Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold21
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: 2821038
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.33
Warning! 98422 characters in sequence are not A, C, G, or T
File 1 of 15
Found at i:118 original size:21 final size:20
Alignment explanation
Indices: 92--141 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
82 TCTCCCCCCC
92 CCTCCCTTCTTCCCCCTTTTT
1 CCTCCCTTCTTCCCCC-TTTT
**
113 CCTCCCCCCTT-CCCCTTTT
1 CCTCCCTTCTTCCCCCTTTT
132 CTCTCCCTTC
1 C-CTCCCTTC
142 CTCTCCCCCC
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 5 0.21
20 10 0.42
21 9 0.38
ACGTcount: A:0.00, C:0.58, G:0.00, T:0.42
Consensus pattern (20 bp):
CCTCCCTTCTTCCCCCTTTT
Found at i:238 original size:19 final size:20
Alignment explanation
Indices: 216--254 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
206 CTCTTCTTTT
*
216 TCTTTTTTTCCCC-CCCCCC
1 TCTTTTTCTCCCCTCCCCCC
235 TCTTTTTCTCCCCTCCCCCC
1 TCTTTTTCTCCCCTCCCCCC
255 CCCCTTTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.00, C:0.59, G:0.00, T:0.41
Consensus pattern (20 bp):
TCTTTTTCTCCCCTCCCCCC
Found at i:359 original size:28 final size:27
Alignment explanation
Indices: 269--363 Score: 83
Period size: 28 Copynumber: 3.6 Consensus size: 27
259 TTTTCTTTTC
269 CCTCCTCTCTT-TTT-TTCTTTCC-CT
1 CCTCCTCTCTTCTTTCTTCTTTCCTCT
* * *
293 CC-CCTCCCCTTCTTGTCCTCTCTCCTCT
1 CCTCCT-CTCTTCTT-TCTTCTTTCCTCT
*
321 -CTCCCCTTCTTCTCTTCTTCTTTCCTCT
1 CCTCCTC-TCTTCT-TTCTTCTTTCCTCT
349 CCTCCTCTCTTCTTT
1 CCTCCTCTCTTCTTT
364 TTCCCCCCCT
Statistics
Matches: 54, Mismatches: 8, Indels: 15
0.70 0.10 0.19
Matches are distributed among these distances:
23 3 0.06
24 6 0.11
25 2 0.04
26 1 0.02
27 10 0.19
28 26 0.48
29 6 0.11
ACGTcount: A:0.00, C:0.48, G:0.01, T:0.51
Consensus pattern (27 bp):
CCTCCTCTCTTCTTTCTTCTTTCCTCT
Found at i:422 original size:21 final size:20
Alignment explanation
Indices: 374--424 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
364 TTCCCCCCCT
**
374 CCCCCCCCCTCTTTTTCCTC
1 CCCCCCCCCTCTTCCTCCTC
*
394 CTCTCCCCCCTCTTCCTCCTTC
1 C-CCCCCCCCTCTTCCTCC-TC
416 CCCCCCCCC
1 CCCCCCCCC
425 CCCCCCTCCC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 21 0.84
22 3 0.12
ACGTcount: A:0.00, C:0.71, G:0.00, T:0.29
Consensus pattern (20 bp):
CCCCCCCCCTCTTCCTCCTC
Found at i:445 original size:21 final size:21
Alignment explanation
Indices: 421--461 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
411 CCTTCCCCCC
421 CCCCCCCCCCTCCCCCCCTTT
1 CCCCCCCCCCTCCCCCCCTTT
* *
442 CCCCTCCTCCTCCCCCCCTT
1 CCCCCCCCCCTCCCCCCCTT
462 CTTTTTCCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.78, G:0.00, T:0.22
Consensus pattern (21 bp):
CCCCCCCCCCTCCCCCCCTTT
Found at i:844 original size:19 final size:20
Alignment explanation
Indices: 802--845 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
792 TTCCCCTATA
*
802 CCCCCTCCCCCCCCTCCCTC
1 CCCCCTCCCCCCCCTCCATC
* *
822 CCCCTTCCCCCCCC-CCATT
1 CCCCCTCCCCCCCCTCCATC
841 CCCCC
1 CCCCC
846 ACCTTCTTTT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.02, C:0.82, G:0.00, T:0.16
Consensus pattern (20 bp):
CCCCCTCCCCCCCCTCCATC
Found at i:850 original size:23 final size:22
Alignment explanation
Indices: 808--851 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
798 TATACCCCCT
*
808 CCCCCCCCTCCCTCCCCCTTCC
1 CCCCCCCCTCCCTCCACCTTCC
830 CCCCCCCCATTCCC-CCACCTTC
1 CCCCCCCC--TCCCTCCACCTTC
852 TTTTCCACTT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.42
23 7 0.37
24 4 0.21
ACGTcount: A:0.05, C:0.77, G:0.00, T:0.18
Consensus pattern (22 bp):
CCCCCCCCTCCCTCCACCTTCC
Found at i:1394 original size:15 final size:16
Alignment explanation
Indices: 1374--1404 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1364 ACACCCATCC
1374 AAATATCCA-AAAAAA
1 AAATATCCATAAAAAA
1389 AAATATCCATAAAAAA
1 AAATATCCATAAAAAA
1405 TAACAAAGCC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.60
16 6 0.40
ACGTcount: A:0.71, C:0.13, G:0.00, T:0.16
Consensus pattern (16 bp):
AAATATCCATAAAAAA
Found at i:2767 original size:14 final size:14
Alignment explanation
Indices: 2748--2792 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
2738 ATTAATTTAT
2748 TATAAATTTAAAAA
1 TATAAATTTAAAAA
2762 TATAAATATT-AAAA
1 TATAAAT-TTAAAAA
*
2776 TATTAAATTTAATAA
1 TA-TAAATTTAAAAA
2791 TA
1 TA
2793 CACAAATTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 15 0.56
15 12 0.44
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
TATAAATTTAAAAA
Found at i:2792 original size:29 final size:29
Alignment explanation
Indices: 2750--2805 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
2740 TAATTTATTA
*
2750 TAAATTTAAAAATATA-AATATTAAAATAT
1 TAAATTTAAAAATACACAA-ATTAAAATAT
*
2779 TAAATTTAATAATACACAAATTAAAAT
1 TAAATTTAAAAATACACAAATTAAAAT
2806 GTACTTTCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 22 0.92
30 2 0.08
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.36
Consensus pattern (29 bp):
TAAATTTAAAAATACACAAATTAAAATAT
Found at i:4302 original size:2 final size:2
Alignment explanation
Indices: 4295--4326 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
4285 TATTATATTT
*
4295 TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
4327 GCTTTCACTA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:4661 original size:16 final size:16
Alignment explanation
Indices: 4604--4677 Score: 58
Period size: 16 Copynumber: 4.2 Consensus size: 16
4594 TAAATTTAAA
4604 TATATATTTAATATAAT
1 TATATATTTAA-ATAAT
* *
4621 TATTACATTTATTAATATTT
1 TA-TATATTTA--AATA-AT
4641 GTATATATTTAAATAAT
1 -TATATATTTAAATAAT
* *
4658 TATATTTTTATATAAT
1 TATATATTTAAATAAT
4674 TATA
1 TATA
4678 ATTATATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 11
0.73 0.10 0.17
Matches are distributed among these distances:
16 18 0.39
17 3 0.07
18 11 0.24
19 3 0.07
20 9 0.20
21 2 0.04
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (16 bp):
TATATATTTAAATAAT
Found at i:4685 original size:16 final size:16
Alignment explanation
Indices: 4653--4687 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4643 ATATATTTAA
* *
4653 ATAATTATATTTTTAT
1 ATAATTATAATTATAT
4669 ATAATTATAATTATAT
1 ATAATTATAATTATAT
4685 ATA
1 ATA
4688 TTAAATATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATAATTATAATTATAT
Found at i:4686 original size:40 final size:37
Alignment explanation
Indices: 4589--4694 Score: 101
Period size: 39 Copynumber: 2.8 Consensus size: 37
4579 AATTTAGATG
4589 TTTATTAA-ATTTAAATATATATTTAATATAATTATTACA
1 TTTATTAATATTT--ATATATATTTAA-ATAATTATTACA
* **
4628 TTTATTAATATTTGTATATATTTAAATAATTA-TATT
1 TTTATTAATATTTATATATATTTAAATAATTATTACA
4664 TTTATATAATTATAATTATATATA-TTAAATA
1 TTTAT-TAA-TAT--TTATATATATTTAAATA
4695 TAAATATTTT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
36 7 0.12
37 10 0.17
38 14 0.24
39 15 0.26
40 12 0.21
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (37 bp):
TTTATTAATATTTATATATATTTAAATAATTATTACA
Found at i:5033 original size:16 final size:16
Alignment explanation
Indices: 5008--5038 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4998 ATTATTAACA
*
5008 TAAAATTAAAAATAAT
1 TAAAAATAAAAATAAT
5024 TAAAAATAAAAATAA
1 TAAAAATAAAAATAA
5039 ATTTATAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
TAAAAATAAAAATAAT
Found at i:8463 original size:12 final size:13
Alignment explanation
Indices: 8442--8470 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
8432 ATATAAAAAC
8442 AATTATAAAATTT
1 AATTATAAAATTT
8455 AATTA-AAAATTT
1 AATTATAAAATTT
8467 AATT
1 AATT
8471 TTATTAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
AATTATAAAATTT
Found at i:8476 original size:17 final size:17
Alignment explanation
Indices: 8450--8495 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
8440 ACAATTATAA
*
8450 AATTTAATTAAAAATTT
1 AATTTTATTAAAAATTT
*
8467 AATTTTATTAAATA-TT
1 AATTTTATTAAAAATTT
8483 -ATTTT-TTAAAAAT
1 AATTTTATTAAAAAT
8496 AATCGAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 6 0.24
15 5 0.20
16 2 0.08
17 12 0.48
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
AATTTTATTAAAAATTT
Found at i:9475 original size:34 final size:34
Alignment explanation
Indices: 9430--9613 Score: 237
Period size: 34 Copynumber: 5.4 Consensus size: 34
9420 TAAAAACCAA
*
9430 CATTTAATCAACAATGGCAACCTACCAAATCTCC
1 CATTTAATCAACAATGGTAACCTACCAAATCTCC
* * *
9464 TATTTAGTCAACAATGGTAAACC-ACCAAATCACC
1 CATTTAATCAACAATGGT-AACCTACCAAATCTCC
* * *
9498 CATTTAATCAATAATGGTAAGCTACCAAATCTCT
1 CATTTAATCAACAATGGTAACCTACCAAATCTCC
* *
9532 CATTTAATCAACAATGGTAAGCTACCAAATTTCC
1 CATTTAATCAACAATGGTAACCTACCAAATCTCC
* * *
9566 CATTTAGTCAACAATGGTAAACTACCAAATC-AC
1 CATTTAATCAACAATGGTAACCTACCAAATCTCC
9599 CATTTAATCAACAAT
1 CATTTAATCAACAAT
9614 TCTCCCACTT
Statistics
Matches: 130, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
33 18 0.14
34 108 0.83
35 4 0.03
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (34 bp):
CATTTAATCAACAATGGTAACCTACCAAATCTCC
Found at i:14070 original size:34 final size:34
Alignment explanation
Indices: 14025--14206 Score: 233
Period size: 34 Copynumber: 5.4 Consensus size: 34
14015 TAAAAACCAA
*
14025 CATTTAATCAACAATGGCAACCTACCAAATCTCC
1 CATTTAATCAACAATGGTAACCTACCAAATCTCC
* *
14059 CATTTAGTCAACAATGGTAAACC-ACCAAATCACC
1 CATTTAATCAACAATGGT-AACCTACCAAATCTCC
* **
14093 CATTTAATCAATAATGGTAAGTTACCAAATCTCC
1 CATTTAATCAACAATGGTAACCTACCAAATCTCC
* * *
14127 CATTTAATCAACAATGGTAAGCTATCAAATTTCC
1 CATTTAATCAACAATGGTAACCTACCAAATCTCC
* * *
14161 CATTTAGTCAACAATGGTAAACTACCAAATC-AC
1 CATTTAATCAACAATGGTAACCTACCAAATCTCC
14194 CATTTAATCAACA
1 CATTTAATCAACA
14207 TTTTCGGCCT
Statistics
Matches: 128, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
33 15 0.12
34 109 0.85
35 4 0.03
ACGTcount: A:0.40, C:0.25, G:0.08, T:0.27
Consensus pattern (34 bp):
CATTTAATCAACAATGGTAACCTACCAAATCTCC
Found at i:14571 original size:22 final size:22
Alignment explanation
Indices: 14546--14589 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
14536 TATCAAAAAT
14546 TATATTTTTAT-ATTAATATTAA
1 TATATTTTTATAATTAA-ATTAA
14568 TATATTTTTATAATTAAATTAA
1 TATATTTTTATAATTAAATTAA
14590 AAAAATATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 16 0.76
23 5 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATATTTTTATAATTAAATTAA
Found at i:18132 original size:2 final size:2
Alignment explanation
Indices: 18125--18165 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
18115 CAAAGCAATT
18125 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
18166 AGAAGGGAAG
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:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:18900 original size:3 final size:3
Alignment explanation
Indices: 18892--18931 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
18882 CTCTTTTTAA
18892 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
18932 TATGTATTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:19311 original size:20 final size:21
Alignment explanation
Indices: 19273--19318 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
19263 CTCAGTTAAA
19273 AAATTTATATAAAAATAAAAT
1 AAATTTATATAAAAATAAAAT
* * *
19294 AAATTT-TATAATATTAAATT
1 AAATTTATATAAAAATAAAAT
19314 AAATT
1 AAATT
19319 AAGATATTTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 16 0.73
21 6 0.27
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (21 bp):
AAATTTATATAAAAATAAAAT
Found at i:19614 original size:19 final size:18
Alignment explanation
Indices: 19572--19620 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
19562 AAAGATAGAA
19572 TTAA-AATTAATTAAAAC
1 TTAATAATTAATTAAAAC
* *
19589 TTAATAATTTAATTAAGAT
1 TTAATAA-TTAATTAAAAC
*
19608 TTTATAATTAATT
1 TTAATAATTAATT
19621 TTTTATAATA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
17 4 0.15
18 8 0.30
19 15 0.56
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
TTAATAATTAATTAAAAC
Found at i:21541 original size:24 final size:24
Alignment explanation
Indices: 21475--21542 Score: 79
Period size: 24 Copynumber: 2.9 Consensus size: 24
21465 TATATTATTA
*
21475 AAATATTATTTTA-TATTAATATTT
1 AAATAATATTTTATTATTAA-ATTT
* *
21499 ATAT-AT-TTTTATAATTAAATTT
1 AAATAATATTTTATTATTAAATTT
21521 AAATAATATTTTATTATTAAAT
1 AAATAATATTTTATTATTAAAT
21543 AATAATTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 6
0.77 0.11 0.13
Matches are distributed among these distances:
22 12 0.33
23 8 0.22
24 16 0.44
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (24 bp):
AAATAATATTTTATTATTAAATTT
Found at i:21858 original size:14 final size:14
Alignment explanation
Indices: 21807--21851 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
21797 TTTTAAAAAA
*
21807 TAATATTTAATAGATT
1 TAATATTTAA-A-TTT
*
21823 TAAAATTTAAATTT
1 TAATATTTAAATTT
21837 TAATATTTAAATTT
1 TAATATTTAAATTT
21851 T
1 T
21852 TTTATTTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 16 0.62
15 1 0.04
16 9 0.35
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (14 bp):
TAATATTTAAATTT
Found at i:22206 original size:26 final size:29
Alignment explanation
Indices: 22170--22230 Score: 83
Period size: 26 Copynumber: 2.2 Consensus size: 29
22160 AATGATATTA
22170 TTTATTTTTTA-AAAAATATA-AAT-AAT
1 TTTATTTTTTATAAAAATATATAATCAAT
* *
22196 TTTATTTTTTATAAAATTATATAATCTAT
1 TTTATTTTTTATAAAAATATATAATCAAT
22225 TTTATT
1 TTTATT
22231 AATATTATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
26 11 0.37
27 8 0.27
28 3 0.10
29 8 0.27
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (29 bp):
TTTATTTTTTATAAAAATATATAATCAAT
Found at i:23311 original size:25 final size:24
Alignment explanation
Indices: 23266--23347 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 24
23256 CAGTGTATAT
*
23266 ATTA-TTTTATATATAATATTTTA
1 ATTATTTTTATATTTAATATTTTA
23289 ATTATTTTTATAATTTAATATTTATA
1 ATTATTTTTAT-ATTTAATATTT-TA
* * **
23315 CTATATTTTAATATTTTTTATTTTA
1 AT-TATTTTTATATTTAATATTTTA
23340 CATTATTT
1 -ATTATTT
23348 ATCATATTAA
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
23 4 0.08
24 6 0.12
25 17 0.35
26 13 0.27
27 8 0.17
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (24 bp):
ATTATTTTTATATTTAATATTTTA
Found at i:23322 original size:36 final size:36
Alignment explanation
Indices: 23281--23349 Score: 97
Period size: 36 Copynumber: 1.9 Consensus size: 36
23271 TTTATATATA
23281 ATATTTTAATTATTTTTATAATTTA-A-TATTTATACT
1 ATATTTTAA-TATTTTT-TAATTTACATTATTTATACT
*
23317 ATATTTTAATATTTTTTATTTTACATTATTTAT
1 ATATTTTAATATTTTTTAATTTACATTATTTAT
23350 CATATTAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 6 0.20
35 8 0.27
36 16 0.53
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (36 bp):
ATATTTTAATATTTTTTAATTTACATTATTTATACT
Found at i:23324 original size:19 final size:16
Alignment explanation
Indices: 23281--23339 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 16
23271 TTTATATATA
23281 ATATTTTAATTATTTTT
1 ATATTTTAA-TATTTTT
*
23298 ATAATTTAATATTTATACT
1 ATATTTTAATATTT-T--T
23317 ATATTTTAATATTTTT
1 ATATTTTAATATTTTT
23333 -TATTTTA
1 ATATTTTA
23340 CATTATTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
15 7 0.19
16 6 0.16
17 9 0.24
18 1 0.03
19 14 0.38
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (16 bp):
ATATTTTAATATTTTT
Found at i:23330 original size:8 final size:8
Alignment explanation
Indices: 23279--23331 Score: 52
Period size: 8 Copynumber: 6.1 Consensus size: 8
23269 ATTTTATATA
23279 TAATATTT
1 TAATATTT
23287 TAATTATTT
1 TAA-TATTT
* *
23296 TTATAATT
1 TAATATTT
23304 TAATATTT
1 TAATATTT
23312 ATACTATATTT
1 -TA--ATATTT
23323 TAATATTT
1 TAATATTT
23331 T
1 T
23332 TTATTTTACA
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 20 0.54
9 9 0.24
10 2 0.05
11 6 0.16
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (8 bp):
TAATATTT
Found at i:23978 original size:15 final size:15
Alignment explanation
Indices: 23958--23989 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
23948 GGAGGAGGAA
23958 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
*
23973 AAAAAAAGAAAAAAG
1 AAAAAAAAAAAAAAG
23988 AA
1 AA
23990 TTGCTAAAGA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.91, C:0.00, G:0.09, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:33337 original size:2 final size:2
Alignment explanation
Indices: 33330--33357 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
33320 TTTAACTCCT
33330 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
33358 ATGTGTTGTC
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:36005 original size:15 final size:16
Alignment explanation
Indices: 35985--36018 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
35975 GTTTTTGGAG
35985 TTAATTGATTTTTT-T
1 TTAATTGATTTTTTAT
*
36000 TTAATTTATTTTTTAT
1 TTAATTGATTTTTTAT
36016 TTA
1 TTA
36019 CCGATTTTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTAATTGATTTTTTAT
Found at i:37771 original size:10 final size:10
Alignment explanation
Indices: 37756--37791 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
37746 GCCTTTCTCT
37756 ATTATTTTTC
1 ATTATTTTTC
*
37766 ATTATTTTTA
1 ATTATTTTTC
37776 ATATATTTTTC
1 AT-TATTTTTC
37787 ATTAT
1 ATTAT
37792 GTATAGGATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.67
Consensus pattern (10 bp):
ATTATTTTTC
Found at i:41325 original size:2 final size:2
Alignment explanation
Indices: 41309--41348 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
41299 TGAAGGCCAC
*
41309 AT AT A- AT AT -T AT AT AT AT AT AT AT AT AT AT GT 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
41349 TACGTATTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
1 2 0.06
2 32 0.94
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:42107 original size:17 final size:18
Alignment explanation
Indices: 42073--42108 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
42063 AAAAATTAAA
42073 AAATAAATATACTCATATT
1 AAATAAATATA-TCATATT
42092 AAATAAATAT-TCATATT
1 AAATAAATATATCATATT
42109 CGATACTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.41
19 10 0.59
ACGTcount: A:0.53, C:0.08, G:0.00, T:0.39
Consensus pattern (18 bp):
AAATAAATATATCATATT
Found at i:47512 original size:20 final size:20
Alignment explanation
Indices: 47483--47521 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
47473 TTATTTTTTT
47483 ATTTTTTTAATTAA-AAGTA
1 ATTTTTTTAATTAATAAGTA
47502 ATTTATTTTAATTAATAAGT
1 ATTT-TTTTAATTAATAAGT
47522 GTGAAAAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 4 0.22
20 10 0.56
21 4 0.22
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
ATTTTTTTAATTAATAAGTA
Found at i:47944 original size:28 final size:28
Alignment explanation
Indices: 47891--47956 Score: 89
Period size: 29 Copynumber: 2.4 Consensus size: 28
47881 AATATTATGC
* *
47891 ATAAAAAATTTATTTTTGATACATAAATA
1 ATAAAAAATTTAATTTTGATAAATAAA-A
47920 ATAAAAAATTTAATTTT-ATAAATAAAA
1 ATAAAAAATTTAATTTTGATAAATAAAA
*
47947 TTAAAAAATT
1 ATAAAAAATT
47957 ACTATATATT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 10 0.29
28 8 0.24
29 16 0.47
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (28 bp):
ATAAAAAATTTAATTTTGATAAATAAAA
Found at i:48009 original size:39 final size:41
Alignment explanation
Indices: 47927--48015 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 41
47917 ATAATAAAAA
*
47927 ATTTAATTTTATAAATAAAATTAAAAAATTACTATATATTTT
1 ATTT-ATTTTATAAATAAAATTAAAAAATTACTATATACTTT
* *
47969 ATTTATTTT-TAAATATATTTAAAAAA-TA-TATATTACTTT
1 ATTTATTTTATAAATAAAATTAAAAAATTACTATA-TACTTT
*
48008 ATTAATTT
1 ATTTATTT
48016 ATTTGCAGAG
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
38 4 0.10
39 14 0.33
40 15 0.36
41 5 0.12
42 4 0.10
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (41 bp):
ATTTATTTTATAAATAAAATTAAAAAATTACTATATACTTT
Found at i:49420 original size:2 final size:2
Alignment explanation
Indices: 49413--49437 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
49403 ACATCACAAG
49413 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 T
49438 GAAATTTACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:51702 original size:20 final size:21
Alignment explanation
Indices: 51674--51712 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
51664 CATCCATAAC
*
51674 TATAATTTATATTT-TTTACT
1 TATAATTTAAATTTGTTTACT
*
51694 TATATTTTAAATTTGTTTA
1 TATAATTTAAATTTGTTTA
51713 TGTGTTGAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (21 bp):
TATAATTTAAATTTGTTTACT
Found at i:54144 original size:23 final size:23
Alignment explanation
Indices: 54112--54156 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
54102 ATTTAAAATT
* *
54112 TTATTTTATTATTTATAATAATA
1 TTATTATATTATTAATAATAATA
*
54135 TTATTATATTATTAATATTAAT
1 TTATTATATTATTAATAATAAT
54157 TTTAAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (23 bp):
TTATTATATTATTAATAATAATA
Found at i:54202 original size:53 final size:53
Alignment explanation
Indices: 54098--54216 Score: 124
Period size: 53 Copynumber: 2.3 Consensus size: 53
54088 ATTAAAATAG
* * *
54098 ATTAATTTAAAATT-TTATTTTATTATTTATAATAATATTATTATATTATTAA
1 ATTAATTTTAAATTATTATTTTATTATTTATAATAATAATATTAAATTATTAA
54150 TATTAATTTTAAATTATT-TTTTATTA-TTA-AAGTAATAAT-TTAAATTAGATTAA
1 -ATTAATTTTAAATTATTATTTTATTATTTATAA-TAATAATATTAAATT--ATTAA
*
54203 ATTGA-TTTAAATTA
1 ATTAATTTTAAATTA
54217 ATAAAATCAT
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
51 17 0.29
52 13 0.22
53 26 0.45
54 2 0.03
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.55
Consensus pattern (53 bp):
ATTAATTTTAAATTATTATTTTATTATTTATAATAATAATATTAAATTATTAA
Found at i:54699 original size:24 final size:23
Alignment explanation
Indices: 54672--54740 Score: 61
Period size: 24 Copynumber: 3.0 Consensus size: 23
54662 TTGAGAAGTA
54672 AATTTGATAATTTTAAAATAATAT
1 AATTT-ATAATTTTAAAATAATAT
**
54696 AATTATATAATATAAAAAATAA-AT
1 AATT-TATAAT-TTTAAAATAATAT
**
54720 AAAATATAA-TTTAAAATAATA
1 AATTTATAATTTTAAAATAATA
54741 CATAGTATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 8
0.72 0.12 0.16
Matches are distributed among these distances:
21 8 0.22
22 1 0.03
23 5 0.14
24 13 0.36
25 9 0.25
ACGTcount: A:0.61, C:0.00, G:0.01, T:0.38
Consensus pattern (23 bp):
AATTTATAATTTTAAAATAATAT
Found at i:54723 original size:11 final size:12
Alignment explanation
Indices: 54686--54758 Score: 58
Period size: 13 Copynumber: 5.8 Consensus size: 12
54676 TGATAATTTT
54686 AAAATAATATAA
1 AAAATAATATAA
* *
54698 TTATATAATATAA
1 -AAAATAATATAA
54711 AAAATAA-ATAA
1 AAAATAATATAA
* *
54722 AATATAATTTAA
1 AAAATAATATAA
54734 AATAATACATAGTATA
1 AA-AATA-ATA-TA-A
54750 AAAATAATA
1 AAAATAATA
54759 CTAACATGAT
Statistics
Matches: 47, Mismatches: 8, Indels: 9
0.73 0.12 0.14
Matches are distributed among these distances:
11 10 0.21
12 10 0.21
13 13 0.28
14 5 0.11
15 6 0.13
16 3 0.06
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.32
Consensus pattern (12 bp):
AAAATAATATAA
Found at i:55185 original size:17 final size:18
Alignment explanation
Indices: 55147--55190 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
55137 AAGTTTTATA
55147 AATAAAAATTTTAATATT
1 AATAAAAATTTTAATATT
*
55165 -ATAAAAATTTT-ATTTT
1 AATAAAAATTTTAATATT
55181 AATAATAAAT
1 AATAA-AAAT
55191 CAAATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 4 0.17
17 15 0.65
18 4 0.17
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
AATAAAAATTTTAATATT
Found at i:56073 original size:28 final size:30
Alignment explanation
Indices: 56042--56097 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
56032 ATATTATGAT
56042 ATATATAAAAAATAAA-TT-TTAAATATTA
1 ATATATAAAAAATAAATTTATTAAATATTA
* **
56070 ATATTTAAAATTTAAATTTATTAAATAT
1 ATATATAAAAAATAAATTTATTAAATAT
56098 GATTTTTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 13 0.57
29 2 0.09
30 8 0.35
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (30 bp):
ATATATAAAAAATAAATTTATTAAATATTA
Found at i:57178 original size:2 final size:2
Alignment explanation
Indices: 57171--57195 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
57161 TATTGGTCAA
57171 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 A
57196 AATATATATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:57600 original size:3 final size:3
Alignment explanation
Indices: 57592--57624 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
57582 AAATTCGAAA
57592 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
57625 CGCATATAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:57938 original size:13 final size:14
Alignment explanation
Indices: 57920--57948 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
57910 ATGATCTAAA
57920 AAAATTTAAAA-AT
1 AAAATTTAAAATAT
57933 AAAATTTAAAATAT
1 AAAATTTAAAATAT
57947 AA
1 AA
57949 TATAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.73
14 4 0.27
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (14 bp):
AAAATTTAAAATAT
Found at i:58025 original size:15 final size:14
Alignment explanation
Indices: 57999--58042 Score: 52
Period size: 15 Copynumber: 3.0 Consensus size: 14
57989 TGAATATATT
*
57999 AAAATTTATATAAA
1 AAAATTAATATAAA
*
58013 ATAAATTATTATATAA
1 A-AAATTAATATA-AA
58029 AAAATTAATATAAA
1 AAAATTAATATAAA
58043 TATAGAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 3 0.12
15 19 0.76
16 3 0.12
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AAAATTAATATAAA
Found at i:58045 original size:19 final size:18
Alignment explanation
Indices: 58023--58058 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
58013 ATAAATTATT
58023 ATATAAAAAATTAATATAA
1 ATATAAAAAA-TAATATAA
*
58042 ATATAGAAAATAATATA
1 ATATAAAAAATAATATA
58059 CAAAGCATGA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (18 bp):
ATATAAAAAATAATATAA
Found at i:58448 original size:3 final size:3
Alignment explanation
Indices: 58440--58465 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
58430 TCAATTACAT
58440 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
58466 TTTAGTTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:59003 original size:25 final size:25
Alignment explanation
Indices: 58950--59028 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
58940 TTAAGTTGGT
* *
58950 TTATTATTTATAATAATA-TTAATATA
1 TTATT-TTTATATTAATATTTTATA-A
58976 TTATTTTTATATTAATATTTTATAA
1 TTATTTTTATATTAATATTTTATAA
** * *
59001 TTACATTTAAATAAATATTTT-T-A
1 TTATTTTTATATTAATATTTTATAA
59024 TTATT
1 TTATT
59029 AAAATAATAA
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
23 4 0.09
24 1 0.02
25 29 0.66
26 10 0.23
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (25 bp):
TTATTTTTATATTAATATTTTATAA
Found at i:59692 original size:23 final size:21
Alignment explanation
Indices: 59666--59715 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
59656 ATTTTTATTC
59666 TTTATTTTATAAATTTATTATAA
1 TTTATTTTATAAATTT-TTA-AA
*
59689 TTTA-ATT-TAAATTTTTAAA
1 TTTATTTTATAAATTTTTAAA
59708 -TTATTTTA
1 TTTATTTTA
59716 CTAATTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 7
0.72 0.06 0.22
Matches are distributed among these distances:
18 3 0.13
19 4 0.17
20 3 0.13
21 7 0.30
22 2 0.09
23 4 0.17
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (21 bp):
TTTATTTTATAAATTTTTAAA
Found at i:59721 original size:31 final size:30
Alignment explanation
Indices: 59669--59726 Score: 73
Period size: 30 Copynumber: 1.9 Consensus size: 30
59659 TTTATTCTTT
*
59669 ATTTTATAAATTTATTATAATTTAATTTAA
1 ATTTTATAAATTTATTATAATTAAATTTAA
*
59699 ATTTT-TAAATTATTTTACTAATTAAATT
1 ATTTTATAAATT-TATTA-TAATTAAATT
59727 AATATCATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.25
30 9 0.38
31 9 0.38
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (30 bp):
ATTTTATAAATTTATTATAATTAAATTTAA
Found at i:59837 original size:19 final size:19
Alignment explanation
Indices: 59815--59856 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
59805 TAAATAAAGA
59815 TAATAACTA-ATTAAATATT
1 TAATAA-TATATTAAATATT
*
59834 TAATAATATTTTAAATATT
1 TAATAATATATTAAATATT
59853 TAAT
1 TAAT
59857 TTTAAATTCA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.10
19 19 0.90
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (19 bp):
TAATAATATATTAAATATT
Found at i:59860 original size:14 final size:16
Alignment explanation
Indices: 59841--59874 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
59831 ATTTAATAAT
59841 ATTTTAAA-T-ATTTA
1 ATTTTAAATTCATTTA
59855 ATTTTAAATTCATTTA
1 ATTTTAAATTCATTTA
59871 ATTT
1 ATTT
59875 AATTTAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 1 0.06
16 9 0.50
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTTAAATTCATTTA
Found at i:60879 original size:2 final size:2
Alignment explanation
Indices: 60874--60928 Score: 58
Period size: 2 Copynumber: 27.5 Consensus size: 2
60864 AAAAATTTTA
* * * *
60874 AT AT AT AT AT AT AT AT AT AT CT GT -T GAT CT AT TT 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
60916 AT AT AT AT AT AT A
1 AT AT AT AT AT AT A
60929 CTAAAAAAGC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
1 1 0.02
2 43 0.96
3 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (2 bp):
AT
Found at i:61660 original size:13 final size:13
Alignment explanation
Indices: 61638--61670 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
61628 AATTTGAAAA
61638 TAAA-TTAAAATT
1 TAAATTTAAAATT
61650 TAAATTTAAAATT
1 TAAATTTAAAATT
61663 T-AATTTAA
1 TAAATTTAA
61671 CTGATTCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAATTTAAAATT
Found at i:61716 original size:13 final size:14
Alignment explanation
Indices: 61700--61730 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
61690 TAATATTTAA
61700 TAAATTTAAA-ATT
1 TAAATTTAAATATT
61713 TAAATTTAAATATT
1 TAAATTTAAATATT
61727 TAAA
1 TAAA
61731 AATTTTCTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TAAATTTAAATATT
Found at i:63013 original size:18 final size:19
Alignment explanation
Indices: 62975--63014 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
62965 ATAGATAAGT
*
62975 AATATTTTAAAAGAGATAA
1 AATAATTTAAAAGAGATAA
*
62994 AATAATTTAAAATA-ATAA
1 AATAATTTAAAAGAGATAA
63012 AAT
1 AAT
63015 GTAATAGAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 7 0.37
19 12 0.63
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (19 bp):
AATAATTTAAAAGAGATAA
Found at i:63256 original size:22 final size:22
Alignment explanation
Indices: 63217--63258 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
63207 TTGATATGAA
*
63217 AGTTTTTTTAAAATTCTTTTAC
1 AGTTTTTTTAAAACTCTTTTAC
* *
63239 AGTTTTTTTTAAGCTCTTTT
1 AGTTTTTTTAAAACTCTTTT
63259 TTAGCTCCAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.21, C:0.10, G:0.07, T:0.62
Consensus pattern (22 bp):
AGTTTTTTTAAAACTCTTTTAC
Found at i:63529 original size:21 final size:20
Alignment explanation
Indices: 63499--63537 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
63489 TAATTAAATA
*
63499 TATATATTTATTACGAATATT
1 TATATATTTAATA-GAATATT
*
63520 TATATTTTTAATAGAATA
1 TATATATTTAATAGAATA
63538 ATATATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (20 bp):
TATATATTTAATAGAATATT
Found at i:64904 original size:21 final size:19
Alignment explanation
Indices: 64879--64917 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
64869 TTAGAAGAAT
64879 TTTAATTATGTTTTCTTTTTC
1 TTTAA-TAT-TTTTCTTTTTC
*
64900 TTTAATATTTTTGTTTTT
1 TTTAATATTTTTCTTTTT
64918 TTTTTGTTTT
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:0.15, C:0.05, G:0.05, T:0.74
Consensus pattern (19 bp):
TTTAATATTTTTCTTTTTC
Found at i:66208 original size:16 final size:16
Alignment explanation
Indices: 66167--66209 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
66157 CAATAACTTG
*
66167 AAACTCGAAATGATTC
1 AAACTCGAAATAATTC
* * *
66183 GAATTTGAAATAATTC
1 AAACTCGAAATAATTC
66199 AAACTCGAAAT
1 AAACTCGAAAT
66210 GATCCGGATA
Statistics
Matches: 20, Mismatches: 7, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.28
Consensus pattern (16 bp):
AAACTCGAAATAATTC
Found at i:67106 original size:16 final size:16
Alignment explanation
Indices: 67079--67132 Score: 72
Period size: 16 Copynumber: 3.4 Consensus size: 16
67069 ACCTAAATAC
* *
67079 CCGAACCTGAAATTAT
1 CCGAACCCGAAATAAT
*
67095 CCGAATCCGAAATAAT
1 CCGAACCCGAAATAAT
*
67111 CCAAACCCGAAATAAT
1 CCGAACCCGAAATAAT
67127 CCGAAC
1 CCGAAC
67133 TCAAATGACC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 32 1.00
ACGTcount: A:0.43, C:0.30, G:0.11, T:0.17
Consensus pattern (16 bp):
CCGAACCCGAAATAAT
Found at i:67249 original size:2 final size:2
Alignment explanation
Indices: 67242--67268 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
67232 AGTCACAACA
67242 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
67269 ATGTTGAAGG
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:68431 original size:7 final size:7
Alignment explanation
Indices: 68421--68446 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
68411 AATTTTATTT
68421 TTTAAAA
1 TTTAAAA
68428 TTTAAAA
1 TTTAAAA
68435 TTTAAAA
1 TTTAAAA
68442 TTTAA
1 TTTAA
68447 TTCAATTGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (7 bp):
TTTAAAA
Found at i:68707 original size:22 final size:23
Alignment explanation
Indices: 68667--68710 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
68657 ATCCTTATTG
* *
68667 ATAATTTTGAATATGATATAAAA
1 ATAATTTTAAATATAATATAAAA
68690 ATAA-TTTAAATATAATATAAA
1 ATAATTTTAAATATAATATAAA
68711 GTAAAAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (23 bp):
ATAATTTTAAATATAATATAAAA
Found at i:68817 original size:15 final size:15
Alignment explanation
Indices: 68791--68843 Score: 65
Period size: 15 Copynumber: 3.5 Consensus size: 15
68781 TATCAAAATT
68791 TATATAAAAAATATAA
1 TATAT-AAAAATATAA
68807 TATATAAAAATAT-A
1 TATATAAAAATATAA
*
68821 TAAAT-AAAATATAAA
1 TATATAAAAATAT-AA
68836 TATATAAA
1 TATATAAA
68844 TTATTAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 7 0.22
14 5 0.16
15 13 0.41
16 7 0.22
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (15 bp):
TATATAAAAATATAA
Found at i:68822 original size:28 final size:29
Alignment explanation
Indices: 68735--68843 Score: 114
Period size: 28 Copynumber: 3.7 Consensus size: 29
68725 CAAACATGAT
* *
68735 ATAATATATGAATATATAAAACTTTATATA
1 ATAAAATAT-AATATATAAAAATTTATATA
* *
68765 ATATAAATTATTAACATATCAAAATTTATATA
1 ATA-AAA-TA-TAATATATAAAAATTTATATA
*
68797 A-AAAATATAATATATAAAAATATATA-A
1 ATAAAATATAATATATAAAAATTTATATA
68824 ATAAAATATAAATATATAAA
1 ATAAAATAT-AATATATAAA
68844 TTATTAAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
27 2 0.03
28 23 0.34
29 12 0.18
30 6 0.09
31 3 0.04
32 20 0.30
33 1 0.01
ACGTcount: A:0.61, C:0.03, G:0.01, T:0.36
Consensus pattern (29 bp):
ATAAAATATAATATATAAAAATTTATATA
Found at i:68836 original size:11 final size:11
Alignment explanation
Indices: 68803--68841 Score: 55
Period size: 10 Copynumber: 3.7 Consensus size: 11
68793 TATAAAAAAT
68803 ATAATATATAA
1 ATAATATATAA
68814 A-AATATATAA
1 ATAATATATAA
*
68824 ATAAAATATAA
1 ATAATATATAA
68835 AT-ATATA
1 ATAATATA
68842 AATTATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
10 14 0.56
11 11 0.44
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (11 bp):
ATAATATATAA
Found at i:68838 original size:19 final size:19
Alignment explanation
Indices: 68814--68881 Score: 84
Period size: 19 Copynumber: 3.6 Consensus size: 19
68804 TAATATATAA
68814 AAATATATAAATAAAATAT
1 AAATATATAAATAAAATAT
* * *
68833 AAATATATAAAT-TATTAA
1 AAATATATAAATAAAATAT
* *
68851 AAATATATAAACAAAACAT
1 AAATATATAAATAAAATAT
68870 AAATATATAAAT
1 AAATATATAAAT
68882 TATCTATGGC
Statistics
Matches: 39, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
18 14 0.36
19 25 0.64
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (19 bp):
AAATATATAAATAAAATAT
Found at i:68852 original size:37 final size:37
Alignment explanation
Indices: 68811--68884 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
68801 ATATAATATA
* *
68811 TAAAAATATATAAATAAAATATAAATATATAAATTAT
1 TAAAAATATATAAACAAAACATAAATATATAAATTAT
68848 TAAAAATATATAAACAAAACATAAATATATAAATTAT
1 TAAAAATATATAAACAAAACATAAATATATAAATTAT
68885 CTATGGCTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (37 bp):
TAAAAATATATAAACAAAACATAAATATATAAATTAT
Found at i:72235 original size:14 final size:14
Alignment explanation
Indices: 72218--72244 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
72208 TAAAATATGA
72218 TAAAAATATATATT
1 TAAAAATATATATT
72232 TAAAAATATATAT
1 TAAAAATATATAT
72245 AATATAAATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TAAAAATATATATT
Found at i:72282 original size:18 final size:17
Alignment explanation
Indices: 72234--72287 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 17
72224 TATATATTTA
*
72234 AAAATATATAT-AATAT
1 AAAATTTATATAAATAT
72250 -AAA-TTAT-TAACATATT
1 AAAATTTATATAA-ATA-T
72266 AAAATTTATATAAATAT
1 AAAATTTATATAAATAT
72283 AAAAT
1 AAAAT
72288 AATTTAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 11
0.72 0.02 0.26
Matches are distributed among these distances:
13 1 0.03
14 4 0.13
15 6 0.19
16 1 0.03
17 9 0.29
18 7 0.23
19 3 0.10
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAATTTATATAAATAT
Found at i:73720 original size:12 final size:12
Alignment explanation
Indices: 73703--73729 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
73693 GCTTTAGAGT
73703 TCATTTAGATAA
1 TCATTTAGATAA
73715 TCATTTAGATAA
1 TCATTTAGATAA
73727 TCA
1 TCA
73730 GCGAGAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.11, G:0.07, T:0.41
Consensus pattern (12 bp):
TCATTTAGATAA
Found at i:78988 original size:16 final size:16
Alignment explanation
Indices: 78967--79015 Score: 57
Period size: 17 Copynumber: 3.1 Consensus size: 16
78957 ATATTTTTAA
78967 TTATCATATTAAAATT
1 TTATCATATTAAAATT
**
78983 TTATCATATTTTTAATT
1 TTATCATA-TTAAAATT
79000 TTAT-A-ATTAAAATT
1 TTATCATATTAAAATT
79014 TT
1 TT
79016 TATATATGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
14 8 0.29
15 1 0.04
16 9 0.32
17 10 0.36
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (16 bp):
TTATCATATTAAAATT
Found at i:78995 original size:31 final size:31
Alignment explanation
Indices: 78957--79015 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
78947 AAAAATATTA
78957 ATATTTTTAATTATCAT-ATTAAAATTTTATC
1 ATATTTTTAATT-TCATAATTAAAATTTTATC
*
78988 ATATTTTTAATTTTATAATTAAAATTTT
1 ATATTTTTAATTTCATAATTAAAATTTT
79016 TATATATGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
30 3 0.12
31 23 0.88
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (31 bp):
ATATTTTTAATTTCATAATTAAAATTTTATC
Found at i:79640 original size:18 final size:18
Alignment explanation
Indices: 79617--79656 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
79607 AAATTAAAAC
*
79617 ATAATTAAAATTTATATT
1 ATAATTAAAATTAATATT
*
79635 ATAATTAAAATTAATTTT
1 ATAATTAAAATTAATATT
79653 ATAA
1 ATAA
79657 ATATTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (18 bp):
ATAATTAAAATTAATATT
Found at i:80136 original size:17 final size:19
Alignment explanation
Indices: 80104--80150 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
80094 TAATAAAAAT
80104 AATTATTTATATTTTTATA
1 AATTATTTATATTTTTATA
*
80123 AATTATTAAT-TTTTATATA
1 AATTATTTATATTTT-TATA
*
80142 AATAATTTA
1 AATTATTTA
80151 AATTATAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
AATTATTTATATTTTTATA
Found at i:80360 original size:123 final size:124
Alignment explanation
Indices: 80144--80367 Score: 278
Period size: 123 Copynumber: 1.8 Consensus size: 124
80134 TTTATATAAA
*
80144 TAATTTAAATTATAAAATAATTATTATTTATATTTTATGTTTATTGAAAAAGAGGATAAAAAAGA
1 TAATTTAAATTATAAAATAATTATTATTTATATTTTATGTTAATTGAAAAAGAGGATAAAAAAGA
** * *
80209 AAAAATTATAAAATAAATGTAAATAAATA-TTTTTACATTTTATAGTTATTTATAATAT
66 AAAAAAAACAAAATAAATATAAATAAATAGTTTTTACATTTTATAGTTATTTATAATAT
* * * * *
80267 TAATTTAAATTATAAATATAAATTATTATTTATGTTTTA-GTTAATTTATAAAGATGAT-AAAAT
1 TAATTTAAATTATAAA-AT-AATTATTATTTATATTTTATGTTAATTGAAAAAGAGGATAAAAAA
*
80330 GAAAAAAAAACAACAGA-AAATATTAA-AAATAGTTTTTA
64 GAAAAAAAAACAA-A-ATAAATATAAATAAATAGTTTTTA
80368 TAAAATTAAT
Statistics
Matches: 85, Mismatches: 11, Indels: 9
0.81 0.10 0.09
Matches are distributed among these distances:
123 35 0.41
124 31 0.36
125 19 0.22
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.41
Consensus pattern (124 bp):
TAATTTAAATTATAAAATAATTATTATTTATATTTTATGTTAATTGAAAAAGAGGATAAAAAAGA
AAAAAAAACAAAATAAATATAAATAAATAGTTTTTACATTTTATAGTTATTTATAATAT
Found at i:80992 original size:19 final size:18
Alignment explanation
Indices: 80970--81038 Score: 59
Period size: 19 Copynumber: 3.6 Consensus size: 18
80960 AATTTTATAT
80970 AATATGATAAATATTAAAA
1 AATAT-ATAAATATTAAAA
*
80989 AATAAAATAAATA-TAAGATA
1 AAT-ATATAAATATTAA-A-A
*
81009 AATTAATAAAAATATTAAAA
1 AA-T-ATATAAATATTAAAA
81029 AATATATAAA
1 AATATATAAA
81039 ATAAATTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
18 9 0.22
19 12 0.29
20 7 0.17
21 10 0.24
22 3 0.07
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AATATATAAATATTAAAA
Found at i:81028 original size:33 final size:31
Alignment explanation
Indices: 80966--81046 Score: 85
Period size: 33 Copynumber: 2.5 Consensus size: 31
80956 TTAAAATTTT
* *
80966 ATATAATATGATAAA-TATTAAAAAATAAAATA
1 ATAT-ATAAGATAAATTAATAAAAAATAAAA-A
80998 A-ATATAAGATAAATTAATAAAAATATTAAAAA
1 ATATATAAGATAAATTAATAAAAA-A-TAAAAA
*
81030 ATATATAAAATAAATTA
1 ATATATAAGATAAATTA
81047 TTAATATATC
Statistics
Matches: 42, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
30 9 0.21
31 10 0.24
32 4 0.10
33 19 0.45
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (31 bp):
ATATATAAGATAAATTAATAAAAAATAAAAA
Found at i:81041 original size:19 final size:19
Alignment explanation
Indices: 80948--81041 Score: 54
Period size: 19 Copynumber: 4.8 Consensus size: 19
80938 TTATGAATAT
*
80948 AAAAATA-ATTAAAATTTTA
1 AAAAATATA-TAAAATATTA
* *
80967 TATAATATGAT-AAATATTA
1 AAAAATAT-ATAAAATATTA
*
80986 AAAAATA-AAATAAATA-TA
1 AAAAATATATA-AAATATTA
81004 AGATAAAT-TAATAAAAATATTA
1 A-A-AAATAT-AT-AAAATATTA
81026 AAAAATATATAAAATA
1 AAAAATATATAAAATA
81042 AATTATTAAT
Statistics
Matches: 57, Mismatches: 7, Indels: 22
0.66 0.08 0.26
Matches are distributed among these distances:
17 1 0.02
18 3 0.05
19 29 0.51
20 11 0.19
21 9 0.16
22 4 0.07
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (19 bp):
AAAAATATATAAAATATTA
Found at i:81072 original size:32 final size:33
Alignment explanation
Indices: 80976--81073 Score: 89
Period size: 32 Copynumber: 3.1 Consensus size: 33
80966 ATATAATATG
* *
80976 ATAAA-TATTAAAAA-AT-AAAATAA-ATATAAG
1 ATAAATTAATAAAAATATCAAAA-AATATATAAA
*
81006 ATAAATTAATAAAAATATTAAAAAATATATAAA
1 ATAAATTAATAAAAATATCAAAAAATATATAAA
* * **
81039 ATAAATT-ATTAATATATCAAAATTTATATAAA
1 ATAAATTAATAAAAATATCAAAAAATATATAAA
81071 ATA
1 ATA
81074 TTATAAATAT
Statistics
Matches: 57, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
30 5 0.09
31 8 0.14
32 27 0.47
33 17 0.30
ACGTcount: A:0.65, C:0.01, G:0.01, T:0.33
Consensus pattern (33 bp):
ATAAATTAATAAAAATATCAAAAAATATATAAA
Found at i:81102 original size:21 final size:21
Alignment explanation
Indices: 80997--81104 Score: 59
Period size: 21 Copynumber: 5.3 Consensus size: 21
80987 AAAATAAAAT
* * * *
80997 AAATATAAGATAAATTAATAA
1 AAATATTATATAAAATAGTAA
81018 AAATATTA-A-AAAATA-TATA
1 AAATATTATATAAAATAGTA-A
* *
81037 AAATAAATTAT-TAATATA-TCA
1 AAAT--ATTATATAAAATAGTAA
* *
81058 AAAT-TTATATAAAATATTAT
1 AAATATTATATAAAATAGTAA
81078 AAATATTATTATAAAAT-GTAA
1 AAATATTA-TATAAAATAGTAA
81099 AAATAT
1 AAATAT
81105 GAATTAACAT
Statistics
Matches: 69, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
18 6 0.09
19 16 0.23
20 6 0.09
21 27 0.39
22 14 0.20
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (21 bp):
AAATATTATATAAAATAGTAA
Found at i:82184 original size:5 final size:5
Alignment explanation
Indices: 82176--82274 Score: 66
Period size: 5 Copynumber: 20.6 Consensus size: 5
82166 CAATACAATT
* * * *
82176 ATATA ATATA AAATA ATA-A TTAAA ATATA ATATA ATATA ATATTAA ATATT
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATA-T-A ATATA
* * * *
82227 ATATA ATATA A-ATT AT-TA ATATA TTAAA ATTTA A-ATA A-AT- ATATA
1 ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA ATATA
82272 ATA
1 ATA
82275 ATTTTAAAAT
Statistics
Matches: 72, Mismatches: 15, Indels: 14
0.71 0.15 0.14
Matches are distributed among these distances:
3 1 0.01
4 16 0.22
5 49 0.68
6 2 0.03
7 4 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:82262 original size:23 final size:24
Alignment explanation
Indices: 82173--82252 Score: 83
Period size: 22 Copynumber: 3.2 Consensus size: 24
82163 ATACAATACA
82173 ATTATATAATATAAAATAATAATTAAAAT
1 ATTATATAATAT-AAAT--T-ATT-AAAT
*
82202 ATAATATAATAT-AA-TATTAAAT
1 ATTATATAATATAAATTATTAAAT
82224 ATTATATAATATAAATTATTAATAT
1 ATTATATAATATAAATTATTAA-AT
82249 ATTA
1 ATTA
82253 AAATTTAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
22 15 0.33
23 5 0.11
24 7 0.15
25 6 0.13
27 2 0.04
29 11 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
ATTATATAATATAAATTATTAAAT
Found at i:82266 original size:27 final size:28
Alignment explanation
Indices: 82180--82293 Score: 87
Period size: 28 Copynumber: 4.1 Consensus size: 28
82170 ACAATTATAT
*
82180 AATATAAAATAATAATTAAAATAT-AATA
1 AATATATAATAAT-ATTAAAATATAAATA
*
82208 TAATATAATATTAAATATT---ATATAATATA
1 -AATAT-ATAAT-AATATTAAAATATAA-ATA
*
82237 AAT-TATTAAT-ATATTAAAATTTAAATA
1 AATATA-TAATAATATTAAAATATAAATA
* *
82264 AATATATAATAATTTTAAAATATAATTA
1 AATATATAATAATATTAAAATATAAATA
82292 AA
1 AA
82294 AAATAAAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 21
0.71 0.07 0.22
Matches are distributed among these distances:
25 5 0.07
26 1 0.01
27 18 0.26
28 27 0.40
29 8 0.12
30 6 0.09
31 3 0.04
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (28 bp):
AATATATAATAATATTAAAATATAAATA
Found at i:82267 original size:20 final size:19
Alignment explanation
Indices: 82244--82307 Score: 60
Period size: 20 Copynumber: 3.3 Consensus size: 19
82234 ATAAATTATT
82244 AATATATTAAAATTTAAATA
1 AATATATTAAAATTTAAA-A
*
82264 AATATA-TAATAATTT-TAA
1 AATATATTAA-AATTTAAAA
**
82282 AATATAATTAAAAAATAAAA
1 AATAT-ATTAAAATTTAAAA
82302 AATATA
1 AATATA
82308 AATATGATAA
Statistics
Matches: 36, Mismatches: 4, Indels: 9
0.73 0.08 0.18
Matches are distributed among these distances:
18 6 0.17
19 9 0.25
20 21 0.58
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATATTAAAATTTAAAA
Found at i:82319 original size:36 final size:38
Alignment explanation
Indices: 82244--82319 Score: 86
Period size: 38 Copynumber: 2.1 Consensus size: 38
82234 ATAAATTATT
** **
82244 AATATATTAAAATTTAAATAAATATATAATAATTTTAA
1 AATATATTAAAAAATAAATAAATATATAATAATGATAA
82282 AATATAATTAAAAAATAAA-AAATATA-AAT-ATGATAA
1 AATAT-ATTAAAAAATAAATAAATATATAATAATGATAA
82318 AA
1 AA
82320 AAATAAATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
36 7 0.21
37 3 0.09
38 12 0.36
39 11 0.33
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.34
Consensus pattern (38 bp):
AATATATTAAAAAATAAATAAATATATAATAATGATAA
Found at i:82325 original size:17 final size:18
Alignment explanation
Indices: 82296--82329 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
82286 TAATTAAAAA
82296 ATAAAAAATATAAATATG
1 ATAAAAAATATAAATATG
82314 ATAAAAAA-ATAAATAT
1 ATAAAAAATATAAATAT
82330 TAATATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (18 bp):
ATAAAAAATATAAATATG
Found at i:82343 original size:26 final size:25
Alignment explanation
Indices: 82282--82343 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 25
82272 ATAATTTTAA
82282 AATATAATTA-AAAAATAAAAAATAT
1 AATAT-ATTATAAAAATAAAAAATAT
* *
82307 AA-ATATGATAAAAA-AATAAATATT
1 AATATATTATAAAAATAAAAAATA-T
82331 AATATATTTATAA
1 AATATA-TTATAA
82344 TATTATAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 7
0.75 0.08 0.17
Matches are distributed among these distances:
23 10 0.33
24 10 0.33
25 5 0.17
26 5 0.17
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (25 bp):
AATATATTATAAAAATAAAAAATAT
Found at i:82604 original size:21 final size:19
Alignment explanation
Indices: 82569--82633 Score: 55
Period size: 19 Copynumber: 3.4 Consensus size: 19
82559 TTTAAAGCTT
82569 TTATTATAAATATTTGTT-A
1 TTATTATAAATATTT-TTAA
82588 TTATTAATAAGATATTTTTAA
1 TTATT-ATAA-ATATTTTTAA
* *
82609 TTATAAGTAAA-AATTTTAA
1 TTATTA-TAAATATTTTTAA
82628 TT-TTAT
1 TTATTAT
82634 TATATTTCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
17 1 0.03
18 2 0.05
19 14 0.36
20 8 0.21
21 14 0.36
ACGTcount: A:0.42, C:0.00, G:0.05, T:0.54
Consensus pattern (19 bp):
TTATTATAAATATTTTTAA
Found at i:82783 original size:16 final size:17
Alignment explanation
Indices: 82757--82798 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 17
82747 AAATAAAAAG
82757 TTATAATTTATAATTTA
1 TTATAATTTATAATTTA
*
82774 TTAT-ATTTATATTTTA
1 TTATAATTTATAATTTA
*
82790 ATA-AATTTA
1 TTATAATTTA
82799 ATATATTAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 18 0.82
17 4 0.18
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
TTATAATTTATAATTTA
Found at i:82830 original size:23 final size:23
Alignment explanation
Indices: 82787--82830 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
82777 TATTTATATT
*
82787 TTAATAAATTTAATATATTAACA
1 TTAATAAATTTAAAATATTAACA
82810 TTAATAAATTTATAAAT-TTAA
1 TTAATAAATTTA-AAATATTAA
82831 ATATTAAACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (23 bp):
TTAATAAATTTAAAATATTAACA
Found at i:83158 original size:15 final size:16
Alignment explanation
Indices: 83133--83167 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
83123 AATATTAAAA
*
83133 ATATAATTTTATATTT
1 ATATAATTTTATAATT
83149 ATAT-ATTTTATAATT
1 ATATAATTTTATAATT
83164 ATAT
1 ATAT
83168 TAAATATTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 14 0.78
16 4 0.22
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATAATTTTATAATT
Found at i:83167 original size:21 final size:21
Alignment explanation
Indices: 83141--83192 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
83131 AAATATAATT
*
83141 TTATATTTATATATT-TTATAA
1 TTATA-TTAAATATTATTATAA
*
83162 TTATATTAAATATTATTTTAA
1 TTATATTAAATATTATTATAA
83183 TTA-A-TAAATA
1 TTATATTAAATA
83193 ATAATTTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 6 0.21
20 9 0.32
21 13 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (21 bp):
TTATATTAAATATTATTATAA
Found at i:83200 original size:19 final size:19
Alignment explanation
Indices: 83168--83249 Score: 55
Period size: 19 Copynumber: 4.4 Consensus size: 19
83158 ATAATTATAT
* * *
83168 TAAATATTATTTTAATTAA
1 TAAATAATAATTTAATAAA
*
83187 TAAATAATAATTTAAAAAA
1 TAAATAATAATTTAATAAA
*
83206 TAAAT--TAATTT-ATATTA
1 TAAATAATAATTTAATA-AA
*
83223 TAAA-ATTTAATTTAATAAA
1 TAAATA-ATAATTTAATAAA
83242 TTAAATAA
1 -TAAATAA
83250 AAAATTTGAT
Statistics
Matches: 48, Mismatches: 8, Indels: 13
0.70 0.12 0.19
Matches are distributed among these distances:
16 2 0.04
17 11 0.23
19 27 0.56
20 7 0.15
21 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (19 bp):
TAAATAATAATTTAATAAA
Found at i:83639 original size:47 final size:47
Alignment explanation
Indices: 83576--83668 Score: 177
Period size: 47 Copynumber: 2.0 Consensus size: 47
83566 TTCACTCTTT
*
83576 TTTTTTTTTTTTAATATATATATTTTTTTAAGACTAAAAGTGTCATC
1 TTTTTTTTTTTTAATATATAGATTTTTTTAAGACTAAAAGTGTCATC
83623 TTTTTTTTTTTTAATATATAGATTTTTTTAAGACTAAAAGTGTCAT
1 TTTTTTTTTTTTAATATATAGATTTTTTTAAGACTAAAAGTGTCAT
83669 GTTCCATTGA
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 45 1.00
ACGTcount: A:0.30, C:0.05, G:0.08, T:0.57
Consensus pattern (47 bp):
TTTTTTTTTTTTAATATATAGATTTTTTTAAGACTAAAAGTGTCATC
Found at i:83774 original size:25 final size:25
Alignment explanation
Indices: 83740--83830 Score: 93
Period size: 25 Copynumber: 3.8 Consensus size: 25
83730 ATCTCAATTA
*
83740 ATTATATTTAATAATATATATTTAT
1 ATTATATTTAATAATATATATATAT
* *
83765 ATTATATTTATTAATAAATAGTATA-
1 ATTATATTTAATAATATATA-TATAT
*
83790 ATTATATTTAA-AATAT-TATATAA
1 ATTATATTTAATAATATATATATAT
83813 ATATATATTT--TAATATAT
1 AT-TATATTTAATAATATAT
83831 TAATAATTTA
Statistics
Matches: 56, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
22 4 0.07
23 9 0.16
24 12 0.21
25 28 0.50
26 3 0.05
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (25 bp):
ATTATATTTAATAATATATATATAT
Found at i:83776 original size:15 final size:14
Alignment explanation
Indices: 83738--83876 Score: 62
Period size: 14 Copynumber: 11.1 Consensus size: 14
83728 AAATCTCAAT
83738 TAAT-TATATTTAA
1 TAATATATATTTAA
83751 TAATATATATTT-A
1 TAATATATATTTAA
*
83764 T-AT-TATATTTAT
1 TAATATATATTTAA
* *
83776 TAATAAATA-GT-A
1 TAATATATATTTAA
83788 TAAT-TATATTTAA
1 TAATATATATTTAA
*
83801 -AATAT-TATAT-A
1 TAATATATATTTAA
83812 -AATATATATTT--
1 TAATATATATTTAA
83823 T-A-ATATA-TTAA
1 TAATATATATTTAA
* *
83834 TAATTTATATTT-T
1 TAATATATATTTAA
*
83847 TTATATGATATTTATA
1 TAATAT-ATATTTA-A
*
83863 TCATATA-ATTTAA
1 TAATATATATTTAA
83876 T
1 T
83877 TATTTTTAAA
Statistics
Matches: 95, Mismatches: 14, Indels: 34
0.66 0.10 0.24
Matches are distributed among these distances:
9 2 0.02
10 5 0.05
11 18 0.19
12 20 0.21
13 21 0.22
14 23 0.24
15 1 0.01
16 5 0.05
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (14 bp):
TAATATATATTTAA
Found at i:83842 original size:23 final size:24
Alignment explanation
Indices: 83786--83846 Score: 74
Period size: 23 Copynumber: 2.6 Consensus size: 24
83776 TAATAAATAG
83786 TATAA-TTATA-TTTAAAATATTA
1 TATAATTTATATTTTAAAATATTA
* *
83808 TATAAATATATATTTTAATATATTA
1 TAT-AATTTATATTTTAAAATATTA
83833 -ATAATTTATATTTT
1 TATAATTTATATTTT
83847 TTATATGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
22 3 0.09
23 13 0.39
24 6 0.18
25 11 0.33
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (24 bp):
TATAATTTATATTTTAAAATATTA
Found at i:83848 original size:25 final size:26
Alignment explanation
Indices: 83737--83858 Score: 88
Period size: 25 Copynumber: 4.4 Consensus size: 26
83727 TAAATCTCAA
83737 TTAATTATATTTAATAATATATATTTAT
1 TTAA-TATA-TTAATAATATATATTTAT
*
83765 ATTATATTTATTAATAAATAGTATAATTATAT
1 -TTA-ATATATTAAT-AATA-TAT-ATT-TAT
* *
83797 TTAAAATATTATATAA-ATATATAT-T
1 TTAATATATTA-ATAATATATATTTAT
*
83822 TTAATATATTAATAATTTATATTT-T
1 TTAATATATTAATAATATATATTTAT
83847 TTATATGATATT
1 TTA-AT-ATATT
83859 TATATCATAT
Statistics
Matches: 77, Mismatches: 7, Indels: 20
0.74 0.07 0.19
Matches are distributed among these distances:
24 4 0.05
25 21 0.27
26 3 0.04
27 7 0.09
28 8 0.10
29 11 0.14
30 12 0.16
31 8 0.10
32 3 0.04
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (26 bp):
TTAATATATTAATAATATATATTTAT
Found at i:84038 original size:14 final size:13
Alignment explanation
Indices: 84007--84049 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
83997 TAAGAATAAA
84007 AAAATTTAAATTT
1 AAAATTTAAATTT
* *
84020 TAAATATTAAAATT
1 AAAAT-TTAAATTT
84034 AAAATTTTAAATTT
1 AAAA-TTTAAATTT
84048 AA
1 AA
84050 TAAATATTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
13 4 0.17
14 19 0.79
15 1 0.04
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAAATTTAAATTT
Found at i:84844 original size:63 final size:60
Alignment explanation
Indices: 84770--84901 Score: 192
Period size: 63 Copynumber: 2.1 Consensus size: 60
84760 CTATTTGGGA
* * * *
84770 GTTAGTAAAATGTATTTATTTACTATAATGTTAATGAATCTTTAATTTTTTTTCTTTTTGGAT
1 GTTAGTGAAATGGATTTATTTACTAGAATGTTAATGAATC-TT--TTTTTTTCCTTTTTGGAT
84833 GTTAGTGAAATGGATTTATTTACTAGAATGTTAATGAATCTTTTTTTTTCCTTTTTGGAT
1 GTTAGTGAAATGGATTTATTTACTAGAATGTTAATGAATCTTTTTTTTTCCTTTTTGGAT
*
84893 GTTATTGAA
1 GTTAGTGAA
84902 TTTTATACGA
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
60 25 0.39
62 2 0.03
63 37 0.58
ACGTcount: A:0.27, C:0.05, G:0.14, T:0.53
Consensus pattern (60 bp):
GTTAGTGAAATGGATTTATTTACTAGAATGTTAATGAATCTTTTTTTTTCCTTTTTGGAT
Found at i:85283 original size:30 final size:29
Alignment explanation
Indices: 85235--85292 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 29
85225 TAAAAAATTT
*
85235 ATATTTTTATTTTAAATAAT-ATTTAAAA
1 ATATTTTTATTATAAATAATAATTTAAAA
85263 ATATTTTATATTAATAAATAATAATTTAAA
1 ATATTTT-TATT-ATAAATAATAATTTAAA
85293 TTAAGTCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 7 0.27
29 4 0.15
30 8 0.31
31 7 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (29 bp):
ATATTTTTATTATAAATAATAATTTAAAA
Found at i:85290 original size:20 final size:19
Alignment explanation
Indices: 85258--85316 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
85248 AAATAATATT
* *
85258 TAAAAATATTTTATATTAA
1 TAAAAATAATTTAAATTAA
85277 TAAATAATAATTTAAATTAA
1 TAAA-AATAATTTAAATTAA
* *
85297 GTCAAACTAATTTAAATTAA
1 -TAAAAATAATTTAAATTAA
85317 AATTTTTTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 4 0.12
20 27 0.79
21 3 0.09
ACGTcount: A:0.54, C:0.03, G:0.02, T:0.41
Consensus pattern (19 bp):
TAAAAATAATTTAAATTAA
Found at i:85866 original size:28 final size:29
Alignment explanation
Indices: 85835--85889 Score: 78
Period size: 28 Copynumber: 1.9 Consensus size: 29
85825 TCAAATTTTA
*
85835 TTTTATAATTTAT-AATA-TTTTAAAATAT
1 TTTTAT-ATTAATAAATATTTTTAAAATAT
85863 TTTTATATTAATAAATATTTTTAAAAT
1 TTTTATATTAATAAATATTTTTAAAAT
85890 TAAATTTAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 5 0.21
28 10 0.42
29 9 0.38
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (29 bp):
TTTTATATTAATAAATATTTTTAAAATAT
Found at i:85891 original size:19 final size:18
Alignment explanation
Indices: 85857--85892 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
85847 TAATATTTTA
*
85857 AAATATTTTTATATTAAT
1 AAATATTTTTAAATTAAT
85875 AAATATTTTTAAAATTAA
1 AAATATTTTT-AAATTAA
85893 ATTTAAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AAATATTTTTAAATTAAT
Found at i:87539 original size:34 final size:36
Alignment explanation
Indices: 87456--87543 Score: 96
Period size: 34 Copynumber: 2.6 Consensus size: 36
87446 TAAAATTATA
* *
87456 ATTAATATGATATT-TTTATTTAATATATTAAATAT
1 ATTAATATAATATTATTAATTTAATATATTAAATAT
* *
87491 ATTAA-ATAAAATTATTAATTATAGTAT-TTAAA-AT
1 ATTAATATAATATTATTAATT-TAATATATTAAATAT
87525 -TTAATATAATATTATTAAT
1 ATTAATATAATATTATTAAT
87544 GTATTAATCA
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
33 4 0.09
34 21 0.47
35 15 0.33
36 5 0.11
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (36 bp):
ATTAATATAATATTATTAATTTAATATATTAAATAT
Found at i:89210 original size:21 final size:22
Alignment explanation
Indices: 89166--89218 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
89156 TTATATAAAT
* *
89166 TTAAATAAA-AATAAGTTTTTA
1 TTAAATAAATAATAAGTATTAA
89187 TTAAATAAATAATAA-TATTAA
1 TTAAATAAATAATAAGTATTAA
89208 TTAAATTAAAT
1 TTAAA-TAAAT
89219 TATTAATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 18 0.64
22 10 0.36
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.42
Consensus pattern (22 bp):
TTAAATAAATAATAAGTATTAA
Found at i:89222 original size:17 final size:17
Alignment explanation
Indices: 89184--89226 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
89174 AAATAAGTTT
*
89184 TTATTAAATAAATAATA
1 TTATTAATTAAATAATA
*
89201 ATATTAATTAAATTAA-A
1 TTATTAATTAAA-TAATA
89218 TTATTAATT
1 TTATTAATT
89227 TTTATATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 19 0.86
18 3 0.14
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATTAATTAAATAATA
Found at i:91605 original size:16 final size:18
Alignment explanation
Indices: 91584--91620 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
91574 GGATTCAGAA
91584 TCAAGTT-AGGTTT-AGT
1 TCAAGTTCAGGTTTGAGT
*
91600 TCAAGTTCAGTTTTGAGT
1 TCAAGTTCAGGTTTGAGT
91618 TCA
1 TCA
91621 CTACAATTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 7 0.39
17 5 0.28
18 6 0.33
ACGTcount: A:0.24, C:0.11, G:0.22, T:0.43
Consensus pattern (18 bp):
TCAAGTTCAGGTTTGAGT
Found at i:94549 original size:2 final size:2
Alignment explanation
Indices: 94542--94576 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
94532 CATAGAAGAA
*
94542 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
94577 ATGCAAGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:94811 original size:22 final size:22
Alignment explanation
Indices: 94786--94828 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
94776 TATAAATATT
*
94786 AAAATTCGAATTTAAAACTTAG
1 AAAATTCGAATTCAAAACTTAG
94808 AAAATTCGAATTCAAAACTTA
1 AAAATTCGAATTCAAAACTTA
94829 ATAAAGACTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.51, C:0.12, G:0.07, T:0.30
Consensus pattern (22 bp):
AAAATTCGAATTCAAAACTTAG
Found at i:97508 original size:6 final size:6
Alignment explanation
Indices: 97497--97526 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
97487 TGTATGTATG
97497 TATAGA TATAGA TATAGA TATAGA TATAGA
1 TATAGA TATAGA TATAGA TATAGA TATAGA
97527 CATGTATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
TATAGA
Done.