Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold220
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: 3999181
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 12171 characters in sequence are not A, C, G, or T
File 1 of 19
Found at i:1860 original size:18 final size:18
Alignment explanation
Indices: 1837--1879 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
1827 TCTATATTTA
1837 TATATAAAATTAATTTTT
1 TATATAAAATTAATTTTT
1855 TATATAAAATTAATTTTT
1 TATATAAAATTAATTTTT
*
1873 TAAATAA
1 TATATAA
1880 TTTATTATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATATAAAATTAATTTTT
Found at i:2453 original size:13 final size:14
Alignment explanation
Indices: 2431--2461 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
2421 GTAGAGATTG
2431 ATTTG-TTTTTGTA
1 ATTTGATTTTTGTA
2444 ATTTGATTTTTGTA
1 ATTTGATTTTTGTA
2458 ATTT
1 ATTT
2462 TTTTCATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.19, C:0.00, G:0.13, T:0.68
Consensus pattern (14 bp):
ATTTGATTTTTGTA
Found at i:2455 original size:14 final size:13
Alignment explanation
Indices: 2431--2465 Score: 54
Period size: 14 Copynumber: 2.7 Consensus size: 13
2421 GTAGAGATTG
2431 ATTTGTTTTTGTA
1 ATTTGTTTTTGTA
2444 ATTTGATTTTTGTA
1 ATTTG-TTTTTGTA
2458 ATTT-TTTT
1 ATTTGTTTT
2466 CATTTTTTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 5 0.24
14 12 0.57
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.71
Consensus pattern (13 bp):
ATTTGTTTTTGTA
Found at i:9176 original size:16 final size:16
Alignment explanation
Indices: 9151--9234 Score: 78
Period size: 16 Copynumber: 5.2 Consensus size: 16
9141 TTCGAGTTTA
*
9151 GGTTTAGGTTTTCTCG
1 GGTTCAGGTTTTCTCG
* *
9167 GGTTCGGGTTTTTTCG
1 GGTTCAGGTTTTCTCG
*
9183 GGTTCAGGTTTTTTCG
1 GGTTCAGGTTTTCTCG
* * * *
9199 AGTTCAAGTTTTTTTCA
1 GGTTC-AGGTTTTCTCG
*
9216 GGTTCAGGTTGTCTCG
1 GGTTCAGGTTTTCTCG
9232 GGT
1 GGT
9235 ACGGGCTGTC
Statistics
Matches: 55, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
16 42 0.76
17 13 0.24
ACGTcount: A:0.08, C:0.13, G:0.31, T:0.48
Consensus pattern (16 bp):
GGTTCAGGTTTTCTCG
Found at i:9210 original size:32 final size:33
Alignment explanation
Indices: 9150--9231 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
9140 ATTCGAGTTT
* * * *
9150 AGGTTTAGGTTTTCTCGGGTTC-GGGTTTTTTC
1 AGGTTCAGGTTTTCTCGAGTTCAAGTTTTTTTC
* *
9182 GGGTTCAGGTTTTTTCGAGTTCAAGTTTTTTTC
1 AGGTTCAGGTTTTCTCGAGTTCAAGTTTTTTTC
*
9215 AGGTTCAGGTTGTCTCG
1 AGGTTCAGGTTTTCTCG
9232 GGTACGGGCT
Statistics
Matches: 40, Mismatches: 9, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
32 18 0.45
33 22 0.55
ACGTcount: A:0.10, C:0.13, G:0.29, T:0.48
Consensus pattern (33 bp):
AGGTTCAGGTTTTCTCGAGTTCAAGTTTTTTTC
Found at i:9762 original size:21 final size:20
Alignment explanation
Indices: 9733--9773 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
9723 TTGAGAGTGA
*
9733 AAGAGAATAAGAGAAACAATT
1 AAGAAAATAAGA-AAACAATT
*
9754 AAGAAAATAAGAAAAGAATT
1 AAGAAAATAAGAAAACAATT
9774 TAGACAGAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.66, C:0.02, G:0.17, T:0.15
Consensus pattern (20 bp):
AAGAAAATAAGAAAACAATT
Found at i:9845 original size:2 final size:2
Alignment explanation
Indices: 9838--9908 Score: 97
Period size: 2 Copynumber: 35.5 Consensus size: 2
9828 ACAATGCTGC
* *
9838 AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * *
9880 AT TT AT AT AT TT AT AT AT TT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9909 GTCACCATGA
Statistics
Matches: 59, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (2 bp):
AT
Found at i:10592 original size:2 final size:2
Alignment explanation
Indices: 10585--10623 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
10575 AACAACCAGC
* *
10585 TA TA TA TA TA CA TA TA TA CA 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
10624 CTTTTTTCTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:15809 original size:17 final size:17
Alignment explanation
Indices: 15783--15815 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
15773 GAGCAAGCCT
*
15783 AAAATTGTAATTTTTTC
1 AAAATCGTAATTTTTTC
15800 AAAATCGTAATTTTTT
1 AAAATCGTAATTTTTT
15816 GGTAATCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.06, T:0.52
Consensus pattern (17 bp):
AAAATCGTAATTTTTTC
Found at i:16049 original size:15 final size:15
Alignment explanation
Indices: 16029--16061 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
16019 GTGATTAAAA
16029 AAAAAGAA-GAAGAAG
1 AAAAAGAATGAAG-AG
16044 AAAAAGAATGAAGAG
1 AAAAAGAATGAAGAG
16059 AAA
1 AAA
16062 TCAAAAATGG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.73, C:0.00, G:0.24, T:0.03
Consensus pattern (15 bp):
AAAAAGAATGAAGAG
Found at i:19529 original size:17 final size:16
Alignment explanation
Indices: 19487--19536 Score: 50
Period size: 15 Copynumber: 3.1 Consensus size: 16
19477 TAATAAAAAT
19487 AATCATTAAATATATTA
1 AATCA-TAAATATATTA
*
19504 AATTA-AAATATATATA
1 AATCATAAATATAT-TA
*
19520 GATCATAAATA-ATTA
1 AATCATAAATATATTA
19535 AA
1 AA
19537 ATTTTTTAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 6
0.73 0.11 0.16
Matches are distributed among these distances:
15 11 0.41
16 7 0.26
17 9 0.33
ACGTcount: A:0.58, C:0.04, G:0.02, T:0.36
Consensus pattern (16 bp):
AATCATAAATATATTA
Found at i:19607 original size:55 final size:57
Alignment explanation
Indices: 19497--19618 Score: 153
Period size: 55 Copynumber: 2.2 Consensus size: 57
19487 AATCATTAAA
* * *
19497 TATATTAAATTAAAATATATATAGATCATAAATAATTAAAATTTTTTAAAATTATATT
1 TATATTAAATAAAAATATATATAGA-CATAAATAATTAAAATATATTAAAATTATATT
*
19555 TATATTAAATAAACAATATATATTA-A-AT-AATAATTAAAA-ATATTAAATTTATATT
1 TATATTAAATAAA-AATATATA-TAGACATAAATAATTAAAATATATTAAAATTATATT
19610 TATATTAAA
1 TATATTAAA
19619 AAATAAACAA
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
55 22 0.38
56 11 0.19
57 2 0.03
58 12 0.21
59 9 0.16
60 2 0.03
ACGTcount: A:0.54, C:0.02, G:0.01, T:0.43
Consensus pattern (57 bp):
TATATTAAATAAAAATATATATAGACATAAATAATTAAAATATATTAAAATTATATT
Found at i:20918 original size:17 final size:17
Alignment explanation
Indices: 20896--20930 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
20886 TCGTACATGA
20896 TTGCCCAATTAAACTTT
1 TTGCCCAATTAAACTTT
20913 TTGCCCAATTAAACTTT
1 TTGCCCAATTAAACTTT
20930 T
1 T
20931 CGGGCAAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.43
Consensus pattern (17 bp):
TTGCCCAATTAAACTTT
Found at i:21017 original size:14 final size:14
Alignment explanation
Indices: 20981--21018 Score: 60
Period size: 14 Copynumber: 2.7 Consensus size: 14
20971 TATATATATA
20981 TATGTATATGCATG
1 TATGTATATGCATG
20995 TATAG-ATATGCATG
1 TAT-GTATATGCATG
21009 TATGTATATG
1 TATGTATATG
21019 TATTATATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 1 0.05
14 20 0.91
15 1 0.05
ACGTcount: A:0.32, C:0.05, G:0.21, T:0.42
Consensus pattern (14 bp):
TATGTATATGCATG
Found at i:21729 original size:2 final size:2
Alignment explanation
Indices: 21724--21754 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21714 ATATATATAT
21724 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 A
21755 AATTTTATTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:31560 original size:2 final size:2
Alignment explanation
Indices: 31506--31543 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
31496 ATATAAAATA
*
31506 AT AT AT AC AT A- 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 AT AT AT AT AT AT A
31544 ATCTCTCTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:33628 original size:2 final size:2
Alignment explanation
Indices: 33623--33716 Score: 143
Period size: 2 Copynumber: 47.0 Consensus size: 2
33613 ATGTGCGTGC
* *
33623 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GC GC GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
* * *
33665 GT GT GC GT GT GT GT GT GT GT GT GT GT GT GT GC GC GT GT GT GT
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT GT
33707 GT GT GT GT GT
1 GT GT GT GT GT
33717 CATCCAACCT
Statistics
Matches: 86, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 86 1.00
ACGTcount: A:0.00, C:0.05, G:0.50, T:0.45
Consensus pattern (2 bp):
GT
Found at i:37597 original size:2 final size:2
Alignment explanation
Indices: 37592--37641 Score: 91
Period size: 2 Copynumber: 25.0 Consensus size: 2
37582 ACGACGGTAG
*
37592 GA GA GA GA GA GA GA GA GA GA GA GA AA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
37634 GA GA GA GA
1 GA GA GA GA
37642 CAGACAGACA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
GA
Found at i:37646 original size:4 final size:4
Alignment explanation
Indices: 37639--37668 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
37629 AGAGAGAGAG
37639 AGAC AGAC AGAC AGAC AGAC AGAC A-AC AGA
1 AGAC AGAC AGAC AGAC AGAC AGAC AGAC AGA
37669 GTCTGAAAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.53, C:0.23, G:0.23, T:0.00
Consensus pattern (4 bp):
AGAC
Found at i:49737 original size:6 final size:6
Alignment explanation
Indices: 49723--49763 Score: 73
Period size: 6 Copynumber: 6.8 Consensus size: 6
49713 ACCAAAACCT
*
49723 CTCAGC CTCATC CTCAGC CTCAGC CTCAGC CTCAGC CTCAG
1 CTCAGC CTCAGC CTCAGC CTCAGC CTCAGC CTCAGC CTCAG
49764 GCTTGCCTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 33 1.00
ACGTcount: A:0.17, C:0.49, G:0.15, T:0.20
Consensus pattern (6 bp):
CTCAGC
Found at i:55877 original size:2 final size:2
Alignment explanation
Indices: 55870--55906 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
55860 TGTGTATATT
55870 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 A
55907 TATGATAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:57208 original size:6 final size:6
Alignment explanation
Indices: 57197--57227 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
57187 ATGATCCCAC
57197 AGCCAT AGCCAT AGCCAT AGCCAT AGCCAT A
1 AGCCAT AGCCAT AGCCAT AGCCAT AGCCAT A
57228 TACCATATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.35, C:0.32, G:0.16, T:0.16
Consensus pattern (6 bp):
AGCCAT
Found at i:63407 original size:2 final size:2
Alignment explanation
Indices: 63400--63430 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
63390 TAATGCCCCT
63400 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
63431 TTATATATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:66195 original size:15 final size:16
Alignment explanation
Indices: 66175--66205 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
66165 TACAACACTG
66175 ACAGCACAGCA-TATC
1 ACAGCACAGCAGTATC
66190 ACAGCACAGCAGTATC
1 ACAGCACAGCAGTATC
66206 CAAAATGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.73
16 4 0.27
ACGTcount: A:0.39, C:0.32, G:0.16, T:0.13
Consensus pattern (16 bp):
ACAGCACAGCAGTATC
Found at i:71173 original size:8 final size:9
Alignment explanation
Indices: 71139--71175 Score: 51
Period size: 8 Copynumber: 4.2 Consensus size: 9
71129 TGCTTTAAAA
71139 ATATATATGT
1 ATATATAT-T
71149 ATATATA-T
1 ATATATATT
71157 ATATATATT
1 ATATATATT
71166 ATA-ATATT
1 ATATATATT
71174 AT
1 AT
71176 TATTACTATT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 15 0.58
9 4 0.15
10 7 0.27
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (9 bp):
ATATATATT
Found at i:72385 original size:18 final size:18
Alignment explanation
Indices: 72364--72401 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
72354 TATATATAAA
72364 TATATGTATGTATGTATG
1 TATATGTATGTATGTATG
*
72382 TATATGTGTGTATGTATG
1 TATATGTATGTATGTATG
72400 TA
1 TA
72402 CGTTCGACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (18 bp):
TATATGTATGTATGTATG
Found at i:76492 original size:4 final size:4
Alignment explanation
Indices: 76483--76508 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
76473 TAATGTAAGC
76483 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
76509 GCATTTGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:78311 original size:22 final size:23
Alignment explanation
Indices: 78269--78317 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
78259 TTTTATTTTT
*
78269 TAAATTGTATAATTTTGTT-AAA
1 TAAATTGTATAATTTTATTAAAA
78291 TAAATT-TATAATTTATATTAAAA
1 TAAATTGTATAATTT-TATTAAAA
78314 TAAA
1 TAAA
78318 AGGCATTCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
21 8 0.33
22 9 0.38
23 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (23 bp):
TAAATTGTATAATTTTATTAAAA
Found at i:78499 original size:15 final size:15
Alignment explanation
Indices: 78481--78514 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
78471 AGTATTTACT
78481 TTATTTTAATTTTAA
1 TTATTTTAATTTTAA
*
78496 TTATTTTTATTTTAA
1 TTATTTTAATTTTAA
78511 TTAT
1 TTAT
78515 AAAATAATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTATTTTAATTTTAA
Found at i:78552 original size:22 final size:21
Alignment explanation
Indices: 78524--78594 Score: 72
Period size: 22 Copynumber: 3.2 Consensus size: 21
78514 TAAAATAATA
78524 AATTTTAATTAATCTTAAAATT
1 AATTTTAATTAAT-TTAAAATT
*
78546 AATTTTAATT-ATTATTAAATT
1 AATTTTAATTAATT-TAAAATT
* *
78567 AAATTTTAATTCATTTAAATCTT
1 -AATTTTAATTAATTTAAA-ATT
78590 AATTT
1 AATTT
78595 AAAATACACA
Statistics
Matches: 42, Mismatches: 3, Indels: 8
0.79 0.06 0.15
Matches are distributed among these distances:
20 1 0.02
21 8 0.19
22 28 0.67
23 5 0.12
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (21 bp):
AATTTTAATTAATTTAAAATT
Found at i:78667 original size:14 final size:14
Alignment explanation
Indices: 78648--78687 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
78638 TATATTAATT
78648 TTAAAATAAATTTA
1 TTAAAATAAATTTA
**
78662 TTAAAATATTTTTA
1 TTAAAATAAATTTA
*
78676 TTTAAATAAATT
1 TTAAAATAAATT
78688 AATTTTTATT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAAAATAAATTTA
Found at i:79078 original size:16 final size:16
Alignment explanation
Indices: 79049--79107 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
79039 AGAATACTTG
* *
79049 AATTAAAATATAATTT
1 AATTATAATTTAATTT
79065 AATTATAATTTAATTT
1 AATTATAATTTAATTT
* * * *
79081 GATAATAATTAAAATT
1 AATTATAATTTAATTT
79097 AATTTATAATT
1 AA-TTATAATT
79108 AAAAAATTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
16 27 0.79
17 7 0.21
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (16 bp):
AATTATAATTTAATTT
Found at i:79089 original size:22 final size:20
Alignment explanation
Indices: 79064--79106 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 20
79054 AAATATAATT
*
79064 TAATTATAATTTAATTTGATAA
1 TAATTA-AAATTAATTT-ATAA
79086 TAATTAAAATTAATTTATAA
1 TAATTAAAATTAATTTATAA
79106 T
1 T
79107 TAAAAAATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 5 0.25
21 9 0.45
22 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (20 bp):
TAATTAAAATTAATTTATAA
Found at i:79105 original size:17 final size:17
Alignment explanation
Indices: 79085--79134 Score: 55
Period size: 19 Copynumber: 2.8 Consensus size: 17
79075 TAATTTGATA
79085 ATAATTAAAATTAATTT
1 ATAATTAAAATTAATTT
*
79102 ATAATTAAAAAATTATTTT
1 ATAATT--AAAATTAATTT
* *
79121 TTATTTAAAATTAA
1 ATAATTAAAATTAA
79135 CATGAAAATA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
17 13 0.48
19 14 0.52
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
ATAATTAAAATTAATTT
Found at i:79326 original size:29 final size:30
Alignment explanation
Indices: 79261--79328 Score: 86
Period size: 29 Copynumber: 2.3 Consensus size: 30
79251 TTTTTAGTTG
*
79261 AAATAAAAATTTATGATATAAATTAATTAAA
1 AAAT-AAAATTTATGATATAAATTAATAAAA
*
79292 AAATAAAATTT-T-ATTTAAATATAATAAAA
1 AAATAAAATTTATGATATAAAT-TAATAAAA
79321 AAATAAAA
1 AAATAAAA
79329 AATATTTTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
28 7 0.21
29 16 0.47
30 7 0.21
31 4 0.12
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (30 bp):
AAATAAAATTTATGATATAAATTAATAAAA
Found at i:79679 original size:4 final size:4
Alignment explanation
Indices: 79670--79694 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
79660 CCCAACATCT
79670 TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA T
79695 ATTCTTCCTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:86101 original size:15 final size:17
Alignment explanation
Indices: 86070--86101 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
86060 CCTGCTTAAA
86070 CATGGTACTTGAAATGT
1 CATGGTACTTGAAATGT
86087 CATGG-ACTT-AAATGT
1 CATGGTACTTGAAATGT
86102 TGCTTAGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 4 0.27
17 5 0.33
ACGTcount: A:0.31, C:0.12, G:0.22, T:0.34
Consensus pattern (17 bp):
CATGGTACTTGAAATGT
Found at i:86233 original size:35 final size:36
Alignment explanation
Indices: 86182--86252 Score: 108
Period size: 35 Copynumber: 2.0 Consensus size: 36
86172 AAATTATGTT
86182 ACCCCAACATAGAGTTA-ATTTTCCTAAGCCAGTTA
1 ACCCCAACATAGAGTTATATTTTCCTAAGCCAGTTA
* * *
86217 ACCCCAACATATAGTTATGTTTTCCTTAGCCAGTTA
1 ACCCCAACATAGAGTTATATTTTCCTAAGCCAGTTA
86253 GAGTAGTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 16 0.50
36 16 0.50
ACGTcount: A:0.31, C:0.25, G:0.11, T:0.32
Consensus pattern (36 bp):
ACCCCAACATAGAGTTATATTTTCCTAAGCCAGTTA
Found at i:87316 original size:3 final size:3
Alignment explanation
Indices: 87310--87345 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
87300 CTTTTTTTTA
* *
87310 ATT ATT ATT ATC ATT ATT ATT GTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
87346 TTGCCTTGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:92194 original size:2 final size:2
Alignment explanation
Indices: 92187--92219 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
92177 TTACTACTAC
92187 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
92220 GCGAAACAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:95592 original size:6 final size:6
Alignment explanation
Indices: 95577--95625 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
95567 TTTTTCATTG
* * *
95577 ATCT-A ATCTAA ATCTAA ATCGAA ATTTAA ATCTAA ATCTAA ATCGAA
1 ATCTAA ATCTAA ATCTAA ATCTAA ATCTAA ATCTAA ATCTAA ATCTAA
95624 AT
1 AT
95626 TCAAATAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
5 4 0.11
6 34 0.89
ACGTcount: A:0.49, C:0.14, G:0.04, T:0.33
Consensus pattern (6 bp):
ATCTAA
Found at i:95613 original size:24 final size:24
Alignment explanation
Indices: 95581--95631 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
95571 TCATTGATCT
*
95581 AATCTAAATCTAAATCGAAATTTA
1 AATCTAAATCTAAATCGAAATTCA
95605 AATCTAAATCTAAATCGAAATTCA
1 AATCTAAATCTAAATCGAAATTCA
95629 AAT
1 AAT
95632 AAGATTGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (24 bp):
AATCTAAATCTAAATCGAAATTCA
Found at i:96119 original size:2 final size:2
Alignment explanation
Indices: 96112--96138 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
96102 AGACAAGGGA
96112 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 A
96139 TTGAACCTAA
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:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:97055 original size:4 final size:4
Alignment explanation
Indices: 97046--97084 Score: 62
Period size: 4 Copynumber: 10.0 Consensus size: 4
97036 TGAAGAGTAT
*
97046 AGAA AGAA AGAA AGAA AGCA AGAA AGAA AG-A AGAA AGAA
1 AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA AGAA
97085 TGGAAGTGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 3 0.09
4 29 0.91
ACGTcount: A:0.72, C:0.03, G:0.26, T:0.00
Consensus pattern (4 bp):
AGAA
Found at i:97474 original size:18 final size:19
Alignment explanation
Indices: 97423--97476 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 19
97413 AGGAGAAGAA
97423 ATACATACCA-AATACA-GT
1 ATACATA-CATAATACATGT
* **
97441 ATACATGCATGGTACATG-
1 ATACATACATAATACATGT
97459 ATACATACATAATACATG
1 ATACATACATAATACATG
97477 CTAATAGAAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 2 0.07
18 25 0.89
19 1 0.04
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (19 bp):
ATACATACATAATACATGT
Found at i:97592 original size:3 final size:3
Alignment explanation
Indices: 97584--97622 Score: 69
Period size: 3 Copynumber: 13.0 Consensus size: 3
97574 ATGAATGACA
*
97584 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAA AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
97623 CATTAATCAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:98223 original size:3 final size:3
Alignment explanation
Indices: 98208--98254 Score: 58
Period size: 3 Copynumber: 15.7 Consensus size: 3
98198 GCCACATATT
* * * *
98208 ATA ATA ATT ATA ATA ATA ATA ATA ACA ATA ATA ACA ACA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
98255 GGAATCAAAG
Statistics
Matches: 38, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:98832 original size:30 final size:30
Alignment explanation
Indices: 98788--98864 Score: 127
Period size: 30 Copynumber: 2.6 Consensus size: 30
98778 TGGTACAACT
*
98788 GTAGCTGTAGCTGTAGCTGTAGCTGTAGCC
1 GTAGCCGTAGCTGTAGCTGTAGCTGTAGCC
*
98818 GTAGCCGTATCTGTAGCTGTAGCTGTAGCC
1 GTAGCCGTAGCTGTAGCTGTAGCTGTAGCC
*
98848 GTAGCCGTAGCCGTAGC
1 GTAGCCGTAGCTGTAGC
98865 CGCCCGTCCA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 43 1.00
ACGTcount: A:0.17, C:0.23, G:0.32, T:0.27
Consensus pattern (30 bp):
GTAGCCGTAGCTGTAGCTGTAGCTGTAGCC
Found at i:98866 original size:6 final size:6
Alignment explanation
Indices: 98786--98864 Score: 104
Period size: 6 Copynumber: 13.2 Consensus size: 6
98776 ATTGGTACAA
* * *
98786 CTGTAG CTGTAG CTGTAG CTGTAG CTGTAG CCGTAG CCGTAT CTGTAG
1 CTGTAG CTGTAG CTGTAG CTGTAG CTGTAG CTGTAG CTGTAG CTGTAG
* * *
98834 CTGTAG CTGTAG CCGTAG CCGTAG CCGTAG C
1 CTGTAG CTGTAG CTGTAG CTGTAG CTGTAG C
98865 CGCCCGTCCA
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 68 1.00
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (6 bp):
CTGTAG
Found at i:99314 original size:2 final size:2
Alignment explanation
Indices: 99309--99337 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
99299 ACACACACAC
99309 AT 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 AT A
99338 GCCCCAGCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:101208 original size:3 final size:3
Alignment explanation
Indices: 101195--101227 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
101185 TTCTGAAGTC
101195 AAT AA- AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
101228 TAAACAAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:104767 original size:2 final size:2
Alignment explanation
Indices: 104760--104795 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
104750 TGATTGATTA
*
104760 AT AT AT AT AT AT AT AC 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
104796 TCATAACTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:105003 original size:5 final size:5
Alignment explanation
Indices: 104993--105021 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
104983 GCTGGTTTGG
104993 CTTCT CTTCT CTTCT CTTCT CTTCT CTTC
1 CTTCT CTTCT CTTCT CTTCT CTTCT CTTC
105022 AACGCAAGGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (5 bp):
CTTCT
Found at i:106962 original size:8 final size:8
Alignment explanation
Indices: 106949--106977 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
106939 ATTTATTTTG
106949 TTTTTGTT
1 TTTTTGTT
106957 TTTTTGTT
1 TTTTTGTT
106965 TTTTTGTT
1 TTTTTGTT
106973 TTTTT
1 TTTTT
106978 ATCTCGAGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (8 bp):
TTTTTGTT
Found at i:107135 original size:12 final size:12
Alignment explanation
Indices: 107118--107143 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
107108 TTCTCAGAGG
107118 TTTTTGTTTTTT
1 TTTTTGTTTTTT
107130 TTTTTGTTTTTT
1 TTTTTGTTTTTT
107142 TT
1 TT
107144 GTTTTTTATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.00, C:0.00, G:0.08, T:0.92
Consensus pattern (12 bp):
TTTTTGTTTTTT
Found at i:107139 original size:9 final size:9
Alignment explanation
Indices: 107117--107150 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
107107 GTTCTCAGAG
107117 GTTTTTGTTT
1 GTTTTT-TTT
107127 -TTTTTTTT
1 GTTTTTTTT
107135 GTTTTTTTT
1 GTTTTTTTT
107144 GTTTTTT
1 GTTTTTT
107151 ATCTTGAAGG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 3 0.13
9 20 0.87
ACGTcount: A:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (9 bp):
GTTTTTTTT
Found at i:108316 original size:2 final size:2
Alignment explanation
Indices: 108311--108344 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
108301 CGGTTGAGAG
108311 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
108345 GCAAGTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:110593 original size:22 final size:22
Alignment explanation
Indices: 110559--110600 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
110549 ATTATCATGT
*
110559 ATTTTATTTTTATTTTTAAATA
1 ATTTTATTTTTATATTTAAATA
110581 ATTTT-TTTATTATATTTAAA
1 ATTTTATTT-TTATATTTAAA
110601 GATACGTATC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (22 bp):
ATTTTATTTTTATATTTAAATA
Found at i:113250 original size:3 final size:3
Alignment explanation
Indices: 113242--113285 Score: 79
Period size: 3 Copynumber: 14.7 Consensus size: 3
113232 ACTTGAGTTA
*
113242 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AAT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
113286 ATAAAATATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:113477 original size:39 final size:39
Alignment explanation
Indices: 113394--113478 Score: 95
Period size: 39 Copynumber: 2.2 Consensus size: 39
113384 TATAATATAT
* *
113394 AATA-TAATATAATCTTATTATTTTAATAATAATTAATTA
1 AATATTAAAATAATCTTATTATTTTAATAATAATT-AGTA
*
113433 AATATTAAAATAAT-TTATTATTTTAATGATAAATT-GTA
1 AATATTAAAATAATCTTATTATTTTAATAAT-AATTAGTA
113471 ACATATTA
1 A-ATATTA
113479 GTAAAATATA
Statistics
Matches: 40, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
38 3 0.08
39 25 0.62
40 12 0.30
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.47
Consensus pattern (39 bp):
AATATTAAAATAATCTTATTATTTTAATAATAATTAGTA
Found at i:113644 original size:19 final size:19
Alignment explanation
Indices: 113622--113664 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
113612 ATAAACTAGT
*
113622 ATTATTATAAGTA-TTTAAC
1 ATTAATATAA-TATTTTAAC
113641 ATTAATATAATATTTTAAC
1 ATTAATATAATATTTTAAC
113660 ATTAA
1 ATTAA
113665 ATATTATCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 2 0.09
19 20 0.91
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (19 bp):
ATTAATATAATATTTTAAC
Found at i:113677 original size:19 final size:19
Alignment explanation
Indices: 113622--113680 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
113612 ATAAACTAGT
*
113622 ATTATTATAAGTAT-TTAAC
1 ATTAATATAA-TATATTAAC
*
113641 ATTAATATAATATTTTAAC
1 ATTAATATAATATATTAAC
*
113660 ATTAA-ATATTATCATTAAC
1 ATTAATATAATAT-ATTAAC
113679 AT
1 AT
113681 ATTAATATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.26
19 26 0.74
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (19 bp):
ATTAATATAATATATTAAC
Found at i:113850 original size:15 final size:15
Alignment explanation
Indices: 113786--113884 Score: 57
Period size: 15 Copynumber: 6.5 Consensus size: 15
113776 AAAATTATAA
*
113786 AATAACATTTT-AAT
1 AATAATATTTTAAAT
*
113800 AATAATTATATTAATAT
1 AATAA-TATTTTAA-AT
*
113817 AAATAACATTTTAATAAT
1 -AATAATATTTT-A-AAT
113835 AATAATATTTTAAAT
1 AATAATATTTTAAAT
113850 -AT-ATA--TTAATAT
1 AATAATATTTTAA-AT
113862 AATTAATATTTT-AAT
1 AA-TAATATTTTAAAT
113877 AATTAATA
1 AA-TAATA
113885 AGTGTCAGAA
Statistics
Matches: 68, Mismatches: 5, Indels: 23
0.71 0.05 0.24
Matches are distributed among these distances:
11 4 0.06
12 2 0.03
13 4 0.06
14 8 0.12
15 20 0.29
16 3 0.04
17 18 0.26
18 8 0.12
19 1 0.01
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
AATAATATTTTAAAT
Found at i:113851 original size:35 final size:33
Alignment explanation
Indices: 113771--113852 Score: 103
Period size: 32 Copynumber: 2.4 Consensus size: 33
113761 TCAACATTAC
*
113771 TATTTAAAATTATAAAATAACATTTTAATAATAAT
1 TATTTTAAA-TAT-AAATAACATTTTAATAATAAT
*
113806 TATATT-AATATAAATAACATTTTAATAATAAT
1 TATTTTAAATATAAATAACATTTTAATAATAAT
113838 AATATTTTAAATATA
1 --TATTTTAAATATA
113853 TATTAATATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
32 21 0.51
33 3 0.07
34 7 0.17
35 10 0.24
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (33 bp):
TATTTTAAATATAAATAACATTTTAATAATAAT
Found at i:113875 original size:17 final size:16
Alignment explanation
Indices: 113786--113877 Score: 72
Period size: 17 Copynumber: 5.9 Consensus size: 16
113776 AAAATTATAA
*
113786 AATAACATTTT-A-AT
1 AATAATATTTTAATAT
*
113800 AATAATTATATTAATAT
1 AATAA-TATTTTAATAT
*
113817 AAATAACATTTTAATAAT
1 -AATAATATTTTAAT-AT
113835 AATAATATTTTAA-AT
1 AATAATATTTTAATAT
113850 -AT-ATA--TTAATAT
1 AATAATATTTTAATAT
113862 AATTAATATTTTAATA
1 AA-TAATATTTTAATA
113878 ATTAATAAGT
Statistics
Matches: 62, Mismatches: 5, Indels: 19
0.72 0.06 0.22
Matches are distributed among these distances:
11 4 0.06
12 2 0.03
13 4 0.06
14 8 0.13
15 9 0.15
16 1 0.02
17 27 0.44
18 7 0.11
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
AATAATATTTTAATAT
Found at i:113996 original size:12 final size:12
Alignment explanation
Indices: 113979--114003 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
113969 TCCACACCAT
113979 AACTATTAAAGC
1 AACTATTAAAGC
113991 AACTATTAAAGC
1 AACTATTAAAGC
114003 A
1 A
114004 TGTCAGTGGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.52, C:0.16, G:0.08, T:0.24
Consensus pattern (12 bp):
AACTATTAAAGC
Found at i:114566 original size:2 final size:2
Alignment explanation
Indices: 114559--114585 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
114549 TGCTGCCCAT
114559 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
114586 ATATATATAT
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:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:116321 original size:2 final size:2
Alignment explanation
Indices: 116316--116356 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
116306 ACACACACAC
116316 AT AT AT AT AT AT AT 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 AT AT AT AT AT AT AT A
116357 AGAGGGAGAA
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:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:117192 original size:4 final size:4
Alignment explanation
Indices: 117183--117207 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
117173 CTTCACCCAC
117183 AATT AATT AATT AATT AATT AATT A
1 AATT AATT AATT AATT AATT AATT A
117208 CCAAACAGTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (4 bp):
AATT
Found at i:117674 original size:8 final size:8
Alignment explanation
Indices: 117663--117692 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
117653 TTTTTTTATA
117663 AATAAATT
1 AATAAATT
117671 AATAAATT
1 AATAAATT
117679 GAATAAATT
1 -AATAAATT
117688 AATAA
1 AATAA
117693 TACTAAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (8 bp):
AATAAATT
Found at i:119552 original size:4 final size:4
Alignment explanation
Indices: 119543--119593 Score: 66
Period size: 4 Copynumber: 12.0 Consensus size: 4
119533 ATACCCATCT
*
119543 ATTA ATTA ATTA ATTA ATTA ATTA ATTA TATTCA GACTA ATTA ATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA ATTA -ATT-A -ATTA ATTA ATTA ATTA
119594 CTCTTCTTCC
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
4 35 0.83
5 4 0.10
6 3 0.07
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:120204 original size:16 final size:16
Alignment explanation
Indices: 120183--120215 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
120173 AAGAGACCAA
*
120183 AATTAGTTTAAGAATT
1 AATTAGTTTAAAAATT
120199 AATTAGTTTAAAAATT
1 AATTAGTTTAAAAATT
120215 A
1 A
120216 GTTTAAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.42
Consensus pattern (16 bp):
AATTAGTTTAAAAATT
Found at i:120214 original size:12 final size:12
Alignment explanation
Indices: 120199--120225 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
120189 TTTAAGAATT
120199 AATTAGTTTAAA
1 AATTAGTTTAAA
120211 AATTAGTTTAAA
1 AATTAGTTTAAA
120223 AAT
1 AAT
120226 ACTTAGGTAG
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:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (12 bp):
AATTAGTTTAAA
Found at i:121030 original size:33 final size:33
Alignment explanation
Indices: 120920--121138 Score: 242
Period size: 34 Copynumber: 6.5 Consensus size: 33
120910 TGGTAAAAAC
* * * *
120920 CACCATTTAATTAACAATGGCAACCTATCAAAT
1 CACCATTTAATCAACAATGGTAAACTACCAAAT
* * * *
120953 CTACCATTTAGTCAACAATGGTAAGCCACAAAAT
1 C-ACCATTTAATCAACAATGGTAAACTACCAAAT
* *
120987 CACCCATTTAATCAATAATGGT-AGCTACCAAAT
1 CA-CCATTTAATCAACAATGGTAAACTACCAAAT
** * *
121020 TTCTCATTTAATCAACAATGGTAAGCTATCAAAT
1 CAC-CATTTAATCAACAATGGTAAACTACCAAAT
* * *
121054 CTCCATTTAGTCAACAATGGTAAACCACCAAAT
1 CACCATTTAATCAACAATGGTAAACTACCAAAT
121087 CACCTATTTAATCAACAATGGTAAACTACCAAAT
1 CACC-ATTTAATCAACAATGGTAAACTACCAAAT
121121 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
121139 TCTCCCACTT
Statistics
Matches: 158, Mismatches: 23, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
32 1 0.01
33 71 0.45
34 86 0.54
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (33 bp):
CACCATTTAATCAACAATGGTAAACTACCAAAT
Found at i:121035 original size:67 final size:65
Alignment explanation
Indices: 120920--121138 Score: 235
Period size: 67 Copynumber: 3.3 Consensus size: 65
120910 TGGTAAAAAC
* * * * *
120920 CACCATTTAATTAACAATGG-CAACCTATCAAATCTACCATTTAGTCAACAATGGTAAGCCACAA
1 CACCATTTAATCAACAATGGTAAACC-ACCAAATC-ACCATTTAATCAACAATGGTAAGCTAC-A
120984 AAT
63 AAT
* * * **
120987 CACCCATTTAATCAATAATGGT-AGCTACCAAATTTCTCATTTAATCAACAATGGTAAGCTATCA
1 CA-CCATTTAATCAACAATGGTAAACCACCAAATCAC-CATTTAATCAACAATGGTAAGCTA-CA
121051 AAT
63 AAT
* * *
121054 CTCCATTTAGTCAACAATGGTAAACCACCAAATCACCTATTTAATCAACAATGGTAAACTACCAA
1 CACCATTTAATCAACAATGGTAAACCACCAAATCACC-ATTTAATCAACAATGGTAAGCTA-CAA
121119 AT
64 AT
121121 CACCATTTAATCAACAAT
1 CACCATTTAATCAACAAT
121139 TCTCCCACTT
Statistics
Matches: 126, Mismatches: 20, Indels: 12
0.80 0.13 0.08
Matches are distributed among these distances:
66 19 0.15
67 88 0.70
68 19 0.15
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (65 bp):
CACCATTTAATCAACAATGGTAAACCACCAAATCACCATTTAATCAACAATGGTAAGCTACAAAT
Found at i:125563 original size:34 final size:34
Alignment explanation
Indices: 125520--125740 Score: 197
Period size: 34 Copynumber: 6.5 Consensus size: 34
125510 TTGGTAAAAA
* *
125520 CTACCATTTAATCAACAATGACAACCTACTAAAT
1 CTACCATTTAATCAACAATGATAACCTACCAAAT
*
125554 CTACCATTTAGTCAACAAT-AGTAAGCC-ACCAAAT
1 CTACCATTTAATCAACAATGA-TAA-CCTACCAAAT
* * *
125588 C-ACCCATTTAATCAATAATGGTAAGCTACCAAAT
1 CTA-CCATTTAATCAACAATGATAACCTACCAAAT
* * *
125622 -TTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CTAC-CATTTAATCAACAATGATAACCTACCAAAT
* * *
125656 CTCCCATTTAGTCAACAATGGCA-AACC-ATCAAAT
1 CTACCATTTAATCAACAAT-G-ATAACCTACCAAAT
**
125690 C-ACCCATTTAATCAACAATGATAAATTACCAAAT
1 CTA-CCATTTAATCAACAATGATAACCTACCAAAT
125724 C-ACCATTTAATCAACAA
1 CTACCATTTAATCAACAA
125741 ATAATATCTC
Statistics
Matches: 155, Mismatches: 19, Indels: 27
0.77 0.09 0.13
Matches are distributed among these distances:
32 1 0.01
33 22 0.14
34 124 0.80
35 8 0.05
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.26
Consensus pattern (34 bp):
CTACCATTTAATCAACAATGATAACCTACCAAAT
Found at i:125637 original size:68 final size:66
Alignment explanation
Indices: 125523--125740 Score: 231
Period size: 68 Copynumber: 3.2 Consensus size: 66
125513 GTAAAAACTA
* * * * *
125523 CCATTTAATCAACAATGACAACCTACTAAATCTACCATTTAGTCAACAATAGTAAGCCACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAAT-TACCATTTAATCAACAAT-GTAAGCTACCAAAT
125588 CAC
64 CAC
* * * *
125591 CCATTTAATCAATAATGGTAAGCTACCAAATTTCTCATTTAATCAACAATGGTAAGCTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTAC-CATTTAATCAACAAT-GTAAGCTACCAAAT
*
125656 CTC
64 CAC
* * * * **
125659 CCATTTAGTCAACAATGGCAAACCATCAAATCACCCATTTAATCAACAATGATAAATTACCAAAT
1 CCATTTAATCAACAATGGCAAACTACCAAATTA-CCATTTAATCAACAATG-TAAGCTACCAAAT
125724 CA-
64 CAC
125726 CCATTTAATCAACAA
1 CCATTTAATCAACAA
125741 ATAATATCTC
Statistics
Matches: 125, Mismatches: 22, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
67 17 0.14
68 107 0.86
69 1 0.01
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.26
Consensus pattern (66 bp):
CCATTTAATCAACAATGGCAAACTACCAAATTACCATTTAATCAACAATGTAAGCTACCAAATCA
C
Found at i:125665 original size:102 final size:101
Alignment explanation
Indices: 125522--125740 Score: 294
Period size: 102 Copynumber: 2.2 Consensus size: 101
125512 GGTAAAAACT
* * *
125522 ACCATTTAATCAACAATGACAACCTACTAAATCTACCATTTAGTCAACAATAGTAAGCCACCAAA
1 ACCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATAGCAAACCACCAAA
* * * *
125587 TCACCCATTTAATCAATAATGGTAAGCTACCAAATT
66 TCACCCATTTAATCAACAATGATAAACTACCAAATC
* ** * * * *
125623 TCTCATTTAATCAACAATGGTAAGCTACCAAATCTCCCATTTAGTCAACAATGGCAAACCATCAA
1 AC-CATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATAGCAAACCACCAA
*
125688 ATCACCCATTTAATCAACAATGATAAATTACCAAATC
65 ATCACCCATTTAATCAACAATGATAAACTACCAAATC
125725 ACCATTTAATCAACAA
1 ACCATTTAATCAACAA
125741 ATAATATCTC
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
101 15 0.15
102 86 0.85
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.26
Consensus pattern (101 bp):
ACCATTTAATCAACAATGACAACCTACCAAATCTACCATTTAGTCAACAATAGCAAACCACCAAA
TCACCCATTTAATCAACAATGATAAACTACCAAATC
Found at i:128953 original size:4 final size:4
Alignment explanation
Indices: 128944--128978 Score: 61
Period size: 4 Copynumber: 8.8 Consensus size: 4
128934 ATTTTGGCAA
*
128944 TATG TATG TATG TATG TATG TATT TATG TATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TAT
128979 ACATACTCGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.26, C:0.00, G:0.20, T:0.54
Consensus pattern (4 bp):
TATG
Found at i:141786 original size:10 final size:10
Alignment explanation
Indices: 141771--141804 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
141761 GTTTTTTTCT
141771 ATATATATTA
1 ATATATATTA
141781 ATATATATATA
1 ATATATAT-TA
141792 TATATATATTA
1 -ATATATATTA
141803 AT
1 AT
141805 TTTTTTAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.45
11 4 0.18
12 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (10 bp):
ATATATATTA
Found at i:145428 original size:18 final size:20
Alignment explanation
Indices: 145388--145430 Score: 58
Period size: 18 Copynumber: 2.4 Consensus size: 20
145378 TAACACCAGA
145388 TATTA-TGTTGCCTATCATG
1 TATTATTGTTGCCTATCATG
145407 -ATTATTGTT-CCT-TCATG
1 TATTATTGTTGCCTATCATG
145424 TATTATT
1 TATTATT
145431 TGCTTGGGGC
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 5 0.23
18 13 0.59
19 4 0.18
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.53
Consensus pattern (20 bp):
TATTATTGTTGCCTATCATG
Found at i:146422 original size:45 final size:45
Alignment explanation
Indices: 146371--146460 Score: 171
Period size: 45 Copynumber: 2.0 Consensus size: 45
146361 AGAAGCTTTC
146371 ATATTATAGGATTGTTGTTGCCAATAAGACGGGCTTTACTTGTTT
1 ATATTATAGGATTGTTGTTGCCAATAAGACGGGCTTTACTTGTTT
*
146416 ATATTATAGGATTGTTGTTGCCAATAAGACTGGCTTTACTTGTTT
1 ATATTATAGGATTGTTGTTGCCAATAAGACGGGCTTTACTTGTTT
146461 GTCTATTATA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.24, C:0.11, G:0.21, T:0.43
Consensus pattern (45 bp):
ATATTATAGGATTGTTGTTGCCAATAAGACGGGCTTTACTTGTTT
Found at i:150186 original size:2 final size:2
Alignment explanation
Indices: 150179--150203 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
150169 TTTATGCGAC
150179 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 A
150204 CATAAAGAGC
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:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:154823 original size:2 final size:2
Alignment explanation
Indices: 154816--154843 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
154806 GACTGCGAGG
154816 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
154844 AAGCACGTGT
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:155137 original size:2 final size:2
Alignment explanation
Indices: 155132--155163 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
155122 ATATTATAAC
155132 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
155164 CTGCCGCTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:157296 original size:6 final size:6
Alignment explanation
Indices: 157285--157311 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
157275 ACTTAGGATC
157285 TAGTCT TAGTCT TAGTCT TAGTCT TAG
1 TAGTCT TAGTCT TAGTCT TAGTCT TAG
157312 ACGTCCTACT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.15, G:0.19, T:0.48
Consensus pattern (6 bp):
TAGTCT
Found at i:157569 original size:2 final size:2
Alignment explanation
Indices: 157562--157592 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
157552 TTATATTTAA
157562 AT AT 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 AT AT A
157593 CACACACACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:159322 original size:17 final size:16
Alignment explanation
Indices: 159257--159323 Score: 50
Period size: 17 Copynumber: 4.1 Consensus size: 16
159247 TTATATGATA
159257 TTAAAATAATTAAAAATT
1 TTAAAAT-ATT-AAAATT
159275 TT-AAATATTTAAAA-T
1 TTAAAATA-TTAAAATT
* *
159290 TTAAATTA-TACGAATT
1 TTAAAATATTA-AAATT
159306 ATTAAAATATTAAAATT
1 -TTAAAATATTAAAATT
159323 T
1 T
159324 ATATAATAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
14 2 0.05
15 5 0.13
16 11 0.28
17 17 0.44
18 4 0.10
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (16 bp):
TTAAAATATTAAAATT
Found at i:159915 original size:4 final size:4
Alignment explanation
Indices: 159900--159995 Score: 66
Period size: 4 Copynumber: 24.0 Consensus size: 4
159890 TTATAAATAA
* * * * * *
159900 ATAT ATAC ATAT ATAT ATAT GTAT GTAT GTAT GTAT AAAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * * * * *
159948 ATAT ATAT GTAT GTAT GTAT GTAT AAAC ATAT GTAT GTAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
159996 GCTTCCTACG
Statistics
Matches: 78, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
4 78 1.00
ACGTcount: A:0.42, C:0.02, G:0.10, T:0.46
Consensus pattern (4 bp):
ATAT
Found at i:159932 original size:12 final size:12
Alignment explanation
Indices: 159909--159991 Score: 85
Period size: 12 Copynumber: 6.9 Consensus size: 12
159899 AATATATACA
159909 TATATATATATG
1 TATATATATATG
* *
159921 TATGTATGTATG
1 TATATATATATG
* *
159933 TATAAATATATA
1 TATATATATATG
159945 TATATATATATG
1 TATATATATATG
* *
159957 TATGTATGTATG
1 TATATATATATG
* *
159969 TATAAACATATG
1 TATATATATATG
*
159981 TATGTATATAT
1 TATATATATAT
159992 ATATGCTTCC
Statistics
Matches: 54, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 54 1.00
ACGTcount: A:0.40, C:0.01, G:0.12, T:0.47
Consensus pattern (12 bp):
TATATATATATG
Found at i:159949 original size:36 final size:36
Alignment explanation
Indices: 159896--159996 Score: 148
Period size: 36 Copynumber: 2.8 Consensus size: 36
159886 AGCTTTATAA
159896 ATAAATATATACATATATATATATGTATGTATGTATGT
1 ATAAATATAT--ATATATATATATGTATGTATGTATGT
159934 ATAAATATATATATATATATATGTATGTATGTATGT
1 ATAAATATATATATATATATATGTATGTATGTATGT
* * * *
159970 ATAAACATATGTATGTATATATATATG
1 ATAAATATATATATATATATATGTATG
159997 CTTCCTACGT
Statistics
Matches: 59, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
36 49 0.83
38 10 0.17
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.45
Consensus pattern (36 bp):
ATAAATATATATATATATATATGTATGTATGTATGT
Found at i:161433 original size:3 final size:3
Alignment explanation
Indices: 161425--161456 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
161415 CTTATTTTTT
161425 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT
161457 CATATGTCTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:162632 original size:44 final size:45
Alignment explanation
Indices: 162570--162656 Score: 108
Period size: 44 Copynumber: 2.0 Consensus size: 45
162560 ACATGACATG
*
162570 AATATAATATGAAAAAAATA-AT-ATTAAAT-ATAATAATATATTT
1 AATATAATATGAAAAAAATAGATGAATAAATAATAA-AATATATTT
**
162613 AATATAAATATGGTAAAAATAGATGAATAAATAATAAAATATAT
1 AATAT-AATATGAAAAAAATAGATGAATAAATAATAAAATATAT
162657 AAAATGAATT
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
43 5 0.14
44 13 0.35
45 2 0.05
46 13 0.35
47 4 0.11
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (45 bp):
AATATAATATGAAAAAAATAGATGAATAAATAATAAAATATATTT
Found at i:165660 original size:59 final size:59
Alignment explanation
Indices: 165588--165705 Score: 236
Period size: 59 Copynumber: 2.0 Consensus size: 59
165578 ATTCTCTATC
165588 ACTACTAATACGTTTCTATCACATTTCTTGCCCAACATAATATTAACAAAAAGGTTAAA
1 ACTACTAATACGTTTCTATCACATTTCTTGCCCAACATAATATTAACAAAAAGGTTAAA
165647 ACTACTAATACGTTTCTATCACATTTCTTGCCCAACATAATATTAACAAAAAGGTTAAA
1 ACTACTAATACGTTTCTATCACATTTCTTGCCCAACATAATATTAACAAAAAGGTTAAA
165706 CGTGCATCAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.41, C:0.20, G:0.07, T:0.32
Consensus pattern (59 bp):
ACTACTAATACGTTTCTATCACATTTCTTGCCCAACATAATATTAACAAAAAGGTTAAA
Found at i:168253 original size:21 final size:21
Alignment explanation
Indices: 168214--168253 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
168204 TTAATAAAAT
* *
168214 AATATATTAAAAATTTATTTG
1 AATATAATAAAAATATATTTG
*
168235 AATATAATAAAAGTATATT
1 AATATAATAAAAATATATT
168254 GACCGATTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (21 bp):
AATATAATAAAAATATATTTG
Found at i:176236 original size:2 final size:2
Alignment explanation
Indices: 176192--176217 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
176182 TTTTTTAATT
176192 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
176218 GGTCAAATTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:177355 original size:2 final size:2
Alignment explanation
Indices: 177348--177377 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
177338 ATGCTAAATG
177348 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
177378 CACACTCAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:187554 original size:24 final size:24
Alignment explanation
Indices: 187521--187576 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
187511 GGATAACCCT
*
187521 GAGGGTGATACCCCCCAGGACAAG
1 GAGGGGGATACCCCCCAGGACAAG
* *
187545 GAGGGGGATACCCTCCAGGACCAG
1 GAGGGGGATACCCCCCAGGACAAG
187569 GAGGGGGA
1 GAGGGGGA
187577 GCGTATGCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.27, C:0.25, G:0.41, T:0.07
Consensus pattern (24 bp):
GAGGGGGATACCCCCCAGGACAAG
Found at i:188356 original size:2 final size:2
Alignment explanation
Indices: 188349--188384 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
188339 AATACAAGGT
188349 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
188385 TTTTTGTACG
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:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:188883 original size:2 final size:2
Alignment explanation
Indices: 188876--188924 Score: 55
Period size: 2 Copynumber: 25.0 Consensus size: 2
188866 GCAGTCTTAC
* * * *
188876 AT AT AT AT AT AT AT AT AT AG AT AG AT AT AT GT AT AT GT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
188918 AT -T AT AT
1 AT AT AT AT
188925 TACTTCATAC
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.45, C:0.00, G:0.08, T:0.47
Consensus pattern (2 bp):
AT
Found at i:191633 original size:151 final size:151
Alignment explanation
Indices: 191396--191688 Score: 496
Period size: 151 Copynumber: 1.9 Consensus size: 151
191386 TTTAAATTCA
* *
191396 GATGGACAGTTCCTAACAAGTTCAATCATGTCCTCTTCATCACGCTGTAAAGGAAAAATATGTTT
1 GATGGACAGTTCCTAACAAGTTCAATCATGTCCTCTTCATCACGCTGTAAAGGAAAAACATATTT
* * *
191461 TACTATAATGTTGGAAAATGTTATAAAGAAAAGCAGAAGCATGCAGACCAGCTGATTCAACTCCA
66 TACCATAAAGTTGGAAAATGTTATAAAGAAAAGCAGAAGCATACAGACCAGCTGATTCAACTCCA
*
191526 AGCAGTACACAGTTAGAAAAT
131 AGCAGCACACAGTTAGAAAAT
191547 GATGGACAGTTCCTAACAAGTTCAATCATGTCCTCTTCATCACGCTGTAAAGGAAAAACATATTT
1 GATGGACAGTTCCTAACAAGTTCAATCATGTCCTCTTCATCACGCTGTAAAGGAAAAACATATTT
* * * *
191612 TGCCATAAAGTTGGAAAATGTTATAAGGGAAAGCAGAAGCATACAGACCAGCTGATTCAACTGCA
66 TACCATAAAGTTGGAAAATGTTATAAAGAAAAGCAGAAGCATACAGACCAGCTGATTCAACTCCA
191677 AGCAGCACACAG
131 AGCAGCACACAG
191689 AAAATCTCAA
Statistics
Matches: 132, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
151 132 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (151 bp):
GATGGACAGTTCCTAACAAGTTCAATCATGTCCTCTTCATCACGCTGTAAAGGAAAAACATATTT
TACCATAAAGTTGGAAAATGTTATAAAGAAAAGCAGAAGCATACAGACCAGCTGATTCAACTCCA
AGCAGCACACAGTTAGAAAAT
Found at i:191993 original size:25 final size:25
Alignment explanation
Indices: 191965--192016 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
191955 TAAAACTCTA
*
191965 AAACAAAAAAGAATCTTAAATTGAG
1 AAACAAAAAAGAATCTAAAATTGAG
**
191990 AAACACGAAAGAATCTAAAATTGAG
1 AAACAAAAAAGAATCTAAAATTGAG
192015 AA
1 AA
192017 GCATAAACCA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.60, C:0.10, G:0.13, T:0.17
Consensus pattern (25 bp):
AAACAAAAAAGAATCTAAAATTGAG
Found at i:193097 original size:11 final size:11
Alignment explanation
Indices: 193081--193114 Score: 59
Period size: 11 Copynumber: 3.0 Consensus size: 11
193071 TCATGGATCA
193081 GATCGGAGGAT
1 GATCGGAGGAT
193092 GATCGGAGGAT
1 GATCGGAGGAT
193103 GATCGGACGGAT
1 GATCGGA-GGAT
193115 AATTCACCGG
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.26, C:0.12, G:0.44, T:0.18
Consensus pattern (11 bp):
GATCGGAGGAT
Found at i:194682 original size:21 final size:21
Alignment explanation
Indices: 194658--194701 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
194648 TAAAATGATG
*
194658 TATTGATTAGATGAAATAATA
1 TATTGATTAGATGAAAAAATA
** *
194679 TATTTTTTAGATTAAAAAATA
1 TATTGATTAGATGAAAAAATA
194700 TA
1 TA
194702 ATTTTTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.48, C:0.00, G:0.09, T:0.43
Consensus pattern (21 bp):
TATTGATTAGATGAAAAAATA
Found at i:194706 original size:21 final size:21
Alignment explanation
Indices: 194664--194708 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
194654 GATGTATTGA
* *
194664 TTAGATGAAATAATATATTTT
1 TTAGATGAAAAAATATAATTT
*
194685 TTAGATTAAAAAATATAATTT
1 TTAGATGAAAAAATATAATTT
194706 TTA
1 TTA
194709 TAATAAAAGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.47
Consensus pattern (21 bp):
TTAGATGAAAAAATATAATTT
Found at i:194715 original size:21 final size:21
Alignment explanation
Indices: 194675--194716 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
194665 TAGATGAAAT
* *
194675 AATATATTTTTTAGATTAAAA
1 AATATAATTTTTAGAATAAAA
*
194696 AATATAATTTTTATAATAAAA
1 AATATAATTTTTAGAATAAAA
194717 GGTTATCATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (21 bp):
AATATAATTTTTAGAATAAAA
Found at i:196033 original size:3 final size:3
Alignment explanation
Indices: 196027--196067 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
196017 ACATTTATTT
*
196027 TAA TAA TAA TAA TAA TAA TAA TAC TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
196068 TTCTAGAATT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:196722 original size:20 final size:20
Alignment explanation
Indices: 196699--196740 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
196689 ACAAATAATT
*
196699 AATTTATAAAATTTTATATA
1 AATTTATAAAATTTTAAATA
*
196719 AATTTATAATATTTTAAATA
1 AATTTATAAAATTTTAAATA
196739 AA
1 AA
196741 AAACTCAAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (20 bp):
AATTTATAAAATTTTAAATA
Found at i:196944 original size:25 final size:23
Alignment explanation
Indices: 196909--196959 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 23
196899 TGACTCGAAT
196909 ATAATATAAATAA-ATTAATTAAA
1 ATAATATAAATAACA-TAATTAAA
*
196932 ATAATATAAAAATAACATAATTATA
1 ATAATAT--AAATAACATAATTAAA
196957 ATA
1 ATA
196960 TGAATATCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
23 7 0.29
25 16 0.67
26 1 0.04
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
ATAATATAAATAACATAATTAAA
Found at i:198709 original size:18 final size:18
Alignment explanation
Indices: 198665--198724 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
198655 TAAAAAAATT
198665 TAAAATATTTTTTATATAA
1 TAAAATATTTTTTA-ATAA
***
198684 TTTTATATTTTTTAATAA
1 TAAAATATTTTTTAATAA
*
198702 TAAAATA-TATTTAATAAA
1 TAAAATATTTTTTAAT-AA
198720 TAAAA
1 TAAAA
198725 ATACAAAAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
17 7 0.21
18 15 0.45
19 11 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAAAATATTTTTTAATAA
Found at i:209933 original size:2 final size:2
Alignment explanation
Indices: 209926--209951 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
209916 TTGTCTCTGG
209926 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
209952 GCACATCTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:210352 original size:2 final size:2
Alignment explanation
Indices: 210345--210389 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
210335 GTTGTATGTA
* *
210345 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AC AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
210387 AT A
1 AT A
210390 CTTTATATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:211127 original size:2 final size:2
Alignment explanation
Indices: 211120--211153 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
211110 TTGCTTCTTT
211120 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
211154 CACATACATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:211374 original size:14 final size:13
Alignment explanation
Indices: 211338--211389 Score: 63
Period size: 14 Copynumber: 4.0 Consensus size: 13
211328 CTTTCTTTGT
211338 AAAGG-CAAAGGC
1 AAAGGCCAAAGGC
211350 AAAGG-CAAAGGC
1 AAAGGCCAAAGGC
211362 AAAGGGCCAAAGGC
1 AAA-GGCCAAAGGC
*
211376 AAAAGGCAAAAGGC
1 -AAAGGCCAAAGGC
211390 GCCAATCGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
12 15 0.42
13 2 0.06
14 16 0.44
15 3 0.08
ACGTcount: A:0.50, C:0.17, G:0.33, T:0.00
Consensus pattern (13 bp):
AAAGGCCAAAGGC
Found at i:211389 original size:7 final size:6
Alignment explanation
Indices: 211338--211385 Score: 69
Period size: 6 Copynumber: 7.5 Consensus size: 6
211328 CTTTCTTTGT
211338 AAAGGC AAAGGC AAAGGC AAAGGC AAAGGGCC AAAGGC AAAAGGC AAA
1 AAAGGC AAAGGC AAAGGC AAAGGC AAA-GG-C AAAGGC -AAAGGC AAA
211386 AGGCGCCAAT
Statistics
Matches: 39, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
6 25 0.64
7 10 0.26
8 4 0.10
ACGTcount: A:0.52, C:0.17, G:0.31, T:0.00
Consensus pattern (6 bp):
AAAGGC
Found at i:211620 original size:2 final size:2
Alignment explanation
Indices: 211603--211637 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
211593 TCTTTGTCTA
* *
211603 AT AT AC AT AC 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 AT AT AT AT A
211638 AAATATAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (2 bp):
AT
Found at i:212403 original size:2 final size:2
Alignment explanation
Indices: 212396--212436 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
212386 AGCTATCAAT
*
212396 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
212437 GTTTGGTCAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:215310 original size:3 final size:3
Alignment explanation
Indices: 215297--215326 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
215287 AATAAATACA
*
215297 AAT ATT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
215327 CATTGAGCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:217004 original size:30 final size:30
Alignment explanation
Indices: 216953--217011 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
216943 ATGGATTATA
* * *
216953 AACTTTTAATTTTATCCAATTATATTATTG
1 AACTTTTAATTTTAACAAATTAAATTATTG
216983 AACTTTT-ATTATTAACAAATTAAATTATT
1 AACTTTTAATT-TTAACAAATTAAATTATT
217012 TATGTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.12
30 22 0.88
ACGTcount: A:0.39, C:0.08, G:0.02, T:0.51
Consensus pattern (30 bp):
AACTTTTAATTTTAACAAATTAAATTATTG
Found at i:218837 original size:2 final size:2
Alignment explanation
Indices: 218830--218866 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
218820 AAAAGAAGCA
218830 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
218867 CAAAGGAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Done.