Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold390
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: 272427
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.36
File 1 of 2
Found at i:2437 original size:18 final size:18
Alignment explanation
Indices: 2414--2474 Score: 74
Period size: 20 Copynumber: 3.4 Consensus size: 18
2404 TTAAAAATTA
2414 ATTAAAATATAATATAAT
1 ATTAAAATATAATATAAT
2432 ATTAAAAATAATAATATAAT
1 ATT-AAAAT-ATAATATAAT
2452 A-TAAAATATAA-AT-AT
1 ATTAAAATATAATATAAT
*
2467 TTTAAAAT
1 ATTAAAAT
2475 TTTAAATAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
15 2 0.05
16 8 0.21
17 4 0.10
18 8 0.21
19 6 0.15
20 11 0.28
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
ATTAAAATATAATATAAT
Found at i:2459 original size:12 final size:12
Alignment explanation
Indices: 2407--2462 Score: 55
Period size: 12 Copynumber: 4.8 Consensus size: 12
2397 TATTTGATTA
2407 AAAAT-TAAT-T
1 AAAATATAATAT
2417 AAAATATAATAT
1 AAAATATAATAT
* *
2429 AATAT-TAAAAAT
1 AAAATAT-AATAT
2441 AATAATATAATAT
1 AA-AATATAATAT
2454 AAAATATAA
1 AAAATATAA
2463 ATATTTTAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 5 0.14
11 5 0.14
12 18 0.49
13 8 0.22
14 1 0.03
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AAAATATAATAT
Found at i:2501 original size:22 final size:23
Alignment explanation
Indices: 2455--2503 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 23
2445 ATATAATATA
* **
2455 AAATATAAATATTTTAAAATTTT
1 AAATATAAAAATTTTAAAAAATT
2478 AAATA-AAAAATTTTAAAAAATT
1 AAATATAAAAATTTTAAAAAATT
2500 AAAT
1 AAAT
2504 TTTATATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 18 0.78
23 5 0.22
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (23 bp):
AAATATAAAAATTTTAAAAAATT
Found at i:2505 original size:15 final size:14
Alignment explanation
Indices: 2470--2513 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
2460 TAAATATTTT
2470 AAAATTTTAAATAA
1 AAAATTTTAAATAA
2484 AAAATTTTAAA-AA
1 AAAATTTTAAATAA
*
2497 ATTAAATTTTATATAA
1 A--AAATTTTAAATAA
2513 A
1 A
2514 TATATATTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 3 0.12
14 11 0.42
15 9 0.35
16 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (14 bp):
AAAATTTTAAATAA
Found at i:4477 original size:21 final size:21
Alignment explanation
Indices: 4453--4493 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
4443 TATTTTTAAA
4453 ATTT-TTTAATAAAATAATATT
1 ATTTATTTAAT-AAATAATATT
*
4474 ATTTATTTAATTAATAATAT
1 ATTTATTTAATAAATAATAT
4494 ATAAATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTATTTAATAAATAATATT
Found at i:6373 original size:46 final size:46
Alignment explanation
Indices: 6271--6377 Score: 117
Period size: 46 Copynumber: 2.3 Consensus size: 46
6261 GTGTTAGAGT
* *
6271 ATTTATAACTTTATTCGTATAAAAATTATAAATTATTTATGAGAAA
1 ATTTATAATTTTATTCGTACAAAAATTATAAATTATTTATGAGAAA
* * * * * *
6317 AGTTTGTAATTTTATTTGT-CAATAATTATAAGTTATTTATGAGGCAG
1 A-TTTATAATTTTATTCGTACAAAAATTATAAATTATTTATGA-GAAA
6364 ATTTATAATTTTAT
1 ATTTATAATTTTAT
6378 CCTGTGTAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
46 33 0.66
47 17 0.34
ACGTcount: A:0.38, C:0.04, G:0.10, T:0.48
Consensus pattern (46 bp):
ATTTATAATTTTATTCGTACAAAAATTATAAATTATTTATGAGAAA
Found at i:7294 original size:15 final size:15
Alignment explanation
Indices: 7274--7304 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
7264 TCAATCTAAT
*
7274 TGGTGATTAAGTAAC
1 TGGTGAATAAGTAAC
7289 TGGTGAATAAGTAAC
1 TGGTGAATAAGTAAC
7304 T
1 T
7305 AGAAGTGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.06, G:0.26, T:0.32
Consensus pattern (15 bp):
TGGTGAATAAGTAAC
Found at i:7853 original size:25 final size:25
Alignment explanation
Indices: 7816--7863 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
7806 TATAAATATA
* *
7816 AATTCAAATATAAATAAATATAACT
1 AATTCAAAAATAAATAAAAATAACT
* *
7841 AATTTAAAAATAACTAAAAATAA
1 AATTCAAAAATAAATAAAAATAA
7864 ATAAAATCTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (25 bp):
AATTCAAAAATAAATAAAAATAACT
Found at i:9444 original size:21 final size:21
Alignment explanation
Indices: 9420--9459 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
9410 TTGTTTTATT
9420 TTTTAAATATTGTA-TATATCA
1 TTTT-AATATTGTACTATATCA
*
9441 TTTTTATATTGTACTATAT
1 TTTTAATATTGTACTATAT
9460 ATATGTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.33, C:0.05, G:0.05, T:0.57
Consensus pattern (21 bp):
TTTTAATATTGTACTATATCA
Found at i:9468 original size:20 final size:19
Alignment explanation
Indices: 9426--9483 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
9416 TATTTTTTAA
* *
9426 ATATTGTATATATCATTTTT
1 ATATTGTATATAT-ATATGT
9446 ATATTGTACTATATATATGT
1 ATATTGTA-TATATATATGT
*
9466 ATATTATATTATATATAT
1 ATATTGTA-TATATATAT
9484 TGAAAAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
20 28 0.85
21 5 0.15
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.55
Consensus pattern (19 bp):
ATATTGTATATATATATGT
Found at i:9826 original size:16 final size:16
Alignment explanation
Indices: 9805--9835 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
9795 TATTTTTATT
9805 TTAATATATATTAATA
1 TTAATATATATTAATA
9821 TTAATATATATTAAT
1 TTAATATATATTAAT
9836 GTATCTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTAATATATATTAATA
Found at i:9940 original size:42 final size:47
Alignment explanation
Indices: 9889--9981 Score: 117
Period size: 48 Copynumber: 2.1 Consensus size: 47
9879 TATAACATAT
9889 TTTAATTTTATTA-ATA-A-A-A-TATATATTATAT-AAAAATATAAA
1 TTTAATTTTATTACATATACATAGTATATATT-TATGAAAAATATAAA
*
9931 TTTATTTTTATTACATATACATATGTATATATTTATGAAAAATATAAA
1 TTTAATTTTATTACATATACATA-GTATATATTTATGAAAAATATAAA
9979 TTT
1 TTT
9982 GAAAGCTATA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
42 12 0.28
43 3 0.07
44 1 0.02
45 1 0.02
46 1 0.02
47 3 0.07
48 22 0.51
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.48
Consensus pattern (47 bp):
TTTAATTTTATTACATATACATAGTATATATTTATGAAAAATATAAA
Found at i:10020 original size:8 final size:8
Alignment explanation
Indices: 9990--10034 Score: 58
Period size: 8 Copynumber: 5.8 Consensus size: 8
9980 TTGAAAGCTA
9990 TAAATATT
1 TAAATATT
9998 T-AATATCT
1 TAAATAT-T
*
10006 AAAATATT
1 TAAATATT
10014 TAAATATT
1 TAAATATT
10022 TAAATA-T
1 TAAATATT
10029 TAAATA
1 TAAATA
10035 AATAAATATA
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
7 12 0.36
8 16 0.48
9 5 0.15
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (8 bp):
TAAATATT
Found at i:10033 original size:7 final size:7
Alignment explanation
Indices: 9990--10050 Score: 50
Period size: 8 Copynumber: 8.0 Consensus size: 7
9980 TTGAAAGCTA
9990 TAAATAT
1 TAAATAT
*
9997 TTAATAT
1 TAAATAT
10004 CTAAAATATT
1 -T-AAATA-T
10014 TAAATATT
1 TAAATA-T
10022 TAAATAT
1 TAAATAT
*
10029 TAAATAAA
1 TAAAT-AT
10037 TAAATAT
1 TAAATAT
*
10044 AAAATAT
1 TAAATAT
10051 AATAAATTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 8
0.78 0.09 0.14
Matches are distributed among these distances:
7 19 0.42
8 20 0.44
9 5 0.11
10 1 0.02
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (7 bp):
TAAATAT
Found at i:10040 original size:15 final size:15
Alignment explanation
Indices: 10007--10062 Score: 58
Period size: 15 Copynumber: 3.5 Consensus size: 15
9997 TTAATATCTA
**
10007 AAATATTTAAATATTT
1 AAATA-TTAAATAAAT
10023 AAATATTAAATAAAT
1 AAATATTAAATAAAT
*
10038 AAATATAAAATATAAT
1 AAATATTAAATA-AAT
10054 AAATTATTA
1 AAA-TATTA
10063 TTAATTATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
15 19 0.56
16 11 0.32
17 4 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (15 bp):
AAATATTAAATAAAT
Found at i:10949 original size:28 final size:29
Alignment explanation
Indices: 10909--10963 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 29
10899 TTAATAAGAT
10909 AATATCATTAATA-A-ATTTATAAATTATC
1 AATATCATTAATATATATTTA-AAATTATC
10937 AATA-CATTAAATATATATTTAAAATTA
1 AATATCATT-AATATATATTTAAAATTA
10964 AATAACTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
27 4 0.17
28 8 0.33
29 7 0.29
30 5 0.21
ACGTcount: A:0.53, C:0.05, G:0.00, T:0.42
Consensus pattern (29 bp):
AATATCATTAATATATATTTAAAATTATC
Found at i:11080 original size:32 final size:30
Alignment explanation
Indices: 11025--11087 Score: 90
Period size: 32 Copynumber: 2.0 Consensus size: 30
11015 TATACAATTA
* *
11025 ATATATCAAATTTAAATTTTATTTATAAAT
1 ATATATCAAATATAAATTCTATTTATAAAT
11055 ATATCATCAAAATATAAATTCTATTTATAAAT
1 ATAT-ATC-AAATATAAATTCTATTTATAAAT
11087 A
1 A
11088 ACATTTAATG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 4 0.14
31 3 0.10
32 22 0.76
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.44
Consensus pattern (30 bp):
ATATATCAAATATAAATTCTATTTATAAAT
Found at i:20081 original size:21 final size:21
Alignment explanation
Indices: 20057--20107 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
20047 TAATCATATC
20057 TTAATTTATAAT-TTAAATAAT
1 TTAATTTATAATATT-AATAAT
*
20078 TTAAATTT-TAATATTTATAAT
1 TT-AATTTATAATATTAATAAT
*
20099 TTATTTTAT
1 TTAATTTAT
20108 TTTAAGTTAT
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
20 4 0.16
21 14 0.56
22 7 0.28
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTAATTTATAATATTAATAAT
Found at i:20273 original size:4 final size:4
Alignment explanation
Indices: 20266--20320 Score: 60
Period size: 4 Copynumber: 13.5 Consensus size: 4
20256 GGGGCCAACT
*
20266 AAGA AAGA AAGA AAGA AAGA AAGA AAGA GAAAA AAGGA AA-A AA-A AAGGA
1 AAGA AAGA AAGA AAGA AAGA AAGA AAGA -AAGA AA-GA AAGA AAGA AA-GA
20315 AAGA AA
1 AAGA AA
20321 AAGATAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 8
0.82 0.04 0.15
Matches are distributed among these distances:
3 6 0.13
4 30 0.67
5 9 0.20
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAGA
Found at i:20367 original size:31 final size:30
Alignment explanation
Indices: 20327--20384 Score: 73
Period size: 29 Copynumber: 1.9 Consensus size: 30
20317 GAAAAAGATA
20327 AAAAGATTATGTATTTTTAT-TTTATTTATGT
1 AAAAGATTA--TATTTTTATATTTATTTATGT
* *
20358 AAAATATTATATTTTTATATTTTTTTA
1 AAAAGATTATATTTTTATATTTATTTA
20385 CATATAAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 9 0.38
30 7 0.29
31 8 0.33
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.60
Consensus pattern (30 bp):
AAAAGATTATATTTTTATATTTATTTATGT
Found at i:21443 original size:14 final size:14
Alignment explanation
Indices: 21377--21464 Score: 58
Period size: 14 Copynumber: 6.3 Consensus size: 14
21367 ATATTTTATA
*
21377 TAAATTTTTTTAAT
1 TAAATTTTATTAAT
* *
21391 GAAATTTTA--ACTT
1 TAAATTTTATTA-AT
*
21404 TAAA-TTTATTTAT
1 TAAATTTTATTAAT
*
21417 TAAATATTT-TTAAA
1 TAAAT-TTTATTAAT
21431 TAAATTTTATTAAT
1 TAAATTTTATTAAT
*
21445 TATAATTTTCTTTAAT
1 TA-AATTTT-ATTAAT
21461 TAAA
1 TAAA
21465 AATTTTTTAT
Statistics
Matches: 56, Mismatches: 10, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
12 5 0.09
13 12 0.21
14 21 0.38
15 11 0.20
16 7 0.12
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (14 bp):
TAAATTTTATTAAT
Found at i:21709 original size:12 final size:13
Alignment explanation
Indices: 21685--21714 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
21675 ATTTATGTAT
21685 TATTTTTATATTA
1 TATTTTTATATTA
21698 TATTTTTA-ATTA
1 TATTTTTATATTA
21710 TATTT
1 TATTT
21715 ATATTACGAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 9 0.53
13 8 0.47
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (13 bp):
TATTTTTATATTA
Found at i:23112 original size:19 final size:18
Alignment explanation
Indices: 23059--23109 Score: 66
Period size: 19 Copynumber: 2.8 Consensus size: 18
23049 TTTGACTTTA
*
23059 AAATTTTTAATTTAAAAT
1 AAATTTTTAATTTTAAAT
*
23077 AAATCTTTTAAATTTAAAT
1 AAAT-TTTTAATTTTAAAT
*
23096 TAATTTTTAATTTT
1 AAATTTTTAATTTT
23110 TAATTTTTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
18 13 0.46
19 15 0.54
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (18 bp):
AAATTTTTAATTTTAAAT
Found at i:23668 original size:2 final size:2
Alignment explanation
Indices: 23661--23692 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
23651 TCTATGCCAT
23661 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
23693 ATAATTTAAA
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:23741 original size:10 final size:10
Alignment explanation
Indices: 23702--23750 Score: 57
Period size: 10 Copynumber: 5.0 Consensus size: 10
23692 CATAATTTAA
23702 AAAAATATTT
1 AAAAATATTT
*
23712 -AAATTAATTT
1 AAAAAT-ATTT
*
23722 AAATAT-TTT
1 AAAAATATTT
23731 AAAAATATTT
1 AAAAATATTT
23741 AAAAATATTT
1 AAAAATATTT
23751 TTTTGAATAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
9 12 0.38
10 17 0.53
11 3 0.09
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (10 bp):
AAAAATATTT
Found at i:25615 original size:17 final size:17
Alignment explanation
Indices: 25586--25626 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
25576 TTTGTAATTG
*
25586 TTTA-TTATTAATTAGA
1 TTTATTTATAAATTAGA
25602 TTTATTTATAAATTAGA
1 TTTATTTATAAATTAGA
25619 -TTATTTAT
1 TTTATTTAT
25627 TTTATTTGAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (17 bp):
TTTATTTATAAATTAGA
Found at i:30241 original size:21 final size:21
Alignment explanation
Indices: 30192--30241 Score: 54
Period size: 20 Copynumber: 2.5 Consensus size: 21
30182 TTTATTTAAA
30192 TTTAAT-TATAAAAATATAAT
1 TTTAATATATAAAAATATAAT
30212 TATT-A-ATATAAAAATA-ATAT
1 T-TTAATATATAAAAATATA-AT
30232 TTTAATATAT
1 TTTAATATAT
30242 TTTAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
19 3 0.12
20 16 0.64
21 6 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (21 bp):
TTTAATATATAAAAATATAAT
Found at i:31693 original size:56 final size:57
Alignment explanation
Indices: 31631--31739 Score: 134
Period size: 56 Copynumber: 1.9 Consensus size: 57
31621 CCGACAGCTG
* *
31631 TATTTTT-TTTGTTGAGGACTATATTTAATAAT-TTATATATTTATA-TTATATTAAAA
1 TATTTTTATTTATT-AGAACTATATTTAA-AATATTATATATTTATATTTATATTAAAA
* * *
31687 TATTTTTATTTATTATAATTATATTTTAAATATTATATATTTATATTTATATT
1 TATTTTTATTTATTAGAACTATATTTAAAATATTATATATTTATATTTATATT
31740 TATTTTAAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
55 3 0.07
56 30 0.67
57 12 0.27
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.60
Consensus pattern (57 bp):
TATTTTTATTTATTAGAACTATATTTAAAATATTATATATTTATATTTATATTAAAA
Found at i:31699 original size:33 final size:32
Alignment explanation
Indices: 31661--31812 Score: 113
Period size: 33 Copynumber: 4.7 Consensus size: 32
31651 ATATTTAATA
31661 ATTTATATATTTATATTATATTAAAATATTTTT
1 ATTTATATATTTATATTATATTAAAAT-TTTTT
* * *
31694 ATTTAT-TA--TA-ATTATATTTTAAATATTAT
1 ATTTATATATTTATATTATA-TTAAAATTTTTT
*
31723 ATATT-TATATTTATATT-TATTTTAAATTTTAATAT
1 AT-TTATATATTTATATTATA-TTAAAATTTT--T-T
*
31758 ATTTA-ATAATTTATGTTATA-TAAAATTTAATTT
1 ATTTATAT-ATTTATATTATATTAAAATTT--TTT
31791 ATTTATATATTTATATTATATT
1 ATTTATATATTTATATTATATT
31813 TATTTATATT
Statistics
Matches: 95, Mismatches: 8, Indels: 31
0.71 0.06 0.23
Matches are distributed among these distances:
29 12 0.13
30 12 0.13
32 16 0.17
33 26 0.27
34 15 0.16
35 11 0.12
36 3 0.03
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (32 bp):
ATTTATATATTTATATTATATTAAAATTTTTT
Found at i:31707 original size:29 final size:31
Alignment explanation
Indices: 31661--31856 Score: 100
Period size: 33 Copynumber: 6.5 Consensus size: 31
31651 ATATTTAATA
*
31661 ATTTATATATTTATATTATA-TTAAAATATT
1 ATTTATTTATTTATATTATATTTAAAATATT
*
31691 -TTTATTTA-TTATAATTATATTTTAAATATT
1 ATTTATTTATTTAT-ATTATATTTAAAATATT
* * *
31721 ATATATTTATATTTATATT-TATTTTAAATTTT
1 ATTTA-TT-TATTTATATTATATTTAAAATATT
* *
31753 AATATATTTAATAATT-TATGT-TATATAAAAT-TT
1 -ATTTATTT-AT--TTATAT-TATATTTAAAATATT
* *
31786 AATTTATTTATATAT-TTATA-TT-ATAT-TT
1 -ATTTATTTATTTATATTATATTTAAAATATT
31814 ATTTA--TATTT-TATTATATTTAAAAT-TT
1 ATTTATTTATTTATATTATATTTAAAATATT
31841 -TTTATTATATTATATA
1 ATTTATT-TATT-TATA
31857 ACTATATATA
Statistics
Matches: 133, Mismatches: 12, Indels: 41
0.72 0.06 0.22
Matches are distributed among these distances:
24 1 0.01
25 9 0.07
26 6 0.05
27 10 0.08
28 9 0.07
29 19 0.14
30 14 0.11
31 7 0.05
32 20 0.15
33 23 0.17
34 15 0.11
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.61
Consensus pattern (31 bp):
ATTTATTTATTTATATTATATTTAAAATATT
Found at i:31751 original size:17 final size:17
Alignment explanation
Indices: 31708--31813 Score: 62
Period size: 17 Copynumber: 6.3 Consensus size: 17
31698 ATTATAATTA
31708 TATTTTAAATATTATA--
1 TATTTTAAAT-TTATATT
*
31724 TA-TTTATATTTATATT
1 TATTTTAAATTTATATT
*
31740 TATTTTAAATTT-TAATA
1 TATTTTAAATTTAT-ATT
* *
31757 TATTTAATAATTTAT-GT
1 TATTTTA-AATTTATATT
* *
31774 TATATAAAATTTA-ATT
1 TATTTTAAATTTATATT
*
31790 TATTTATATATTTATATT
1 TATTT-TAAATTTATATT
31808 ATATTT
1 -TATTT
31814 ATTTATATTT
Statistics
Matches: 69, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
14 5 0.07
15 6 0.09
16 16 0.23
17 28 0.41
18 8 0.12
19 6 0.09
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (17 bp):
TATTTTAAATTTATATT
Found at i:31821 original size:62 final size:61
Alignment explanation
Indices: 31653--31823 Score: 145
Period size: 62 Copynumber: 2.7 Consensus size: 61
31643 TGAGGACTAT
* *
31653 ATTTAA-TAATTTATATATTTATATTATATTAAAATATTTTTATTTATTATAATTATATTTTAAA
1 ATTTAATTTATTTATATATTTATATTATATT----TATTTATATTTA-TATAATTATATTTTAAA
*
31717 T
61 A
* * *
31718 ATTATATATTTATATT-TATATTTATTTTAAATTT-TAATATATTTA-ATAATT-TATGTTATAT
1 ATT-TA-ATTTAT-TTATATATTTATATTATATTTAT-TTATATTTATATAATTATAT-TT-TA-
31779 AAA
59 AAA
31782 ATTTAATTTATTTATATATTTATATTATATTTATTTATATTT
1 ATTTAATTTATTTATATATTTATATTATATTTATTTATATTT
31824 TATTATATTT
Statistics
Matches: 87, Mismatches: 9, Indels: 23
0.73 0.08 0.19
Matches are distributed among these distances:
61 5 0.06
62 37 0.43
63 6 0.07
64 13 0.15
65 3 0.03
66 2 0.02
67 1 0.01
68 18 0.21
69 2 0.02
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (61 bp):
ATTTAATTTATTTATATATTTATATTATATTTATTTATATTTATATAATTATATTTTAAAA
Found at i:31830 original size:33 final size:33
Alignment explanation
Indices: 31663--31831 Score: 95
Period size: 34 Copynumber: 5.2 Consensus size: 33
31653 ATTTAATAAT
* **
31663 TTATATATTTATATTATATTAAAATAT-TTTTA
1 TTATATATTTATATTATATTTATTTATATTTTA
* * **
31695 TTTATTATAATTATATTTTAAATATTATATATTTATA
1 -TTA-TATATTTATATTATATTTATT-TATATTT-TA
* * *
31732 TT-TATATTTATTTTA-AATT-TTAATATATTTA
1 TTATATATTTATATTATATTTATTTATAT-TTTA
* **
31763 --ATA-ATTTATGTTATATAAAATTTA-A-TTTA
1 TTATATATTTATATTATAT-TTATTTATATTTTA
31792 TTTATATATTTATATTATATTTATTTATATTTTA
1 -TTATATATTTATATTATATTTATTTATATTTTA
31826 TTATAT
1 TTATAT
31832 TTAAAATTTT
Statistics
Matches: 101, Mismatches: 20, Indels: 30
0.67 0.13 0.20
Matches are distributed among these distances:
29 13 0.13
30 3 0.03
31 7 0.07
32 15 0.15
33 25 0.25
34 28 0.28
35 3 0.03
36 5 0.05
37 2 0.02
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (33 bp):
TTATATATTTATATTATATTTATTTATATTTTA
Found at i:31849 original size:72 final size:77
Alignment explanation
Indices: 31661--31850 Score: 216
Period size: 72 Copynumber: 2.5 Consensus size: 77
31651 ATATTTAATA
* *
31661 ATTTATATATTTATATTATA-TTAAAATATTTTTATT-TATTATAATTATATTTTAAATATTATA
1 ATTT-TATATTT-TATTATATTTAAAAT-TTTTTATTATA-TAAAATTATAATTT-AATATTATA
31724 TATTTATATTTATATTT
61 TATTTATATTTATATTT
* * * *
31741 ATTTTAAATTTTAATATATTTAATAA-TTTATGTTATATAAAATT-TAATTT-AT-TTATATATT
1 ATTTTATATTTTATTATATTTAA-AATTTTTTATTATATAAAATTATAATTTAATATTATATATT
31802 TATA-TTATATTT
65 TATATTTATATTT
31814 A-TTTATATTTTATTATATTTAAAATTTTTTATTATAT
1 ATTTTATATTTTATTATATTTAAAATTTTTTATTATAT
31851 TATATAACTA
Statistics
Matches: 96, Mismatches: 10, Indels: 16
0.79 0.08 0.13
Matches are distributed among these distances:
71 2 0.02
72 29 0.30
73 9 0.09
74 13 0.14
75 2 0.02
77 5 0.05
78 18 0.19
79 12 0.12
80 6 0.06
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.61
Consensus pattern (77 bp):
ATTTTATATTTTATTATATTTAAAATTTTTTATTATATAAAATTATAATTTAATATTATATATTT
ATATTTATATTT
Found at i:32668 original size:9 final size:9
Alignment explanation
Indices: 32654--32678 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
32644 TATTTTTAAT
32654 ATATATATA
1 ATATATATA
32663 ATATATATA
1 ATATATATA
32672 ATATATA
1 ATATATA
32679 AAATCAAGCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (9 bp):
ATATATATA
Found at i:33088 original size:2 final size:2
Alignment explanation
Indices: 33081--33112 Score: 55
Period size: 2 Copynumber: 15.5 Consensus size: 2
33071 TAATTTTTCT
33081 TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T
33113 GATTAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 27 0.93
3 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:33961 original size:20 final size:19
Alignment explanation
Indices: 33925--33968 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
33915 AATTTTTATT
33925 TAAATTTAATTATAAAATA
1 TAAATTTAATTATAAAATA
33944 TAAATATTAA-TATAAAA-A
1 TAAAT-TTAATTATAAAATA
33962 TAAATTT
1 TAAATTT
33969 TTAATATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 2 0.08
18 6 0.25
19 12 0.50
20 4 0.17
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TAAATTTAATTATAAAATA
Found at i:33972 original size:19 final size:19
Alignment explanation
Indices: 33925--33975 Score: 61
Period size: 19 Copynumber: 2.7 Consensus size: 19
33915 AATTTTTATT
33925 TAAA-TTTAATTATAAAATA
1 TAAATTTTAA-TATAAAATA
*
33944 TAAATATTAATATAAAA-A
1 TAAATTTTAATATAAAATA
33962 TAAATTTTTAATAT
1 TAAA-TTTTAATAT
33976 TTTATTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 5 0.18
19 19 0.68
20 4 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (19 bp):
TAAATTTTAATATAAAATA
Found at i:34464 original size:23 final size:26
Alignment explanation
Indices: 34414--34464 Score: 72
Period size: 26 Copynumber: 2.1 Consensus size: 26
34404 AAAATAAATA
*
34414 AAAAATATATAATATGAGTTATTTAT
1 AAAAATATATAATATGAGTTATTAAT
34440 AAAAATATATAA-AT-A-TTATTAAT
1 AAAAATATATAATATGAGTTATTAAT
34463 AA
1 AA
34465 TGTAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
23 9 0.38
24 1 0.04
25 2 0.08
26 12 0.50
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.39
Consensus pattern (26 bp):
AAAAATATATAATATGAGTTATTAAT
Found at i:34630 original size:3 final size:3
Alignment explanation
Indices: 34618--34659 Score: 59
Period size: 3 Copynumber: 14.3 Consensus size: 3
34608 TTAACATAGT
* *
34618 TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAA CAA CAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
34660 TTTGTATTAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 34 0.94
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:35241 original size:16 final size:16
Alignment explanation
Indices: 35212--35245 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
35202 TATATAACTA
35212 TTAATATAAAAATAAT
1 TTAATATAAAAATAAT
35228 TTAA-ATAAATAATAAT
1 TTAATATAAA-AATAAT
35244 TT
1 TT
35246 GGGTCGTCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TTAATATAAAAATAAT
Found at i:36545 original size:22 final size:21
Alignment explanation
Indices: 36517--36696 Score: 89
Period size: 22 Copynumber: 8.2 Consensus size: 21
36507 GGATGATATA
36517 TTTATATTATATTAATATATTT
1 TTTATATTATA-TAATATATTT
*
36539 TTTATATAATATAATAATATTT
1 TTTATATTATATAAT-ATATTT
*** *
36561 AAAATATTATATATTTATATTTAT
1 TTTATATTATATA-ATATA-TT-T
*
36585 TTTAAATT-T-TAATATA-TT
1 TTTATATTATATAATATATTT
* *
36603 TATATATT-TATAAAATATTT
1 TTTATATTATATAATATATTT
* *
36623 ATATTATTTTTATATTATATATTT
1 -T-TTA-TATTATATAATATATTT
* * *
36647 TTTATTATTTTATTAAATTTATAT
1 TTTA-TATTATA-T-AATATATTT
* *
36671 TATATAATTATATAATATATTA
1 TTTAT-ATTATATAATATATTT
36693 TTTA
1 TTTA
36697 ACTTGATTTA
Statistics
Matches: 116, Mismatches: 29, Indels: 26
0.68 0.17 0.15
Matches are distributed among these distances:
18 8 0.07
19 7 0.06
20 2 0.02
21 9 0.08
22 50 0.43
23 11 0.09
24 29 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TTTATATTATATAATATATTT
Found at i:36578 original size:35 final size:35
Alignment explanation
Indices: 36539--36688 Score: 107
Period size: 35 Copynumber: 4.3 Consensus size: 35
36529 TAATATATTT
* *
36539 TTTATATAATATAATAATATTTAAAATATTATATA
1 TTTATATAATATTATAATATTTAATATATTATATA
* *
36574 TTTATAT-TTATTTTAA-ATTTTAATATATTTATATA
1 TTTATATAATATTATAATA-TTTAATATA-TTATATA
* * *
36609 TTTATAAAATATTTATATTATTT-TTATATTATATA
1 TTTATATAATA-TTATAATATTTAATATATTATATA
** *
36644 TTT-T-T--TATTATTTTATTAAATTTATATTATATA
1 TTTATATAATATTATAATATTTAA--TATATTATATA
*
36677 ATTATATAATAT
1 TTTATATAATAT
36689 ATTATTTAAC
Statistics
Matches: 89, Mismatches: 14, Indels: 22
0.71 0.11 0.18
Matches are distributed among these distances:
30 9 0.10
31 2 0.02
33 14 0.16
34 16 0.18
35 31 0.35
36 6 0.07
37 10 0.11
38 1 0.01
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (35 bp):
TTTATATAATATTATAATATTTAATATATTATATA
Found at i:36588 original size:27 final size:27
Alignment explanation
Indices: 36558--36635 Score: 85
Period size: 27 Copynumber: 3.0 Consensus size: 27
36548 TATAATAATA
36558 TTTAAAATATTATATATTTATATTTAT
1 TTTAAAATATTATATATTTATATTTAT
*
36585 TTT-AAATTTTAATATATTTATA--TAT
1 TTTAAAATATT-ATATATTTATATTTAT
*
36610 TTATAAAATATT-TATA-TTATTTTTAT
1 TT-TAAAATATTATATATTTATATTTAT
36636 ATTATATATT
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
24 4 0.09
25 9 0.21
26 10 0.23
27 20 0.47
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (27 bp):
TTTAAAATATTATATATTTATATTTAT
Found at i:36640 original size:27 final size:24
Alignment explanation
Indices: 36555--36657 Score: 66
Period size: 25 Copynumber: 4.0 Consensus size: 24
36545 TAATATAATA
*
36555 ATATTTAAAATATTATATATTTATATTT
1 ATATTT-AAAT-TT-TATA-TTATTTTT
*
36583 AT-TTTAAATTTTA-ATATATTTAT
1 ATATTTAAATTTTATAT-TATTTTT
36606 ATATTTATAAAATATTTATATTATTTTT
1 ATA-TT-T-AAAT-TTTATATTATTTTT
* *
36634 ATATTATATATTTTTTATTATTTT
1 ATATT-TAAATTTTATATTATTTT
36658 ATTAAATTTA
Statistics
Matches: 63, Mismatches: 5, Indels: 17
0.74 0.06 0.20
Matches are distributed among these distances:
22 1 0.02
23 8 0.13
24 2 0.03
25 16 0.25
26 8 0.13
27 11 0.17
28 15 0.24
29 2 0.03
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (24 bp):
ATATTTAAATTTTATATTATTTTT
Found at i:36651 original size:46 final size:46
Alignment explanation
Indices: 36571--36696 Score: 127
Period size: 46 Copynumber: 2.8 Consensus size: 46
36561 AAAATATTAT
* *
36571 ATATTTATATT-TATTTTAAATTTTA-ATATATTTA-TATATTTATAAA
1 ATATTTATATTATATTTTATATTATATAT-TATTTATTAT-TTTAT-AA
* *
36617 ATATTTATATTAT-TTTTATATTATATATTTTTTATTATTTTATTA
1 ATATTTATATTATATTTTATATTATATATTATTTATTATTTTATAA
* *
36662 A-ATTTATATTATATAATTATATAATATATTATTTA
1 ATATTTATATTATAT-TTTATATTATATATTATTTA
36697 ACTTGATTTA
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
44 11 0.16
45 3 0.04
46 48 0.71
47 6 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (46 bp):
ATATTTATATTATATTTTATATTATATATTATTTATTATTTTATAA
Found at i:36710 original size:44 final size:43
Alignment explanation
Indices: 36619--36718 Score: 105
Period size: 44 Copynumber: 2.3 Consensus size: 43
36609 TTTATAAAAT
* * * * *
36619 ATTTATATTATTTTTATATTATATATTTTTTATTATTTTATTAA
1 ATTTATATTATTATTATATAATATATTATTTA-TACTTGATTAA
*
36663 ATTTATATTATATAATTATATAATATATTATTTA-ACTTGATTTA
1 ATTTATATTAT-T-ATTATATAATATATTATTTATACTTGATTAA
36707 ATTTAT-TTATTA
1 ATTTATATTATTA
36719 AATTTAATAA
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
41 1 0.02
42 1 0.02
43 4 0.08
44 24 0.50
45 1 0.02
46 17 0.35
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.62
Consensus pattern (43 bp):
ATTTATATTATTATTATATAATATATTATTTATACTTGATTAA
Found at i:37199 original size:3 final size:3
Alignment explanation
Indices: 37191--37228 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
37181 ATAAAATTCC
37191 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
37229 CTAGTTTTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:40105 original size:13 final size:14
Alignment explanation
Indices: 40079--40111 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
40069 ATACTTTTAT
40079 TTTAA-AAAATTAA
1 TTTAATAAAATTAA
40092 TTTAATAAAA-TAA
1 TTTAATAAAATTAA
40105 TTTAATA
1 TTTAATA
40112 TAAAATAAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 15 0.79
14 4 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTAATAAAATTAA
Found at i:41662 original size:11 final size:11
Alignment explanation
Indices: 41646--41670 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
41636 ATTATTGTTT
41646 TTTCAATTATG
1 TTTCAATTATG
41657 TTTCAATTATG
1 TTTCAATTATG
41668 TTT
1 TTT
41671 TTTAGGTTCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.08, G:0.08, T:0.60
Consensus pattern (11 bp):
TTTCAATTATG
Found at i:41809 original size:22 final size:22
Alignment explanation
Indices: 41784--41825 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
41774 ATTAAAATAT
41784 TATTTTTAT-ATTAATATTTATA
1 TATTTTTATAATTAA-ATTTATA
41806 TATTTTTATAATTAAATTTA
1 TATTTTTATAATTAAATTTA
41826 AATTTAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (22 bp):
TATTTTTATAATTAAATTTATA
Found at i:42874 original size:2 final size:2
Alignment explanation
Indices: 42854--42891 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
42844 AATTAAAATT
* *
42854 TA TA TT TA TA TG T- 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 T
42892 GTAATACTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (2 bp):
TA
Found at i:48167 original size:16 final size:16
Alignment explanation
Indices: 48101--48202 Score: 69
Period size: 16 Copynumber: 6.8 Consensus size: 16
48091 ATATTTTATT
48101 TATT-ATAATTATAAA
1 TATTAATAATTATAAA
* * *
48116 TAATAAAAATTAT-CA
1 TATTAATAATTATAAA
* *
48131 TAATTAATTATGAT-AA
1 T-ATTAATAATTATAAA
48147 -A-TAATAATTATAAA
1 TATTAATAATTATAAA
48161 TATTAATAATT-TAAAA
1 TATTAATAATTAT-AAA
*
48177 TTTTAA-AATTATAAA
1 TATTAATAATTATAAA
48192 -A-TAATAATTAT
1 TATTAATAATTAT
48203 GTTTCATACT
Statistics
Matches: 67, Mismatches: 12, Indels: 17
0.70 0.12 0.18
Matches are distributed among these distances:
13 11 0.16
14 9 0.13
15 14 0.21
16 33 0.49
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.42
Consensus pattern (16 bp):
TATTAATAATTATAAA
Found at i:58704 original size:2 final size:2
Alignment explanation
Indices: 58697--58732 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
58687 CCTGCCGACA
58697 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
58733 TTAAATTCCG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:58982 original size:28 final size:26
Alignment explanation
Indices: 58919--58970 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
58909 TATAAAACAG
58919 TCTCCATTTAACAGGTGCATATATAT
1 TCTCCATTTAACAGGTGCATATATAT
58945 TCTCCATTTAACAGGTGCATATATAT
1 TCTCCATTTAACAGGTGCATATATAT
58971 ATTTATGTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.19, G:0.12, T:0.38
Consensus pattern (26 bp):
TCTCCATTTAACAGGTGCATATATAT
Found at i:59720 original size:15 final size:16
Alignment explanation
Indices: 59700--59736 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
59690 TAATTTTATC
59700 AAATTTGA-TAATTTT
1 AAATTTGAGTAATTTT
*
59715 AAATTTGAGTTATTTT
1 AAATTTGAGTAATTTT
59731 AAATTT
1 AAATTT
59737 AAATTAGTCG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (16 bp):
AAATTTGAGTAATTTT
Found at i:59797 original size:16 final size:16
Alignment explanation
Indices: 59776--59808 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
59766 TTTAATCAAA
59776 TTAAA-TTAAATTAAAT
1 TTAAATTTAAA-TAAAT
59792 TTAAATTTAAATAAAT
1 TTAAATTTAAATAAAT
59808 T
1 T
59809 GATCAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAATTTAAATAAAT
Found at i:60419 original size:20 final size:20
Alignment explanation
Indices: 60394--60440 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
60384 TATTATATTT
*
60394 ATTATTTGTTTAATATTAAA
1 ATTATTTATTTAATATTAAA
* *
60414 ATTATTTATTTAATTTTTAA
1 ATTATTTATTTAATATTAAA
60434 ATTATTT
1 ATTATTT
60441 TTAATTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (20 bp):
ATTATTTATTTAATATTAAA
Found at i:60707 original size:26 final size:27
Alignment explanation
Indices: 60678--60737 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 27
60668 TTGGGAATTT
* *
60678 TTAATATTTATAAAAATTTAA-TTAAA
1 TTAATATTTACAAAAACTTAAGTTAAA
* *
60704 TTAATAATTACATAAACTTAAGTTAAA
1 TTAATATTTACAAAAACTTAAGTTAAA
60731 TT-ATATT
1 TTAATATT
60738 AAATAATTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (27 bp):
TTAATATTTACAAAAACTTAAGTTAAA
Found at i:60992 original size:23 final size:24
Alignment explanation
Indices: 60965--61010 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 24
60955 ATATAAATTT
60965 ATTATACT-T-TAAATACATAAAAA
1 ATTATACTGTGTAAATACA-AAAAA
60988 ATTATACTGTGTAAATACAAAAA
1 ATTATACTGTGTAAATACAAAAA
61011 TTTCTTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.38
24 5 0.24
25 8 0.38
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (24 bp):
ATTATACTGTGTAAATACAAAAAA
Found at i:61621 original size:11 final size:11
Alignment explanation
Indices: 61607--61720 Score: 52
Period size: 12 Copynumber: 10.0 Consensus size: 11
61597 ATAATATTTT
61607 AAATATATAAA
1 AAATATATAAA
*
61618 AAATAACATAAA
1 AAAT-ATATAAA
* **
61630 TACGATATAAA
1 AAATATATAAA
61641 AAATA-AT-AA
1 AAATATATAAA
61650 AAATATGATAAAA
1 AAATAT-AT-AAA
* **
61663 AAATAAATATG
1 AAATATATAAA
*
61674 AAATAAATATAA
1 AAATATATA-AA
* *
61686 AGACATATAAA
1 AAATATATAAA
*
61697 TATATATATAAA
1 -AAATATATAAA
*
61709 ATATTATATAAA
1 A-AATATATAAA
61721 TTTATAATAT
Statistics
Matches: 75, Mismatches: 20, Indels: 15
0.68 0.18 0.14
Matches are distributed among these distances:
9 7 0.09
10 2 0.03
11 27 0.36
12 32 0.43
13 7 0.09
ACGTcount: A:0.67, C:0.03, G:0.04, T:0.27
Consensus pattern (11 bp):
AAATATATAAA
Found at i:61637 original size:23 final size:23
Alignment explanation
Indices: 61611--61668 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
61601 TATTTTAAAT
*
61611 ATATAAAAAATAACATAAATACG
1 ATATAAAAAATAACAAAAATACG
* *
61634 ATATAAAAAATAATAAAAATATG
1 ATATAAAAAATAACAAAAATACG
61657 ATA-AAAAAATAA
1 ATATAAAAAATAA
61669 ATATGAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 9 0.28
23 23 0.72
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.22
Consensus pattern (23 bp):
ATATAAAAAATAACAAAAATACG
Found at i:61671 original size:23 final size:22
Alignment explanation
Indices: 61607--61671 Score: 66
Period size: 23 Copynumber: 3.0 Consensus size: 22
61597 ATAATATTTT
61607 AAATAT-AT-AAAAAATAACAT-
1 AAATATGATAAAAAAATAA-ATA
*
61627 AAATACGATATAAAAAAT-AATAA
1 AAATATGATA-AAAAAATAAAT-A
61650 AAATATGATAAAAAAATAAATA
1 AAATATGATAAAAAAATAAATA
61672 TGAAATAAAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
20 5 0.14
21 4 0.11
22 9 0.24
23 19 0.51
ACGTcount: A:0.71, C:0.03, G:0.03, T:0.23
Consensus pattern (22 bp):
AAATATGATAAAAAAATAAATA
Found at i:61685 original size:17 final size:17
Alignment explanation
Indices: 61641--61686 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
61631 ACGATATAAA
*
61641 AAAT-AATAAAAATATG
1 AAATAAATATAAATATG
*
61657 ATAA-AAAAATAAATATG
1 A-AATAAATATAAATATG
61674 AAATAAATATAAA
1 AAATAAATATAAA
61687 GACATATAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
16 3 0.12
17 21 0.88
ACGTcount: A:0.72, C:0.00, G:0.04, T:0.24
Consensus pattern (17 bp):
AAATAAATATAAATATG
Found at i:63110 original size:129 final size:129
Alignment explanation
Indices: 62874--63131 Score: 324
Period size: 129 Copynumber: 2.0 Consensus size: 129
62864 TTGGATGTTT
* ** * *
62874 ATCTTTGATGCTAGGGCTGTTGAAAGAAGAATGAACTTAGATTTCTATTACTTATAGTTTGTTTA
1 ATCTTCGATGCTAGGGCTGTTGAAAGAAGAATGAAAATAGATTTCTAATACTTACAGTTTGTTTA
** **
62939 GGTTAGATATATGAGGATTCAAGTGCCTAAGCATGAAATGAGTGTGTATAAATTAAATTTGGTG
66 GGTTAGATATATGAAAATTCAAGTGCCTAAGCATGAAATGAGTGCATATAAATTAAATTTGGTG
*
63003 ATCTTCGATGCATAGGGCTGTTGAAAGAAGAAT-AAAATAGATTTCTAATGCTTACAGTTTTGCT
1 ATCTTCGATGC-TAGGGCTGTTGAAAGAAGAATGAAAATAGATTTCTAATACTTACAG-TTTG-T
* * ** * *
63067 TT-GGTTAGATGTATGAAAATT-GAGTGCCTAAGCATGATCTGAGTGCATATGAATTTAATTTGG
63 TTAGGTTAGATATATGAAAATTCAAGTGCCTAAGCATGAAATGAGTGCATATAAATTAAATTTGG
63130 TG
128 TG
63132 GCAGGGGTTC
Statistics
Matches: 110, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
129 66 0.60
130 41 0.37
131 3 0.03
ACGTcount: A:0.31, C:0.09, G:0.23, T:0.36
Consensus pattern (129 bp):
ATCTTCGATGCTAGGGCTGTTGAAAGAAGAATGAAAATAGATTTCTAATACTTACAGTTTGTTTA
GGTTAGATATATGAAAATTCAAGTGCCTAAGCATGAAATGAGTGCATATAAATTAAATTTGGTG
Found at i:66959 original size:18 final size:19
Alignment explanation
Indices: 66936--66974 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
66926 AAAGGTAAGT
*
66936 TAATTTGTTAA-ATTAATA
1 TAATTTGTTAATATAAATA
*
66954 TAATTTTTTAATATAAATA
1 TAATTTGTTAATATAAATA
66973 TA
1 TA
66975 TAATCTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (19 bp):
TAATTTGTTAATATAAATA
Found at i:67627 original size:17 final size:17
Alignment explanation
Indices: 67605--67650 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
67595 CAACCAACCA
67605 TTTACTATTATATTACT
1 TTTACTATTATATTACT
* **
67622 TTTACTATAATATTGTT
1 TTTACTATTATATTACT
67639 TGTTACTATTAT
1 T-TTACTATTAT
67651 GTTATTAATC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.28, C:0.09, G:0.04, T:0.59
Consensus pattern (17 bp):
TTTACTATTATATTACT
Found at i:67667 original size:22 final size:21
Alignment explanation
Indices: 67641--67683 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 21
67631 ATATTGTTTG
67641 TTACTATTATGTTATTAATCAT
1 TTACTATTATGTTATT-ATCAT
*
67663 TTACTATTATTTTATTATCAT
1 TTACTATTATGTTATTATCAT
67684 ATTTTATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.30, C:0.09, G:0.02, T:0.58
Consensus pattern (21 bp):
TTACTATTATGTTATTATCAT
Found at i:68972 original size:24 final size:23
Alignment explanation
Indices: 68928--68975 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 23
68918 AATTAATATT
*
68928 TAAAAATTTTAAAATATATTTAA
1 TAAAAATTTTAAAATACATTTAA
68951 TAAAATATTTTAAAACT-CATTTAA
1 TAAAA-ATTTTAAAA-TACATTTAA
68975 T
1 T
68976 CTTAACTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
23 5 0.23
24 16 0.73
25 1 0.05
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
TAAAAATTTTAAAATACATTTAA
Found at i:70044 original size:12 final size:11
Alignment explanation
Indices: 70011--70046 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
70001 AATTTTTTAA
*
70011 TTAAATCAAAT
1 TTAAATTAAAT
70022 TTAAATTAAAT
1 TTAAATTAAAT
70033 TTAAACTTAAAT
1 TTAAA-TTAAAT
70045 TT
1 TT
70047 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 15 0.65
12 8 0.35
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (11 bp):
TTAAATTAAAT
Found at i:70389 original size:15 final size:15
Alignment explanation
Indices: 70339--70394 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
70329 ACTCATTTAT
*
70339 TTATATCATATCTTA
1 TTATATCATATCATA
* *
70354 TTTTAT-ATAAT-ATTT
1 TTATATCAT-ATCA-TA
70369 TTATATCATATCATA
1 TTATATCATATCATA
70384 TTATATCATAT
1 TTATATCATAT
70395 ATTATACCTA
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
14 2 0.06
15 27 0.84
16 3 0.09
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (15 bp):
TTATATCATATCATA
Found at i:70397 original size:30 final size:30
Alignment explanation
Indices: 70305--70397 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
70295 ATAAATTTTT
70305 TATATTTTTATAT-AT-TCATATTTTACTCA
1 TATATTTTTATATCATATCATATTTTA-TCA
* *
70334 T-T-TATTTATATCATATCTTATTTTAT-A
1 TATATTTTTATATCATATCATATTTTATCA
*
70361 TAATATTTTTATATCATATCATATTATATCA
1 T-ATATTTTTATATCATATCATATTTTATCA
70392 TATATT
1 TATATT
70398 ATACCTAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
27 10 0.19
28 4 0.08
29 11 0.21
30 26 0.49
31 2 0.04
ACGTcount: A:0.33, C:0.09, G:0.00, T:0.58
Consensus pattern (30 bp):
TATATTTTTATATCATATCATATTTTATCA
Found at i:71529 original size:23 final size:23
Alignment explanation
Indices: 71485--71541 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 23
71475 GTTAACGAAT
*
71485 AAGTTCATTT-ATGAATCATTTA
1 AAGTTCATTTAATAAATCATTTA
* *
71507 AAGTTCGTTTAATAAATCGTTTA
1 AAGTTCATTTAATAAATCATTTA
*
71530 AAGCTCATTTAA
1 AAGTTCATTTAA
71542 AACTTGTTTA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 9 0.31
23 20 0.69
ACGTcount: A:0.37, C:0.11, G:0.11, T:0.42
Consensus pattern (23 bp):
AAGTTCATTTAATAAATCATTTA
Found at i:72306 original size:23 final size:21
Alignment explanation
Indices: 72261--72305 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 21
72251 CAATATTTTC
72261 TTATCAATATAAATTTTTATA
1 TTATCAATATAAATTTTTATA
* *
72282 TTATCAATGT-AATTTTTTTA
1 TTATCAATATAAATTTTTATA
72302 TTAT
1 TTAT
72306 TGATGTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 13 0.59
21 9 0.41
ACGTcount: A:0.36, C:0.04, G:0.02, T:0.58
Consensus pattern (21 bp):
TTATCAATATAAATTTTTATA
Found at i:73134 original size:21 final size:20
Alignment explanation
Indices: 73110--73152 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
73100 AAATTATTTT
73110 TATTAAAATTAATAATAAAAA
1 TATTAAAATTAAT-ATAAAAA
*
73131 TATTAATATTAATATAAAAA
1 TATTAAAATTAATATAAAAA
73151 TA
1 TA
73153 ATATTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 9 0.43
21 12 0.57
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (20 bp):
TATTAAAATTAATATAAAAA
Found at i:76251 original size:12 final size:12
Alignment explanation
Indices: 76236--76272 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
76226 TAAATTTTTT
76236 TATATATTTAAA
1 TATATATTTAAA
76248 TATATATTCT-AA
1 TATATATT-TAAA
76260 TATATA-TTAAA
1 TATATATTTAAA
76271 TA
1 TA
76273 CTTTGAGCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
10 1 0.04
11 5 0.22
12 16 0.70
13 1 0.04
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (12 bp):
TATATATTTAAA
Found at i:77706 original size:17 final size:19
Alignment explanation
Indices: 77684--77728 Score: 67
Period size: 17 Copynumber: 2.4 Consensus size: 19
77674 ATAAATTTAA
77684 TATTTAAATTTA-AA-ATT
1 TATTTAAATTTATAATATT
77701 TATTTAAATTTATAATATT
1 TATTTAAATTTATAATATT
77720 TAATTTAAA
1 T-ATTTAAA
77729 AAATAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 12 0.48
18 2 0.08
19 4 0.16
20 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TATTTAAATTTATAATATT
Found at i:77937 original size:20 final size:19
Alignment explanation
Indices: 77911--77972 Score: 65
Period size: 18 Copynumber: 3.3 Consensus size: 19
77901 CGAAATTTAA
*
77911 AAAATAAT-TAAAATATAAT
1 AAAATAATAT-AAACATAAT
77930 ATAAATAATATAAACATAAT
1 A-AAATAATATAAACATAAT
* *
77950 AAAAT-ATATAAATATATT
1 AAAATAATATAAACATAAT
77968 AAAAT
1 AAAAT
77973 TTATATAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
18 16 0.42
19 5 0.13
20 16 0.42
21 1 0.03
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAATAATATAAACATAAT
Found at i:77995 original size:20 final size:20
Alignment explanation
Indices: 77937--77986 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 20
77927 AATATAAATA
* *
77937 ATATAAACATAATAAAA--T
1 ATATAAAAATATTAAAATTT
*
77955 ATATAAATATATTAAAATTT
1 ATATAAAAATATTAAAATTT
77975 ATATAAAAATAT
1 ATATAAAAATAT
77987 AATATTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 15 0.56
20 12 0.44
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATAAAAATATTAAAATTT
Found at i:78003 original size:27 final size:30
Alignment explanation
Indices: 77948--78008 Score: 76
Period size: 28 Copynumber: 2.1 Consensus size: 30
77938 TATAAACATA
77948 ATAAAATATATAAATATATTAAAATTTA-T
1 ATAAAATATATAAATATATTAAAATTTATT
*
77977 ATAAAA-ATAT-AATAT-TTTAAATATTATT
1 ATAAAATATATAAATATATTAAAAT-TTATT
78005 ATAA
1 ATAA
78009 CGTATTTATC
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 6 0.21
27 8 0.28
28 9 0.31
29 6 0.21
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
ATAAAATATATAAATATATTAAAATTTATT
Found at i:78325 original size:12 final size:14
Alignment explanation
Indices: 78295--78323 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
78285 ATTTAAAGTT
78295 AAATATTAATATAA
1 AAATATTAATATAA
78309 AAATATTAATA-AA
1 AAATATTAATATAA
78322 AA
1 AA
78324 TAAATTTATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAATATTAATATAA
Found at i:81401 original size:27 final size:27
Alignment explanation
Indices: 81366--81456 Score: 98
Period size: 27 Copynumber: 3.4 Consensus size: 27
81356 AACATTAAAA
* *
81366 TTATA-ATTTATAAAATATTAAATAAT
1 TTATATATTTATAATATATTAAATATT
* * *
81392 TTATATATTTATATTATTTTATATATT
1 TTATATATTTATAATATATTAAATATT
81419 TTATATA-TTATAATTATATTTAAA-ATT
1 TTATATATTTATAA-TATA-TTAAATATT
81446 TTATATATTTA
1 TTATATATTTA
81457 CATAGTTTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
26 10 0.19
27 36 0.68
28 7 0.13
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (27 bp):
TTATATATTTATAATATATTAAATATT
Found at i:81418 original size:9 final size:9
Alignment explanation
Indices: 81391--81478 Score: 67
Period size: 9 Copynumber: 9.8 Consensus size: 9
81381 TATTAAATAA
81391 TTTATATA-
1 TTTATATAT
81399 TTTATATTAT
1 TTTATA-TAT
81409 TTTATATAT
1 TTTATATAT
81418 TTTATATAT
1 TTTATATAT
*
81427 TATA-ATTAT
1 TTTATA-TAT
*
81436 ATTTA-AAAT
1 -TTTATATAT
81445 TTTATATA-
1 TTTATATAT
* *
81453 TTTACATAG
1 TTTATATAT
*
81462 TTTATTAAAT
1 TTTA-TATAT
81472 TTTATAT
1 TTTATAT
81479 TACATAAATT
Statistics
Matches: 64, Mismatches: 9, Indels: 13
0.74 0.10 0.15
Matches are distributed among these distances:
8 18 0.28
9 30 0.47
10 16 0.25
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (9 bp):
TTTATATAT
Found at i:81471 original size:27 final size:26
Alignment explanation
Indices: 81381--81478 Score: 85
Period size: 27 Copynumber: 3.6 Consensus size: 26
81371 ATTTATAAAA
81381 TATTAAATAATTTATATATTTATATTATT
1 TATTAAAT--TTTATATATTTA-ATTATT
*
81410 T-TATATATTTTATATATTATAATTATAT
1 TAT-TAAATTTTATATATT-TAATTAT-T
*
81438 T-TAAAATTTTATATATTTACA-TAGTT
1 TATTAAATTTTATATATTTA-ATTA-TT
81464 TATTAAATTTTATAT
1 TATTAAATTTTATAT
81479 TACATAAATT
Statistics
Matches: 59, Mismatches: 4, Indels: 14
0.77 0.05 0.18
Matches are distributed among these distances:
26 6 0.10
27 42 0.71
28 6 0.10
29 5 0.08
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (26 bp):
TATTAAATTTTATATATTTAATTATT
Found at i:84505 original size:2 final size:2
Alignment explanation
Indices: 84500--84529 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
84490 AAAATAAAAA
*
84500 AT AT AT AT AA 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
84530 TAAAAACTCA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:84630 original size:11 final size:11
Alignment explanation
Indices: 84614--84638 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
84604 ATATTTTCAG
84614 AATTAATTTAA
1 AATTAATTTAA
84625 AATTAATTTAA
1 AATTAATTTAA
84636 AAT
1 AAT
84639 AAAAAATAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (11 bp):
AATTAATTTAA
Found at i:84904 original size:20 final size:16
Alignment explanation
Indices: 84861--84894 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
84851 TGAATTTGTA
84861 TTATTTTAAATTTATT
1 TTATTTTAAATTTATT
84877 TTATTTTAAATTTATT
1 TTATTTTAAATTTATT
84893 TT
1 TT
84895 TTTAATTTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTTTAAATTTATT
Found at i:84909 original size:20 final size:20
Alignment explanation
Indices: 84870--84910 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
84860 ATTATTTTAA
84870 ATTTATTTTATTTTAAATTT
1 ATTTATTTTATTTTAAATTT
*
84890 ATTT-TTTTAATTTTATATTT
1 ATTTATTTT-ATTTTAAATTT
84910 A
1 A
84911 AATTATTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTATTTTATTTTAAATTT
Found at i:84918 original size:16 final size:15
Alignment explanation
Indices: 84865--84957 Score: 56
Period size: 16 Copynumber: 6.4 Consensus size: 15
84855 TTTGTATTAT
*
84865 TTTAAATTTATTTTAT
1 TTTAAA-TTATTTTAA
84881 TTTAAATTTATTTT--
1 TTTAAA-TTATTTTAA
*
84895 TTT-AATT-TTAT-A
1 TTTAAATTATTTTAA
84907 TTTAAATTA-TTTAA
1 TTTAAATTATTTTAA
* *
84921 GGTTGAATTATTTTAAA
1 -TTTAAATTATTTT-AA
*
84938 TTTAAATTA-TTAAA
1 TTTAAATTATTTTAA
84952 TTTAAA
1 TTTAAA
84958 AATATATTTA
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
11 3 0.05
12 5 0.08
13 8 0.13
14 12 0.19
15 9 0.14
16 24 0.38
17 2 0.03
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTAAATTATTTTAA
Found at i:85123 original size:19 final size:19
Alignment explanation
Indices: 85085--85123 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
85075 ACAACAGATA
* *
85085 AAATAATAAAATTTATCTT
1 AAATAATAAAAATTAACTT
*
85104 AAATTATAAAAATTAACTT
1 AAATAATAAAAATTAACTT
85123 A
1 A
85124 GAGATAATGA
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:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (19 bp):
AAATAATAAAAATTAACTT
Found at i:85573 original size:38 final size:37
Alignment explanation
Indices: 85490--85662 Score: 124
Period size: 38 Copynumber: 4.6 Consensus size: 37
85480 TATAATATAA
* * *
85490 AAATAATTATTAA-ATATATTAAAA-TATGTGTATA-T
1 AAATAATAATTAATA-ATATTAAAATTATATTTATATT
85525 ATAATAAATAATTACATAATATTAAAATTATATTTATATT
1 A-AAT-AATAATTA-ATAATATTAAAATTATATTTATATT
* * * *
85565 AAATAATAAAT-AT-ATATTAAATTTATATATATTTTT
1 AAATAATAATTAATAATATTAAAATTATATTTA-TATT
* * *
85601 GAATAATAATTAA-AATTATTGAAATTATATTTATGTT
1 AAATAATAATTAATAA-TATTAAAATTATATTTATATT
* * *
85638 TAACAATAAATTAATAAAATTAAAA
1 AAATAAT-AATTAATAATATTAAAA
85663 AATTAAAAAT
Statistics
Matches: 109, Mismatches: 17, Indels: 21
0.74 0.12 0.14
Matches are distributed among these distances:
35 17 0.16
36 17 0.16
37 17 0.16
38 42 0.39
39 14 0.13
40 2 0.02
ACGTcount: A:0.53, C:0.01, G:0.03, T:0.43
Consensus pattern (37 bp):
AAATAATAATTAATAATATTAAAATTATATTTATATT
Found at i:85582 original size:18 final size:18
Alignment explanation
Indices: 85521--85586 Score: 64
Period size: 18 Copynumber: 3.7 Consensus size: 18
85511 AAATATGTGT
* *
85521 ATATATAATAAATAATTAC
1 ATATATATTAAATAA-TAA
* *
85540 ATA-ATATTAAA-ATTAT
1 ATATATATTAAATAATAA
*
85556 ATTTATATTAAATAATAA
1 ATATATATTAAATAATAA
85574 ATATATATTAAAT
1 ATATATATTAAAT
85587 TTATATATAT
Statistics
Matches: 38, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
16 4 0.11
17 9 0.24
18 22 0.58
19 3 0.08
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATATATATTAAATAATAA
Found at i:85582 original size:35 final size:35
Alignment explanation
Indices: 85524--85659 Score: 100
Period size: 35 Copynumber: 3.9 Consensus size: 35
85514 TATGTGTATA
* *
85524 TATAATAAATAATTACATA-ATATTAAAATTATATT
1 TATATTAAATAA-TAAATATATATTAAAATTATATT
* *
85559 TATATTAAATAATAAATATATATTAAATTTATATA
1 TATATTAAATAATAAATATATATTAAAATTATATT
* * * * *
85594 TATTTTTGAATAATAATTAAAATTATTGAAATTATATT
1 TA-TATTAAATAATAAAT-ATA-TATTAAAATTATATT
* * *
85632 TATGTTTAACAATAAAT-TA-A-TAAAATTA
1 TATATTAAATAATAAATATATATTAAAATTA
85660 AAAAATTAAA
Statistics
Matches: 80, Mismatches: 17, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
32 7 0.09
33 1 0.01
34 5 0.06
35 28 0.35
36 12 0.15
37 13 0.16
38 14 0.17
ACGTcount: A:0.51, C:0.01, G:0.02, T:0.45
Consensus pattern (35 bp):
TATATTAAATAATAAATATATATTAAAATTATATT
Found at i:86274 original size:2 final size:2
Alignment explanation
Indices: 86267--86293 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
86257 AATTAATTGA
86267 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
86294 GAATTCACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:87041 original size:3 final size:3
Alignment explanation
Indices: 87033--87105 Score: 76
Period size: 3 Copynumber: 24.7 Consensus size: 3
87023 TAGAAAACTT
* * * * * *
87033 TAA TAA TAA TAA TAA TAA TAA TAA TAA T-A TTA TTA TTA TTA TTA TTA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
87080 TAA TAA TAA TAA CAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
87106 GCGAATTTTG
Statistics
Matches: 66, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
2 2 0.03
3 64 0.97
ACGTcount: A:0.58, C:0.01, G:0.00, T:0.41
Consensus pattern (3 bp):
TAA
Found at i:90211 original size:2 final size:2
Alignment explanation
Indices: 90204--90235 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
90194 CCTCTTGTCT
90204 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
90236 GAGGGATCAC
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:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:95432 original size:12 final size:12
Alignment explanation
Indices: 95415--95454 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
95405 TGTATGCCAG
95415 TATATAAATAAA
1 TATATAAATAAA
*
95427 TATAT--ATATA
1 TATATAAATAAA
95437 TATATAAATAAA
1 TATATAAATAAA
95449 TATATA
1 TATATA
95455 TGAAAGAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 9 0.38
12 15 0.62
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (12 bp):
TATATAAATAAA
Found at i:95438 original size:18 final size:18
Alignment explanation
Indices: 95415--95455 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
95405 TGTATGCCAG
*
95415 TATATAAATAAATATATA
1 TATATAAATAAATAAATA
*
95433 TATATATATAAATAAATA
1 TATATAAATAAATAAATA
95451 TATAT
1 TATAT
95456 GAAAGAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (18 bp):
TATATAAATAAATAAATA
Found at i:109410 original size:2 final size:2
Alignment explanation
Indices: 109405--109455 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
109395 GTGTGTGTAT
*
109405 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC TC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
*
109447 TC AC AC AC A
1 AC AC AC AC A
109456 TACATACATA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.47, C:0.49, G:0.00, T:0.04
Consensus pattern (2 bp):
AC
Found at i:110369 original size:21 final size:19
Alignment explanation
Indices: 110330--110382 Score: 63
Period size: 21 Copynumber: 2.7 Consensus size: 19
110320 TTAGCTAGTT
110330 TTTATATTTTT-TTAAATA
1 TTTATATTTTTATTAAATA
110348 TTTATATTTTTATGTGAAATA
1 TTTATATTTTTAT-T-AAATA
* *
110369 TTTTTATTATTATT
1 TTTATATTTTTATT
110383 GTAATAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 11 0.37
19 1 0.03
20 2 0.07
21 16 0.53
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTATATTTTTATTAAATA
Found at i:110603 original size:16 final size:16
Alignment explanation
Indices: 110573--110619 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
110563 TAAAAATTAA
*
110573 AAATTAAATTATTATTT
1 AAATT-AATTTTTATTT
110590 AAATTAATTTTTATTT
1 AAATTAATTTTTATTT
*
110606 AATTTAATATTTTA
1 AAATTAAT-TTTTA
110620 CATATATAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 17 0.63
17 10 0.37
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
AAATTAATTTTTATTT
Found at i:111115 original size:14 final size:14
Alignment explanation
Indices: 111105--111134 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
111095 CATATATGTG
111105 TCTATATATATATA
1 TCTATATATATATA
*
111119 TTTATATATATATA
1 TCTATATATATATA
111133 TC
1 TC
111135 AATTTTGGGC
Statistics
Matches: 14, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.40, C:0.07, G:0.00, T:0.53
Consensus pattern (14 bp):
TCTATATATATATA
Found at i:115074 original size:25 final size:26
Alignment explanation
Indices: 115033--115082 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
115023 TTCATTACCG
115033 TTAAACTTTAAACTAATATATTTGAC
1 TTAAACTTTAAACTAATATATTTGAC
* *
115059 TTAAAC-TTAAATTAATGTATTTGA
1 TTAAACTTTAAACTAATATATTTGA
115083 TTGAAGTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.42, C:0.08, G:0.06, T:0.44
Consensus pattern (26 bp):
TTAAACTTTAAACTAATATATTTGAC
Found at i:115795 original size:17 final size:18
Alignment explanation
Indices: 115773--115806 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
115763 ATTTTTTTAA
115773 AAAAATTATCA-TGATAT
1 AAAAATTATCAGTGATAT
*
115790 AAAAATTTTCAGTGATA
1 AAAAATTATCAGTGATA
115807 AAGTTTATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.50, C:0.06, G:0.09, T:0.35
Consensus pattern (18 bp):
AAAAATTATCAGTGATAT
Found at i:117332 original size:2 final size:2
Alignment explanation
Indices: 117325--117406 Score: 74
Period size: 2 Copynumber: 41.0 Consensus size: 2
117315 ATTTTTATGC
** * *
117325 AT AT AT AT AT AT AT AT GC GT GT 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
* * * * * *
117367 GT GT GT GT GT GT 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
117407 TCTTATAACT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.39, C:0.01, G:0.11, T:0.49
Consensus pattern (2 bp):
AT
Found at i:117361 original size:26 final size:26
Alignment explanation
Indices: 117325--117392 Score: 100
Period size: 26 Copynumber: 2.6 Consensus size: 26
117315 ATTTTTATGC
117325 ATATATATATATATATGCGTGTATAT
1 ATATATATATATATATGCGTGTATAT
* * *
117351 ATATATATATATATATGTGTGTGTGT
1 ATATATATATATATATGCGTGTATAT
*
117377 GTATATATATATATAT
1 ATATATATATATATAT
117393 ATATATATAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 38 1.00
ACGTcount: A:0.37, C:0.01, G:0.13, T:0.49
Consensus pattern (26 bp):
ATATATATATATATATGCGTGTATAT
Found at i:118716 original size:25 final size:24
Alignment explanation
Indices: 118671--118717 Score: 67
Period size: 25 Copynumber: 1.9 Consensus size: 24
118661 AATGCCTTTT
118671 TTTAATTTAAATTTAAATATAAAA
1 TTTAATTTAAATTTAAATATAAAA
* *
118695 TTTATTTTAAAATTTAAGTATAA
1 TTTAATTT-AAATTTAAATATAA
118718 TTTTGTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (24 bp):
TTTAATTTAAATTTAAATATAAAA
Found at i:119915 original size:7 final size:7
Alignment explanation
Indices: 119878--119963 Score: 52
Period size: 7 Copynumber: 12.1 Consensus size: 7
119868 AGGTTGCTCA
*
119878 TAATATA
1 TAATATT
119885 TAATATTT
1 TAATA-TT
119893 TAATATT
1 TAATATT
*
119900 TTA-ATT
1 TAATATT
119906 TAATATT
1 TAATATT
119913 TAATAATT
1 TAAT-ATT
*
119921 TAAAATT
1 TAATATT
*
119928 T-TTATT
1 TAATATT
*
119934 AAAT-TT
1 TAATATT
*
119940 TAAAATAT
1 TAATAT-T
*
119948 AAATAATT
1 TAAT-ATT
119956 TAATATT
1 TAATATT
119963 T
1 T
119964 TTTATGTTCA
Statistics
Matches: 59, Mismatches: 13, Indels: 14
0.69 0.15 0.16
Matches are distributed among these distances:
6 12 0.20
7 26 0.44
8 19 0.32
9 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (7 bp):
TAATATT
Found at i:119916 original size:20 final size:21
Alignment explanation
Indices: 119885--119923 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
119875 TCATAATATA
*
119885 TAATATTTTAATATTTTAATT
1 TAATATTTTAATAATTTAATT
119906 TAATA-TTTAATAATTTAA
1 TAATATTTTAATAATTTAA
119924 AATTTTTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 12 0.71
21 5 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TAATATTTTAATAATTTAATT
Found at i:119916 original size:28 final size:28
Alignment explanation
Indices: 119878--119959 Score: 78
Period size: 28 Copynumber: 3.0 Consensus size: 28
119868 AGGTTGCTCA
* * *
119878 TAATATATAATATTTTAATATTTTAATT
1 TAATATTTAATAATTTAAAATTTTAATT
*
119906 TAATATTTAATAATTTAAAATTTTTATT
1 TAATATTTAATAATTTAAAATTTTAATT
* * *
119934 AAAT-TTTAA-AATATAAATAATTTAAT
1 TAATATTTAATAATTTAAA-ATTTTAAT
119960 ATTTTTTATG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
26 7 0.16
27 11 0.24
28 27 0.60
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
TAATATTTAATAATTTAAAATTTTAATT
Found at i:120975 original size:19 final size:22
Alignment explanation
Indices: 120945--121003 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 22
120935 TAACATGATT
120945 TAAATTATTATTTAAA-TAATTA
1 TAAA-TATTATTTAAATTAATTA
120967 -AAA-ATTATTTAAATTTAATTA
1 TAAATATTATTTAAA-TTAATTA
120988 TAAATATTATTATAAA
1 TAAATATTATT-TAAA
121004 ATAAATTTTA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
19 10 0.31
21 9 0.28
22 3 0.09
23 6 0.19
24 4 0.12
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (22 bp):
TAAATATTATTTAAATTAATTA
Found at i:120999 original size:12 final size:12
Alignment explanation
Indices: 120945--121003 Score: 51
Period size: 12 Copynumber: 5.3 Consensus size: 12
120935 TAACATGATT
120945 TAAATTATTATT-
1 TAAA-TATTATTA
120957 TAAATA--ATTA
1 TAAATATTATTA
120967 -AAA-ATTATT-
1 TAAATATTATTA
120976 TAAAT-TTAATTA
1 TAAATATT-ATTA
120988 TAAATATTATTA
1 TAAATATTATTA
121000 TAAA
1 TAAA
121004 ATAAATTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 16
0.71 0.00 0.29
Matches are distributed among these distances:
8 1 0.03
9 6 0.15
10 8 0.21
11 5 0.13
12 17 0.44
13 2 0.05
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TAAATATTATTA
Found at i:121225 original size:25 final size:26
Alignment explanation
Indices: 121197--121249 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 26
121187 ATATAAATTC
*
121197 ATATTTAAAT-ATACGTAAAAAATAA
1 ATATTAAAATAATACGTAAAAAATAA
*
121222 ATATTAAAATAAATACTTAAAAAATAA
1 ATATTAAAAT-AATACGTAAAAAATAA
121249 A
1 A
121250 AAAATTCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 9 0.38
27 15 0.62
ACGTcount: A:0.64, C:0.04, G:0.02, T:0.30
Consensus pattern (26 bp):
ATATTAAAATAATACGTAAAAAATAA
Found at i:121232 original size:12 final size:13
Alignment explanation
Indices: 121215--121243 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
121205 ATATACGTAA
121215 AAAATAAATA-TT
1 AAAATAAATACTT
121227 AAAATAAATACTT
1 AAAATAAATACTT
121240 AAAA
1 AAAA
121244 AATAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (13 bp):
AAAATAAATACTT
Found at i:121247 original size:15 final size:15
Alignment explanation
Indices: 121207--121249 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 15
121197 ATATTTAAAT
*
121207 ATACGTAAAAAATAA
1 ATACTTAAAAAATAA
121222 ATA-TT--AAAATAA
1 ATACTTAAAAAATAA
121234 ATACTTAAAAAATAA
1 ATACTTAAAAAATAA
121249 A
1 A
121250 AAAATTCGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
12 10 0.42
13 2 0.08
14 1 0.04
15 11 0.46
ACGTcount: A:0.67, C:0.05, G:0.02, T:0.26
Consensus pattern (15 bp):
ATACTTAAAAAATAA
Found at i:122321 original size:18 final size:18
Alignment explanation
Indices: 122285--122323 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 18
122275 CATTTTACAG
122285 TTTAAAAAATATTAAAATA
1 TTTAAAAAATATT-AAATA
122304 TTTAAAAATATATT-AATA
1 TTTAAAAA-ATATTAAATA
122322 TT
1 TT
122324 AATATTTACA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.32
19 8 0.42
20 5 0.26
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (18 bp):
TTTAAAAAATATTAAATA
Found at i:122339 original size:22 final size:22
Alignment explanation
Indices: 122311--122353 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
122301 ATATTTAAAA
122311 ATATATTAAT-ATTAATATTTAC
1 ATATATTAATAATTAA-ATTTAC
*
122333 ATATATTTATAATTAAATTTA
1 ATATATTAATAATTAAATTTA
122354 AATAAAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATATTAATAATTAAATTTAC
Found at i:122413 original size:15 final size:15
Alignment explanation
Indices: 122369--122413 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
122359 AAATTTTATT
122369 AATTAAATAATAATTTA
1 AATTAAATAA-AA-TTA
*
122386 AATTAAATTAAATTA
1 AATTAAATAAAATTA
*
122401 AATTCAATAAAAT
1 AATTAAATAAAAT
122414 AAAAAATATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
15 14 0.56
16 2 0.08
17 9 0.36
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (15 bp):
AATTAAATAAAATTA
Found at i:122774 original size:34 final size:36
Alignment explanation
Indices: 122736--122807 Score: 85
Period size: 34 Copynumber: 2.1 Consensus size: 36
122726 ATTAATTTTA
*
122736 TAAATATAAATACAATATAA-AT-CATTAAATATAT
1 TAAATATAAATAAAATATAATATACATTAAATATAT
* ** *
122770 TAAATTTTTATAAAATATAATATATATTAAATATAT
1 TAAATATAAATAAAATATAATATACATTAAATATAT
122806 TA
1 TA
122808 TATTGTATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
34 16 0.52
35 2 0.06
36 13 0.42
ACGTcount: A:0.56, C:0.03, G:0.00, T:0.42
Consensus pattern (36 bp):
TAAATATAAATAAAATATAATATACATTAAATATAT
Found at i:123225 original size:2 final size:2
Alignment explanation
Indices: 123218--123252 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
123208 CCTTATCCTA
123218 AT AT AT AT AT AT AT AT AT AT -T 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
123253 GCTAGTACAT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Done.