
Consensus pattern (36 bp):
TAATTTATAAATTTATAGTTTATTCTTATATCATAT
Found at i:9213 original size:12 final size:12
Alignment explanation
Indices: 9180--9237 Score: 61
Period size: 12 Copynumber: 5.1 Consensus size: 12
9170 ATTTTTAAGT
9180 TTATA-TTTATA
1 TTATATTTTATA
*
9191 TCATA--TTATA
1 TTATATTTTATA
9201 TTATATTTTATA
1 TTATATTTTATA
*
9213 TTTTATTTTA-A
1 TTATATTTTATA
9224 TTAATATTTTATA
1 TT-ATATTTTATA
9237 T
1 T
9238 ATGTGTCAAG
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 9 0.23
11 7 0.18
12 21 0.54
13 2 0.05
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (12 bp):
TTATATTTTATA
Found at i:9219 original size:17 final size:17
Alignment explanation
Indices: 9193--9239 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
9183 TATTTATATC
* *
9193 ATATTATATTATATTTT
1 ATATTTTATTATATTTA
* *
9210 ATATTTTATTTTAATTA
1 ATATTTTATTATATTTA
9227 ATATTTTA-TATAT
1 ATATTTTATTATAT
9240 GTGTCAAGTT
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATATTTTATTATATTTA
Found at i:18416 original size:23 final size:21
Alignment explanation
Indices: 18387--18437 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 21
18377 TCTTTTTATC
18387 ATTTATT-TATAAAATTATAGAAA
1 ATTTATTGT-TAAAATTAT-G-AA
*
18410 ATTTATTGTTATAATTATGAA
1 ATTTATTGTTAAAATTATGAA
18431 ATTTATT
1 ATTTATT
18438 ATTATGTTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
21 9 0.35
22 1 0.04
23 15 0.58
24 1 0.04
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (21 bp):
ATTTATTGTTAAAATTATGAA
Found at i:18434 original size:21 final size:23
Alignment explanation
Indices: 18399--18442 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 23
18389 TTATTTATAA
*
18399 AATTATAGAAAATTTATTGTTAT
1 AATTATAGAAAATTTATTATTAT
18422 AATTAT-G-AAATTTATTATTAT
1 AATTATAGAAAATTTATTATTAT
18443 GTTATCAATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 13 0.65
22 1 0.05
23 6 0.30
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (23 bp):
AATTATAGAAAATTTATTATTAT
Found at i:18685 original size:6 final size:6
Alignment explanation
Indices: 18662--18695 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
18652 AAAGTTTTAC
* *
18662 AATTAC AATTAT AATTAT AATTAT AATAAT AATT
1 AATTAT AATTAT AATTAT AATTAT AATTAT AATT
18696 CTTACCATGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (6 bp):
AATTAT
Found at i:19325 original size:20 final size:19
Alignment explanation
Indices: 19300--19351 Score: 61
Period size: 19 Copynumber: 2.6 Consensus size: 19
19290 AATACAATAT
19300 AAAAATATCATAAATATGAC
1 AAAAATAT-ATAAATATGAC
*
19320 AAAAATA-AGTAAATATGTC
1 AAAAATATA-TAAATATGAC
19339 AAAATATATATAA
1 AAAA-ATATATAA
19352 TATTAATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 1 0.04
19 13 0.46
20 13 0.46
21 1 0.04
ACGTcount: A:0.62, C:0.06, G:0.06, T:0.27
Consensus pattern (19 bp):
AAAAATATATAAATATGAC
Found at i:25228 original size:21 final size:22
Alignment explanation
Indices: 25180--25234 Score: 69
Period size: 21 Copynumber: 2.6 Consensus size: 22
25170 ATTCAAATAG
*
25180 ATCTTATTATTATAATATCAAA
1 ATCTTACTATTATAATATCAAA
**
25202 AT-TTACTATTATAATAT-GTA
1 ATCTTACTATTATAATATCAAA
25222 ATCTTACTATTAT
1 ATCTTACTATTAT
25235 TGTTTTTAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
20 3 0.10
21 24 0.83
22 2 0.07
ACGTcount: A:0.40, C:0.09, G:0.02, T:0.49
Consensus pattern (22 bp):
ATCTTACTATTATAATATCAAA
Found at i:26057 original size:13 final size:12
Alignment explanation
Indices: 26041--26096 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 12
26031 CATCTAATGC
26041 ATATTTTTAATAA
1 ATATTTTTAA-AA
26054 ATATTTAATATAAAA
1 ATATTT--T-TAAAA
26069 AT-TATTTTAAAA
1 ATAT-TTTTAAAA
26081 ATATTTTTTAAAA
1 ATA-TTTTTAAAA
26094 ATA
1 ATA
26097 AATCAATAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
12 7 0.19
13 18 0.49
14 2 0.05
15 7 0.19
16 3 0.08
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
ATATTTTTAAAA
Found at i:26301 original size:21 final size:22
Alignment explanation
Indices: 26267--26310 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
26257 ATTTTAAATT
26267 TAAATTTAATTATAAAA-TATA
1 TAAATTTAATTATAAAATTATA
26288 TAAATATTAA-TATAAAATTATA
1 TAAAT-TTAATTATAAAATTATA
26310 T
1 T
26311 TTTTAGTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 12 0.57
22 9 0.43
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAATTTAATTATAAAATTATA
Found at i:26430 original size:2 final size:2
Alignment explanation
Indices: 26423--26481 Score: 118
Period size: 2 Copynumber: 29.5 Consensus size: 2
26413 CAATCCAATC
26423 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
26465 TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA T
26482 CTAATGGACC
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26857 original size:10 final size:10
Alignment explanation
Indices: 26842--26873 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
26832 AGGTGATTCC
26842 TTTACTTCGT
1 TTTACTTCGT
26852 TTTACTTCGT
1 TTTACTTCGT
26862 TTTACTTCGT
1 TTTACTTCGT
26872 TT
1 TT
26874 CAAGATTGTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.09, C:0.19, G:0.09, T:0.62
Consensus pattern (10 bp):
TTTACTTCGT
Found at i:31531 original size:21 final size:19
Alignment explanation
Indices: 31507--31569 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
31497 TAAAACAAAG
*
31507 TTTTAAATATTTAAAAATTAA
1 TTTTAAATATTT--AAATAAA
31528 TTTT-AATA-TTAAATAAA
1 TTTTAAATATTTAAATAAA
* *
31545 TTTTAAATATAGTAAATAAT
1 TTTTAAATAT-TTAAATAAA
31565 TTTTA
1 TTTTA
31570 CTGTATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 10 0.28
18 4 0.11
19 2 0.06
20 16 0.44
21 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
TTTTAAATATTTAAATAAA
Found at i:35832 original size:25 final size:24
Alignment explanation
Indices: 35797--35847 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
35787 ATACATTGTT
* * *
35797 ATTTTATTTAATTTTATTAATTTTA
1 ATTTTAATTAAGTTTA-AAATTTTA
35822 ATTTTAATTAAGTTTAAAATTTTA
1 ATTTTAATTAAGTTTAAAATTTTA
35846 AT
1 AT
35848 ATCTTACGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTTTAATTAAGTTTAAAATTTTA
Found at i:35837 original size:16 final size:15
Alignment explanation
Indices: 35803--35838 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
35793 TGTTATTTTA
*
35803 TTTAATTTTATTAAT
1 TTTAATTTTATTAAG
35818 TTTAATTTTAATTAAG
1 TTTAATTTT-ATTAAG
35834 TTTAA
1 TTTAA
35839 AATTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
TTTAATTTTATTAAG
Found at i:36198 original size:24 final size:25
Alignment explanation
Indices: 36149--36199 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
36139 TATTATTGTT
* *
36149 ATTTTAATTAATTTTAGAAATTTTA
1 ATTTTAATTAAGTTTAGAAATATTA
*
36174 ATTTTTATTAAGTTTA-AAATATTA
1 ATTTTAATTAAGTTTAGAAATATTA
36198 AT
1 AT
36200 ATCTTAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
ATTTTAATTAAGTTTAGAAATATTA
Found at i:36647 original size:2 final size:2
Alignment explanation
Indices: 36640--36669 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
36630 TTGTAACGTG
*
36640 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36670 ATTTACAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:39125 original size:25 final size:24
Alignment explanation
Indices: 39090--39140 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
39080 ATACATTGTT
* * *
39090 ATTTTATTTAATTTTATTAATTTTA
1 ATTTTAATTAAGTTTA-AAATTTTA
39115 ATTTTAATTAAGTTTAAAATTTTA
1 ATTTTAATTAAGTTTAAAATTTTA
39139 AT
1 AT
39141 ATCTTACGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
ATTTTAATTAAGTTTAAAATTTTA
Found at i:39130 original size:16 final size:15
Alignment explanation
Indices: 39096--39131 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
39086 TGTTATTTTA
*
39096 TTTAATTTTATTAAT
1 TTTAATTTTATTAAG
39111 TTTAATTTTAATTAAG
1 TTTAATTTT-ATTAAG
39127 TTTAA
1 TTTAA
39132 AATTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
TTTAATTTTATTAAG
Found at i:39491 original size:24 final size:25
Alignment explanation
Indices: 39442--39492 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
39432 TATTATTGTT
* *
39442 ATTTTAATTAATTTTAGAAATTTTA
1 ATTTTAATTAAGTTTAGAAATATTA
*
39467 ATTTTTATTAAGTTTA-AAATATTA
1 ATTTTAATTAAGTTTAGAAATATTA
39491 AT
1 AT
39493 ATCTTAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 9 0.39
25 14 0.61
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
ATTTTAATTAAGTTTAGAAATATTA
Found at i:39654 original size:353 final size:351
Alignment explanation
Indices: 39084--39732 Score: 1046
Period size: 353 Copynumber: 1.8 Consensus size: 351
39074 GTGTTAATAC
* ** *
39084 ATTGTTATTTTATTTAATTTTATTAATTTTAATTTTAATTAAGTTTAAAATTTTAATATCTTACG
1 ATTGTTATTTTAATTAATTTTAGAAATTTTAATTTTAATTAAGTTTAAAATATTAATATCTTACG
* * *
39149 TATTATTTTATGTTTATACGTAATATTATATATTTTTCTTTTTTATATGATATAAATTACATAAA
66 TATTATTTTATGTTTACACATAATATTATATATTTTTATTTTTTATATGATATAAATTACATAAA
* *
39214 ATATATAAATATAAAAATAATATGTATTATAAAACCTTAATTGTTAGAATCAAAATTCAACTTAT
131 ATATATAAATATAAAAATAATATGTATTATAAAACCTTAATTGTTAGAACCAAAATTCAACTCAT
* * *
39279 TTTTTAAATGATCTTCATTTTTTTATTCAAACTTATTTTCGAATCTAATATTTTTTTTATCCAAA
196 TTTTTAAACGATCTTCATTTTTTTATTCAAACTTATTTTCAAATCTAATA-TTTTTTTATCAAAA
* * *
39344 CACTTTCAAATATTAAATAAATATTCGAGTTTGAGCGGGAAGTCTAAGTCGTGGATAAATCTAAT
260 CACTTTCAAATATTAAACAAACATTCAAGTTTGAGCGGGAAGTCTAAGTCGTGGATAAATCTAAT
39409 TAGGATCCTTTCCATTATTTTTCTATT
325 TAGGATCCTTTCCATTATTTTTCTATT
* *
39436 ATTGTTATTTTAATTAATTTTAGAAATTTTAATTTTTATTAAGTTTAAAATATTAATATCTTAAT
1 ATTGTTATTTTAATTAATTTTAGAAATTTTAATTTTAATTAAGTTTAAAATATTAATATCTT-AC
* *
39501 GTATTTTTTTATGTTTACACATAATATTATATATTTTTATTTTTTATATGATATAAATTAGATAA
65 GTATTATTTTATGTTTACACATAATATTATATATTTTTATTTTTTATATGATATAAATTACATAA
39566 AATATATAAATATAAAAATAATATGTATTATAAAACCTTAATTGTTAGAACCAAAATTCAACTCA
130 AATATATAAATATAAAAATAATATGTATTATAAAACCTTAATTGTTAGAACCAAAATTCAACTCA
* * * *
39631 TTTTTTAAGCGATCTTTATTTTTTTGTTCAAACTTATTTTCAAATTTAATATTTTTTTATCAAAA
195 TTTTTTAAACGATCTTCATTTTTTTATTCAAACTTATTTTCAAATCTAATATTTTTTTATCAAAA
* * *
39696 CTCTTTTAAATATTGAACAAACATTCAAGTTTGAGCG
260 CACTTTCAAATATTAAACAAACATTCAAGTTTGAGCG
39733 AGTAATCCGA
Statistics
Matches: 270, Mismatches: 26, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
352 101 0.37
353 169 0.63
ACGTcount: A:0.37, C:0.08, G:0.07, T:0.48
Consensus pattern (351 bp):
ATTGTTATTTTAATTAATTTTAGAAATTTTAATTTTAATTAAGTTTAAAATATTAATATCTTACG
TATTATTTTATGTTTACACATAATATTATATATTTTTATTTTTTATATGATATAAATTACATAAA
ATATATAAATATAAAAATAATATGTATTATAAAACCTTAATTGTTAGAACCAAAATTCAACTCAT
TTTTTAAACGATCTTCATTTTTTTATTCAAACTTATTTTCAAATCTAATATTTTTTTATCAAAAC
ACTTTCAAATATTAAACAAACATTCAAGTTTGAGCGGGAAGTCTAAGTCGTGGATAAATCTAATT
AGGATCCTTTCCATTATTTTTCTATT
Found at i:40538 original size:6 final size:6
Alignment explanation
Indices: 40527--40553 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
40517 TATATAAAAA
40527 ATTTAT ATTTAT ATTTAT ATTTAT ATT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATT
40554 ATAAAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATTTAT
Found at i:40584 original size:15 final size:15
Alignment explanation
Indices: 40551--40594 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 15
40541 TTATATTTAT
40551 ATTATAAAAAATAAAAA
1 ATTAT-AAAAA-AAAAA
*
40568 ATTATAAAAAAAGAA
1 ATTATAAAAAAAAAA
*
40583 ATTACAAAAAAA
1 ATTATAAAAAAA
40595 TTTCAGTTCG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 15 0.60
16 5 0.20
17 5 0.20
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (15 bp):
ATTATAAAAAAAAAA
Found at i:42441 original size:16 final size:15
Alignment explanation
Indices: 42407--42442 Score: 54
Period size: 16 Copynumber: 2.3 Consensus size: 15
42397 TCTTATTTTA
*
42407 TTTAATTTTATTAAT
1 TTTAATTTTATTAAG
42422 TTTAATTTTAATTAAG
1 TTTAATTTT-ATTAAG
42438 TTTAA
1 TTTAA
42443 AATTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (15 bp):
TTTAATTTTATTAAG
Found at i:42792 original size:25 final size:26
Alignment explanation
Indices: 42758--42808 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
42748 ATTATTGTTA
* * *
42758 TTTTATTTAATTTTAGAAATTTTAAT
1 TTTTATTTAAGTTTAAAAATATTAAT
42784 TTTTA-TTAAGTTTAAAAATATTAAT
1 TTTTATTTAAGTTTAAAAATATTAAT
42809 ATCTTAATGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTATTTAAGTTTAAAAATATTAAT
Found at i:43083 original size:354 final size:352
Alignment explanation
Indices: 42399--43099 Score: 1022
Period size: 354 Copynumber: 2.0 Consensus size: 352
42389 AAATACATTC
** *
42399 TTATTTTATTTAATTTTATTAATTTTAATTTTAATTAAGTTTAAAATTTTAATATCTTAACGTAT
1 TTATTTTATTTAATTTTAGAAATTTTAATTTTAATTAAGTTTAAAATATTAATATCTTAACGTAT
42464 TATTTTATGTTTACACGTAATATTATATATTTTTTTATATGATATAAATTACATAAAATATATAA
66 TATTTTATGTTTACACGTAATATTATATATTTTTTTATATGATATAAATTACATAAAATATATAA
*
42529 ATATAAAAATAATATGTATTATAAAATATTCAAACCTTAATTGTTAGAACCAAAATTCAACTTAT
131 ATATAAAAATAATATGTATTAT--AATA-T-AAACCTTAATTGTTAGAACCAAAATTCAACTCAT
* *
42594 TTTTTAAATGATCTTCATTTTTTTTATTCAAACTTATTTTCAAATCTAATTTTTTTTTATCCAAA
192 TTTTTAAATAATCTTCATTTTTTTTATTCAAACTTATTTTCAAATATAATTTTTTTTTATCCAAA
*
42659 CACTTTCAAATATTAAATAAATATTCGAGTTTGAGCGAGTAGTCTAAGTCGTAGATAAATCTAAT
257 CACTTTCAAATATTAAATAAATATTCGAGTTTGAGCGAGTAGTCTAAGTCATAGATAAATCTAAT
* *
42724 TAGGATCTTTTCCATTGTTTTTCTATTATTG
322 TAGGATCCTTTCCATTATTTTTCTATTATTG
* *
42755 TTATTTTATTTAATTTTAGAAATTTTAATTTTTATTAAGTTTAAAAATATTAATATCTTAATGTA
1 TTATTTTATTTAATTTTAGAAATTTTAATTTTAATTAAGTTT-AAAATATTAATATCTTAACGTA
* * *
42820 TTTTTTTATGTTTACACGTAATATTATATATTTTTATTTTTATATGATATAAATTAGATAAAATG
65 TTATTTTATGTTTACACGTAATATTATATA---TT-TTTTTATATGATATAAATTACATAAAATA
42885 TATAAATATAAAAATAATATGTA-T-T-ATA-AAACCTTAATTGTTAGAACCAAAATTCAACTCA
126 TATAAATATAAAAATAATATGTATTATAATATAAACCTTAATTGTTAGAACCAAAATTCAACTCA
* * * *
42946 TTTTTTAAGTAATCTTTA-TTTTTTTGTTCAAACTTATTTTCAAATATAATATTTTTTTTTGTCC
191 TTTTTTAAATAATCTTCATTTTTTTTATTCAAACTTATTTTCAAATAT-A-ATTTTTTTTTATCC
* * *
43010 AAAGC-TTTTCAAATATTGAATAAGTATTCGAGTTTGAGC-ATGTAGTCTAAGTCAT-GAATAAA
254 AAA-CACTTTCAAATATTAAATAAATATTCGAGTTTGAGCGA-GTAGTCTAAGTCATAG-ATAAA
*
43072 TCTAGTTAGGATCCTTTCCATTATTTTT
316 TCTAATTAGGATCCTTTCCATTATTTTT
43100 TATCATTAAT
Statistics
Matches: 313, Mismatches: 22, Indels: 22
0.88 0.06 0.06
Matches are distributed among these distances:
352 27 0.09
353 50 0.16
354 90 0.29
355 1 0.00
356 42 0.13
357 49 0.16
359 1 0.00
360 3 0.01
361 50 0.16
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.48
Consensus pattern (352 bp):
TTATTTTATTTAATTTTAGAAATTTTAATTTTAATTAAGTTTAAAATATTAATATCTTAACGTAT
TATTTTATGTTTACACGTAATATTATATATTTTTTTATATGATATAAATTACATAAAATATATAA
ATATAAAAATAATATGTATTATAATATAAACCTTAATTGTTAGAACCAAAATTCAACTCATTTTT
TAAATAATCTTCATTTTTTTTATTCAAACTTATTTTCAAATATAATTTTTTTTTATCCAAACACT
TTCAAATATTAAATAAATATTCGAGTTTGAGCGAGTAGTCTAAGTCATAGATAAATCTAATTAGG
ATCCTTTCCATTATTTTTCTATTATTG
Found at i:46076 original size:25 final size:26
Alignment explanation
Indices: 46042--46092 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
46032 TTTTCTGTTA
* * *
46042 TTTTATTTAATTTTAGAAATTTTAAT
1 TTTTATTTAAGTTTAAAAATATTAAT
46068 TTTTA-TTAAGTTTAAAAATATTAAT
1 TTTTATTTAAGTTTAAAAATATTAAT
46093 ATCTTAACGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTATTTAAGTTTAAAAATATTAAT
Found at i:46147 original size:349 final size:347
Alignment explanation
Indices: 45691--46385 Score: 1024
Period size: 349 Copynumber: 2.0 Consensus size: 347
45681 AAAAATACAT
* * *
45691 TGTTATTTTATTTTATTTTATTAAATTTAATTTTAATTAAGTTTAAAATTTTAATATCTTACGTA
1 TGTTATTTTATTTAATTTTATGAAATTTAATTTTAATTAAGTTTAAAATATTAATATCTTACGTA
* * *
45756 TTATTTTATGTTTATACGTAATATTATATATTTTTCTTTTTTATATAATATAAATTACATAAAAT
66 TTATTTTATGTTTACAAGTAATATTATATATTTTTATTTTTTATATAATATAAATTACATAAAAT
* *
45821 ATATAAATATAAAAATAATATGTATTATAAAACCTTAATTGTTAGAACCAAAATTCAAGTTATTT
131 ATATAAATATAAAAATAATATGTATTATAAAACCTTAATTGTTAGAACCAAAATTCAACTCATTT
* *
45886 TTTAA-ATGAT-TTTCATTTTTTTATTCAAACTTATTTTCGAATCTAATAATTTTTTTATCCAAA
196 TTTAAGAT-ATCTTT-ATTTTTTTATTCAAACTTATTTTCAAATATAATAATTTTTTTATCCAAA
*
45949 CAC-TTTCAAATATTAAATAAATATTCGAGTTTGAGCAAGTAGTCTAAGTCGT-AGATAAATCTA
259 C-CTTTTCAAATATTAAATAAATATTCGAGTTTGAGCAAGTAGTCTAAGTCATGA-ATAAATCTA
46012 ATTAGGAT-CCTTTCCATTATTTTTC
322 ATTAGGATCCCTTTCCATTATTTTTC
*
46037 TGTTATTTTATTTAATTTTA-GAAATTTTAATTTTTATTAAGTTTAAAAATATTAATATCTTAAC
1 TGTTATTTTATTTAATTTTATGAAA-TTTAATTTTAATTAAGTTT-AAAATATTAATATCTT-AC
* * *
46101 GTATTTTTTTTATGTTTACAAGTAATATTATATATTTTTATTTTTTATATGATATAAATTAGATA
63 GTA-TTATTTTATGTTTACAAGTAATATTATATATTTTTATTTTTTATATAATATAAATTACATA
* *
46166 AAATGTATAAATATAAAAATAATATGTATTATAAAACCTTAATTGTTAGAATCAAAATTCAACTC
127 AAATATATAAATATAAAAATAATATGTATTATAAAACCTTAATTGTTAGAACCAAAATTCAACTC
* * * *
46231 ATTTTTTAAGCTATCTTTATTTTTTTGTTCAAACTTATTTTCAAATATAATATTTTTTTTGTCCA
192 ATTTTTTAAGATATCTTTATTTTTTTATTCAAACTTATTTTCAAATATAATAATTTTTTTATCCA
* * ** * *
46296 AACCTTTTCAAATATTGAATAAGTATTCGAGTTTGATTATGTAGTCTAAGTCATGAATAAGTCTA
257 AACCTTTTCAAATATTAAATAAATATTCGAGTTTGAGCAAGTAGTCTAAGTCATGAATAAATCTA
*
46361 GTTAGGATCCCTTTCCATTATTTTT
322 ATTAGGATCCCTTTCCATTATTTTT
46386 TATCATTAAT
Statistics
Matches: 312, Mismatches: 28, Indels: 14
0.88 0.08 0.04
Matches are distributed among these distances:
345 3 0.01
346 37 0.12
347 15 0.05
348 6 0.02
349 230 0.74
350 21 0.07
ACGTcount: A:0.36, C:0.08, G:0.07, T:0.48
Consensus pattern (347 bp):
TGTTATTTTATTTAATTTTATGAAATTTAATTTTAATTAAGTTTAAAATATTAATATCTTACGTA
TTATTTTATGTTTACAAGTAATATTATATATTTTTATTTTTTATATAATATAAATTACATAAAAT
ATATAAATATAAAAATAATATGTATTATAAAACCTTAATTGTTAGAACCAAAATTCAACTCATTT
TTTAAGATATCTTTATTTTTTTATTCAAACTTATTTTCAAATATAATAATTTTTTTATCCAAACC
TTTTCAAATATTAAATAAATATTCGAGTTTGAGCAAGTAGTCTAAGTCATGAATAAATCTAATTA
GGATCCCTTTCCATTATTTTTC
Found at i:49005 original size:10 final size:10
Alignment explanation
Indices: 48990--49034 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
48980 ATACATTGTT
48990 ATTTTATTTA
1 ATTTTATTTA
*
49000 ATTTTATTAA
1 ATTTTATTTA
49010 ATTTTA-TTA
1 ATTTTATTTA
*
49019 ATTTTAATTA
1 ATTTTATTTA
*
49029 AGTTTA
1 ATTTTA
49035 AAATTTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
9 8 0.26
10 23 0.74
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
ATTTTATTTA
Found at i:49021 original size:19 final size:21
Alignment explanation
Indices: 48990--49029 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
48980 ATACATTGTT
48990 ATTTTATTTAATTTT-ATTAA
1 ATTTTATTTAATTTTAATTAA
49010 ATTTTA-TTAATTTTAATTAA
1 ATTTTATTTAATTTTAATTAA
49030 GTTTAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
ATTTTATTTAATTTTAATTAA
Found at i:49034 original size:19 final size:20
Alignment explanation
Indices: 48992--49044 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
48982 ACATTGTTAT
*
48992 TTTATTTAATTTT-ATTAAAT
1 TTTA-TTAATTTTAATTAAAG
49012 TTTATTAATTTTAATT-AAG
1 TTTATTAATTTTAATTAAAG
*
49031 TTTA-AAATTTTAAT
1 TTTATTAATTTTAAT
49045 ATCTTAACGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 9 0.30
19 14 0.47
20 7 0.23
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (20 bp):
TTTATTAATTTTAATTAAAG
Found at i:49393 original size:24 final size:25
Alignment explanation
Indices: 49354--49404 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
49344 TATTATTGTT
* * *
49354 ATTTTATTTAATTTTAGAAATTTTA
1 ATTTTATTTAAGTTTAAAAATATTA
49379 ATTTTA-TTAAGTTTAAAAATATTA
1 ATTTTATTTAAGTTTAAAAATATTA
49403 AT
1 AT
49405 ATCTTAATGT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 17 0.74
25 6 0.26
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.55
Consensus pattern (25 bp):
ATTTTATTTAAGTTTAAAAATATTA
Found at i:49722 original size:353 final size:356
Alignment explanation
Indices: 49016--49722 Score: 930
Period size: 353 Copynumber: 2.0 Consensus size: 356
49006 TTAAATTTTA
*
49016 TTAATTTTAATTAAGTTTAAAATTTTAATATCTTAACGTATTATTTTATGTTTACACGTAATATT
1 TTAATTTTAATTAAGTTTAAAATATTAATATCTTAACGTATTATTTTATGTTTACACGTAATATT
*
49081 ATATATTTTTCTTTTTTATATGATATAAATTACATAAAATGTATAAATATAAAAATAATATGTAT
66 ATATATTTTTATTTTTTATATGATATAAATTACATAAAATGTATAAATATAAAAATAATATGTAT
* *
49146 TATAAAATATTCAAACCTTAATTGTTAGAACCAAAATTCAACTTATTTTTTAAATGATCTTCATT
131 TAT--AATA-T-AAACCTTAATTGTTAGAACCAAAATTCAACTCATTTTTTAAACGATCTTCATT
* * * *
49211 TTTTTATTCAAACTTATTTTCGAATCTAATATTTTTTTATCCAAACACTTTCAAATATTAAATAA
192 TTTTTATTCAAACTTATTTTCAAATATAATATTTTTTTATCAAAACACTTTCAAATATTAAACAA
* * * * * *
49276 ATATTCGAGGTTGAGCGAGTAGTCTAAGTCGTAGATATATCTAATTAGGATCCTTTCCATTATTT
257 ACATTCGAGGTTGAGCGAGTAATCGAAGTCATAGATATATCTAATTAAGATCCTTTCCATTACTT
* ** * **
49341 TTCTATTATTGTTATTTTATTTAATTTTAGAAATT
322 TTCTATCATTAATATTTAATACAATTTTAGAAATT
* * *
49376 TTAATTTT-ATTAAGTTTAAAAATATTAATATCTTAATGT-TTTTGTTTTTGTTTACACGTAATA
1 TTAATTTTAATTAAGTTT-AAAATATTAATATCTTAACGTATTAT-TTTATGTTTACACGTAATA
*
49439 TTATATATTTTTATTTTTTATATGATATAAATTAGATAAAATGTATAAATATAAAAAATAATATG
64 TTATATATTTTTATTTTTTATATGATATAAATTACATAAAATGTATAAATAT-AAAAATAATATG
* *
49504 TA-T-T-ATA-AAACCTTAATTGTTAGAACCAAAATTCAACTCATTTTTTAAGCGATCTTTATTT
128 TATTATAATATAAACCTTAATTGTTAGAACCAAAATTCAACTCATTTTTTAAACGATCTTCATTT
* * * * *
49565 TTTTGTTCAAACTTATTTTTAAATATAATATTTTTTTATCAAAACTCTTTTAAATATTGAACAAA
193 TTTTATTCAAACTTATTTTCAAATATAATATTTTTTTATCAAAACACTTTCAAATATTAAACAAA
* * *
49630 CATTCGAGTTTGAGCGAGTAATCCGAA-TCAT-GA-ATAAGT-TAAGTTAAGATCTTTTTCATTA
258 CATTCGAGGTTGAGCGAGTAAT-CGAAGTCATAGATAT-A-TCTAA-TTAAGATCCTTTCCATTA
*
49691 CTTTTCTGTCATTAATATTTAATACAATTTTA
319 CTTTTCTATCATTAATATTTAATACAATTTTA
49723 ATCATCATTC
Statistics
Matches: 305, Mismatches: 35, Indels: 21
0.84 0.10 0.06
Matches are distributed among these distances:
351 2 0.01
352 6 0.02
353 168 0.55
354 3 0.01
356 3 0.01
359 13 0.04
360 96 0.31
361 14 0.05
ACGTcount: A:0.37, C:0.09, G:0.07, T:0.47
Consensus pattern (356 bp):
TTAATTTTAATTAAGTTTAAAATATTAATATCTTAACGTATTATTTTATGTTTACACGTAATATT
ATATATTTTTATTTTTTATATGATATAAATTACATAAAATGTATAAATATAAAAATAATATGTAT
TATAATATAAACCTTAATTGTTAGAACCAAAATTCAACTCATTTTTTAAACGATCTTCATTTTTT
TATTCAAACTTATTTTCAAATATAATATTTTTTTATCAAAACACTTTCAAATATTAAACAAACAT
TCGAGGTTGAGCGAGTAATCGAAGTCATAGATATATCTAATTAAGATCCTTTCCATTACTTTTCT
ATCATTAATATTTAATACAATTTTAGAAATT
Found at i:51621 original size:2 final size:2
Alignment explanation
Indices: 51614--51654 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
51604 GGGGCTTAAT
51614 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
51655 GCTTGCACTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:53508 original size:14 final size:14
Alignment explanation
Indices: 53489--53540 Score: 54
Period size: 12 Copynumber: 3.6 Consensus size: 14
53479 ACTTCGTATG
53489 ATATAAATAATGTA
1 ATATAAATAATGTA
*
53503 ATATAAAAAAAATGATA
1 ATAT--AAATAATG-TA
53520 ATATAAA-AAT-TA
1 ATATAAATAATGTA
53532 ATATAAATA
1 ATATAAATA
53541 TGTTAAAAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
12 9 0.27
13 1 0.03
14 7 0.21
15 3 0.09
16 7 0.21
17 6 0.18
ACGTcount: A:0.65, C:0.00, G:0.04, T:0.31
Consensus pattern (14 bp):
ATATAAATAATGTA
Found at i:53527 original size:16 final size:16
Alignment explanation
Indices: 53497--53528 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
53487 TGATATAAAT
53497 AATGTAATATAAAAAA
1 AATGTAATATAAAAAA
53513 AATGATAATATAAAAA
1 AATG-TAATATAAAAA
53529 TTAATATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (16 bp):
AATGTAATATAAAAAA
Found at i:53537 original size:17 final size:16
Alignment explanation
Indices: 53493--53537 Score: 54
Period size: 17 Copynumber: 2.7 Consensus size: 16
53483 CGTATGATAT
*
53493 AAATAATGTAATATAA
1 AAATAATATAATATAA
*
53509 AAAAAATGATAATATAA
1 AAATAAT-ATAATATAA
53526 AAATTAATATAA
1 AAA-TAATATAA
53538 ATATGTTAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
16 6 0.25
17 15 0.62
18 3 0.12
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
AAATAATATAATATAA
Found at i:53882 original size:15 final size:15
Alignment explanation
Indices: 53839--53885 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
53829 TTAATATTTT
53839 TATAA-ATATAAAA-
1 TATAATATATAAAAC
* * *
53852 TATATTAAATATAAC
1 TATAATATATAAAAC
53867 TATAATATATAAAAC
1 TATAATATATAAAAC
53882 TATA
1 TATA
53886 TAATCATGAT
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
13 4 0.15
14 6 0.23
15 16 0.62
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAATATATAAAAC
Found at i:54417 original size:13 final size:14
Alignment explanation
Indices: 54386--54419 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
54376 TTCAGATTAT
54386 TTAAATTTAAAATA
1 TTAAATTTAAAATA
*
54400 TTAAATTTTAAA-A
1 TTAAATTTAAAATA
54413 TTAAATT
1 TTAAATT
54420 AACTTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (14 bp):
TTAAATTTAAAATA
Found at i:55924 original size:21 final size:21
Alignment explanation
Indices: 55898--55953 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 21
55888 AAAAATATCT
**
55898 TTGGATGAAATGATACATTGG
1 TTGGATGAAAAAATACATTGG
* **
55919 TTGGATAAAAAAATACATTTT
1 TTGGATGAAAAAATACATTGG
55940 TTGGATGAAAAAAT
1 TTGGATGAAAAAAT
55954 GTAACTTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.43, C:0.04, G:0.20, T:0.34
Consensus pattern (21 bp):
TTGGATGAAAAAATACATTGG
Found at i:56537 original size:19 final size:20
Alignment explanation
Indices: 56501--56538 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
56491 AATTAAAAAT
*
56501 AATAAAAAATATATATTAAA
1 AATAAAAAATATAAATTAAA
56521 AATAAAAAAT-TAAATTAA
1 AATAAAAAATATAAATTAA
56539 GCTCTCAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (20 bp):
AATAAAAAATATAAATTAAA
Found at i:57043 original size:7 final size:7
Alignment explanation
Indices: 57033--57080 Score: 60
Period size: 7 Copynumber: 6.4 Consensus size: 7
57023 ATTAATTATT
57033 TTTAAAA
1 TTTAAAA
*
57040 TTTAATA
1 TTTAAAA
57047 TTTAATAAA
1 TTT-A-AAA
57056 TTTAAAA
1 TTTAAAA
57063 TTTAAATA
1 TTTAAA-A
57071 TTTAAAA
1 TTTAAAA
57078 TTT
1 TTT
57081 TTTTTATTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
7 22 0.61
8 9 0.25
9 5 0.14
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
TTTAAAA
Found at i:57056 original size:16 final size:15
Alignment explanation
Indices: 57036--57080 Score: 63
Period size: 16 Copynumber: 2.9 Consensus size: 15
57026 AATTATTTTT
*
57036 AAAATTTAATATTTA
1 AAAATTTAAAATTTA
57051 ATAAATTTAAAATTTA
1 A-AAATTTAAAATTTA
*
57067 AATATTTAAAATTT
1 AAAATTTAAAATTT
57081 TTTTTATTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
15 13 0.48
16 14 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAAATTTAAAATTTA
Found at i:57950 original size:2 final size:2
Alignment explanation
Indices: 57943--57992 Score: 50
Period size: 2 Copynumber: 25.5 Consensus size: 2
57933 ATAATTTTAG
* * *
57943 TA TA TA TA -A TG TA TA TA AA TA TA TA TA TA TA TA AA CTA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA
57985 TA TA -A TA T
1 TA TA TA TA T
57993 TAGTATGAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
1 2 0.05
2 36 0.92
3 1 0.03
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (2 bp):
TA
Found at i:57952 original size:24 final size:23
Alignment explanation
Indices: 57925--57973 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
57915 TATAATTTAT
* *
57925 TAATGAATATAATTTTAGTATATA
1 TAATGAATATAAATATA-TATATA
*
57949 TAATGTATATAAATATATATATA
1 TAATGAATATAAATATATATATA
57972 TA
1 TA
57974 TAAACTATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 8 0.36
24 14 0.64
ACGTcount: A:0.49, C:0.00, G:0.06, T:0.45
Consensus pattern (23 bp):
TAATGAATATAAATATATATATA
Found at i:57982 original size:25 final size:24
Alignment explanation
Indices: 57943--57992 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
57933 ATAATTTTAG
**
57943 TATATATAATGTATATAAATATATA
1 TATATATAAACTATATAAATA-ATA
*
57968 TATATATAAACTATATATATAATA
1 TATATATAAACTATATAAATAATA
57992 T
1 T
57993 TAGTATGAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 4 0.18
25 18 0.82
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (24 bp):
TATATATAAACTATATAAATAATA
Found at i:65544 original size:20 final size:20
Alignment explanation
Indices: 65519--65559 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
65509 AACTTCAGTA
*
65519 AGTAGTTTGCTTAAATAAAT
1 AGTAGTTTGCTTAAACAAAT
65539 AGTAGTTTGCTTAAACAAAT
1 AGTAGTTTGCTTAAACAAAT
65559 A
1 A
65560 CAATTTGACC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (20 bp):
AGTAGTTTGCTTAAACAAAT
Found at i:69047 original size:22 final size:23
Alignment explanation
Indices: 69022--69067 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
69012 AATATATATT
69022 ATTTTATTAATT-TTA-TACATAA
1 ATTTT-TTAATTATTATTACATAA
*
69044 ATTTTTTTATTATTATTACATAA
1 ATTTTTTAATTATTATTACATAA
69067 A
1 A
69068 ATAATTTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
21 5 0.24
22 8 0.38
23 8 0.38
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (23 bp):
ATTTTTTAATTATTATTACATAA
Found at i:69103 original size:19 final size:21
Alignment explanation
Indices: 69076--69114 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
69066 AAATAATTTT
69076 TTATAATAAT-TTA-TATATA
1 TTATAATAATATTAGTATATA
*
69095 TTATTATAATATTAGTATAT
1 TTATAATAATATTAGTATAT
69115 TTTTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 3 0.18
21 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (21 bp):
TTATAATAATATTAGTATATA
Found at i:69229 original size:13 final size:13
Alignment explanation
Indices: 69183--69252 Score: 58
Period size: 13 Copynumber: 5.5 Consensus size: 13
69173 ATATGTATCT
69183 TTTTATTTATT--
1 TTTTATTTATTAA
69194 TTTTATTT-TTACA
1 TTTTATTTATTA-A
*
69207 TATTATTTTATTAA
1 TTTTA-TTTATTAA
*
69221 TTTTATTTATAAAA
1 TTTTATTTAT-TAA
*
69235 TTTT-TTTATTAT
1 TTTTATTTATTAA
69247 TTTTAT
1 TTTTAT
69253 GTAGAATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 12
0.73 0.08 0.19
Matches are distributed among these distances:
10 2 0.04
11 8 0.17
12 5 0.11
13 15 0.32
14 14 0.30
15 3 0.06
ACGTcount: A:0.27, C:0.01, G:0.00, T:0.71
Consensus pattern (13 bp):
TTTTATTTATTAA
Found at i:69250 original size:26 final size:26
Alignment explanation
Indices: 69182--69267 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
69172 AATATGTATC
* *
69182 TTTTTATTTATTTTTTATTTTTACATATT
1 TTTTTA-TTA-TTTTTATTTATA-AAATT
* *
69211 ATTTTATTAATTTTATTTATAAAATT
1 TTTTTATTATTTTTATTTATAAAATT
* *
69237 TTTTTATTATTTTTATGTAGAATAATT
1 TTTTTATTATTTTTATTTATAA-AATT
69264 TTTT
1 TTTT
69268 ATTTATATAA
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
26 22 0.46
27 18 0.38
28 3 0.06
29 5 0.10
ACGTcount: A:0.28, C:0.01, G:0.02, T:0.69
Consensus pattern (26 bp):
TTTTTATTATTTTTATTTATAAAATT
Found at i:69311 original size:20 final size:20
Alignment explanation
Indices: 69267--69324 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
69257 AATAATTTTT
69267 TATTTATATAA-AT-TTAATA
1 TATTTA-ATAATATATTAATA
69286 TA--TAATAATATATTAATA
1 TATTTAATAATATATTAATA
* *
69304 TATTTAATATTATATTTATA
1 TATTTAATAATATATTAATA
69324 T
1 T
69325 TAATTATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
16 4 0.12
17 4 0.12
18 8 0.24
19 2 0.06
20 15 0.45
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
TATTTAATAATATATTAATA
Found at i:69332 original size:18 final size:17
Alignment explanation
Indices: 69278--69342 Score: 51
Period size: 20 Copynumber: 3.5 Consensus size: 17
69268 ATTTATATAA
*
69278 ATTTAATATATAATAATAT
1 ATTT-ATAT-TAATATTAT
69297 ATTAATATATTTAATATTAT
1 ATT--TATA-TTAATATTAT
*
69317 ATTTATATTAATTATTTT
1 ATTTATATTAA-TATTAT
69335 ATTT-TATT
1 ATTTATATT
69343 TTTATTTCAT
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
17 8 0.20
18 13 0.32
19 3 0.08
20 14 0.35
21 2 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTATATTAATATTAT
Found at i:69364 original size:23 final size:25
Alignment explanation
Indices: 69294--69364 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
69284 TATATAATAA
* *
69294 TATATTAATATATTTAATATTATATT
1 TATATTAAT-TATTTTATCTTATATT
* *
69320 TATATTAATTATTTTATTTTATTTT
1 TATATTAATTATTTTATCTTATATT
*
69345 TAT-TTCATT-TTTTATCTTAT
1 TATATTAATTATTTTATCTTAT
69365 CCATGTGCAG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
23 10 0.25
24 5 0.12
25 16 0.40
26 9 0.22
ACGTcount: A:0.31, C:0.03, G:0.00, T:0.66
Consensus pattern (25 bp):
TATATTAATTATTTTATCTTATATT
Found at i:69544 original size:22 final size:22
Alignment explanation
Indices: 69513--69572 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
69503 TTATTTTTAA
*
69513 TAATAAAAAAATTATTTAGAT-T
1 TAAT-AAAAAATTATTTAAATAT
*
69535 TAATATAAAAATT-TATAAATAT
1 TAATA-AAAAATTATTTAAATAT
*
69557 TAATAAAAATTTATTT
1 TAATAAAAAATTATTT
69573 TTTAAAATAA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
21 12 0.39
22 19 0.61
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
TAATAAAAAATTATTTAAATAT
Found at i:70022 original size:18 final size:18
Alignment explanation
Indices: 69991--70039 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
69981 TAATCGGGTG
69991 ATTTATTAAAAAATATTAA
1 ATTTATTAAAAAAT-TTAA
*
70010 ATTT-TTAATAAATTT-A
1 ATTTATTAAAAAATTTAA
70026 A-TTATATAAAAAAT
1 ATTTAT-TAAAAAAT
70040 AACTTATATT
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
15 2 0.08
16 3 0.12
17 9 0.35
18 8 0.31
19 4 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATTTATTAAAAAATTTAA
Found at i:70039 original size:17 final size:18
Alignment explanation
Indices: 69993--70040 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
69983 ATCGGGTGAT
69993 TTATTAAAAAATATTAAA
1 TTATTAAAAAATATTAAA
* *
70011 TTTTTAATAAAT-TT-AA
1 TTATTAAAAAATATTAAA
70027 TTATATAAAAAATA
1 TTAT-TAAAAAATA
70041 ACTTATATTT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
16 5 0.21
17 9 0.38
18 10 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTATTAAAAAATATTAAA
Found at i:70303 original size:22 final size:22
Alignment explanation
Indices: 70255--70315 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 22
70245 CCCGAATAAG
*
70255 ATATTTTAT--TATAA-AATTT
1 ATATTTTATAATATAATTATTT
70274 ATATTTTTATAATATAATTATTT
1 ATA-TTTTATAATATAATTATTT
*
70297 ATATTTTATAAAATAATTA
1 ATATTTTATAATATAATTA
70316 AAATTTTATT
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
19 3 0.08
20 6 0.17
22 20 0.56
23 7 0.19
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (22 bp):
ATATTTTATAATATAATTATTT
Found at i:70325 original size:24 final size:25
Alignment explanation
Indices: 70266--70329 Score: 82
Period size: 22 Copynumber: 2.7 Consensus size: 25
70256 TATTTTATTA
*
70266 TAAAATTTATATTTTTATAATATAAT
1 TAAAATTTATA-TTTTATAAAATAAT
70292 T---ATTTATATTTTATAAAATAAT
1 TAAAATTTATATTTTATAAAATAAT
70314 TAAAATTT-TATTTTAT
1 TAAAATTTATATTTTAT
70330 TAGTTATTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
22 14 0.41
23 7 0.21
24 8 0.24
25 4 0.12
26 1 0.03
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (25 bp):
TAAAATTTATATTTTATAAAATAAT
Found at i:71195 original size:28 final size:26
Alignment explanation
Indices: 71121--71175 Score: 67
Period size: 26 Copynumber: 2.1 Consensus size: 26
71111 TATTTTTAAA
* * *
71121 TAAAAAAAATAATGA-AGTAATTTTTT
1 TAAAAAAATTAATTACA-TAATTTTGT
71147 TAAAAAAATTAATTACATAATTTTGT
1 TAAAAAAATTAATTACATAATTTTGT
71173 TAA
1 TAA
71176 TATAATATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 24 0.96
27 1 0.04
ACGTcount: A:0.53, C:0.02, G:0.05, T:0.40
Consensus pattern (26 bp):
TAAAAAAATTAATTACATAATTTTGT
Found at i:71316 original size:13 final size:13
Alignment explanation
Indices: 71298--71327 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
71288 TTAATTTAAC
71298 TTATTTATATTAT
1 TTATTTATATTAT
*
71311 TTATTTTTATTAT
1 TTATTTATATTAT
71324 TTAT
1 TTAT
71328 AATTAATAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTATTTATATTAT
Found at i:72068 original size:20 final size:20
Alignment explanation
Indices: 72043--72084 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
72033 ATATTAAAAA
72043 AATATTTTATA-TTAATATTT
1 AATATTTTATAGTTAA-ATTT
72063 AATATTTTATAGTTAAATTT
1 AATATTTTATAGTTAAATTT
72083 AA
1 AA
72085 ATAAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (20 bp):
AATATTTTATAGTTAAATTT
Found at i:75075 original size:2 final size:2
Alignment explanation
Indices: 75068--75119 Score: 68
Period size: 2 Copynumber: 26.0 Consensus size: 2
75058 GGTTGGAAAC
* * * *
75068 AT AT AT AT AT AT AT AT AT AT GT GT GT GT 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
75110 AT AT AT AT AT
1 AT AT AT AT AT
75120 GCACTAATGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 48 1.00
ACGTcount: A:0.42, C:0.00, G:0.08, T:0.50
Consensus pattern (2 bp):
AT
Found at i:75695 original size:2 final size:2
Alignment explanation
Indices: 75690--75717 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
75680 AAGCAAAAAG
75690 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
75718 ATAAGTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:78652 original size:2 final size:2
Alignment explanation
Indices: 78647--78679 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
78637 ATATATATAT
78647 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
78680 TATATATATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:80780 original size:2 final size:2
Alignment explanation
Indices: 80773--80816 Score: 70
Period size: 2 Copynumber: 22.0 Consensus size: 2
80763 TTTGAAGGAC
* *
80773 AT AT AT AT AT AT AT AT AT AT AT AT AC AC 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
80815 AT
1 AT
80817 GCTGAGGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:80849 original size:2 final size:2
Alignment explanation
Indices: 80842--80884 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
80832 TTCATTTTAA
80842 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
80884 A
1 A
80885 CATACTTGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:81497 original size:2 final size:2
Alignment explanation
Indices: 81490--81523 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
81480 TGGTTTTTAA
81490 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
81524 GTCAATGCAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85564 original size:17 final size:17
Alignment explanation
Indices: 85526--85562 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
85516 TATTATAAAA
*
85526 AAATATATTTAAAATTT
1 AAATATATTTAAAAATT
85543 AAATATATTTAAATAATT
1 AAATATATTTAAA-AATT
85561 AA
1 AA
85563 TACAAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
AAATATATTTAAAAATT
Found at i:85977 original size:20 final size:19
Alignment explanation
Indices: 85952--85989 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 19
85942 TCATTATTAT
85952 ATAATAAAAATAATTTAAAG
1 ATAATAAAAAT-ATTTAAAG
*
85972 ATAATATAAATATTTAAA
1 ATAATAAAAATATTTAAA
85990 TTAATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
ATAATAAAAATATTTAAAG
Found at i:85996 original size:18 final size:19
Alignment explanation
Indices: 85952--86002 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
85942 TCATTATTAT
*
85952 ATAATAAAAATAATTTAAAG
1 ATAATATAAAT-ATTTAAAG
85972 ATAATATAAATATTTAAA-
1 ATAATATAAATATTTAAAG
* *
85990 TTAATATATATAT
1 ATAATATAAATAT
86003 ATATATATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 11 0.39
19 7 0.25
20 10 0.36
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
ATAATATAAATATTTAAAG
Found at i:87399 original size:13 final size:13
Alignment explanation
Indices: 87381--87435 Score: 58
Period size: 13 Copynumber: 4.0 Consensus size: 13
87371 ATTTTAAATA
87381 TAAAATAATTATAT
1 TAAAA-AATTATAT
*
87395 TAAATAATTATAT
1 TAAAAAATTATAT
87408 TGAGAGAAAATTA-AT
1 T-A-A-AAAATTATAT
87423 TAAAAAATTATAT
1 TAAAAAATTATAT
87436 GATTATACGA
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
12 7 0.20
13 12 0.34
14 6 0.17
15 4 0.11
16 6 0.17
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (13 bp):
TAAAAAATTATAT
Found at i:90357 original size:19 final size:19
Alignment explanation
Indices: 90321--90358 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
90311 ATAATTTTAA
* *
90321 AAAATAAATTTATTTTTTT
1 AAAATAAATTGATATTTTT
90340 AAAATAAATTGATATTTTT
1 AAAATAAATTGATATTTTT
90359 GTTATTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (19 bp):
AAAATAAATTGATATTTTT
Found at i:90366 original size:26 final size:23
Alignment explanation
Indices: 90328--90391 Score: 69
Period size: 24 Copynumber: 2.7 Consensus size: 23
90318 TAAAAAATAA
90328 ATTTATTTTTTTAAAATAAATTGAT-
1 ATTT-TTTTTTTAAAAT-AATTG-TG
90353 ATTTTTGTTATTT-AAATAATTGTG
1 ATTTTT-TT-TTTAAAATAATTGTG
90377 ATTTTTTTTTTAAAA
1 ATTTTTTTTTTAAAA
90392 GGGAACTAGC
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
22 3 0.09
23 6 0.17
24 13 0.37
25 10 0.29
26 3 0.09
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.59
Consensus pattern (23 bp):
ATTTTTTTTTTAAAATAATTGTG
Found at i:91393 original size:2 final size:2
Alignment explanation
Indices: 91386--91423 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
91376 TGCTTGAACG
*
91386 AT AT AT AT AT AT GT 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
91424 TAGGGGAATA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:92325 original size:3 final size:3
Alignment explanation
Indices: 92317--92370 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
92307 TTTAATTTTA
92317 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
92365 TAT TAT
1 TAT TAT
92371 ATATCACCAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:92650 original size:2 final size:2
Alignment explanation
Indices: 92643--92676 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
92633 ATTATTCAAA
92643 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
92677 CCTTGAAATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:93798 original size:3 final size:3
Alignment explanation
Indices: 93790--93842 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
93780 AAAAGGTTAC
93790 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
93838 TTA TT
1 TTA TT
93843 TGCCTTGCAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:94429 original size:2 final size:2
Alignment explanation
Indices: 94422--94453 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
94412 TTAGCCTTTA
94422 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
94454 TAGTGGTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:95230 original size:3 final size:3
Alignment explanation
Indices: 95222--95250 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
95212 AAAACGTTAC
95222 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
95251 TGCATGCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:97090 original size:2 final size:2
Alignment explanation
Indices: 97083--97108 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
97073 TCATATTTTA
97083 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
97109 TCAAAGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:97369 original size:17 final size:18
Alignment explanation
Indices: 97327--97371 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
97317 ATATAAAATT
*
97327 ATAAATCTATTTACTTTAA
1 ATAAAACTATTTAC-TTAA
97346 A-AAAACTATTTA-TTAA
1 ATAAAACTATTTACTTAA
97362 ATAAAACTAT
1 ATAAAACTAT
97372 CCATTTAATA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 5 0.21
17 8 0.33
18 10 0.42
19 1 0.04
ACGTcount: A:0.51, C:0.09, G:0.00, T:0.40
Consensus pattern (18 bp):
ATAAAACTATTTACTTAA
Found at i:97381 original size:17 final size:17
Alignment explanation
Indices: 97341--97383 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
97331 ATCTATTTAC
* **
97341 TTTAAAAAAACTATTTA
1 TTTAATAAAACTATCCA
*
97358 TTAAATAAAACTATCCA
1 TTTAATAAAACTATCCA
97375 TTTAATAAA
1 TTTAATAAA
97384 CATAAAATTC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.37
Consensus pattern (17 bp):
TTTAATAAAACTATCCA
Found at i:97770 original size:19 final size:19
Alignment explanation
Indices: 97742--97780 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
97732 TTTTACATTT
97742 TAATTATTTAA-ATTGTAAA
1 TAATTATTTAATATT-TAAA
*
97761 TAATTTTTTAATATTTAAA
1 TAATTATTTAATATTTAAA
97780 T
1 T
97781 TTTTTTTCAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (19 bp):
TAATTATTTAATATTTAAA
Found at i:99701 original size:20 final size:20
Alignment explanation
Indices: 99671--99719 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
99661 CTATATTTAA
99671 TATTT-TTTAATATTAAAAT
1 TATTTATTTAATATTAAAAT
*
99690 TATTTATTTAATATTTAAAT
1 TATTTATTTAATATTAAAAT
*
99710 T-TTTAATTAA
1 TATTTATTTAA
99720 ATAATTCAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 13 0.48
20 14 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
TATTTATTTAATATTAAAAT
Found at i:100513 original size:21 final size:22
Alignment explanation
Indices: 100475--100534 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 22
100465 CTTAATAATA
*
100475 ATAAAAAAATTATTTATATTTATT
1 ATAAAAAAATTA-TTATA-TTAGT
100499 ATAAAAAAA-TA-TATATTAGT
1 ATAAAAAAATTATTATATTAGT
100519 ATAAAAATAATT-TTAT
1 ATAAAAA-AATTATTAT
100535 TTTTTATTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
20 11 0.34
21 6 0.19
22 4 0.12
23 2 0.06
24 9 0.28
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (22 bp):
ATAAAAAAATTATTATATTAGT
Found at i:100515 original size:17 final size:18
Alignment explanation
Indices: 100490--100527 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
100480 AAAATTATTT
*
100490 ATATTTATTA-TAAAAAA
1 ATATATATTAGTAAAAAA
*
100507 ATATATATTAGTATAAAA
1 ATATATATTAGTAAAAAA
100525 ATA
1 ATA
100528 ATTTTATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.58, C:0.00, G:0.03, T:0.39
Consensus pattern (18 bp):
ATATATATTAGTAAAAAA
Found at i:104778 original size:24 final size:24
Alignment explanation
Indices: 104745--104840 Score: 63
Period size: 24 Copynumber: 3.9 Consensus size: 24
104735 AACAGTTTAT
104745 TTATTATTTAAATAATA-TTAAAAA
1 TTATTATTT-AATAATATTTAAAAA
* * *
104769 TTATTTTTTATTAATATTTATAAA
1 TTATTATTTAATAATATTTAAAAA
* * *
104793 TTATAATTAAATTTAA-A-TAAAAAA
1 TTATTATTTAA--TAATATTTAAAAA
*
104817 TTCATTATTAAATAATAATTTAAA
1 TT-ATTATTTAATAAT-ATTTAAA
104841 TCGAAACAAA
Statistics
Matches: 54, Mismatches: 11, Indels: 12
0.70 0.14 0.16
Matches are distributed among these distances:
23 9 0.17
24 28 0.52
25 10 0.19
26 7 0.13
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (24 bp):
TTATTATTTAATAATATTTAAAAA
Found at i:105577 original size:21 final size:22
Alignment explanation
Indices: 105539--105584 Score: 58
Period size: 21 Copynumber: 2.1 Consensus size: 22
105529 ATCTGTTGAA
* **
105539 ACTCCACCTGTTTTGGAGTA-T
1 ACTCCACCTGCTGCGGAGTACT
105560 ACTCCACCTGCTGCGGAGTACT
1 ACTCCACCTGCTGCGGAGTACT
105582 ACT
1 ACT
105585 TGTCTGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.20, C:0.30, G:0.20, T:0.30
Consensus pattern (22 bp):
ACTCCACCTGCTGCGGAGTACT
Found at i:109431 original size:11 final size:11
Alignment explanation
Indices: 109415--109455 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
109405 TTTCATATTT
109415 TTTTTTCTTTC
1 TTTTTTCTTTC
109426 TTTTTTCTTCATC
1 TTTTTTCTT--TC
*
109439 TTCTTTCTTTC
1 TTTTTTCTTTC
109450 TTTTTT
1 TTTTTT
109456 ACCTAAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
11 16 0.62
13 10 0.38
ACGTcount: A:0.02, C:0.20, G:0.00, T:0.78
Consensus pattern (11 bp):
TTTTTTCTTTC
Found at i:109469 original size:24 final size:22
Alignment explanation
Indices: 109415--109469 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 22
109405 TTTCATATTT
**
109415 TTTTTTCTTTCTTTTTTCTTCA
1 TTTTTTCTTTCTTTTTTCTAAA
109437 TCTTCTTTCTTTCTTTTTTACCTAAA
1 T-TT-TTTCTTTCTTTTTT--CTAAA
109463 TTTTTTC
1 TTTTTTC
109470 AACCCATAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
22 1 0.04
23 2 0.07
24 18 0.67
25 2 0.07
26 4 0.15
ACGTcount: A:0.09, C:0.20, G:0.00, T:0.71
Consensus pattern (22 bp):
TTTTTTCTTTCTTTTTTCTAAA
Found at i:109837 original size:24 final size:23
Alignment explanation
Indices: 109810--109856 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
109800 CCACTCAATC
109810 GGAAAACCCACTTTGGTTTTTTTT
1 GGAAAACCC-CTTTGGTTTTTTTT
* **
109834 GGAAAGCCCCTTTTTTTTTTTTT
1 GGAAAACCCCTTTGGTTTTTTTT
109857 TTTTTTTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.17, C:0.17, G:0.15, T:0.51
Consensus pattern (23 bp):
GGAAAACCCCTTTGGTTTTTTTT
Found at i:109848 original size:1 final size:1
Alignment explanation
Indices: 109844--109869 Score: 52
Period size: 1 Copynumber: 26.0 Consensus size: 1
109834 GGAAAGCCCC
109844 TTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTT
109870 CGATCCCTCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 25 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:110667 original size:45 final size:48
Alignment explanation
Indices: 110566--110671 Score: 128
Period size: 45 Copynumber: 2.2 Consensus size: 48
110556 AATGTGCCAT
* *
110566 TTCAAGGTCAGCGACATCGGGCTAAGGGAAAAGTGGACCAATGTGCTGA
1 TTCAAGGCCAGCGACATCGGGCTAA-GGAAAAGTGGACCAATATGCTGA
* * * *
110615 CTCAAGGCCAGCGACATTGGGCTTA-GAAAGGT-G-CCAATATGCTGA
1 TTCAAGGCCAGCGACATCGGGCTAAGGAAAAGTGGACCAATATGCTGA
110660 TTCAAGGCCAGC
1 TTCAAGGCCAGC
110672 AATATCGGAC
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
45 22 0.44
46 1 0.02
47 6 0.12
49 21 0.42
ACGTcount: A:0.29, C:0.22, G:0.30, T:0.19
Consensus pattern (48 bp):
TTCAAGGCCAGCGACATCGGGCTAAGGAAAAGTGGACCAATATGCTGA
Found at i:110760 original size:32 final size:32
Alignment explanation
Indices: 110704--111687 Score: 1327
Period size: 32 Copynumber: 31.8 Consensus size: 32
110694 AAAATGGTGA
* ** **
110704 TTTGAAAAGGGTTGCCACTAACTTGCATGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
110736 TTTTAAATGGGTTGCCCCCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
110768 TTTGAAAAGGGTCGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
110800 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
110832 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
110864 TTTGAAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
110896 TTTGAAATGGG-TGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
110927 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
110959 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
110991 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
111023 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * **
111055 TTTGGAAT--GATGCCACTAAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
111083 TTTGAAATGGATTGCCACCGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
111113 TTTGAAA--GGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
111141 TTTGAAA--GGATGCCACCAACTTGTGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
111171 TTTGAAA--AGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
111199 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
111231 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
111263 TTTGGAATGGGTTGCCACCGACTTATGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
111295 TTTGAAATGGG-TGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
111326 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
*
111358 TTTGGAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
111390 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
111422 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * **
111454 TTTGGAAT--GATGCCACTAAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
111482 TTTGAAATAGATTGCCACCGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* *
111512 TTTGAAA--GGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
111540 TTTGAAA--GGATGCCACCAACTTGTGTGGAC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
111570 TTTGAAA--AGATGCCACTGAC-T-TGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
111598 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
111630 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
1 TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
* * *
111662 TTTGGAATGGG-TGCCACAGAGTTGTG
1 TTTGAAATGGGTTGCCACCGACTTGTG
111688 GATTTAAAAG
Statistics
Matches: 864, Mismatches: 70, Indels: 37
0.89 0.07 0.04
Matches are distributed among these distances:
28 126 0.15
29 6 0.01
30 130 0.15
31 75 0.09
32 527 0.61
ACGTcount: A:0.18, C:0.19, G:0.33, T:0.30
Consensus pattern (32 bp):
TTTGAAATGGGTTGCCACCGACTTGTGTGGGC
Found at i:111531 original size:399 final size:398
Alignment explanation
Indices: 110793--111678 Score: 1729
Period size: 399 Copynumber: 2.2 Consensus size: 398
110783 CACCGACTTG
110793 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
*
110858 GTGGGCTTTGAAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGACTTGTGT
66 GTGGGCTTTGGAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGACTTGTGT
110923 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTG
131 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTG
110988 GGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGG
196 GGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAT-GGTTGCCACCGACTTGTGTGG
*
111053 GCTTTGGAATGATGCCACTAACTTGTGGGCTTTGAAATGGATTGCCACCGACTTGTGGGCTTTGA
260 GCTTTGGAATGATGCCACTAACTTGTGGGCTTTGAAATAGATTGCCACCGACTTGTGGGCTTTGA
111118 AAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGTGGACTTTGAAAAGATG
325 AAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGTGGACTTTGAAAAGATG
111183 CCACTGACT
390 CCACTGACT
111192 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
111257 GTGGGCTTTGGAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGACTTGTGT
66 GTGGGCTTTGGAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGACTTGTGT
111322 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTG
131 GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTG
111387 GGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGG
196 GGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAAT-GGTTGCCACCGACTTGTGTGG
111452 GCTTTGGAATGATGCCACTAACTTGTGGGCTTTGAAATAGATTGCCACCGACTTGTGGGCTTTGA
260 GCTTTGGAATGATGCCACTAACTTGTGGGCTTTGAAATAGATTGCCACCGACTTGTGGGCTTTGA
111517 AAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGTGGACTTTGAAAAGATG
325 AAGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGTGGACTTTGAAAAGATG
111582 CCACTGACT
390 CCACTGACT
111591 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
1 TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
111656 GTGGGCTTTGGAATGGG-TGCCAC
66 GTGGGCTTTGGAATGGGTTGCCAC
111679 AGAGTTGTGG
Statistics
Matches: 485, Mismatches: 2, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
398 6 0.01
399 479 0.99
ACGTcount: A:0.18, C:0.19, G:0.33, T:0.30
Consensus pattern (398 bp):
TGTGGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGGTTGCCACCGACTTGT
GTGGGCTTTGGAATGGGTTGCCACCGACTTATGTGGGCTTTGAAATGGGTGCCACCGACTTGTGT
GGGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGGAATGGGTTGCCACCGACTTGTGTG
GGCTTTGAAATGGGTTGCCACCGACTTGTGTGGGCTTTGAAATGGTTGCCACCGACTTGTGTGGG
CTTTGGAATGATGCCACTAACTTGTGGGCTTTGAAATAGATTGCCACCGACTTGTGGGCTTTGAA
AGGATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACCAACTTGTGTGGACTTTGAAAAGATGC
CACTGACT
Found at i:111704 original size:27 final size:27
Alignment explanation
Indices: 111670--112516 Score: 1424
Period size: 27 Copynumber: 31.0 Consensus size: 27
111660 GCTTTGGAAT
* *
111670 GGGTGCCACAGAGTTGTGGATTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
111697 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
111724 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
111751 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
111778 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
*
111806 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
111833 GAGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
111860 GGGTGCCACGGAGTTGTGGACCTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
111887 GGGTGCCACGGAGTTGTGAACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
111914 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
111942 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
111969 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
111996 GGGATGCCACGGAGTTGTGAACTTCAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
112024 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
112052 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
112079 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
112106 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
* *
112134 GGATGCCACGGAGCTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
112161 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
112189 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
112216 GGGGGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
112243 GGGATGCCACGGAGTTGTGGACTTAAAA
1 GGG-TGCCACGGAGTTGTGGACTTAAAA
*
112271 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
112298 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
112325 GGGTGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
112352 GGGGGCCACGGAGTTGTGGACTTAAAAA
1 GGGTGCCACGGAGTTGTGGACTT-AAAA
*
112380 GGATGCCACGGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
*
112407 GGGTGCCACAGAGTTGTGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
** *
112434 GAATGCCACGGAGTTGTGGACTTGAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
* *
112461 GGGTGCCACGAAGTTGGGGACTTAAAA
1 GGGTGCCACGGAGTTGTGGACTTAAAA
112488 GGGTGCCACGGAGTTGTGGACTTTAAAA
1 GGGTGCCACGGAGTTGTGGAC-TTAAAA
112516 G
1 G
112517 AAAATGTGAA
Statistics
Matches: 772, Mismatches: 40, Indels: 15
0.93 0.05 0.02
Matches are distributed among these distances:
27 560 0.73
28 212 0.27
ACGTcount: A:0.28, C:0.15, G:0.36, T:0.22
Consensus pattern (27 bp):
GGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:111840 original size:82 final size:81
Alignment explanation
Indices: 111670--112516 Score: 1424
Period size: 82 Copynumber: 10.3 Consensus size: 81
111660 GCTTTGGAAT
* * *
111670 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
111735 AGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAA
*
111751 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACG
111816 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
111833 GAGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACCTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
111898 AGTTGTGAACTTAAAA
66 AGTTGTGGACTTAAAA
111914 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
111979 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
111996 GGGATGCCACGGAGTTGTGAACTTCAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
112061 GGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAA
*
112079 GGGTGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
112144 GAGCTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
112161 GGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGGGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
112226 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
*
112243 GGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
112308 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* *
112325 GGGTGCCACGGAGTTGTGGACTTAAAAGGGGGCCACGGAGTTGTGGACTTAAAAAGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACG
112390 GAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAA
* ** * *
112407 GGGTGCCACAGAGTTGTGGACTTAAAAGAATGCCACGGAGTTGTGGACTTGAAAGGGTGCCACGA
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
*
112472 AGTTGGGGACTTAAAA
66 AGTTGTGGACTTAAAA
112488 GGGTGCCACGGAGTTGTGGACTTTAAAAG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAG
112517 AAAATGTGAA
Statistics
Matches: 726, Mismatches: 34, Indels: 11
0.94 0.04 0.01
Matches are distributed among these distances:
81 169 0.23
82 476 0.66
83 81 0.11
ACGTcount: A:0.28, C:0.15, G:0.36, T:0.22
Consensus pattern (81 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAA
Found at i:111860 original size:109 final size:108
Alignment explanation
Indices: 111670--112516 Score: 1424
Period size: 109 Copynumber: 7.8 Consensus size: 108
111660 GCTTTGGAAT
* * *
111670 GGGTGCCACAGAGTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
111735 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
66 AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
111778 GGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAAGAGTGCCACG
1 GGGTGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
*
111843 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACCTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
*
111887 GGGTGCCACGGAGTTGTGAACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
111952 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
111996 GGGATGCCACGGAGTTGTGAACTTCAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCAC
112061 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
112106 GGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACGGAGCTGTGGACTTAAAAGGGATGCCAC
1 GGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCAC
112171 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
64 GGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
112216 GGGGGCCACGGAGTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGG-TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACG
112281 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
* *
112325 GGGTGCCACGGAGTTGTGGACTTAAAAGGGGGCCACGGAGTTGTGGACTTAAAAAGGATGCCACG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTT-AAAAGGGTGCCACG
*
112390 GAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAAAA
65 GAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
** * * *
112434 GAATGCCACGGAGTTGTGGACTTGAAAGGGTGCCACGAAGTTGGGGACTTAAAAGGGTGCCACGG
1 GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
112499 AGTTGTGGACTTTAAAAG
66 AGTTGTGGAC-TTAAAAG
112517 AAAATGTGAA
Statistics
Matches: 703, Mismatches: 29, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
108 71 0.10
109 420 0.60
110 212 0.30
ACGTcount: A:0.28, C:0.15, G:0.36, T:0.22
Consensus pattern (108 bp):
GGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGG
AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAA
Found at i:112547 original size:46 final size:46
Alignment explanation
Indices: 112480--112568 Score: 169
Period size: 46 Copynumber: 1.9 Consensus size: 46
112470 GAAGTTGGGG
*
112480 ACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGAAAATGTGA
1 ACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGAAAATGTGA
112526 ACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGAAAATG
1 ACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGAAAATG
112569 CCACTGAGTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 42 1.00
ACGTcount: A:0.38, C:0.11, G:0.27, T:0.24
Consensus pattern (46 bp):
ACTTAAAAGGATGCCACGGAGTTGTGGACTTTAAAAGAAAATGTGA
Found at i:112572 original size:30 final size:31
Alignment explanation
Indices: 112536--112593 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 31
112526 ACTTAAAAGG
*
112536 ATGCCACGGAGTTGTGGACTTT-AAAAGAAA
1 ATGCCACGGAGTCGTGGACTTTGAAAAGAAA
*
112566 ATGCCACTGAGTCGTGGACTTTGAAAAG
1 ATGCCACGGAGTCGTGGACTTTGAAAAG
112594 GTCACAGTAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.24
Consensus pattern (31 bp):
ATGCCACGGAGTCGTGGACTTTGAAAAGAAA
Found at i:123373 original size:12 final size:12
Alignment explanation
Indices: 123356--123397 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
123346 ATAATAAAAA
123356 ATATTATTAATT
1 ATATTATTAATT
* *
123368 ATATTA-AAATA
1 ATATTATTAATT
*
123379 ATATTATTGATT
1 ATATTATTAATT
123391 ATATTAT
1 ATATTAT
123398 AATCAAATAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
11 9 0.38
12 15 0.62
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (12 bp):
ATATTATTAATT
Found at i:123385 original size:23 final size:22
Alignment explanation
Indices: 123350--123396 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
123340 TATAAAATAA
123350 TAAAAAATATTATTAATTATAT
1 TAAAAAATATTATTAATTATAT
*
123372 TAAAATAATATTATTGATTATAT
1 TAAAA-AATATTATTAATTATAT
123395 TA
1 TA
123397 TAATCAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (22 bp):
TAAAAAATATTATTAATTATAT
Found at i:123405 original size:28 final size:26
Alignment explanation
Indices: 123329--123409 Score: 74
Period size: 27 Copynumber: 3.0 Consensus size: 26
123319 TAAATTTAAG
* *
123329 TTATTATTAAATATAA-AATAATAAAAA
1 TTATTATTAATTATAATAA-AAT-AATA
* *
123356 ATATTATTAATTATATTAAAATAATA
1 TTATTATTAATTATAATAAAATAATA
*
123382 TTATTGATTATATTATAATCAAATAATA
1 TTATT-ATTA-ATTATAATAAAATAATA
123410 ATAAGTTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
26 7 0.16
27 20 0.45
28 17 0.39
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (26 bp):
TTATTATTAATTATAATAAAATAATA
Found at i:124797 original size:2 final size:2
Alignment explanation
Indices: 124790--124823 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
124780 ACATTAAATA
*
124790 AT AT AT AT AT AA 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
124824 TTGAACAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:124874 original size:21 final size:22
Alignment explanation
Indices: 124830--124881 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 22
124820 ATATTTGAAC
124830 AATTAAAAATATTGTAAAAAAA
1 AATTAAAAATATTGTAAAAAAA
124852 AATTAAAGAAT-TTG-AAAAGAAA
1 AATTAAA-AATATTGTAAAA-AAA
124874 AA-TAAAAA
1 AATTAAAAA
124882 GGGAAAAGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
20 2 0.07
21 8 0.29
22 15 0.54
23 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.08, T:0.23
Consensus pattern (22 bp):
AATTAAAAATATTGTAAAAAAA
Found at i:126563 original size:20 final size:20
Alignment explanation
Indices: 126538--126579 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
126528 ATATATATGA
126538 AATATTACTTATTTTAT-ATT
1 AATATT-CTTATTTTATAATT
*
126558 AATATTTTTATTTTATAATT
1 AATATTCTTATTTTATAATT
126578 AA
1 AA
126580 ATTTAAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (20 bp):
AATATTCTTATTTTATAATT
Found at i:126570 original size:19 final size:19
Alignment explanation
Indices: 126546--126583 Score: 60
Period size: 19 Copynumber: 2.0 Consensus size: 19
126536 GAAATATTAC
126546 TTATTTTAT-ATTAATATTT
1 TTATTTTATAATTAA-ATTT
126565 TTATTTTATAATTAAATTT
1 TTATTTTATAATTAAATTT
126584 AAAAAAATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (19 bp):
TTATTTTATAATTAAATTT
Found at i:127537 original size:27 final size:27
Alignment explanation
Indices: 127507--127577 Score: 108
Period size: 27 Copynumber: 2.6 Consensus size: 27
127497 TGATACAATT
127507 ATATAATATAAAAATAAT-TAAAATATA
1 ATATAATATAAAAATAATAT-AAATATA
127534 ATATAATATAAAAATAATATAAATATA
1 ATATAATATAAAAATAATATAAATATA
*
127561 ATATGAATATATAAATA
1 ATAT-AATATAAAAATA
127578 TTTTTAAGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 29 0.71
28 12 0.29
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (27 bp):
ATATAATATAAAAATAATATAAATATA
Found at i:127550 original size:11 final size:11
Alignment explanation
Indices: 127509--127564 Score: 52
Period size: 11 Copynumber: 5.6 Consensus size: 11
127499 ATACAATTAT
127509 ATAATATAAAA
1 ATAATATAAAA
127520 ATAAT-T---A
1 ATAATATAAAA
*
127527 A-AATAT-AAT
1 ATAATATAAAA
127536 ATAATATAAAA
1 ATAATATAAAA
*
127547 ATAATATAAAT
1 ATAATATAAAA
127558 ATAATAT
1 ATAATAT
127565 GAATATATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 10
0.74 0.06 0.20
Matches are distributed among these distances:
6 3 0.08
7 3 0.08
9 1 0.03
10 6 0.16
11 24 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (11 bp):
ATAATATAAAA
Found at i:127550 original size:16 final size:17
Alignment explanation
Indices: 127487--127571 Score: 68
Period size: 17 Copynumber: 5.0 Consensus size: 17
127477 AAATTTAATT
* * *
127487 ATATTAAATATGATACA
1 ATATAAAATATAATATA
* *
127504 ATTATATAATATAAAAATA
1 A-TATAAAATAT-AATATA
127523 AT-TAAAATATAATATA
1 ATATAAAATATAATATA
127539 ATATAAAA-ATAATATA
1 ATATAAAATATAATATA
*
127555 A-ATATAATATGAATATA
1 ATATAAAATAT-AATATA
127572 TAAATATTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
15 5 0.09
16 18 0.33
17 19 0.35
18 9 0.16
19 4 0.07
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.35
Consensus pattern (17 bp):
ATATAAAATATAATATA
Done.